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Title :   CRYSTAL STRUCTURE OF A DESIGNED HETERODIMERIC VARIANT T-A(I) B OF THE TETRACYCLINE REPRESSOR

Authors :   M. T. Stiebritz, S. Wengrzik, J. P. Richter, Y. A. Muller

Date :   03 Jun 10 (Deposition) - 22 Sep 10 (Release) - 20 Oct 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

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

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

Reference :   M. T. Stiebritz, S. Wengrzik, D. L. Klein, J. P. Richter, A. Srebrzynski, S. Weiler, Y. A. Muller
Computational Design Of A Chain-Specific Tetracycline Repressor Heterodimer.
J. Mol. Biol. V. 403 371 2010
PubMed-ID: 20816982 | Reference-DOI: 10.1016/J.JMB.2010.07.055

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 Taxid	:	562
	Fragment	:	RESIDUES 1-50,51-208
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

Molecule 2 - TETRACYCLINE REPRESSOR PROTEIN CLASS B FROM TRANSPOSON TN10, TETRACYCLINE REPRESSOR PROTEIN CLASS D
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Fragment	:	RESIDUES 1-50,51-208
	Mutation	:	YES
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562

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

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2XGC)

(no "Site" information available for 2XGC)

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

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

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

Asymmetric Unit (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 B:3-63
2	HTH_TETR_1	PS01081	TetR-type HTH domain signature.	TETR4_ECOLX	21-52	2	A:21-52 B: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 -

Biological Unit 2 (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	- B:3-63
2	HTH_TETR_1	PS01081	TetR-type HTH domain signature.	TETR4_ECOLX	21-52	2	- B:21-52

(no "Exon" information available for 2XGC)

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:193
 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 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2xgcA01 A:2-66 Homeodomain-like                                  2xgcA02 A:67-208 Tetracycline Repressor, domain 2                                                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhhhhhhhhheeeeeeehhhhhheeeehhhhheeeeehhhhhhhhhhhhhhheeeee..eeeeehhhhhhhhhhhhhhhheeeeehhhhhhee..ehhhhhhhhhhhhhhheeeeehhhhhhhhhhhhhhhhhhhhhhhhh--------------.hhhhhhheeeeeeeeehhhhhhhhhhhhehhhhhhhheeee. 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
                 2xgc A   2 SRLDKSKVINSALELLNEVGIEGLTTRKLAQKLGVEQPTLYWHVKNKRALLDALAVEILARHHDYSLPAAGESWQSFLRNNAMSFRRALLRYRDGAKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISWVSHFTLGAVLEQQEH--------------LPPLLREALQIMDSDDGEQAFLHGLESIIRGIEVQLTALLQIV 208
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151         -    |  171       181       191       201       
                                                                                                                                                                               151            166

Chain B from PDB  Type:PROTEIN  Length:193
 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 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2xgcB01 B:2-66 Homeodomain-like                                  2xgcB02 B:67-208 Tetracycline Repressor, domain 2                                                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeehhhhhhhhhhhhhhheeeeeeehhhhhheeee..eeeeeeeehhhhhhhhhhhhhhheeeee..eeeeehhhhhhhhhhhhhhhheeeeehhhhhhee..ehhhhhhhhhhhhhhheeeeehhhhhhhhhhhhhhhhhhhhhhhhh--------------..hhhhhheeeeeeeeehhhhhhhhhhhhehhhhhhhheeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -HTH_TETR_2  PDB: B:3-63 UniProt: 3-63                        ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) -------------------HTH_TETR_1  PDB: B:21-52        ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xgc B   2 SRLDKSKVINSALELLNEVGIEGLTTRKLAQKLGVEQPTLYWHVKNKRALLDALAVEILARHHDYSLPAAGESWQSFLRNNAMSFRRALLRYRDGAKVHLGTRPDEKQYDTVETQLRFMTENGFSLRDGLYAISAVSHATLGAVLEQQEH--------------LPPLLREALQIMDSDDGEQAFLHGLEWLIRGFEVQLTALLQIV 208
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151         -    |  171       181       191       201       
                                                                                                                                                                               151            166

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 "SCOP Domain" information available for 2XGC)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Arc Repressor Mutant, subunit A (1030)

Homologous Superfamily: Homeodomain-like (288)

Escherichia coli. Organism_taxid: 562. (17)

1a	2xgcA01	A:2-66
1b	2xgcB01	B:2-66

Topology: Tetracycline Repressor; domain 2 (126)

Homologous Superfamily: Tetracycline Repressor, domain 2 (124)

Escherichia coli. Organism_taxid: 562. (10)

2a	2xgcB02	B:67-208
2b	2xgcA02	A:67-208

(no "Pfam Domain" information available for 2XGC)

Asymmetric Unit(hide GO term definitions)

Chain A,B (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.

Asymmetric Unit
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	Cis Peptide Bonds
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Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ 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
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
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
2xb5	TET REPRESSOR (CLASS D) IN COMPLEX WITH 7 -IODOTETRACYCLINE
2xgd	CRYSTAL STRUCTURE OF A DESIGNED HOMODIMERIC VARIANT T-A(L)A(L) OF THE TETRACYCLINE REPRESSOR
2xge	CRYSTAL STRUCTURE OF A DESIGNED HETERODIMERIC VARIANT T-A(A)B OF THE TETRACYCLINE REPRESSOR

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Gene Ontology (6, 12)

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