3GFQ - JenaLib

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Title :   STRUCTURE OF YHDA, K109L VARIANT

Authors :   N. Staunig, K. Gruber

Date :   27 Feb 09 (Deposition) - 22 Sep 09 (Release) - 22 Sep 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.00

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

Keywords :   Flavoproteins, Quinone Reductase, Flavodoxin, Oligomerization, Flavoprotein, Fmn, Nadp, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Binter, N. Staunig, I. Jelesarov, K. Lohner, B. A. Palfey, S. Deller, K. Gruber, P. Macheroux
A Single Intersubunit Salt Bridge Affects Oligomerization And Catalytic Activity In A Bacterial Quinone Reductase
Febs J. V. 276 5263 2009
PubMed-ID: 19682074 | Reference-DOI: 10.1111/J.1742-4658.2009.07222.X
(for further references see the PDB file header)

Molecule 1 - FMN-DEPENDENT NADPH-AZOREDUCTASE
	Chains	:	A, B, C, D
	EC Number	:	1.7.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET21A
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	AZR, BSU09340, YHDA
	Mutation	:	YES
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423
	Synonym	:	AZOBENZENE REDUCTASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	FMN	4	Ligand/Ion	FLAVIN MONONUCLEOTIDE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	FMN	2	Ligand/Ion	FLAVIN MONONUCLEOTIDE

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 , ASP B:87	BINDING SITE FOR RESIDUE FMN A 200
2	AC2	SOFTWARE	ASP A:87 , 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 , SER B:76 , ALA B:105 , GLY B:106	BINDING SITE FOR RESIDUE FMN B 200
3	AC3	SOFTWARE	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 , ASP D:87	BINDING SITE FOR RESIDUE FMN C 200
4	AC4	SOFTWARE	ASP C: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	BINDING SITE FOR RESIDUE FMN D 200

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

(no "Cis Peptide Bond" information available for 3GFQ)

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

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

(no "Exon" information available for 3GFQ)

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 d3gfqa_ A: automated matches                                                                                                                                             SCOP domains
               CATH domains 3gfqA00 A:3-170  [code=3.40.50.360, no name defined]                                                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhhhhh..eeeeeeeeehhhhhhhhhh.....hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3gfq A   3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGLGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKAG 170
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162

Chain B from PDB  Type:PROTEIN  Length:167
 aligned with AZR_BACSU | O07529 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:167
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       
            AZR_BACSU     3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKA 169
               SCOP domains d3gfqb_ B: automated matches                                                                                                                                            SCOP domains
               CATH domains 3gfqB00 B:3-169  [code=3.40.50.360, no name defined]                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhhhhh..eeeeeeeeehhh.ee....eehhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gfq B   3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGLGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKA 169
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162

Chain C from PDB  Type:PROTEIN  Length:167
 aligned with AZR_BACSU | O07529 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:167
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       
            AZR_BACSU     3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKA 169
               SCOP domains d3gfqc_ C: automated matches                                                                                                                                            SCOP domains
               CATH domains 3gfqC00 C:3-169  [code=3.40.50.360, no name defined]                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhhhh..eeee...........hhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhh..hhhhhh..eeeeeee......hhhhhhhhhhhhhh...ee....eeehhh.ee....eehhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gfq C   3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGLGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKA 169
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162

Chain D from PDB  Type:PROTEIN  Length:167
 aligned with AZR_BACSU | O07529 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:167
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       
            AZR_BACSU     3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGKGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKA 169
               SCOP domains d3gfqd_ D: automated matches                                                                                                                                            SCOP domains
               CATH domains 3gfqD00 D:3-169  [code=3.40.50.360, no name defined]                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......hhhhhhhhhhhh....eeee...........hhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhhh.hhhhhh..eeeeeee......hhhhhhhhhhhhhhh..eeeeeeeeehhh.ee....ee..hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3gfq D   3 MLVINGTPRKHGRTRIAASYIAALYHTDLIDLSEFVLPVFNGEAEQSELLKVQELKQRVTKADAIVLLSPEYHSGMSGALKNALDFLSSEQFKYKPVALLAVAGGGLGGINALNNMRTVMRGVYANVIPKQLVLDPVHIDVENATVAENIKESIKELVEELSMFAKA 169
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162

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: automated matches (4)

Bacillus subtilis [TaxId: 1423] (3)

1a	d3gfqa_	A:
1b	d3gfqb_	B:
1c	d3gfqc_	C:
1d	d3gfqd_	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)

Bacillus subtilis. Organism_taxid: 1423. (5)

1a	3gfqA00	A:3-170
1b	3gfqB00	B:3-169
1c	3gfqC00	C:3-169
1d	3gfqD00	D:3-169

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

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.

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	3gfq
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	1.7.-.-
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	AZR_BACSU \| O07529	:	1nni 2gsw 3gfr 3gfs

1nni	WILD TYPE ENZYME
3gfr
3gfs

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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