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Asym./Biol. Unit (Jmol Viewer)

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Title :   STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXED WITH 2,4,6 TRINITROTOLUENE

Authors :   T. Barna, P. C. E. Moody

Date :   27 Feb 02 (Deposition) - 27 Feb 03 (Release) - 24 Apr 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.38

Chains :   Asym./Biol. Unit : A

Keywords :   Oxidoreductase, Flavoenzyme, Explosive Degradation, Steroid Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   H. Khan, R. Harris, T. Barna, D. Craig, N. Bruce, A. Munro, P. C. E. Moody, N. Scrutton
Kinetic And Structural Basis Of Reactivity Of Pentaerythritol Tetranitrate Reductase With Nadph, 2-Cyclohexenone Nitroesters And Nitroaromatic Explosives
J. Biol. Chem. V. 277 21906 2002
PubMed-ID: 11923299 | Reference-DOI: 10.1074/JBC.M200637200
(for further references see the PDB file header)

Molecule 1 - PENTAERYTHRITOL TETRANITRATE REDUCTASE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PONR1
	Expression System Strain	:	JM109
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ENTEROBACTER CLOACAE
	Organism Taxid	:	550
	Other Details	:	2,4,6 TRINITROTOLUENE IS BOUND IN THE ACTIVE SITE
	Other Details - Source	:	NCBI U68759. RECOMBINANT

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 2)

No.	Name	Count	Type	Full Name
1	FMN	1	Ligand/Ion	FLAVIN MONONUCLEOTIDE
2	TNL	1	Ligand/Ion	2,4,6-TRINITROTOLUENE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:23 , PRO A:24 , LEU A:25 , THR A:26 , ALA A:58 , GLN A:100 , HIS A:181 , HIS A:184 , ARG A:233 , ALA A:302 , PHE A:322 , GLY A:323 , ARG A:324 , TYR A:351 , TNL A:500 , HOH A:2288 , HOH A:2289 , HOH A:2290	BINDING SITE FOR RESIDUE FMN A 401
2	AC2	SOFTWARE	THR A:26 , ALA A:58 , TYR A:68 , TRP A:102 , HIS A:181 , HIS A:184 , TYR A:186 , TYR A:351 , FMN A:401 , HOH A:2291	BINDING SITE FOR RESIDUE TNL A 500

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

Asymmetric/Biological Unit

No.	Residues
1	Glu A:32	-	Pro A:33

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

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

(no "Exon" information available for 1GVR)

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:364
 aligned with P71278_ENTCL | P71278 from UniProtKB/TrEMBL  Length:365

    Alignment length:364
                                    11        21        31        41        51        61        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       351       361    
         P71278_ENTCL     2 SAEKLFTPLKVGAVTAPNRVFMAPLTRLRSIEPGDIPTPLMGEYYRQRASAGLIISEATQISAQAKGYAGAPGLHSPEQIAAWKKITAGVHAEDGRIAVQLWHTGRISHSSIQPGGQAPVSASALNANTRTSLRDENGNAIRVDTTTPRALELDEIPGIVNDFRQAVANAREAGFDLVELHSAHGYLLHQFLSPSSNQRTDQYGGSVENRARLVLEVVDAVCNEWSADRIGIRVSPIGTFQNVDNGPNEEADALYLIEELAKRGIAYLHMSETDLAGGKPYSEAFRQKVRERFHGVIIGAGAYTAEKAEDLIGKGLIDAVAFGRDYIANPDLVARLQKKAELNPQRPESFYGGGAEGYTDYPSL 365
               SCOP domains d1gvra_ A: Pentaerythritol tetranirate reductase                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1gvrA00 A:1-364 Aldolase class I                                                                                                                                                                                                                                                                                                                                             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh.eee..eee...eee...............hhhhhhhhhhh....eeeeeeee...............hhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhh..ee........eeeee.....eeeee....ee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhh.eeeee....ee..ee...hhhhhhhhhhhhhhhh...eeeee..........hhhhhhhhhh....eeeee...hhhhhhhhhhh....eeeehhhhhhh.hhhhhhhhh......hhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gvr A   1 SAEKLFTPLKVGAVTAPNRVFMAPLTRLRSIEPGDIPTPLMGEYYRQRASAGLIISEATQISAQAKGYAGAPGLHSPEQIAAWKKITAGVHAEDGRIAVQLWHTGRISHSSIQPGGQAPVSASALNANTRTSLRDENGNAIRVDTTTPRALELDEIPGIVNDFRQAVANAREAGFDLVELHSAHGYLLHQFLSPSSNQRTDQYGGSVENRARLVLEVVDAVCNEWSADRIGIRVSPIGTFQNVDNGPNEEADALYLIEELAKRGIAYLHMSETDLAGGKPYSEAFRQKVRERFHGVIIGAGAYTAEKAEDLIGKGLIDAVAFGRDYIANPDLVARLQKKAELNPQRPESFYGGGAEGYTDYPSL 364
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360

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) (23833)

Fold: TIM beta/alpha-barrel (3956)

Superfamily: FMN-linked oxidoreductases (290)

Family: FMN-linked oxidoreductases (242)

Protein domain: Pentaerythritol tetranirate reductase (27)

Enterobacter cloacae [TaxId: 550] (27)

d1gvra_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Aldolase class I (887)

Enterobacter cloacae. Organism_taxid: 550. (7)

1gvrA00

A:1-364

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (P71278_ENTCL | P71278)

molecular function
	GO:0010181	FMN binding	Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	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: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/Biological Unit
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	Cis Peptide Bonds
		Glu A:32 - Pro A:33	[ RasMol ]

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1gvo	STUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXED WITH 2,4 DINITROPHENOL
1gvq	STUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXED WITH 2-CYCLOHEXENONE
1h50	STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXES
1h51	OXIDISED PENTAERYTHRITOL TETRANITRATE REDUCTASE (SCN COMPLEX)
1h60	STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE IN COMPLEX WITH PROGESTERONE
1h61	STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE IN COMPLEX WITH PREDNISONE
1h62	STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE IN COMPLEX WITH 1,4-ANDROSTADIEN- 3,17-DIONE
1h63	STRUCTURE OF THE REDUCED PENTAERYTHRITOL TETRANITRATE REDUCTASE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

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