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Title :   CRYSTAL STRUCTURE OF THE COFACTOR-BINDING DOMAIN OF THE CBL TRANSCRIPTIONAL REGULATOR

Authors :   E. Stec, P. Neumann, A. J. Wilkinson, A. M. Brzozowski, G. D. Bujacz

Date :   08 Feb 06 (Deposition) - 21 Feb 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C  (2x)
Biol. Unit 3: D  (2x)

Keywords :   Transcriptional Regulator, Lys-R Family, Cofactor-Binding Domain, Cysteine Biosynthesis, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Stec, M. Witkowska-Zimny, M. M. Hryniewicz, P. Neumann, A. J. Wilkinson, A. M. Brzozowski, C. S. Verma, J. Zaim, S. Wysocki, G. D Bujacz
Structural Basis Of The Sulphate Starvation Response In E. Coli: Crystal Structure And Mutational Analysis Of The Cofactor-Binding Domain Of The Cbl Transcriptional Regulator.
J. Mol. Biol. V. 364 309 2006
PubMed-ID: 17010379 | Reference-DOI: 10.1016/J.JMB.2006.06.033

Molecule 1 - HTH-TYPE TRANSCRIPTIONAL REGULATOR CBL
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28
	Expression System Strain	:	BL21-CODON PLUS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	COFACTOR-BINDING DOMAIN, RESIDUES 88-307
	Gene	:	CBL
	Organism Scientific	:	ESCHERICHIA COLI K12
	Organism Taxid	:	83333
	Strain	:	K-12

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (2x)	:			C
Biological Unit 3 (2x)	:				D

Summary Information (see also Sequences/Alignments below)

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

(no "Site" information available for 2FYI)

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

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

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

(no "PROSITE Motif" information available for 2FYI)

(no "Exon" information available for 2FYI)

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:223
 aligned with CBL_ECOLI | Q47083 from UniProtKB/Swiss-Prot  Length:316

    Alignment length:223
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304   
            CBL_ECOLI    85 DLFTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
               SCOP domains ---d2fyia1 A:88-307 LysR-type regulatory protein Cbl                                                                                                                                                                            SCOP domains
               CATH domains 2fyiA01 A:85-166,A:268-307 Periplasmic binding protein-like II                    2fyiA02 A:167-267 Periplasmic binding protein-like II                                                2fyiA01 A:85-166,A:268-307               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeehhhhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh....eeee.........eeeeeeeee.eeeeee..hhhhh....hhhhhh...eeee.....hhhhhhhhhhhh.....eeeee.hhhhhhhhhhhh..eeeee.hhhh......eeee........eeeeeeee.....hhhhhhhhhhhh...hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fyi A  85 SHMTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304

Chain B from PDB  Type:PROTEIN  Length:223
 aligned with CBL_ECOLI | Q47083 from UniProtKB/Swiss-Prot  Length:316

    Alignment length:223
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304   
            CBL_ECOLI    85 DLFTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
               SCOP domains d2fyib_ B: LysR-type regulatory protein Cbl                                                                                                                                                                                     SCOP domains
               CATH domains 2fyiB01 B:85-166,B:268-307 Periplasmic binding protein-like II                    2fyiB02 B:167-267 Periplasmic binding protein-like II                                                2fyiB01 B:85-166,B:268-307               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeeeehhhhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh....eeee.........eeeeeeeee.eeeeee..hhhhhh...hhhhhh...eeee.....hhhhhhhhhhhh.....eeeee.hhhhhhhhhh....eeeee...........eeeee.......eeeeeeee.....hhhhhhhhhhhh...hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fyi B  85 SHMTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304

Chain C from PDB  Type:PROTEIN  Length:228
 aligned with CBL_ECOLI | Q47083 from UniProtKB/Swiss-Prot  Length:316

    Alignment length:259
                                    58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298         
            CBL_ECOLI    49 FVRRGKRLLGMTEPGKALLVIAERILNEASNVRRLADLFTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
               SCOP domains d2fyi                               c_ C: LysR-type regulatory protein Cbl                                                                                                                                                                                          SCOP domains
               CATH domains 2fyiC                               01 C:80-166,C:268-307 Periplasmic binding protein-like II                         2fyiC02 C:167-267 Periplasmic binding protein-like II                                                2fyiC01 C:80-166,C:268-307               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....-------------------------------........eeeeeeehhhhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh....eeee.........eeeeeeeee.eeeeee..hhhhh....hhhhhh...eeee.....hhhhhhhhhhhh.....eeeee.hhhhhhhhhhhh..eeeee.hhh.......eeee........eeeeeeee.....hhhhhhhhhhhh...hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fyi C  80 LVPRG-------------------------------SHMTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
                                |    -         -         -      | 88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298         
                               84                              85

Chain D from PDB  Type:PROTEIN  Length:223
 aligned with CBL_ECOLI | Q47083 from UniProtKB/Swiss-Prot  Length:316

    Alignment length:223
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304   
            CBL_ECOLI    85 DLFTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
               SCOP domains d2fyid_ D: LysR-type regulatory protein Cbl                                                                                                                                                                                     SCOP domains
               CATH domains 2fyiD01 D:85-166,D:268-307 Periplasmic binding protein-like II                    2fyiD02 D:167-267 Periplasmic binding protein-like II                                                2fyiD01 D:85-166,D:268-307               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh..eeeeeeehhhhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh....eeee.........eeeeeeeee.eeeeee..hhhhhh...hhhhhh...eeee.....hhhhhhhhhhhh.....eeeee.hhhhhhhhhhhh..eeeee.hhh.......eeeee.......eeeeeeee.....hhhhhhhhhhhh...hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fyi D  85 SHMTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKRQVMES 307
                                    94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304

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 '\|'

Asymmetric Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

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Organisms( (-)

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Class: Alpha and beta proteins (a/b) (23833)

Fold: Periplasmic binding protein-like II (813)

Superfamily: Periplasmic binding protein-like II (813)

Family: Phosphate binding protein-like (463)

Protein domain: LysR-type regulatory protein Cbl (1)

Escherichia coli [TaxId: 562] (1)

1a	d2fyia1	A:88-307
1b	d2fyib_	B:
1c	d2fyic_	C:
1d	d2fyid_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: D-Maltodextrin-Binding Protein; domain 2 (600)

Homologous Superfamily: Periplasmic binding protein-like II (486)

Escherichia coli k12. Organism_taxid: 83333. Strain: k-12. (1)

1a	2fyiC01	C:80-166,C:268-307
1b	2fyiA01	A:85-166,A:268-307
1c	2fyiB01	B:85-166,B:268-307
1d	2fyiD01	D:85-166,D:268-307
1e	2fyiA02	A:167-267
1f	2fyiB02	B:167-267
1g	2fyiC02	C:167-267
1h	2fyiD02	D:167-267

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (CBL_ECOLI | Q47083)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	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.
biological process
	GO:0045883	positive regulation of sulfur utilization	Any process that activates or increases the frequency, rate or extent of sulfur utilization.
	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.

Asymmetric Unit
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