Structure of PDB 8dh4 Chain B

Receptor sequence

>8dh4B (length=856) Species: 10760 (Escherichia phage T7)

MNTINIAKNDFSDIELAAIPFNTLADHYGERLAREQLALEHESYEMGEAR
FRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEEVKAKRGKRP
TAFQFLQEIKPEAVAYITIKTTLACLTSADNTTVQAVASAIGRAIEDEAR
FGRIRDLEAKHFKKNVEEQLNKRVGHVYKKAFMQVVEADMLSKGLLGGEA
WSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQNAGVVGQDSETIELAPEY
AEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTH
SKKALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVE
DIPAIEALTAWKRAAAAVYRKDKARKSRRISLEFMLEQANKFANHKAIWF
PYNMDWRGRVYAVSMFNPQGNDMTKGLLTLAKGKPIGKEGYYWLKIHGAN
CAGVDKVPFPERIKFIEENHENIMACAKSPLENTWWAEQDSPFCFLAFCF
EYAGVQHHGLSYNCSLPLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSET
VQDIYGIVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKAL
AGQWLAYGVTRSVTKRSVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLM
FTQPNQAAGYMAKLIWESVSVTVVAAVEAMNWLKSAAKLLAAEVKDKKTG
EILRKRCAVHWVTPDGFPVWQEYKKPIQTRLNLMFLGQDSEIDAHKQESG
IAPNFVHSQDGSHLRKTVVWAHEKYGIESFALIHDSFGTIPADAANLFKA
VRETMVDTYESCDVLADFYDQFADQLHESQLDKMPALPAKGNLNLRDILE
SDFAFA

3D structure

• PDB: 8dh4 Structural basis of transcription recognition of a hydrophobic unnatural base pair by T7 RNA polymerase.
• Chain: B
• Resolution: 2.8 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 R423 Y427 T636 Y639 S641 F644 Y739 H772 P780 H784	R50 R57 E63 R298 R407 Y411 T620 Y623 S625 F628 Y723 H745 P753 H757
BS02	rna	B	K71 N171 R386 K389 A390 R394 R425 G436 N437 I810 H811 D812	K71 N171 R370 K373 A374 R378 R409 G420 N421 I783 H784 D785
BS03	dna	B	K679 K704	K663 K688
BS04	S96	B	K472 D537 Y571 R627 K631 R632 Y639	K456 D521 Y555 R611 K615 R616 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:8dh4, PDBe:8dh4, PDBj:8dh4
• PDBsum: 8dh4
• PubMed: 36635281
• UniProt: P00573|RPOL_BPT7 T7 RNA polymerase (Gene Name=1)