› 4gek

X-ray diffraction
1.5Å resolution

Crystal Structure of wild-type CmoA from E.coli

Released:
DOI: 10.2210/pdb4gek/pdb
PDB entry 4gek coloured by chain, front view.
PDB entry 4gek coloured by chain, side view.
PDB entry 4gek coloured by chain, top view.
Source organism: Escherichia coli str. K-12 substr. MG1655
Primary publication:
Structure-guided discovery of the metabolite carboxy-SAM that modulates tRNA function.
Kim J, Xiao H, Bonanno JB, Kalyanaraman C, Brown S, Tang X, Al-Obaidi NF, Patskovsky Y, Babbitt PC, Jacobson MP, Lee YS, Almo SC
Nature 498 123-6 (2013)
PMID: 23676670

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-111212 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Carboxy-S-adenosyl-L-methionine synthase Chains: A, G
Molecule details ›
Chains: A, G
Length: 261 amino acids
Theoretical weight: 29.54 KDa
Source organism: Escherichia coli str. K-12 substr. MG1655
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: C3T5M2 (Residues: 1-247; Coverage: 100%)
Gene names: A5U30_005145, ACN81_03915, B6R15_000818, BANRA_02526, BE932_05250, BG944_002668, BK292_17305, BKL28_002344, BTQ06_25345, BvCmsSIP010_03846, C0P57_002383, C1Q91_000364, C2M16_13865, C2R31_000352, CF22_000572, CG831_003182, D4N09_01525, D9E49_18530, D9J61_10860, DIV22_08010, DNX30_00535, DTL43_12005, E5H86_07050, E6D34_12055, EAI46_20990, ECs2580, EIA08_13685, EIZ93_04095, EN85_004765, EPS76_23410, EWK56_00565, ExPECSC038_01841, F7F11_18965, F9413_08570, F9461_19995, FGAF848_01880, FORC44_2125, FPI65_11400, FPS11_16980, FZU14_05220, G3W53_19605, G4A38_01515, G4A47_16645, G5603_12890, GAI89_19470, GAJ12_12755, GOP25_01800, GP711_12630, GQM04_22285, GQM13_04200, GQM21_03765, GQN34_00750, GRC73_12365, GRW24_23725, GUC01_04485, H0O72_17710, HHH44_001608, HI055_000647, HIE29_004239, HLZ50_02575, HV209_08900, HVW04_01310, HVW43_01620, HVY77_11010, IFB95_001769, J5U05_000277, NCTC10418_03207, NCTC10764_01555, NCTC10767_03665, NCTC10865_02651, NCTC11341_06106, NCTC7922_01906, NCTC7927_02355, NCTC7928_06142, NCTC8009_04910, NCTC8179_04118, NCTC8333_02537, NCTC8960_04894, NCTC9001_02626, NCTC9044_04826, NCTC9081_00134, NCTC9702_02511, NCTC9706_04302, NCTC9962_04528, NEP60_21650, OGM49_13700, QDW62_10795, cmoA
Sequence domains: Methyltransferase domain
Structure domains: Vaccinia Virus protein VP39

Ligands and Environments

2 bound ligands:
Ligand SO4 3 x SO4
Ligand GEK 2 x GEK
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P21212
Unit cell:
a: 65.314Å b: 78.677Å c: 92.372Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.172 0.171 0.203
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

11 review citations

Naturally occurring modified ribonucleosides.
McCown et al. (2020)
10 more

6 mentions without citation

S-Adenosylmethionine: more than just a methyl donor.
Lee et al. (2023)
5 more