3TPC

Crystal structure of a hypothtical protein SMa1452 from Sinorhizobium meliloti 1021

PDB DOI: https://doi.org/10.2210/pdb3TPC/pdb

Classification: OXIDOREDUCTASE
Organism(s): Sinorhizobium meliloti
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2011-09-07 Released: 2011-09-28
Deposition Author(s): Agarwal, R., Chamala, S., Evans, B., Foti, R., Gizzi, A., Hillerich, B., Kar, A., LaFleur, J., Seidel, R., Villigas, G., Zencheck, W., Almo, S.C., Swaminathan, S., New York Structural Genomics Research Consortium (NYSGRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.34 Å
R-Value Free: 0.270
R-Value Work: 0.212
R-Value Observed: 0.215

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of a hypothtical protein SMa1452 from Sinorhizobium meliloti 1021

Agarwal, R., Almo, S.C., Swaminathan, S.

To be published.

Macromolecule Content

Total Structure Weight: 216.44 kDa
Atom Count: 13,015
Modelled Residue Count: 1,788
Deposited Residue Count: 2,056
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Short chain alcohol dehydrogenase-related dehydrogenase	A, B, C, D, E A, B, C, D, E, F, G, H	257	Sinorhizobium meliloti	Mutation(s): 0 Gene Names: RA0792, SMa1452
UniProt
Find proteins for Q92YS1 (Rhizobium meliloti (strain 1021)) Explore Q92YS1 Go to UniProtKB: Q92YS1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q92YS1
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.34 Å
R-Value Free: 0.270
R-Value Work: 0.212
R-Value Observed: 0.215
Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.147	α = 98.36
b = 69.375	β = 92.72
c = 121.85	γ = 113.01

Software Package:

Software Name	Purpose
CBASS	data collection
PHASER	phasing
CCP4	model building
ARP/wARP	model building
Coot	model building
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CCP4	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2011-09-28

Deposition Author(s):

New York Structural Genomics Research Consortium (NYSGRC)

Revision History (Full details and data files)

Version 1.0: 2011-09-28
Type: Initial release
Version 1.1: 2011-12-21
Changes: Other
Version 1.2: 2017-11-08
Changes: Refinement description
Version 1.3: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.4: 2023-12-06
Changes: Data collection