Structure of PDB 2xzo Chain A

Receptor sequence

>2xzoA (length=613) Species: 9606 (Homo sapiens)

GHMRYEDAYQYQNIFGPLVKLEADYDKKLKESQTQDNITVRWDLGLNKKR
IAYFTLPRLMQGDEICLRYKGDLAPLWKGIGHVIKVPDNYGDEIAIELRS
SVGAPVEVTHNFQVDFVWKSTSFDRMQSALKTFAVDETSVSGYIYHKLLG
HEVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTG
KTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAK
SREAIDSPVSFLALHNQIRNMDSMPELQKLQQLKELSSADEKRYRALKRT
AERELLMNADVICCTCVGAGDPRLAKMQFRSILIDESTQATEPECMVPVV
LGAKQLILVGDHCQLGPVVMCKKAAKAGLSQSLFERLVVLGIRPIRLQVQ
YRMHPALSAFPSNIFYEGSLQNGVTAADRVKKGFDFQWPQPDKPMFFYVT
QGQEEIASSGTSYLNRTEAANVEKITTKLLKAGAKPDQIGIITPYEGQRS
YLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGIG
FLNDPRRLNVALTRARYGVIIVGNPKALSKQPLWNHLLNYYKEQKVLVEG
PLNNLRESLMQFS

3D structure

• PDB: 2xzo Molecular Mechanisms for the RNA-Dependent ATPase Activity of Upf1 and its Regulation by Upf2.
• Chain: A
• Resolution: 2.395 Å

Enzymatic activity

• Enzyme Commision number: 3.6.4.12: DNA helicase.
  3.6.4.13: RNA 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	rna	A	Y316 K321 T418 S419 P522 S523 N524 A546 K547 S548 T616 V618 M671 T762 S763 Y796 E797 S825 D827 G851 F852	Y25 K30 T121 S122 P225 S226 N227 A249 K250 S251 T315 V317 M370 T461 S462 Y495 E496 S524 D526 G550 F551
BS02	ADP	A	P469 D470 Q475 G495 G497 K498 T499 V500 Y702 R703 E833	P172 D173 Q178 G198 G200 K201 T202 V203 Y401 R402 E532
BS03	ALF	A	P494 K498 E637 Q665 R703 G831 R865	P197 K201 E336 Q364 R402 G530 R564
BS04	MG	A	M807 Q808 S810 S812	M506 Q507 S509 S511

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0004386 helicase activity
• GO:0005524 ATP binding
• GO:0016787 hydrolase activity

External links

• PDB: RCSB:2xzo, PDBe:2xzo, PDBj:2xzo
• PDBsum: 2xzo
• PubMed: 21419344
• UniProt: Q92900|RENT1_HUMAN Regulator of nonsense transcripts 1 (Gene Name=UPF1)