Structure of PDB 5m5w Chain A

Receptor sequence
>5m5wA (length=1493) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence]
MDISKPVGSEITSVDFGILTAKEIRNLSAKQITNPTVLDNLGHPVSGGLY
DLALGAFLRNLCSTCGLDEKFCPGHQGHIELPVPCYNPLFFNQLYIYLRA
SCLFCHHFRLKSVEVHRYACKLRLLQYGLIDESYKLDEITLGSKDISSTL
LNELKSKRSEYVDMAIAKALSDGRTTERGSFTATVNDERKKLVHEFHKKL
LSRGKCDNCGMFSPKFRKDGFTKIFETALNEKQITNNRVKGFISTYILST
EVKNILDTVFRKEQCVLQYVFHSRPNLSRKLVKADSFFMDVLVVPPTRFR
LPSKLGEEVHENSQNQLLSKVLTTSLLIRDLNDDLSKLRVIFSRLMNAFV
TIQNDVNAFIDSTKAQGRTSGKVPIPGVKQALEKKEGLFRKHMMGKRVNY
AARSVISPDPNIETNEIGVPPVFAVKLTYPEPVTAYNIAELRQAVINGPD
KWPGATQIQNEDGSLVSLIGMSVEQRKALANQLLTPSSNVSTHTLNKKVY
RHIKNRDVVLMNRQPTLHKASMMGHKVRVLPNEKTLRLHYANTGAYNADF
DGDEMNMHFPQNENARAEALNLANTDSQYLTPTSGSPVRGLIQDHISAGV
WLTSKDSFFTREQYQQYIYGCIRPEDGHTTRSKIVTLPPTIFKPYPLWTG
KQIITTVLLNVTPPDMPGINLISKNKIKNEYWGKGSLENEVLFKDGALLC
GILDKSQYGASKYGIVHSLHEVYGPEVAAKVLSVLGRLFTNYITATAFTC
GMDDLRLTAEGNKWRTDILKTSVDTGREAAAEVTNLDKDTPADDPELLKR
LQEILRDNNKSGILDAVTSSKVNAITSQVVSKCVPDGTMKKFPCNSMQAM
ALSGAKGSNVNVSQIMCLLGQQALEGRRVPVMVSGKTLPSFKPYETDAMA
GGYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLTKQLE
GVHVSYDNSIRDADGTLVQFMYGGDAIDITKESHMTQFEFCLDNYYALLK
KYNPSALIEHLDVESALKYSKKTLKYRKKHSKEPHYKQSVKYDPVLAKYN
PAKYLGSVSENFQDKLESFLDKNSKGVNEKKFRALMQLKYMRSLINPGEA
VGIIASQSVGEPSTQMTLNTFHFNVTLGIPRLREIVMTASAAIKTPQMTL
PIWNDVSDEQADTFCKSISKVLLSEVIDKVIVTETTGTSNTAGGNAARSY
VIHMRFFDNNEYSEEYDVSKEELQNVISNQFIHLLEAAIVKEIKKQKRTT
GPDIGVAVPRLQVEANNNMNKVQRDRQSAIISHHRFITKYNFDDESGKWC
EFKLELAADTEKLLMVNIVEEICRKSIIRQIPHIDRCVHPEPENGKRVLV
TEGVNFQAMWDQEAFIDVDGITSNDVAAVLKTYGVEAARNTIVNEINNVF
SRYAISVSFRHLDLIADMMTRQGTYLAFNRQGMETSTSSFMKMSYETTCQ
FLTKAVLDNEREQLDSPSARIVVGKLNNVGTGSFDVLAKVPNA
3D structure
PDB5m5w Molecular Structures of Transcribing RNA Polymerase I.
ChainA
Resolution3.8 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
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 dna A R99 Q1601 R99 Q1431
BS02 dna A K463 E464 R475 R481 P593 S1014 Y1018 R1021 E1616 C1619 K385 E386 R397 R403 P515 S936 Y940 R943 E1446 C1449
BS03 ZN A C102 C233 C102 C206
BS04 ZN A C62 C65 H75 C62 C65 H75
Gene Ontology
Molecular Function
GO:0001054 RNA polymerase I activity
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016779 nucleotidyltransferase activity
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
GO:1990841 promoter-specific chromatin binding
Biological Process
GO:0006351 DNA-templated transcription
GO:0006360 transcription by RNA polymerase I
GO:0006361 transcription initiation at RNA polymerase I promoter
GO:0006362 transcription elongation by RNA polymerase I
GO:0006363 termination of RNA polymerase I transcription
GO:0042254 ribosome biogenesis
GO:0042790 nucleolar large rRNA transcription by RNA polymerase I
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005736 RNA polymerase I complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5m5w, PDBe:5m5w, PDBj:5m5w
PDBsum5m5w
PubMed27867008
UniProtP10964|RPA1_YEAST DNA-directed RNA polymerase I subunit RPA190 (Gene Name=RPA190)

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