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(-) Description

Title :  STRUCTURE OF THE YEAST F1FO ATPASE C10 RING WITH BOUND OLIGOMYCIN
 
Authors :  J. Symersky, D. M. Mueller
Date :  11 May 12  (Deposition) - 15 Aug 12  (Release) - 26 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D,E,K,L,M,N,O
Biol. Unit 1:  A,B,C,D,E  (2x)
Biol. Unit 2:  K,L,M,N,O  (2x)
Keywords :  C10 Ring, F1Fo Atp Synthase, Oligomycin, Mitochondria, Membrane Protein-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Symersky, D. Osowski, D. E. Walters, D. M. Mueller
Oligomycin Frames A Common Drug-Binding Site In The Atp Synthase.
Proc. Natl. Acad. Sci. Usa V. 109 13961 2012
PubMed-ID: 22869738  |  Reference-DOI: 10.1073/PNAS.1207912109

(-) Compounds

Molecule 1 - ATP SYNTHASE SUBUNIT 9, MITOCHONDRIAL
    Chains: A, B, C, D, E, K, L, M, N, O
    Engineered: YES
    Expression System: SACCHAROMYCES CEREVISIAE
    Expression System Common: BAKER'S YEAST
    Expression System Taxid: 4932
    Gene: OLI1, ATP9, OLI3, PHO2, Q0130
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 4932
    Synonym: LIPID-BINDING PROTEIN, OLIGOMYCIN RESISTANCE PROTEIN 1

 Structural Features

(-) Chains, Units

  12345678910
Asymmetric Unit : ABCDEKLMNO
Biological Unit 1 (2x): ABCDE     
Biological Unit 2 (2x):      KLMNO

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 17)

Asymmetric Unit (2, 17)
No.NameCountTypeFull Name
1EFO7Ligand/IonOLIGOMYCIN A
2FME10Mod. Amino AcidN-FORMYLMETHIONINE
Biological Unit 1 (2, 16)
No.NameCountTypeFull Name
1EFO6Ligand/IonOLIGOMYCIN A
2FME10Mod. Amino AcidN-FORMYLMETHIONINE
Biological Unit 2 (2, 18)
No.NameCountTypeFull Name
1EFO8Ligand/IonOLIGOMYCIN A
2FME10Mod. Amino AcidN-FORMYLMETHIONINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA B:56 , ALA B:60 , PHE B:64 , ILE C:52 , ALA C:56 , GLU C:59 , LEU C:63BINDING SITE FOR RESIDUE EFO B 101
2AC2SOFTWARELEU A:57 , ALA A:60 , PHE A:64 , ILE B:52 , ALA B:56 , GLU B:59 , ALA B:60 , LEU B:63 , HOH B:206 , EFO K:102 , EFO O:101 , HOH O:202BINDING SITE FOR RESIDUE EFO B 102
3AC3SOFTWAREALA D:56 , ALA D:60 , PHE E:55 , ALA E:56 , GLU E:59 , ALA E:60 , LEU E:63 , HOH E:209 , HOH E:213BINDING SITE FOR RESIDUE EFO E 101
4AC4SOFTWAREALA K:56 , LEU K:57 , ALA K:60 , PHE K:64 , EFO K:102 , ALA L:56 , GLU L:59 , ALA L:60 , LEU L:63 , EFO M:101BINDING SITE FOR RESIDUE EFO K 101
5AC5SOFTWAREILE A:52 , PHE A:55 , ALA A:56 , GLU A:59 , EFO B:102 , LEU E:53 , LEU E:57 , ILE K:52 , PHE K:55 , ALA K:56 , GLU K:59 , LEU K:63 , EFO K:101 , ALA O:60 , PHE O:64BINDING SITE FOR RESIDUE EFO K 102
6AC6SOFTWAREPHE D:55 , EFO K:101 , ALA L:56 , ALA L:60 , PHE L:64 , PHE M:55 , ALA M:56 , GLU M:59 , ALA M:60 , LEU M:63BINDING SITE FOR RESIDUE EFO M 101
7AC7SOFTWAREEFO B:102 , ALA N:56 , LEU N:57 , ALA N:60 , ILE O:52 , ALA O:56 , GLU O:59 , LEU O:63 , HOH O:202 , HOH O:213BINDING SITE FOR RESIDUE EFO O 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4F4S)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4F4S)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4F4S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4F4S)

(-) Exons   (0, 0)

(no "Exon" information available for 4F4S)

(-) 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:74
                                                                                                         
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                  4f4s A  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
                            |       10        20        30        40        50        60        70    
                            |                                                                         
                            1-FME                                                                     


Chain B from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s B  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain C from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s C  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain D from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s D  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain E from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s E  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain K from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s K  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain L from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s L  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain M from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s M  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain N from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s N  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain O from PDB  Type:PROTEIN  Length:75
                                                                                                          
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  4f4s O  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME
   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 4F4S)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4F4S)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4F4S)

(-) Gene Ontology  (20, 20)

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 Related Entries

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

UniProtKB/Swiss-Prot
        ATP9_YEAST | P61829: 2wpd 2xok 3u2f 3u2y 3u32 3ud0 3zry 4b2q 5bps 5bq6 5bqa 5bqj

(-) Related Entries Specified in the PDB File

3u2f YEAST C10 RING AT PH 8.3
3u2y YEAST C10 RING AT PH 6.1
3u32 YEAST C10 RING REACTED WITH DCCD
3ud0 YEAST C10 RING AT PH 5.5