6H8I | pdb_00006h8i

MamM CTD H285D

PDB DOI: https://doi.org/10.2210/pdb6H8I/pdb

Classification: METAL TRANSPORT
Organism(s): Magnetospirillum gryphiswaldense
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2018-08-02 Released: 2019-08-14
Deposition Author(s): Barber-Zucker, S., Zarivach, R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free:
0.185 (Depositor), 0.188 (DCC)
R-Value Work:
0.158 (Depositor), 0.157 (DCC)
R-Value Observed:
0.160 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 6H8I

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

Literature

MamM CTD H285D

Barber-Zucker, S., Zarivach, R.

To be published.

Macromolecule Content

Total Structure Weight: 12.16 kDa
Atom Count: 738
Modeled Residue Count: 80
Deposited Residue Count: 108
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Magnetosome protein MamM, Cation efflux protein family	A	108	Magnetospirillum gryphiswaldense	Mutation(s): 1 Gene Names: mamM, mgI491, MGR_4095
UniProt
Find proteins for V6F235 (Magnetospirillum gryphiswaldense (strain DSM 6361 / JCM 21280 / NBRC 15271 / MSR-1)) Explore V6F235 Go to UniProtKB: V6F235
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	V6F235
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A]	B [auth A], C [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Focus chain C [auth A]
BME Query on BME Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	BETA-MERCAPTOETHANOL C₂ H₆ O S DGVVWUTYPXICAM-UHFFFAOYSA-N		Interactions Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free: 0.185 (Depositor), 0.188 (DCC)
R-Value Work: 0.158 (Depositor), 0.157 (DCC)
R-Value Observed: 0.160 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.445	α = 90
b = 94.117	β = 90
c = 53.073	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2019-08-14

Deposition Author(s):

Barber-Zucker, S.

Funding Organization	Location	Grant Number
	Israel	Israel Science Foundation 167/16
	Israel	Israel Ministry of Science, Technology and Space

Revision History (Full details and data files)

Version 1.0: 2019-08-14
Type: Initial release
Version 1.1: 2024-01-17
Changes: Data collection, Database references, Refinement description

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.