Q58424 (SERA_METJA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
D-3-phosphoglycerate dehydrogenase
Short name=PGDH
EC=1.1.1.95

Gene names

Name:	serA
Ordered Locus Names:	MJ1018

Organism

Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)

Taxonomic identifier

243232 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Methanococci › Methanococcales › Methanocaldococcaceae › Methanocaldococcus

Protein attributes

Sequence length	524 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Catalytic activity	3-phospho-D-glycerate + NAD+ = 3-phosphonooxypyruvate + NADH. 2-hydroxyglutarate + NAD+ = 2-oxoglutarate + NADH.
Pathway	Amino-acid biosynthesis; L-serine biosynthesis; L-serine from 3-phospho-D-glycerate: step 1/3.
Sequence similarities	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family. Contains 1 ACT domain.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis Serine biosynthesis
Ligand	NAD
Molecular function	Oxidoreductase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	L-serine biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	NAD binding Inferred from electronic annotation. Source: InterPro amino acid binding Inferred from electronic annotation. Source: InterPro phosphoglycerate dehydrogenase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 524	524	D-3-phosphoglycerate dehydrogenase		PRO_0000076009
Regions
	Domain	451 – 522	72	ACT
	Nucleotide binding	149 – 150	2	NAD By similarity
	Nucleotide binding	229 – 231	3	NAD By similarity
	Nucleotide binding	278 – 281	4	NAD By similarity
Sites
	Active site	231	1	By similarity
	Active site	260	1	By similarity
	Active site	278	1	Proton donor By similarity
	Binding site	169	1	NAD By similarity
	Binding site	255	1	NAD By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q58424 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 5C561BB68C170793	FASTA	524	56,924
	10 20 30 40 50 60 MVKILVTDPL HEDAIKILEE VGEVEVATGL TKEELLEKIK DADVLVVRSG TKVTRDVIEK 70 80 90 100 110 120 AEKLKVIGRA GVGVDNIDVE AATEKGIIVV NAPDASSISV AELTMGLMLA AARNIPQATA 130 140 150 160 170 180 SLKRGEWDRK RFKGIELYGK TLGVIGLGRI GQQVVKRAKA FGMNIIGYDP YIPKEVAESM 190 200 210 220 230 240 GVELVDDINE LCKRADFITL HVPLTPKTRH IIGREQIALM KKNAIIVNCA RGGLIDEKAL 250 260 270 280 290 300 YEALKEGKIR AAALDVFEEE PPKDNPLLTL DNVIGTPHQG ASTEEAQKAA GTIVAEQIKK 310 320 330 340 350 360 VLRGELAENV VNMPNIPQEK LGKLKPYMLL AEMLGNIVMQ VLDGSVNRVE LIYSGELAKE 370 380 390 400 410 420 KTDLIKRAFL KGLLSPILLA GINLVNAPII AKNRNINVVE SSTSEEKYGN AIKITAESDK 430 440 450 460 470 480 KKFSIVGAII NNKPVILEVD GYEVSFIPEG VLAIIKHIDR PGTIGRVCIT LGDYGINIAS 490 500 510 520 MQVGRKEPGG ESVMLLNLDH TVPEEVIEKI KEIPNIKDVA VINL

References

[1]

"Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii." Bult C.J., White O., Olsen G.J., Zhou L., Fleischmann R.D., Sutton G.G., Blake J.A., FitzGerald L.M., Clayton R.A., Gocayne J.D., Kerlavage A.R., Dougherty B.A., Tomb J.-F., Adams M.D., Reich C.I., Overbeek R., Kirkness E.F., Weinstock K.G. , Merrick J.M., Glodek A., Scott J.L., Geoghagen N.S.M., Weidman J.F., Fuhrmann J.L., Nguyen D., Utterback T.R., Kelley J.M., Peterson J.D., Sadow P.W., Hanna M.C., Cotton M.D., Roberts K.M., Hurst M.A., Kaine B.P., Borodovsky M., Klenk H.-P., Fraser C.M., Smith H.O., Woese C.R., Venter J.C. Science 273:1058-1073(1996) [PubMed: 8688087] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	L77117 Genomic DNA. Translation: AAB99020.1.
PIR	A64427.
RefSeq	NP_248012.1. NC_000909.1.
3D structure databases
ProteinModelPortal	Q58424.
SMR	Q58424. Positions 2-304.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1451915.
GenomeReviews	Gene locus MJ1018 in contig L77117_GR.
KEGG	mja:MJ_1018.
NMPDR	fig|243232.1.peg.1049.
TIGR	MJ1018.
Phylogenomic databases
HOGENOM	HBG731446.
OMA	HIGANTL.
ProtClustDB	PRK13581.
Enzyme and pathway databases
BioCyc	MJAN243232:MJ_1018-MONOMER.
Family and domain databases
InterPro	IPR002912. ACT-bd. IPR006236. D-3-Phosphoglycerate_DH. IPR006139. D-isomer_2_OHA_DH_cat_dom. IPR006140. D-isomer_2_OHA_DH_NAD-bd. IPR016040. NAD(P)-bd_dom. [Graphical view]
Gene3D	G3DSA:3.40.50.720. NAD(P)-bd. 2 hits.
KO	K00058.
PANTHER	PTHR10996:SF20. D3PG_Deh. 1 hit.
Pfam	PF00389. 2-Hacid_dh. 1 hit. PF02826. 2-Hacid_dh_C. 1 hit. PF01842. ACT. 1 hit. [Graphical view]
TIGRFAMs	TIGR01327. PGDH. 1 hit.
PROSITE	PS00065. D_2_HYDROXYACID_DH_1. 1 hit. PS00670. D_2_HYDROXYACID_DH_2. 1 hit. PS00671. D_2_HYDROXYACID_DH_3. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

SERA_METJA

Accession

Primary (citable) accession number: Q58424

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1998
Last sequence update:	November 1, 1996
Last modified:	November 16, 2011
This is version 90 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program