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Title :   CRYSTAL STRUCTURE OF A REGULATORY PROTEIN OF LACI FAMILY FROM CHLOROFLEXUS AGGREGANS

Authors :   D. Kumaran, S. K. Burley, S. Swaminathan, New York Sgx Research Cen Structural Genomics (Nysgxrc)

Date :   09 Nov 07 (Deposition) - 27 Nov 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.35

Chains :   Asym. Unit : A
Biol. Unit 1: A  (2x)
Biol. Unit 2: A  (6x)

Keywords :   Protein Structure Initiative Ii, Psi-Ii, Nysgxrc, Transcriptional Regulator, Periplasmic Binding Protein, Laci Family, Structural Genomics, New York Sgx Research Center For Structural Genomics, Dna- Binding, Transcription Regulation, Regulatory Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. Kumaran, S. K. Burley, S. Swaminathan
Crystal Structure Of A Regulatory Protein Of Laci Family From The Chloroflexus Aggregans.
To Be Published
PubMed: search

Molecule 1 - REGULATORY PROTEIN OF LACI FAMILY
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PSGX3(BC)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 63-338
	Gene	:	CAGGDRAFT_0381
	Organism Scientific	:	CHLOROFLEXUS AGGREGANS
	Organism Taxid	:	326427
	Strain	:	DSM 9485

		1
Asymmetric Unit	:	A
Biological Unit 1 (2x)	:	A
Biological Unit 2 (6x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 12)

No.	Name	Count	Type	Full Name
1	EDO	4	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 24)

No.	Name	Count	Type	Full Name
1	EDO	8	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 72)

No.	Name	Count	Type	Full Name
1	EDO	24	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	48	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:69 , TRP A:70 , ARG A:91 , PHE A:103 , PRO A:104 , PHE A:105 , HOH A:520	BINDING SITE FOR RESIDUE EDO A 500
2	AC2	SOFTWARE	ILE A:273 , GLY A:274 , ALA A:278 , ILE A:279 , PRO A:294 , LEU A:295 , SER A:296	BINDING SITE FOR RESIDUE EDO A 501
3	AC3	SOFTWARE	HIS A:184 , ASP A:241 , SER A:243 , ARG A:247 , GLY A:274	BINDING SITE FOR RESIDUE EDO A 502
4	AC4	SOFTWARE	MSE A:263 , ALA A:264 , TYR A:290	BINDING SITE FOR RESIDUE EDO A 503

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

Asymmetric Unit

No.	Residues
1	Phe A:292	-	Pro A:293

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

(no "PROSITE Motif" information available for 3BBL)

(no "Exon" information available for 3BBL)

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:281
 aligned with B8GD81_CHLAD | B8GD81 from UniProtKB/TrEMBL  Length:339

    Alignment length:281
                                                                                                                                                                                                                                                                                                               339   
                                    71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       | - 
         B8GD81_CHLAD    62 RSFMIGYSWTQTEPGQVNHILDQFLSSMVREAGAVNYFVLPFPFSEDRSQIDIYRDLIRSGNVDGFVLSSINYNDPRVQFLLKQKFPFVAFGRSNPDWDFAWVDIDGTAGTRQAVEYLIGRGHRRIAILAWPEDSRVGNDRLQGYLEAMQTAQLPIETGYILRGEGTFEVGRAMTLHLLDLSPERRPTAIMTLNDTMAIGAMAAARERGLTIGTDLAIIGFDDAPMVQYLFPPLSSVRQPIAEAGRKCIELLVAIVEGREPEQKHILLQPSLIIRASS---   -
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bblA01 A:62-167,A:300-331  [code=3.40.50.2300, no name defined]                                          3bblA02 A:168-299,A:332-342  [code=3.40.50.2300, no name defined]                                                                   3bblA01 A:62-167,A:300-331      3bblA02     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee............hhhhhhhhhhhhhhhh..eeee.........hhhhhhhhhh....eeee......hhhhhhhhhh...eeee..........eeeehhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhhhh....hhh.eee...hhhhhhhhhhhhhh........eeee.hhhhhhhhhhhhhhh........eeeee....hhhhh....eeee.hhhhhhhhhhhhhhhhhh.......eeee..eeeee....ee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bbl A  62 LSFmIGYSWTQTEPGQVNHILDQFLSSmVREAGAVNYFVLPFPFSEDRSQIDIYRDLIRSGNVDGFVLSSINYNDPRVQFLLKQKFPFVAFGRSNPDWDFAWVDIDGTAGTRQAVEYLIGRGHRRIAILAWPEDSRVGNDRLQGYLEAmQTAQLPIETGYILRGEGTFEVGRAmTLHLLDLSPERRPTAImTLNDTmAIGAmAAARERGLTIGTDLAIIGFDDAPmVQYLFPPLSSVRQPIAEAGRKCIELLVAIVEGREPEQKHILLQPSLIIRASEGHH 342
                               |    71        81       |91       101       111       121       131       141       151       161       171       181       191       201       211       221       231   |   241       251|     |261 |     271       281     | 291       301       311       321       331       341 
                               |                      89-MSE                                                                                                                  210-MSE                  235-MSE          252-MSE |    |                     287-MSE                                                   
                              65-MSE                                                                                                                                                                                          258-MSE|                                                                               
                                                                                                                                                                                                                                   263-MSE

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 3BBL)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.2300, no name defined] (308)

Chloroflexus aggregans dsm 9485. Organism_taxid: 326427. Strain: dsm 9485. (1)

1a	3bblA02	A:168-299,A:332-342
1b	3bblA01	A:62-167,A:300-331

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

Asymmetric Unit(hide GO term definitions)

Chain A (B8GD81_CHLAD | B8GD81)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0008784	alanine racemase activity	Catalysis of the reaction: L-alanine = D-alanine.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	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: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.

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Ligands, Modified Residues, Ions (2, 12)

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