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(-) Description

Title :  CRYSTAL STRUCTURE OF A HYPOTHETICAL PROTEIN SMC02350 FROM SINORHIZOBIUM MELILOTI 1021
 
Authors :  R. Agarwal, S. C. Almo, S. Swaminathan, New York Structural Genomic Research Consortium (Nysgrc)
Date :  11 Oct 11  (Deposition) - 19 Oct 11  (Release) - 19 Oct 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  E,F,G,H
Biol. Unit 1:  E  (1x)
Biol. Unit 2:  F  (1x)
Biol. Unit 3:  G  (1x)
Biol. Unit 4:  H  (1x)
Keywords :  Structural Genomics, Psi-Biology, New York Structural Genomics Research Consortium, Nysgrc, Hypothetical Protein, Smc02350, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Agarwal, S. C. Almo, S. Swaminathan
Crystal Structure Of A Hypothetical Protein Smc02350 From Sinorhizobium Meliloti 1021
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN
    Chains: E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET
    Expression System Strain: BL21(DE3)RIPL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: R02577, SMC02350
    Organism Common: ENSIFER MELILOTI
    Organism Scientific: SINORHIZOBIUM MELILOTI
    Organism Taxid: 266834
    Strain: 1021

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : EFGH
Biological Unit 1 (1x): E   
Biological Unit 2 (1x):  F  
Biological Unit 3 (1x):   G 
Biological Unit 4 (1x):    H

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3U5R)

(-) Sites  (0, 0)

(no "Site" information available for 3U5R)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3U5R)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Thr E:144 -Pro E:145
2Thr F:144 -Pro F:145
3Thr G:144 -Pro G:145
4Thr H:144 -Pro H:145

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3U5R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3U5R)

(-) Exons   (0, 0)

(no "Exon" information available for 3U5R)

(-) 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 E from PDB  Type:PROTEIN  Length:183
 aligned with Q92MN6_RHIME | Q92MN6 from UniProtKB/TrEMBL  Length:195

    Alignment length:183
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182   
         Q92MN6_RHIME     3 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAG 185
               SCOP domains d3u5re_ E: automated matches                                                                                                                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..............ee.....eehhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhhhhhhhhhhh....eee...hhhhhhhh..ee.eeeee.....eeeee..............hhhhhhhhhhhhh...........eeee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u5r E  26 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAG 208
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205   


Chain F from PDB  Type:PROTEIN  Length:189
 aligned with Q92MN6_RHIME | Q92MN6 from UniProtKB/TrEMBL  Length:195

    Alignment length:189
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182         
         Q92MN6_RHIME     3 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAGNEPSWF 191
               SCOP domains d3u5rf_ F: automated matches                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..............ee.....eehhhhhh...eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhhhhhhhhhhh....eee...hhhhhhhh..ee.eeeee.....eeee...............hhhhhhhhhhhhhh..........eeee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u5r F  26 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAGNEPSWF 214
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205         


Chain G from PDB  Type:PROTEIN  Length:189
 aligned with Q92MN6_RHIME | Q92MN6 from UniProtKB/TrEMBL  Length:195

    Alignment length:189
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182         
         Q92MN6_RHIME     3 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAGNEPSWF 191
               SCOP domains d3u5rg_ G: automated matches                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..............ee.....eehhhhhh...eeeeee....hhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhhhhhhhhhhh....eee...hhhhhhhh..ee.eeeee.....eeee...............hhhhhhhhhhhhh...........eeee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u5r G  26 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAGNEPSWF 214
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205         


Chain H from PDB  Type:PROTEIN  Length:184
 aligned with Q92MN6_RHIME | Q92MN6 from UniProtKB/TrEMBL  Length:195

    Alignment length:184
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182    
         Q92MN6_RHIME     3 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAGN 186
               SCOP domains d3u5rh_ H: automated matches                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee..............ee.....eehhhhhh...eeeeeee...hhhhhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhhhhhhhhhhh....eee...hhhhhhhh..ee.eeeee.....eeeee..............hhhhhhhhhhhhhh..........eeee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u5r H  26 KTQSNSITLGTRAADFVLPDAGGNLFTLAEFKDSPALLVAFISNRCPFVVLIREALAKFAGDYAGQGLAVVAINSNDAQAFPEETLERVGAEVKAYGYGFPYLKDASQSVAKAYGAACTPDFFLYDRERRLVYHGQFDDARPGNGKDVTGADLRAAVDAVLKGKDVGTTQVPSIGCNIKWTAGN 209
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205
   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  (1, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3U5R)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3U5R)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain E,F,G,H   (Q92MN6_RHIME | Q92MN6)
molecular function
    GO:0016209    antioxidant activity    Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
    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.
biological process
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    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.

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  Cis Peptide Bonds
    Thr E:144 - Pro E:145   [ RasMol ]  
    Thr F:144 - Pro F:145   [ RasMol ]  
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