Het-PDB Navi2 (PDB: 6VCL)

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Ligands
Code	Name	Link
0O2	Guanosine 5'-(tetrahydrogen triphosphate) 3'-(trihydrogen diphosphate)	PoSSuM
CL	Chloride ion	PoSSuM
F	Fluoride ion	PoSSuM
GOL	Glycerol	PoSSuM
MG	Magnesium ion	PoSSuM

Non-standard Residues
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Glycosylation
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Download interaction data: 6VCL

Code :

6VCL PDBj RCSB PDB PDBe

Header :

RNA BINDING PROTEIN/ISOMERASE

Title :

Crystal structure of E.coli RppH-DapF in complex with pppGpp, Mg2+ and F-

Release Data :

2020-02-05

Compound :

mol_id	molecule	chains	synonym
1	Diaminopimelate epimerase	A	DAP epimerase,PLP-independent amino acid racemase
	ec: 5.1.1.7 mutation: R36A, Y268A

mol_id	molecule	chains	synonym
2	RNA pyrophosphohydrolase	B	(Di)nucleoside polyphosphate hydrolase,Ap5A pyrophosphatase
	ec: 3.6.1.- mutation: Q159A, E160A

Source :

mol_id	organism_scientific	expression_system
1	Escherichia coli (strain K12) (taxid:83333)	Escherichia coli BL21(DE3) (taxid:469008)
	strain: K12 gene: dapF, b3809, JW5592

mol_id	organism_scientific	expression_system
2	Escherichia coli (strain K12) (taxid:83333)	Escherichia coli BL21(DE3) (taxid:469008)
	strain: K12 gene: rppH, nudH, ygdP, b2830, JW2798

Authors :

Gao, A., Vasilyev, N., Kaushik, A., Duan, W., Serganov, A.

Keywords :

RNA degradation, RNA BINDING PROTEIN, RNA BINDING PROTEIN-ISOMERASE complex

Exp. method :

X-RAY DIFFRACTION ( 2.06 Å )

Citation :

Principles of RNA and nucleotide discrimination by the RNA processing enzyme RppH.

Gao, A.,Vasilyev, N.,Kaushik, A. et al.
(2020) Nucleic Acids Res. 48 : 3776 - 3788

Chain :

UniProt :

P0A6K1 (DAPF_ECOLI)

Reaction:	EC:	Evidence:
Reaction:	Physiological Direction:	Evidence:
(2S,6S)-2,6-diaminoheptanedioate = meso-2,6- diaminoheptanedioate	5.1.1.7	PubMed:3042781, PubMed:6378903
	-	PubMed:3042781, PubMed:6378903

PDB ID: 6VCL