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Protein

V-type proton ATPase subunit B

Gene

VMA2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Non-catalytic subunit of the peripheral V1 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells. It is an electrogenic proton pump that generates a proton motive force of 180 mv, inside positive and acidic, in the vacuolar membrane vesicles.1 Publication

Miscellaneous

Present with 131000 molecules/cell in log phase SD medium.1 Publication

Caution

PubMed:1371275 sequence was incorrectly thought to originate from bovine.Curated

GO - Molecular functioni

  • ATP binding Source: InterPro
  • proton-transporting ATPase activity, rotational mechanism Source: SGD

GO - Biological processi

  • ATP hydrolysis coupled proton transport Source: InterPro
  • ATP metabolic process Source: InterPro
  • cellular calcium ion homeostasis Source: SGD
  • proteasome storage granule assembly Source: SGD
  • transmembrane transport Source: SGD
  • vacuolar acidification Source: SGD

Keywordsi

Molecular functionHydrolase
Biological processHydrogen ion transport, Ion transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-29082-MONOMER
ReactomeiR-SCE-1222556 ROS, RNS production in phagocytes
R-SCE-77387 Insulin receptor recycling
R-SCE-917977 Transferrin endocytosis and recycling

Protein family/group databases

TCDBi3.A.2.2.3 the h(+)- or na(+)-translocating f-type, v-type and a-type atpase (f-atpase) superfamily

Names & Taxonomyi

Protein namesi
Recommended name:
V-type proton ATPase subunit B
Short name:
V-ATPase subunit B
Alternative name(s):
V-ATPase 57 kDa subunit
Vacuolar proton pump subunit B
Gene namesi
Name:VMA2
Synonyms:VAT2
Ordered Locus Names:YBR127C
ORF Names:YBR1002
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:YBR127C
SGDiS000000331 VMA2

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Pathology & Biotechi

Chemistry databases

ChEMBLiCHEMBL6106

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001446481 – 517V-type proton ATPase subunit BAdd BLAST517

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei4PhosphoserineCombined sources1
Cross-linki14Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei137PhosphoserineCombined sources1
Modified residuei503PhosphoserineCombined sources1
Modified residuei504PhosphoserineCombined sources1
Cross-linki508Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)Combined sources
Modified residuei511Phosphoserine; by ATM or ATRCombined sources1
Modified residuei515PhosphoserineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiP16140
PaxDbiP16140
PRIDEiP16140

PTM databases

iPTMnetiP16140

Interactioni

Subunit structurei

V-ATPase is a heteromultimeric enzyme composed of a peripheral catalytic V1 complex (components A to H) attached to an integral membrane V0 proton pore complex (components: a, c, c', c'', d and e). Interacts with RAV1 and RAV2 components of the RAVE complex, which are essential for the stability and assembly of V-ATPase.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
RAV1P471043EBI-20254,EBI-25471

Protein-protein interaction databases

BioGridi32828, 172 interactors
ComplexPortaliCPX-1192 Vacuolar proton translocating ATPase complex, Golgi variant
CPX-1193 Vacuolar proton translocating ATPase complex, vacuole variant
DIPiDIP-2292N
IntActiP16140, 610 interactors
MINTiP16140
STRINGi4932.YBR127C

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3J9Telectron microscopy6.90B/D/F1-517[»]
3J9Uelectron microscopy7.60B/D/F1-517[»]
3J9Velectron microscopy8.30B/D/F1-517[»]
5BW9X-ray7.00D/E/F/d/e/f1-517[»]
5D80X-ray6.20D/E/F/d/e/f1-517[»]
5VOXelectron microscopy6.80B/D/F1-517[»]
5VOYelectron microscopy7.90B/D/F1-517[»]
5VOZelectron microscopy7.60B/D/F1-517[»]
ProteinModelPortaliP16140
SMRiP16140
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ATPase alpha/beta chains family.Curated

Phylogenomic databases

GeneTreeiENSGT00550000074724
HOGENOMiHOG000165320
InParanoidiP16140
KOiK02147
OMAiSQGAYEN
OrthoDBiEOG092C24CZ

Family and domain databases

HAMAPiMF_00310 ATP_synth_B_arch, 1 hit
InterProiView protein in InterPro
IPR020003 ATPase_a/bsu_AS
IPR004100 ATPase_F1/V1/A1_a/bsu_N
IPR000194 ATPase_F1/V1/A1_a/bsu_nucl-bd
IPR005723 ATPase_V1-cplx_bsu
IPR027417 P-loop_NTPase
IPR022879 V-ATPase_su_B/beta
PANTHERiPTHR43389 PTHR43389, 1 hit
PfamiView protein in Pfam
PF00006 ATP-synt_ab, 1 hit
PF02874 ATP-synt_ab_N, 1 hit
PIRSFiPIRSF039114 V-ATPsynth_beta/V-ATPase_B, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
TIGRFAMsiTIGR01040 V-ATPase_V1_B, 1 hit
PROSITEiView protein in PROSITE
PS00152 ATPASE_ALPHA_BETA, 1 hit

Sequencei

Sequence statusi: Complete.

P16140-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVLSDKELFA INKKAVEQGF NVKPRLNYNT VSGVNGPLVI LEKVKFPRYN
60 70 80 90 100
EIVNLTLPDG TVRQGQVLEI RGDRAIVQVF EGTSGIDVKK TTVEFTGESL
110 120 130 140 150
RIPVSEDMLG RIFDGSGRPI DNGPKVFAED YLDINGSPIN PYARIYPEEM
160 170 180 190 200
ISTGVSAIDT MNSIARGQKI PIFSASGLPH NEIAAQICRQ AGLVRPTKDV
210 220 230 240 250
HDGHEENFSI VFAAMGVNLE TARFFKQDFE ENGSLERTSL FLNLANDPTI
260 270 280 290 300
ERIITPRLAL TTAEYLAYQT ERHVLTILTD MSSYADALRE VSAAREEVPG
310 320 330 340 350
RRGYPGYMYT DLSTIYERAG RVEGRNGSIT QIPILTMPND DITHPIPDLT
360 370 380 390 400
GYITEGQIFV DRQLHNKGIY PPINVLPSLS RLMKSAIGEG MTRKDHGDVS
410 420 430 440 450
NQLYAKYAIG KDAAAMKAVV GEEALSIEDK LSLEFLEKFE KTFITQGAYE
460 470 480 490 500
DRTVFESLDQ AWSLLRIYPK EMLNRISPKI LDEFYDRARD DADEDEEDPD
510
TRSSGKKKDA SQEESLI
Length:517
Mass (Da):57,749
Last modified:October 1, 1994 - v2
Checksum:i02A7DEC571EFF7C2
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti14K → V AA sequence (PubMed:2141385).Curated1
Sequence conflicti79V → L in AAA66890 (PubMed:2521486).Curated1
Sequence conflicti227Q → R in AAA30389 (PubMed:1371275).Curated1
Sequence conflicti500 – 517DTRSS…EESLI → TQEAPVRRRTPAKKNL in AAA66890 (PubMed:2521486).CuratedAdd BLAST18

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J04450 Genomic DNA Translation: AAA66890.1
X75891 Genomic DNA Translation: CAA53486.1
Z35996 Genomic DNA Translation: CAA85084.1
AY693158 Genomic DNA Translation: AAT93177.1
M83130 mRNA Translation: AAA30389.1
BK006936 Genomic DNA Translation: DAA07244.1
PIRiB42254
S45996
RefSeqiNP_009685.3, NM_001178475.3

Genome annotation databases

EnsemblFungiiYBR127C; YBR127C; YBR127C
GeneIDi852424
KEGGisce:YBR127C

Similar proteinsi

Entry informationi

Entry nameiVATB_YEAST
AccessioniPrimary (citable) accession number: P16140
Secondary accession number(s): D6VQC4, P32123
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 1, 1990
Last sequence update: October 1, 1994
Last modified: June 20, 2018
This is version 195 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

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