ECODEvolutionary Classification of Protein Domains

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ECOD (Evolutionary Classification of Protein Domains) is a hierarchical classification of protein domains based on evolutionary relationships. It combines automated sequence and structure analysis with manual curation.

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e5cdoD1 - ECOD Domain | ECOD

ECOD/Domains/e5cdoD1

e5cdoD1

UID: 001719219

PDB

Range: D:417-638
PDB: 5CDO chain D(all domains)
UniProt: P66937 (all domains)
Gene: gyrB

Molecule: DNA gyrase subunit B,DNA gyrase subunit B

3D Structure

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Related Domains

Browse other domains in DNA_gyraseB_C,Toprim →

Classification

AArchitecturea/b three-layered sandwiches(a.17)

XX-groupHAD domain-like(2006)

HH-groupHAD domain-related(2006.1)

TT-groupToprim domain(2006.1.3)

FFamilyDNA_gyraseB_C,Toprim(2006.1.3.1)

Ligands

in contact, ≤ 4 Å

(2R,4S,4aS,5S)-6'-hydroxy-2,4-dimethyl-8-nitro-1,2,4,4a-tetrahydro-2'H,6H-spiro[1,4-oxazino[4,3-a]quinoline-5,5'-pyrimidine]-2',4'(3'H)-dione53L
MANGANESE (II) IONMN
metal

+ 1 additive (Glycerin)

Pfam Families

PF00986DNA_gyraseB_C

DNA gyrase B subunit, carboxyl terminus

Toprim domain

ClanCL0413Toprim-like

External Links

ECOD PDB View: 5CDO RCSB PDB: 5CDO PDBe: 5CDO UniProt: P66937

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

Glycerin

DrugBank DB09462

Shown in the structure viewer. Drug annotations from DrugDomain.