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(-) Description

Title :  EPSILON SUBUNIT AND ATP COMPLEX OF F1F0-ATP SYNTHASE FROM THE THERMOPHILIC BACILLUS PS3
 
Authors :  H. Yagi, H. Akutsu
Date :  25 Dec 06  (Deposition) - 10 Jul 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.92
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Atp Synthase, F1Fo Atp Synthase, F1-Atpase, Epsilon Subunit, Atp, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Yagi, N. Kajiwara, H. Tanaka, T. Tsukihara, Y. Kato-Yamada, M. Yoshida, H. Akutsu
Structures Of The Thermophilic F1-Atpase {Varepsilon} Subunit Suggesting Atp-Regulated Arm Motion Of Its C-Terminal Domain In F1
Proc. Natl. Acad. Sci. Usa V. 104 11233 2007
PubMed-ID: 17581881  |  Reference-DOI: 10.1073/PNAS.0701045104
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ATP SYNTHASE EPSILON CHAIN
    Chains: A, B
    EC Number: 3.6.3.14
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET32A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS SP. PS3
    Organism Taxid: 2334
    Synonym: ATP SYNTHASE F1 SECTOR EPSILON SUBUNIT

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1ATP2Ligand/IonADENOSINE-5'-TRIPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:12 , GLU A:83 , ASP A:87 , ILE A:88 , ASP A:89 , ARG A:92 , ALA A:93 , ARG A:99 , ARG A:122 , ARG A:126 , HOH A:1002 , HOH A:1004 , HOH A:1006 , HOH A:1007 , HOH A:1015 , HOH A:1016 , HOH A:1029 , HOH A:1042 , HOH A:1053 , HOH A:1078 , HOH A:1098 , LYS B:114 , ARG B:115BINDING SITE FOR RESIDUE ATP A 1001
2AC2SOFTWAREARG A:115 , GLU B:83 , ASP B:87 , ILE B:88 , ASP B:89 , ARG B:92 , ALA B:93 , ARG B:99 , ARG B:122 , ARG B:126 , HOH B:1003 , HOH B:1004 , HOH B:1009 , HOH B:1010 , HOH B:1017 , HOH B:1054 , HOH B:1073 , HOH B:1076 , HOH B:1084BINDING SITE FOR RESIDUE ATP B 1002

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2E5Y)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2E5Y)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2E5Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2E5Y)

(-) Exons   (0, 0)

(no "Exon" information available for 2E5Y)

(-) Sequences/Alignments

Asymmetric/Biological 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:133
 aligned with ATPE_BACP3 | P07678 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:133
                                                                                                                              99                                 
                                                                                                                            98 |                                 
                                    10        20        30        40        50        60        70        80        90       |99       109       119       129   
           ATPE_BACP3     1 MKTIHVSVVTPDGPVYEDDVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKGGKTQYIAVSGGFLEVRPDNVTILAQAAERAEDIDVLRAKARKS-GRTPLQSQQDDIDFKRAELALKRAMNRLSVAEMK 132
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2e5yA01 A:1-88 ATP Synthase; domain 1                                                   2e5yA02 A:89-133                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..eeeeeeee.eeeeee..eeeee......eeeeeeeeeeeeee..eeeeeeeeeeeeeee..eeeeee..eee.hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2e5y A   1 MKTIHVSVVTPDGPVYEDDVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKGGKTQYIAVSGGFLEVRPDKVTILAQAAERAEDIDVLRAKAAKERAERRLQSQQDDIDFKRAELALKRAMNRLSVAEMK 133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130   


Chain B from PDB  Type:PROTEIN  Length:133
 aligned with ATPE_BACP3 | P07678 from UniProtKB/Swiss-Prot  Length:132

    Alignment length:133
                                                                                                                              99                                 
                                                                                                                            98 |                                 
                                    10        20        30        40        50        60        70        80        90       |99       109       119       129   
           ATPE_BACP3     1 MKTIHVSVVTPDGPVYEDDVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKGGKTQYIAVSGGFLEVRPDNVTILAQAAERAEDIDVLRAKARKS-GRTPLQSQQDDIDFKRAELALKRAMNRLSVAEMK 132
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2e5yB01 B:1-88 ATP Synthase; domain 1                                                   2e5yB02 B:89-133                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee..eeeeeeee.eeeeee..eeeee......eeeeeeeeeeeeee..eeeeeeeeeeeeee....eeeee..eee.hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2e5y B   1 MKTIHVSVVTPDGPVYEDDVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKGGKTQYIAVSGGFLEVRPDKVTILAQAAERAEDIDVLRAKAAKERAERRLQSQQDDIDFKRAELALKRAMNRLSVAEMK 133
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   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  (0, 0)

(no "SCOP Domain" information available for 2E5Y)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2E5Y)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (ATPE_BACP3 | P07678)
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.
    GO:0046961    proton-transporting ATPase activity, rotational mechanism    Catalysis of the transfer of protons from one side of a membrane to the other according to the reaction: ATP + H2O + H+(in) = ADP + phosphate + 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:0015986    ATP synthesis coupled proton transport    The transport of protons across a membrane to generate an electrochemical gradient (proton-motive force) that powers ATP synthesis.
    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.
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0045261    proton-transporting ATP synthase complex, catalytic core F(1)    The sector of a hydrogen-transporting ATP synthase complex in which the catalytic activity resides; it comprises the catalytic core and central stalk, and is peripherally associated with a membrane, such as the plasma membrane or the mitochondrial inner membrane, when the entire ATP synthase is assembled.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ATPE_BACP3 | P07678: 2e5t 2e5u

(-) Related Entries Specified in the PDB File

1aqt THE SAME PROTEIN FORM E.COLI.
1bsn THE SAME PROTEIN FORM E.COLI.
2e5t SOLUTION STRUCTURE OF C-TERMINAL DOMAIN OF THE SAME PROTEIN IN THE PRESENCE OF ATP CONDITION
2e5u SOLUTION STRUCTURE OF C-TERMINAL DOMAIN OF THE SAME PROTEIN