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(-) Description

Title :  CRYSTAL STRUCTURE OF THE K182R, A183P MUTANT MANGANESE SUPEROXIDE DISMUTASE FROM SACCHROMYCES CEREVISIAE
 
Authors :  Y. Sheng, D. Cascio, J. S. Valentine
Date :  14 May 12  (Deposition) - 12 Jun 13  (Release) - 12 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Mn Superoxide Dismutase, Dimer Interface, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Sheng, D. Cascio, J. S. Valentine
Crystal Structure Of The K182R, A183P Mutant Manganese Superoxide Dismutase From Sacchromyces Cerevisiae
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - SUPEROXIDE DISMUTASE [MN], MITOCHONDRIAL
    Chains: A, B, C, D
    EC Number: 1.15.1.1
    Engineered: YES
    Expression System: SACCHAROMYCES CEREVISIAE
    Expression System Plasmid: YEP352-SOD2
    Expression System Strain: EG110
    Expression System Taxid: 4932
    Expression System Vector Type: PLASMID
    Gene: SOD2, YHR008C
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 65)

Asymmetric/Biological Unit (4, 65)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MLY59Mod. Amino AcidN-DIMETHYL-LYSINE
3MN4Ligand/IonMANGANESE (II) ION
4TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:26 , HIS A:81 , ASP A:168 , HIS A:172 , HOH A:403BINDING SITE FOR RESIDUE MN A 301
2AC2SOFTWAREHIS B:26 , HIS B:81 , ASP B:168 , HIS B:172 , HOH B:401BINDING SITE FOR RESIDUE MN B 301
3AC3SOFTWAREHIS C:26 , HIS C:81 , ASP C:168 , HIS C:172 , HOH C:402BINDING SITE FOR RESIDUE MN C 301
4AC4SOFTWAREPHE A:11 , GLY A:12 , GLY A:20 , GLN A:21 , HOH A:447 , GLN C:179 , MLY C:181 , HOH C:433BINDING SITE FOR RESIDUE TRS C 302
5AC5SOFTWAREHIS D:26 , HIS D:81 , ASP D:168 , HIS D:172 , HOH D:403BINDING SITE FOR RESIDUE MN D 302
6AC6SOFTWAREGLU B:15 , GLY B:20 , GLN B:21 , TYR D:178 , MLY D:181 , ASP D:184 , HOH D:520BINDING SITE FOR RESIDUE GOL D 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4F6E)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Glu A:15 -Pro A:16
2Glu B:15 -Pro B:16
3Glu C:15 -Pro C:16
4Glu D:15 -Pro D:16

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4F6E)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4F6E)

(-) Exons   (0, 0)

(no "Exon" information available for 4F6E)

(-) 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:207
                                                                                                                                                                                                                                               
               SCOP domains d4f6ea1 A:1-90 automated matches                                                          d4f6ea2 A:91-207 automated matches                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.hhh..eeeeeee........eeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f6e A   1 kVTLPDLkWDFGALEPYISGQINELHYTkHHQTYVNGFNTAVDQFQELSDLLAkEPSPANARkMIAIQQNIkFHGGGFTNHCLFWENLAPESQGGGEPPTGALAkAIDEQFGSLDELIkLTNTkLAGVQGSGWAFIVkNLSNGGkLDVVQTYNQDTVTGPLVPLVAIDAWEHAYYLQYQNkRPDYFkAIWNVVNWkEASRRFDAGkI 207
                            |      |10        20        30        40        50   |    60  |     70 |      80        90       100    |  110       120   |   130       140    |  150       160       170       180|     |190     | 200     | 
                            |      8-MLY               29-MLY                   54-MLY   63-MLY   72-MLY                          105-MLY       119-MLY|           138-MLY  |                                 181-MLY |      196-MLY   206-MLY
                            1-MLY                                                                                                                    124-MLY              145-MLY                                   187-MLY                


Chain B from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains d4f6eb1 B:1-90 automated matches                                                          d4f6eb2 B:91-205 automated matches                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee......eeeeeee........eeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f6e B   1 kVTLPDLkWDFGALEPYISGQINELHYTkHHQTYVNGFNTAVDQFQELSDLLAkEPSPANARkMIAIQQNIkFHGGGFTNHCLFWENLAPESQGGGEPPTGALAkAIDEQFGSLDELIkLTNTkLAGVQGSGWAFIVkNLSNGGkLDVVQTYNQDTVTGPLVPLVAIDAWEHAYYLQYQNkRPDYFkAIWNVVNWkEASRRFDAG 205
                            |      |10        20        30        40        50   |    60  |     70 |      80        90       100    |  110       120   |   130       140    |  150       160       170       180|     |190     | 200     
                            |      8-MLY               29-MLY                   54-MLY   63-MLY   72-MLY                          105-MLY       119-MLY|           138-MLY  |                                 181-MLY |      196-MLY     
                            1-MLY                                                                                                                    124-MLY              145-MLY                                   187-MLY              


Chain C from PDB  Type:PROTEIN  Length:207
                                                                                                                                                                                                                                               
               SCOP domains d4f6ec1 C:1-90 automated matches                                                          d4f6ec2 C:91-207 automated matches                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....eeeeeeee........eeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f6e C   1 kVTLPDLkWDFGALEPYISGQINELHYTkHHQTYVNGFNTAVDQFQELSDLLAkEPSPANARkMIAIQQNIkFHGGGFTNHCLFWENLAPESQGGGEPPTGALAkAIDEQFGSLDELIkLTNTkLAGVQGSGWAFIVkNLSNGGkLDVVQTYNQDTVTGPLVPLVAIDAWEHAYYLQYQNkRPDYFkAIWNVVNWkEASRRFDAGkI 207
                            |      |10        20        30        40        50   |    60  |     70 |      80        90       100    |  110       120   |   130       140    |  150       160       170       180|     |190     | 200     | 
                            1-MLY  8-MLY               29-MLY                   54-MLY   63-MLY   72-MLY                          105-MLY       119-MLY|           138-MLY  |                                 181-MLY |      196-MLY   206-MLY
                                                                                                                                                     124-MLY              145-MLY                                   187-MLY                


Chain D from PDB  Type:PROTEIN  Length:206
                                                                                                                                                                                                                                              
               SCOP domains d4f6ed1 D:1-90 automated matches                                                          d4f6ed2 D:91-205 automated matches                                                                                 - SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....eeeeeeee........eeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f6e D   1 kVTLPDLkWDFGALEPYISGQINELHYTkHHQTYVNGFNTAVDQFQELSDLLAkEPSPANARkMIAIQQNIkFHGGGFTNHCLFWENLAPESQGGGEPPTGALAkAIDEQFGSLDELIkLTNTkLAGVQGSGWAFIVkNLSNGGkLDVVQTYNQDTVTGPLVPLVAIDAWEHAYYLQYQNkRPDYFkAIWNVVNWkEASRRFDAGk 301
                            |      |10        20        30        40        50   |    60  |     70 |      80        90       100    |  110       120   |   130       140    |  150       160       170       180|     |190     | 200    ||
                            |      8-MLY               29-MLY                   54-MLY   63-MLY   72-MLY                          105-MLY       119-MLY|           138-MLY  |                                 181-MLY |      196-MLY  205|
                            1-MLY                                                                                                                    124-MLY              145-MLY                                   187-MLY            301-MLY
   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, 8)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4F6E)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4F6E)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        SODM_YEAST | P00447: 3bfr 3lsu 3rn4 4e4e

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