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(-) Description

Title :  TETR (BD) VARIANT L17G WITH REVERSE PHENOTYPE
 
Authors :  M. Resch, H. Striegl, E. M. Henssler, M. Sevvana, C. Egerer-Sieber, E. S W. Hillen, Y. A. Muller
Date :  02 Jan 08  (Deposition) - 08 Jul 08  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.74
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Transcription, Transcription Regulation, Disorder To Order Mechanism, Antibiotic Resistance, Helix-Turn-Helix Motif, Bacterial Repressor, Anhydrotetracycline, Metal-Binding, Reverse Phenotype, Tetr, Plasmid, Repressor, Magnesium, Dna-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Resch, H. Striegl, E. M. Henssler, M. Sevvana, C. Egerer-Sieber, E. Schiltz, W. Hillen, Y. A. Muller
A Protein Functional Leap: How A Single Mutation Reverses The Function Of The Transcription Regulator Tetr.
Nucleic Acids Res. V. 36 4390 2008
PubMed-ID: 18587152  |  Reference-DOI: 10.1093/NAR/GKN400

(-) Compounds

Molecule 1 - TETRACYCLINE REPRESSOR PROTEIN CLASS B FROM TRANSPOSON TN10, TETRACYCLINE REPRESSOR PROTEIN CLASS D
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PWH610/LEU17GLYTETR
    Expression System Strain: RB791
    Expression System Taxid: 562
    Expression System Vector: PWH610
    Fragment: RESIDUES 1-50,51-208
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Other Details: RESIDUES 1-50 ARE FROM VARIANT B, RESIDUES 51-208 ARE FROM VARIANT D
    Synonym: TETRACYCLINE REPRESSOR BD VARIANT L17G

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION
2TDC1Ligand/Ion5A,6-ANHYDROTETRACYCLINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2TDC2Ligand/Ion5A,6-ANHYDROTETRACYCLINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:64 , SER A:67 , ASN A:82 , PHE A:86 , HIS A:100 , THR A:103 , ARG A:104 , PRO A:105 , THR A:112 , GLN A:116 , ILE A:134 , SER A:138 , MET A:177 , MG A:1207 , HOH A:2078 , HOH A:2079 , HOH A:2122 , HOH A:2166BINDING SITE FOR RESIDUE TDC A1206
2AC2SOFTWAREHIS A:100 , TDC A:1206 , HOH A:2078 , HOH A:2079 , HOH A:2122BINDING SITE FOR RESIDUE MG A1207
3AC3SOFTWAREHOH A:2003 , HOH A:2070 , HOH A:2071 , HOH A:2072 , HOH A:2073 , HOH A:2128BINDING SITE FOR RESIDUE MG A1208

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VKV)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2VKV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VKV)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_TETR_1PS01081 TetR-type HTH domain signature.TETR4_ECOLX21-52  1A:21-52
Biological Unit 1 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_TETR_1PS01081 TetR-type HTH domain signature.TETR4_ECOLX21-52  2A:21-52

(-) Exons   (0, 0)

(no "Exon" information available for 2VKV)

(-) 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:200
 aligned with TETR4_ECOLX | P0ACT4 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:200
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205
          TETR4_ECOLX     6 RESVIDAALELLNETGIDGLTTRKLAQKLGIEQPTLYWHVKNKRALLDALAVEILARHHDYSLPAAGESWQSFLRNNAMSFRRALLRYRDGAKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAAPDENLPPLLREALQIMDSDDGEQAFLHGLESLIRGFEVQLTALL 205
               SCOP domains d2vkva1 A:6-67 automated matches                              d2vkva2 A:68-205 automated matches                                                                                                         SCOP domains
               CATH domains 2vkvA01 A:6-66 Homeodomain-like                              2vkvA02 A:67-205 Tetracycline Repressor, domain 2                                                                                           CATH domains
               Pfam domains ---------------------------------------------TetR_------------TetR_C-2vkvA02 A:68-201                                                                                                               ---- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh.hhhhhhh....hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------HTH_TETR_1  PDB: A:21-52        --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vkv A   6 KSKVINSALELGNEVGIEGLTTRKLAQKLGVEQPTLYWHVKNKRALLDALAVEILARHHDYSLPAAGESWQSFLRNNAMSFRRALLRYRDGAKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAAPDENLPPLLREALQIMDSDDGEQAFLHGLESLIRGFEVQLTALL 205
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205
   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  (2, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (2, 2)

Asymmetric Unit
(-)
Clan: HTH (544)
(-)
Clan: TetR_C (33)

(-) Gene Ontology  (6, 12)

Asymmetric Unit(hide GO term definitions)
Chain A   (TETR4_ECOLX | P0ACT4)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0046677    response to antibiotic    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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  2vkv
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  TETR4_ECOLX | P0ACT4
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 Related Entries

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

UniProtKB/Swiss-Prot
        TETR2_ECOLX | P04483: 2ns7 2ns8 2xgc 2xgd 2xge 3fk6 3fk7 3zqf 3zqg 3zqh 3zqi 4ac0
        TETR4_ECOLX | P0ACT4: 1a6i 1bjz 1ork 1qpi 2fj1 2ns7 2ns8 2o7o 2tct 2trt 2vke 2x6o 2x9d 2xb5 2xgc 2xgd 2xge 2xpu 2xpv 2xpw 2xrl 3fk6 3fk7 3zqf 3zqg 3zqh 3zqi 4abz 4aux 4b1r 4b3a 4d7m 4d7n 4v2f 4v2g 5fkk 5fkl 5fkm 5fkn 5fko

(-) Related Entries Specified in the PDB File

1a6i TET REPRESSOR, CLASS D VARIANT
1bj0 TETRACYCLINE CHELATED MG2+ -ION INITIATES HELIX UNWINDING FOR TET REPRESSOR INDUCTION
1bjy TETRACYCLINE CHELATED MG2+ -ION INITIATES HELIX UNWINDING FOR TET REPRESSOR INDUCTION
1bjz TETRACYCLINE CHELATED MG2+ -ION INITIATES HELIX UNWINDING FOR TET REPRESSOR INDUCTION
1du7 CRYSTAL STRUCTURE OF TET REPRESSOR CLASS D WITH 4-EPI- TETRACYCLINE
1ork TET REPRESSOR, CLASS D IN COMPLEX WITH 9 -(N,N-DIMETHYLGLYCYLAMIDO)- 6-DEMETHYL-6- DEOXY-TETRACYCLINE
1qpi CRYSTAL STRUCTURE OF TETRACYCLINE REPRESSOR/ OPERATOR COMPLEX
2tct MOL_ID: 1; MOLECULE: TETRACYCLINE REPRESSOR; CHAIN: NULL; SYNONYM: TET REPRESSOR, CLASS D ; ENGINEERED: YES
2trt TETRACYCLINE REPRESSOR CLASS D
2vke TET REPRESSOR CLASS D COMPLEXED WITH COBALT AND TETRACYCLINE