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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e5ypiE1 - ECOD Domain | ECOD

ECOD/Domains/e5ypiE1

e5ypiE1

UID: 002162976

PDB

Range: E:43-270
PDB: 5YPI chain E(all domains)
UniProt: E5KIY2 (all domains)
Gene: blaNDM-1

Molecule: Metallo-beta-lactamase NDM-1

3D Structure

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Related Domains

Browse other domains in Lactamase_B →

Classification

AArchitecturea+b four layers(a.13)

XX-groupMetallo-hydrolase/oxidoreductase(247)

HH-groupMetallo-hydrolase/oxidoreductase(247.1)

TT-groupMetallo-hydrolase/oxidoreductase(247.1.1)

FFamilyLactamase_B(247.1.1.1)

Ligands

in contact, ≤ 4 Å

(2R)-2-[(2S,3R)-1,3-bis(oxidanyl)-1-oxidanylidene-butan-2-yl]-4-(2-methanimidamidoethylsulfanyl)-2,3-dihydro-1H-pyrrole-5-carboxylic acid8YF
Zinc ionZN
metal

+ 2 additives (Sulfate ion, Glycerin)

Pfam Families

PF00753Lactamase_B

Metallo-beta-lactamase superfamily

ClanCL0381Metallo-HOrase

External Links

ECOD PDB View: 5YPI RCSB PDB: 5YPI PDBe: 5YPI UniProt: E5KIY2

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

Sulfate ion

DrugBank DB14546

GlycerinGOL

DrugBank DB09462within 5 Å only

Shown in the structure viewer. Drug annotations from DrugDomain.