Structure of PDB 5o9z Chain C Binding Site BS01

Receptor Information

>5o9z Chain C (length=1693) Species: 9606 (Homo sapiens)

GSFRRQRKGYEEVHVPALKPKPFGSEEQLLPVEKLPKYAQAGFEGFKTLN
RIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTIN
VDDFKIIYIAPMRSLVQEMVGSFGKRLATYGITVAELTGDHQLCKEEISA
TQIIVCTPEKWDIITRKGGERTYTQLVRLIILDEIHLLHDDRGPVLEALV
ARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDPAKGLFYFDNSFRP
VPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQVLVFVHSRKETG
KTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPYGF
AIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQ
VYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSL
LNQQLPIESQMVSKLPDMLNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRS
PTLYGISHDDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYDKKTGNFQVT
ELGRIASHYYITNDTVQTYNQLLKPTLSEIELFRVFSLSSEFKNITVREE
EKLELQKLLERVPIPVKESIEEPSAKINVLLQAFISQLKLEGFALMADMV
YVTQSAGRLMRAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLRQF
RKLPEEVVKKIEKKNFPFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFP
KLELSVHLQPITRSTLKVELTITPDFQWDEKVHGSSEAFWILVEDVDSEV
ILHHEYFLLKAKYAQDEHLITFFVPVFEPLPPQYFIRVVSDRWLSCETQL
PVSFRHLILPEKYPPPTELLDLQPLPVSALRNSAFESLYQDKFPFFNPIQ
TQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPM
EALAEQVYMDWYEKFQDRLNKKVVLLTGETSTDLKLLGKGNIIISTPEKW
DILSRRWKQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMRYISSQIE
RPIRIVALSSSLSNAKDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNI
SHTQTRLLSMAKPVYHAITKHSPKKPVIVFVPSRKQTRLTAIDILTTCAA
DIQRQRFLHCTEKDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLV
EQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVDYPIY
DVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVESHLDHCM
HDHFNAEIVTKTIENKQDAVDYLTWTFLYRRMTQNPNYYNLQGISHRHLS
DHLSELVEQTLSDLEQSKCISIEDEMDVAPLNLGMIAAYYYINYTTIELF
SMSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLLRQLAQKVPHKLNNP
KFNDPHVKTNLLLQAHLSRMQLSAELQSDTEEILSKAIRLIQACVDVLSS
NGWLSPALAAMELAQMVTQAMWSKDSYLKQLPHFTSEHIKRCTDKGVESV
FDIMEMEDEERNALLQLTDSQIADVARFCNRYPNIELSYEVVDKDSIRSG
GPVVVLVQLEREEEVTGPVIAPLFPQKREEGWWVVIGDAKSNSLISIKRL
TLQQKAKVKLDFVAPATGAHNYTLYFMSDAYMGCDQEYKFSVD

Ligand information

>5o9z Chain 4 (length=137)

agcuuugcgcaguggcaguaucguagccaaugagguuuauccgaggcgcg
auuauugcuaauuacuuuucccaauaccccgccgugacgacuugcaauau
agucggcauuggcaauuuuugacagucucgagacugg

...................<<<<<.<<<.....<<.....>>..>>>>>>
>>............................<<<<<<.<<<<<........
>>>>>.>>>.>>>.........<<<<<<..>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5o9z Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for Activation.
• Resolution: 4.5 Å
• Binding residue (original residue number in PDB): P543 M544 R545 G571 H573 S727 W817 P836 T1028 R1090 K1172 S1218 Q1536 N1881
• Binding residue (residue number reindexed from 1): P111 M112 R113 G139 H141 S295 W385 P404 T596 R658 K740 S786 Q1104 N1449

Enzymatic activity

• Enzyme Commision number: 3.6.4.13: RNA helicase.

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003724 RNA helicase activity
• GO:0004386 helicase activity
• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0016787 hydrolase activity
• GO:0016887 ATP hydrolysis activity
• GO:0042802 identical protein binding

Biological Process

• GO:0000354 cis assembly of pre-catalytic spliceosome
• GO:0000388 spliceosome conformational change to release U4 (or U4atac) and U1 (or U11)
• GO:0000398 mRNA splicing, via spliceosome
• GO:0001649 osteoblast differentiation
• GO:0006397 mRNA processing
• GO:0008380 RNA splicing

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005681 spliceosomal complex
• GO:0005682 U5 snRNP
• GO:0016020 membrane
• GO:0046540 U4/U6 x U5 tri-snRNP complex
• GO:0071005 U2-type precatalytic spliceosome
• GO:0071006 U2-type catalytic step 1 spliceosome
• GO:0071013 catalytic step 2 spliceosome

External links

• PDB: RCSB:5o9z, PDBe:5o9z, PDBj:5o9z
• PDBsum: 5o9z
• PubMed: 28781166
• UniProt: O75643|U520_HUMAN U5 small nuclear ribonucleoprotein 200 kDa helicase (Gene Name=SNRNP200)