9GUU

30S mRNA delivery complex (consensus)

• PDB DOI: https://doi.org/10.2210/pdb9GUU/pdb
• EM Map EMD-51620: EMDB EMDataResource

• Classification: RIBOSOME
• Organism(s): Escherichia coli K-12, synthetic construct
• Expression System: Escherichia coli K-12
• Mutation(s): No 


• Deposited: 2024-09-20 Released: 2024-11-20 
• Deposition Author(s): Rahil, H., Weixlbaumer, A., Webster, M.W.
• Funding Organization(s): European Research Council (ERC), Agence Nationale de la Recherche (ANR), European Molecular Biology Organization (EMBO), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Wellcome Trust

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Molecular basis of mRNA delivery to the bacterial ribosome

Webster, M.W., Chauvier, A., Rahil, H., Graziadei, A., Miropolskaya, N., Charles, K., Takacs, M., Saintandre, C., Rappsilber, J., Walter, N.G., Weixlbaumer, A.

(2024) Science 

• DOI: https://doi.org/10.1126/science.ado8476

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 21-mer - A1B1C1D1E1F1G1H1I1J1K1L1M1N1O1P1Q1R1S1T1U1 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 891.32 kDa 
• Atom Count: 55,336 
• Modelled Residue Count: 4,229 
• Deposited Residue Count: 4,766 
• Unique protein chains: 21
• Unique nucleic acid chains: 3

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S1	B	557	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsA, ssyF, b0911, JW0894
UniProt
Find proteins for P0AG67 (Escherichia coli (strain K12)) Explore P0AG67  Go to UniProtKB:  P0AG67

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S2	C	241	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsB, b0169, JW0164
UniProt
Find proteins for P0A7V0 (Escherichia coli (strain K12)) Explore P0A7V0  Go to UniProtKB:  P0A7V0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Small ribosomal subunit protein uS3	D	233	Escherichia coli K-12	Mutation(s): 0  Gene Names:  rpsC, A5U30_004548, A8502_004027, ACN81_25500, ACU57_20980, AW118_24880, AWP47_12665, B6R15_004073, B6R31_004972, BANRA_01945, BANRA_04324, BCB93_004289, BE932_15515, BER14_25170, BG944_001129, BGM66_003597, BGZ_02594, BGZ_04121, BJI68_08695, BK292_20485, BK383_24665, BKL28_004547, BR158_003786, BTB68_004360, BTQ06_10670, BvCmsKKP061_03026, BvCmsSIP010_02681, BXT93_05495, C0P57_002664, C1Q91_004908, C2121_004166, C2M16_25425, C2R31_004629, C3F40_19740, C9Z68_22615, CF22_004853, CG704_20890, CIG67_10695, CQ842_14345, CQ842_22325, CTR35_003626, CV83915_02784, D3C88_13310, D3G36_23070, D4M65_20635, D4N09_20235, D9D43_22570, D9E49_05220, D9J61_16715, DD762_23610, DIV22_15195, DNQ45_03820, DNX30_25415, DS732_24325, DTL43_20935, DU321_12065, E2865_04467, E4K51_21555, E5H86_24460, E6D34_21695, EAI46_07540, ECs4179, EIA08_24020, EIZ93_12405, EN85_004353, EPS76_07150, EPS97_20030, EWK56_25060, ExPECSC038_03644, F7F11_22660, F7N46_23945, F9413_21170, F9461_25590, F9B07_24620, FGAF848_25890, FIJ20_21130, FJQ40_18370, FKO60_25700, FOI11_019195, FOI11_03985, FPI65_20370, FPS11_25365, FVB16_04935, FWK02_12630, FZU14_21885, G3V95_19910, G3W53_21020, G4A38_21575, G4A47_20845, G5603_24650, GAI89_24765, GAJ12_24655, GFY48_21635, GGB84_004455, GKF66_21610, GNW61_16695, GNZ05_25920, GOP25_22770, GP711_23370, GP954_00880, GP965_04360, GP975_01250, GP979_01940, GQA06_03885, GQE86_20145, GQM04_10630, GQM13_25265, GQM21_11295, GQN34_23330, GQW07_21485, GRO95_20750, GRW05_09125, GRW24_04690, GUC01_21245, H0O53_20765, H0O72_19480, HEP30_018700, HEP34_004758, HHH44_004523, HI055_004152, HIE29_005199, HJQ60_004999, HLX92_10010, HLZ50_22115, HMV95_19670, HMW38_23170, HV109_02125, HV209_14650, HVV39_09330, HVW04_17470, HVW43_18605, HVY77_02110, I6H00_20860, I6H02_12055, J0541_004409, J5U05_004075, JNP96_25370, NCTC10082_02827, NCTC10089_00490, NCTC10429_01082, NCTC10764_03851, NCTC10767_01504, NCTC10974_00537, NCTC11126_02758, NCTC11181_02726, NCTC11341_01901, NCTC7922_04054, NCTC7927_00539, NCTC7928_02529, NCTC8009_01498, NCTC8179_05929, NCTC8333_00477, NCTC8500_00322, NCTC8621_00496, NCTC8622_00518, NCTC8959_03273, NCTC8960_03058, NCTC9001_04242, NCTC9045_00553, NCTC9075_00712, NCTC9077_00592, NCTC9081_00905, NCTC9117_00744, NCTC9702_00525, NCTC9706_02725, NCTC9962_06785, OGM49_22395, P6223_003995, QDW62_02130, RZR61_12955, SAMEA3472112_00681, SAMEA3752557_01964, WR15_19670
UniProt
Find proteins for C3SQX2 (Escherichia coli) Explore C3SQX2  Go to UniProtKB:  C3SQX2

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Small ribosomal subunit protein uS4	E	206	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsD, BWG_2987
UniProt
Find proteins for C4ZUF1 (Escherichia coli (strain K12 / MC4100 / BW2952)) Explore C4ZUF1  Go to UniProtKB:  C4ZUF1

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S5	F	156	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsE, spc, b3303, JW3265
UniProt
Find proteins for P0A7W1 (Escherichia coli (strain K12)) Explore P0A7W1  Go to UniProtKB:  P0A7W1

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Small ribosomal subunit protein bS6	G	131	Escherichia coli K-12	Mutation(s): 0  Gene Names:  rpsF, BANRA_02890, BGM66_001638, BJI68_10200, C0P57_000210, CIG67_23060, CTR35_001516, CV83915_01828, E6D34_03615, G4A38_03220, G4A47_10770, GNW61_00195, GQM21_23655, GRW05_28450, HVY77_22975, J0541_002297, JNP96_03175, NCTC8500_05020, NCTC9045_05184, NCTC9706_01764, P6223_000651, SAMEA3752557_01699
UniProt
Find proteins for W8T6F0 (Escherichia coli) Explore W8T6F0  Go to UniProtKB:  W8T6F0

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S7	H	156	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsG, b3341, JW3303
UniProt
Find proteins for P02359 (Escherichia coli (strain K12)) Explore P02359  Go to UniProtKB:  P02359

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S8	I	130	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsH, b3306, JW3268
UniProt
Find proteins for P0A7W7 (Escherichia coli (strain K12)) Explore P0A7W7  Go to UniProtKB:  P0A7W7

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S9	J	130	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsI, b3230, JW3199
UniProt
Find proteins for P0A7X3 (Escherichia coli (strain K12)) Explore P0A7X3  Go to UniProtKB:  P0A7X3

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S10	K	103	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsJ, nusE, b3321, JW3283
UniProt
Find proteins for P0A7R5 (Escherichia coli (strain K12)) Explore P0A7R5  Go to UniProtKB:  P0A7R5

Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S11	L	129	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsK, b3297, JW3259
UniProt
Find proteins for P0A7R9 (Escherichia coli (strain K12)) Explore P0A7R9  Go to UniProtKB:  P0A7R9

Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S12	M	124	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsL, strA, b3342, JW3304
UniProt
Find proteins for P0A7S3 (Escherichia coli (strain K12)) Explore P0A7S3  Go to UniProtKB:  P0A7S3

Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S13	N	118	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsM, b3298, JW3260
UniProt
Find proteins for P0A7S9 (Escherichia coli (strain K12)) Explore P0A7S9  Go to UniProtKB:  P0A7S9

Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S14	O	101	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsN, b3307, JW3269
UniProt
Find proteins for P0AG59 (Escherichia coli (strain K12)) Explore P0AG59  Go to UniProtKB:  P0AG59

Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details	Image
Small ribosomal subunit protein uS15	P	89	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsO, secC, b3165, JW3134
UniProt
Find proteins for P0ADZ4 (Escherichia coli (strain K12)) Explore P0ADZ4  Go to UniProtKB:  P0ADZ4

Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S16	Q	82	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsP, b2609, JW2590
UniProt
Find proteins for P0A7T3 (Escherichia coli (strain K12)) Explore P0A7T3  Go to UniProtKB:  P0A7T3

Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S17	R	84	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsQ, neaA, b3311, JW3273
UniProt
Find proteins for P0AG63 (Escherichia coli (strain K12)) Explore P0AG63  Go to UniProtKB:  P0AG63

Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S18	S	75	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsR, b4202, JW4160
UniProt
Find proteins for P0A7T7 (Escherichia coli (strain K12)) Explore P0A7T7  Go to UniProtKB:  P0A7T7

Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S19	T	92	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsS, b3316, JW3278
UniProt
Find proteins for P0A7U3 (Escherichia coli (strain K12)) Explore P0A7U3  Go to UniProtKB:  P0A7U3

Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S20	U	87	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsT, b0023, JW0022
UniProt
Find proteins for P0A7U7 (Escherichia coli (strain K12)) Explore P0A7U7  Go to UniProtKB:  P0A7U7

Entity ID: 22
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S21	V	71	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpsU, b3065, JW3037
UniProt
Find proteins for P68679 (Escherichia coli (strain K12)) Explore P68679  Go to UniProtKB:  P68679

Entity ID: 1
Molecule	Chains	Length	Organism	Image
16S ribosomal RNA	A	1,541	Escherichia coli K-12

Entity ID: 23
Molecule	Chains	Length	Organism	Image
tRNA(fmet) P-site	W	77	Escherichia coli K-12

Entity ID: 24
Molecule	Chains	Length	Organism	Image
mRNA	X	53	synthetic construct

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	AA [auth A], AB [auth A], AC [auth A], AD [auth A], AE [auth A], BA [auth A], BB [auth A], BC [auth A], BD [auth A], BE [auth A], CA [auth A], CB [auth A], CC [auth A], CD [auth A], CE [auth A], DA [auth A], DB [auth A], DC [auth A], DD [auth A], DE [auth A], EA [auth A], EB [auth A], EC [auth A], ED [auth A], EE [auth A], FA [auth A], FB [auth A], FC [auth A], FD [auth A], FE [auth A], GA [auth A], GB [auth A], GC [auth A], GD [auth A], GE [auth A], HA [auth A], HB [auth A], HC [auth A], HD [auth A], HE [auth A], IA [auth A], IB [auth A], IC [auth A], ID [auth A], IE [auth A], JA [auth A], JB [auth A], JC [auth A], JD [auth A], JE [auth A], KA [auth A], KB [auth A], KC [auth A], KD [auth A], KE [auth A], LA [auth A], LB [auth A], LC [auth A], LD [auth A], LE [auth A], MA [auth A], MB [auth A], MC [auth A], MD [auth A], ME [auth A], NA [auth A], NB [auth A], NC [auth A], ND [auth A], NE [auth A], OA [auth A], OB [auth A], OC [auth A], OD [auth A], PA [auth A], PB [auth A], PC [auth A], PD [auth A], QA [auth A], QB [auth A], QC [auth A], QD [auth A], RA [auth A], RB [auth A], RC [auth A], RD [auth A], SA [auth A], SB [auth A], SC [auth A], SD [auth A], TA [auth A], TB [auth A], TC [auth A], TD [auth A], UA [auth A], UB [auth A], UC [auth A], UD [auth A], VA [auth A], VB [auth A], VC [auth A], VD [auth A], WA [auth A], WB [auth A], WC [auth A], WD [auth A], XA [auth A], XB [auth A], XC [auth A], XD [auth A], Y [auth A], YA [auth A], YB [auth A], YC [auth A], YD [auth A], Z [auth A], ZA [auth A], ZB [auth A], ZC [auth A], ZD [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
D2T	M	L-PEPTIDE LINKING	C5 H9 N O4 S		ASP

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-20 
Deposition Author(s): Rahil, H., Weixlbaumer, A., Webster, M.W.

---

Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	679734
Agence Nationale de la Recherche (ANR)	France	ANR-10-LABX-0030-INRT
Agence Nationale de la Recherche (ANR)	France	ANR-10-IDEX-0002-02
European Molecular Biology Organization (EMBO)	European Union	--
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM131922
Wellcome Trust	United Kingdom	203149

Revision History  

• Version 1.0: 2024-11-20
  Type: Initial release