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

e5pkhA1 - ECOD Domain | ECOD

ECOD/Domains/e5pkhA1

e5pkhA1

UID: 002128774

PDB

Range: A:11-341
PDB: 5PKH chain A(all domains)
UniProt: Q6B0I6 (all domains)
Gene: KDM4D

Molecule: Lysine-specific demethylase 4D

3D Structure

Loading viewer...

Related Domains

Browse other domains in JmjC,JmjN →

Classification

AArchitecturebeta sandwiches(a.3)

XX-groupjelly-roll(10)

HH-groupDouble-stranded beta-helix(10.12)

TT-groupDouble-stranded beta-helix(10.12.1)

FFamilyJmjC,JmjN(10.12.1.10)

Ligands

in contact, ≤ 4 Å

Magnesium ionMG
metal
NICKEL (II) IONNI
metal
N-oxalylglycineOGA

Pfam Families

JmjC domain, hydroxylase

ClanCL0029Cupin

jmjN domain

ClanCL0029Cupin

External Links

ECOD PDB View: 5PKH RCSB PDB: 5PKH PDBe: 5PKH UniProt: Q6B0I6

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

Zinc ionZN

metal

+ 2 additives (Sulfate ion, 1,2-ETHANEDIOL)

Sulfate ionSO4
DrugBank DB14546
1,2-ETHANEDIOLEDO

Shown in the structure viewer. Drug annotations from DrugDomain.