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(-) Description

Title :  CRYSTAL STRUCTURE OF TM1620 (APC4843) FROM THERMOTOGA MARITIMA
 
Authors :  Y. Kim, A. Joachimiak, J. S. Brunzelle, S. V. Korolev, A. Edwards, X. Xu, A. Savchenko, Midwest Center For Structural Genomics (Mcsg)
Date :  06 May 03  (Deposition) - 23 Sep 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Conserved Hypothetical Protein, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, A. Joachimiak, J. S. Brunzelle, S. V. Korolev, A. Edwards, X. Xu, A. Savchenko
Crystal Structure Analysis Of Thermotoga Maritima Protein Tm1620 (Apc4843)
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CONSERVED HYPOTHETICAL PROTEIN
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336
    Synonym: TM1620 (APC4843)

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1P8C)

(-) Sites  (0, 0)

(no "Site" information available for 1P8C)

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:59 -A:62
2B:59 -B:62
3C:59 -C:62
4D:59 -D:62
5E:59 -E:62
6F:59 -F:62

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1P8C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1P8C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1P8C)

(-) Exons   (0, 0)

(no "Exon" information available for 1P8C)

(-) 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:111
 aligned with Q9X1V5_THEMA | Q9X1V5 from UniProtKB/TrEMBL  Length:121

    Alignment length:111
                                    19        29        39        49        59        69        79        89        99       109       119 
         Q9X1V5_THEMA    10 RRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETIS 120
               SCOP domains d1p8ca_ A: Hypothetical protein TM1620                                                                          SCOP domains
               CATH domains 1p8cA00 A:10-120 AhpD-like                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 1p8c A  10 RRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETIS 120
                                    19        29        39        49        59        69        79        89        99       109       119 


Chain B from PDB  Type:PROTEIN  Length:114
 aligned with Q9X1V5_THEMA | Q9X1V5 from UniProtKB/TrEMBL  Length:121

    Alignment length:114
                                    12        22        32        42        52        62        72        82        92       102       112    
         Q9X1V5_THEMA     3 YKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNG 116
               SCOP domains d1p8cb_ B: Hypothetical protein TM1620                                                                             SCOP domains
               CATH domains 1p8cB00 B:3-116 AhpD-like                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 1p8c B   3 YKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNG 116
                                    12        22        32        42        52        62        72        82        92       102       112    


Chain C from PDB  Type:PROTEIN  Length:119
 aligned with Q9X1V5_THEMA | Q9X1V5 from UniProtKB/TrEMBL  Length:121

    Alignment length:119
                                    11        21        31        41        51        61        71        81        91       101       111         
         Q9X1V5_THEMA     2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETIS 120
               SCOP domains d1p8cc_ C: Hypothetical protein TM1620                                                                                  SCOP domains
               CATH domains 1p8cC00 C:2-120 AhpD-like                                                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 1p8c C   2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETIS 120
                                    11        21        31        41        51        61        71        81        91       101       111         


Chain D from PDB  Type:PROTEIN  Length:118
 aligned with Q9X1V5_THEMA | Q9X1V5 from UniProtKB/TrEMBL  Length:121

    Alignment length:118
                                    11        21        31        41        51        61        71        81        91       101       111        
         Q9X1V5_THEMA     2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETI 119
               SCOP domains d1p8cd_ D: Hypothetical protein TM1620                                                                                 SCOP domains
               CATH domains 1p8cD00 D:2-119 AhpD-like                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 1p8c D   2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETI 119
                                    11        21        31        41        51        61        71        81        91       101       111        


Chain E from PDB  Type:PROTEIN  Length:119
 aligned with Q9X1V5_THEMA | Q9X1V5 from UniProtKB/TrEMBL  Length:121

    Alignment length:119
                                    11        21        31        41        51        61        71        81        91       101       111         
         Q9X1V5_THEMA     2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETIS 120
               SCOP domains d1p8ce_ E: Hypothetical protein TM1620                                                                                  SCOP domains
               CATH domains 1p8cE00 E:2-120 AhpD-like                                                                                               CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 1p8c E   2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNGETIS 120
                                    11        21        31        41        51        61        71        81        91       101       111         


Chain F from PDB  Type:PROTEIN  Length:115
 aligned with Q9X1V5_THEMA | Q9X1V5 from UniProtKB/TrEMBL  Length:121

    Alignment length:115
                                    11        21        31        41        51        61        71        81        91       101       111     
         Q9X1V5_THEMA     2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNG 116
               SCOP domains d1p8cf_ F: Hypothetical protein TM1620                                                                              SCOP domains
               CATH domains 1p8cF00 F:2-116 AhpD-like                                                                                           CATH domains
           Pfam domains (1) ---------------------CMD-1p8cF01 F:23-108                                                                  -------- Pfam domains (1)
           Pfam domains (2) ---------------------CMD-1p8cF02 F:23-108                                                                  -------- Pfam domains (2)
           Pfam domains (3) ---------------------CMD-1p8cF03 F:23-108                                                                  -------- Pfam domains (3)
           Pfam domains (4) ---------------------CMD-1p8cF04 F:23-108                                                                  -------- Pfam domains (4)
           Pfam domains (5) ---------------------CMD-1p8cF05 F:23-108                                                                  -------- Pfam domains (5)
           Pfam domains (6) ---------------------CMD-1p8cF06 F:23-108                                                                  -------- Pfam domains (6)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 1p8c F   2 EYKKFVEARRELNEKVLSRGTLNTKRFFNLDSAVYRPGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEGASDEEIFEALDIALVVGGSIVIPHLRRAVGFLEELREMEKNG 116
                                    11        21        31        41        51        61        71        81        91       101       111
   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, 6)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 6)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 6)

Asymmetric/Biological Unit
(-)
Clan: AhpD-like (9)
(-)
Family: CMD (9)
(-)
Thermotoga maritima (2)
1aCMD-1p8cF01F:23-108
1bCMD-1p8cF02F:23-108
1cCMD-1p8cF03F:23-108
1dCMD-1p8cF04F:23-108
1eCMD-1p8cF05F:23-108
1fCMD-1p8cF06F:23-108

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (Q9X1V5_THEMA | Q9X1V5)
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:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    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:0004601    peroxidase activity    Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
    GO:0051920    peroxiredoxin activity    Catalysis of the reaction: 2 R'-SH + ROOH = R'-S-S-R' + H2O + ROH.
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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 Related Entries

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        Q9X1V5_THEMA | Q9X1V5: 1vke

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