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P56990

- GLYA_NEIMB

UniProt

P56990 - GLYA_NEIMB

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Protein

Serine hydroxymethyltransferase

Gene

glyA

Organism
Neisseria meningitidis serogroup B (strain MC58)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism.UniRule annotation

Catalytic activityi

5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine.UniRule annotation

Cofactori

pyridoxal 5'-phosphateUniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei35 – 351Pyridoxal phosphateUniRule annotation
Binding sitei55 – 551Pyridoxal phosphateUniRule annotation
Binding sitei57 – 571SubstrateUniRule annotation
Binding sitei64 – 641SubstrateUniRule annotation
Binding sitei65 – 651Pyridoxal phosphateUniRule annotation
Binding sitei99 – 991Pyridoxal phosphateUniRule annotation
Binding sitei121 – 1211Substrate; via carbonyl oxygenUniRule annotation
Binding sitei175 – 1751Pyridoxal phosphateUniRule annotation
Binding sitei203 – 2031Pyridoxal phosphateUniRule annotation
Binding sitei228 – 2281Pyridoxal phosphateUniRule annotation
Binding sitei235 – 2351Pyridoxal phosphateUniRule annotation
Binding sitei261 – 2611Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation
Binding sitei361 – 3611Pyridoxal phosphateUniRule annotation

GO - Molecular functioni

  1. glycine hydroxymethyltransferase activity Source: UniProtKB-HAMAP
  2. pyridoxal phosphate binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. glycine biosynthetic process from serine Source: UniProtKB-HAMAP
  2. tetrahydrofolate interconversion Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Amino-acid biosynthesis, One-carbon metabolism

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciNMEN122586:GHGG-1092-MONOMER.
UniPathwayiUPA00193.
UPA00288; UER01023.

Names & Taxonomyi

Protein namesi
Recommended name:
Serine hydroxymethyltransferaseUniRule annotation (EC:2.1.2.1UniRule annotation)
Short name:
SHMTUniRule annotation
Short name:
Serine methylaseUniRule annotation
Gene namesi
Name:glyAUniRule annotation
Ordered Locus Names:NMB1055
OrganismiNeisseria meningitidis serogroup B (strain MC58)
Taxonomic identifieri122586 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaNeisserialesNeisseriaceaeNeisseria
ProteomesiUP000000425: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 416416Serine hydroxymethyltransferasePRO_0000113623Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei229 – 2291N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi122586.NMB1055.

Structurei

3D structure databases

ProteinModelPortaliP56990.
SMRiP56990. Positions 1-415.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni125 – 1273Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the SHMT family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0112.
HOGENOMiHOG000239404.
KOiK00600.
OMAiVADPFEY.
OrthoDBiEOG6Z0QB2.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_00051. SHMT.
InterProiIPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
IPR001085. Ser_HO-MeTrfase.
IPR019798. Ser_HO-MeTrfase_PLP_BS.
[Graphical view]
PANTHERiPTHR11680. PTHR11680. 1 hit.
PfamiPF00464. SHMT. 1 hit.
[Graphical view]
PIRSFiPIRSF000412. SHMT. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
PROSITEiPS00096. SHMT. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P56990-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MFSKSVTLAQ YDPDLAAAIA QEDQRQQDHV ELIASENYVS CAVMDAQGSQ
60 70 80 90 100
LTNKYAEGYP GKRYYGGCEY VDIVEQLAID RVKELFGAAY ANVQPHSGSQ
110 120 130 140 150
ANQAVYASVL KPGDTILGMS LAHGGHLTHG ASVNISGKLY NAVTYGLDEN
160 170 180 190 200
EVLDYAEVER LALEHKPKMI VAGASAYALQ IDWAKFREIA DKVGAYLFVD
210 220 230 240 250
MAHYAGLVAG GEYPNPVPFC DFVTTTTHKT LRGPRGGVIL CRDNTHEKAL
260 270 280 290 300
NSSIFPSLQG GPLMHVIAAK AVAFKEALQP EFKQYAKQVK INAAAMAEEL
310 320 330 340 350
VKRGLRIVSG RTESHVFLVD LQPMKITGKA AEAALGKAHI TVNKNAIPND
360 370 380 390 400
PEKPFVTSGI RIGSAAMTTR GFNEADARVL ANLVADVLSN PEDEANLAKV
410
RKQVTALCNK YPVYGA
Length:416
Mass (Da):44,916
Last modified:December 1, 2000 - v1
Checksum:i393E4BBF7825921C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE002098 Genomic DNA. Translation: AAF41452.1.
PIRiB81126.
RefSeqiNP_274089.1. NC_003112.2.

Genome annotation databases

EnsemblBacteriaiAAF41452; AAF41452; NMB1055.
GeneIDi903374.
KEGGinme:NMB1055.
PATRICi20357651. VBINeiMen85645_1342.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE002098 Genomic DNA. Translation: AAF41452.1 .
PIRi B81126.
RefSeqi NP_274089.1. NC_003112.2.

3D structure databases

ProteinModelPortali P56990.
SMRi P56990. Positions 1-415.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 122586.NMB1055.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAF41452 ; AAF41452 ; NMB1055 .
GeneIDi 903374.
KEGGi nme:NMB1055.
PATRICi 20357651. VBINeiMen85645_1342.

Phylogenomic databases

eggNOGi COG0112.
HOGENOMi HOG000239404.
KOi K00600.
OMAi VADPFEY.
OrthoDBi EOG6Z0QB2.

Enzyme and pathway databases

UniPathwayi UPA00193 .
UPA00288 ; UER01023 .
BioCyci NMEN122586:GHGG-1092-MONOMER.

Family and domain databases

Gene3Di 3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPi MF_00051. SHMT.
InterProi IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
IPR001085. Ser_HO-MeTrfase.
IPR019798. Ser_HO-MeTrfase_PLP_BS.
[Graphical view ]
PANTHERi PTHR11680. PTHR11680. 1 hit.
Pfami PF00464. SHMT. 1 hit.
[Graphical view ]
PIRSFi PIRSF000412. SHMT. 1 hit.
SUPFAMi SSF53383. SSF53383. 1 hit.
PROSITEi PS00096. SHMT. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: MC58.

Entry informationi

Entry nameiGLYA_NEIMB
AccessioniPrimary (citable) accession number: P56990
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: December 1, 2000
Last modified: November 26, 2014
This is version 93 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3