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(-) Description

Title :  CRYSTAL STRUCTURE OF PREDICTED HYDROLASE OF HALOACID DEHALOGENASE-LIKE SUPERFAMILY (NP_295428.1) FROM DEINOCOCCUS RADIODURANS AT 1.66 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  25 Mar 08  (Deposition) - 08 Apr 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.66
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Np_295428. 1, Predicted Hydrolase Of Haloacid Dehalogenase-Like Superfamily, Haloacid Dehalogenase-Like Hydrolase, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Predicted Hydrolase Of Haloacid Dehalogenase-Like Superfamily (Np_295428. 1) From Deinococcu Radiodurans At 1. 66 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYDROLASE FAMILY PROTEIN
    Atcc13939
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidSPEEDET
    Expression System StrainHK100
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneNP_295428.1, DR_1705
    Organism ScientificDEINOCOCCUS RADIODURANS R1
    Organism Taxid243230
    StrainR1 / DSM 20539 / IFO 15346 / LMG 4051 / NCIB 9279

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 22)

Asymmetric Unit (5, 22)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MSE16Mod. Amino AcidSELENOMETHIONINE
3NA2Ligand/IonSODIUM ION
4PG41Ligand/IonTETRAETHYLENE GLYCOL
5PO42Ligand/IonPHOSPHATE ION
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1GOL-1Ligand/IonGLYCEROL
2MSE8Mod. Amino AcidSELENOMETHIONINE
3NA-1Ligand/IonSODIUM ION
4PG41Ligand/IonTETRAETHYLENE GLYCOL
5PO41Ligand/IonPHOSPHATE ION
Biological Unit 2 (3, 10)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MSE8Mod. Amino AcidSELENOMETHIONINE
3NA-1Ligand/IonSODIUM ION
4PG4-1Ligand/IonTETRAETHYLENE GLYCOL
5PO41Ligand/IonPHOSPHATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:9 , GLY A:11 , ASP A:165BINDING SITE FOR RESIDUE NA A 200
2AC2SOFTWAREASP B:9 , GLY B:11 , ASP B:165BINDING SITE FOR RESIDUE NA B 200
3AC3SOFTWAREASP A:9 , ILE A:10 , GLY A:11 , ASN A:107 , ASN A:108 , LYS A:140BINDING SITE FOR RESIDUE PO4 A 201
4AC4SOFTWAREASP B:9 , ILE B:10 , GLY B:11 , ASN B:107 , ASN B:108 , LYS B:140BINDING SITE FOR RESIDUE PO4 B 201
5AC5SOFTWAREARG A:100 , TYR A:101 , GLY B:98BINDING SITE FOR RESIDUE PG4 A 202
6AC6SOFTWARELEU B:56 , ALA B:57 , PRO B:73 , ARG B:77BINDING SITE FOR RESIDUE GOL B 202

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Lys A:140 -Pro A:141
2Lys B:140 -Pro B:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3CNH)

(-) 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:200
 aligned with Q9RTQ1_DEIRA | Q9RTQ1 from UniProtKB/TrEMBL  Length:199

    Alignment length:200
                             1                                                                                                                                                                                                      
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199
         Q9RTQ1_DEIRA     - -MTIKALFWDIGGVLLTNGWDREQRADVAQRFGLDTDDFTERHRLAAPELELGRMTLAEYLEQVVFYQPRDFTPEDFRAVMEEQSQPRPEVLALARDLGQRYRMYSLNNEGRDLNEYRIRTFGLGEFLLAFFTSSALGVMKPNPAMYRLGLTLAQVRPEEAVMVDDRLQNVQAARAVGMHAVQCVDAAQLREELAALGVR 199
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3cnhA01           3cnhA02 A:18-84 Putative phosphatase; domain 2                     3cnhA01 A:0-17,A:85-199  [code=3.40.50.1000, no name defined]                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee...........hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh...hhhhhhhhhh.......hhhhhhhhhhhh...hhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhhhh...eeehhhhh....hhhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eeee..hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cnh A   0 GmTIKALFWDIGGVLLTNGWDREQRADVAQRFGLDTDDFTERHRLAAPELELGRmTLAEYLEQVVFYQPRDFTPEDFRAVmEEQSQPRPEVLALARDLGQRYRmYSLNNEGRDLNEYRIRTFGLGEFLLAFFTSSALGVmKPNPAmYRLGLTLAQVRPEEAVmVDDRLQNVQAARAVGmHAVQCVDAAQLREELAALGVR 199
                             |       9        19        29        39        49    |   59        69        79|       89        99   |   109       119       129       139     | 149       159  |    169       179       189       199
                             |                                                   54-MSE                    80-MSE                103-MSE                             139-MSE |              162-MSE         178-MSE                 
                             1-MSE                                                                                                                                         145-MSE                                                  

Chain B from PDB  Type:PROTEIN  Length:199
 aligned with Q9RTQ1_DEIRA | Q9RTQ1 from UniProtKB/TrEMBL  Length:199

    Alignment length:199
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190         
         Q9RTQ1_DEIRA     1 MTIKALFWDIGGVLLTNGWDREQRADVAQRFGLDTDDFTERHRLAAPELELGRMTLAEYLEQVVFYQPRDFTPEDFRAVMEEQSQPRPEVLALARDLGQRYRMYSLNNEGRDLNEYRIRTFGLGEFLLAFFTSSALGVMKPNPAMYRLGLTLAQVRPEEAVMVDDRLQNVQAARAVGMHAVQCVDAAQLREELAALGVR 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -3cnhB01         3cnhB02 B:18-85 Putative phosphatase; domain 2                      3cnhB01 B:2-17,B:86-199  [code=3.40.50.1000, no name defined]                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee...........hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh...hhhhhhhhhh.......hhhhhhhhhhhh...hhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhhhh...eeehhhhh....hhhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eeee..hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cnh B   1 mTIKALFWDIGGVLLTNGWDREQRADVAQRFGLDTDDFTERHRLAAPELELGRmTLAEYLEQVVFYQPRDFTPEDFRAVmEEQSQPRPEVLALARDLGQRYRmYSLNNEGRDLNEYRIRTFGLGEFLLAFFTSSALGVmKPNPAmYRLGLTLAQVRPEEAVmVDDRLQNVQAARAVGmHAVQCVDAAQLREELAALGVR 199
                            |       10        20        30        40        50   |    60        70        80        90       100  |    110       120       130       140    |  150       160 |     170       180       190         
                            1-MSE                                               54-MSE                    80-MSE                103-MSE                             139-MSE |              162-MSE         178-MSE                 
                                                                                                                                                                          145-MSE                                                  

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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  (0, 0)

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

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q9RTQ1_DEIRA | Q9RTQ1)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.

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