3S6E

Crystal structure of a RNA binding motif protein 39 (RBM39) from Mus musculuS at 0.95 A resolution

PDB DOI: https://doi.org/10.2210/pdb3S6E/pdb

Classification: RNA BINDING PROTEIN
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2011-05-25 Released: 2011-06-15
Deposition Author(s): Joint Center for Structural Genomics (JCSG), Partnership for T-Cell Biology (TCELL)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 0.95 Å
R-Value Free: 0.132
R-Value Work: 0.119
R-Value Observed: 0.120

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

Crystal structure of a RNA binding motif protein 39 (RBM39) from Mus musculus at 0.95 A resolution

Joint Center for Structural Genomics (JCSG), Partnership for T-Cell Biology (TCELL)

To be published.

Macromolecule Content

Total Structure Weight: 25.8 kDa
Atom Count: 2,425
Modelled Residue Count: 224
Deposited Residue Count: 228
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-binding protein 39	A, B	114	Mus musculus	Mutation(s): 0 Gene Names: BC030493, Caper, Rbm39, Rnpc2
UniProt
Find proteins for Q8VH51 (Mus musculus) Explore Q8VH51 Go to UniProtKB: Q8VH51
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8VH51
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CIT Query on CIT Download Ideal Coordinates CCD File SDF format, chain E [auth B] MOL2 format, chain E [auth B]	E [auth B]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-N		Interactions Focus chain E [auth B] Interactions & Density Focus chain E [auth B]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B]	C [auth A], D [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 0.95 Å
R-Value Free: 0.132
R-Value Work: 0.119
R-Value Observed: 0.120
Space Group: P 2₁ 2₁ 2₁
Diffraction Data: https://doi.org/10.18430/M33S6E

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.701	α = 90
b = 55.139	β = 90
c = 84.601	γ = 90

Software Package:

Software Name	Purpose
MolProbity	model building
PDB_EXTRACT	data extraction
SHELX	phasing
SHARP	phasing
SCALA	data scaling
REFMAC	refinement
MOSFLM	data reduction
SHELXD	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2011-06-15

Deposition Author(s):

Joint Center for Structural Genomics (JCSG)

Partnership for T-Cell Biology (TCELL)

Revision History (Full details and data files)

Version 1.0: 2011-06-15
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2011-08-10
Changes: Database references
Version 1.3: 2015-10-21
Changes: Database references, Structure summary
Version 1.4: 2017-10-25
Changes: Author supporting evidence, Refinement description
Version 1.5: 2023-02-01
Changes: Database references, Derived calculations

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3S6E

Crystal structure of a RNA binding motif protein 39 (RBM39) from Mus musculuS at 0.95 A resolution

Crystal structure of a RNA binding motif protein 39 (RBM39) from Mus musculus at 0.95 A resolution

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

Expand

Experimental Data

Structure Validation

Deposition Data

Revision History (Full details and data files)