Structure of PDB 2ihn Chain A Binding Site BS02

Receptor Information

>2ihn Chain A (length=299) Species: 10665 (Tequatrovirus T4)

MDLEMMLDEDYKEGICLIDFSQIALSTALVNFPDKEKINLSMVRHLILNS
IKFNVKKAKTLGYTKIVLCIDNAKSGYWRRDFAYYYKKNRSTWDWEGYFE
SSHKVIDELKAYMPYIVMDIDKYEANDHIAVLVKKFSLEGHKILIISSDG
DFTQLHKYPNVKQWSPMHKKWVKIKSGSAEIDCMTKILKGDKKDNVASVK
VRSDFWFTRVEGERTPSMKTSIVEAIANDREQAKVLLTESEYNRYKENLV
LIDFDYIPDNIASNIVNYYNSYKLPPRGKIYSYFVKAGLSKLTNSINEF

Ligand information

>2ihn Chain D (length=17)

ggtctgcctcaagacgg

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2ihn Crystal structure of bacteriophage T4 5' nuclease in complex with a branched DNA reveals how FEN-1 family nucleases bind their substrates.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): T27 V30 S50 K52 F53 K56 M173 H174 K175 K195 R220 T221 M224 T226 K297 L298 N300 S301
• Binding residue (residue number reindexed from 1): T27 V30 S50 K52 F53 K56 M167 H168 K169 K189 R214 T215 M218 T220 K291 L292 N294 S295

Enzymatic activity

• Enzyme Commision number: 3.1.26.4: ribonuclease H.

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003824 catalytic activity
• GO:0004519 endonuclease activity
• GO:0004523 RNA-DNA hybrid ribonuclease activity
• GO:0004527 exonuclease activity
• GO:0004534 5'-3' RNA exonuclease activity
• GO:0016788 hydrolase activity, acting on ester bonds
• GO:0017108 5'-flap endonuclease activity

Biological Process

• GO:0006260 DNA replication
• GO:0033567 DNA replication, Okazaki fragment processing
• GO:0043137 DNA replication, removal of RNA primer

External links

• PDB: RCSB:2ihn, PDBe:2ihn, PDBj:2ihn
• PDBsum: 2ihn
• PubMed: 17693399
• UniProt: P13319|RNH_BPT4 Ribonuclease H (Gene Name=rnh)