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Protein

V-type ATP synthase alpha chain

Gene

atpA

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit.

Catalytic activityi

ATP + H2O + H+(In) = ADP + phosphate + H+(Out).

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

ATP synthesis, Hydrogen ion transport, Intron homing, Ion transport, Transport

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDAi3.6.3.14. 5244.

Names & Taxonomyi

Protein namesi
Recommended name:
V-type ATP synthase alpha chain (EC:3.6.3.14)
Alternative name(s):
V-ATPase subunit A
Cleaved into the following chain:
Alternative name(s):
Pho AtpA intein
Pho VMA intein
Gene namesi
Name:atpA
Ordered Locus Names:PH1975
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000024671 – 240V-type ATP synthase alpha chain, 1st partSequence analysisAdd BLAST240
ChainiPRO_0000002468241 – 616Endonuclease PI-Pho2Sequence analysisAdd BLAST376
ChainiPRO_0000002469617 – 964V-type ATP synthase alpha chain, 2nd partSequence analysisAdd BLAST348

Post-translational modificationi

This protein undergoes a protein self splicing that involves a post-translational excision of the VDE intervening region (intein) followed by peptide ligation.Curated

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Proteomic databases

PRIDEiO57728.

Interactioni

Protein-protein interaction databases

STRINGi70601.PH1975.

Structurei

Secondary structure

1964
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi20 – 22Combined sources3
Beta strandi30 – 32Combined sources3
Beta strandi37 – 41Combined sources5
Beta strandi44 – 46Combined sources3
Beta strandi49 – 54Combined sources6
Beta strandi61 – 64Combined sources4
Beta strandi66 – 70Combined sources5
Beta strandi73 – 77Combined sources5
Beta strandi84 – 86Combined sources3
Beta strandi91 – 94Combined sources4
Beta strandi100 – 102Combined sources3
Beta strandi114 – 116Combined sources3
Beta strandi118 – 122Combined sources5
Beta strandi135 – 140Combined sources6
Beta strandi142 – 144Combined sources3
Beta strandi146 – 150Combined sources5
Beta strandi157 – 162Combined sources6
Beta strandi165 – 168Combined sources4
Beta strandi172 – 178Combined sources7
Beta strandi184 – 189Combined sources6
Beta strandi191 – 194Combined sources4
Beta strandi202 – 205Combined sources4
Beta strandi209 – 211Combined sources3
Helixi216 – 221Combined sources6
Beta strandi229 – 232Combined sources4
Beta strandi236 – 239Combined sources4
Helixi617 – 626Combined sources10
Beta strandi630 – 636Combined sources7
Beta strandi639 – 642Combined sources4
Helixi643 – 650Combined sources8
Turni651 – 653Combined sources3
Turni657 – 659Combined sources3
Beta strandi660 – 662Combined sources3
Helixi663 – 666Combined sources4
Beta strandi667 – 671Combined sources5
Beta strandi674 – 676Combined sources3
Helixi678 – 697Combined sources20
Beta strandi701 – 707Combined sources7
Turni709 – 711Combined sources3
Beta strandi713 – 719Combined sources7
Helixi735 – 744Combined sources10
Beta strandi748 – 751Combined sources4
Beta strandi753 – 756Combined sources4
Beta strandi759 – 767Combined sources9
Beta strandi771 – 775Combined sources5
Helixi779 – 786Combined sources8
Beta strandi788 – 790Combined sources3
Helixi795 – 799Combined sources5
Turni808 – 810Combined sources3
Beta strandi812 – 814Combined sources3
Helixi816 – 826Combined sources11
Helixi831 – 855Combined sources25
Helixi857 – 859Combined sources3
Helixi862 – 877Combined sources16
Turni886 – 889Combined sources4
Helixi893 – 915Combined sources23
Helixi920 – 924Combined sources5
Helixi927 – 932Combined sources6
Helixi933 – 937Combined sources5
Helixi941 – 945Combined sources5
Helixi947 – 962Combined sources16

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1VDZX-ray2.55A1-964[»]
3I4LX-ray2.40A1-964[»]
3I72X-ray2.47A1-964[»]
3I73X-ray2.40A1-964[»]
3IKJX-ray2.40A1-964[»]
3M4YX-ray2.38A1-964[»]
3MFYX-ray2.35A1-964[»]
3ND8X-ray2.40A1-964[»]
3ND9X-ray3.10A1-964[»]
3P20X-ray2.85A1-964[»]
3QG1X-ray2.95A1-238[»]
A617-964[»]
3QIAX-ray2.60A1-964[»]
3QJYX-ray2.35A1-964[»]
3SDZX-ray2.53A1-964[»]
3SE0X-ray2.62A1-964[»]
ProteinModelPortaliO57728.
SMRiO57728.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO57728.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini392 – 518DOD-type homing endonucleaseAdd BLAST127

Sequence similaritiesi

Belongs to the ATPase alpha/beta chains family.Curated

Phylogenomic databases

eggNOGiarCOG00868. Archaea.
arCOG03154. Archaea.
COG1155. LUCA.
HOGENOMiHOG000161057.
KOiK02117.
OMAiFGSGKCV.

Family and domain databases

Gene3Di1.10.1140.10. 1 hit.
2.170.16.10. 2 hits.
3.10.28.10. 1 hit.
3.40.50.300. 2 hits.
HAMAPiMF_00309. ATP_synth_A_arch. 1 hit.
InterProiIPR031686. ATP-synth_a_Xtn.
IPR020003. ATPase_a/bsu_AS.
IPR004100. ATPase_F1/V1/A1_a/bsu_N.
IPR000194. ATPase_F1/V1/A1_a/bsu_nucl-bd.
IPR024034. ATPase_F1/V1_bsu_C.
IPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR027434. Homing_endonucl.
IPR030934. Intein_C.
IPR004042. Intein_endonuc.
IPR006141. Intein_N.
IPR027417. P-loop_NTPase.
IPR022878. V-ATPase_asu.
[Graphical view]
PfamiPF00006. ATP-synt_ab. 1 hit.
PF02874. ATP-synt_ab_N. 1 hit.
PF16886. ATP-synt_ab_Xtn. 1 hit.
[Graphical view]
SMARTiSM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]
SUPFAMiSSF50615. SSF50615. 1 hit.
SSF51294. SSF51294. 2 hits.
SSF52540. SSF52540. 2 hits.
SSF55608. SSF55608. 1 hit.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEiPS00152. ATPASE_ALPHA_BETA. 1 hit.
PS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

O57728-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVAKGRIIRV TGPLVVADGM KGAKMYEVVR VGELGLIGEI IRLEGDKAVI
60 70 80 90 100
QVYEETAGVR PGEPVVGTGA SLSVELGPGL LTSIYDGIQR PLEVIREKTG
110 120 130 140 150
DFIARGVTAP ALPRDKKWHF IPKAKVGDKV VGGDIIGEVP ETSIIVHKIM
160 170 180 190 200
VPPGIEGEIV EIAEEGDYTI EEVIAKVKTP SGEIKELKMY QRWPVRVKRP
210 220 230 240 250
YKEKLPPEVP LITGQRVIDT FFPQAKGGTA AIPGPFGSGK CVDGDTLVLT
260 270 280 290 300
KEFGLIKIKE LYEKLDGKGR KIVEGNEEWT ELEKPITVYG YKDGKIVEIK
310 320 330 340 350
ATHVYKGVSS GMVEIRTRTG RKIKVTPIHR LFTGRVTKDG LILKEVMAMH
360 370 380 390 400
VKPGDRIAVV KKIDGGEYIK LDSSNVGEIK VPEILNEELA EFLGYLMANG
410 420 430 440 450
TLKSGIIEIY CDDESLLERV NSLSLKLFGV GGRIVQKVDG KALVIQSKPL
460 470 480 490 500
VDVLRRLGVP EDKKVENWKV PRELLLSPSN VVRAFVNAYI KGKEEVEITL
510 520 530 540 550
ASEEGAYELS YLFAKLGIYV TISKSGEYYK VRVSRRGNLD TIPVEVNGMP
560 570 580 590 600
KVLPYEDFRK FAKSIGLEEV AENHLQHIIF DEVIDVRYIP EPQEVYDVTT
610 620 630 640 650
ETHNFVGGNM PTLLHNTVTQ HQLAKWSDAQ VVIYIGCGER GNEMTDVLEE
660 670 680 690 700
FPKLKDPKTG KPLMERTVLI ANTSNMPVAA REASIYTGIT IAEYFRDMGY
710 720 730 740 750
DVALMADSTS RWAEALREIS GRLEEMPGEE GYPAYLASKL AEFYERAGRV
760 770 780 790 800
VTLGSDYRVG SVSVIGAVSP PGGDFSEPVV QNTLRVVKVF WALDADLARR
810 820 830 840 850
RHFPAINWLT SYSLYVDAVK DWWHKNIDPE WKAMRDKAMA LLQKESELQE
860 870 880 890 900
IVRIVGPDAL PERERAILLV ARMLREDYLQ QDAFDEVDTY CPPEKQVTMM
910 920 930 940 950
RVLLNFYDKT MEAINRGVPL EEIAKLPVRE EIGRMKFERD VSKIRSLIDK
960
TNEQFEELFK KYGA
Length:964
Mass (Da):107,855
Last modified:August 1, 1998 - v1
Checksum:i33252C47713BD5E1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA31102.1.
PIRiG71213.
RefSeqiWP_010886039.1. NC_000961.1.

Genome annotation databases

EnsemblBacteriaiBAA31102; BAA31102; BAA31102.
GeneIDi1442821.
KEGGipho:PH1975.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA31102.1.
PIRiG71213.
RefSeqiWP_010886039.1. NC_000961.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1VDZX-ray2.55A1-964[»]
3I4LX-ray2.40A1-964[»]
3I72X-ray2.47A1-964[»]
3I73X-ray2.40A1-964[»]
3IKJX-ray2.40A1-964[»]
3M4YX-ray2.38A1-964[»]
3MFYX-ray2.35A1-964[»]
3ND8X-ray2.40A1-964[»]
3ND9X-ray3.10A1-964[»]
3P20X-ray2.85A1-964[»]
3QG1X-ray2.95A1-238[»]
A617-964[»]
3QIAX-ray2.60A1-964[»]
3QJYX-ray2.35A1-964[»]
3SDZX-ray2.53A1-964[»]
3SE0X-ray2.62A1-964[»]
ProteinModelPortaliO57728.
SMRiO57728.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi70601.PH1975.

Proteomic databases

PRIDEiO57728.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA31102; BAA31102; BAA31102.
GeneIDi1442821.
KEGGipho:PH1975.

Phylogenomic databases

eggNOGiarCOG00868. Archaea.
arCOG03154. Archaea.
COG1155. LUCA.
HOGENOMiHOG000161057.
KOiK02117.
OMAiFGSGKCV.

Enzyme and pathway databases

BRENDAi3.6.3.14. 5244.

Miscellaneous databases

EvolutionaryTraceiO57728.

Family and domain databases

Gene3Di1.10.1140.10. 1 hit.
2.170.16.10. 2 hits.
3.10.28.10. 1 hit.
3.40.50.300. 2 hits.
HAMAPiMF_00309. ATP_synth_A_arch. 1 hit.
InterProiIPR031686. ATP-synth_a_Xtn.
IPR020003. ATPase_a/bsu_AS.
IPR004100. ATPase_F1/V1/A1_a/bsu_N.
IPR000194. ATPase_F1/V1/A1_a/bsu_nucl-bd.
IPR024034. ATPase_F1/V1_bsu_C.
IPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR027434. Homing_endonucl.
IPR030934. Intein_C.
IPR004042. Intein_endonuc.
IPR006141. Intein_N.
IPR027417. P-loop_NTPase.
IPR022878. V-ATPase_asu.
[Graphical view]
PfamiPF00006. ATP-synt_ab. 1 hit.
PF02874. ATP-synt_ab_N. 1 hit.
PF16886. ATP-synt_ab_Xtn. 1 hit.
[Graphical view]
SMARTiSM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]
SUPFAMiSSF50615. SSF50615. 1 hit.
SSF51294. SSF51294. 2 hits.
SSF52540. SSF52540. 2 hits.
SSF55608. SSF55608. 1 hit.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEiPS00152. ATPASE_ALPHA_BETA. 1 hit.
PS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiVATA_PYRHO
AccessioniPrimary (citable) accession number: O57728
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 24, 2001
Last sequence update: August 1, 1998
Last modified: November 30, 2016
This is version 129 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The intein interrupts the ATP-binding site.

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. Intein-containing proteins
    List of intein-containing protein entries
  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.