Structure of PDB 8s55 Chain A Binding Site BS06

Receptor Information
>8s55 Chain A (length=1417) Species: 9823 (Sus scrofa) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SACPLRTIKRVQFGVLSPDELKRMSVTEGGIKYPETTEGGRPKLGGLMDP
RQGVIERTGRCQTCAGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCV
CFFCSKLLVDSNNPKIKDILAKSKGQPKKRLTHVYDLCKGKNICEHGGCG
RYQPRIRRSGLELYAEWKKILLSPERVHEIFKRISDEECFVLGMEPRYAR
PEWMIVTVLPVPPLSVRPAVVMQRNQDDLTHKLADIVKINNQLRRNEQNG
AAAHVIAEDVKLLQFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLKGKE
GRVRGNLMGKRVDFSARTVITPDPNLSIDQVGVPRSIAANMTFAEIVTPF
NIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLRFHPKPSDLHLQTGYKVE
RHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVTTPYNADFD
GDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRK
FTKRDVFLERGEVMNLLMFLSTWDGKVPQPAILKPRPLWTGKQIFSLIIP
GHINCIRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKSLGT
SAGSLVHISYLEMGHDITRLFYSNIQTVINNWLLIEGHTIGIGDSIADSK
TYQDIQNTIKKAKQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRILND
ARDKTGSSAQKSLSEYNNFKSMVVSGAKGSKINISQVIAVVGQQNVEGKR
IPFGFKHRTLPHFIKDDYGPESRGFVENSYLAGLTPTEFFFHAMGGREGL
IDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQLRYGEDGLA
GESVEFQNLATLKPSNKAFEKKFRFDYTNERALRRTLQEDLVKDVLSNAH
IQNELEREFERMREDREVLRVIFPTGDSKVVLPCNLLRMIWNAQKIFHIN
PRLPSDLHPIKVVEGVKELSKKLVIVNGDDPLSRQAQENATLLFNIHLRS
TLCSRRMAEEFRLSGEAFDWLLGEIESKFNQAIAHPGEMVGALAAQSLGE
PATQMTKNVTLGVPRLKELINISKKPKTPSLTVFLLGQSARDAERAKDIL
CRLEHTTLRKVTANTAIYYDPNPQSTVVAEDQEWVNVYYEMPDFDVARIS
PWLLRVELDRKHMTDRKLTMEQIAEKINAGFGDDLNCIFNDDNAEKLVLR
IRIMNSDKMDDDVFLRCIESNMLTDMTLQGIEQISKVYMHLPQTDNKKKI
IITEDGEFKALQEWILETDGVSLMRVLSEKDVDPVRTTSNDIVEIFTVLG
IEAVRKALERELYHVISFDGSYVNYRHLALLCDTMTCRGHLMAITRHGVN
RQDTGPLMKCSFEETVDVLMEAAAHGESDPMKGVSENIMLGQLAPAGTGC
FDLLLDAEKCKYGMEIP
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain8s55 Chain P Residue 101 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8s55 Three-step mechanism of promoter escape by RNA polymerase II
Resolution3.4 Å
Binding residue
(original residue number in PDB)		D495 D497 D499
Binding residue
(residue number reindexed from 1)		D448 D450 D452
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0016779 nucleotidyltransferase activity
GO:0046872 metal ion binding
Biological Process
GO:0006351 DNA-templated transcription
GO:0006366 transcription by RNA polymerase II
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex
GO:0005634 nucleus
GO:0031981 nuclear lumen
GO:0032991 protein-containing complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8s55, PDBe:8s55, PDBj:8s55
PDBsum8s55
PubMed38604172
UniProtA0A7M4DUC2

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