Q5R7M2 (SERA_PONAB) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

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

Gene names

Name:

PHGDH

Organism

Pongo abelii (Sumatran orangutan)

Taxonomic identifier

9601 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Pongo

Protein attributes

Sequence length	533 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at transcript level

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.
Subunit structure	Homotetramer By similarity.
Sequence similarities	Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.

Ontologies

Keywords
Biological process	Amino-acid biosynthesis Serine biosynthesis
Ligand	NAD
Molecular function	Oxidoreductase
PTM	Acetylation Phosphoprotein
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 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
	Initiator methionine	1	1	Removed By similarity
	Chain	2 – 533	532	D-3-phosphoglycerate dehydrogenase		PRO_0000076015
Regions
	Nucleotide binding	155 – 156	2	NAD By similarity
	Nucleotide binding	234 – 236	3	NAD By similarity
	Nucleotide binding	283 – 286	4	NAD By similarity
Sites
	Active site	236	1	By similarity
	Active site	265	1	By similarity
	Active site	283	1	Proton donor By similarity
	Binding site	78	1	NAD By similarity
	Binding site	175	1	NAD By similarity
	Binding site	207	1	NAD; via carbonyl oxygen By similarity
	Binding site	260	1	NAD By similarity
Amino acid modifications
	Modified residue	2	1	N-acetylalanine By similarity
	Modified residue	371	1	Phosphoserine By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q5R7M2 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: 4B4F33D534767322	FASTA	533	56,512
	10 20 30 40 50 60 MAFANLRKVL ISDSLDPCCR KILQDGGLQV VEKQNLSKEE LIAELQDCEG LIVRSATKVT 70 80 90 100 110 120 ADVINAAEKL QVVGRAGTGV DNVDLEAATR KGILVMNTPN GNSLSAAELT CGMIMCLARQ 130 140 150 160 170 180 IPQATASMKD GKWERKKFMG TELNGKTLGI LGLGRIGREV AIRMQSLGMK TIGYDPIISP 190 200 210 220 230 240 EVSASFGVQQ LPLEEIWPLC DFITVHTPLL PSTTGLLNDN TFAQCKKGVR VVNCARGGIV 250 260 270 280 290 300 DEGALLRALQ SGQCAGAALD VFTEEPPRGR ALVDHENVIS CPHLGASTKE AQSRCGEEIA 310 320 330 340 350 360 VQFVDMVKGK SLTGVVNAQA LTSAFSPHTK PWIGLAEALG TLMRAWAGSP KGAIQVITQG 370 380 390 400 410 420 TSLKNAGNCL SPAVIVGLLK EASKQADVNL VNAKLLVKEA GLNVTTSHSP AAPGEQGFGE 430 440 450 460 470 480 CLLAVALAGA PYQAVGLVQG TTPVLQGLNG AVFRPEVPLR RDLPLLLFRT QTSDPAMLPT 490 500 510 520 530 MIGLLAEAGV RLLSYQTSLV SDGETWHVMG ISSLLPSLEA WKQHATEAFQ FHF

References

[1]	The German cDNA consortium Submitted (NOV-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Kidney.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CR860092 mRNA. Translation: CAH92238.1.
RefSeq	NP_001126309.1. NM_001132837.1.
UniGene	Pab.18833.
3D structure databases
ProteinModelPortal	Q5R7M2.
SMR	Q5R7M2. Positions 6-307.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	100173288.
KEGG	pon:100173288.
Organism-specific databases
CTD	26227.
Phylogenomic databases
HOVERGEN	HBG054241.
InParanoid	Q5R7M2.
Family and domain databases
InterPro	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. [Graphical view]
TIGRFAMs	TIGR01327. PGDH. 1 hit.
PROSITE	PS00306. CASEIN_ALPHA_BETA. 1 hit. 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_PONAB

Accession

Primary (citable) accession number: Q5R7M2

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 19, 2005
Last sequence update:	January 23, 2007
Last modified:	November 16, 2011
This is version 52 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program