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(-) Description

Title :  STRUCTURE-FUNCTION IN E. COLI IRON SUPEROXIDE DISMUTASE: COMPARISONS WITH THE MANGANESE ENZYME FROM T. THERMOPHILUS
 
Authors :  M. S. Lah, M. Dixon, K. A. Pattridge, W. C. Stallings, J. A. Fee, M. L. Ludw
Date :  13 Jul 94  (Deposition) - 15 Oct 94  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Oxidoreductase(Superoxide Acceptor) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. S. Lah, M. M. Dixon, K. A. Pattridge, W. C. Stallings, J. A. Fee, M. L. Ludwig
Structure-Function In Escherichia Coli Iron Superoxide Dismutase: Comparisons With The Manganese Enzyme From Thermus Thermophilus.
Biochemistry V. 34 1646 1995
PubMed-ID: 7849024  |  Reference-DOI: 10.1021/BI00005A021
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MANGANESE SUPEROXIDE DISMUTASE
    Chains: A, B
    EC Number: 1.15.1.1
    Engineered: YES
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1AZI2Ligand/IonAZIDE ION
2MN2Ligand/IonMANGANESE (II) ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1AZI4Ligand/IonAZIDE ION
2MN-1Ligand/IonMANGANESE (II) ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:28 , HIS A:83 , ASP A:166 , HIS A:170 , AZI A:206 , HOH A:207BINDING SITE FOR RESIDUE MN A 204
2AC2SOFTWAREHIS A:28 , HIS A:32 , TYR A:36 , HIS A:83 , GLN A:151 , HIS A:170 , MN A:204 , HOH A:207BINDING SITE FOR RESIDUE AZI A 206
3AC3SOFTWAREHIS B:28 , HIS B:83 , ASP B:166 , HIS B:170 , AZI B:206 , HOH B:207BINDING SITE FOR RESIDUE MN B 204
4AC4SOFTWAREHIS B:28 , HIS B:32 , TYR B:36 , HIS B:83 , GLN B:151 , HIS B:170 , MN B:204 , HOH B:207BINDING SITE FOR RESIDUE AZI B 206

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1MNG)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Tyr A:2 -Pro A:3
2Glu A:17 -Pro A:18
3Tyr B:2 -Pro B:3
4Glu B:17 -Pro B:18

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MNG)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SOD_MNPS00088 Manganese and iron superoxide dismutases signature.SODM_THET8167-174
 		  2A:166-173
B:166-173
Biological Unit 1 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SOD_MNPS00088 Manganese and iron superoxide dismutases signature.SODM_THET8167-174
 		  4A:166-173
B:166-173

(-) Exons   (0, 0)

(no "Exon" information available for 1MNG)

(-) 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:203
 aligned with SODM_THET8 | P61503 from UniProtKB/Swiss-Prot  Length:204

    Alignment length:203
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201   
           SODM_THET8     2 PYPFKLPDLGYPYEALEPHIDAKTMEIHHQKHHGAYVTNLNAALEKYPYLHGVEVEVLLRHLAALPQDIQTAVRNNGGGHLNHSLFWRLLTPGGAKEPVGELKKAIDEQFGGFQALKEKLTQAAMGRFGSGWAWLVKDPFGKLHVLSTPNQDNPVMEGFTPIVGIDVWEHAYYLKYQNRRADYLQAIWNVLNWDVAEEFFKKA 204
               SCOP domains d1mnga1 A:1-92 Mn superoxide dismutase (MnSOD)                                              d1mnga2 A:93-203 Mn superoxide dismutase (MnSOD)                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhh........hhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhh..hhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeeee..hhhhh..eeeeeeee...........hhhhhhhhh....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------SOD_MN  ------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mng A   1 PYPFKLPDLGYPYEALEPHIDAKTMEIHHQKHHGAYVTNLNAALEKYPYLHGVEVEVLLRHLAALPQDIQTAVRNNGGGHLNHSLFWRLLTPGGAKEPVGELKKAIDEQFGGFQALKEKLTQAAMGRFGSGWAWLVKDPFGKLHVLSTPNQDNPVMEGFTPIVGIDVWEHAYYLKYQNRRADYLQAIWNVLNWDVAEEFFKKA 203
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200   


Chain B from PDB  Type:PROTEIN  Length:203
 aligned with SODM_THET8 | P61503 from UniProtKB/Swiss-Prot  Length:204

    Alignment length:203
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201   
           SODM_THET8     2 PYPFKLPDLGYPYEALEPHIDAKTMEIHHQKHHGAYVTNLNAALEKYPYLHGVEVEVLLRHLAALPQDIQTAVRNNGGGHLNHSLFWRLLTPGGAKEPVGELKKAIDEQFGGFQALKEKLTQAAMGRFGSGWAWLVKDPFGKLHVLSTPNQDNPVMEGFTPIVGIDVWEHAYYLKYQNRRADYLQAIWNVLNWDVAEEFFKKA 204
               SCOP domains d1mngb1 B:1-92 Mn superoxide dismutase (MnSOD)                                              d1mngb2 B:93-203 Mn superoxide dismutase (MnSOD)                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --Sod_Fe_N-1mngB03 B:3-91                                                                  ----Sod_Fe_C-1mngB01 B:96-200                                                                                --- Pfam domains (1)
           Pfam domains (2) --Sod_Fe_N-1mngB04 B:3-91                                                                  ----Sod_Fe_C-1mngB02 B:96-200                                                                                --- Pfam domains (2)
         Sec.struct. author ....................hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhh........hhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhh..hhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeeee..hhhhh..eeeeeeee...........hhhhhhhhh....hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------SOD_MN  ------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mng B   1 PYPFKLPDLGYPYEALEPHIDAKTMEIHHQKHHGAYVTNLNAALEKYPYLHGVEVEVLLRHLAALPQDIQTAVRNNGGGHLNHSLFWRLLTPGGAKEPVGELKKAIDEQFGGFQALKEKLTQAAMGRFGSGWAWLVKDPFGKLHVLSTPNQDNPVMEGFTPIVGIDVWEHAYYLKYQNRRADYLQAIWNVLNWDVAEEFFKKA 203
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1MNG)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: no clan defined [family: Sod_Fe_C] (46)
(-)
Clan: no clan defined [family: Sod_Fe_N] (46)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (SODM_THET8 | P61503)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0004784    superoxide dismutase activity    Catalysis of the reaction: 2 superoxide + 2 H+ = O2 + hydrogen peroxide.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0019430    removal of superoxide radicals    Any process, acting at the cellular level, involved in removing superoxide radicals (O2-) from a cell or organism, e.g. by conversion to dioxygen (O2) and hydrogen peroxide (H2O2).
    GO:0006801    superoxide metabolic process    The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.

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  1mng
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 Related Entries

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        SODM_THET8 | P61503: 3mds

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