Structure of PDB 5m5y Chain B

Receptor sequence
>5m5yB (length=1170) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
TADFRTLERESRFINPPKDKSAFPLLQEAVQPHIGSFNALTEGPDGGLLN
LGVKDIGEKVIFDGKPLNISNSGYLGNKLSVSVEQVSIAKPMSNDVERKV
YPSESRQRLTSYRGKLLLKLKWSVNNGEENLFEVRDCGGLPVMLQSNRCH
LNKMSPYELVQHKEESDEIGGYFIVNGIEKLIRMLIVQRRNHPMAIIRPS
FANRGASYSHYGIQIRSVRPDQTSQTNVLHYLNDGQVTFRFSWRKNEYLV
PVVMILKALCHTSDREIFDGIIGNDVKDSFLTDRLELLLRGFKKRYPHLQ
NRTQVLQYLGDKFRVVFQASPDQSDLEVGQEVLDRIVLVHLGKDGSQDKF
RMLLFMIRKLYSLVAGECSPDNPDATQHQEVLLGGFLYGMILKEKIDEYL
QNIIAQVRMDINRGMAINFKDKRYMSRVLMRVNENIGSKMQYFLSTGNLV
SQSGLDLQQVSGYTVVAEKINFYRFISHFRMVHRGSFFAQLKTTTVRKLL
PESWGFLCPVHTPDGSPCGLLNHFAHKCRISTQQSDVSRIPSILYSLGVA
PASHTFAAGPSLCCVQIDGKIIGWVSHEQGKIIADTLRYWKVEGKTPGLP
IDLEIGYVPPSTRGQYPGLYLFGGHSRMLRPVRYLPLDKEDIVGPFEQVY
MNIAVTPQEIQNNVHTHVEFTPTNILSILANLTPFSDFNQSPRNMYQCQM
GKQTMGTPGVALCHRSDNKLYRLQTGQTPIVKANLYDDYGMDNFPNGFNA
VVAVISYTGYDMDDAMIINKSADERGFGYGTMYKTEKVDLALDPITQHFG
FGNDEWPKEWLEKLDEDGLPYIGTYVEEGDPICAYFDDTLNKTKIKTYHS
SEPAYIEEVNLIGDESNKFQELQTVSIKYRIRRTPQIGDKFSSRHGQKGV
CSRKWPTIDMPFSETGIQPDIIINPHAFPSRMTIGMFVESLAGKAGALHG
IAQDSTPWIFNEDDTPADYFGEQLAKAGYNYHGNEPMYSGATGEELRADI
YVGVVYYQRLRHMVNDKFQVRSTGPVNSLTMQPVKGRKRHGGIRVGEMER
DALIGHGTSFLLQDRLLNSSDYTQASVCRECGSILTTQQSVPRIGSISTV
CCRRCSMRFEDAKKGEKIFIDDSQIWEDGQGNKFVGGNETTTVAIPFVLK
YLDSELSAMGIRLRYNVEPK
3D structure
PDB5m5y Molecular Structures of Transcribing RNA Polymerase I.
ChainB
Resolution4.0 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 rna B R204 Y717 K924 R183 Y696 K898
BS02 dna B R219 S221 F508 Q511 R198 S200 F487 Q490
BS03 dna B G1062 R1063 K1064 G1036 R1037 K1038
BS04 ZN B C1107 C1128 C1131 C1081 C1102 C1105
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:0032549 ribonucleoside binding
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion 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:5m5y, PDBe:5m5y, PDBj:5m5y
PDBsum5m5y
PubMed27867008
UniProtP22138|RPA2_YEAST DNA-directed RNA polymerase I subunit RPA135 (Gene Name=RPA135)

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