Structure of PDB 6exv Chain A

Receptor sequence

>6exvA (length=1428) Species: 9823 (Sus scrofa)

SACPLRTIKRVQFGVLSPDELKRMSVTEGGIKYPETTEGGRPKLGGLMDP
RQGVIERTGRCQTCAGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCV
CFFCSKLLVDSNNPKIKDILAKSKGQPKKRLTHVYDLCKGKNICEHGGCG
RYQPRIRRSGLELYAEWKKILLSPERVHEIFKRISDEECFVLGMEPRYAR
PEWMIVTVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQLRRNE
QNGAAAHVIAEDVKLLQFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLK
GKEGRVRGNLMGKRVDFSARTVITPDPNLSIDQVGVPRSIAANMTFAEIV
TPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLRFHPKPSDLHLQTGY
KVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVTTPYNA
DFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTA
VRKFTKRDVFLERGEVMNLLMFLSTWDGKVPQPAILKPRPLWTGKQIFSL
IIPGHINCIRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKS
LGTSAGSLVHISYLEMGHDITRLFYSNIQTVINNWLLIEGHTIGIGDSIA
DSKTYQDIQNTIKKAKQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRI
LNDARDKTGSSAQKSLSEYNNFKSMVVSGAKGSKINISQVIAVVGQQNVE
GKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLAGLTPTEFFFHAMGGR
EGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQLRYGED
GLAGESVEFQNLATLKPSNKAFEKKFRFDYTNERALRRTLQEDLVKDVLS
NAHIQNELEREFERMREDREVLRVIFPTGDSKVVLPCNLLRMIWNAQKIF
HINPRLPSDLHPIKVVEGVKELSKKLVIVNGDDPLSRQAQENATLLFNIH
LRSTLCSRRMAEEFRLSGEAFDWLLGEIESKFNQAIAHPGEMVGALAAQS
LGEPATQMTLNTFHYKNVTLGVPRLKELINISKKPKTPSLTVFLLGQSAR
DAERAKDILCRLEHTTLRKVTANTAIYYDPNPQSTVVAEDQEWVNVYYEM
PDFDVARISPWLLRVELDRKHMTDRKLTMEQIAEKINAGFGDDLNCIFND
DNAEKLVLRIRIMNSDENKMDDDVFLRCIESNMLTDMTLQGIEQISKVYM
HLPQTDNKKKIIITEDGEFKALQEWILETDGVSLMRVLSEKDVDPVRTTS
NDIVEIFTVLGIEAVRKALERELYHVISFDGSYVNYRHLALLCDTMTCRG
HLMAITRHGVNRQDTGPLMKCSFEETVDVLMEAAAHGESDPMKGVSENIM
LGQLAPAGTGCFDLLLDAEKCKYGMEIP

3D structure

• PDB: 6exv Cryo-EM structure of a mammalian RNA polymerase II elongation complex inhibited by alpha-amanitin.
• Chain: A
• Resolution: 3.6 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	peptide	A	N742 R749 S782 Q783 V788 G789 Q790 Q791 N792 H839 G842 E845 H1108	N698 R705 S738 Q739 V744 G745 Q746 Q747 N748 H795 G798 E801 H1064
BS02	dna	A	S1131 H1417	S1082 H1358
BS03	rna	A	V264 M266 R430 G498 D499	V220 M222 R386 G454 D455
BS04	dna	A	P323 Q461 Y859 E1433	P279 Q417 Y815 E1374
BS05	ZN	A	C71 C74 H84	C61 C64 H74
BS06	ZN	A	C114 C154	C104 C144
BS07	MG	A	D495 D497	D451 D453

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity

Biological Process

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

External links

• PDB: RCSB:6exv, PDBe:6exv, PDBj:6exv
• PDBsum: 6exv
• PubMed: 29550768
• UniProt: I3LJR4