Structure of PDB 4jk2 Chain D

Receptor sequence
>4jk2D (length=1160) Species: 83333 (Escherichia coli K-12) [Search protein sequence]
LKAQTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLF
CARIFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIEL
ASPTAHIWFLKSLPSRIGLLLDMPLRDIERVLYFESYVVIEGGMTNLERQ
QILTEEQYLDALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLREELNE
TNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDG
GRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALL
DNGRRGRAITGSNKRPLKSLADMIKGGKRVDYSGRSVITVGPYLRLHQCG
LPKKMALELFKPFIYGKLELRGLATTIKAAKKMVEREEAVVWDILDEVIR
EHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMA
VHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRDC
VNAKGEGMVLTGPKEAERLYRSGLASLHARVKVRITEYEKDANGELVAKT
SLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAISKMLNTCYRILGLKPT
VIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHEIISEAEAEVAEIQEQ
FQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQV
SFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGL
NVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGTH
EGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQ
WCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYGRDLARGHIINKGEAIGV
IAAQSIGEPGTQLTMRDITGGLPRVADLFEARRPKEPAILAEISGIVSFG
KETKGKRRLVITPVDGSDPYEEMIPKWRQLNVFEGERVERGDVISDGPEA
PHDILRLRGVHAVTRYIVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATI
VNAGSSDFLEGEQVEYSRVKIANRELEANGKVGATYSRDLLGITKASLAT
ESFISAASFQETTRVLTEAAVAGKRDELRGLKENVIVGRLIPAGTGYAYH
QDRMRRRAAG
3D structure
PDB4jk2 Differential regulation by ppGpp versus pppGpp in Escherichia coli.
ChainD
Resolution4.201 Å
3D
structure
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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 ZN D C70 C85 C63 C78
BS02 ZN D C888 C895 C898 C871 C878 C881
BS03 0O2 D R362 K615 I619 D622 R345 K598 I602 D605
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016779 nucleotidyltransferase activity
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0006351 DNA-templated transcription
GO:0006352 DNA-templated transcription initiation
GO:0006879 intracellular iron ion homeostasis
GO:0009408 response to heat
GO:0031564 transcription antitermination
GO:0032784 regulation of DNA-templated transcription elongation
GO:0036460 cellular response to cell envelope stress
GO:0042128 nitrate assimilation
GO:0044780 bacterial-type flagellum assembly
GO:0046677 response to antibiotic
GO:0048870 cell motility
GO:0071973 bacterial-type flagellum-dependent cell motility
GO:0090605 submerged biofilm formation
GO:2000142 regulation of DNA-templated transcription initiation
Cellular Component
GO:0000345 cytosolic DNA-directed RNA polymerase complex
GO:0000428 DNA-directed RNA polymerase complex
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0008023 transcription elongation factor complex
GO:0016020 membrane

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Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:4jk2, PDBe:4jk2, PDBj:4jk2
PDBsum4jk2
PubMed23620295
UniProtP0A8T7|RPOC_ECOLI DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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