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(-) Description

Title :  CRYSTAL STRUCTURE OF PHOSPHOLIPASE/CARBOXYLESTERASE FROM DYADOBACTER FERMENTANS DSM 18053
 
Authors :  C. Chang, J. Holowicki, S. Clancy, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  07 Sep 12  (Deposition) - 26 Sep 12  (Release) - 26 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.62
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Psi-Biology, Midwest Center For Structural Genomics, Mcsg, Phospholipase/Carboxylesterase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chang, J. Holowicki, S. Clancy, A. Joachimiak
Crystal Structure Of Phospholipase/Carboxylesterase From Dyadobacter Fermentans Dsm 18053
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PHOSPHOLIPASE/CARBOXYLESTERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG57
    Expression System Strain: BL21(DE3)MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DFER_0355
    Organism Scientific: DYADOBACTER FERMENTANS
    Organism Taxid: 471854
    Strain: DSM 18053

 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  (4, 15)

Asymmetric Unit (4, 15)
No.NameCountTypeFull Name
1CIT2Ligand/IonCITRIC ACID
2GOL1Ligand/IonGLYCEROL
3MSE10Mod. Amino AcidSELENOMETHIONINE
4NA2Ligand/IonSODIUM ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2GOL-1Ligand/IonGLYCEROL
3MSE5Mod. Amino AcidSELENOMETHIONINE
4NA-1Ligand/IonSODIUM ION
Biological Unit 2 (3, 7)
No.NameCountTypeFull Name
1CIT1Ligand/IonCITRIC ACID
2GOL1Ligand/IonGLYCEROL
3MSE5Mod. Amino AcidSELENOMETHIONINE
4NA-1Ligand/IonSODIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:28 , TYR A:60 , SER A:63 , PHE A:64 , SER A:105 , GLN A:106 , CYS A:109 , THR A:129 , GLY A:130 , HIS A:161 , VAL A:162 , HIS A:191 , HOH A:403 , GOL B:303 , HOH B:471BINDING SITE FOR RESIDUE CIT A 301
2AC2SOFTWARETYR A:100 , ILE A:205 , LEU A:206 , LYS A:207 , HOH A:466 , HOH A:510BINDING SITE FOR RESIDUE NA A 302
3AC3SOFTWAREPRO A:160 , ARG B:28 , TYR B:60 , SER B:63 , PHE B:64 , SER B:105 , GLN B:106 , CYS B:109 , THR B:129 , GLY B:130 , HIS B:161 , VAL B:162 , HIS B:191 , HOH B:462 , HOH B:499BINDING SITE FOR RESIDUE CIT B 301
4AC4SOFTWAREGLN B:39 , LEU B:42 , HOH B:411 , HOH B:451 , HOH B:469BINDING SITE FOR RESIDUE NA B 302
5AC5SOFTWAREARG A:28 , SER A:63 , HIS A:161 , CIT A:301 , SER B:63 , HOH B:419 , HOH B:471BINDING SITE FOR RESIDUE GOL B 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4H0C)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gln A:72 -Pro A:73
2Asn A:157 -Pro A:158
3Gln B:72 -Pro B:73
4Asn B:157 -Pro B:158

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4H0C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4H0C)

(-) Exons   (0, 0)

(no "Exon" information available for 4H0C)

(-) 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:210
                                                                                                                                                                                                                                                  
               SCOP domains d4h0ca_ A: automated matches                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........eeeee.......eeeeee.....hhhhhhhhhhh.....eeeeee.hhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeeeehhhhhhhhhhhhhh.....eeeee.........hhhhh.......eeeeeeee.....hhhhhhhhhhhhhhh..eeeeeeee......hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4h0c A  -2 SNAmYTHSKQIITSGVPVQRAKKAVVmLHGRGGTAADIISLQKVLKLDEmAIYAPQATNNSWYPYSFmAPVQQNQPALDSALALVGEVVAEIEAQGIPAEQIYFAGFSQGACLTLEYTTRNARKYGGIIAFTGGLIGQELAIGNYKGDFKQTPVFISTGNPDPHVPVSRVQESVTILEDmNAAVSQVVYPGRPHTISGDEIQLVNNTILK 207
                               |     7        17      | 27        37        47        57       |67        77        87        97       107       117       127       137       147       157       167       177       187       197       207
                               |                     24-MSE                 47-MSE            65-MSE                                                                                                         177-MSE                          
                               1-MSE                                                                                                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:209
                                                                                                                                                                                                                                                 
               SCOP domains d4h0cb_ B: automated matches                                                                                                                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeee.hhhhh.eeeeee.....hhhhhhhhhhh.....eeeeee.hhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeeeehhhhhhhhhhhhhh.....eeeee.........hhhhh.......eeeeeeee.....hhhhhhhhhhhhhhh..eeeeeeee......hhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h0c B  -1 NAmYTHSKQIITSGVPVQRAKKAVVmLHGRGGTAADIISLQKVLKLDEmAIYAPQATNNSWYPYSFmAPVQQNQPALDSALALVGEVVAEIEAQGIPAEQIYFAGFSQGACLTLEYTTRNARKYGGIIAFTGGLIGQELAIGNYKGDFKQTPVFISTGNPDPHVPVSRVQESVTILEDmNAAVSQVVYPGRPHTISGDEIQLVNNTILK 207
                              |      8        18     |  28        38        48        58      | 68        78        88        98       108       118       128       138       148       158       168       178       188       198         
                              1-MSE                 24-MSE                 47-MSE            65-MSE                                                                                                         177-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  (1, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4H0C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4H0C)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)

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