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Protein

Glyceraldehyde-3-phosphate dehydrogenase B, chloroplastic

Gene

GAPB

Organism
Spinacia oleracea (Spinach)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

D-glyceraldehyde 3-phosphate + phosphate + NADP+ = 3-phospho-D-glyceroyl phosphate + NADPH.

Pathwayi: Calvin cycle

This protein is involved in the pathway Calvin cycle, which is part of Carbohydrate biosynthesis.
View all proteins of this organism that are known to be involved in the pathway Calvin cycle and in Carbohydrate biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei118 – 1181NADP1 Publication
Binding sitei163 – 1631NADP; via carbonyl oxygen1 Publication
Active sitei238 – 2381NucleophilePROSITE-ProRule annotation
Sitei265 – 2651Activates thiol group during catalysisBy similarity
Binding sitei268 – 2681Glyceraldehyde 3-phosphateBy similarity
Binding sitei283 – 2831Glyceraldehyde 3-phosphateBy similarity
Binding sitei319 – 3191Glyceraldehyde 3-phosphateBy similarity
Binding sitei402 – 4021NADP1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi94 – 952NADP1 Publication

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Calvin cycle

Keywords - Ligandi

NADP

Enzyme and pathway databases

SABIO-RKP12860.
UniPathwayiUPA00116.

Names & Taxonomyi

Protein namesi
Recommended name:
Glyceraldehyde-3-phosphate dehydrogenase B, chloroplastic (EC:1.2.1.13)
Alternative name(s):
NADP-dependent glyceraldehydephosphate dehydrogenase subunit B
Gene namesi
Name:GAPB
Synonyms:GPB1
OrganismiSpinacia oleracea (Spinach)
Taxonomic identifieri3562 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaeCaryophyllalesChenopodiaceaeChenopodioideaeAnserineaeSpinacia

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 8383ChloroplastAdd
BLAST
Chaini84 – 451368Glyceraldehyde-3-phosphate dehydrogenase B, chloroplasticPRO_0000010426Add
BLAST

Proteomic databases

PRIDEiP12860.

Interactioni

Subunit structurei

Tetramer of either four A chains (GAPDH 2) or two A and two B chains (GAPDH 1).1 Publication

Protein-protein interaction databases

DIPiDIP-34904N.
IntActiP12860. 1 interaction.

Structurei

Secondary structure

1
451
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi85 – 906
Helixi95 – 10410
Beta strandi105 – 1073
Beta strandi110 – 1178
Helixi121 – 13010
Turni133 – 1353
Beta strandi142 – 1454
Turni146 – 1483
Beta strandi149 – 1524
Beta strandi155 – 1606
Helixi165 – 1673
Helixi170 – 1734
Beta strandi177 – 1804
Beta strandi182 – 1843
Helixi188 – 1914
Helixi193 – 1975
Beta strandi200 – 2067
Beta strandi209 – 2135
Beta strandi231 – 2344
Helixi240 – 25112
Turni252 – 2543
Beta strandi256 – 26611
Beta strandi273 – 2753
Turni281 – 2844
Helixi297 – 3015
Helixi302 – 3054
Helixi307 – 3093
Beta strandi318 – 3214
Beta strandi326 – 33712
Helixi341 – 35212
Turni353 – 3564
Helixi369 – 3724
Beta strandi380 – 3823
Helixi383 – 3853
Beta strandi390 – 40011
Helixi404 – 41916

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2PKQX-ray3.60O/Q/T84-451[»]
ProteinModelPortaliP12860.
SMRiP12860. Positions 84-426.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP12860.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni237 – 2393Glyceraldehyde 3-phosphate bindingBy similarity
Regioni296 – 2972Glyceraldehyde 3-phosphate bindingBy similarity

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR003823. DUF_CP12.
IPR020831. GlycerAld/Erythrose_P_DH.
IPR020830. GlycerAld_3-P_DH_AS.
IPR020829. GlycerAld_3-P_DH_cat.
IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
IPR006424. Glyceraldehyde-3-P_DH_1.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR10836. PTHR10836. 1 hit.
PfamiPF02672. CP12. 1 hit.
PF02800. Gp_dh_C. 1 hit.
PF00044. Gp_dh_N. 1 hit.
[Graphical view]
PRINTSiPR00078. G3PDHDRGNASE.
SMARTiSM00846. Gp_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01534. GAPDH-I. 1 hit.
PROSITEiPS00071. GAPDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P12860-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASHAALAPS RIPASTRLAS KASQQYSFLT QCSFKRLDVA DFSGLRSSNS
60 70 80 90 100
VTFTREASFH DVIAAQLTTK PTGAAPVRGE TVAKLKVAIN GFGRIGRNFL
110 120 130 140 150
RCWHGRKDSP LDVVVVNDSG GVKSATHLLK YDSILGTFKA DVKIIDNETF
160 170 180 190 200
SIDGKPIKVV SNRDPLKLPW AELGIDIVIE GTGVFVDGPG AGKHIQAGAK
210 220 230 240 250
KVIITAPAKG SDIPTYVVGV NEKDYGHDVA NIISNASCTT NCLAPFVKVL
260 270 280 290 300
DEELGIVKGT MTTTHSYTGD QRLLDASHRD LRRARAAALN IVPTSTGAAK
310 320 330 340 350
AVSLVLPQLK GKLNGIALRV PTPNVSVVDL VVNIEKVGVT AEDVNNAFRK
360 370 380 390 400
AAAGPLKGVL DVCDIPLVSV DFRCSDFSST IDSSLTMVMG GDMVKVVAWY
410 420 430 440 450
DNEWGYSQRV VDLADLVANK WPGLEGSVAS GDPLEDFCKD NPADEECKLY

E
Length:451
Mass (Da):48,126
Last modified:October 1, 1989 - v1
Checksum:i45D826A6DA5B4837
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15189 mRNA. Translation: CAA33263.1.
L76553 mRNA. Translation: AAD10218.1.
PIRiS05553. DESPGB.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X15189 mRNA. Translation: CAA33263.1.
L76553 mRNA. Translation: AAD10218.1.
PIRiS05553. DESPGB.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2PKQX-ray3.60O/Q/T84-451[»]
ProteinModelPortaliP12860.
SMRiP12860. Positions 84-426.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-34904N.
IntActiP12860. 1 interaction.

Proteomic databases

PRIDEiP12860.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

UniPathwayiUPA00116.
SABIO-RKP12860.

Miscellaneous databases

EvolutionaryTraceiP12860.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR003823. DUF_CP12.
IPR020831. GlycerAld/Erythrose_P_DH.
IPR020830. GlycerAld_3-P_DH_AS.
IPR020829. GlycerAld_3-P_DH_cat.
IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
IPR006424. Glyceraldehyde-3-P_DH_1.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR10836. PTHR10836. 1 hit.
PfamiPF02672. CP12. 1 hit.
PF02800. Gp_dh_C. 1 hit.
PF00044. Gp_dh_N. 1 hit.
[Graphical view]
PRINTSiPR00078. G3PDHDRGNASE.
SMARTiSM00846. Gp_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF51735. SSF51735. 1 hit.
TIGRFAMsiTIGR01534. GAPDH-I. 1 hit.
PROSITEiPS00071. GAPDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Cloning and sequence analysis of cDNAs encoding the cytosolic precursors of subunits GapA and GapB of chloroplast glyceraldehyde-3-phosphate dehydrogenase from pea and spinach."
    Brinkmann H., Cerff R., Salomon M., Soll J.
    Plant Mol. Biol. 13:81-94(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Seedling.
  2. "Functional studies of chloroplast glyceraldehyde-3-phosphate dehydrogenase subunits A and B expressed in Escherichia coli: formation of highly active A4 and B4 homotetramers and evidence that aggregation of the B4 complex is mediated by the B subunit carboxy terminus."
    Baalmann E., Scheibe R., Cerff R., Martin W.
    Plant Mol. Biol. 32:505-513(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  3. "Chloroplast glyceraldehyde-3-phosphate dehydrogenase (NADP): amino acid sequence of the subunits from isoenzyme I and structural relationship with isoenzyme II."
    Ferri G., Stoppini M., Meloni M.L., Zapponi M.C., Iadarola P.
    Biochim. Biophys. Acta 1041:36-42(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 83-451.
  4. "Molecular mechanism of thioredoxin regulation in photosynthetic A2B2-glyceraldehyde-3-phosphate dehydrogenase."
    Fermani S., Sparla F., Falini G., Martelli P.L., Casadio R., Pupillo P., Ripamonti A., Trost P.
    Proc. Natl. Acad. Sci. U.S.A. 104:11109-11114(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.60 ANGSTROMS) OF 84-451 IN COMPLEX WITH NADP, SUBUNIT.

Entry informationi

Entry nameiG3PB_SPIOL
AccessioniPrimary (citable) accession number: P12860
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1989
Last sequence update: October 1, 1989
Last modified: July 6, 2016
This is version 121 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Plants contain two types of GAPDH: cytosolic forms which participate in glycolysis and chloroplast forms which participate in photosynthesis. All the forms are encoded by distinct genes.

Keywords - Technical termi

3D-structure, Direct protein sequencing

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.