Reviewed, UniProtKB/Swiss-Prot O53441 (GLYA1_MYCTU)

Names and origin

Protein names

Recommended name:
    Serine hydroxymethyltransferase 1
      Short name=Serine methylase 1
      Short name=SHMT 1
    EC=2.1.2.1

Gene names

Name:	glyA1
Synonyms:	glyA
Ordered Locus Names:	Rv1093, MT1125
ORF Names:	MTV017.46

Organism

Mycobacterium tuberculosis [Complete proteome] [HAMAP]

Taxonomic identifier

1773 [NCBI]

Taxonomic lineage

Bacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Corynebacterineae › Mycobacteriaceae › Mycobacterium › Mycobacterium tuberculosis complex

Protein attributes

Sequence length	426 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Interconversion of serine and glycine. HAMAP MF_00051
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
Subunit structure	Homotetramer By similarity. HAMAP MF_00051
Subcellular location	Cytoplasm HAMAP MF_00051.
Sequence similarities	Belongs to the SHMT family.

Ontologies

Keywords
Biological process	One-carbon metabolism
Cellular component	Cytoplasm
Ligand	Pyridoxal phosphate
Molecular function	Transferase
Technical term	3D-structure 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: HAMAP
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	glycine hydroxymethyltransferase activity Inferred from electronic annotation. Source: HAMAP 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 – 426

426

Serine hydroxymethyltransferase 1 HAMAP MF_00051

PRO_0000113618

Amino acid modifications

Modified residue

227

1

N6-(pyridoxal phosphate)lysine By similarity

Experimental info

Sequence conflict

36

1

V → A in AAK45383. Ref.2

Secondary structure

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426

Helix Strand Turn

Details...

Helix

5 – 8

4

Helix

10 – 25

16

Beta strand

26 – 28

3

Helix

38 – 45

8

Helix

47 – 50

4

Beta strand

57 – 63

7

Helix

66 – 83

18

Beta strand

86 – 89

4

Helix

95 – 106

12

Beta strand

112 – 116

5

Turn

118 – 121

4

Helix

124 – 126

3

Helix

132 – 136

5

Beta strand

137 – 142

6

Turn

146 – 149

4

Helix

153 – 163

11

Beta strand

166 – 171

6

Helix

181 – 191

11

Beta strand

194 – 198

5

Turn

200 – 202

3

Helix

203 – 208

6

Turn

215 – 217

3

Beta strand

218 – 227

10

Beta strand

235 – 239

5

Helix

243 – 251

9

Turn

252 – 255

4

Helix

261 – 273

13

Helix

277 – 298

22

Beta strand

301 – 303

3

Helix

310 – 312

3

Beta strand

315 – 322

8

Turn

324 – 327

4

Helix

330 – 339

10

Turn

356 – 358

3

Beta strand

360 – 365

6

Helix

367 – 372

6

Helix

376 – 391

16

Turn

392 – 394

3

Helix

396 – 411

16

Sequences

	Sequence		Length	Mass (Da)
	O53441-1 [UniParc]. Last modified June 1, 1998. Version 1. Checksum: B17AFE1115D9AFFB	FASTA	426	45,029
	10 20 30 40 50 60 MSAPLAEVDP DIAELLAKEL GRQRDTLEMI ASENFVPRAV LQAQGSVLTN KYAEGLPGRR 70 80 90 100 110 120 YYGGCEHVDV VENLARDRAK ALFGAEFANV QPHSGAQANA AVLHALMSPG ERLLGLDLAN 130 140 150 160 170 180 GGHLTHGMRL NFSGKLYENG FYGVDPATHL IDMDAVRATA LEFRPKVIIA GWSAYPRVLD 190 200 210 220 230 240 FAAFRSIADE VGAKLLVDMA HFAGLVAAGL HPSPVPHADV VSTTVHKTLG GGRSGLIVGK 250 260 270 280 290 300 QQYAKAINSA VFPGQQGGPL MHVIAGKAVA LKIAATPEFA DRQRRTLSGA RIIADRLMAP 310 320 330 340 350 360 DVAKAGVSVV SGGTDVHLVL VDLRDSPLDG QAAEDLLHEV GITVNRNAVP NDPRPPMVTS 370 380 390 400 410 420 GLRIGTPALA TRGFGDTEFT EVADIIATAL ATGSSVDVSA LKDRATRLAR AFPLYDGLEE WSLVGR

References

[1]

"Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence." Cole S.T., Brosch R., Parkhill J., Garnier T., Churcher C.M., Harris D.E., Gordon S.V., Eiglmeier K., Gas S., Barry C.E. III, Tekaia F., Badcock K., Basham D., Brown D., Chillingworth T., Connor R., Davies R.M., Devlin K. , Feltwell T., Gentles S., Hamlin N., Holroyd S., Hornsby T., Jagels K., Krogh A., McLean J., Moule S., Murphy L.D., Oliver S., Osborne J., Quail M.A., Rajandream M.A., Rogers J., Rutter S., Seeger K., Skelton S., Squares S., Squares R., Sulston J.E., Taylor K., Whitehead S., Barrell B.G. Nature 393:537-544(1998) [PubMed: 9634230] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 25618 / H37Rv.

[2]

"Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains." Fleischmann R.D., Alland D., Eisen J.A., Carpenter L., White O., Peterson J.D., DeBoy R.T., Dodson R.J., Gwinn M.L., Haft D.H., Hickey E.K., Kolonay J.F., Nelson W.C., Umayam L.A., Ermolaeva M.D., Salzberg S.L., Delcher A., Utterback T.R. , Weidman J.F., Khouri H.M., Gill J., Mikula A., Bishai W., Jacobs W.R. Jr., Venter J.C., Fraser C.M. J. Bacteriol. 184:5479-5490(2002) [PubMed: 12218036] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: CDC 1551 / Oshkosh.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

BX842575 Genomic DNA. Translation: CAE55360.1.
AE000516 Genomic DNA. Translation: AAK45383.1.

PIR

C70896.

RefSeq

NP_335569.1.
YP_177787.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1LXB	model	-	A	1-426	[»]
3H7F	X-ray	1.50	A/B	1-426	[»]

ModBase

Search...

Genome annotation databases

GeneID

885338.
924979.

GenomeReviews

Gene locus MT1125 in contig AE000516_GR.

KEGG

mtc:MT1125.
mtu:Rv1093.

TIGR

MT1125.

Organism-specific databases

TubercuList

Rv1093.

Phylogenomic databases

HOGENOM

HBG301263.

OMA

PFDYADV.

Enzyme and pathway databases

BRENDA

2.1.2.1. 809.

Family and domain databases

HAMAP

MF_00051_B. SHMT_B.
[Tree]

InterPro

IPR015424. PyrdxlP-dep_Trfase_major_dom.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR001085. Ser_HO-MeTrfase.
IPR019798. Ser_HO-MeTrfase_PLP_BS.
[Graphical view]

Gene3D

G3DSA:3.40.640.10. PyrdxlP-dep_Trfase_major_sub1. 1 hit.

PANTHER

PTHR11680. Gly_HO-Metrfase. 1 hit.

Pfam

PF00464. SHMT. 1 hit.
[Graphical view]

PIRSF

PIRSF000412. SHMT. 1 hit.

PROSITE

PS00096. SHMT. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

GLYA1_MYCTU

Accession

Primary (citable) accession number: O53441

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	June 1, 1998
Last modified:	February 9, 2010
This is version 77 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)