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(-) Description

Title :  CRYSTAL STRUCTURE OF A DINB-LIKE PROTEIN (CPS_3021) FROM COLWELLIA PSYCHRERYTHRAEA 34H AT 2.20 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  22 Feb 11  (Deposition) - 09 Mar 11  (Release) - 24 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dinb/Yfit-Like Putative Metalloenzymes, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-Biology, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of A Hypothetical Dinb-Like Protein (Cps_3021) From Colwellia Psychrerythraea 34H At 2. 20 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: SPEEDET
    Expression System Strain: HK100
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CPS_3021
    Organism Scientific: COLWELLIA PSYCHRERYTHRAEA
    Organism Taxid: 167879
    Strain: 34H / ATCC BAA-681

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 16)

Asymmetric/Biological Unit (3, 16)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2GOL4Ligand/IonGLYCEROL
3MSE10Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMSE A:48 , GLN A:54BINDING SITE FOR RESIDUE CL A 178
2AC2SOFTWARELYS A:100 , TYR A:146 , LYS A:150 , THR A:157 , LYS A:158 , TYR A:167 , MSE B:48 , CL B:177BINDING SITE FOR RESIDUE GOL A 180
3AC3SOFTWARESER A:3 , ARG A:4 , LEU A:7 , SER A:127 , LYS B:10BINDING SITE FOR RESIDUE GOL A 181
4AC4SOFTWARELYS A:100 , GOL A:180 , MSE B:48 , PHE B:49 , GLN B:54BINDING SITE FOR RESIDUE CL B 177
5AC5SOFTWAREMSE A:48 , PHE A:140 , TYR B:146 , LYS B:150 , THR B:157 , LYS B:158BINDING SITE FOR RESIDUE GOL B 179
6AC6SOFTWARELYS A:120 , GLU A:121 , LYS B:100 , LEU B:101 , SER B:102BINDING SITE FOR RESIDUE GOL B 182

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3QTH)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QTH)

(-) 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:172
 aligned with Q47ZP9_COLP3 | Q47ZP9 from UniProtKB/TrEMBL  Length:175

    Alignment length:172
                             1                                                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169  
         Q47ZP9_COLP3     - -MLSRIDLYIKHRDIFLKHLELLHKLIEKVEDSSLNESELLNARLVDDMFPFNVQAKIATNFALRACCPLSGKEYKELEGDIDSFCGLKTYVVTAIDYINKLSEPTLEQLNLNVQDTAGFKEISMPASEYMSSFVLPNFFFHISMVYAIAKNNGVSVTKGDFDGIHQYPKGF 171
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh........hhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhh...hhhhhh.eeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qth A   0 GmLSRIDLYIKHRDIFLKHLELLHKLIEKVEDSSLNESELLNARLVDDmFPFNVQAKIATNFALRACCPLSGKEYKELEGDIDSFCGLKTYVVTAIDYINKLSEPTLEQLNLNVQDTAGFKEISmPASEYmSSFVLPNFFFHISmVYAIAKNNGVSVTKGDFDGIHQYPKGF 171
                             |       9        19        29        39        49        59        69        79        89        99       109       119    |  129|      139    |  149       159       169  
                             |                                             48-MSE                                                                     124-MSE |           144-MSE                       
                             1-MSE                                                                                                                          130-MSE                                     


Chain B from PDB  Type:PROTEIN  Length:164
 aligned with Q47ZP9_COLP3 | Q47ZP9 from UniProtKB/TrEMBL  Length:175

    Alignment length:173
                             1                                                                                                                                                                           
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169   
         Q47ZP9_COLP3     - -MLSRIDLYIKHRDIFLKHLELLHKLIEKVEDSSLNESELLNARLVDDMFPFNVQAKIATNFALRACCPLSGKEYKELEGDIDSFCGLKTYVVTAIDYINKLSEPTLEQLNLNVQDTAGFKEISMPASEYMSSFVLPNFFFHISMVYAIAKNNGVSVTKGDFDGIHQYPKGFS 172
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------DUF1993-3qthB01 B:7-163                                                                                                                                      --------- Pfam domains (1)
           Pfam domains (2) -------DUF1993-3qthB02 B:7-163                                                                                                                                      --------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh........hhhhhhhhhhhhhhhhhh.---------.....hhhhhhhhhhhhhhhhhhh...hhhhhhheeeeee..eeeeeehhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qth B   0 GmLSRIDLYIKHRDIFLKHLELLHKLIEKVEDSSLNESELLNARLVDDmFPFNVQAKIATNFALRACCP---------EGDIDSFCGLKTYVVTAIDYINKLSEPTLEQLNLNVQDTAGFKEISmPASEYmSSFVLPNFFFHISmVYAIAKNNGVSVTKGDFDGIHQYPKGFS 172
                             |       9        19        29        39        49        59        |-        79        89        99       109       119    |  129|      139    |  149       159       169   
                             1-MSE                                         48-MSE              68        78                                           124-MSE |           144-MSE                        
                                                                                                                                                            130-MSE
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 3QTH)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: DinB (11)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q47ZP9_COLP3 | Q47ZP9)
molecular function
    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.
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
cellular component
    GO:0005575    cellular_component    The part of a cell, extracellular environment or virus in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.

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