Structure of PDB 2xgj Chain B

Receptor sequence
>2xgjB (length=777) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
HQVRHQVALPPNYDYTPIAEHKRVNEARTYPFTLDPFQDTAISCIDRGES
VLVSAHTSAGKTVVAEYAIAQSLKNKQRVIYTSPIKALSNQKYRELLAEF
GDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVHY
MRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHI
VYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISKGDIY
KIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFN
NAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGF
LKVLFATETFSIGPAKTVVFTSVVSGGEYIQMSGRAGRRGLDDRGIVIMM
IDEKMEPQVAKGMVKGQADRLDSAFHLGYNMILNLMRVEGISPEFMLEHS
FFQFQNVISVPVMEKKLAELKKDFDGIEVEDEENVKEYHEIEQAIKGYRE
DVRQVVTHPANALPVKNMKIEDEDFLKLMKKIDVLNTKLSSNPLTNSMRL
EELYGKYSRKHDLHEDMKQLKRKISESQAVIQLDDLRRRKRVLRRLGFCT
PNDIIELKGRVACEISSGDELLLTELIFNGNFNELKPEQAAALLSCFAFQ
ERCKEAPRLKPELAEPLKAMREIAAKIAKIMKDSKIEVVEKDYVESFRHE
LMEVVYEWCRGATFTQICKMTDVYEGSLIRMFKRLEELVKELVDVANTIG
NSSLKEKMEAVLKLIHRDIVSAGSLYL
3D structure
PDB2xgj Structural Analysis Reveals the Characteristic Features of Mtr4, a Dexh Helicase Involved in Nuclear RNA Processing and Surveillance.
ChainB
Resolution2.9 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 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 B I201 K202 R272 F414 K416 H476 S477 T502 E947 R1026 R1030 I85 K86 R156 F269 K271 H331 S332 T357 E651 R730 R734
BS02 ADP B F148 Q154 T173 S174 G176 K177 T178 R547 F32 Q38 T57 S58 G60 K61 T62 R389
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003724 RNA helicase activity
GO:0003729 mRNA binding
GO:0003824 catalytic activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008143 poly(A) binding
GO:0016491 oxidoreductase activity
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0034458 3'-5' RNA helicase activity
Biological Process
GO:0000292 RNA fragment catabolic process
GO:0000460 maturation of 5.8S rRNA
GO:0000467 exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0006364 rRNA processing
GO:0006397 mRNA processing
GO:0006401 RNA catabolic process
GO:0016075 rRNA catabolic process
GO:0034475 U4 snRNA 3'-end processing
GO:0034476 U5 snRNA 3'-end processing
GO:0071028 nuclear mRNA surveillance
GO:0071031 nuclear mRNA surveillance of mRNA 3'-end processing
GO:0071035 nuclear polyadenylation-dependent rRNA catabolic process
GO:0071038 TRAMP-dependent tRNA surveillance pathway
GO:0071042 nuclear polyadenylation-dependent mRNA catabolic process
GO:0071051 poly(A)-dependent snoRNA 3'-end processing
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0031499 TRAMP complex

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Molecular Function
View graph for
Biological Process
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Cellular Component
External links
PDB RCSB:2xgj, PDBe:2xgj, PDBj:2xgj
PDBsum2xgj
PubMed20566885
UniProtP47047|MTR4_YEAST ATP-dependent RNA helicase DOB1 (Gene Name=MTR4)

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