Structure of PDB 2fcc Chain B

Receptor sequence

>2fccB (length=137) Species: 10665 (Tequatrovirus T4)

TRINLTLVSELADQHLMAEYRELPRVFGAVRKHVANGKRVRDFKISPTFI
LGAGHVTFFYDKLEFLRKRQIELIAECLKRGFNIKDTTVQDISDIPQEFR
GDYIPHEASIAISQARLDEKIAQRPTWYKYYGKAIYA

3D structure

• PDB: 2fcc Structure of T4 Pyrimidine Dimer Glycosylase in a Reduced Imine Covalent Complex with Abasic Site-containing DNA.
• Chain: B
• Resolution: 2.3 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): T2
• Catalytic site (residue number reindexed from 1): T1
• Enzyme Commision number: 3.2.2.17: deoxyribodipyrimidine endonucleosidase.
  4.2.99.18: DNA-(apurinic or apyrimidinic site) lyase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	B	T2 R3 H16 E23 H34 G53 G55 V57 T58 Y61 R117 K121 W128 Y129	T1 R2 H15 E22 H33 G52 G54 V56 T57 Y60 R116 K120 W127 Y128
BS02	dna	B	M18 Y21 R22 P25 R26 F83 N84 I85 D87 K130	M17 Y20 R21 P24 R25 F82 N83 I84 D86 K129

Gene Ontology

Molecular Function

• GO:0000704 pyrimidine dimer DNA N-glycosylase activity
• GO:0003906 DNA-(apurinic or apyrimidinic site) endonuclease activity
• GO:0004519 endonuclease activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds
• GO:0016829 lyase activity
• GO:0033959 deoxyribodipyrimidine endonucleosidase activity
• GO:0140078 class I DNA-(apurinic or apyrimidinic site) endonuclease activity

Biological Process

• GO:0006281 DNA repair

External links

• PDB: RCSB:2fcc, PDBe:2fcc, PDBj:2fcc
• PDBsum: 2fcc
• PubMed: 16916523
• UniProt: P04418|END5_BPT4 Endonuclease V