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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COBALT-ACTIVATED DIPHTHERIA TOXIN REPRESSOR-DNA COMPLEX REVEALS A METAL BINDING SH-LIKE DOMAIN
 
Authors :  E. Pohl, R. K. Holmes, W. G. Hol
Date :  22 Jul 99  (Deposition) - 22 Jul 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Toxin Repressor-Dna Complex, Metal Binding Sh-Like Domain, Gene Regulation/Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Pohl, R. K. Holmes, W. G. Hol
Crystal Structure Of A Cobalt-Activated Diphtheria Toxin Repressor-Dna Complex Reveals A Metal-Binding Sh3-Like Domain.
J. Mol. Biol. V. 292 653 1999
PubMed-ID: 10497029  |  Reference-DOI: 10.1006/JMBI.1999.3073
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DNA (5'- D(P*AP*TP*TP*AP*GP*GP*TP*TP*AP*GP*CP*CP*TP*AP*CP*CP*CP*TP*A P*AP*T)-3')
    Chains: E
    Engineered: YES
    Synthetic: YES
 
Molecule 2 - DNA (5'- D(P*AP*TP*TP*AP*GP*GP*TP*TP*AP*GP*GP*CP*TP*AP*CP*CP*CP*TP*A P*AP*T)-3')
    Chains: F
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - DIPHTHERIA TOXIN REPRESSOR
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: DH5-ALPHA
    Expression System Taxid: 562
    Gene: DTXR
    Organism Scientific: CORYNEBACTERIUM DIPHTHERIAE
    Organism Taxid: 1717
    Synonym: IRON-DEPENDENT DIPHTHERIA TOX REGULATORY ELEMENT, TOX REGULATORY FACTOR

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric/Biological Unit (1, 8)
No.NameCountTypeFull Name
1CO8Ligand/IonCOBALT (II) ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:79 , GLU A:83 , HIS A:98 , GLU A:170 , GLN A:173BINDING SITE FOR RESIDUE CO A 601
2AC2SOFTWAREHIS B:79 , GLU B:83 , HIS B:98 , GLU B:170 , GLN B:173BINDING SITE FOR RESIDUE CO B 602
3AC3SOFTWAREHIS C:79 , GLU C:83 , HIS C:98 , GLU C:170 , GLN C:173BINDING SITE FOR RESIDUE CO C 603
4AC4SOFTWAREHIS D:79 , GLU D:83 , HIS D:98 , GLU D:170 , GLN D:173BINDING SITE FOR RESIDUE CO D 604
5AC5SOFTWAREMET A:10 , CYS A:102 , GLU A:105 , HIS A:106BINDING SITE FOR RESIDUE CO A 701
6AC6SOFTWAREMET B:10 , CYS B:102 , GLU B:105 , HIS B:106BINDING SITE FOR RESIDUE CO B 702
7AC7SOFTWAREMET C:10 , CYS C:102 , GLU C:105 , HIS C:106BINDING SITE FOR RESIDUE CO C 703
8AC8SOFTWAREMET D:10 , CYS D:102 , GLU D:105 , HIS D:106BINDING SITE FOR RESIDUE CO D 704

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1C0W)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1C0W)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (13, 36)

Asymmetric/Biological Unit (13, 36)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_DTXR_CORDI_001 *R47HDTXR_CORDI  ---  ---A/B/C/DR47H
02UniProtVAR_DTXR_CORDI_003 *V147ADTXR_CORDI  ---  ---BA147A
03UniProtVAR_DTXR_CORDI_004 *I165VDTXR_CORDI  ---  ---A/B/CI165V
04UniProtVAR_DTXR_CORDI_005 *V174ADTXR_CORDI  ---  ---A/B/C/DV174A
05UniProtVAR_DTXR_CORDI_006 *S191TDTXR_CORDI  ---  ---BS191T
06UniProtVAR_DTXR_CORDI_007 *D199VDTXR_CORDI  ---  ---BD199V
07UniProtVAR_DTXR_CORDI_008 *H201RDTXR_CORDI  ---  ---BH201R
08UniProtVAR_DTXR_CORDI_009 *S205RDTXR_CORDI  ---  ---BS205R
09UniProtVAR_DTXR_CORDI_010 *I214LDTXR_CORDI  ---  ---A/B/C/DL214L
10UniProtVAR_DTXR_CORDI_011 *I214YDTXR_CORDI  ---  ---A/B/C/DL214Y
11UniProtVAR_DTXR_CORDI_012 *A218TDTXR_CORDI  ---  ---A/B/C/DA218T
12UniProtVAR_DTXR_CORDI_013 *I221MDTXR_CORDI  ---  ---A/B/C/DI221M
13UniProtVAR_DTXR_CORDI_014 *I221TDTXR_CORDI  ---  ---A/B/C/DI221T
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_DTXRPS50944 DtxR-type HTH domain profile.DTXR_CORDI4-65
 
 
 		  4A:4-65
B:4-65
C:4-65
D:4-65
DTXR_CORDW4-65
 
 
 		  4A:4-65
B:4-65
C:4-65
D:4-65

(-) Exons   (0, 0)

(no "Exon" information available for 1C0W)

(-) 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:173
 aligned with DTXR_CORDI | P0DJL7 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:222
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221  
           DTXR_CORDI     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAVPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELIDDLAHTIRI 223
               SCOP domains d1c0wa1 A:2-64 Diphtheria toxin repressor (DtxR)               d1c0wa2 A:65-140 Diphtheria toxin repressor (DtxR)                                                  d1c0wa3 A:165-223 Dip                         htheria toxin SCOP domains
               CATH domains 1c0wA01 A:2-74 'winged helix' repressor DNA binding domain               1c0wA02 A:75-140 Diphtheria Toxin Repressor, domain 2             ----------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh.............hhhhhh.------------------------..eehhhhhhhhhhhhhhhh.-------------------------...hhhhhh.ee. Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H---------------------------------------------------------------------------------------------------------------------V--------A---------------------------------------L---T--M-- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T-- SAPs(SNPs) (2)
                PROSITE (2) --HTH_DTXR  PDB: A:4-65 UniProt: 4-65                           -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1c0w A   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV------------------------IVQINEIFQVETDQFTQLLDA-------------------------VELLDDLAHTIRI 223
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-         -         -   |   171       181   |     -         -       211       221  
                                                                                                                                                                    140                      165                 185                       211            


Chain A from PDB  Type:PROTEIN  Length:173
 aligned with DTXR_CORDW | H2I233 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:222
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221  
           DTXR_CORDW     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAAPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELLDDLAHTIRI 223
               SCOP domains d1c0wa1 A:2-64 Diphtheria toxin repressor (DtxR)               d1c0wa2 A:65-140 Diphtheria toxin repressor (DtxR)                                                  d1c0wa3 A:165-223 Dip                         htheria toxin SCOP domains
               CATH domains 1c0wA01 A:2-74 'winged helix' repressor DNA binding domain               1c0wA02 A:75-140 Diphtheria Toxin Repressor, domain 2             ----------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh.............hhhhhh.------------------------..eehhhhhhhhhhhhhhhh.-------------------------...hhhhhh.ee. Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H---------------------------------------------------------------------------------------------------------------------V--------A---------------------------------------L---T--M-- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T-- SAPs(SNPs) (2)
                    PROSITE --HTH_DTXR  PDB: A:4-65 UniProt: 4-65                           -------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1c0w A   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV------------------------IVQINEIFQVETDQFTQLLDA-------------------------VELLDDLAHTIRI 223
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-         -         -   |   171       181   |     -         -       211       221  
                                                                                                                                                                    140                      165                 185                       211            


Chain B from PDB  Type:PROTEIN  Length:219
 aligned with DTXR_CORDI | P0DJL7 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:225
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221     
           DTXR_CORDI     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAVPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELIDDLAHTIRIEEL 226
               SCOP domains d1c0wb1 B:2-64 Diphtheria toxin repressor (DtxR)               d1c0wb2 B:65-140 Diphtheria toxin repressor (DtxR)                          ------d1c0wb3 B:147-226 Diphtheria toxin repressor (DtxR)                              SCOP domains
               CATH domains 1c0wB01 B:2-73 'winged helix' repressor DNA binding domain              1c0wB02 B:74-140 Diphtheria Toxin Repressor, domain 2              -------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh....hhhhhhhhh..hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh.............hhhhhh.------...eehhhhh....eeeeeeeehhhhhhhhhhhhhhhhh......eeeeeee..eeeee....eee....hhh.eee... Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H---------------------------------------------------------------------------------------------------A-----------------V--------A----------------T-------V-R---R--------L---T--M----- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T----- SAPs(SNPs) (2)
                PROSITE (2) --HTH_DTXR  PDB: B:4-65 UniProt: 4-65                           ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c0w B   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV------APGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELLDDLAHTIRIEEL 226
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-     | 151       161       171       181       191       201       211       221     
                                                                                                                                                                    140    147                                                                               


Chain B from PDB  Type:PROTEIN  Length:219
 aligned with DTXR_CORDW | H2I233 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:225
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221     
           DTXR_CORDW     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAAPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELLDDLAHTIRIEEL 226
               SCOP domains d1c0wb1 B:2-64 Diphtheria toxin repressor (DtxR)               d1c0wb2 B:65-140 Diphtheria toxin repressor (DtxR)                          ------d1c0wb3 B:147-226 Diphtheria toxin repressor (DtxR)                              SCOP domains
               CATH domains 1c0wB01 B:2-73 'winged helix' repressor DNA binding domain              1c0wB02 B:74-140 Diphtheria Toxin Repressor, domain 2              -------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh....hhhhhhhhh..hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh.............hhhhhh.------...eehhhhh....eeeeeeeehhhhhhhhhhhhhhhhh......eeeeeee..eeeee....eee....hhh.eee... Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H---------------------------------------------------------------------------------------------------A-----------------V--------A----------------T-------V-R---R--------L---T--M----- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T----- SAPs(SNPs) (2)
                    PROSITE --HTH_DTXR  PDB: B:4-65 UniProt: 4-65                           ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c0w B   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV------APGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELLDDLAHTIRIEEL 226
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-     | 151       161       171       181       191       201       211       221     
                                                                                                                                                                    140    147                                                                               


Chain C from PDB  Type:PROTEIN  Length:175
 aligned with DTXR_CORDI | P0DJL7 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:221
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221 
           DTXR_CORDI     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAVPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELIDDLAHTIR 222
               SCOP domains d1c0wc1 C:2-64 Diphtheria toxin repressor (DtxR)               d1c0wc2 C:65-140 Diphtheria toxin repressor (DtxR)                                                  d1c0wc3 C:165-222 Diphth                      eria toxin r SCOP domains
               CATH domains 1c0wC01 C:2-74 'winged helix' repressor DNA binding domain               1c0wC02 C:75-140 Diphtheria Toxin Repressor, domain 2             ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh....hhhhhhhhh..hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh....................------------------------..eehhhhhhhhhhhhhhhh....----------------------...hhhhhh.ee Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H---------------------------------------------------------------------------------------------------------------------V--------A---------------------------------------L---T--M- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T- SAPs(SNPs) (2)
                PROSITE (2) --HTH_DTXR  PDB: C:4-65 UniProt: 4-65                           ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c0w C   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV------------------------IVQINEIFQVETDQFTQLLDADIR----------------------VELLDDLAHTIR 222
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-         -         -   |   171       181      |  -         -       211       221 
                                                                                                                                                                    140                      165                    188                    211           


Chain C from PDB  Type:PROTEIN  Length:175
 aligned with DTXR_CORDW | H2I233 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:221
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221 
           DTXR_CORDW     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAAPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELLDDLAHTIR 222
               SCOP domains d1c0wc1 C:2-64 Diphtheria toxin repressor (DtxR)               d1c0wc2 C:65-140 Diphtheria toxin repressor (DtxR)                                                  d1c0wc3 C:165-222 Diphth                      eria toxin r SCOP domains
               CATH domains 1c0wC01 C:2-74 'winged helix' repressor DNA binding domain               1c0wC02 C:75-140 Diphtheria Toxin Repressor, domain 2             ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh....hhhhhhhhh..hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh....................------------------------..eehhhhhhhhhhhhhhhh....----------------------...hhhhhh.ee Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H---------------------------------------------------------------------------------------------------------------------V--------A---------------------------------------L---T--M- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T- SAPs(SNPs) (2)
                    PROSITE --HTH_DTXR  PDB: C:4-65 UniProt: 4-65                           ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c0w C   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV------------------------IVQINEIFQVETDQFTQLLDADIR----------------------VELLDDLAHTIR 222
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-         -         -   |   171       181      |  -         -       211       221 
                                                                                                                                                                    140                      165                    188                    211           


Chain D from PDB  Type:PROTEIN  Length:175
 aligned with DTXR_CORDI | P0DJL7 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:221
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221 
           DTXR_CORDI     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAVPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELIDDLAHTIR 222
               SCOP domains d1c0wd1 D:2-64 Diphtheria toxin repressor (DtxR)               d1c0wd2 D:65-140 Diphtheria toxin repressor (DtxR)                                                   d1c0wd3 D:166-222 Diphth                     eria toxin r SCOP domains
               CATH domains 1c0wD01 D:2-74 'winged helix' repressor DNA binding domain               1c0wD02 D:75-140 Diphtheria Toxin Repressor, domain 2             ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh....................-------------------------.eehhhhhhhhhhhhhhhh.....---------------------...hhhhhh.ee Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H------------------------------------------------------------------------------------------------------------------------------A---------------------------------------L---T--M- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T- SAPs(SNPs) (2)
                PROSITE (2) --HTH_DTXR  PDB: D:4-65 UniProt: 4-65                           ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c0w D   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV-------------------------VQINEIFQVETDQFTQLLDADIRV---------------------VELLDDLAHTIR 222
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-         -         -    |  171       181       | -         -       211       221 
                                                                                                                                                                    140                       166                    189                   211           


Chain D from PDB  Type:PROTEIN  Length:175
 aligned with DTXR_CORDW | H2I233 from UniProtKB/Swiss-Prot  Length:226

    Alignment length:221
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221 
           DTXR_CORDW     2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGVGNSDAAAPGTRVIDAATSMPRKVRIVQINEIFQVETDQFTQLLDADIRVGSEVEIVDRDGHITLSHNGKDVELLDDLAHTIR 222
               SCOP domains d1c0wd1 D:2-64 Diphtheria toxin repressor (DtxR)               d1c0wd2 D:65-140 Diphtheria toxin repressor (DtxR)                                                   d1c0wd3 D:166-222 Diphth                     eria toxin r SCOP domains
               CATH domains 1c0wD01 D:2-74 'winged helix' repressor DNA binding domain               1c0wD02 D:75-140 Diphtheria Toxin Repressor, domain 2             ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eeehhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhh....................-------------------------.eehhhhhhhhhhhhhhhh.....---------------------...hhhhhh.ee Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------H------------------------------------------------------------------------------------------------------------------------------A---------------------------------------L---T--M- SAPs(SNPs) (1)
             SAPs(SNPs) (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Y------T- SAPs(SNPs) (2)
                    PROSITE --HTH_DTXR  PDB: D:4-65 UniProt: 4-65                           ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c0w D   2 KDLVDTTEMYLRTIYELEEEGVTPLRARIAERLEQSGPTVSQTVARMERDGLVVVASDRSLQMTPTGRTLATAVMRKHRLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSPFGNPIPGLDELGV-------------------------VQINEIFQVETDQFTQLLDADIRV---------------------VELLDDLAHTIR 222
                                    11        21        31        41        51        61        71        81        91       101       111       121       131        |-         -         -    |  171       181       | -         -       211       221 
                                                                                                                                                                    140                       166                    189                   211           


Chain E from PDB  Type:DNA  Length:21
                                                     
                 1c0w E 401 ATTAGGTTAGCCTACCCTAAT 421
                                   410       420 


Chain F from PDB  Type:DNA  Length:21
                                                     
                 1c0w F 501 ATTAGGTTAGGCTACCCTAAT 521
                                   510       520
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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  (3, 12)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 8)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1C0W)

(-) Gene Ontology  (7, 14)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (DTXR_CORDW | H2I233)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046983    protein dimerization activity    The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
    GO:0046914    transition metal ion binding    Interacting selectively and non-covalently with a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver.
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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Chain A,B,C,D   (DTXR_CORDI | P0DJL7)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046983    protein dimerization activity    The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
    GO:0046914    transition metal ion binding    Interacting selectively and non-covalently with a transition metal ions; a transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver.
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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  1c0w
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  DTXR_CORDW | H2I233
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 Related Entries

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

UniProtKB/Swiss-Prot
        DTXR_CORDI | P0DJL7: 1bi0 1bi1 1bi2 1bi3 1bym 1ddn 1dpr 1f5t 1fwz 1g3s 1g3t 1g3w 1g3y 1p92 1qvp 1qw1 1xcv 2dtr 2qq9 2qqa 2qqb 2tdx 3glx
        DTXR_CORDW | H2I233: 1bi0 1bi1 1bi2 1bi3 1bym 1ddn 1dpr 1f5t 1fwz 1g3s 1g3t 1g3w 1g3y 1p92 1qvp 1qw1 1xcv 2dtr 2qq9 2qqa 2qqb 2tdx 3glx

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1C0W)