Structure of PDB 1rmd Chain A Binding Site BS01

Receptor Information
>1rmd Chain A (length=116) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NCSKIHLSTKLLAVDFPAHFVKSISCQICEHILADPVETSCKHLFCRICI
LRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILNSLMVKCPAQDCNEEV
SLEKYNHHVSSHKESK
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain1rmd Chain A Residue 117 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB1rmd Crystal structure of the RAG1 dimerization domain reveals multiple zinc-binding motifs including a novel zinc binuclear cluster.
Resolution2.1 Å
Binding residue
(original residue number in PDB)		C2 H6 C29 H31
Binding residue
(residue number reindexed from 1)		C2 H6 C29 H31
Annotation score4
Enzymatic activity
Enzyme Commision number 2.3.2.27: RING-type E3 ubiquitin transferase.
3.1.-.-
Gene Ontology
Molecular Function
GO:0004519 endonuclease activity
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
Biological Process
GO:0033151 V(D)J recombination

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:1rmd, PDBe:1rmd, PDBj:1rmd
PDBsum1rmd
PubMed9228952
UniProtP15919|RAG1_MOUSE V(D)J recombination-activating protein 1 (Gene Name=Rag1)

[Back to BioLiP]