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(-) Description

Title :  CRYSTAL STRUCTURE OF A PUTATIVE POLYKETIDE CYCLASE (TM1040_3560) FROM SILICIBACTER SP. TM1040 AT 2.00 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  12 Nov 08  (Deposition) - 25 Nov 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Putative Polyketide Cyclase (Yp_611791. 1) From Silicibacter Sp. Tm1040 At 2. 00 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE POLYKETIDE CYCLASE
    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: TM1040_3560, YP_611791.1
    Organism Scientific: SILICIBACTER SP. TM1040
    Organism Taxid: 292414

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 18)

Asymmetric/Biological Unit (5, 18)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2CA1Ligand/IonCALCIUM ION
3MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4MRD6Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
5MSE8Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:16 , ASP A:18 , HOH A:187 , HOH A:201 , HOH A:203 , ASP B:16 , ASP B:18BINDING SITE FOR RESIDUE CA A 132
02AC2SOFTWARETYR A:8 , LEU A:59 , TYR A:77 , SER A:104 , THR A:118 , MRD A:134 , HOH A:223BINDING SITE FOR RESIDUE MPD A 133
03AC3SOFTWAREMSE A:51 , TYR A:55 , GLU A:57 , TYR A:98 , TRP A:125 , MPD A:133BINDING SITE FOR RESIDUE MRD A 134
04AC4SOFTWAREPHE A:12 , CYS A:48 , MSE A:51 , TYR A:55 , LYS A:56 , GLU A:57 , HOH A:209 , HOH A:263BINDING SITE FOR RESIDUE MRD A 135
05AC5SOFTWARETHR A:118 , TYR A:119 , TYR A:120 , HOH A:258BINDING SITE FOR RESIDUE ACT A 136
06AC6SOFTWAREMSE B:51 , TYR B:55 , GLU B:57 , TYR B:98 , TYR B:120 , TRP B:125BINDING SITE FOR RESIDUE MRD B 132
07AC7SOFTWARETYR B:8 , PHE B:12 , LEU B:59 , TYR B:77 , THR B:118BINDING SITE FOR RESIDUE MRD B 133
08AC8SOFTWAREPHE B:12 , GLY B:15 , CYS B:48 , MSE B:51 , TYR B:55 , GLU B:57 , HOH B:146 , HOH B:225BINDING SITE FOR RESIDUE MRD B 134
09AC9SOFTWAREGLU A:42 , ARG B:38 , PHE B:47 , HIS B:50 , HOH B:263BINDING SITE FOR RESIDUE MRD B 135
10BC1SOFTWAREHIS B:30 , VAL B:32 , ASN B:33 , HOH B:176BINDING SITE FOR RESIDUE ACT B 136

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3F8H)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3F8H)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3F8H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3F8H)

(-) Exons   (0, 0)

(no "Exon" information available for 3F8H)

(-) 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:137
 aligned with Q1GLD7_RUEST | Q1GLD7 from UniProtKB/TrEMBL  Length:131

    Alignment length:137
                                  1                                                                                                                                  
                                  |  4        14        24        34        44        54        64        74        84        94       104       114       124       
         Q1GLD7_RUEST     - ------MNDTIARYFDAFNAGDTDGMLACLSEDVAHHVNEGNIRVGKEKFAAFCAHMSHCYKEELTDMVIFATPDATRAAAEYTVNGTYLATDEGLPEARQQSYKLPAGSFFDLRDGLITRVTTYYNLSDWIKQVSA 131
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee...hhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..eeeehhhhhhhhhhhhhhheeeeeeeeeeee.....eeeeeeeeeeee............eeeeeeeeeeeeee..eeeeeeeeehhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3f8h A  -5 NLYFQGmNDTIARYFDAFNAGDTDGmLACLSEDVAHHVNEGNIRVGKEKFAAFCAHmSHCYKEELTDmVIFATPDATRAAAEYTVNGTYLATDEGLPEARQQSYKLPAGSFFDLRDGLITRVTTYYNLSDWIKQVSA 131
                                  |  4        14     |  24        34        44      | 54       |64        74        84        94       104       114       124       
                                  1-MSE             20-MSE                         51-MSE     62-MSE                                                                 


Chain B from PDB  Type:PROTEIN  Length:137
 aligned with Q1GLD7_RUEST | Q1GLD7 from UniProtKB/TrEMBL  Length:131

    Alignment length:137
                                  1                                                                                                                                  
                                  |  4        14        24        34        44        54        64        74        84        94       104       114       124       
         Q1GLD7_RUEST     - ------MNDTIARYFDAFNAGDTDGMLACLSEDVAHHVNEGNIRVGKEKFAAFCAHMSHCYKEELTDMVIFATPDATRAAAEYTVNGTYLATDEGLPEARQQSYKLPAGSFFDLRDGLITRVTTYYNLSDWIKQVSA 131
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...hhhhhhhhhhhhhhhhhhhhhhheeeeeeee.....eeehhhhhhhhhhhhhhheeeeeeeeee.......eeeeeeeeeeee.............eeeeeeeeeeeee..eeeeeeeeehhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3f8h B  -5 NLYFQGmNDTIARYFDAFNAGDTDGmLACLSEDVAHHVNEGNIRVGKEKFAAFCAHmSHCYKEELTDmVIFATPDATRAAAEYTVNGTYLATDEGLPEARQQSYKLPAGSFFDLRDGLITRVTTYYNLSDWIKQVSA 131
                                  |  4        14     |  24        34        44      | 54       |64        74        84        94       104       114       124       
                                  1-MSE             20-MSE                         51-MSE     62-MSE
   Legend:   → Mismatch (orange background)
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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 3F8H)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3F8H)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3F8H)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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