Brand  (β version)

PDB ID: 6KQD

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Ligands
Code Name Style Show Link
MG Magnesium ion PoSSuM
ZN Zinc ion PoSSuM
DG 2'-deoxyguanosine-5'-monophosphate PoSSuM
Non-standard Residues
Code Name Show
Glycosylation
Code Name Emphasize
Modification
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Structure summary

Code : 6KQD   PDBj   RCSB PDB   PDBe
Header : TRANSCRIPTION
Title : Thermus thermophilus initial transcription complex comprising sigma A and 5'-OH RNA of 3 nt
Release Data : 2020-03-11
Compound :
mol_id molecule chains synonym
1 DNA-directed RNA polymerase subunit alpha A,B,K,L RNAP subunit alpha,RNA polymerase subunit alpha,Transcriptase subunit alpha
ec: 2.7.7.6
mol_id molecule chains synonym
2 DNA-directed RNA polymerase subunit beta C,M RNAP subunit beta,RNA polymerase subunit beta,Transcriptase subunit beta
ec: 2.7.7.6
mol_id molecule chains synonym
3 DNA-directed RNA polymerase subunit beta' D,N RNAP subunit beta',RNA polymerase subunit beta',Transcriptase subunit beta'
ec: 2.7.7.6
mol_id molecule chains synonym
4 DNA-directed RNA polymerase subunit omega E,O RNAP omega subunit,RNA polymerase omega subunit,Transcriptase subunit omega
ec: 2.7.7.6
mol_id molecule chains
5 RNA polymerase sigma factor SigA F,P
mol_id molecule chains
6 DNA (5'-D(*CP*CP*T*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*CP*CP*AP*GP*GP*G)-3') G,Q
mol_id molecule chains
7 DNA (5'-D(*TP*AP*TP*AP*AP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*AP*GP*G*)-3') H,R
mol_id molecule chains
8 RNA (5'-R(*GP*GP*A)-3') I,S
Source :
mol_id organism_scientific
1 Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)  (taxid:300852)
strain: HB8 / ATCC 27634 / DSM 579
mol_id organism_scientific
2 Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)  (taxid:300852)
strain: HB8 / ATCC 27634 / DSM 579
mol_id organism_scientific
3 Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)  (taxid:300852)
strain: HB8 / ATCC 27634 / DSM 579
mol_id organism_scientific
4 Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)  (taxid:300852)
strain: HB8 / ATCC 27634 / DSM 579
mol_id organism_scientific expression_system
5 Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)  (taxid:300852) Escherichia coli BL21(DE3)  (taxid:469008)
strain: HB8 / ATCC 27634 / DSM 579
gene: sigA, TTHA0532
mol_id organism_scientific
6 Synthetic construct  (taxid:32630)
synthetic: yes
mol_id organism_scientific
7 Synthetic construct  (taxid:32630)
synthetic: yes
mol_id organism_scientific
8 Synthetic construct  (taxid:32630)
synthetic: yes
Authors : Zhang, Y., Li, L., Ebright, R.H.
Keywords : Thermus thermophilus, RNA polymerase, initiation transcription complex, 3nt RNA, TRANSCRIPTION
Exp. method : X-RAY DIFFRACTION ( 3.3000 Å )
Citation :

RNA extension drives a stepwise displacement of an initiation-factor structural module in initial transcription.

Li, L.,Molodtsov, V.,Lin, W.  et al.
(2020)  Proc.Natl.Acad.Sci.USA  117 : 5801 - 5809

PubMed: 32127479
DOI: 10.1073/pnas.1920747117

Reaction

Chain : A, B, K, L
UniProt : Q5SHR6 (RPOA_THET8)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 -
-
Chain : C, M
UniProt : Q8RQE9 (RPOB_THET8)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 HAMAP-Rule:MF_01321
-
Chain : D, N
UniProt : Q8RQE8 (RPOC_THET8)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 HAMAP-Rule:MF_01322
-
Chain : E, O
UniProt : Q8RQE7 (RPOZ_THET8)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 HAMAP-Rule:MF_00366
-
Chain : F, P
UniProt : Q5SKW1 (Q5SKW1_THET8)
Reaction : -