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Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF THE CBS DOMAINS FROM THE BACILLUS SUBTILIS CCPN REPRESSOR COMPLEXED WITH APPNP, PHOSPHATE AND MAGNESIUM IONS

Authors :   D. Chaix, S. Arold, F. Hoh, N. Declerck

Date :   19 Jan 09 (Deposition) - 26 Jan 10 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.03

Chains :   Asym./Biol. Unit : A,B

Keywords :   Cbs Domain Dimer, Metabolism Regulator, Central Glycolytic Gene Regulator, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. Chaix, K. De Guillen, D. L. Coq, F. Hoh, C. Roumestand, S. Aymerich, S. T. Arold, N. Declerck
Ligand Recognition By The Energy Sensor Domain Of The Ccpn Repressor
To Be Published
PubMed: search

Molecule 1 - YQZB PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PQE30
	Expression System Strain	:	BL21DE3
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	CBS DOMAIN, REGULATORY DOMAIN OF THE TRANSCRIPTION FACTOR CCPN, UNP RESIDUES 63-212
	Gene	:	YQZB
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423
	Strain	:	168
	Synonym	:	CENTRAL GLYCOLYTIC GENE REGULATOR

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 7)

No.	Name	Count	Type	Full Name
1	ANP	2	Ligand/Ion	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2	MG	3	Ligand/Ion	MAGNESIUM ION
3	PO4	2	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:123 , SER A:125 , LYS A:127 , ASP A:128 , THR A:149 , ASN A:153 , ILE A:154 , THR A:155 , GLN A:174 , ILE A:175 , ASP A:176 , ALA A:177 , MG A:223 , MG A:224 , HOH A:227 , HOH A:253 , HOH A:254 , ASP B:107 , ARG B:126	BINDING SITE FOR RESIDUE ANP A 221
2	AC2	SOFTWARE	ARG A:193 , THR A:195 , THR A:197 , HOH A:239 , HOH A:252 , HOH A:258	BINDING SITE FOR RESIDUE PO4 A 222
3	AC3	SOFTWARE	GLY A:109 , THR A:110 , ASP A:176 , ANP A:221 , HOH A:254	BINDING SITE FOR RESIDUE MG A 223
4	AC4	SOFTWARE	GLN A:174 , ILE A:175 , ANP A:221	BINDING SITE FOR RESIDUE MG A 224
5	AC5	SOFTWARE	ASP A:107 , ARG A:126 , HOH A:252 , VAL B:123 , SER B:125 , LYS B:127 , ASP B:128 , THR B:149 , ASN B:153 , ILE B:154 , THR B:155 , GLN B:174 , ILE B:175 , ASP B:176 , ALA B:177 , LEU B:178 , MG B:223 , HOH B:241 , HOH B:250 , HOH B:251 , HOH B:263	BINDING SITE FOR RESIDUE ANP B 221
6	AC6	SOFTWARE	GLY B:109 , ARG B:193 , THR B:195 , THR B:197 , HOH B:227 , HOH B:255	BINDING SITE FOR RESIDUE PO4 B 222
7	AC7	SOFTWARE	ARG A:126 , GLY B:109 , ARG B:126 , ANP B:221	BINDING SITE FOR RESIDUE MG B 223

(no "SS Bond" information available for 3FWS)

Asymmetric/Biological Unit

No.	Residues
1	Ile A:134	-	Gly A:135
2	Gly A:135	-	Gln A:136
3	Gln A:136	-	Gln A:137
4	Met A:151	-	Pro A:152
5	Met B:151	-	Pro B:152

(no "SAP(SNP)/Variant" information available for 3FWS)

Asymmetric/Biological Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CBS	PS51371	CBS domain profile.	CCPN_BACSU	83-139 148-211	4	A:83-139 B:83-139 A:148-211 B:148-209

(no "Exon" information available for 3FWS)

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:145
 aligned with CCPN_BACSU | O34994 from UniProtKB/Swiss-Prot  Length:212

    Alignment length:145
                                    77        87        97       107       117       127       137       147       157       167       177       187       197       207     
           CCPN_BACSU    68 TQLLADKLKKLQVKDFQSIPVVIHENVSVYDAICTMFLEDVGTLFVVDRDAVLVGVLSRKDLLRASIGQQELTSVPVHIIMTRMPNITVCRREDYVMDIAKHLIEKQIDALPVIKDTDKGFEVIGRVTKTNMTKILVSLSENEIL 212
               SCOP domains d3fwsa_ A: automated matches                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh....eee...hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhh........hhhhh.ee......ee...hhhhhhhhhhhhh..eeeeeeee..eeeeeeeeehhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------CBS  PDB: A:83-139 UniProt: 83-139                       --------CBS  PDB: A:148-211 UniProt: 148-211                            - PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fws A  68 TQLLADKLKKLQVKDFQSIPVVIHENVSVYDAICTMFLEDVGTLFVVDRDAVLVGVLSRKDLLRASIGQQELTSVPVHIIMTRMPNITVCRREDYVMDIAKHLIEKQIDALPVIKDTDKGFEVIGRVTKTNMTKILVSLSENEIL 212
                                    77        87        97       107       117       127       137       147       157       167       177       187       197       207

Chain B from PDB  Type:PROTEIN  Length:146
 aligned with CCPN_BACSU | O34994 from UniProtKB/Swiss-Prot  Length:212

    Alignment length:146
                                    73        83        93       103       113       123       133       143       153       163       173       183       193       203      
           CCPN_BACSU    64 GKTGTQLLADKLKKLQVKDFQSIPVVIHENVSVYDAICTMFLEDVGTLFVVDRDAVLVGVLSRKDLLRASIGQQELTSVPVHIIMTRMPNITVCRREDYVMDIAKHLIEKQIDALPVIKDTDKGFEVIGRVTKTNMTKILVSLSEN 209
               SCOP domains d3fwsb_ B: automated matches                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh.....eee...hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhhh.......hhhhh.ee...........hhhhhhhhhhhh...eeeeeeee..eeeeeeeeehhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------CBS  PDB: B:83-139 UniProt: 83-139                       --------CBS  PDB: B:148-209 UniProt: 148-211                           PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fws B  64 GKTGTQLLADKLKKLQVKDFQSIPVVIHENVSVYDAICTMFLEDVGTLFVVDRDAVLVGVLSRKDLLRASIGQQELTSVPVHIIMTRMPNITVCRREDYVMDIAKHLIEKQIDALPVIKDTDKGFEVIGRVTKTNMTKILVSLSEN 209
                                    73        83        93       103       113       123       133       143       153       163       173       183       193       203

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: CBS-domain pair (75)

Superfamily: CBS-domain pair (75)

Family: automated matches (25)

Protein domain: automated matches (25)

Bacillus subtilis [TaxId: 1423] (3)

1a	d3fwsa_	A:
1b	d3fwsb_	B:

(no "CATH Domain" information available for 3FWS)

(no "Pfam Domain" information available for 3FWS)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (CCPN_BACSU | O34994)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
	GO:0045013	carbon catabolite repression of transcription	A transcription regulation process in which the presence of one carbon source leads to a decrease in the frequency, rate, or extent of transcription of specific genes involved in the metabolism of other carbon sources. Carbon catabolite repression is a mechanism of genetic regulation which the accumulation of catabolites of one substance in the cell represses the formation of enzymes that contribute to the catabolism of other substances.
	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/Biological Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Gln A:136 - Gln A:137	[ RasMol ]
		Gly A:135 - Gln A:136	[ RasMol ]
		Ile A:134 - Gly A:135	[ RasMol ]
		Met A:151 - Pro A:152	[ RasMol ]
		Met B:151 - Pro B:152	[ RasMol ]

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	3fws
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UniProtKB/Swiss-Prot
	CCPN_BACSU \| O34994	:	3fv6 3fwr

3fv6	CRYSTAL STRUCTURE OF THE CBS DOMAINS FROM THE BACILLUS SUBTILIS CCPN REPRESSOR
3fwr	CRYSTAL STRUCTURE OF THE CBS DOMAINS FROM THE BACILLUS SUBTILIS CCPN REPRESSOR COMPLEXED WITH ADP

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (5, 5)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (0, 0)

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SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (4, 4)

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