Structure of PDB 8ap1 Chain A Binding Site BS03

Receptor Information
>8ap1 Chain A (length=918) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
INFFEIYNSLPTLEEKKAFESALNIFNQDRQKVLENRATEAARERWKHDF
EEAKARKNLNVKLWKWYNEMLPLVKEEINHCRSLLSEKLSDKKGLNKVDT
NRLGYGPYLTLIDPGKMCVITILELLKLNSTGGVIEGMRTARAVISVGKA
IEMEFRSEQVLKSESQAKILWPQSIRARIGSVLISMLIQVAKVSVQGVDP
VTKAKVHGEAPAFAHGYQYHNGSKLGVLKIHKTLIRQLNGERLIASVQPQ
LLPMLVEPKPWVNWRSGGYHYTQSTLLRTKDSPEQVAYLKAASDNGDIDR
VYDGLNVLGRTPWTVNRKVFDVVSQVWNKGEGFLDIPGAQDEMVLPPAPP
KNSDPSILRAWKLQVKTIANKFSSDRSNRCDTNYKLEIARAFLGEKLYFP
HNLDFRGRAYPLSPHFNHLGNDMSRGLLIFWHGKKLGPSGLKWLKIHLSN
LFGFDKLPLKDRVAFTESHLQDIKDSAENPLTGDRWWTTADKPWQALATC
FELNEVMKMDNPEEFISHQPVHQDGTCNGLQHYAALGGDVEGATQVNLVP
SDKPQDVYAHVARLVQKRLEIAAEKGDENAKILKDKITRKVVKQTVMTNV
YGVTYVGATFQIAKQLSPIFDDRKESLDFSKYLTKHVFSAIRELFHSAHL
IQDWLGESAKRISKSIRLDVDEKSFKNGNKPDFMSSVIWTTPLGLPIVQP
YREESKKQVETNLQTVFISDPFAVNPVNARRQKAGLPPNFIHSLDASHML
LSAAECGKQGLDFASVHDSYWTHASDIDTMNVVLREQFIKLHEVDLVLRL
KEEFDQRYKNYVKIGKLKRSTDLAQKIIRIRKDLSRKLGRSTTLADEIYF
EKKRQELLNSPLIEDRNVGEKMVTTVSLFEDITDLDAMSVLLPLRLPEIP
PKGDFDVTVLRNSQYFFS
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain8ap1 Chain A Residue 1401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8ap1 Structures illustrate step-by-step mitochondrial transcription initiation
Resolution3.47 Å
Binding residue
(original residue number in PDB)		D945 G946 D1189
Binding residue
(residue number reindexed from 1)		D524 G525 D768
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Gene Ontology
Molecular Function
GO:0001018 mitochondrial promoter sequence-specific DNA binding
GO:0003677 DNA binding
GO:0003896 DNA primase activity
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0016779 nucleotidyltransferase activity
GO:0034062 5'-3' RNA polymerase activity
Biological Process
GO:0000002 mitochondrial genome maintenance
GO:0006269 DNA replication, synthesis of primer
GO:0006351 DNA-templated transcription
GO:0006390 mitochondrial transcription
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix
GO:0034245 mitochondrial DNA-directed RNA polymerase complex
GO:0042645 mitochondrial nucleoid
GO:0043231 intracellular membrane-bounded organelle

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8ap1, PDBe:8ap1, PDBj:8ap1
PDBsum8ap1
PubMed37821701
UniProtP13433|RPOM_YEAST DNA-directed RNA polymerase, mitochondrial (Gene Name=RPO41)

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