Structure of PDB 4xlr Chain C

Receptor sequence

>4xlrC (length=1117) Species: 271 (Thermus aquaticus)

EIKRFGRIREVIPLPPLTEIQVESYKKALQADVPPEKRENVGIQAAFKET
FPIEEGDKGKGGLVLDFLEYRIGDPPFSQDECREKDLTYQAPLYARLQLI
HKDTGLIKEDEVFLGHLPLMTEDGSFIINGADRVIVSQIHRSPGVYFTPD
PARPGRYIASIIPLPKRGPWIDLEVEASGVVTMKVNKRKFPLVLLLRVLG
YDQETLVRELSAYGDLVQGLLDEAVLAMRPEEAMVRLFTLLRPGDPPKKD
KALAYLFGLLADPKRYDLGEAGRYKAEEKLGVGLSGRTLVRFEDGEFKDE
VFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGELMADQFRVGLARL
ARGVRERMVMGSPDTLTPAKLVNSRPLEAALREFFSRSQLSQFKDETNPL
SSLRHKRRISALGPGGLTRERAGFDVRDVHRTHYGRICPVETPEGANIGL
ITSLAAYARVDALGFIRTPYRRVKNGVVTEEVVYMTASEEDRYTIAQANT
PLEGDRIATDRVVARRRGEPVIVAPEEVEFMDVSPKQVFSLNTNLIPFLE
HDDANRALMGSNMQTQAVPLIRAQAPVVMTGLEERVVRDSLAALYAEEDG
EVVKVDGTRIAVRYEDGRLVEHPLRRYARSNQGTAFDQRPRVRVGQRVKK
GDLLADGPASEEGFLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDFYT
SIHIERYEIEARDTKLGPERITRDIPHLSEAALRDLDEEGIVRIGAEVKP
GDILVGRTSFKGEQEPSPEERLLRSIFGEKARDVKDTSLRVPPGEGGIVV
GRLRLRRGDPGVELKPGVREVVRVFVAQKRKLQVGDKLANRHGNKGVVAK
ILPVEDMPHLPDGTPVDVILNPLGVPSRMNLGQILETHLGLAGYFLGQRY
ISPVFDGATEPEIKELLAEAFNLYFGKRQGEGFGVDKREKEVLARAEKLG
LVSPGKSPEEQLKELFDLGKVVLYDGRTGEPFEGPIVVGQMFIMKLYHMV
EDKMHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQE
MLTIKSDDIEGRNAAYQAIIKGEDVPEPSVPESFRVLVKELQALALDVQT
LDEKDNPVDIFEGLASK

3D structure

• PDB: 4xlr CarD uses a minor groove wedge mechanism to stabilize the RNA polymerase open promoter complex.
• Chain: C
• Resolution: 4.3 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	R142 I163 P166 K167 G169 P170 W171 N187 R243 D246 P247 Y256 L260 R266 D326 R331 L418 E421 R422 V427	R141 I162 P165 K166 G168 P169 W170 N186 R242 D245 P246 Y255 L259 R265 D325 R330 L417 E420 R421 V426
BS02	dna	C	R388 K1004 G1023 K1024 Q1030 R1031 M1035	R387 K1003 G1022 K1023 Q1029 R1030 M1034
BS03	rna	C	R420 P444 K838 K846 H999	R419 P443 K837 K845 H998

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:4xlr, PDBe:4xlr, PDBj:4xlr
• PDBsum: 4xlr
• PubMed: 26349034
• UniProt: Q9KWU7|RPOB_THEAQ DNA-directed RNA polymerase subunit beta (Gene Name=rpoB)