5COL | pdb_00005col

RIBOSOMAL PROTEIN L11 FROM METHANOCOCCUS JANNASCHII

PDB DOI: https://doi.org/10.2210/pdb5COL/pdb

Classification: TRANSLATION
Organism(s): Methanocaldococcus jannaschii
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-07-20 Released: 2016-08-17
Deposition Author(s): Gabdulkhakov, A.G., Mitroshin, I.V., Garber, M.B.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.25 Å
R-Value Free:
0.252 (Depositor), 0.256 (DCC)
R-Value Work:
0.215 (Depositor)
R-Value Observed:
0.217 (Depositor)

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This is version 1.1 of the entry. See complete history.

Literature

CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L11 FROM METHANOCOCCUS JANNASCHII

Gabdulkhakov, A.G.

To be published.

Macromolecule Content

Total Structure Weight: 35.51 kDa
Atom Count: 2,385
Modeled Residue Count: 307
Deposited Residue Count: 322
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
50S ribosomal protein L11	A, B	161	Methanocaldococcus jannaschii	Mutation(s): 0 Gene Names: rpl11, MJ0373
UniProt
Find proteins for P54030 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)) Explore P54030 Go to UniProtKB: P54030
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P54030
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CIT Query on CIT Download:Ideal Coordinates CCD File SDF format, chain F [auth B] MOL2 format, chain F [auth B] mmCIF format, chain F [auth B]	F [auth B]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-N		Interactions Focus chain F [auth B]
PGE Query on PGE Download:Ideal Coordinates CCD File SDF format, chain D [auth B] MOL2 format, chain D [auth B] mmCIF format, chain D [auth B]	D [auth B]	TRIETHYLENE GLYCOL C₆ H₁₄ O₄ ZIBGPFATKBEMQZ-UHFFFAOYSA-N		Interactions Focus chain D [auth B]
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain E [auth B] MOL2 format, chain E [auth B] mmCIF format, chain E [auth B]	E [auth B]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain E [auth B]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.25 Å
R-Value Free: 0.252 (Depositor), 0.256 (DCC)
R-Value Work: 0.215 (Depositor)
R-Value Observed: 0.217 (Depositor)

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.15	α = 90
b = 88.05	β = 90
c = 142.92	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
PHENIX	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-08-17

Deposition Author(s):

Gabdulkhakov, A.G.

Mitroshin, I.V.

Revision History (Full details and data files)

Version 1.0: 2016-08-17
Type: Initial release
Version 1.1: 2024-05-08
Changes: Data collection, Database references

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