Structure of PDB 8of0 Chain A

Receptor sequence

>8of0A (length=1409) Species: 9823 (Sus scrofa)

DSACPLRTIKRVQFGVLSPDELKRMSVTEGGIKYPETTEGGRPKLGGLMD
PRQGVIERTGRCQTCAGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRC
VCFFCSKLLVDSNNPKIKDILAKSKGQPKKRLTHVYDLCKGKNICEGGGC
GRYQPRIRRSGLELYAEWKHVQEKKILLSPERVHEIFKRISDEECFVLGM
EPRYARPEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINN
QLRRNEQNGAAAHVIAEDVKLLQFHVATMVDNELPGLPRAMQKSGRPLKS
LKQRLKGKEGRVRGNLMGKRVDFSARTVITPDPNLSIDQVGVPRSIAANM
TFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLRFHPKPSDL
HLQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSV
TTPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIV
QDTLTAVRKFTKRDVFLERGEVMNLLMFLSTWDGKVPQPAILKPRPLWTG
KQIFSLIIPGHINCIRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMG
ILCKKSLGTSAGSLVHISYLEMGHDITRLFYSNIQTVINNWLLIEGHTIG
IGDSIADSKTYQDIQNTIKKAKQDVIEVIEKAHNNELEPTPGNTLRQTFE
NQVNRILNDARDKTGSSAQKSLSEYNNFKSMVVSGAKGSKINISQVIAVV
GQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLAGLTPTEFFF
HAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQ
LRYGEDGLAGESVEFQNLATLKPSNKAFEKKFRFDYTNERALRRTLQEDL
VKDVLSNAHIQNELEREFERMREDREVLRVIFPTGDSKVVLPCNLLRMIW
NAQKIFHINPRLPSDLHPIKVVEGVKELSKKLVIVNGDDPLSRQAQENAT
LLFNIHLRSTLCSRRMAEEFRLSGEAFDWLLGEIESKFNQAIAHPGEMVG
ALAAQSLGEPATQMKNVTLGVPRLKELINISKKPKTPSLTVFLLGQSARD
AERAKDILCRLEHTTLRKVTANTAIYYDPNPQSTVVAEDQEWVNVYYISP
WLLRVELDRKHMTDRKLTMEQIAEKINAGFGDDLNCIFNDDKLVLRIRIM
NKMDDDVFLRCIESNMLTDMTLQGIEQISKVYMHLPQTDNKKKIIITEDG
EFKALQEWILETDGVSLMRVLSEKDVDPVRTTSNDIVEIFTVLGIEAVRK
ALERELYHVISFDGSYVNYRHLALLCDTMTCRGHLMAITRHGVNRQDTGP
LMKCSFEETVDVLMEAAAHGESDPMKGVSENIMLGQLAPAGTGCFDLLLD
AEKCKYGME

3D structure

• PDB: 8of0 Structure of transcribing RNA polymerase II-Elongin complex
• Chain: A
• Resolution: 3.05 Å

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	Y145 K149 K1132 H1417	Y136 K140 K1082 H1341
BS02	rna	A	R67 V265 M266 N272 F431 D497 D499	R58 V227 M228 N234 F393 D459 D461
BS03	dna	A	K331 S332 K346 R358 Q461 T854 A855 G858 Y859 R1416 E1433 E1434	K293 S294 K308 R320 Q423 T816 A817 G820 Y821 R1340 E1357 E1358
BS04	MG	A	D495 D497 D499	D457 D459 D461
BS05	ZN	A	C71 C81 H84	C62 C72 H75
BS06	ZN	A	C111 C114 C184	C102 C105 C150

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006351 DNA-templated transcription
• GO:0006366 transcription by RNA polymerase II

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex
• GO:0005634 nucleus
• GO:0031981 nuclear lumen
• GO:0032991 protein-containing complex

External links

• PDB: RCSB:8of0, PDBe:8of0, PDBj:8of0
• PDBsum: 8of0
• PubMed: 37932450
• UniProt: A0A8D1DPV6