Structure of PDB 6p4f Chain A

Receptor sequence

>6p4fA (length=435) Species: 273063 (Sulfurisphaera tokodaii str. 7)

GSVYLRYFKGLILSDAYAPGLKWSDELKAYSALAFKYRDVRKYFLEKEIE
VEENVIDSLPFPLIKDKIELRDYQAEAVKAWLKEKRGIIVLPTGAGKTQV
ALKIVSIMKVATLIVVPTIDLITQWKERINKYLDFDPGIIGGGEDSLKGI
TVITYDSAYTRAEELGNKFPLLIFDEVHHLPSEGYSIMAQLFASPYRLGL
TATPERDDGKHELYPILVGPIVYRKSVEELAGKYIAKYKIKKLYVSLTNE
EKKRYDGLRKKLKDFLSSRGLKLQNLDDFHRLVKLAAKDKEAREALLAWH
ESLNIAVNSQSKIEKLREILQEYKNEKIIVFTRDTQMAYRISKTFLIPVV
TYKTDKDEREEILQKFRDGEYRVIVASTVFDEGVDVPDATLAIVMGGYGT
KRQFLQRLGRILRKKDKEALLIEIVTKGTADYRLS

3D structure

• PDB: 6p4f Structural basis of the XPB helicase-Bax1 nuclease complex interacting with the repair bubble DNA.
• Chain: A
• Resolution: 3.55 Å

Enzymatic activity

• Enzyme Commision number: 5.6.2.4: DNA 3'-5' helicase.

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	A	S181 E182 G183 R205 N274 F278 W298 Y397 G398 K400 A429	S182 E183 G184 R206 N275 F279 W299 Y398 G399 K401 A430
BS02	dna	A	T117 I118 G140 G141 T153 S156 V282 K283 A286 R292 L295 D333 T334 Y351 S376 V378	T118 I119 G141 G142 T154 S157 V283 K284 A287 R293 L296 D334 T335 Y352 S377 V379
BS03	MG	A	L275 D277	L276 D278

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0004386 helicase activity
• GO:0005524 ATP binding
• GO:0016787 hydrolase activity
• GO:0016853 isomerase activity
• GO:0140097 catalytic activity, acting on DNA

Biological Process

• GO:0006281 DNA repair
• GO:0071103 DNA conformation change

External links

• PDB: RCSB:6p4f, PDBe:6p4f, PDBj:6p4f
• PDBsum: 6p4f
• PubMed: 32986831
• UniProt: Q970I2|XPB2_SULTO DNA 3'-5' translocase XPB2 (Gene Name=xpb2)