Structure of PDB 7bdk Chain B

Receptor sequence

>7bdkB (length=1717) Species: 9606 (Homo sapiens)

LAPRQVLDLEDLVFTQGSHFMANKRCQLPDGSFRRQRKGYEEVHVPALKP
KPFGSEEQLLPVEKLPKYAQAGFEGFKTLNRIQSKLYRAALETDENLLLC
APTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMV
GSFGKRLATYGITVAELTGKEEISATQIIVCTPEKWDIITRKGTYTQLVR
LIILDEIHLLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYED
VATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYE
KIMEHAGKNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTE
VLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLV
STATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQ
YDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLNAEIVLGNV
QNAKDAVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTA
ALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLS
EIELFRVFSLSSEFKNITVREEEKLELQKLLERVPIPVKESIEEPSAKIN
VLLQAFISQLKLEGFALMADMVYVTQSAGRLMRAIFEIVLNRGWAQLTDK
TLNLCKMIDKRMWQSMCPLRQFRKLPEEVVKKIEKKNFPFERLYDLNHNE
IGELIRMPKMGKTIHKYVHLFPKLELSVHLQPITRSTLKVELTITPDFQW
DEKVHGSSEAFWILVEDVDSEVILHHEYFLLKAKYAQDEHLITFFVPVFE
PLPPQYFIRVVSDRWLSCETQLPVSFRHLILPEKYPPPTELLDLQPLPVS
ALRNSAFESLYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICA
EFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVLLTG
ETSTDLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIG
GENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKDVAHWLGCSATS
TFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPVI
VFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLK
ETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHL
VIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSK
KDFFKKFLYEPLPVESHLDHCMHDHFNAEIVTKTIENKQDAVDYLTWTFL
YRRMTQNPNYYNLQGISHRHLSDHLSELVEQTLSDLEQSKCISIEDEMDV
APLNLGMIAAYYYINYTTIELFSMSLNAKTKVRGLIEIISNAAEYENIPI
RHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSAELQS
DTEEILSKAIRLIQACVDVLSSNGWLSPALAAMELAQMVTQAMWSKDSYL
KQLPHFTSEHIKRCTDKGVESVFDIMEMEDEERNALLQLTDSQIADVARF
CNRYPNIELSYEVVDKDSIRSGGPVVVLVQLEREEEVTGPVIAPLFPQKR
EEGWWVVIGDAKSNSLISIKRLTLQQKAKVKLDFVAPATGAHNYTLYFMS
DAYMGCDQEYKFSVDVK

3D structure

• PDB: 7bdk Long-range allostery mediates cooperative adenine nucleotide binding by the Ski2-like RNA helicase Brr2.
• Chain: B
• Resolution: 2.52 Å

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	ADP	B	F478 T480 L481 N482 Q485 T505 G506 G508 K509 T510	F76 T78 L79 N80 Q83 T103 G104 G106 K107 T108
BS02	ADP	B	F1325 Q1332 T1352 G1353 G1355 K1356 T1357 P1694	F915 Q922 T942 G943 G945 K946 T947 P1284

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0005524 ATP binding

External links

• PDB: RCSB:7bdk, PDBe:7bdk, PDBj:7bdk
• PDBsum: 7bdk
• PubMed: 34048711
• UniProt: O75643|U520_HUMAN U5 small nuclear ribonucleoprotein 200 kDa helicase (Gene Name=SNRNP200)