Structure of PDB 5w66 Chain B

Receptor sequence
>5w66B (length=1178) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence]
RTADFRTLERESRFINPPKDKSAFPLLQEAVQPHIGSFNALTEGPDGGLL
NLGVKDIGEKVIFDGKPLNSNSGYLGNKLSVSVEQVSIAKPMSNDGVSSA
VERKVYPSESRQRLTSYRGKLLLKLKWSVNNGEENLFEVRDCGGLPVMLQ
SNRCHLNKMSPYELVQHKEESDEIGGYFIVNGIEKLIRMLIVQRRNHPMA
IIRPSFANRGASYSHYGIQIRSVRPDQTSQTNVLHYLNDGQVTFRFSWRK
NEYLVPVVMILKALCHTSDREIFDGIIGNDVKDSFLTDRLELLLRGFKKR
YPHLQNRTQVLQYLGDKFRVVFQASPDQSDLEVGQEVLDRIVLVHLGKDG
SQDKFRMLLFMIRKLYSLVAGECSPDNPDATQHQEVLLGGFLYGMILKEK
IDEYLQNIIAQVRMDINRGMAINFKDKRYMSRVLMRVNENIGSKMQYFLS
TGNLVSQSGLDLQQVSGYTVVAEKINFYRFISHFRMVHRGSFFAQLKTTT
VRKLLPESWGFLCPVHTPDGSPCGLLNHFAHKCRISTQQSDVSRIPSILY
SLGVAPASHTFAAGPSLCCVQIDGKIIGWVSHEQGKIIADTLRYWKVEGK
TPGLPIDLEIGYVPPSTRGQYPGLYLFGGHSRMLRPVRYLPLDKEDIVGP
FEQVYMNIAVTPQEIQNNVHTHVEFTPTNILSILANLTPFSDFNQSPRNM
YQCQMGKQTMGTPGVALCHRSDNKLYRLQTGQTPIVKANLYDDYGMDNFP
NGFNAVVAVISYTGYDMDDAMIINKSADERGFGYGTMYKTEKVDLALNRN
RGDPITQHFGFGNDEWPKEWLEKLDEDGLPYIGTYVEEGDPICAYFDDTL
NKTKIKTYHSSEPAYIEEVNLIGDESNKFQELQTVSIKYRIRRTPQIGDK
FSSRHGQKGVCSRKWPTIDMPFSETGIQPDIIINPHAFPSRMTIGMFVES
LAGKAGALHGIAQDSTPWIFNEDDTPADYFGEQLAKAGYNYHGNEPMYSG
ATGEELRADIYVGVVYYQRLRHMVNDKFQVRSTGPVNSLTMQPVKGRKRH
GGIRVGEMERDALIGHGTSFLLQDRLLNSSDYTQASVCRECGSILTTQQS
VPRIGSISTVCCRRCSMRFEDAKKLLTEDGEKIFIDDSQIWEDGQGNKFV
GGNETTTVAIPFVLKYLDSELSAMGIRL
3D structure
PDB5w66 Structural mechanism of ATP-independent transcription initiation by RNA polymerase I.
ChainB
Resolution3.9 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 Q720 K916 K924 H1038 R188 Q704 K900 K908 H1022
BS02 dna B R219 S221 Q479 F508 K513 R815 R817 R203 S205 Q463 F492 K497 R799 R801
BS03 dna B Y463 G1062 R1063 I1069 R1070 G1072 M1074 Y447 G1046 R1047 I1053 R1054 G1056 M1058
BS04 ZN B C1104 C1107 C1088 C1091
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:5w66, PDBe:5w66, PDBj:5w66
PDBsum5w66
PubMed28623663
UniProtP22138|RPA2_YEAST DNA-directed RNA polymerase I subunit RPA135 (Gene Name=RPA135)

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