Reviewed, UniProtKB/Swiss-Prot O57728 (VATA_PYRHO)

Names and origin

Protein names

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:
    1- Recommended name:
            Endonuclease PI-Pho2
              EC=3.1.-.-
        Alternative name(s):
            Pho atpA intein
            Pho VMA intein

Gene names

Name:	atpA
Ordered Locus Names:	PH1975

Organism

Pyrococcus horikoshii [Complete proteome] [HAMAP]

Taxonomic identifier

53953 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus

Protein attributes

Sequence length	964 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Produces ATP from ADP in the presence of a proton gradient across the membrane. The archaeal alpha chain is a catalytic subunit. HAMAP MF_00309
Catalytic activity	ATP + H2O + H+(In) = ADP + phosphate + H+(Out). HAMAP MF_00309
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the VDE intervening region (intein) followed by peptide ligation Potential.
Miscellaneous	The intein interrupts the ATP-binding site. HAMAP MF_00309
Sequence similarities	Belongs to the ATPase alpha/beta chains family. Contains 1 DOD-type homing endonuclease domain.

Ontologies

Keywords
Biological process	ATP synthesis Hydrogen ion transport Intron homing Ion transport Transport
Ligand	ATP-binding Nucleotide-binding
Molecular function	Endonuclease Hydrolase Nuclease
PTM	Autocatalytic cleavage Protein splicing
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro intron homing Inferred from electronic annotation. Source: UniProtKB-KW plasma membrane ATP synthesis coupled proton transport Inferred from electronic annotation. Source: HAMAP
Cellular component	proton-transporting two-sector ATPase complex, catalytic domain Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: HAMAP endonuclease activity Inferred from electronic annotation. Source: UniProtKB-KW hydrogen ion transporting ATP synthase activity, rotational mechanism Inferred from electronic annotation. Source: HAMAP proton-transporting ATPase activity, rotational mechanism Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 240

240

V-type ATP synthase alpha chain, 1st part Potential

PRO_0000002467

Chain

241 – 616

376

Endonuclease PI-Pho2 Potential

PRO_0000002468

Chain

617 – 964

348

V-type ATP synthase alpha chain, 2nd part Potential

PRO_0000002469

Regions

Domain

392 – 518

127

DOD-type homing endonuclease

Secondary structure

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964

Helix Strand Turn

Details...

Beta strand

73 – 76

4

Beta strand

159 – 162

4

Beta strand

175 – 178

4

Beta strand

184 – 187

4

Beta strand

191 – 194

4

Beta strand

202 – 204

3

Helix

216 – 221

6

Helix

619 – 626

8

Beta strand

630 – 635

6

Helix

645 – 648

4

Helix

651 – 653

3

Helix

663 – 666

4

Beta strand

667 – 670

4

Helix

678 – 684

7

Helix

690 – 697

8

Beta strand

702 – 706

5

Helix

735 – 744

10

Beta strand

762 – 765

4

Helix

779 – 786

8

Beta strand

788 – 790

3

Helix

795 – 799

5

Turn

808 – 810

3

Helix

816 – 826

11

Helix

831 – 854

24

Helix

862 – 877

16

Turn

886 – 889

4

Helix

893 – 914

22

Helix

920 – 924

5

Helix

928 – 931

4

Helix

935 – 937

3

Helix

941 – 945

5

Helix

947 – 960

14

Sequences

	Sequence		Length	Mass (Da)
	O57728-1 [UniParc]. Last modified August 1, 1998. Version 1. Checksum: 33252C47713BD5E1	FASTA	964	107,855
	10 20 30 40 50 60 MVAKGRIIRV TGPLVVADGM KGAKMYEVVR VGELGLIGEI IRLEGDKAVI QVYEETAGVR 70 80 90 100 110 120 PGEPVVGTGA SLSVELGPGL LTSIYDGIQR PLEVIREKTG DFIARGVTAP ALPRDKKWHF 130 140 150 160 170 180 IPKAKVGDKV VGGDIIGEVP ETSIIVHKIM VPPGIEGEIV EIAEEGDYTI EEVIAKVKTP 190 200 210 220 230 240 SGEIKELKMY QRWPVRVKRP YKEKLPPEVP LITGQRVIDT FFPQAKGGTA AIPGPFGSGK 250 260 270 280 290 300 CVDGDTLVLT KEFGLIKIKE LYEKLDGKGR KIVEGNEEWT ELEKPITVYG YKDGKIVEIK 310 320 330 340 350 360 ATHVYKGVSS GMVEIRTRTG RKIKVTPIHR LFTGRVTKDG LILKEVMAMH VKPGDRIAVV 370 380 390 400 410 420 KKIDGGEYIK LDSSNVGEIK VPEILNEELA EFLGYLMANG TLKSGIIEIY CDDESLLERV 430 440 450 460 470 480 NSLSLKLFGV GGRIVQKVDG KALVIQSKPL VDVLRRLGVP EDKKVENWKV PRELLLSPSN 490 500 510 520 530 540 VVRAFVNAYI KGKEEVEITL ASEEGAYELS YLFAKLGIYV TISKSGEYYK VRVSRRGNLD 550 560 570 580 590 600 TIPVEVNGMP KVLPYEDFRK FAKSIGLEEV AENHLQHIIF DEVIDVRYIP EPQEVYDVTT 610 620 630 640 650 660 ETHNFVGGNM PTLLHNTVTQ HQLAKWSDAQ VVIYIGCGER GNEMTDVLEE FPKLKDPKTG 670 680 690 700 710 720 KPLMERTVLI ANTSNMPVAA REASIYTGIT IAEYFRDMGY DVALMADSTS RWAEALREIS 730 740 750 760 770 780 GRLEEMPGEE GYPAYLASKL AEFYERAGRV VTLGSDYRVG SVSVIGAVSP PGGDFSEPVV 790 800 810 820 830 840 QNTLRVVKVF WALDADLARR RHFPAINWLT SYSLYVDAVK DWWHKNIDPE WKAMRDKAMA 850 860 870 880 890 900 LLQKESELQE IVRIVGPDAL PERERAILLV ARMLREDYLQ QDAFDEVDTY CPPEKQVTMM 910 920 930 940 950 960 RVLLNFYDKT MEAINRGVPL EEIAKLPVRE EIGRMKFERD VSKIRSLIDK TNEQFEELFK KYGA

References

[1]

"Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3." Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T. , Tanaka T., Kudoh Y., Yamazaki J., Kushida N., Oguchi A., Aoki K., Yoshizawa T., Nakamura Y., Robb F.T., Horikoshi K., Masuchi Y., Shizuya H., Kikuchi H. DNA Res. 5:55-76(1998) [PubMed: 9679194] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: OT3.

+

Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

BA000001 Genomic DNA. Translation: BAA31102.1.

PIR

G71213.

RefSeq

NP_143800.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1VDZ	X-ray	2.55	A	1-964	[»]

ModBase

Search...

Genome annotation databases

GeneID

1442821.

GenomeReviews

Gene locus PH1975 in contig BA000001_GR.

KEGG

pho:PH1975.

NMPDR

fig|70601.1.peg.1935.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

HBG288114.

OMA

HNCGERG.

Enzyme and pathway databases

BioCyc

PHOR70601:PH1975-MON.

BRENDA

3.6.3.14. 74679.

Family and domain databases

HAMAP

MF_00309. Divergent sequence.
[Tree]

InterPro

IPR018118. ATPase_F1/A1-cplx_a/bsu_N.
IPR000793. ATPase_F1/V1/A1-cplx_a/bsu_C.
IPR004100. ATPase_F1/V1/A1-cplx_a/bsu_N.
IPR020003. ATPase_F1/V1/A1_a/bsu_AS.
IPR000194. ATPase_F1/V1/A1_a/bsu_nucl-bd.
IPR003586. Hedgehog_hint_C.
IPR003587. Hedgehog_hint_N.
IPR004042. Intein_endonuc.
IPR006141. Intein_splicing_site.
[Graphical view]

Pfam

PF00006. ATP-synt_ab. 1 hit.
PF00306. ATP-synt_ab_C. 1 hit.
PF02874. ATP-synt_ab_N. 1 hit.
[Graphical view]

SMART

SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]

PROSITE

PS00152. ATPASE_ALPHA_BETA. 1 hit.
PS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

VATA_PYRHO

Accession

Primary (citable) accession number: O57728

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 24, 2001
Last sequence update:	August 1, 1998
Last modified:	December 15, 2009
This is version 73 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)