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(-) Description

Title :  CRYSTAL STRUCTURE OF QUORUM-SENSING TRANSCRIPTIONAL ACTIVATOR FROM YERSINIA ENTEROCOLITICA IN COMPLEX WITH 3-OXO-N-[(3S)-2-OXOTETRAHYDROFURAN-3-YL]HEXANAMIDE
 
Authors :  Y. Kim, G. Chhor, R. Jedrzejczak, S. C. Winans, W. F. Anderson, A. Joachi Center For Structural Genomics Of Infectious Diseases (Csgi
Date :  26 Jul 16  (Deposition) - 07 Sep 16  (Release) - 08 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha-Beta Structure, Pheromone Binding Protein, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, G. Chhor, R. Jedrzejczak, S. C. Winans, A. Joachimiak, Csgid
Crystal Structure Of Quorum-Sensing Transcriptional Activator From Yersinia Enterocolitica
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - QUORUM-SENSING TRANSCRIPTIONAL ACTIVATOR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG81
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: YENR, YE1599
    Organism Taxid: 393305
    Strain: NCTC 13174 / 8081

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 25)

Asymmetric/Biological Unit (5, 25)
No.NameCountTypeFull Name
14822Ligand/Ion3-OXO-N-[(3S)-2-OXOTETRAHYDROFURAN-3-YL]HEXANAMIDE
2ACY4Ligand/IonACETIC ACID
3EDO8Ligand/Ion1,2-ETHANEDIOL
4MSE8Mod. Amino AcidSELENOMETHIONINE
5SO43Ligand/IonSULFATE ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:32 , LEU A:34 , TYR A:50 , TRP A:54 , TYR A:58 , ASP A:67 , VAL A:69 , PHE A:98 , ALA A:101 , ILE A:106 , ASN A:125binding site for residue 482 A 201
02AC2SOFTWAREARG A:30 , ASN A:105 , GLY A:129 , SER A:130 , HOH A:334binding site for residue SO4 A 202
03AC3SOFTWARETYR A:18 , ARG A:22 , HOH A:336 , EDO B:207binding site for residue EDO A 203
04AC4SOFTWAREASN A:117 , SER A:118 , LEU A:159 , HOH A:308 , ASP B:75 , LYS B:76binding site for residue EDO A 204
05AC5SOFTWARELYS A:146 , LEU A:150 , HOH A:313 , HOH A:322binding site for residue EDO A 205
06AC6SOFTWAREARG A:30binding site for residue ACY A 206
07AC7SOFTWARELYS A:57 , LYS A:60 , ASN A:61binding site for residue ACY A 207
08AC8SOFTWAREASN A:117 , LYS B:38 , LYS B:74binding site for residue ACY B 201
09AC9SOFTWARESER B:32 , LEU B:34 , TYR B:50 , TRP B:54 , TYR B:58 , ASP B:67 , VAL B:69 , PHE B:98 , ALA B:101 , ILE B:106 , ASN B:125binding site for residue 482 B 202
10AD1SOFTWAREASP B:84 , ASN B:85 , SER B:86 , EDO B:207 , HOH B:303 , HOH B:308binding site for residue SO4 B 203
11AD2SOFTWAREARG B:30 , GLY B:129 , SER B:130binding site for residue SO4 B 204
12AD3SOFTWARELYS A:60 , TYR B:18binding site for residue EDO B 205
13AD4SOFTWARETYR B:18 , ARG B:21 , ARG B:22binding site for residue EDO B 206
14AD5SOFTWARELYS A:157 , EDO A:203 , HOH A:336 , ASP B:84 , ASN B:85 , SO4 B:203 , HOH B:306binding site for residue EDO B 207
15AD6SOFTWARELYS B:16 , GLN B:20 , ASN B:49 , EDO B:209binding site for residue ACY B 208
16AD7SOFTWAREGLU B:13 , LYS B:16 , ARG B:21 , ACY B:208binding site for residue EDO B 209
17AD8SOFTWAREARG B:30 , PRO B:51 , LEU B:52binding site for residue EDO B 210

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5L09)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5L09)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5L09)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5L09)

(-) Exons   (0, 0)

(no "Exon" information available for 5L09)

(-) 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:161
                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhh..eeeeeeee.......eeee..hhhhhhhhhhhhhhhhhhhhhhhh.....ee..hhhhhhhh.hhhhhhhhh.....eeeeeee....eeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5l09 A   2 IIDYFDNESINEDIKNYIQRRIKAYGDLRYSYLVmNKKTPLHPTIISNYPLDWVKKYKKNSYHLIDPVILTAKDKVAPFAWDDNSVINKKDSAVFKLAREYNIVNGYTFVLHDNSNNmATLNISNGSDDSISFDESIEINKEKIQmLLILTHEKmLGLYQS 164
                                    11        21        31    |   41        51        61        71        81        91|      103       113       123       133       143     | 153    |  163 
                                                             36-MSE                                                 91|                        121-MSE                     149-MSE  158-MSE  
                                                                                                                     94                                                                      


Chain B from PDB  Type:PROTEIN  Length:164
                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhh..eeeeeeee.......eeee..hhhhhhhhhhhhhhhhhhhhhhhh.....ee..hhhhhhhhhhhhhhhhhhhhhh...eeeeeee....eeeeeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5l09 B   5 YFDNESINEDIKNYIQRRIKAYGDLRYSYLVmNKKTPLHPTIISNYPLDWVKKYKKNSYHLIDPVILTAKDKVAPFAWDDNSVINKKSTDSAVFKLAREYNIVNGYTFVLHDNSNNmATLNISNGSDDSISFDESIEINKEKIQmLLILTHEKmLGLYQSNSDK 168
                                    14        24        34 |      44        54        64        74        84        94       104       114      |124       134       144    |  154   |   164    
                                                          36-MSE                                                                              121-MSE                     149-MSE  158-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 5L09)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5L09)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5L09)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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(-) Related Entries Specified in the PDB File

5l07