6N4A | pdb_00006n4a

PII-like SbtB from Cyanobium sp PCC 7001 (apo)

PDB DOI: https://doi.org/10.2210/pdb6N4A/pdb

Classification: SIGNALING PROTEIN
Organism(s): Cyanobium sp. PCC 7001
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2018-11-18 Released: 2019-09-18
Deposition Author(s): Kaczmarski, J.A., Jackson, C.J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.280 (DCC)
R-Value Work:
0.220 (DCC)

wwPDB Validation 3D Report Full Report

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

Literature

Structure and function of SbtB from Cyanobium sp. 7001

Jackson, C., Kaczmarski, J.A., Price, D.

(2019) bioRxiv

Macromolecule Content

Total Structure Weight: 68.57 kDa
Atom Count: 4,010
Modeled Residue Count: 508
Deposited Residue Count: 618
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PII-like SbtB	A, B, C, D, E A, B, C, D, E, F	103	Cyanobium sp. PCC 7001	Mutation(s): 0 Gene Names: CPCC7001_1671
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 Query on PO4 Download Ideal Coordinates CCD File SDF format, chain H [auth E] SDF format, chain G [auth A] MOL2 format, chain H [auth E] MOL2 format, chain G [auth A] mmCIF format, chain H [auth E] mmCIF format, chain G [auth A]	G [auth A], H [auth E]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain G [auth A] Focus chain H [auth E] Interactions & Density Focus chain G [auth A] Focus chain H [auth E]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.280 (DCC)
R-Value Work: 0.220 (DCC)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.622	α = 94.39
b = 51.03	β = 106.13
c = 66.598	γ = 103.55

Software Package:

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

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2019-09-18

Deposition Author(s):

Kaczmarski, J.A.

Revision History (Full details and data files)

Version 1.0: 2019-09-18
Type: Initial release
Version 1.1: 2024-03-13
Changes: Data collection, Database references

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.