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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e5ej8B3 - ECOD Domain | ECOD

ECOD/Domains/e5ej8B3

e5ej8B3

UID: 001840296

PDB

Range: B:1-207
PDB: 5EJ8 chain B(all domains)
UniProt: P17109 (all domains)
Gene: menD

Molecule: 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase

3D Structure

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Related Domains

Browse other domains in TPP_enzyme_N →

Classification

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

XX-groupThiamin diphosphate-binding fold (THDP-binding)(7574)

HH-groupThiamin diphosphate-binding fold (THDP-binding)(7574.1)

TT-groupThiamin diphosphate-binding fold (THDP-binding)(7574.1.1)

FFamilyTPP_enzyme_N(7574.1.1.7)

Ligands

in contact, ≤ 4 Å

(4S)-4-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-5-(2-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3lambda~5~-thiazol-2-yl}-4-hydroxybutanoic acidTD6

+ 3 additives (Formic acid, Glycerin, 1,2-ETHANEDIOL)

Formic acidFMT
DrugBank DB01942

Pfam Families

PF02776TPP_enzyme_N

Thiamine pyrophosphate enzyme, N-terminal TPP binding domain

ClanCL0254THDP-binding

External Links

ECOD PDB View: 5EJ8 RCSB PDB: 5EJ8 PDBe: 5EJ8 UniProt: P17109

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

GlycerinGOL

DrugBank DB09462

1,2-ETHANEDIOLEDO

Shown in the structure viewer. Drug annotations from DrugDomain.