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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e5k69B1 - ECOD Domain | ECOD

ECOD/Domains/e5k69B1

e5k69B1

UID: 001917156

PDB

Range: B:251-406
PDB: 5K69 chain B(all domains)
UniProt: I6Y9J2 (all domains)
Gene: ldtB

Molecule: L,D-transpeptidase 2

3D Structure

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Related Domains

Browse other domains in YkuD →

Classification

AArchitecturebeta complex topology(a.5)

XX-groupL,D-transpeptidase catalytic domain-like(4091)

HH-groupL,D-transpeptidase catalytic domain-like(4091.1)

TT-groupL,D-transpeptidase catalytic domain-like(4091.1.1)

FFamilyYkuD(4091.1.1.1)

Ligands

in contact, ≤ 4 Å

(2~{S},3~{R},4~{R})-4-(1~{H}-indol-3-ylsulfanyl)-3-methyl-2-[(2~{S},3~{S})-3-oxidanyl-1-oxidanylidene-butan-2-yl]-3,4-dihydro-2~{H}-pyrrole-5-carboxylic acid6QR

+ 1 additive (Glycerin)

GlycerinGOL
DrugBank DB09462

Shown in the structure viewer.

Pfam Families

L,D-transpeptidase catalytic domain

ClanCL0508YkuD

External Links

ECOD PDB View: 5K69 RCSB PDB: 5K69 PDBe: 5K69 UniProt: I6Y9J2

Downloads

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Drug annotations from DrugDomain.