7EUM | pdb_00007eum

Crystal structure of apo Nmar_1308 protein at cryogenic temperature

PDB DOI: https://doi.org/10.2210/pdb7EUM/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Nitrosopumilus maritimus SCM1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2021-05-18 Released: 2021-09-29
Deposition Author(s): DeMirci, H., Destan, E., Yuksel, B., Ayan, E.
Funding Organization(s): National Science Foundation (NSF, United States), Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free:
0.284 (Depositor), 0.290 (DCC)
R-Value Work:
0.245 (Depositor), 0.250 (DCC)
R-Value Observed:
0.246 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of apo Nmar_1308 protein at cryogenic temperature

DeMirci, H., Destan, E., Yuksel, B., Ayan, E.

To be published.

Macromolecule Content

Total Structure Weight: 163.93 kDa
Atom Count: 10,771
Modeled Residue Count: 1,394
Deposited Residue Count: 1,524
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Enoyl-CoA hydratase/isomerase	A [auth C] B [auth D] C [auth F] D [auth A] E A [auth C], B [auth D], C [auth F], D [auth A], E, F [auth B]	254	Nitrosopumilus maritimus SCM1	Mutation(s): 0 Gene Names: Nmar_1308
UniProt
Find proteins for A9A2G5 (Nitrosopumilus maritimus (strain SCM1)) Explore A9A2G5 Go to UniProtKB: A9A2G5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A9A2G5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free: 0.284 (Depositor), 0.290 (DCC)
R-Value Work: 0.245 (Depositor), 0.250 (DCC)
R-Value Observed: 0.246 (Depositor)

Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.868	α = 90
b = 75.868	β = 90
c = 207.965	γ = 120

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2021-09-29

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	1231306
Other government	Turkey	118C270

Revision History (Full details and data files)

Version 1.0: 2021-09-29
Type: Initial release
Version 1.1: 2024-05-29
Changes: Data collection

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.