6FYX | pdb_00006fyx

Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)

PDB DOI: https://doi.org/10.2210/pdb6FYX/pdb
EM Map EMD-4327: EMDB EMDataResource
NAKB: 6FYX

Classification: RIBOSOME
Organism(s): Saccharomyces cerevisiae, Kluyveromyces lactis NRRL Y-1140, Saccharomyces cerevisiae S288C
Expression System: Escherichia coli BL21(DE3), Saccharomyces cerevisiae
Mutation(s): No

Deposited: 2018-03-12 Released: 2018-12-05
Deposition Author(s): Llacer, J.L., Hussain, T., Gordiyenko, Y., Ramakrishnan, V.
Funding Organization(s): Medical Research Council (United Kingdom), Wellcome Trust, FEBS

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.4 of the entry. See complete history.

Literature

Translational initiation factor eIF5 replaces eIF1 on the 40S ribosomal subunit to promote start-codon recognition.

Llacer, J.L., Hussain, T., Saini, A.K., Nanda, J.D., Kaur, S., Gordiyenko, Y., Kumar, R., Hinnebusch, A.G., Lorsch, J.R., Ramakrishnan, V.

(2018) Elife 7

PubMed: 30475211 Search on PubMed Search on PubMed Central
DOI: https://doi.org/10.7554/eLife.39273
Primary Citation Related Structures:
6FYX, 6FYY

PubMed Abstract:
In eukaryotic translation initiation, AUG recognition of the mRNA requires accommodation of Met-tRNA _i in a 'P _IN' state, which is antagonized by the factor eIF1. eIF5 is a GTPase activating protein (GAP) of eIF2 that additionally promotes stringent AUG selection, but the molecular basis of its dual function was unknown. We present a cryo-electron microscopy (cryo-EM) reconstruction of a yeast 48S pre-initiation complex (PIC), at an overall resolution of 3.0 Å, featuring the N-terminal domain (NTD) of eIF5 bound to the 40S subunit at the location vacated by eIF1. eIF5 interacts with and allows a more accommodated orientation of Met-tRNA _i. Substitutions of eIF5 residues involved in the eIF5-NTD/tRNA _i interaction influenced initiation at near-cognate UUG codons in vivo, and the closed/open PIC conformation in vitro, consistent with direct stabilization of the codon:anticodon duplex by the wild-type eIF5-NTD. The present structure reveals the basis for a key role of eIF5 in start-codon selection.

Organizational Affiliation

MRC Laboratory of Molecular Biology, Cambridge, United Kingdom.

Macromolecule Content

Total Structure Weight: 1,762.33 kDa
Atom Count: 104,404
Modeled Residue Count: 10,046
Deposited Residue Count: 12,069
Unique protein chains: 44
Unique nucleic acid chains: 3

Macromolecules

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S0	D [auth A]	254	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CN12 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CN12 Go to UniProtKB: Q6CN12
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6CN12
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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S1	E [auth B]	255	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CWD0 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CWD0 Go to UniProtKB: Q6CWD0
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UniProt Group	Q6CWD0
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Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0F09812p	F [auth C]	259	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CKL3 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CKL3 Go to UniProtKB: Q6CKL3
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UniProt Group	Q6CKL3
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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0D08305p	G [auth D]	237	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CRK7 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CRK7 Go to UniProtKB: Q6CRK7
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UniProt Group	Q6CRK7
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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S4	H [auth E]	261	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CWJ2 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CWJ2 Go to UniProtKB: Q6CWJ2
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6CWJ2
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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0D10659p	I [auth F]	227	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CRA3 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CRA3 Go to UniProtKB: Q6CRA3
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UniProt Group	Q6CRA3
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Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S6	J [auth G]	236	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CM04 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CM04 Go to UniProtKB: Q6CM04
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UniProt Group	Q6CM04
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Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S7	K [auth H]	190	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CTD6 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CTD6 Go to UniProtKB: Q6CTD6
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UniProt Group	Q6CTD6
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Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S8	L [auth I]	201	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CMG3 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CMG3 Go to UniProtKB: Q6CMG3
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UniProt Group	Q6CMG3
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Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0E23673p	M [auth J]	188	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CM18 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CM18 Go to UniProtKB: Q6CM18
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UniProt Group	Q6CM18
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Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0B08173p	N [auth K]	106	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CVZ5 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CVZ5 Go to UniProtKB: Q6CVZ5
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UniProt Group	Q6CVZ5
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Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0A10483p	O [auth L]	156	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CX80 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CX80 Go to UniProtKB: Q6CX80
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UniProt Group	Q6CX80
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Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S12	P [auth M]	134	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CLU4 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CLU4 Go to UniProtKB: Q6CLU4
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UniProt Group	Q6CLU4
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Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0F18040p	Q [auth N]	151	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CJK0 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CJK0 Go to UniProtKB: Q6CJK0
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UniProt Group	Q6CJK0
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Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S14	R [auth O]	137	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for P27069 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore P27069 Go to UniProtKB: P27069
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UniProt Group	P27069
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Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0F07843p	S [auth P]	142	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CKV4 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CKV4 Go to UniProtKB: Q6CKV4
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Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S16	T [auth Q]	143	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q875N2 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q875N2 Go to UniProtKB: Q875N2
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UniProt Group	Q875N2
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Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0B01474p	U [auth R]	136	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CWU3 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CWU3 Go to UniProtKB: Q6CWU3
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Entity ID: 22
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0B01562p	V [auth S]	146	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CWT9 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CWT9 Go to UniProtKB: Q6CWT9
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UniProt Group	Q6CWT9
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Entity ID: 23
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0A07194p	W [auth T]	144	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CXM0 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CXM0 Go to UniProtKB: Q6CXM0
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UniProt Group	Q6CXM0
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Entity ID: 24
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0F25542p	X [auth U]	117	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CIM1 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CIM1 Go to UniProtKB: Q6CIM1
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UniProt Group	Q6CIM1
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Entity ID: 25
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S21	Y [auth V]	87	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CXT6 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CXT6 Go to UniProtKB: Q6CXT6
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Entity ID: 26
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S22	Z [auth W]	130	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CW21 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CW21 Go to UniProtKB: Q6CW21
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UniProt Group	Q6CW21
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Entity ID: 27
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0B11231p	AA [auth X]	145	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for F2Z602 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore F2Z602 Go to UniProtKB: F2Z602
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Entity ID: 28
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S24	BA [auth Y]	135	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CU44 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CU44 Go to UniProtKB: Q6CU44
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Entity ID: 29
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0B06182p	CA [auth Z]	108	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CW78 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CW78 Go to UniProtKB: Q6CW78
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Entity ID: 30
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S26	DA [auth a]	119	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CS01 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CS01 Go to UniProtKB: Q6CS01
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UniProt Group	Q6CS01
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Entity ID: 31
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S27	EA [auth b]	82	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CNL2 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CNL2 Go to UniProtKB: Q6CNL2
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Entity ID: 32
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S28	FA [auth c]	67	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for P33285 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore P33285 Go to UniProtKB: P33285
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Entity ID: 33
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S29	GA [auth d]	56	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CPG3 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CPG3 Go to UniProtKB: Q6CPG3
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Entity ID: 34
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S30	HA [auth e]	63	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CUH5 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CUH5 Go to UniProtKB: Q6CUH5
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UniProt Group	Q6CUH5
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Entity ID: 35
Molecule	Chains	Sequence Length	Organism	Details	Image
Ubiquitin-40S ribosomal protein S27a	IA [auth f]	150	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for P69061 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore P69061 Go to UniProtKB: P69061
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Entity ID: 36
Molecule	Chains	Sequence Length	Organism	Details	Image
KLLA0E12277p	JA [auth g]	326	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for Q6CNI7 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q6CNI7 Go to UniProtKB: Q6CNI7
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Entity ID: 37
Molecule	Chains	Sequence Length	Organism	Details	Image
60S ribosomal protein L41-A	KA [auth h]	25	Kluyveromyces lactis NRRL Y-1140	Mutation(s): 0
UniProt
Find proteins for P0CX86 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX86 Go to UniProtKB: P0CX86
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UniProt Group	P0CX86
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Entity ID: 38
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 1A	LA [auth i]	153	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: TIF11, YMR260C, YM8156.02C
UniProt
Find proteins for P38912 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38912 Go to UniProtKB: P38912
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UniProt Group	P38912
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Entity ID: 39
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 2 subunit alpha	MA [auth j]	304	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: SUI2, TIF211, YJR007W, J1429
UniProt
Find proteins for P20459 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P20459 Go to UniProtKB: P20459
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UniProt Group	P20459
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Entity ID: 40
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 2 subunit gamma	NA [auth k]	527	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: GCD11, TIF213, YER025W EC: 3.6.5.3
UniProt
Find proteins for P32481 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32481 Go to UniProtKB: P32481
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UniProt Group	P32481
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Entity ID: 41
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 2 subunit beta	OA [auth l]	285	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: SUI3, TIF212, YPL237W
UniProt
Find proteins for P09064 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P09064 Go to UniProtKB: P09064
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UniProt Group	P09064
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Entity ID: 42
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 5	PA [auth m]	405	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: TIF5, YPR041W, YP3085.05
UniProt
Find proteins for P38431 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38431 Go to UniProtKB: P38431
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UniProt Group	P38431
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Reference Sequence

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Entity ID: 43
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 3 subunit A	QA [auth o]	964	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: RPG1, TIF32, YBR079C, YBR0734
UniProt
Find proteins for P38249 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38249 Go to UniProtKB: P38249
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UniProt Group	P38249
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Entity ID: 44
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 3 subunit B	RA [auth p]	763	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: PRT1, CDC63, YOR361C
UniProt
Find proteins for P06103 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P06103 Go to UniProtKB: P06103
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UniProt Group	P06103
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Entity ID: 45
Molecule	Chains	Sequence Length	Organism	Details	Image
eIF3c,eIF3c	SA [auth q]	812	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P32497 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P32497 Go to UniProtKB: P32497
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UniProt Group	P32497
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Entity ID: 46
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 3 subunit G	TA [auth r]	274	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: TIF35, SCY_1313
UniProt
Find proteins for A6ZZ25 (Saccharomyces cerevisiae (strain YJM789)) Explore A6ZZ25 Go to UniProtKB: A6ZZ25
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UniProt Group	A6ZZ25
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Entity ID: 47
Molecule	Chains	Sequence Length	Organism	Details	Image
Eukaryotic translation initiation factor 3 subunit I	UA [auth s]	347	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: TIF34, YMR146C, YM9375.16C
UniProt
Find proteins for P40217 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40217 Go to UniProtKB: P40217
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UniProt Group	P40217
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Molecule	Chains	Length	Organism
Entity ID: 1
tRNAi	A [auth 1]	75	Saccharomyces cerevisiae
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Molecule	Chains	Length	Organism
Entity ID: 2
18S ribosomal RNA	B [auth 2]	1,798	Kluyveromyces lactis NRRL Y-1140
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Molecule	Chains	Length	Organism
Entity ID: 3
mRNA (31-MER)	C [auth 3]	49	Saccharomyces cerevisiae
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Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GCP Query on GCP Download:Ideal Coordinates CCD File SDF format, chain MF [auth k] MOL2 format, chain MF [auth k] mmCIF format, chain MF [auth k]	MF [auth k]	PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER C₁₁ H₁₈ N₅ O₁₃ P₃ PHBDHXOBFUBCJD-KQYNXXCUSA-N		Interactions Focus chain MF [auth k] Interactions & Density Focus chain MF [auth k]
MET Query on MET Download:Ideal Coordinates CCD File SDF format, chain KF [auth k] MOL2 format, chain KF [auth k] mmCIF format, chain KF [auth k]	KF [auth k]	METHIONINE C₅ H₁₁ N O₂ S FFEARJCKVFRZRR-BYPYZUCNSA-N		Interactions Focus chain KF [auth k] Interactions & Density Focus chain KF [auth k]
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain HF [auth a] SDF format, chain NF [auth l] SDF format, chain OF [auth m] SDF format, chain JF [auth f] SDF format, chain IF [auth b] MOL2 format, chain HF [auth a] MOL2 format, chain NF [auth l] MOL2 format, chain OF [auth m] MOL2 format, chain JF [auth f] MOL2 format, chain IF [auth b] mmCIF format, chain HF [auth a] mmCIF format, chain NF [auth l] mmCIF format, chain OF [auth m] mmCIF format, chain JF [auth f] mmCIF format, chain IF [auth b]	HF [auth a], IF [auth b], JF [auth f], NF [auth l], OF [auth m]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain HF [auth a] Focus chain IF [auth b] Focus chain JF [auth f] Focus chain NF [auth l] Focus chain OF [auth m] Interactions & Density Focus chain HF [auth a] Focus chain IF [auth b] Focus chain JF [auth f] Focus chain NF [auth l] Focus chain OF [auth m]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain AB [auth 2] SDF format, chain AC [auth 2] SDF format, chain AD [auth 2] SDF format, chain AE [auth 2] SDF format, chain AF [auth 2] SDF format, chain BB [auth 2] SDF format, chain BC [auth 2] SDF format, chain BE [auth 2] SDF format, chain CB [auth 2] SDF format, chain CC [auth 2] SDF format, chain CD [auth 2] SDF format, chain CE [auth 2] SDF format, chain CF [auth 2] SDF format, chain DB [auth 2] SDF format, chain DC [auth 2] SDF format, chain DD [auth 2] SDF format, chain DE [auth 2] SDF format, chain DF [auth 2] SDF format, chain EC [auth 2] SDF format, chain ED [auth 2] SDF format, chain EF [auth 2] SDF format, chain FB [auth 2] SDF format, chain FC [auth 2] SDF format, chain FD [auth 2] SDF format, chain FE [auth 2] SDF format, chain FF [auth 2] SDF format, chain GB [auth 2] SDF format, chain GC [auth 2] SDF format, chain GD [auth 2] SDF format, chain GF [auth 2] SDF format, chain HB [auth 2] SDF format, chain HC [auth 2] SDF format, chain HD [auth 2] SDF format, chain HE [auth 2] SDF format, chain IB [auth 2] SDF format, chain IC [auth 2] SDF format, chain ID [auth 2] SDF format, chain IE [auth 2] SDF format, chain JB [auth 2] SDF format, chain JC [auth 2] SDF format, chain JD [auth 2] SDF format, chain JE [auth 2] SDF format, chain KC [auth 2] SDF format, chain KD [auth 2] SDF format, chain KE [auth 2] SDF format, chain LB [auth 2] SDF format, chain LC [auth 2] SDF format, chain LD [auth 2] SDF format, chain LE [auth 2] SDF format, chain LF [auth k] SDF format, chain MB [auth 2] SDF format, chain MC [auth 2] SDF format, chain MD [auth 2] SDF format, chain ME [auth 2] SDF format, chain NB [auth 2] SDF format, chain NC [auth 2] SDF format, chain OB [auth 2] SDF format, chain OD [auth 2] SDF format, chain OE [auth 2] SDF format, chain PB [auth 2] SDF format, chain PC [auth 2] SDF format, chain PD [auth 2] SDF format, chain QB [auth 2] SDF format, chain QC [auth 2] SDF format, chain QD [auth 2] SDF format, chain QE [auth 2] SDF format, chain RB [auth 2] SDF format, chain RC [auth 2] SDF format, chain RD [auth 2] SDF format, chain RE [auth 2] SDF format, chain SB [auth 2] SDF format, chain SC [auth 2] SDF format, chain SD [auth 2] SDF format, chain TB [auth 2] SDF format, chain TC [auth 2] SDF format, chain TE [auth 2] SDF format, chain UB [auth 2] SDF format, chain UC [auth 2] SDF format, chain UD [auth 2] SDF format, chain VA [auth 2] SDF format, chain VB [auth 2] SDF format, chain VC [auth 2] SDF format, chain VD [auth 2] SDF format, chain VE [auth 2] SDF format, chain WA [auth 2] SDF format, chain WB [auth 2] SDF format, chain WC [auth 2] SDF format, chain WD [auth 2] SDF format, chain WE [auth 2] SDF format, chain XA [auth 2] SDF format, chain XB [auth 2] SDF format, chain XC [auth 2] SDF format, chain XE [auth 2] SDF format, chain YA [auth 2] SDF format, chain YB [auth 2] SDF format, chain YC [auth 2] SDF format, chain YD [auth 2] SDF format, chain YE [auth 2] SDF format, chain ZA [auth 2] SDF format, chain ZB [auth 2] SDF format, chain ZD [auth 2] SDF format, chain ZE [auth 2] SDF format, chain ZC [auth 2] SDF format, chain XD [auth 2] SDF format, chain UE [auth 2] SDF format, chain TD [auth 2] SDF format, chain SE [auth 2] SDF format, chain PE [auth 2] SDF format, chain OC [auth 2] SDF format, chain NE [auth 2] SDF format, chain ND [auth 2] SDF format, chain KB [auth 2] SDF format, chain GE [auth 2] SDF format, chain EE [auth 2] SDF format, chain EB [auth 2] SDF format, chain BF [auth 2] SDF format, chain BD [auth 2] MOL2 format, chain AB [auth 2] MOL2 format, chain AC [auth 2] MOL2 format, chain AD [auth 2] MOL2 format, chain AE [auth 2] MOL2 format, chain AF [auth 2] MOL2 format, chain BB [auth 2] MOL2 format, chain BC [auth 2] MOL2 format, chain BE [auth 2] MOL2 format, chain CB [auth 2] MOL2 format, chain CC [auth 2] MOL2 format, chain CD [auth 2] MOL2 format, chain CE [auth 2] MOL2 format, chain CF [auth 2] MOL2 format, chain DB [auth 2] MOL2 format, chain DC [auth 2] MOL2 format, chain DD [auth 2] MOL2 format, chain DE [auth 2] MOL2 format, chain DF [auth 2] MOL2 format, chain EC [auth 2] MOL2 format, chain ED [auth 2] MOL2 format, chain EF [auth 2] MOL2 format, chain FB [auth 2] MOL2 format, chain FC [auth 2] MOL2 format, chain FD [auth 2] MOL2 format, chain FE [auth 2] MOL2 format, chain FF [auth 2] MOL2 format, chain GB [auth 2] MOL2 format, chain GC [auth 2] MOL2 format, chain GD [auth 2] MOL2 format, chain GF [auth 2] MOL2 format, chain HB [auth 2] MOL2 format, chain HC [auth 2] MOL2 format, chain HD [auth 2] MOL2 format, chain HE [auth 2] MOL2 format, chain IB [auth 2] MOL2 format, chain IC [auth 2] MOL2 format, chain ID [auth 2] MOL2 format, chain IE [auth 2] MOL2 format, chain JB [auth 2] MOL2 format, chain JC [auth 2] MOL2 format, chain JD [auth 2] MOL2 format, chain JE [auth 2] MOL2 format, chain KC [auth 2] MOL2 format, chain KD [auth 2] MOL2 format, chain KE [auth 2] MOL2 format, chain LB [auth 2] MOL2 format, chain LC [auth 2] MOL2 format, chain LD [auth 2] MOL2 format, chain LE [auth 2] MOL2 format, chain LF [auth k] MOL2 format, chain MB [auth 2] MOL2 format, chain MC [auth 2] MOL2 format, chain MD [auth 2] MOL2 format, chain ME [auth 2] MOL2 format, chain NB [auth 2] MOL2 format, chain NC [auth 2] MOL2 format, chain OB [auth 2] MOL2 format, chain OD [auth 2] MOL2 format, chain OE [auth 2] MOL2 format, chain PB [auth 2] MOL2 format, chain PC [auth 2] MOL2 format, chain PD [auth 2] MOL2 format, chain QB [auth 2] MOL2 format, chain QC [auth 2] MOL2 format, chain QD [auth 2] MOL2 format, chain QE [auth 2] MOL2 format, chain RB [auth 2] MOL2 format, chain RC [auth 2] MOL2 format, chain RD [auth 2] MOL2 format, chain RE [auth 2] MOL2 format, chain SB [auth 2] MOL2 format, chain SC [auth 2] MOL2 format, chain SD [auth 2] MOL2 format, chain TB [auth 2] MOL2 format, chain TC [auth 2] MOL2 format, chain TE [auth 2] MOL2 format, chain UB [auth 2] MOL2 format, chain UC [auth 2] MOL2 format, chain UD [auth 2] MOL2 format, chain VA [auth 2] MOL2 format, chain VB [auth 2] MOL2 format, chain VC [auth 2] MOL2 format, chain VD [auth 2] MOL2 format, chain VE [auth 2] MOL2 format, chain WA [auth 2] MOL2 format, chain WB [auth 2] MOL2 format, chain WC [auth 2] MOL2 format, chain WD [auth 2] MOL2 format, chain WE [auth 2] MOL2 format, chain XA [auth 2] MOL2 format, chain XB [auth 2] MOL2 format, chain XC [auth 2] MOL2 format, chain XE [auth 2] MOL2 format, chain YA [auth 2] MOL2 format, chain YB [auth 2] MOL2 format, chain YC [auth 2] MOL2 format, chain YD [auth 2] MOL2 format, chain YE [auth 2] MOL2 format, chain ZA [auth 2] MOL2 format, chain ZB [auth 2] MOL2 format, chain ZD [auth 2] MOL2 format, chain ZE [auth 2] MOL2 format, chain ZC [auth 2] MOL2 format, chain XD [auth 2] MOL2 format, chain UE [auth 2] MOL2 format, chain TD [auth 2] MOL2 format, chain SE [auth 2] MOL2 format, chain PE [auth 2] MOL2 format, chain OC [auth 2] MOL2 format, chain NE [auth 2] MOL2 format, chain ND [auth 2] MOL2 format, chain KB [auth 2] MOL2 format, chain GE [auth 2] MOL2 format, chain EE [auth 2] MOL2 format, chain EB [auth 2] MOL2 format, chain BF [auth 2] MOL2 format, chain BD [auth 2] mmCIF format, chain AB [auth 2] mmCIF format, chain AC [auth 2] mmCIF format, chain AD [auth 2] mmCIF format, chain AE [auth 2] mmCIF format, chain AF [auth 2] mmCIF format, chain BB [auth 2] mmCIF format, chain BC [auth 2] mmCIF format, chain BE [auth 2] mmCIF format, chain CB [auth 2] mmCIF format, chain CC [auth 2] mmCIF format, chain CD [auth 2] mmCIF format, chain CE [auth 2] mmCIF format, chain CF [auth 2] mmCIF format, chain DB [auth 2] mmCIF format, chain DC [auth 2] mmCIF format, chain DD [auth 2] mmCIF format, chain DE [auth 2] mmCIF format, chain DF [auth 2] mmCIF format, chain EC [auth 2] mmCIF format, chain ED [auth 2] mmCIF format, chain EF [auth 2] mmCIF format, chain FB [auth 2] mmCIF format, chain FC [auth 2] mmCIF format, chain FD [auth 2] mmCIF format, chain FE [auth 2] mmCIF format, chain FF [auth 2] mmCIF format, chain GB [auth 2] mmCIF format, chain GC [auth 2] mmCIF format, chain GD [auth 2] mmCIF format, chain GF [auth 2] mmCIF format, chain HB [auth 2] mmCIF format, chain HC [auth 2] mmCIF format, chain HD [auth 2] mmCIF format, chain HE [auth 2] mmCIF format, chain IB [auth 2] mmCIF format, chain IC [auth 2] mmCIF format, chain ID [auth 2] mmCIF format, chain IE [auth 2] mmCIF format, chain JB [auth 2] mmCIF format, chain JC [auth 2] mmCIF format, chain JD [auth 2] mmCIF format, chain JE [auth 2] mmCIF format, chain KC [auth 2] mmCIF format, chain KD [auth 2] mmCIF format, chain KE [auth 2] mmCIF format, chain LB [auth 2] mmCIF format, chain LC [auth 2] mmCIF format, chain LD [auth 2] mmCIF format, chain LE [auth 2] mmCIF format, chain LF [auth k] mmCIF format, chain MB [auth 2] mmCIF format, chain MC [auth 2] mmCIF format, chain MD [auth 2] mmCIF format, chain ME [auth 2] mmCIF format, chain NB [auth 2] mmCIF format, chain NC [auth 2] mmCIF format, chain OB [auth 2] mmCIF format, chain OD [auth 2] mmCIF format, chain OE [auth 2] mmCIF format, chain PB [auth 2] mmCIF format, chain PC [auth 2] mmCIF format, chain PD [auth 2] mmCIF format, chain QB [auth 2] mmCIF format, chain QC [auth 2] mmCIF format, chain QD [auth 2] mmCIF format, chain QE [auth 2] mmCIF format, chain RB [auth 2] mmCIF format, chain RC [auth 2] mmCIF format, chain RD [auth 2] mmCIF format, chain RE [auth 2] mmCIF format, chain SB [auth 2] mmCIF format, chain SC [auth 2] mmCIF format, chain SD [auth 2] mmCIF format, chain TB [auth 2] mmCIF format, chain TC [auth 2] mmCIF format, chain TE [auth 2] mmCIF format, chain UB [auth 2] mmCIF format, chain UC [auth 2] mmCIF format, chain UD [auth 2] mmCIF format, chain VA [auth 2] mmCIF format, chain VB [auth 2] mmCIF format, chain VC [auth 2] mmCIF format, chain VD [auth 2] mmCIF format, chain VE [auth 2] mmCIF format, chain WA [auth 2] mmCIF format, chain WB [auth 2] mmCIF format, chain WC [auth 2] mmCIF format, chain WD [auth 2] mmCIF format, chain WE [auth 2] mmCIF format, chain XA [auth 2] mmCIF format, chain XB [auth 2] mmCIF format, chain XC [auth 2] mmCIF format, chain XE [auth 2] mmCIF format, chain YA [auth 2] mmCIF format, chain YB [auth 2] mmCIF format, chain YC [auth 2] mmCIF format, chain YD [auth 2] mmCIF format, chain YE [auth 2] mmCIF format, chain ZA [auth 2] mmCIF format, chain ZB [auth 2] mmCIF format, chain ZD [auth 2] mmCIF format, chain ZE [auth 2] mmCIF format, chain ZC [auth 2] mmCIF format, chain XD [auth 2] mmCIF format, chain UE [auth 2] mmCIF format, chain TD [auth 2] mmCIF format, chain SE [auth 2] mmCIF format, chain PE [auth 2] mmCIF format, chain OC [auth 2] mmCIF format, chain NE [auth 2] mmCIF format, chain ND [auth 2] mmCIF format, chain KB [auth 2] mmCIF format, chain GE [auth 2] mmCIF format, chain EE [auth 2] mmCIF format, chain EB [auth 2] mmCIF format, chain BF [auth 2] mmCIF format, chain BD [auth 2]	AB [auth 2] AC [auth 2] AD [auth 2] AE [auth 2] AF [auth 2] AB [auth 2], AC [auth 2], AD [auth 2], AE [auth 2], AF [auth 2], BB [auth 2], BC [auth 2], BD [auth 2], BE [auth 2], BF [auth 2], CB [auth 2], CC [auth 2], CD [auth 2], CE [auth 2], CF [auth 2], DB [auth 2], DC [auth 2], DD [auth 2], DE [auth 2], DF [auth 2], EB [auth 2], EC [auth 2], ED [auth 2], EE [auth 2], EF [auth 2], FB [auth 2], FC [auth 2], FD [auth 2], FE [auth 2], FF [auth 2], GB [auth 2], GC [auth 2], GD [auth 2], GE [auth 2], GF [auth 2], HB [auth 2], HC [auth 2], HD [auth 2], HE [auth 2], IB [auth 2], IC [auth 2], ID [auth 2], IE [auth 2], JB [auth 2], JC [auth 2], JD [auth 2], JE [auth 2], KB [auth 2], KC [auth 2], KD [auth 2], KE [auth 2], LB [auth 2], LC [auth 2], LD [auth 2], LE [auth 2], LF [auth k], MB [auth 2], MC [auth 2], MD [auth 2], ME [auth 2], NB [auth 2], NC [auth 2], ND [auth 2], NE [auth 2], OB [auth 2], OC [auth 2], OD [auth 2], OE [auth 2], PB [auth 2], PC [auth 2], PD [auth 2], PE [auth 2], QB [auth 2], QC [auth 2], QD [auth 2], QE [auth 2], RB [auth 2], RC [auth 2], RD [auth 2], RE [auth 2], SB [auth 2], SC [auth 2], SD [auth 2], SE [auth 2], TB [auth 2], TC [auth 2], TD [auth 2], TE [auth 2], UB [auth 2], UC [auth 2], UD [auth 2], UE [auth 2], VA [auth 2], VB [auth 2], VC [auth 2], VD [auth 2], VE [auth 2], WA [auth 2], WB [auth 2], WC [auth 2], WD [auth 2], WE [auth 2], XA [auth 2], XB [auth 2], XC [auth 2], XD [auth 2], XE [auth 2], YA [auth 2], YB [auth 2], YC [auth 2], YD [auth 2], YE [auth 2], ZA [auth 2], ZB [auth 2], ZC [auth 2], ZD [auth 2], ZE [auth 2]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AB [auth 2] Focus chain AC [auth 2] Focus chain AD [auth 2] Focus chain AE [auth 2] Focus chain AF [auth 2] Focus chain BB [auth 2] Focus chain BC [auth 2] Focus chain BD [auth 2] Focus chain BE [auth 2] Focus chain BF [auth 2] Focus chain CB [auth 2] Focus chain CC [auth 2] Focus chain CD [auth 2] Focus chain CE [auth 2] Focus chain CF [auth 2] Focus chain DB [auth 2] Focus chain DC [auth 2] Focus chain DD [auth 2] Focus chain DE [auth 2] Focus chain DF [auth 2] Focus chain EB [auth 2] Focus chain EC [auth 2] Focus chain ED [auth 2] Focus chain EE [auth 2] Focus chain EF [auth 2] Focus chain FB [auth 2] Focus chain FC [auth 2] Focus chain FD [auth 2] Focus chain FE [auth 2] Focus chain FF [auth 2] Focus chain GB [auth 2] Focus chain GC [auth 2] Focus chain GD [auth 2] Focus chain GE [auth 2] Focus chain GF [auth 2] Focus chain HB [auth 2] Focus chain HC [auth 2] Focus chain HD [auth 2] Focus chain HE [auth 2] Focus chain IB [auth 2] Focus chain IC [auth 2] Focus chain ID [auth 2] Focus chain IE [auth 2] Focus chain JB [auth 2] Focus chain JC [auth 2] Focus chain JD [auth 2] Focus chain JE [auth 2] Focus chain KB [auth 2] Focus chain KC [auth 2] Focus chain KD [auth 2] Focus chain KE [auth 2] Focus chain LB [auth 2] Focus chain LC [auth 2] Focus chain LD [auth 2] Focus chain LE [auth 2] Focus chain LF [auth k] Focus chain MB [auth 2] Focus chain MC [auth 2] Focus chain MD [auth 2] Focus chain ME [auth 2] Focus chain NB [auth 2] Focus chain NC [auth 2] Focus chain ND [auth 2] Focus chain NE [auth 2] Focus chain OB [auth 2] Focus chain OC [auth 2] Focus chain OD [auth 2] Focus chain OE [auth 2] Focus chain PB [auth 2] Focus chain PC [auth 2] Focus chain PD [auth 2] Focus chain PE [auth 2] Focus chain QB [auth 2] Focus chain QC [auth 2] Focus chain QD [auth 2] Focus chain QE [auth 2] Focus chain RB [auth 2] Focus chain RC [auth 2] Focus chain RD [auth 2] Focus chain RE [auth 2] Focus chain SB [auth 2] Focus chain SC [auth 2] Focus chain SD [auth 2] Focus chain SE [auth 2] Focus chain TB [auth 2] Focus chain TC [auth 2] Focus chain TD [auth 2] Focus chain TE [auth 2] Focus chain UB [auth 2] Focus chain UC [auth 2] Focus chain UD [auth 2] Focus chain UE [auth 2] Focus chain VA [auth 2] Focus chain VB [auth 2] Focus chain VC [auth 2] Focus chain VD [auth 2] Focus chain VE [auth 2] Focus chain WA [auth 2] Focus chain WB [auth 2] Focus chain WC [auth 2] Focus chain WD [auth 2] Focus chain WE [auth 2] Focus chain XA [auth 2] Focus chain XB [auth 2] Focus chain XC [auth 2] Focus chain XD [auth 2] Focus chain XE [auth 2] Focus chain YA [auth 2] Focus chain YB [auth 2] Focus chain YC [auth 2] Focus chain YD [auth 2] Focus chain YE [auth 2] Focus chain ZA [auth 2] Focus chain ZB [auth 2] Focus chain ZC [auth 2] Focus chain ZD [auth 2] Focus chain ZE [auth 2] Interactions & Density Focus chain AB [auth 2] Focus chain AC [auth 2] Focus chain AD [auth 2] Focus chain AE [auth 2] Focus chain AF [auth 2] Focus chain BB [auth 2] Focus chain BC [auth 2] Focus chain BD [auth 2] Focus chain BE [auth 2] Focus chain BF [auth 2] Focus chain CB [auth 2] Focus chain CC [auth 2] Focus chain CD [auth 2] Focus chain CE [auth 2] Focus chain CF [auth 2] Focus chain DB [auth 2] Focus chain DC [auth 2] Focus chain DD [auth 2] Focus chain DE [auth 2] Focus chain DF [auth 2] Focus chain EB [auth 2] Focus chain EC [auth 2] Focus chain ED [auth 2] Focus chain EE [auth 2] Focus chain EF [auth 2] Focus chain FB [auth 2] Focus chain FC [auth 2] Focus chain FD [auth 2] Focus chain FE [auth 2] Focus chain FF [auth 2] Focus chain GB [auth 2] Focus chain GC [auth 2] Focus chain GD [auth 2] Focus chain GE [auth 2] Focus chain GF [auth 2] Focus chain HB [auth 2] Focus chain HC [auth 2] Focus chain HD [auth 2] Focus chain HE [auth 2] Focus chain IB [auth 2] Focus chain IC [auth 2] Focus chain ID [auth 2] Focus chain IE [auth 2] Focus chain JB [auth 2] Focus chain JC [auth 2] Focus chain JD [auth 2] Focus chain JE [auth 2] Focus chain KB [auth 2] Focus chain KC [auth 2] Focus chain KD [auth 2] Focus chain KE [auth 2] Focus chain LB [auth 2] Focus chain LC [auth 2] Focus chain LD [auth 2] Focus chain LE [auth 2] Focus chain LF [auth k] Focus chain MB [auth 2] Focus chain MC [auth 2] Focus chain MD [auth 2] Focus chain ME [auth 2] Focus chain NB [auth 2] Focus chain NC [auth 2] Focus chain ND [auth 2] Focus chain NE [auth 2] Focus chain OB [auth 2] Focus chain OC [auth 2] Focus chain OD [auth 2] Focus chain OE [auth 2] Focus chain PB [auth 2] Focus chain PC [auth 2] Focus chain PD [auth 2] Focus chain PE [auth 2] Focus chain QB [auth 2] Focus chain QC [auth 2] Focus chain QD [auth 2] Focus chain QE [auth 2] Focus chain RB [auth 2] Focus chain RC [auth 2] Focus chain RD [auth 2] Focus chain RE [auth 2] Focus chain SB [auth 2] Focus chain SC [auth 2] Focus chain SD [auth 2] Focus chain SE [auth 2] Focus chain TB [auth 2] Focus chain TC [auth 2] Focus chain TD [auth 2] Focus chain TE [auth 2] Focus chain UB [auth 2] Focus chain UC [auth 2] Focus chain UD [auth 2] Focus chain UE [auth 2] Focus chain VA [auth 2] Focus chain VB [auth 2] Focus chain VC [auth 2] Focus chain VD [auth 2] Focus chain VE [auth 2] Focus chain WA [auth 2] Focus chain WB [auth 2] Focus chain WC [auth 2] Focus chain WD [auth 2] Focus chain WE [auth 2] Focus chain XA [auth 2] Focus chain XB [auth 2] Focus chain XC [auth 2] Focus chain XD [auth 2] Focus chain XE [auth 2] Focus chain YA [auth 2] Focus chain YB [auth 2] Focus chain YC [auth 2] Focus chain YD [auth 2] Focus chain YE [auth 2] Focus chain ZA [auth 2] Focus chain ZB [auth 2] Focus chain ZC [auth 2] Focus chain ZD [auth 2] Focus chain ZE [auth 2]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
AYA Query on AYA	E [auth B]	L-PEPTIDE LINKING	C₅ H₉ N O₃		ALA
UNK Query on UNK	SA [auth q]	L-PEPTIDE LINKING	C₄ H₉ N O₂		--

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	1.4
MODEL REFINEMENT	REFMAC	5.8

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2018-12-05

Deposition Author(s):

Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	MC_U105184332
Wellcome Trust	United Kingdom	WT096570
FEBS	United Kingdom	--

Revision History (Full details and data files)

Version 1.0: 2018-12-05
Type: Initial release
Version 1.1: 2019-07-31
Changes: Data collection, Refinement description
Version 1.2: 2019-12-11
Changes: Other
Version 1.3: 2024-04-24
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2025-10-01
Changes: Advisory, Data collection, Derived calculations, Structure summary

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6FYX | pdb_00006fyx

Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)

Literature

Translational initiation factor eIF5 replaces eIF1 on the 40S ribosomal subunit to promote start-codon recognition.

Biological Assembly 1

Macromolecules

Entity ID: 4

UniProt

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