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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CLP GENE REGULATOR CLGR FROM CORYNEBACTERIUM GLUTAMICUM
 
Authors :  S. Russo, J. E. Schweitzer, T. Polen, M. Bott, E. Pohl
Date :  03 Nov 08  (Deposition) - 18 Nov 08  (Release) - 17 Mar 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,E  (1x)
Biol. Unit 2:  B,C  (1x)
Biol. Unit 3:  D (1x),F (1x)
Keywords :  Gene Regulator, Helix-Turn-Helix, Transcriptional Activator, Human Pathogen, Transcription Activator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Russo, J. E. Schweitzer, T. Polen, M. Bott, E. Pohl
Crystal Structure Of The Caseinolytic Protease Gene Regulator, A Transcriptional Activator In Actinomycetes
J. Biol. Chem. V. 284 5208 2009
PubMed-ID: 19019826  |  Reference-DOI: 10.1074/JBC.M806591200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CLP GENE REGULATOR (CLGR)
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PEKEX1
    Expression System Strain: BB1553
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CG2152, CGL1962, CLG1962
    Organism Common: BREVIBACTERIUM FLAVUM
    Organism Scientific: CORYNEBACTERIUM GLUTAMICUM
    Organism Taxid: 1718

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A   E 
Biological Unit 2 (1x):  BC   
Biological Unit 3 (1x):    D (1x) F (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MPD3Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2MPD-1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:98BINDING SITE FOR RESIDUE ACT A 500
2AC2SOFTWARELEU B:25 , LEU B:29 , GLU B:67 , VAL B:68 , LEU C:25 , GLU C:67 , VAL C:68BINDING SITE FOR RESIDUE MPD B 601
3AC3SOFTWAREARG D:26 , GLU D:67 , VAL D:68 , HOH D:347 , LEU F:25 , GLU F:67 , VAL F:68BINDING SITE FOR RESIDUE MPD D 602
4AC4SOFTWARELEU A:25 , LEU A:29 , GLU A:67 , VAL A:68 , LEU E:25 , GLU E:67 , VAL E:68BINDING SITE FOR RESIDUE MPD E 600

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3F51)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3F51)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3F51)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3F51)

(-) Exons   (0, 0)

(no "Exon" information available for 3F51)

(-) 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:94
 aligned with Q8NP59_CORGL | Q8NP59 from UniProtKB/TrEMBL  Length:107

    Alignment length:94
                                                                                                                107       
                                    30        40        50        60        70        80        90       100      |  -    
         Q8NP59_CORGL    21 PEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARV-------   -
               SCOP domains ---------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------- Transcript
                 3f51 A  21 PEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARVLEWSHPQ 114
                                    30        40        50        60        70        80        90       100       110    


Chain B from PDB  Type:PROTEIN  Length:93
 aligned with Q8NP59_CORGL | Q8NP59 from UniProtKB/TrEMBL  Length:107

    Alignment length:93
                                                                                                                  107    
                                    28        38        48        58        68        78        88        98        |-   
         Q8NP59_CORGL    19 KAPEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARV----   -
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhh..hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 3f51 B  19 KAPEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARVLEWS 111
                                    28        38        48        58        68        78        88        98       108   


Chain C from PDB  Type:PROTEIN  Length:90
 aligned with Q8NP59_CORGL | Q8NP59 from UniProtKB/TrEMBL  Length:107

    Alignment length:90
                                                                                                              107     
                                    32        42        52        62        72        82        92       102    |    -
         Q8NP59_CORGL    23 PLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARV-----   -
               SCOP domains ------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhhh....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------ Transcript
                 3f51 C  23 PLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARVLEWSH 112
                                    32        42        52        62        72        82        92       102       112


Chain D from PDB  Type:PROTEIN  Length:93
 aligned with Q8NP59_CORGL | Q8NP59 from UniProtKB/TrEMBL  Length:107

    Alignment length:93
                                                                                                                 107     
                                    29        39        49        59        69        79        89        99       | -   
         Q8NP59_CORGL    20 APEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARV-----   -
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 3f51 D  20 APEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARVLEWSH 112
                                    29        39        49        59        69        79        89        99       109   


Chain E from PDB  Type:PROTEIN  Length:94
 aligned with Q8NP59_CORGL | Q8NP59 from UniProtKB/TrEMBL  Length:107

    Alignment length:94
                                                                                                                  107     
                                    28        38        48        58        68        78        88        98        |-    
         Q8NP59_CORGL    19 KAPEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARV-----   -
               SCOP domains ---------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------- Transcript
                 3f51 E  19 KAPEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARVLEWSH 112
                                    28        38        48        58        68        78        88        98       108    


Chain F from PDB  Type:PROTEIN  Length:93
 aligned with Q8NP59_CORGL | Q8NP59 from UniProtKB/TrEMBL  Length:107

    Alignment length:93
                                                                                                                107      
                                    30        40        50        60        70        80        90       100      |  -   
         Q8NP59_CORGL    21 PEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARV------   -
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.hhhhhhhhhh.hhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 3f51 F  21 PEPLLREALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMALQAAQEDLARVLEWSHP 113
                                    30        40        50        60        70        80        90       100       110
   Legend:   → Mismatch (orange background)
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 3F51)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3F51)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3F51)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (Q8NP59_CORGL | Q8NP59)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0043565    sequence-specific DNA binding    Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.

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  3f51
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 Related Entries

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

UniProtKB/TrEMBL
        Q8NP59_CORGL | Q8NP59: 3f52

(-) Related Entries Specified in the PDB File

3f52 THE SAME PROTEIN IN A DIFFERENT CRYSTAL FORM WITH A DIFFERENT C-TERMINAL CONFORMATION