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Title :   TET REPRESSOR (CLASS D) IN COMPLEX WITH 7-IODOTETRACYCLINE

Authors :   C. Kisker, W. Saenger, W. Hinrichs

Date :   05 Apr 10 (Deposition) - 06 Oct 10 (Release) - 06 Oct 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)

Keywords :   Transcription, Antibiotic Resistance, Metal-Binding, Transcription Regulation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. Hinrichs, C. Kisker, M. Duvel, A. Muller, K. Tovar, W. Hillen, W. Saenger
Structure Of The Tet Repressor-Tetracycline Complex And Regulation Of Antibiotic Resistance.
Science V. 264 418 1994
PubMed-ID: 8153629
(for further references see the PDB file header)

Molecule 1 - TETRACYCLINE REPRESSOR PROTEIN CLASS D
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PWH904
	Expression System Strain	:	K12 DELTA H1 DELTA TRP
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 2-208
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Other Details	:	7-IODOTETRACYCLINE, MG-COMPLEX
	Synonym	:	TET REPRESSOR CLASS D

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 3)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	I7T	1	Ligand/Ion	7-IODOTETRACYCLINE
3	MG	1	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	I7T	2	Ligand/Ion	7-IODOTETRACYCLINE
3	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:64 , SER A:67 , ASN A:82 , PHE A:86 , HIS A:100 , THR A:112 , GLN A:116 , SER A:138 , LEU A:174 , MG A:223 , HOH A:2016 , HOH A:2029 , HOH A:2039 , HOH A:2040	BINDING SITE FOR RESIDUE I7T A 222
2	AC2	SOFTWARE	HIS A:100 , GLU A:147 , I7T A:222 , HOH A:2016 , HOH A:2029 , HOH A:2039	BINDING SITE FOR RESIDUE MG A 223
3	AC3	SOFTWARE	ARG A:3 , LEU A:4 , GLN A:76 , ARG A:80	BINDING SITE FOR RESIDUE CL A1209

(no "SS Bond" information available for 2XB5)

(no "Cis Peptide Bond" information available for 2XB5)

(no "SAP(SNP)/Variant" information available for 2XB5)

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_TETR_2	PS50977	TetR-type HTH domain profile.	TETR4_ECOLX	3-63	1	A:3-63
2	HTH_TETR_1	PS01081	TetR-type HTH domain signature.	TETR4_ECOLX	21-52	1	A:21-52

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_TETR_2	PS50977	TetR-type HTH domain profile.	TETR4_ECOLX	3-63	2	A:3-63
2	HTH_TETR_1	PS01081	TetR-type HTH domain signature.	TETR4_ECOLX	21-52	2	A:21-52

(no "Exon" information available for 2XB5)

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
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Chain A from PDB  Type:PROTEIN  Length:207
 aligned with TETR4_ECOLX | P0ACT4 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:207
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       
          TETR4_ECOLX     2 ARLNRESVIDAALELLNETGIDGLTTRKLAQKLGIEQPTLYWHVKNKRALLDALAVEILARHHDYSLPAAGESWQSFLRNNAMSFRRALLRYRDGAKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAAPDENLPPLLREALQIMDSDDGEQAFLHGLESLIRGFEVQLTALLQIV 208
               SCOP domains d2xb5a1 A:2-67 Tetracyclin repressor (Tet-repressor, TetR)        d2xb5a2 A:68-208 Tetracyclin repressor (Tet-repressor, TetR)                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------TetR_N-2xb5A01 A:9-55                          ------------TetR_C-2xb5A02 A:68-201                                                                                                               ------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh..hhhhhhh....hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -HTH_TETR_2  PDB: A:3-63 UniProt: 3-63                        ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -------------------HTH_TETR_1  PDB: A:21-52        ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xb5 A   2 ARLNRESVIDAALELLNETGIDGLTTRKLAQKLGIEQPTLYWHVKNKRALLDALAVEILARHHDYSLPAAGESWQSFLRNNAMSFRRALLRYRDGAKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISAVSHFTLGAVLEQQEHTAALTDRPAAPDENLPPLLREALQIMDSDDGEQAFLHGLESLIRGFEVQLTALLQIV 208
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201

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 '\|'

(no "CATH Domain" information available for 2XB5)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HTH (544)

Family: TetR_N (84)

Escherichia coli (12)

TetR_N-2xb5A01

A:9-55

Clan: TetR_C (33)

Family: TetR_C (16)

Escherichia coli (12)

TetR_C-2xb5A02

A:68-201

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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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2xb5)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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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
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	THE COMPLEX FORMED BETWEEN TET REPRESSOR AND TETRACYCLINE- MG2+ REVEALS MECHANISM OF ANTIBIOTIC RESISTANCE
2trt	TETRACYCLINE REPRESSOR CLASS D
2vke	TET REPRESSOR CLASS D COMPLEXED WITH COBALT AND TETRACYCLINE
2vkv	TETR (BD) VARIANT L17G WITH REVERSE PHENOTYPE
2x6o	TET REPRESSOR CLASS D IN COMPLEX WITH 7- CHLOR-2-CYANO-ISO-TETRACYCLINE
2x9d	TET REPRESSOR (CLASS D) IN COMPLEX WITH ISO-7-CHLORTETRACYCLINE

Description

Compounds

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Ligands, Modified Residues, Ions (3, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 2)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (2, 2)

CATH Domains (0, 0)

Pfam Domains (2, 2)

Gene Ontology (6, 6)

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