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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e6kbfB2 - ECOD Domain | ECOD

ECOD/Domains/e6kbfB2

e6kbfB2

UID: 002618693

PDB

Range: B:223-581
PDB: 6KBF chain B(all domains)
UniProt: W7JP72 (all domains)
Gene: PFNF54_04763

Molecule: Lysine--tRNA ligase

3D Structure

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Related Domains

Browse other domains in tRNA-synt_2 →

Classification

AArchitecturea+b three layers(a.12)

XX-groupClass II aaRS and biotin synthetases(314)

HH-groupClass II aaRS and biotin synthetases(314.1)

TT-groupClass II aaRS and biotin synthetases(314.1.1)

FFamilytRNA-synt_2(314.1.1.1)

Ligands

in contact, ≤ 4 Å

LysineLYS
drugDrugBank DB00123
(3~{S})-3-[[(1~{S},3~{S})-3-methylcyclohexyl]methyl]-6,8-bis(oxidanyl)-3,4-dihydro-2~{H}-isoquinolin-1-oneD4X

+ 2 additives (Dimethyl sulfoxide, Glycerin)

Pfam Families

PF00152tRNA-synt_2

tRNA synthetases class II (D, K and N)

ClanCL0040tRNA_synt_II

External Links

ECOD PDB View: 6KBF RCSB PDB: 6KBF PDBe: 6KBF UniProt: W7JP72

Downloads

Download Domain PDB Download Domain FASTA Full PDB Structure

Dimethyl sulfoxide

DrugBank DB01093

GlycerinGOL

DrugBank DB09462

Shown in the structure viewer. Drug annotations from DrugDomain.