ISDA: 9SPE

Deposition Date 2025-09-16

Release Date 2026-09-30

Last Version Date 2026-09-30

Entry Detail

PDB ID:

9SPE

Keywords:

LIGASE

Title:

Human tRNA ligase complex bound by PYROXD1

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)
Aequorea victoria (Taxon ID: 6100)
Schistosoma japonicum (Taxon ID: 6182)

Expression System(s):

Spodoptera frugiperda, Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.25 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Ashwin
Gene (Uniprot):C2orf49
Chain IDs:A
Chain Length:0
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9BVC5 Pfam ID:PF15323

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Protein FAM98B
Gene (Uniprot):FAM98B
Chain IDs:B
Chain Length:0
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q52LJ0 Pfam ID:PF10239

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:RNA transcription, translatio
Gene (Uniprot):RTRAF
Chain IDs:C
Chain Length:0
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9Y224 Pfam ID:PF10036

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:ATP-dependent RNA helicase DD
Gene (Uniprot):GFP, DDX1
Chain IDs:D
Chain Length:0
Number of Molecules:1
Biological Source:Homo sapiens, Aequorea victoria

UniProt ID:Q92499,P42212 EC:3.6.4.13

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Glutathione S-transferase cla
Gene (Uniprot):PYROXD1
Chain IDs:E (auth: P)
Chain Length:0
Number of Molecules:1
Biological Source:Schistosoma japonicum, Homo sapiens

UniProt ID:P08515,Q8WU10 Pfam ID:PF07992, PF18267 EC:2.5.1.18

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:RNA-splicing ligase RtcB homo
Gene (Uniprot):RTCB
Chain IDs:F (auth: R)
Chain Length:0
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q9Y3I0 Pfam ID:PF01139 EC:6.5.1.8

Ligand Molecules