ECODEvolutionary Classification of Protein Domains

Home Browse Search Download Help

About ECOD

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.

Quick Links

Browse Classification
Search
Download Data
Documentation
Privacy

Resources

Grishin Lab
UT Southwestern
RCSB PDB
AlphaFold DB
ecod.database@gmail.com

© 2014-2026 Grishin Lab / HHMI / UTSW

e5kdtB1 - ECOD Domain | ECOD

ECOD/Domains/e5kdtB1

e5kdtB1

UID: 001866650

PDB

Range: B:3-144,B:250-289
PDB: 5KDT chain B(all domains)
UniProt: Q05586 (all domains)
Gene: GRIN1

Molecule: Glutamate receptor ionotropic, NMDA 1

3D Structure

Loading viewer...

Related Domains

Browse other domains in SBP_bac_3, Lig_chan-Glu_bd →

Classification

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

XX-groupPeriplasmic binding protein-like II(7523)

HH-groupPeriplasmic binding protein-like II(7523.1)

TT-groupPeriplasmic binding protein-like II(7523.1.1)

FFamilySBP_bac_3, Lig_chan-Glu_bd(7523.1.1.52)

Ligands

in contact, ≤ 4 Å

GlycineGLY
drugDrugBank DB00145
Glutamic acidGLU
drugDrugBank DB00142within 5 Å only

Pfam Families

PF00497SBP_bac_3

Bacterial extracellular solute-binding proteins, family 3

ClanCL0177PBP

PF10613Lig_chan-Glu_bd

Ligated ion channel L-glutamate- and glycine-binding site

ClanCL0177PBP

External Links

ECOD PDB View: 5KDT RCSB PDB: 5KDT PDBe: 5KDT UniProt: Q05586

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

(1~{R},2~{R})-2-[7-[[5-chloranyl-3-(trifluoromethyl)pyrazol-1-yl]methyl]-5-oxidanylidene-2-(trifluoromethyl)-[1,3]thiazolo[3,2-a]pyrimidin-3-yl]cyclopropane-1-carbonitrile

Shown in the structure viewer. Drug annotations from DrugDomain.