Structure of PDB 1um2 Chain B Binding Site BS01

Receptor Information

>1um2 Chain B (length=419) Species: 4932 (Saccharomyces cerevisiae)

SFAKGTNVLMADGSIECIENIEVGNKVMGKDGRPREVIKLPRGRETMYSV
VQKELLKFTCNATNELVVRTPRSVRRLSRTIKGVEYFEVITFEMGQKKAP
DGRIVELVKEVSKSYPISEGPERANELVESYRKASNKAYFEWTIEARDLS
LLGSHVRKATYQTYAPILYENDHFFDYMQKSKFHLTIEGPKVLAYLLGLW
IGDGLSDRATFSVDSRDTSLMERVTEYAEKLNLCAEYKDRKEPQVAKTVN
LYSLNTENPLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSD
GYVTDEHGIKATIKTIHTSVRDGLVSLARSLGLVVSVNAEPHKISYAIYM
SGGDVLLNVLSKCAGSKKFRPAPAAAFARECRGFYFELQELKEDDYYGIT
LSDDSDHQFLLANQVVVHN

Ligand information

>1um2 Chain D (length=7) Species: 4932 (Saccharomyces cerevisiae)

YVGSGER

Receptor-Ligand Complex Structure

Structure summary

• PDB: 1um2 Protein splicing of yeast VMA1-derived endonuclease via thiazolidine intermediates.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): S284 N359 T361 E363 I717 T718 N737
• Binding residue (residue number reindexed from 1): S1 N61 T63 E65 I399 T400 N419

Enzymatic activity

• Catalytic site (original residue number in PDB): S284 N359 T361 N362 K584 K686 G716 I717 N737
• Catalytic site (residue number reindexed from 1): S1 N61 T63 N64 K275 K368 G398 I399 N419
• Enzyme Commision number: 3.1.-.-
  7.1.2.2: H(+)-transporting two-sector ATPase.

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0004519 endonuclease activity

Biological Process

• GO:0016539 intein-mediated protein splicing
• GO:0030908 protein splicing

External links

• PDB: RCSB:1um2, PDBe:1um2, PDBj:1um2
• PDBsum: 1um2
• PubMed: 14646148
• UniProt: P17255|VATA_YEAST V-type proton ATPase catalytic subunit A (Gene Name=VMA1)