1D7Y - JenaLib

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Title :   CRYSTAL STRUCTURE OF NADH-DEPENDENT FERREDOXIN REDUCTASE, BPHA4

Authors :   T. Senda, T. Yamada, N. Sakurai, M. Kubota, T. Nishizaki, E. Masai, M. Fu Y. Mitsui

Date :   21 Oct 99 (Deposition) - 20 Dec 00 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

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

Keywords :   Flavoprotein Rossmann Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Senda, T. Yamada, N. Sakurai, M. Kubota, T. Nishizaki, E. Masai, M. Fukuda, Y. Mitsuidagger
Crystal Structure Of Nadh-Dependent Ferredoxin Reductase Component In Biphenyl Dioxygenase.
J. Mol. Biol. V. 304 397 2000
PubMed-ID: 11090282 | Reference-DOI: 10.1006/JMBI.2000.4200

Molecule 1 - FERREDOXIN REDUCTASE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	PSEUDOMONAS SP.
	Organism Taxid	:	307
	Strain	:	KKS102

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 1)

No.	Name	Count	Type	Full Name
1	FAD	1	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	FAD	2	Ligand/Ion	FLAVIN-ADENINE DINUCLEOTIDE

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:14 , GLY A:16 , LEU A:17 , ALA A:18 , VAL A:38 , ASP A:40 , GLU A:41 , ARG A:48 , PRO A:49 , SER A:52 , LYS A:53 , ALA A:82 , ALA A:108 , THR A:109 , GLY A:110 , ARG A:130 , GLY A:272 , ASP A:273 , GLU A:289 , THR A:290 , TRP A:291 , ALA A:294 , TYR A:319 , TRP A:320 , HOH A:450 , HOH A:451 , HOH A:452 , HOH A:456 , HOH A:459 , HOH A:475 , HOH A:481 , HOH A:489 , HOH A:491	BINDING SITE FOR RESIDUE FAD A 449

(no "SS Bond" information available for 1D7Y)

Asymmetric Unit

No.	Residues
1	Ala A:8	-	Pro A:9

(no "SAP(SNP)/Variant" information available for 1D7Y)

(no "PROSITE Motif" information available for 1D7Y)

(no "Exon" information available for 1D7Y)

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:401
 aligned with Q52437_PSES1 | Q52437 from UniProtKB/TrEMBL  Length:408

    Alignment length:401
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404 
         Q52437_PSES1     5 ALKAPVVVLGAGLASVSFVAELRQAGYQGLITVVGDEAERPYDRPPLSKDFMAHGDAEKIRLDCKRAPEVEWLLGVTAQSFDPQAHTVALSDGRTLPYGTLVLATGAAPRALPTLQGATMPVHTLRTLEDARRIQAGLRPQSRLLIVGGGVIGLELAATARTAGVHVSLVETQPRLMSRAAPATLADFVARYHAAQGVDLRFERSVTGSVDGVVLLDDGTRIAADMVVVGIGVLANDALARAAGLACDDGIFVDAYGRTTCPDVYALGDVTRQRNPLSGRFERIETWSNAQNQGIAVARHLVDPTAPGYAELPWYWSDQGALRIQVAGLASGDEEIVRGEVSLDAPKFTLIELQKGRIVGATCVNNARDFAPLRRLLAVGAKPDRAALADPATDLRKLAAA 405
               SCOP domains d1d7ya1 A:5-115,A:237-308 NADH-dependent ferredoxin reductase, BphA4                                           d1d7ya2 A:116-236 NADH-dependent ferredoxin reductase, BphA4                                                             d1d7ya1 A:5-115,A:237-308 NADH-dependent ferredoxin reductase, BphA4    d1d7ya3 A:309-405 NADH-dependent ferredoxin reductase, BphA4                                      SCOP domains
               CATH domains 1d7yA02 A:5-110,A:239-317  [code=3.50.50.60, no name defined]                                             ---1d7yA01 A:114-236  [code=3.50.50.60, no name defined]                                                                      --1d7yA02 A:5-110,A:239-317  [code=3.50.50.60, no name defined]                  1d7yA03 A:318-405  [code=3.30.390.30, no name defined]                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee..hhhhhhhhhhhhhhh....eeeee........hhhhhhhhhhhhhhhhh..hhhhh...eeee...eeeee....eeee....eee..eeee...eee..hhhhh.....eee..hhhhhhhhhhhh....eeeee..hhhhhhhhhhhhhh..eeeeee..........hhhhhhhhhhhhhh...eeee...eeeee..eeee....eee..eeee...eee.hhhhhhh.......ee...........eee....eeee......eee..hhhhhhhhhhhhhhhhhh..........eeeeee..eeeeeee.....eeeeeee......eeeeeeee..eeeeeeee.hhhhhhhhhhhhhh....hhhhhhh..hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1d7y A   5 ALKAPVVVLGAGLASVSFVAELRQAGYQGLITVVGDEAERPYDRPPLSKDFMAHGDAEKIRLDCKRAPEVEWLLGVTAQSFDPQAHTVALSDGRTLPYGTLVLATGAAPRALPTLQGATMPVHTLRTLEDARRIQAGLRPQSRLLIVGGGVIGLELAATARTAGVHVSLVETQPRLMSRAAPATLADFVARYHAAQGVDLRFERSVTGSVDGVVLLDDGTRIAADMVVVGIGVLANDALARAAGLACDDGIFVDAYGRTTCPDVYALGDVTRQRNPLSGRFERIETWSNAQNQGIAVARHLVDPTAPGYAELPWYWSDQGALRIQVAGLASGDEEIVRGEVSLDAPKFTLIELQKGRIVGATCVNNARDFAPLRRLLAVGAKPDRAALADPATDLRKLAAA 405
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404

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(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Enolase-like; domain 1 (252)

Homologous Superfamily: [code=3.30.390.30, no name defined] (99)

Kks102 (Pseudomonas sp) (7)

1d7yA03

A:318-405

Architecture: 3-Layer(bba) Sandwich (528)

Topology: FAD/NAD(P)-binding domain (373)

Homologous Superfamily: [code=3.50.50.60, no name defined] (373)

Kks102 (Pseudomonas sp) (7)

2a	1d7yA02	A:5-110,A:239-317
2b	1d7yA01	A:114-236

(no "Pfam Domain" information available for 1D7Y)

Asymmetric Unit(hide GO term definitions)

Chain A (Q52437_PSES1 | Q52437)

molecular function
	GO:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	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:0045454	cell redox homeostasis	Any process that maintains the redox environment of a cell or compartment within a cell.
	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.
cellular component
	GO:0005623	cell	The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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		Ala A:8 - Pro A:9	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (1, 1)

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SS Bonds (0, 0)

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