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(-) Description

Title :  SDIA IN COMPLEX WITH OCTANOYL-RAC-GLYCEROL
 
Authors :  N. X. Nguyen, Y. Nguyen, V. Sperandio, Y. Jiang
Date :  06 Feb 15  (Deposition) - 08 Apr 15  (Release) - 15 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Quorum Sensor, Dna, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Nguyen, N. X. Nguyen, J. L. Rogers, J. Liao, J. B. Macmillan, Y. Jiang V. Sperandio
Structural And Mechanistic Roles Of Novel Chemical Ligands On The Sdia Quorum-Sensing Transcription Regulator.
Mbio V. 6 2015
PubMed-ID: 25827420  |  Reference-DOI: 10.1128/MBIO.02429-14

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR OF FTSQAZ GENE CLUSTER
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: SDIA, ECS2654, Z3004
    Organism Scientific: ESCHERICHIA COLI O157:H7
    Organism Taxid: 83334

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 17)

Asymmetric Unit (4, 17)
No.NameCountTypeFull Name
14801Ligand/Ion(2S)-2,3-DIHYDROXYPROPYL OCTANOATE
2GOL2Ligand/IonGLYCEROL
3MSE12Mod. Amino AcidSELENOMETHIONINE
4SO42Ligand/IonSULFATE ION
Biological Unit 1 (4, 34)
No.NameCountTypeFull Name
14802Ligand/Ion(2S)-2,3-DIHYDROXYPROPYL OCTANOATE
2GOL4Ligand/IonGLYCEROL
3MSE24Mod. Amino AcidSELENOMETHIONINE
4SO44Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:111 , ARG A:116 , ARG A:117 , ALA A:140binding site for residue SO4 A 301
2AC2SOFTWARELYS A:216 , GLN A:219 , ASN A:226 , LYS A:227binding site for residue SO4 A 302
3AC3SOFTWARESER A:43 , CYS A:45 , PHE A:59 , TYR A:63 , TYR A:71 , ASP A:80 , VAL A:82 , TRP A:95 , SER A:134 , GOL A:304 , GOL A:305 , HOH A:402 , HOH A:405binding site for residue 480 A 303
4AC4SOFTWARETRP A:95 , TRP A:107 , ALA A:110 , ARG A:111 , LEU A:115 , ARG A:116 , 480 A:303binding site for residue GOL A 304
5AC5SOFTWAREVAL A:57 , TYR A:71 , GLN A:72 , LEU A:77 , 480 A:303 , HOH A:404binding site for residue GOL A 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Y13)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Val A:50 -Pro A:51

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Y13)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Y13)

(-) Exons   (0, 0)

(no "Exon" information available for 4Y13)

(-) 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:244
                                                                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh......eeee.........eeee...hhhhhhhhhhhhhhhhhhhhhhhhh...eee.hhhhhh.hhhhhhhhhhh...eeeeeeee.....eeeeeeee........hhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4y13 A   1 mQDTDFFSWRRTmLLRFQRmETAEEVYHEIELQAQQLEYDYYSLCVRHPVPFTRPKVAFYTNYPEAWVSYYQAKNFLAIDPVLNPENFSQGHLmWNDDLFNEAQPLWEAARAHGLRRGVTQYLmLPNRALGFLSFSRCSAREIPILSDELQLKmQLLVRESLmALmRLNDEIVmTPEmNFSKREKEILRWTAEGKTSAEIAmILSISENTVNFHQKNmQKKINAPNKTQVACYAAATGLIHHHH 244
                            |       10  |     20        30        40        50        60        70        80        90   |   100       110       120   |   130       140       150   |   160  |  | 170   |   180       190       200 |     210       220       230       240    
                            |          13-MSE 20-MSE                                                                    94-MSE                       124-MSE                       154-MSE  163-MSE    174-MSE                     202-MSE         218-MSE                      
                            1-MSE                                                                                                                                                              166-MSE     178-MSE
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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 4Y13)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Y13)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Y13)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q8XBD0_ECO57 | Q8XBD0: 4y15 4y17

(-) Related Entries Specified in the PDB File

4y15 4y17