B8GG35 (GLYA_METPE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Pyridoxal-phosphate-dependent serine hydroxymethyltransferase
Short name=SHMT
Short name=Serine methylase
EC=2.1.2.1

Gene names

Name:	glyA
Ordered Locus Names:	Mpal_0745

Organism

Methanosphaerula palustris (strain ATCC BAA-1556 / DSM 19958 / E1-9c) [Complete proteome] [HAMAP]

Taxonomic identifier

521011 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Methanomicrobia › Methanomicrobiales › Genera incertae sedis › Methanosphaerula

Protein attributes

Sequence length	415 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate serving as the one-carbon carrier By similarity.
Catalytic activity	5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine. HAMAP MF_00051
Cofactor	Pyridoxal phosphate By similarity. HAMAP MF_00051
Pathway	One-carbon metabolism; tetrahydrofolate interconversion. HAMAP MF_00051 Amino-acid biosynthesis; glycine biosynthesis; glycine from L-serine: step 1/1.
Subcellular location	Cytoplasm By similarity HAMAP MF_00051.
Sequence similarities	Belongs to the SHMT family.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis One-carbon metabolism
Cellular component	Cytoplasm
Ligand	Pyridoxal phosphate
Molecular function	Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	L-serine metabolic process Inferred from electronic annotation. Source: InterPro glycine metabolic process Inferred from electronic annotation. Source: InterPro one-carbon metabolic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	glycine hydroxymethyltransferase activity Inferred from electronic annotation. Source: EC pyridoxal phosphate binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 415	415	Pyridoxal-phosphate-dependent serine hydroxymethyltransferase		PRO_1000202267
Regions
	Region	122 – 124	3	Substrate binding By similarity
Sites
	Binding site	31	1	Pyridoxal phosphate By similarity
	Binding site	51	1	Pyridoxal phosphate By similarity
	Binding site	53	1	Substrate By similarity
	Binding site	60	1	Substrate binding By similarity
	Binding site	61	1	Pyridoxal phosphate By similarity
	Binding site	118	1	Substrate By similarity
	Binding site	173	1	Pyridoxal phosphate By similarity
	Binding site	201	1	Pyridoxal phosphate By similarity
	Binding site	226	1	Pyridoxal phosphate By similarity
	Binding site	233	1	Pyridoxal phosphate By similarity
	Binding site	258	1	Pyridoxal phosphate; via amide nitrogen and carbonyl oxygen By similarity
	Binding site	358	1	Pyridoxal phosphate By similarity
Amino acid modifications
	Modified residue	227	1	N6-(pyridoxal phosphate)lysine By similarity

Sequences

	Sequence		Length	Mass (Da)
	B8GG35 [UniParc]. Last modified March 3, 2009. Version 1. Checksum: 9BA1ACB87FC99254	FASTA	415	44,991
	10 20 30 40 50 60 MSYLATADPE IAELIECERL RQVNGLELIA SENLVSKAVL EAMGSILTNK YAEGYPGKRY 70 80 90 100 110 120 YGGCEFHDRI ENLARDRLKQ LFNAEHANVQ PHSGTQANMA VYFSVMECGK DRMMSMSLTQ 130 140 150 160 170 180 GGHLSHGSPV SFSGKMYEVS QYGVDLKTEL IDYGAVEEMA KKVKPKVIVC GASAYPREID 190 200 210 220 230 240 FKAFQEIADS VGAYCMADIA HIAGLCATGV HPSPVNVVNF TTSTTHKTLR GPRGGVIMCN 250 260 270 280 290 300 EEYGAMIDKA IFPGMQGGPL MHTIAGKAVC FKEALQPSFK QYSRQVVKNA QALAETLGEA 310 320 330 340 350 360 GLRLVSGGTD NHLILIDLSN RGLTGLEAEV ALGKAGITVN KNTIPNENRS PFVTSGLRIG 370 380 390 400 410 TPAVTSRGMK EDEMHQIGEY IIRVLKDIQD EATISAVKNE VTALASRYSL YPPSL

References

[1]

"Complete sequence of Candidatus Methanosphaerula E1-9c." US DOE Joint Genome Institute Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Kiss H., Lu M., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Ovchinnikova G.O., Zinder S. Submitted (DEC-2008) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC BAA-1556 / DSM 19958 / E1-9c.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001338 Genomic DNA. Translation: ACL16109.1.
RefSeq	YP_002465832.1. NC_011832.1.
3D structure databases
ProteinModelPortal	B8GG35.
ModBase	Search...
Protein-protein interaction databases
STRING	B8GG35.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	7270480.
GenomeReviews	Gene locus Mpal_0745 in contig CP001338_GR.
KEGG	mpl:Mpal_0745.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HBG301263.
OMA	FPMYADR.
ProtClustDB	PRK00011.
Family and domain databases
HAMAP	MF_00051. SHMT. [Tree]
InterPro	IPR015424. PyrdxlP-dep_Trfase_major_dom. IPR015421. PyrdxlP-dep_Trfase_major_sub1. IPR015422. PyrdxlP-dep_Trfase_major_sub2. IPR001085. Ser_HO-MeTrfase. [Graphical view]
Gene3D	G3DSA:3.40.640.10. PyrdxlP-dep_Trfase_major_sub1. 1 hit. G3DSA:3.90.1150.10. PyrdxlP-dep_Trfase_major_sub2. 1 hit.
KO	K00600.
PANTHER	PTHR11680. Gly_HO-Metrfase. 1 hit.
Pfam	PF00464. SHMT. 1 hit. [Graphical view]
PIRSF	PIRSF000412. SHMT. 1 hit.
SUPFAM	SSF53383. PyrdxlP-dep_Trfase_major. 1 hit.
PROSITE	PS00096. SHMT. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

GLYA_METPE

Accession

Primary (citable) accession number: B8GG35

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 22, 2009
Last sequence update:	March 3, 2009
Last modified:	January 25, 2012
This is version 24 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program