ECODEvolutionary Classification of Protein Domains

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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.

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e3dxjN4 - ECOD Domain | ECOD

ECOD/Domains/e3dxjN4

e3dxjN4

UID: 000223699

RepresentativePDB

Range: N:949-1109
PDB: 3DXJ chain N(all domains)
UniProt: Q8RQE8 (all domains)
Gene: rpoC

Molecule: BACTERIAL RNA POLYMERASE BETA-PRIME SUBUNIT; CHAIN D, N

3D Structure

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Related Domains

Browse other domains in RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 →

Classification

AArchitecturea+b complex topology(a.14)

XX-groupsecond helical domain in RNA-polymerase beta-prime subunit(4958)

HH-groupsecond helical domain in RNA-polymerase beta-prime subunit(4958.1)

TT-groupsecond helical domain in RNA-polymerase beta-prime subunit(4958.1.1)

FFamilyRNA_pol_Rpb1_5,RNA_pol_Rpb1_4(4958.1.1.1)

Ligands

in contact, ≤ 4 Å

Methyl [(1E,5R)-5-{3-[(2E,4E)-2,5-dimethyl-2,4-octadienoyl]-2,4-dioxo-3,4-dihydro-2H-pyran-6-yl}hexylidene]carbamateNE6
drugDrugBank DB08266
Zinc ionZN
metal

Pfam Families

PF04998RNA_pol_Rpb1_5

RNA polymerase Rpb1, domain 5

PF05000RNA_pol_Rpb1_4

RNA polymerase Rpb1, domain 4

External Links

ECOD PDB View: 3DXJ RCSB PDB: 3DXJ PDBe: 3DXJ UniProt: Q8RQE8

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

within 5 Å only

+ 1 additive ((4r)-2-Methylpentane-2,4-Diol)

(4r)-2-Methylpentane-2,4-DiolMPD
DrugBank DB03564

Shown in the structure viewer. Drug annotations from DrugDomain.