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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE TRANSCRIPTION REGULATOR FROM LACTOBACILLUS PLANTARUM
 
Authors :  C. Chang, L. Bigelow, L. Freeman, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  28 Mar 08  (Deposition) - 08 Apr 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription Regulator, Lactobacillus Plantarum, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Dna-Binding, Transcription Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chang, L. Bigelow, L. Freeman, A. Joachimiak
Crystal Structure Of Putative Transcription Regulator From Lactobacillus Plantarum.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE TRANSCRIPTION REGULATOR
    Atcc: BAA-793
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)MAGIC
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: LP_3090
    Organism Scientific: LACTOBACILLUS PLANTARUM WCFS1
    Organism Taxid: 220668
    Strain: WCFS1 / NCIMB 8826

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2MSE6Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:108 , GLN B:108 , GLN B:109 , ALA B:112 , HIS B:161BINDING SITE FOR RESIDUE GOL B 201

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3COL)

(-) 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:180
 aligned with F9USK4_LACPL | F9USK4 from UniProtKB/TrEMBL  Length:193

    Alignment length:187
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       
         F9USK4_LACPL     7 NKQVKIQDAVAAIILAEGPAGVSTTKVAKRVGIAQSNVYLYFKNKQALIDSVYARETNRILSTTDLDRLSDSTIDVTTRIRLYVQQVYDYSLANPDSLTIIQQIKALNGQGMTISAADADPNNIVANLLTAAIDAKVIKQLPVSLHMGVVFSTIHTHTTNISKGRYAQDQYTFGDIFQMIWDAMKQD 193
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3colA00 A:7-193 Tetracycline Repressor, domain 2                                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh...hhhhhhhhhhhhhhhh..hhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.-------.hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3col A   7 NKQVKIQDAVAAIILAEGPAGVSTTKVAKRVGIAQSNVYLYFKNKQALIDSVYARETNRILSTTDLDRLSDSTIDVTTRIRLYVQQVYDYSLANPDSLTIIQQIKALNGQ-------DADPNNIVANLLTAAIDAKVIKQLPVSLHmGVVFSTIHTHTTNISKGRYAQDQYTFGDIFQmIWDAmKQD 193
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146      |156       166       176       186   |   
                                                                                                                                       116     124                          153-MSE                         185-MSE|   
                                                                                                                                                                                                                 190-MSE


Chain B from PDB  Type:PROTEIN  Length:174
 aligned with F9USK4_LACPL | F9USK4 from UniProtKB/TrEMBL  Length:193

    Alignment length:186
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187      
         F9USK4_LACPL     8 KQVKIQDAVAAIILAEGPAGVSTTKVAKRVGIAQSNVYLYFKNKQALIDSVYARETNRILSTTDLDRLSDSTIDVTTRIRLYVQQVYDYSLANPDSLTIIQQIKALNGQGMTISAADADPNNIVANLLTAAIDAKVIKQLPVSLHMGVVFSTIHTHTTNISKGRYAQDQYTFGDIFQMIWDAMKQD 193
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3colB00 B:8-193 Tetracycline Repressor, domain 2                                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh------------..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3col B   8 KQVKIQDAVAAIILAEGPAGVSTTKVAKRVGIAQSNVYLYFKNKQALIDSVYARETNRILSTTDLDRLSDSTIDVTTRIRLYVQQVYDYSLANPDSLTIIQQIKALN------------PNNIVANLLTAAIDAKVIKQLPVSLHmGVVFSTIHTHTTNISKGRYAQDQYTFGDIFQmIWDAmKQD 193
                                    17        27        37        47        57        67        77        87        97       107      |  -       127       137       147     | 157       167       177       187  |   
                                                                                                                                    114          127                       153-MSE                         185-MSE|   
                                                                                                                                                                                                                190-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 3COL)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (F9USK4_LACPL | F9USK4)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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