1OPR - JenaLib

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Title :   THE CRYSTAL STRUCTURE OF THE OROTATE PHOSPHORIBOSYLTRANSFERASE COMPLEXED WITH OROTATE AND ALPHA-D-5-PHOSPHORIBOSYL-1-PYROPHOSPHATE

Authors :   G. Scapin, J. C. Sacchettini

Date :   06 Jan 95 (Deposition) - 06 Jan 96 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Scapin, D. H. Ozturk, C. Grubmeyer, J. C. Sacchettini
The Crystal Structure Of The Orotate Phosphoribosyltransferase Complexed With Orotate And Alpha-D-5-Phosphoribosyl-1-Pyrophosphate.
Biochemistry V. 34 10744 1995
PubMed-ID: 7545004 | Reference-DOI: 10.1021/BI00034A006
(for further references see the PDB file header)

Molecule 1 - OROTATE PHOSPHORIBOSYLTRANSFERASE
	Chains	:	A
	EC Number	:	2.4.2.10
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	SALMONELLA TYPHIMURIUM
	Organism Taxid	:	602
	Synonym	:	OPRTASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 3)

No.	Name	Count	Type	Full Name
1	MG	1	Ligand/Ion	MAGNESIUM ION
2	ORO	1	Ligand/Ion	OROTIC ACID
3	PRP	1	Ligand/Ion	ALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	ORO	2	Ligand/Ion	OROTIC ACID
3	PRP	2	Ligand/Ion	ALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PRP A:221 , HOH A:561	BINDING SITE FOR RESIDUE MG A 300
2	AC2	SOFTWARE	LEU A:25 , LYS A:26 , PHE A:34 , PHE A:35 , THR A:128 , ARG A:156 , HOH A:508 , HOH A:537 , HOH A:559	BINDING SITE FOR RESIDUE ORO A 220
3	AC3	SOFTWARE	LYS A:26 , ALA A:71 , TYR A:72 , LYS A:73 , ARG A:99 , LYS A:100 , ASP A:124 , ASP A:125 , VAL A:126 , ILE A:127 , THR A:128 , ALA A:129 , GLY A:130 , THR A:131 , ALA A:132 , MG A:300 , HOH A:555	BINDING SITE FOR RESIDUE PRP A 221

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

(no "Cis Peptide Bond" information available for 1OPR)

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

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PUR_PYR_PR_TRANSFER	PS00103	Purine/pyrimidine phosphoribosyl transferases signature.	PYRE_SALTY	120-132	1	A:120-132

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PUR_PYR_PR_TRANSFER	PS00103	Purine/pyrimidine phosphoribosyl transferases signature.	PYRE_SALTY	120-132	2	A:120-132

(no "Exon" information available for 1OPR)

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
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Chain A from PDB  Type:PROTEIN  Length:213
 aligned with PYRE_SALTY | P08870 from UniProtKB/Swiss-Prot  Length:213

    Alignment length:213
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210   
           PYRE_SALTY     1 MKPYQRQFIEFALNKQVLKFGEFTLKSGRKSPYFFNAGLFNTGRDLALLGRFYAEALVDSGIEFDLLFGPAYKGIPIATTTAVALAEHHDKDLPYCFNRKEAKDHGEGGSLVGSALQGRVMLVDDVITAGTAIRESMEIIQAHGATLAGVLISLDRQERGRGEISAIQEVERDYGCKVISIITLKDLIAYLEEKPDMAEHLAAVRAYREEFGV 213
               SCOP domains d1opra_ A: Orotate PRTase                                                                                                                                                                                             SCOP domains
               CATH domains 1oprA00 A:1-213  [code=3.40.50.2020, no name defined]                                                                                                                                                                 CATH domains
               Pfam domains ------------------------------------Pribosyltran-1oprA01 A:37-154                                                                                         ----------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhh......eeeeee..hhhhhhhhhhhhhhh..eeeeeeeee...................eeeeeee........hhhhhhhhh....eeeeee............hhhhhhhhh..eeeeee...hhhhhhhhh....hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------PUR_PYR_PR_TR--------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1opr A   1 MKPYQRQFIEFALNKQVLKFGEFTLKSGRKSPYFFNAGLFNTGRDLALLGRFYAEALVDSGIEFDLLFGPAYKGIPIATTTAVALAEHHDKDLPYCFNRKEAKDHGEGGSLVGSALQGRVMLVDDVITAGTAIRESMEIIQAHGATLAGVLISLDRQERGRGEISAIQEVERDYGCKVISIITLKDLIAYLEEKPDMAEHLAAVRAYREEFGV 213
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

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: PRTase-like (145)

Superfamily: PRTase-like (145)

Family: Phosphoribosyltransferases (PRTases) (100)

Protein domain: Orotate PRTase (5)

Salmonella typhimurium [TaxId: 90371] (3)

d1opra_

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=3.40.50.2020, no name defined] (117)

Salmonella typhimurium. Organism_taxid: 602. (2)

1oprA00

A:1-213

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PRTase-like (59)

Family: Pribosyltran (59)

Salmonella typhimurium (3)

Pribosyltran-1oprA01

A:37-154

Asymmetric Unit(hide GO term definitions)

Chain A (PYRE_SALTY | P08870)

molecular function
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0004588	orotate phosphoribosyltransferase activity	Catalysis of the reaction: orotidine 5'-phosphate + diphosphate = orotate + 5-phospho-alpha-D-ribose 1-diphosphate.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
	GO:0016757	transferase activity, transferring glycosyl groups	Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).
biological process
	GO:0044205	'de novo' UMP biosynthetic process	The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate, starting with the synthesis of (S)-dihydroorotate from bicarbonate; UMP biosynthesis may either occur via reduction by quinone, NAD(+) or oxygen.
	GO:0009116	nucleoside metabolic process	The chemical reactions and pathways involving a nucleoside, a nucleobase linked to either beta-D-ribofuranose (a ribonucleoside) or 2-deoxy-beta-D-ribofuranose, (a deoxyribonucleoside), e.g. adenosine, guanosine, inosine, cytidine, uridine and deoxyadenosine, deoxyguanosine, deoxycytidine and thymidine (= deoxythymidine).
	GO:0006221	pyrimidine nucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

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