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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE DYP-TYPE PEROXIDASE PROTEIN (SO_0740) FROM SHEWANELLA ONEIDENSIS AT 2.75 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  12 Jun 06  (Deposition) - 08 Aug 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ferredoxin-Like Fold, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Zubieta, S. S. Krishna, M. Kapoor, P. Kozbial, D. Mcmullan, H. L. Axelrod, M. D. Miller, P. Abdubek, E. Ambing, T. Astakhova, D. Carlton, H. J. Chiu, T. Clayton, M. C. Deller, L. Duan, M. A. Elsliger J. Feuerhelm, S. K. Grzechnik, J. Hale, E. Hampton, G. W. Han, L. Jaroszewski, K. K. Jin, H. E. Klock, M. W. Knuth, A. Kumar, D. Marciano, A. T. Morse, E. Nigoghossian, L. Okach, S. Oommachen, R. Reyes, C. L. Rife, P. Schimmel, H. Van Den Bedem, D. Weekes, A. White, Q. Xu, K. O. Hodgson, J. Wooley, A. M. Deacon, A. Godzik, S. A. Lesley, I. A. Wilson
Crystal Structures Of Two Novel Dye-Decolorizing Peroxidase Reveal A Beta-Barrel Fold With A Conserved Heme-Binding Motif.
Proteins V. 69 223 2007
PubMed-ID: 17654545  |  Reference-DOI: 10.1002/PROT.21550

(-) Compounds

Molecule 1 - MELANIN BIOSYNTHESIS PROTEIN TYRA, PUTATIVE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NP_716371.1
    Organism Scientific: SHEWANELLA ONEIDENSIS
    Organism Taxid: 70863

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1MSE12Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 24)
No.NameCountTypeFull Name
1MSE24Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2HAG)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2HAG)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2HAG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2HAG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2HAG)

(-) Exons   (0, 0)

(no "Exon" information available for 2HAG)

(-) 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:307
 aligned with Q8EIU4_SHEON | Q8EIU4 from UniProtKB/TrEMBL  Length:311

    Alignment length:307
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       
         Q8EIU4_SHEON     5 NMPREQLGVCAEGNLHSVYLMFNANDNVESQLRPCIANVAQYIYELTDQYSDSAFNGFVAIGANYWDSLYPESRPEMLKPFPAMQEGNREAPAIEYDLFVHLRCDRYDILHLVANEISQMFEDLVELVEEERGFRFMDSRDLTGFVDGTENPKGRHRQEVALVGSEDPEFKGGSYIHVQKYAHNLSKWHRLPLKKQEDIIGRTKQDNIEYESEDKPLTSHIKRVNLKDENGKSIEILRQSMPYGSLKEQGLMFISTCRTPDHFEKMLHSMVFGDGAGNHDHLMHFTSALTGSSFFAPSLDFLMQFDN 311
               SCOP domains d2haga1 A:5-311 Melanin biosynthesis protein TyrA                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eeeeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee..hhhhhh.............eee..eee......eeeeeee.hhhhhhhhhhhhhhhhh..eeeeeeeeee....................hhhhhhhh....hhhhh..eeeeeeeeeehhhhhh..hhhhhhhhhh.................hhhhhhhee.....ee..ee..eeeee..eeeeeeeeee..hhhhhhhhhhhhh.......hhhhh.eeeeeeeeeee.hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hag A   5 NmPREQLGVCAEGNLHSVYLmFNANDNVESQLRPCIANVAQYIYELTDQYSDSAFNGFVAIGANYWDSLYPESRPEmLKPFPAmQEGNREAPAIEYDLFVHLRCDRYDILHLVANEISQmFEDLVELVEEERGFRFmDSRDLTGFVDGTENPKGRHRQEVALVGSEDPEFKGGSYIHVQKYAHNLSKWHRLPLKKQEDIIGRTKQDNIEYESEDKPLTSHIKRVNLKDENGKSIEILRQSmPYGSLKEQGLmFISTCRTPDHFEKmLHSmVFGDGAGNHDHLmHFTSALTGSSFFAPSLDFLmQFDN 311
                             |      14        24|       34        44        54        64        74      | 84   |    94       104       114       124       134      |144       154       164       174       184       194       204       214       224       234       244|      254 |     264     | 274       284  |    294       304  |    
                             |                 25-MSE                                                  81-MSE 88-MSE                             124-MSE          141-MSE                                                                                                 245-MSE    256-MSE       270-MSE          287-MSE             307-MSE
                             6-MSE                                                                                                                                                                                                                                                                     274-MSE
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2HAG)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2HAG)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8EIU4_SHEON | Q8EIU4)
molecular function
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
    GO:0004601    peroxidase activity    Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
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:0006582    melanin metabolic process    The chemical reactions and pathways involving melanins, pigments largely of animal origin. High molecular weight polymers of indole quinone, they are irregular polymeric structures and are divided into three groups: allomelanins in the plant kingdom and eumelanins and phaeomelanins in the animal kingdom.
    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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        Q8EIU4_SHEON | Q8EIU4: 2iiz

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