B6db families : 2_1_2

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2.1.2.1

Activity

2.1.2.1

Description

Glycine hydroxymethyltransferase.

Notes

Very distinct family of PLP enzymes, diffused in the three kingdoms of life.
In eukarya, the mitochondrial isozymes are more similar to the cytosolic isozymes than they are to hydroxymethyltransferases from bacteria and archaea.

PDB

1BJ4;1DFO;1EJI;1EQB;1KKJ;1KKP;1KL2;

PLP Fold Type

PLP-dependent Domain

Domain alignment
Domain hmm

Fold type I

Number of sequences

Sequences in seed alignment

Archaea	GLYA_METTM (Methanobacterium thermoautotrophicum (strain Marburg / DSM 2133)); GLYA_ARCFU (Archaeoglobus fulgidus); GLYA_AERPE (Aeropyrum pernix); GLYA_METJA (Methanococcus jannaschii); GLYA_THEAC (Thermoplasma acidophilum); GLYA_METTH (Methanobacterium thermoautotrophicum); GLYA_SULSO (Sulfolobus solfataricus); GLYA_PYRAB (Pyrococcus abyssi);
Bacteria	GLYA_MYCPN (Mycoplasma pneumoniae); GLYA_PASMU (Pasteurella multocida); GLA1_MYCTU (Mycobacterium tuberculosis); GLYA_SALTY (Salmonella typhimurium); GLYA_THEMA (Thermotoga maritima); GLYA_NEIMB (Neisseria meningitidis (serogroup B)); GLYA_HAEIN (Haemophilus influenzae); GLYA_ACIRA (Acinetobacter radioresistens); GLYA_SYNY3 (Synechocystis sp. (strain PCC 6803)); S30382 (Bacillus stearothermophilus); GLYA_CHLTR (Chlamydia trachomatis); GLYA_HYPME (Hyphomicrobium methylovorum); GLYA_ACTAC (Actinobacillus actinomycetemcomitans); GLYA_METEX (Methylobacterium extorquens); GLYA_BUCAI (Buchnera aphidicola (subsp. Acyrthosiphon pisum)); GLYA_HELPJ (Helicobacter pylori J99); GLYA_MYCGE (Mycoplasma genitalium); GLYA_BRAJA (Bradyrhizobium japonicum); GLYA_BORBU (Borrelia burgdorferi); GLYA_NEIGO (Neisseria gonorrhoeae); GLYA_TREPA (Treponema pallidum); GLYA_HELPY (Helicobacter pylori); GLYA_CAMJE (Campylobacter jejuni); GLYA_CHLPN (Chlamydia pneumoniae); GLYA_RICPR (Rickettsia prowazekii); GLYA_LACLA (Lactococcus lactis (subsp. lactis)); GLYA_ECOLI (Escherichia coli); GLYA_BACSU (Bacillus subtilis); GLYA_AQUAE (Aquifex aeolicus); GLYA_STRCO (Streptomyces coelicolor); GLYA_CORGL (Corynebacterium glutamicum); GLA2_MYCTU (Mycobacterium tuberculosis);
Fungi	GLYC_YEAST (Saccharomyces cerevisiae); GLYC_ENCCU (Encephalitozoon cuniculi); GLYD_SCHPO (Schizosaccharomyces pombe); GLYM_YEAST (Saccharomyces cerevisiae); GLYM_CANAL (Candida albicans); GLYC_NEUCR (Neurospora crassa); GLYC_SCHPO (Schizosaccharomyces pombe); GLYC_CANAL (Candida albicans);
Metazoa	GLYM_HUMAN (Homo sapiens); GLYC_RABIT (Oryctolagus cuniculus); GLYM_RABIT (Oryctolagus cuniculus); GLYC_SHEEP (Ovis aries); GLYC_HUMAN (Homo sapiens); GLYC_MOUSE (Mus musculus); GLYC_CAEEL (Caenorhabditis elegans);
Other_Eukarya	AAO37746 (Leishmania donovani); AAF07198.1 (Plasmodium falciparum); XP_001322593 (Trichomonas vaginalis);
Viridiplantae	GLYN_FLAPR (Flaveria pringlei); NP_195506 (Arabidopsis thaliana); GLYM_FLAPR (Flaveria pringlei); GLYM_PEA (Pisum sativum); GLYM_SOLTU (Solanum tuberosum);

DISPLAY: Fasta format, alignment, hmm, hmm_local

Reference sequence

GLYA_ECOLI

Domain interval

8-386

Catalytic site

229 K

References

Vatsyayan, R.; Roy, U. (2007) Molecular cloning and biochemical characterization of Leishmania donovani serine hydroxymethyltransferase Protein Expr Purif. 52 433-40.

Mukherjee M, Sievers SA, Brown MT, Johnson PJ. (2006) Identification and biochemical characterization of serine hydroxymethyl transferase in the hydrogenosome of Trichomonas vaginalis Eukaryot Cell 5 2072-8.

Angelaccio S, Chiaraluce R, Consalvi V, Buchenau B, Giangiacomo L, Bossa F, Contestabile R. (2003) Catalytic and thermodynamic properties of tetrahydromethanopterin-dependent serine hydroxymethyltransferase from Methanococcus jannaschii J Biol Chem 278 41789-97.

Chaturvedi S, Bhakuni V. (2003) Unusual structural, functional, and stability properties of serine hydroxymethyltransferase from Mycobacterium tuberculosis J Biol Chem 278 40793-805.

Trivedi, V.; Gupta, A.; Jala, V. R.; Saravanan, P.; Rao, G. S.; Rao, N. A.; Savithri, H. S.; Subramanya, H. S. (2002) Crystal structure of binary and ternary complexes of serine hydroxymethyltransferase from Bacillus stearothermophilus: insights into the catalytic mechanism J Biol Chem 277 17161-9.

Scarsdale, J. N.; Radaev, S.; Kazanina, G.; Schirch, V.; Wright, H. T. (2000) Crystal structure at 2.4 A resolution of E. coli serine hydroxymethyltransferase in complex with glycine substrate and 5-formyl tetrahydrofolate J Mol Biol 296 155-68.

Szebenyi, D. M.; Liu, X.; Kriksunov, I. A.; Stover, P. J.; Thiel, D. J. (2000) Structure of a murine cytoplasmic serine hydroxymethyltransferase quinonoid ternary complex: evidence for asymmetric obligate dimers Biochemistry 39 13313-23.

Scarsdale, J. N.; Kazanina, G.; Radaev, S.; Schirch, V.; Wright, H. T. (1999) Crystal structure of rabbit cytosolic serine hydroxymethyltransferase at 2.8 A resolution: mechanistic implications Biochemistry 38 8347-58.

Delle Fratte, S.; White, R. H.; Maras, B.; Bossa, F.; Schirch, V. (1997) Purification and properties of serine hydroxymethyltransferase from Sulfolobus solfataricus J Bacteriol 179 7456-61.

Jagath-Reddy, J.; Ganesan, K.; Savithri, H. S.; Datta, A.; Rao, N. A. (1995) cDNA cloning, overexpression in Escherichia coli, purification and characterization of sheep liver cytosolic serine hydroxymethyltransferase Eur J Biochem 230 533-7.

Kruschwitz, H.; Ren, S.; Di Salvo, M.; Schirch, V. (1995) Expression, purification, and characterization of human cytosolic serine hydroxymethyltransferase Protein Expr Purif 6 411-6.

Articles on 2.1.2.1

last changed

2008/01/24 13:23