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(-) Description

Title :  STRUCTURE OF THE YEAST F1FO ATPASE C10 RING WITH OLIGOMYCIN A
 
Authors :  J. Symersky, T. Xu, D. M. Mueller
Date :  28 May 15  (Deposition) - 26 Aug 15  (Release) - 26 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
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 A, Mitochondria, Membrane, Protein-Antibiotic Complex, Membrane Protein-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. M. Mueller
Structure Of The Yeast F1Fo Atpase C10 Ring With Oligomycin A
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ATP SYNTHASE SUBUNIT 9, MITOCHONDRIAL
    Chains: A, B, C, D, E, K, L, M, N, O
    EC Number: 3.6.-.-
    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:63 , LEU C:66 , HOH C:101binding site for residue EFO B 101
2AC2SOFTWAREALA A:56 , ALA A:60 , PHE A:64 , ILE B:52 , ALA B:56 , GLU B:59 , ALA B:60 , LEU B:63 , HOH B:201 , HOH B:209 , HOH B:219 , EFO K:101 , EFO O:101binding site for residue EFO B 102
3AC3SOFTWAREALA D:56 , ALA D:60 , ILE E:52 , PHE E:55 , ALA E:56 , GLU E:59 , LEU E:63 , HOH E:201binding site for residue EFO E 101
4AC4SOFTWAREILE A:52 , PHE A:55 , ALA A:56 , GLU A:59 , HOH A:105 , EFO B:102 , LEU E:53 , ILE K:52 , ALA K:56 , GLU K:59 , ALA K:60 , LEU K:63 , HOH K:202 , EFO L:101 , ALA O:60 , PHE O:64binding site for residue EFO K 101
5AC5SOFTWAREALA K:56 , LEU K:57 , ALA K:60 , PHE K:64 , EFO K:101 , PHE L:55 , ALA L:56 , GLU L:59 , ALA L:60 , LEU L:63binding site for residue EFO L 101
6AC6SOFTWARELEU C:53 , ALA L:56 , ALA L:60 , PHE M:55 , ALA M:56 , GLU M:59 , LEU M:63 , HOH M:201binding site for residue EFO M 101
7AC7SOFTWAREEFO B:102 , HOH B:209 , ALA N:56 , LEU N:57 , ALA N:60 , ILE O:52 , ALA O:56 , GLU O:59 , LEU O:63 , HOH O:201binding site for residue EFO O 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5BPS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5BPS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5BPS)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5BPS)

(-) Exons   (0, 0)

(no "Exon" information available for 5BPS)

(-) 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
                  5bps 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
                  5bps 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..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  5bps C  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME                                                                      


Chain D from PDB  Type:PROTEIN  Length:74
                                                                                                         
               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
                  5bps D  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
                            |       10        20        30        40        50        60        70    
                            1-FME                                                                     


Chain E from PDB  Type:PROTEIN  Length:74
                                                                                                         
               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
                  5bps E  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
                            |       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
                  5bps 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
                  5bps 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..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  5bps 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
                  5bps 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
                  5bps 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 5BPS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5BPS)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5BPS)

(-) Gene Ontology  (20, 20)

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        ATP9_YEAST | P61829: 2wpd 2xok 3u2f 3u2y 3u32 3ud0 3zry 4b2q 4f4s 5bq6 5bqa 5bqj

(-) Related Entries Specified in the PDB File

5bq6 5bqa 5bqj