9A0B | pdb_00009a0b

Structure determination of the HgcAB complex using metagenome sequence data, coevolution analysis, and ab initio structure calculations

Integrative structure models are generated using different types of input information, including varied experimental data, physical principles, statistical preferences, and other prior information.

PDB DOI: https://doi.org/10.2210/pdb9A0B/pdb

Organism(s): Pseudodesulfovibrio mercurii
Mutation(s): No

Deposited: 2020-04-30 Released: 2020-06-12
Deposition Author(s): Cooper CJ, Zheng K, Rush KW, Johs A, Sanders BC, Pavlopoulos GA, Kyrpides NC, Podar M, Ovchinnikov S, Ragsdale SW, Parks JM

Integrative Structure Snapshot

Multi-Scale: No
Multi-State: No
Ordered-State: No
Deposited Models: 1
Representative Model: 1

wwPDB ValidationFull ReportSummary Report

This is version 1.0 of the entry. See complete history.

Literature

Structure Determination of the HgcAB Complex Using Metagenome Sequence Data: Insights into Microbial Mercury Methylation

Cooper CJ, Zheng K, Rush KW, Johs A, Sanders BC, Pavlopoulos GA, Kyrpides NC, Podar M, Ovchinnikov S, Ragsdale SW, Parks JM

(2020) Commun Biol

DOI: https://doi.org/10.1038/s42003-020-1047-5

Macromolecule Content

Total Structure Weight: 55.71 kDa
Atom Count: 3,345
Modeled Residue Count: 424
Deposited Residue Count: 424
Unique protein chains: 2

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HgcA	A	329	Pseudodesulfovibrio mercurii	Mutation(s): 0 Gene Names: DND132_1056
UniProt
Find proteins for F0JBF0 (Pseudodesulfovibrio mercurii) Explore F0JBF0 Go to UniProtKB: F0JBF0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	F0JBF0
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HgcB	B	95	Pseudodesulfovibrio mercurii	Mutation(s): 0 Gene Names: DND132_1057
UniProt
Find proteins for F0JBF1 (Pseudodesulfovibrio mercurii) Explore F0JBF1 Go to UniProtKB: F0JBF1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	F0JBF1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
B12 Query on B12 Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	COBALAMIN C₆₂ H₈₉ Co N₁₃ O₁₄ P LKVIQTCSMMVGFU-DWSMJLPVSA-N		Interactions Focus chain C [auth A]
SF4 Query on SF4 Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain D [auth B] MOL2 format, chain E [auth B] MOL2 format, chain D [auth B] mmCIF format, chain E [auth B] mmCIF format, chain D [auth B]	D [auth B], E [auth B]	IRON/SULFUR CLUSTER Fe₄ S₄ LJBDFODJNLIPKO-UHFFFAOYSA-N		Interactions Focus chain D [auth B] Focus chain E [auth B]