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

e6j40a1 - ECOD Domain | ECOD

ECOD/Domains/e6j40a1

e6j40a1

UID: 002521194

PDB

Range: a:11-344
PDB: 6J40 chain a(all domains)

Molecule: Photosystem II reaction center protein D1

3D Structure

Loading viewer...

Related Domains

Browse other domains in Photo_RC →

Classification

AArchitecturealpha bundles(a.7)

XX-groupBacterial photosystem II reaction centre L and M subunits-like(5037)

HH-groupBacterial photosystem II reaction centre L and M subunits-like(5037.1)

TT-groupBacterial photosystem II reaction centre L and M subunits-like(5037.1.1)

FFamilyPhoto_RC(5037.1.1.1)

Ligands

in contact, ≤ 4 Å

Beta-caroteneBCR
Chlorophyll aCLA
DIGALACTOSYL DIACYL GLYCEROL (DGDG)DGD
FE (II) IONFE2
metal
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLELHG
1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE

Pfam Families

PF00124Photo_RC

Photosynthetic reaction centre protein

External Links

ECOD PDB View: 6J40 RCSB PDB: 6J40 PDBe: 6J40

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

CA-MN4-O5 CLUSTEROEX

Pheophytin aPHO

2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONEPL9

1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROLSQD

+ 1 additive (Bicarbonate ion)

Bicarbonate ionBCT

Shown in the structure viewer.