Structure of PDB 1k83 Chain A

Receptor sequence
>1k83A (length=1366) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
QYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPEKIGGLNDPRLGSIDR
NLKCQTCQEGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKL
LLDEHNELMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVS
RGGCGNTQPTIRKDGLKLVGSWKKEPELRVLSTEEILNIFKHISVKDFTS
LGFNEVFSRPEWMILTCLPVPPPPVRDDLTFKLADILKANISLETLEHNG
APHHAIEEAESLLQFHVATYMDNDIAGQSIRARLKGKEGRIVDFSARTVI
SGDPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAK
YVIRDSGDRIDLRYSKRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKM
SMMAHRVKVIPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSEETRAELSQ
LCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYWV
PDWDGVIPTPAIIKPKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDN
GMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVV
NFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLT
AKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKG
SFINIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENS
YLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYD
NTTRNSLGNVIQFIYGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLN
TDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFVDGEAN
WPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGK
NEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQF
LRSVVHPGEMVGVLAAQSIGEPATQMTLKKVTSGVPRLKEILNVAKNMKT
PSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVI
PEDEEIIQLHFSQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDL
FVIWSEDNDEKLIIRCRVVAEEDHMLKKIENTMLENITLRGVENIERVVM
MKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFID
IMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSV
TRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMA
PIGTGAFDVMIDEESL
3D structure
PDB1k83 Structural Basis of Transcription: Alpha-Amanitin-RNA Polymerase II Cocrystal at 2.8 A Resolution.
ChainA
Resolution2.8 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) D481 D483 D485
Catalytic site (residue number reindexed from 1) D428 D430 D432
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 peptide A V719 R726 I756 Q760 G766 Q767 Q768 S769 G819 E822 V666 R673 I703 Q707 G713 Q714 Q715 S716 G766 E769
BS02 ZN A C107 C148 C167 C94 C135 C154
BS03 ZN A C67 C77 H80 C54 C64 H67
BS04 MN A D481 D483 D485 D428 D430 D432
Gene Ontology
Molecular Function
GO:0001055 RNA polymerase II activity
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0003968 RNA-dependent 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
Biological Process
GO:0001172 RNA-templated transcription
GO:0006351 DNA-templated transcription
GO:0006366 transcription by RNA polymerase II
GO:0006367 transcription initiation at RNA polymerase II promoter
GO:0006368 transcription elongation by RNA polymerase II
GO:0019985 translesion synthesis
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex
GO:0005634 nucleus
GO:0005665 RNA polymerase II, core complex
GO:0005739 mitochondrion
GO:0010494 cytoplasmic stress granule

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:1k83, PDBe:1k83, PDBj:1k83
PDBsum1k83
PubMed11805306
UniProtP04050|RPB1_YEAST DNA-directed RNA polymerase II subunit RPB1 (Gene Name=RPO21)

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