Structure of PDB 5x51 Chain M Binding Site BS01

Receptor Information
>5x51 Chain M (length=1386) Species: 644223 (Komagataella phaffii GS115) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
YSSAPLRSVKEVQFGLLSPEEIRAISVVKIEYPEIMDESRQRPREGGLND
PKLGSIDRNFKCQTCGEGMAECPGHFGHMELAKPVFHIGFIPKIKKVCEC
ICMNCGKLLLDETNPTMAQAIRIRDPKKRFNAVWQLCKTKMVCEARGGCG
NTQPVVRKDGMKLWGTWKDAQPERKLLEILNVFKHISPEDCFRLGFNEDY
ARPEWMIITVLPVPPPQVRPSIAMDETTQGQDDLTHKLSDILKANINVQK
LEMDGSPQHIINEVEQLLQFHVATYMDNDIAGQPQALQKSGRPVKAIRAR
LKGKEGRLRGNLMGKRVFSARTVISGDPNLELDQVGVPISIAKTLSYPET
VTQYNIHRLTEYVRNGPNEHPGAKYVIRDNGDRIDLRYHKRAGDIVLQYG
WKVERHLMDDDPVLFNRQPSLHKMSMMAHRVKVMPYSTFRLNLSVTSPYN
ADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPVMGIVQDTLC
GVRKMTLRDTFIEYEQVMNMLFWVPSWDGVVPQPAILKPKPLWTGKQLLS
IAIPSGIHLQRTDGGNSLLSPKDNGMLIVDGKVMFGVVDKKTVGSGGGGL
IHTVMREKGPKICAELFGNIQKVVNYWLLHNGFSIGIGDAIADASTMKEI
THAISSAKEQVQEIIYKAQHNELELKPGMTLRESFEGEVSRTLNDARDSA
GRSAEMNLKDLNNVKQMVSAGSKGSFINIAQMSACVGQQMVEGKRIAFGF
ADRSLPHFTKDDFSPESKGFVENSYLRLTPQEFFFHAMAGREGLIDTAVK
TAETGYIQRRLVKALEDIMVHYDGTTRNSLGDIIQFLYGEDGLDGTQVER
QTIDTIPGSDKAFHKRYYVDLMDEKNSIKPDVIEYAADILGDVELQKELN
SEYEQLVSDRKFLRVFVNGDHNWPLPVNLRRIIQNAQQIFHLDRAKASDL
TIPEIIHGVRDLCKKLFVLRGENELIKEAQQNATSLFQCLVRARLATRRI
LEEFRLNRDAFEWVLGTIEAQFQRSLVHPGEMVGVIAAQSIGEPATQMTL
NTFHVTLGVPRLKEILNVAKNIKTPALTVYLDREIALDIEKAKVIQSSIY
TTLKNVTSATEIYYDPDPTSTVIEEDFDTVEAYFSIQSPWLLRLELDRAR
MLDKQLTMNQVADKISEVFSDDLFVMWSEDNADKLIIRCRVIAEEDQMLK
RIEAHMLDLIALRPGISKVYMVKHKVSVPDESGEYKNEELWALETDGINL
AEVMAVPGVDSSRTYSNSFVEILSVLGIEATRSSLYKEILNVIAFDGSYV
NYRHMALLVDVMTSRGYLMAITRHGINRADTALMRCSFEETVEILFEAGA
AAELDDCRGVSENVMLGQLAPMGTGAFDVMIDEKLL
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain5x51 Chain M Residue 1801 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB5x51 Crystal structure of RNA polymerase II from Komagataella pastoris
Resolution6.996 Å
Binding residue
(original residue number in PDB)		C107 C110 C148
Binding residue
(residue number reindexed from 1)		C102 C105 C143
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Gene Ontology
Molecular Function
GO:0001055 RNA polymerase II activity
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0016779 nucleotidyltransferase activity
GO:0034062 5'-3' RNA polymerase 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:0005665 RNA polymerase II, core complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5x51, PDBe:5x51, PDBj:5x51
PDBsum5x51
PubMed28412353
UniProtC4R4Y0

[Back to BioLiP]