Structure of PDB 1iw7 Chain M

Receptor sequence

>1iw7M (length=1119) Species: 274 (Thermus thermophilus)

MEIKRFGRIREVIPLPPLTEIQVESYRRALQADVPPEKRENVGIQAAFRE
TFPIEEEDKGKGGLVLDFLEYRLGEPPFPQDECREKDLTYQAPLYARLQL
IHKDTGLIKEDEVFLGHIPLMTEDGSFIINGADRVIVSQIHRSPGVYFTP
DPARPGRYIASIIPLPKRGPWIDLEVEPNGVVSMKVNKRKFPLVLLLRVL
GYDQETLARELGAYGELVQGLMDESVFAMRPEEALIRLFTLLRPGDPPKR
DKAVAYVYGLIADPRRYDLGEAGRYKAEEKLGIRLSGRTLARFEDGEFKD
EVFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGELMTDQFRVGLAR
LARGVRERMLMGSEDSLTPAKLVNSRPLEAAIREFFSRSQLSQFKDETNP
LSSLRHKRRISALGPGGLTRERAGFDVRDVHRTHYGRICPVETPEGANIG
LITSLAAYARVDELGFIRTPYRRVVGGVVTDEVVYMTATEEDRYTIAQAN
TPLEGNRIAAERVVARRKGEPVIVSPEEVEFMDVSPKQVFSVNTNLIPFL
EHDDANRALMGSNMQTQAVPLIRAQAPVVMTGLEERVVRDSLAALYAEED
GEVAKVDGNRIVVRYEDGRLVEYPLRRFYRSNQGTALDQRPRVVVGQRVR
KGDLLADGPASENGFLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDFY
TSIHIERYEIEARDTKLGPERITRDIPHLSEAALRDLDEEGVVRIGAEVK
PGDILVGRTSFKGESEPTPEERLLRSIFGEKARDVKDTSLRVPPGEGGIV
VRTVRLRRGDPGVELKPGVREVVRVYVAQKRKLQVGDKLANRHGNKGVVA
KILPVEDMPHLPDGTPVDVILNPLGVPSRMNLGQILETHLGLAGYFLGQR
YISPIFDGAKEPEIKELLAQAFEVYFGKRKGEGFGVDKREVEVLRRAEKL
GLVTPGKTPEEQLKELFLQGKVVLYDGRTGEPIEGPIVVGQMFIMKLYHM
VEDKMHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQ
EMLTLKSDDIEGRNAAYEAIIKGEDVPEPSVPESFRVLVKELQALALDVQ
TLDEKDNPVDIFEGLASKR

3D structure

• PDB: 1iw7 Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 A resolution
• Chain: M
• Resolution: 2.6 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	MG	M	R744 G746	R744 G746
BS02	MG	M	R939 Y975 G980	R939 Y975 G980
BS03	MG	M	H1006 F1027 G1028	H1006 F1027 G1028
BS04	MG	M	E585 R589 Y596	E585 R589 Y596
BS05	MG	M	G215 E216 V218	G215 E216 V218
BS06	MG	M	S286 L290 K299	S286 L290 K299
BS07	MG	M	G927 K928	G927 K928
BS08	MG	M	L260 I261	L260 I261
BS09	MG	M	A1046 L1049	A1046 L1049
BS10	MG	M	Y202 L304	Y202 L304
BS11	MG	M	L328 F466	L328 F466
BS12	MG	M	H102 E364 D365	H102 E364 D365
BS13	MG	M	L1102 D1106 N1107	L1102 D1106 N1107
BS14	MG	M	N41 Q45 R49	N41 Q45 R49
BS15	MG	M	P400 P659	P400 P659
BS16	MG	M	K930 G931	K930 G931
BS17	MG	M	R808 R820	R808 R820
BS18	MG	M	E1068 A1069	E1068 A1069

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003899 DNA-directed 5'-3' RNA polymerase activity
• GO:0016779 nucleotidyltransferase activity
• GO:0032549 ribonucleoside binding
• GO:0034062 5'-3' RNA polymerase activity

Biological Process

• GO:0006351 DNA-templated transcription

Cellular Component

• GO:0000428 DNA-directed RNA polymerase complex

External links

• PDB: RCSB:1iw7, PDBe:1iw7, PDBj:1iw7
• PDBsum: 1iw7
• PubMed: 12000971
• UniProt: Q8RQE9|RPOB_THET8 DNA-directed RNA polymerase subunit beta (Gene Name=rpoB)