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(-) Description

Title :  SUBUNIT F OF V-TYPE ATPASE/SYNTHASE
 
Authors :  H. Makyio, R. Iino, C. Ikeda, H. Imamura, M. Tamakoshi, M. Iwata, D. Stoc R. A. Bernal, E. P. Carpenter, M. Yoshida, K. Yokoyama, S. Iwata
Date :  21 Jul 05  (Deposition) - 06 Dec 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C,D,E,F  (1x)
Biol. Unit 2:  A,B,C,D,E,F  (2x)
Keywords :  V-Atpase, Subunit F, Chey, Fret, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Makyio, R. Iino, C. Ikeda, H. Imamura, M. Tamakoshi, M. Iwata, D. Stock, R. A. Bernal, E. P. Carpenter, M. Yoshida, K. Yokoyama, S. Iwata
Structure Of A Central Stalk Subunit F Of Prokaryotic V-Typ Atpase/Synthase From Thermus Thermophilus
Embo J. V. 24 3974 2005
PubMed-ID: 16281059  |  Reference-DOI: 10.1038/SJ.EMBOJ.7600859

(-) Compounds

Molecule 1 - V-TYPE ATP SYNTHASE SUBUNIT F
    Chains: A, B, C, D, E, F
    EC Number: 3.6.3.14
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274
    Synonym: V-TYPE ATPASE SUBUNIT F

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABCDEF
Biological Unit 2 (2x): ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:70 , ASP A:72 , HOH A:160 , GLY D:27 , GLU D:33 , HOH D:1043BINDING SITE FOR RESIDUE CA D 1001
2AC2SOFTWAREGLY B:70 , ASP B:72 , HOH B:1038 , GLY E:27 , HOH E:158BINDING SITE FOR RESIDUE CA B 1002
3AC3SOFTWAREGLY C:70 , ASP C:72 , HOH C:1004 , HOH C:1025 , HOH C:1041 , GLY F:27 , GLU F:33BINDING SITE FOR RESIDUE CA C 1003
4AC4SOFTWAREGLY B:27 , GLU B:33 , HOH B:1034 , GLY E:70 , ASP E:72BINDING SITE FOR RESIDUE CA B 1004

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2D00)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2D00)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2D00)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2D00)

(-) Exons   (0, 0)

(no "Exon" information available for 2D00)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:109
 aligned with VATF_THET8 | P74903 from UniProtKB/Swiss-Prot  Length:104

    Alignment length:109
                                 1                                                                                                       
                                 |   5        15        25        35        45        55        65        75        85        95         
           VATF_THET8     - -----MAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 104
               SCOP domains -----d2d00a1 A:6-109 V-type ATP synthase subunit F, AtpF                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhh...eeeee.....hhhhhhhhhh......eeeee.hhhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 2d00 A   1 MVPVRMAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 109
                                    10        20        30        40        50        60        70        80        90       100         


Chain B from PDB  Type:PROTEIN  Length:109
 aligned with VATF_THET8 | P74903 from UniProtKB/Swiss-Prot  Length:104

    Alignment length:109
                                 1                                                                                                       
                                 |   5        15        25        35        45        55        65        75        85        95         
           VATF_THET8     - -----MAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 104
               SCOP domains d2d00b_ B: automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhh...eee..hhhhhhhhhhhhhh.....eeeee.hhh.hhhhhhhhhhh.....eeeee.hhhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 2d00 B   1 MVPVRMAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 109
                                    10        20        30        40        50        60        70        80        90       100         


Chain C from PDB  Type:PROTEIN  Length:109
 aligned with VATF_THET8 | P74903 from UniProtKB/Swiss-Prot  Length:104

    Alignment length:109
                                 1                                                                                                       
                                 |   5        15        25        35        45        55        65        75        85        95         
           VATF_THET8     - -----MAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 104
               SCOP domains d2d00c_ C: automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhh..eeee..hhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhh....eeeee..hhhhh...hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 2d00 C   1 MVPVRMAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 109
                                    10        20        30        40        50        60        70        80        90       100         


Chain D from PDB  Type:PROTEIN  Length:109
 aligned with VATF_THET8 | P74903 from UniProtKB/Swiss-Prot  Length:104

    Alignment length:109
                                 1                                                                                                       
                                 |   5        15        25        35        45        55        65        75        85        95         
           VATF_THET8     - -----MAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 104
               SCOP domains d2d00d_ D: automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhh...eeeee.hhh.hhhhhhhhhhh.....eeeee.hhhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 2d00 D   1 MVPVRMAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 109
                                    10        20        30        40        50        60        70        80        90       100         


Chain E from PDB  Type:PROTEIN  Length:109
 aligned with VATF_THET8 | P74903 from UniProtKB/Swiss-Prot  Length:104

    Alignment length:109
                                 1                                                                                                       
                                 |   5        15        25        35        45        55        65        75        85        95         
           VATF_THET8     - -----MAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 104
               SCOP domains d2d00e_ E: automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhh...eeeee.hhh.hhhhhhhhhhhh....eeeee.hhhhhhh..hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 2d00 E   1 MVPVRMAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 109
                                    10        20        30        40        50        60        70        80        90       100         


Chain F from PDB  Type:PROTEIN  Length:109
 aligned with VATF_THET8 | P74903 from UniProtKB/Swiss-Prot  Length:104

    Alignment length:109
                                 1                                                                                                       
                                 |   5        15        25        35        45        55        65        75        85        95         
           VATF_THET8     - -----MAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 104
               SCOP domains d2d00f_ F: automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeehhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhh...eeeee.hhh.hhhhhhhhhhh.....eeeee..hhhhh...hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 2d00 F   1 MVPVRMAVIADPETAQGFRLAGLEGYGASSAEEAQSLLETLVERGGYALVAVDEALLPDPERAVERLMRGRDLPVLLPIAGLKEAFQGHDVEGYMRELVRKTIGFDIKL 109
                                    10        20        30        40        50        60        70        80        90       100
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 6)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2D00)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2D00)

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (VATF_THET8 | P74903)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0046933    proton-transporting ATP synthase activity, rotational mechanism    Catalysis of the transfer of protons from one side of a membrane to the other according to the reaction: ADP + H2O + phosphate + H+(in) = ATP + H+(out), by a rotational mechanism.
biological process
    GO:0006754    ATP biosynthetic process    The chemical reactions and pathways resulting in the formation of ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0034220    ion transmembrane transport    A process in which an ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0042777    plasma membrane ATP synthesis coupled proton transport    The transport of protons across the plasma membrane to generate an electrochemical gradient (proton-motive force) that powers ATP synthesis.
    GO:0015992    proton transport    The directed movement of protons (hydrogen ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        VATF_THET8 | P74903: 3a5c 3a5d 3j0j 3w3a 5gar 5gas 5tsj

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