2BNN - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Title :   THE STRUCTURE OF HYDROXYPROPYLPHOSPHONIC ACID EPOXIDASE FROM S. WEDMORENIS IN COMPLEX WITH FOSFOMYCIN

Authors :   K. Mcluskey, S. Cameron, W. N. Hunter

Date :   29 Mar 05 (Deposition) - 05 Oct 05 (Release) - 28 Jun 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Oxidoreductase, Epoxidase, Cupin, Hth, Cation-Dependant, Zinc, Fosfomycin Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Mcluskey, S. Cameron, F. Hammerschmidt, W. N. Hunter
Structure And Reactivity Of Hydroxypropylphosphonic Acid Epoxidase In Fosfomycin Biosynthesis By A Cation- And Flavin-Dependent Mechanism.
Proc. Natl. Acad. Sci. Usa V. 102 14221 2005
PubMed-ID: 16186494 | Reference-DOI: 10.1073/PNAS.0504314102
(for further references see the PDB file header)

Molecule 1 - EPOXIDASE
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Organism Scientific	:	STREPTOMYCES WEDMORENSIS
	Organism Taxid	:	43759
	Synonym	:	HYDROXYPROPYLPHOSPHONIC ACID EPOXIDASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	FCN	2	Ligand/Ion	FOSFOMYCIN
2	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	FCN	4	Ligand/Ion	FOSFOMYCIN
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:138 , GLU A:142 , HIS A:180 , FCN A:1199	BINDING SITE FOR RESIDUE ZN A 1200
2	AC2	SOFTWARE	HIS B:138 , GLU B:142 , HIS B:180 , FCN B:1199	BINDING SITE FOR RESIDUE ZN B 1200
3	AC3	SOFTWARE	ARG A:97 , TYR A:105 , ASN A:135 , HIS A:138 , GLU A:142 , HIS A:180 , PHE A:182 , ALA A:195 , ZN A:1200 , HOH A:2123 , LYS B:23	BINDING SITE FOR RESIDUE FCN A 1199
4	AC4	SOFTWARE	LYS A:23 , TYR B:105 , ASN B:135 , HIS B:138 , GLU B:142 , HIS B:180 , ZN B:1200 , HOH B:2120	BINDING SITE FOR RESIDUE FCN B 1199

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

Asymmetric Unit

No.	Residues
1	Gly B:95	-	Val B:96

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_CROC1	PS50943	Cro/C1-type HTH domain profile.	HPPE_STRWE	15-70	2	A:15-70 B:15-70

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HTH_CROC1	PS50943	Cro/C1-type HTH domain profile.	HPPE_STRWE	15-70	4	A:15-70 B:15-70

(no "Exon" information available for 2BNN)

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:194
 aligned with HPPE_STRWE | Q56185 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:194
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194    
           HPPE_STRWE     5 KTASTGFAELLKDRREQVKMDHAALASLLGETPETVAAWENGEGGELTLTQLGRIAHVLGTSIGALTPPAGNDLDDGVIIQMPDERPILKGVRDNVDYYVYNCLVRTKRAPSLVPLVVDVLTDNPDDAKFNSGHAGNEFLFVLEGEIHMKWGDKENPKEALLPTGASMFVEEHVPHAFTAAKGTGSAKLIAVNF 198
               SCOP domains d2bnna1 A:5-76                                                          d2bnna2 A:77-198 Hydroxypropylphosphonic acid epoxidase Fom4, C-terminal domain                                            SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhh..hhhhhhhhh..hhhhhhhhh.......hhhhhhhhhhhh...hhhhh..............hhhhh.eeeee....eeeeeee..........eeeeeee...hhhhh........eeeeeeee.eeeeee......eeeeee...eeee.....eeeee......eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------HTH_CROC1  PDB: A:15-70 UniProt: 15-70                  -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bnn A   5 KTASTGFAELLKDRREQVKMDHAALASLLGETPETVAAWENGEGGELTLTQLGRIAHVLGTSIGALTPPAGNDLDDGVIIQMPDERPILKGVRDNVDYYVYNCLVRTKRAPSLVPLVVDVLTDNPDDAKFNSGHAGNEFLFVLEGEIHMKWGDKENPKEALLPTGASMFVEEHVPHAFTAAKGTGSAKLIAVNF 198
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194

Chain B from PDB  Type:PROTEIN  Length:189
 aligned with HPPE_STRWE | Q56185 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:194
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194    
           HPPE_STRWE     5 KTASTGFAELLKDRREQVKMDHAALASLLGETPETVAAWENGEGGELTLTQLGRIAHVLGTSIGALTPPAGNDLDDGVIIQMPDERPILKGVRDNVDYYVYNCLVRTKRAPSLVPLVVDVLTDNPDDAKFNSGHAGNEFLFVLEGEIHMKWGDKENPKEALLPTGASMFVEEHVPHAFTAAKGTGSAKLIAVNF 198
               SCOP domains d2bnnb1 B:5-76                                                          d2bnnb2 B:77-198 Hyd     roxypropylphosphonic acid epoxidase Fom4, C-terminal domain                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..hhhhhhhh...hhhhhhhhh.......hhhhhhhhhhhh..hhhhhh..............hhhhh.ee...-----.eeeee..........eeeeeee...hhhhh........eeeeeeee..eeeee......eeeee....eeee.....eeeee......eeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------HTH_CROC1  PDB: B:15-70 UniProt: 15-70                  -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bnn B   5 KTASTGFAELLKDRREQVKMDHAALASLLGETPETVAAWENGEGGELTLTQLGRIAHVLGTSIGALTPPAGNDLDDGVIIQMPDERPILKGV-----YYVYNCLVRTKRAPSLVPLVVDVLTDNPDDAKFNSGHAGNEFLFVLEGEIHMKWGDKENPKEALLPTGASMFVEEHVPHAFTAAKGTGSAKLIAVNF 198
                                    14        24        34        44        54        64        74        84        94 |     104       114       124       134       144       154       164       174       184       194    
                                                                                                                      96   102

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 "CATH Domain" information available for 2BNN)

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (HPPE_STRWE | Q56185)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0051213	dioxygenase activity	Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
	GO:0008198	ferrous iron binding	Interacting selectively and non-covalently with ferrous iron, Fe(II).
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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.
	GO:0016717	oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water	Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from each of two donors, and molecular oxygen is reduced to two molecules of water.
	GO:0043565	sequence-specific DNA binding	Interacting selectively and non-covalently with DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
biological process
	GO:0017000	antibiotic biosynthetic process	The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.
	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.
	GO:1901766	phosphinothricin biosynthetic process	The chemical reactions and pathways resulting in the formation of phosphinothricin.
	GO:0051289	protein homotetramerization	The formation of a protein homotetramer, a macromolecular structure consisting of four noncovalently associated identical subunits.

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		FCN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		ZN	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Gly B:95 - Val B:96	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2bnn
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	HPPE_STRWE \| Q56185
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	HPPE_STRWE \| Q56185
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	HPPE_STRWE \| Q56185	:	1zz6 1zz7 1zz8 1zz9 1zzb 1zzc 2bnm 2bno 3scf 3scg 3sch 4j1w 4j1x

1zz6	CRYSTAL STRUCTURE OF APO-HPPE
1zz7	CRYSTAL STRUCTURE OF FEII HPPE IN COMPLEX WITH SUBSTRATEFORM 1
1zz8	CRYSTAL STRUCTURE OF FEII HPPE IN COMPLEX WITH SUBSTRATEFORM 2
1zz9	CRYSTAL STRUCTURE OF FEII HPPE
1zzb	CRYSTAL STRUCTURE OF COII HPPE IN COMPLEX WITH SUBSTRATE
1zzc	CRYSTAL STRUCTURE OF COII HPPE IN COMPLEX WITH TRIS BUFFER
2bnm	THE STRUCTURE OF HYDROXYPROPYLPHOSPHONIC ACID EPOXIDASE FROM S. WEDMORENIS.
2bno	THE STRUCTURE OF HYDROXYPROPYLPHOSPHONIC ACID EPOXIDASE FROM S. WEDMORENIS.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 4)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (11, 11)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File