Structure of PDB 3e3j Chain B

Receptor sequence

>3e3jB (length=833) Species: 10760 (Escherichia phage T7)

KNDFSDIELAAIPFNTLADHYGERLAREQLALEHESYEMGEARFRKMFLI
TTLLPKMIARINDWFEEVKAKRGKRPTAFQFLQEIKPEAVAYITIKTTLA
CLTSADNTTVQAVASAIGRAIEDEARFGRIRDLEAKHFKKNVKAFMQVVE
ADMLSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQNAGVV
GQDSETIELAPEYAEAIAGISLMFQPCVVPPKPWTGITGGGYWANGRRPL
ALVRTHSKKALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKW
KHCPVEDIPAIEREELPMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSR
RISLEFMLEQANKFANHKAIWFPYNMDWRGRVYAVSMFNPQGNDMTKGLL
TLAKGKPIGKEGYYWLKIHGANCAGVDKVPFPERIKFIEENHENIMACAK
SPLENTWWAEQDSPFCFLAFCFEYAGVQHHGLSYNCSLPLAFDGSCSGIQ
HFSAMLRDEVGGRAVNLLPSETVQDIYGIVAKKVNEILQADAINGTDNEV
VTVTISEKVKLGTKALAGQWLAYGVTRSVTKRSVMTLAYGSKEFGFRQQV
LEDTIQPAIDSGKGLMFTQPNQAAGYMAKLIWESVSVTVVAAVEAMNWLK
SAAKLLAAEVKDKKTGEILRKRCAVHWVTPDGFPVWQEYKKPIQTRLNLM
FLGQFRLQPTINTNKDSEIDAHKQESGIAPNFVHSQDGSHLRKTVVWAHE
KYGIESFALIHDSFGTIPADAANLFKAVRETMVDTYESCDVLADFYDQFA
DQLHESQLDKMPALPAKGNLNLRDILESDFAFA

3D structure

• PDB: 3e3j The structure of a transcribing t7 RNA polymerase in transition from initiation to elongation
• Chain: B
• Resolution: 6.7 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	G97 K98 R99 E242 R298 F400 W422 M431 Y639 Q744 R746 F755 R756 L757 Q758 P759 T760 H784	G73 K74 R75 E205 R254 F356 W378 M387 Y589 Q694 R696 F705 R706 L707 Q708 P709 T710 H734
BS02	dna	B	K95 R96 G97 K98 R99 P100 T101 H211 F644 N748 H772	K71 R72 G73 K74 R75 P76 T77 H174 F594 N698 H722
BS03	rna	B	K389 S393 S541 Y639 I810 H811 D812	K345 S349 S497 Y589 I760 H761 D762

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:3e3j, PDBe:3e3j, PDBj:3e3j
• PDBsum: 3e3j
• PubMed: 18948533
• UniProt: P00573|RPOL_BPT7 T7 RNA polymerase (Gene Name=1)