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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e5nklA3 - ECOD Domain | ECOD

ECOD/Domains/e5nklA3

e5nklA3

UID: 002085343

PDB

Range: A:625-748
PDB: 5NKL chain A(all domains)
UniProt: P19821 (all domains)
Gene: polA

Molecule: DNA polymerase I, thermostable

3D Structure

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Related Domains

Browse other domains in DNA_pol_A →

Classification

AArchitecturealpha arrays(a.6)

XX-grouphelical bundle in Bacillus stearothermophilus-like DNA polymerase I(4964)

HH-grouphelical bundle in Bacillus stearothermophilus-like DNA polymerase I(4964.1)

TT-grouphelical bundle in Bacillus stearothermophilus-like DNA polymerase I(4964.1.1)

FFamilyDNA_pol_A(4964.1.1.1)

Ligands

in contact, ≤ 4 Å

[[(2~{R},3~{S},5~{R})-5-[4-[(4~{S})-4,5-bis(oxidanyl)pent-1-ynyl]-2-nitro-pyrrol-1-yl]-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate91R
[[(2~{R},3~{S},5~{R})-5-[4-[(4~{R})-4,5-bis(oxidanyl)pent-1-ynyl]-2-nitro-pyrrol-1-yl]-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate91T

Pfam Families

PF00476DNA_pol_A

DNA polymerase family A

External Links

ECOD PDB View: 5NKL RCSB PDB: 5NKL PDBe: 5NKL UniProt: P19821

Downloads

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Magnesium ion

metalwithin 5 Å only

+ 2 additives (Acetate, Glycerol)

AcetateACT
DrugBank DB14511
GlycerolGOL

Shown in the structure viewer. Drug annotations from DrugDomain.