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Title :   CRYSTAL STRUCTURE OF THE PUTATIVE NADPH-DEPENDENT AZOBENZENE FMN-REDUCTASE YHDA FROM BACILLUS SUBTILIS, NORTHEAST STRUCTURAL GENOMICS TARGET SR135

Authors :   F. Forouhar, M. Hussain, S. Jayaraman, J. Shen, B. Cooper, K. Cunningha H. Janjua, L. -C. Ma, R. Xiao, T. B. Acton, G. T. Montelione, J. F. Hunt, L Northeast Structural Genomics Consortium (Nesg)

Date :   26 Apr 06 (Deposition) - 09 May 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.92

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

Keywords :   Alpha-Beta Protein, Structural Genomics, Psi, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. Forouhar, M. Hussain, S. Jayaraman, J. Shen, B. Cooper, K. Cunningham, H. Janjua, L. -C. Ma, R. Xiao, T. B. Acton, G. T. Montelione, J. F. Hunt, L. Tong
Crystal Structure Of The Putative Nadph-Dependent Azobenzen Fmn-Reductase Yhda From Bacillus Subtilis, Northeast Structural Genomics Target Sr135
To Be Published
PubMed: search

Molecule 1 - YHDA
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET21
	Expression System Strain	:	BL21(DE3)+MAGIC
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	YHDA
	Organism Scientific	:	BACILLUS SUBTILIS SUBSP. SUBTILIS
	Organism Taxid	:	224308
	Strain	:	168

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 24)

No.	Name	Count	Type	Full Name
1	FMN	4	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	MSE	20	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 12)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	MSE	10	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 12)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	MSE	10	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:9 , ARG A:11 , GLY A:14 , ARG A:15 , THR A:16 , PRO A:72 , GLU A:73 , TYR A:74 , HIS A:75 , SER A:76 , VAL A:104 , ALA A:105 , GLY A:106 , HOH A:205 , ASP C:87	BINDING SITE FOR RESIDUE FMN A 201
2	AC2	SOFTWARE	THR B:9 , ARG B:11 , GLY B:14 , ARG B:15 , THR B:16 , PRO B:72 , GLU B:73 , TYR B:74 , HIS B:75 , VAL B:104 , ALA B:105 , GLY B:106 , ASP D:87	BINDING SITE FOR RESIDUE FMN B 202
3	AC3	SOFTWARE	ASP A:87 , THR C:9 , ARG C:11 , GLY C:14 , ARG C:15 , THR C:16 , PRO C:72 , GLU C:73 , TYR C:74 , HIS C:75 , SER C:76 , VAL C:104 , ALA C:105 , GLY C:106 , GLY C:110	BINDING SITE FOR RESIDUE FMN C 203
4	AC4	SOFTWARE	PHE B:42 , ASP B:87 , THR D:9 , ARG D:11 , GLY D:14 , ARG D:15 , THR D:16 , PRO D:72 , GLU D:73 , TYR D:74 , HIS D:75 , SER D:76 , VAL D:104 , ALA D:105 , GLY D:106 , HOH D:207	BINDING SITE FOR RESIDUE FMN D 204

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

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

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

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

(no "Exon" information available for 2GSW)

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:168
 aligned with AZR_BACSU | O07529 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
            AZR_BACSU     3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKAG 170
               SCOP domains d2gswa_ A: Azobenzene reductase                                                                                                                                          SCOP domains
               CATH domains -2gswA00 A:4-170  [code=3.40.50.360, no name defined]                                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhh..eeee.............hhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh..hhhhhh..eeeeeee......hhhhhhhhhhhhhhh..ee....eeehhh.eehhhheehhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2gsw A   3 mLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGmSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNmRTVmRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSmFAKAG 170
                            |       12        22        32        42        52        62        72     |  82        92       102       112     | 122       132       142       152       162  |     
                            |                                                                         78-MSE                                 118-MSE                                        165-MSE 
                            3-MSE                                                                                                                122-MSE

Chain B from PDB  Type:PROTEIN  Length:168
 aligned with AZR_BACSU | O07529 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
            AZR_BACSU     3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKAG 170
               SCOP domains d2gswb_ B: Azobenzene reductase                                                                                                                                          SCOP domains
               CATH domains -2gswB00 B:4-170  [code=3.40.50.360, no name defined]                                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh..hhhhhh..eeeeeee......hhhhhhhhhhhhhhh..ee....eeehhh.eehhhheehhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2gsw B   3 mLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGmSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNmRTVmRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSmFAKAG 170
                            |       12        22        32        42        52        62        72     |  82        92       102       112     | 122       132       142       152       162  |     
                            3-MSE                                                                     78-MSE                                 118-MSE                                        165-MSE 
                                                                                                                                                 122-MSE

Chain C from PDB  Type:PROTEIN  Length:168
 aligned with AZR_BACSU | O07529 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
            AZR_BACSU     3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKAG 170
               SCOP domains d2gswc_ C: Azobenzene reductase                                                                                                                                          SCOP domains
               CATH domains -2gswC00 C:4-170  [code=3.40.50.360, no name defined]                                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh..hhhhhh..eeeeeee......hhhhhhhhhhhhhhh..ee....eeehhh.eehhhheehhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2gsw C   3 mLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGmSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNmRTVmRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSmFAKAG 170
                            |       12        22        32        42        52        62        72     |  82        92       102       112     | 122       132       142       152       162  |     
                            3-MSE                                                                     78-MSE                                 118-MSE                                        165-MSE 
                                                                                                                                                 122-MSE

Chain D from PDB  Type:PROTEIN  Length:168
 aligned with AZR_BACSU | O07529 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:168
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162        
            AZR_BACSU     3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKAG 170
               SCOP domains d2gswd_ D: Azobenzene reductase                                                                                                                                          SCOP domains
               CATH domains -2gswD00 D:4-170  [code=3.40.50.360, no name defined]                                                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhh..hhhhhh..eeeeeee......hhhhhhhhhhhhhhh..ee....eeehhh.eehhhheehhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2gsw D   3 mLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGmSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNmRTVmRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSmFAKAG 170
                            |       12        22        32        42        52        62        72     |  82        92       102       112     | 122       132       142       152       162  |     
                            3-MSE                                                                     78-MSE                                 118-MSE                                        165-MSE 
                                                                                                                                                 122-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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: Flavodoxin-like (1057)

Superfamily: Flavoproteins (208)

Family: NADPH-dependent FMN reductase (10)

Protein domain: Azobenzene reductase (2)

Bacillus subtilis [TaxId: 224308] (1)

1a	d2gswa_	A:
1b	d2gswb_	B:
1c	d2gswc_	C:
1d	d2gswd_	D:

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=3.40.50.360, no name defined] (150)

Subtilis str (Bacillus subtilis subsp) (1)

1a	2gswA00	A:4-170
1b	2gswB00	B:4-170
1c	2gswC00	C:4-170
1d	2gswD00	D:4-170

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (AZR_BACSU | O07529)

molecular function
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

Asymmetric Unit
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