| Structural highlights
4jkr is a 12 chain structure with sequence from Escherichia coli bw2952, Escherichia coli dh1, Escherichia coli k-12 and Escherichia coli o104:h4 str. 2009el-2071. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Ligands: | , , |
| Gene: | ECDH10B_3470, O3O_23125, rpoA (Escherichia coli O104:H4 str. 2009EL-2071), ECDH1ME8569_3846, EcDH1_4008, O3K_23925, rpoB (Escherichia coli DH1), BWG_3647, O3O_01425, rpoC (Escherichia coli BW2952), ECDH1ME8569_3534, EcDH1_0056, O3O_25075, rpoZ (Escherichia coli DH1), alt, b3067, JW3039, rpoD (Escherichia coli K-12) |
| Activity: | DNA-directed RNA polymerase, with EC number 2.7.7.6 |
| Resources: | FirstGlance, OCA, RCSB, PDBsum |
Publication Abstract from PubMed
Guanosine tetraphosphate (ppGpp) is an alarmone that enables bacteria to adapt to their environment. It has been known for years that ppGpp acts directly on RNA polymerase (RNAP) to alter the rate of transcription, but its exact target site is still under debate. Here we report a crystal structure of Escherichia coli RNAP holoenzyme in complex with ppGpp at 4.5 A resolution. The structure reveals that ppGpp binds at an interface between the shelf and core modules on the outer surface of RNAP, away from the catalytic center and the nucleic acid binding path. Bound ppGpp connects these two pivotal modules that may restrain the opening of the RNAP cleft. A detailed mechanism of action of ppGpp is proposed in which ppGpp prevents the closure of the active center that is induced by the binding of NTP, which could slow down nucleotide addition cycles and destabilize the initial transcription complexes.
The Mechanism of E. coli RNA Polymerase Regulation by ppGpp Is Suggested by the Structure of their Complex.,Zuo Y, Wang Y, Steitz TA Mol Cell. 2013 May 9;50(3):430-6. doi: 10.1016/j.molcel.2013.03.020. Epub 2013, Apr 25. PMID:23623685[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Zuo Y, Wang Y, Steitz TA. The Mechanism of E. coli RNA Polymerase Regulation by ppGpp Is Suggested by the Structure of their Complex. Mol Cell. 2013 May 9;50(3):430-6. doi: 10.1016/j.molcel.2013.03.020. Epub 2013, Apr 25. PMID:23623685 doi:10.1016/j.molcel.2013.03.020
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