Structure of PDB 5y7g Chain B Binding Site BS02

Receptor Information

>5y7g Chain B (length=543) Species: 208964 (Pseudomonas aeruginosa PAO1)

PEPFYYLHNFRAVLAWIGERYADLLDDQERAFIAAFAELPEASQALLVRM
VMRKGTLFREGKLAYAEIGDTRAAVQPLLALGWVDAQPTLELAQLFGLLK
KDELSQLFRDHLGRANLRKDALLERLQPLFPEARRLAEWQADFAEPVYEL
RCMALCDRLRLMYFGNLWQDWSEFVLADLGIYRYESVEFSADSRGFRLRA
DVDAYLHLFDCRQRFDLGEPLEELLAGLPGEPYANPWLEGRRVKLLFQFA
QHCEKQRDFDLAQRLYRQSSHPGARLRAIRSLERGERFAEAHALAREASC
APESDAERQGLARLLPRLQGKLGLPRQARAAAPEIDRLDLCLAFPSEPCS
VEWAVREHLEEPGCAVHYVENGLINSLFGLLCWEAIFAAIPGAFFHPFHS
APADLHSADFRQRRAALFEACLGRLEDGSYRDAIRCRYRDKFGLQSPFVY
WELLGEELLEQALDCLPAAHLRAWFERLLEDIPGNRAGLPDLIQFWPAQR
RYRMVEVKGPGDRLQDNQLRWLQFCREREMPVAVCYVRWHVDD

Ligand information

>5y7g Chain G (length=24)

gaatgtgtgtctcaatcccaactt

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5y7g Structural mechanism of DNA interstrand cross-link unhooking by the bacterial FAN1 nuclease.
• Resolution: 3.4 Å
• Binding residue (original residue number in PDB): K78 K116 K117 R134 K135 L192 Y198 K271 R296 R300 R329 R333 R529
• Binding residue (residue number reindexed from 1): K62 K100 K101 R118 K119 L176 Y182 K255 R280 R284 R313 R317 R513

Enzymatic activity

• Enzyme Commision number: 3.1.4.1: phosphodiesterase I.

Gene Ontology

Molecular Function

• GO:0000287 magnesium ion binding
• GO:0003676 nucleic acid binding
• GO:0004518 nuclease activity
• GO:0004519 endonuclease activity
• GO:0004527 exonuclease activity
• GO:0004528 phosphodiesterase I activity
• GO:0008409 5'-3' exonuclease activity
• GO:0016788 hydrolase activity, acting on ester bonds
• GO:0017108 5'-flap endonuclease activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding
• GO:0070336 flap-structured DNA binding

Biological Process

• GO:0006281 DNA repair
• GO:0036297 interstrand cross-link repair

External links

• PDB: RCSB:5y7g, PDBe:5y7g, PDBj:5y7g
• PDBsum: 5y7g
• PubMed: 29514982
• UniProt: Q9I2N0|FAN1_PSEAE Fanconi-associated nuclease 1 homolog (Gene Name=fan1)