Structure of PDB 6j9f Chain C

Receptor sequence

>6j9fC (length=1296) Species: 342109 (Xanthomonas oryzae pv. oryzae MAFF 311018)

SYSFTEKKRIRKDFGKQRSILEVPFLLAIQVDSYREFLDLGLHAALKSVF
PISSYSGNAALEYVGYKLGQPVFDERECRQRGMSYGAPLRVTVRLVIYDR
ESSTKAIKYVKEQEVYLGEIPLMTGNGTFIVNGTERVIVSQLHRSPGVFF
DHDRGKTHSSGKLLYSARIIPYRGSWLDFEFDPKDALFTRIDRRRKLPVS
ILLRALGYNNEEMLAEFFEINTFHIVQLELVPERLRGETLNFDLADGDKV
IVEAGKRITARHVKQLEAAGVAALAVPDDYLVGRILSHDVVDGSTGELLA
NANDEISEDQLTAFRKAGVDAVGTLWVNDLDRGPYLSNTLRIDPTKTQLE
ALVEIYRMMRPGEPPTKEAAQNLFHNLFFTFERYDLSTVGRMKFNRRVGR
KDVLGESVLYDKKYFAERNDEESKRLVAEHTDTSDILEVIKVLTEIRNGR
GVVDDIDHLGNRRVRSVGEMAENVFRVGLVRVERAVKERLSMAESEGLTP
QELINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEVTHKRRVSALGPGGLT
RERAGFEVRDVHPTHYGRVCTIETPEGPNIGLINSLAVFARTNQYGFLET
PYRKVLDGKVSDDVEYLSAIEENEYVIAQANALTDAKNMLTEQFVPCRFQ
GESLLKPPSEVHFMDVSPMQTVSVAAALVPFLEHDDANRALMGANMQRQA
VPTLRSQKPLVGTGIERAVARDSGVTVNALRGGVIEQIDAARIVVKVNEA
EIAGVDIYNLIKYTRSNQNTCINQRPLVNVGDVIARGDVLADGPSTDIGE
LALGQNMLIAFMPWNGYNFEDSILLSERVVEEDRYTTIHIEELTCVARDT
KLGPEEISADIPNVSEQALNRLDESGVVYIGAEVRAGDIMVGKVTPKGSD
VKDSSLRVPPGMDGTVIDVQVFTRDGIEKDKRARQIEENEIKRVKKDFDD
QFRILEAAIYARLRSQIVGKIERAQKQIQAHEKEFEARFADKRGKITQGD
DLAPGVLKMVKVFLAVKRRIQPGDKMAGRHGNKGVVSNVVPVEDMPYMAT
GESVDIVLNPLGVPSRMNIGQILEVHLGWAAKGLGRKIQRMLEAQAAVSE
LRKFLDDIYNHDQRVDLSQFSDEELLNLGKNLIDGVPMATPVFDGASEAE
IKRMLELADLPQSGQTQLYDGRTGEAFDRKTTVGYMHYLKLNHLVDDKMH
ARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVK
SDDVQGRNQMYKNIVDGEHEMVAGMPESFNVLVKEIRSLAIHMELE

3D structure

• PDB: 6j9f Structural basis for transcription antitermination at bacterial intrinsic terminator.
• Chain: C
• Resolution: 3.95 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	C	N144 G1303 K1304 R1311 M1315	N132 G1217 K1218 R1225 M1229
BS02	dna	C	R180 W188 D204 I473 R479 L566 V575	R168 W176 D192 I456 R462 L549 V558
BS03	rna	C	R568 P592 E593 K1106 H1279 S1294 L1301 Q1306	R551 P575 E576 K1025 H1193 S1208 L1215 Q1220

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:6j9f, PDBe:6j9f, PDBj:6j9f
• PDBsum: 6j9f
• PubMed: 31296855
• UniProt: Q2NZX8|RPOB_XANOM DNA-directed RNA polymerase subunit beta (Gene Name=rpoB)