Structure of PDB 8dh5 Chain B

Receptor sequence

>8dh5B (length=858) Species: 10760 (Escherichia phage T7)

MNTINIAKNDFSDIELAAIPFNTLADHYGERLAREQLALEHESYEMGEAR
FRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEEVKAKRGKRP
TAFQFLQEIKPEAVAYITIKTTLACLTSADNTTVQAVASAIGRAIEDEAR
FGRIRDLEAKHFKKNVEEQLNKRVGHVYKKAFMQVVEADMLSKGLLGGEA
WSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQNAGVVGQDSETIELAPEY
AEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTH
SKKALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVE
DIPAIEALTAWKRAAAAVYRKDKARKSRRISLEFMLEQANKFANHKAIWF
PYNMDWRGRVYAVSMFNPQGNDMTKGLLTLAKGKPIGKEGYYWLKIHGAN
CAGVDKVPFPERIKFIEENHENIMACAKSPLENTWWAEQDSPFCFLAFCF
EYAGVQHHGLSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSET
VQDIYGIVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKAL
AGQWLAYGVTRSVTKRSVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLM
FTQPNQAAGYMAKLIWESVSVTVVAAVEAMNWLKSAAKLLAAEVKDKKTG
EILRKRCAVHWVTPDGFPVWQEYKKPIQTRLNLMFLGQFRDSEIDAHKQE
SGIAPNFVHSQDGSHLRKTVVWAHEKYGIESFALIHDSFGTIPADAANLF
KAVRETMVDTYESCDVLADFYDQFADQLHESQLDKMPALPAKGNLNLRDI
LESDFAFA

3D structure

• PDB: 8dh5 Structural basis of transcription recognition of a hydrophobic unnatural base pair by T7 RNA polymerase.
• Chain: B
• Resolution: 2.85 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	B	R50 R57 E63 R298 H300 D421 W422 R423 Y427 T636 Y639 S641 F644 Y739 H772 P780	R50 R57 E63 R298 H300 D405 W406 R407 Y411 T620 Y623 S625 F628 Y723 H747 P755
BS02	rna	B	N171 K172 R386 K389 A390 S393 R394 R425 G436 N437 Y639 F755 I810 D812	N171 K172 R370 K373 A374 S377 R378 R409 G420 N421 Y623 F739 I785 D787
BS03	dna	B	K704 A771 H772 E775	K688 A746 H747 E750
BS04	ATP	B	K472 Y571 R627 K631 R632 M635 Y639	K456 Y555 R611 K615 R616 M619 Y623

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0034062 5'-3' RNA polymerase activity

Biological Process

• GO:0006351 DNA-templated transcription
• GO:0019083 viral transcription
• GO:0039695 DNA-templated viral transcription

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex

External links

• PDB: RCSB:8dh5, PDBe:8dh5, PDBj:8dh5
• PDBsum: 8dh5
• PubMed: 36635281
• UniProt: P00573|RPOL_BPT7 T7 RNA polymerase (Gene Name=1)