Structure of PDB 5m3f Chain A

Receptor sequence
>5m3fA (length=1459) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence]
MDISKPVGSEITSVDFGILTAKEIRNLSAKQITNPTVLDNLGHPVSGGLY
DLALGAFLRNLCSTCGLDEKFCPGHQGHIELPVPCYNPLFFNQLYIYLRA
SCLFCHHFRLKSVEVHRYACKLRLLQYGLIDESYKLDEITLSSTLLNELK
SKRSEYVDMAIAKALSDGRTTERGSFTATVNDERKKLVHEFHKKLLSRGK
CDNCGMFSPKFRKDGFTKIFETALNEKQITNNRVKGSTYILSTEVKNILD
TVFRKEQCVLQYVFHSRPNLSRKLVKADSFFMDVLVVPPTRFRLPSKLGE
EVHENSQNQLLSKVLTTSLLIRDLNDDLSKLQKDKVSLEDRRVIFSRLMN
AFVTIQNDVNAFIDSTKAQGRTSGKVPIPGVKQALEKKEGLFRKHMMGKR
VNYAARSVISPDPNIETNEIGVPPVFAVKLTYPEPVTAYNIAELRQAVIN
GPDKWPGATQIQNEDGSLVSLIGMSVEQRKALANQLLTPSSNVSTHTLNK
KVYRHIKNRDVVLMNRQPTLHKASMMGHKVRVLPNEKTLRLHYANTGAYN
ADFDGDEMNMHFPQNENARAEALNLANTDSQYLTPTSGSPVRGLIQDHIS
AGVWLTSKDSFFTREQYQQYIYGCIRPEDGHTTRSKIVTLPPTIFKPYPL
WTGKQIITTVLLNVTPPDMPGINLISKNKIKNEYWGKGSLENEVLFKDGA
LLCGILDKSQYGASKYGIVHSLHEVYGPEVAAKVLSVLGRLFTNYITATA
FTCGMDDLRLTAEGNKWRTDILKTSVDTGREAAAEVTNLDKDTPADDPEL
LKRLQEILRDNNKSGILDAVTSSKVNAITSQVVSKCVPDGTMKKFPCNSM
QAMALSGAKGSNVNVSQIMCLLGQQALEGRRVPVMVSGKTLPSFKPYETD
AMAGGYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYLQRCLTK
QLEGVHVSYDNSIRDADGTLVQFMYGGDAIDITKESHMTQFEFCLDNYYA
LLKKYNPSALIEHLDVESALKYSKKTLKYRKKHSKEPHYKQSVKYDPVLA
KYNPAKYLGSVSENFQDKLESFLDKNSKLFKSSDGVNEKKFRALMQLKYM
RSLINPGEAVGIIASQSVGEPSTQMANVTLGIPRLREIVMTASAAIKTPQ
MTLPIWNDVSDEQADTFCKSISKVLLSEVIDKVIVTERSYVIHMRFFDNN
EYSEEYDVSKEELQNVISNQFIHLLEAAIVKEIKKQKKVQRDRQSAIISH
HRFITKYNFDDESGKWCEFKLELAADTEKLLMVNIVEEICRKSIIRQIPH
IDRCVHPEPENGKRVLVTEGVNFQAMWDQEAFIDVDGITSNDVAAVLKTY
GVEAARNTIVNEINNVFSRYAISVSFRHLDLIADMMTRQGTYLAFNRQGM
ETSTSSFMKMSYETTCQFLTKAVLDNEREQLDSPSARIVVGKLNNVGTGS
FDVLAKVPN
3D structure
PDB5m3f Structure of RNA polymerase I transcribing ribosomal DNA genes.
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 R475 R481 Q592 S1014 Y1018 R400 R406 Q517 S939 Y943
BS02 ZN A C65 H75 C65 H75
BS03 ZN A C105 C236 C105 C204
BS04 MG A D627 D629 D631 D552 D554 D556
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:5m3f, PDBe:5m3f, PDBj:5m3f
PDBsum5m3f
PubMed27842382
UniProtP10964|RPA1_YEAST DNA-directed RNA polymerase I subunit RPA190 (Gene Name=RPA190)

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