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Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF THE URIDINE PHOSPHORYLASE FROM SALMONELLA TYPHIMURIUM IN COMPLEX WITH URACIL AND SULFATE ION AT 2.55A RESOLUTION

Authors :   A. G. Gabdoulkhakov, M. V. Dontsova, G. S. Kachalova, C. Betzel, S. E. Ealick, A. M. Mikhailov

Date :   19 Nov 04 (Deposition) - 22 Nov 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.55

Chains :   Asym./Biol. Unit : A,B,C,D,E,F

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

Reference :   A. G. Gabdoulkhakov, M. V. Dontsova, G. S. Kachalova, C. Betzel, S. E. Ealick, A. M. Mikhailov
Crystal Structures Of Salmonella Typhimurium Uridine Phosphorylase In Native And Three Complexes Forms - With Uridine, Uracil And Sulfate.
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - URIDINE PHOSPHORYLASE
	Chains	:	A, C, D, F, E, B
	EC Number	:	2.4.2.3
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PBLUESCRIPT IISK
	Expression System Strain	:	BL21 DE3
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	UDP
	Organism Scientific	:	SALMONELLA TYPHIMURIUM LT2
	Organism Taxid	:	99287
	Strain	:	LT2
	Synonym	:	URDPASE, UPASE

		1	2	3	4	5	6
Asymmetric/Biological Unit	:	A	B	C	D	E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 11)

No.	Name	Count	Type	Full Name
1	SO4	6	Ligand/Ion	SULFATE ION
2	URA	5	Ligand/Ion	URACIL

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLY A:1026 , ARG A:1030 , ARG A:1091 , GLY A:1093 , THR A:1094 , GLU A:1198 , HOH A:9050 , ARG F:4048	BINDING SITE FOR RESIDUE SO4 A 7001
02	AC2	SOFTWARE	GLY C:2026 , ARG C:2091 , GLY C:2093 , THR C:2094 , HOH C:9201	BINDING SITE FOR RESIDUE SO4 C 7002
03	AC3	SOFTWARE	ARG B:6048 , GLY D:3026 , ARG D:3030 , ARG D:3091 , ILE D:3092 , GLY D:3093 , THR D:3094 , HOH D:9139	BINDING SITE FOR RESIDUE SO4 D 7003
04	AC4	SOFTWARE	ARG A:1048 , GLY F:4026 , ARG F:4091 , ILE F:4092 , GLY F:4093 , THR F:4094 , HOH F:9136	BINDING SITE FOR RESIDUE SO4 F 7004
05	AC5	SOFTWARE	ARG C:2048 , GLY E:5026 , ARG E:5030 , ARG E:5091 , THR E:5094	BINDING SITE FOR RESIDUE SO4 E 7005
06	AC6	SOFTWARE	GLY B:6026 , ARG B:6091 , GLY B:6093 , THR B:6094 , ARG D:3048	BINDING SITE FOR RESIDUE SO4 B 7006
07	AC7	SOFTWARE	THR A:1095 , GLY A:1096 , GLN A:1166 , ARG A:1168 , TYR A:1195 , GLU A:1196 , MET A:1197 , ILE A:1220	BINDING SITE FOR RESIDUE URA A 8001
08	AC8	SOFTWARE	THR D:3095 , GLY D:3096 , PHE D:3162 , GLN D:3166 , ARG D:3168 , GLU D:3196 , MET D:3197 , VAL D:3221	BINDING SITE FOR RESIDUE URA D 8003
09	AC9	SOFTWARE	THR F:4094 , THR F:4095 , GLN F:4166 , ARG F:4168 , TYR F:4195 , GLU F:4196 , MET F:4197	BINDING SITE FOR RESIDUE URA F 8004
10	BC1	SOFTWARE	GLY E:5096 , GLN E:5166 , ARG E:5168 , GLU E:5196 , VAL E:5221	BINDING SITE FOR RESIDUE URA E 8005
11	BC2	SOFTWARE	GLY B:6096 , GLN B:6166 , ARG B:6168 , GLU B:6196 , MET B:6197 , VAL B:6221 , HOH B:9005	BINDING SITE FOR RESIDUE URA B 8006

(no "SS Bond" information available for 1Y1S)

(no "Cis Peptide Bond" information available for 1Y1S)

(no "SAP(SNP)/Variant" information available for 1Y1S)

Asymmetric/Biological Unit (1, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PNP_UDP_1	PS01232	Purine and other phosphorylases family 1 signature.	UDP_SALTY	66-81	6	A:1066-1081 B:6066-6081 C:2066-2081 D:3066-3081 E:5066-5081 F:4066-4081

(no "Exon" information available for 1Y1S)

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:250
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253
           UDP_SALTY      4 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1sa_ A: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1sA00 A:1004-1253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh...eee.....hhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhhh..eeeeeeeeee.........eeeeeeeeee..hhhhh......ee.hhhhhhhhhhhhhhhh..eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee............hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1s A 1004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL 1253
                                  1013      1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143      1153      1163      1173      1183      1193      1203      1213      1223      1233      1243      1253

Chain B from PDB  Type:PROTEIN  Length:250
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253
           UDP_SALTY      4 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1sb_ B: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1sB00 B:6004-6253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh...eeeee.hhhhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhhh..eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhh....eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee...............hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1s B 6004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL 6253
                                  6013      6023      6033      6043      6053      6063      6073      6083      6093      6103      6113      6123      6133      6143      6153      6163      6173      6183      6193      6203      6213      6223      6233      6243      6253

Chain C from PDB  Type:PROTEIN  Length:250
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253
           UDP_SALTY      4 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1sc_ C: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1sC00 C:2004-2253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhh...eee...hhhhhhhhhhh.eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeeee..hhhhh......ee.hhhhhhhhhhhhhhh...eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee..........hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1s C 2004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL 2253
                                  2013      2023      2033      2043      2053      2063      2073      2083      2093      2103      2113      2123      2133      2143      2153      2163      2173      2183      2193      2203      2213      2223      2233      2243      2253

Chain D from PDB  Type:PROTEIN  Length:250
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253
           UDP_SALTY      4 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1sd_ D: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1sD00 D:3004-3253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh...eeeee...hhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhh...eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1s D 3004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL 3253
                                  3013      3023      3033      3043      3053      3063      3073      3083      3093      3103      3113      3123      3133      3143      3153      3163      3173      3183      3193      3203      3213      3223      3233      3243      3253

Chain E from PDB  Type:PROTEIN  Length:250
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253
           UDP_SALTY      4 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1se_ E: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1sE00 E:5004-5253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh...eee.....hhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhh...eeeeeeeee...hhhhh.........hhhhh.hhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1s E 5004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL 5253
                                  5013      5023      5033      5043      5053      5063      5073      5083      5093      5103      5113      5123      5133      5143      5153      5163      5173      5183      5193      5203      5213      5223      5233      5243      5253

Chain F from PDB  Type:PROTEIN  Length:250
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253
           UDP_SALTY      4 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1sf_ F: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1sF00 F:4004-4253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
           Pfam domains (1) ----------------PNP_UDP_1-1y1sF01 F:4020-4253                                                                                                                                                                                                              Pfam domains (1)
           Pfam domains (2) ----------------PNP_UDP_1-1y1sF02 F:4020-4253                                                                                                                                                                                                              Pfam domains (2)
           Pfam domains (3) ----------------PNP_UDP_1-1y1sF03 F:4020-4253                                                                                                                                                                                                              Pfam domains (3)
           Pfam domains (4) ----------------PNP_UDP_1-1y1sF04 F:4020-4253                                                                                                                                                                                                              Pfam domains (4)
           Pfam domains (5) ----------------PNP_UDP_1-1y1sF05 F:4020-4253                                                                                                                                                                                                              Pfam domains (5)
           Pfam domains (6) ----------------PNP_UDP_1-1y1sF06 F:4020-4253                                                                                                                                                                                                              Pfam domains (6)
         Sec.struct. author ........hhhhhh...eee.....hhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhhh..eeeeeeeee...hhhhh.........hhhhh.hhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee..........hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1s F 4004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL 4253
                                  4013      4023      4033      4043      4053      4063      4073      4083      4093      4103      4113      4123      4133      4143      4153      4163      4173      4183      4193      4203      4213      4223      4233      4243      4253

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: Phosphorylase/hydrolase-like (558)

Superfamily: Purine and uridine phosphorylases (283)

Family: Purine and uridine phosphorylases (224)

Protein domain: Uridine phosphorylase (42)

Salmonella typhimurium [TaxId: 90371] (23)

1a	d1y1sa_	A:
1b	d1y1sb_	B:
1c	d1y1sc_	C:
1d	d1y1sd_	D:
1e	d1y1se_	E:
1f	d1y1sf_	F:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.1580, no name defined] (194)

Salmonella typhimurium lt2. Organism_taxid: 99287. Strain: lt2. (16)

1a	1y1sA00	A:1004-1253
1b	1y1sB00	B:6004-6253
1c	1y1sC00	C:2004-2253
1d	1y1sD00	D:3004-3253
1e	1y1sE00	E:5004-5253
1f	1y1sF00	F:4004-4253

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PUP (121)

Family: PNP_UDP_1 (121)

Salmonella typhimurium (11)

1a	PNP_UDP_1-1y1sF01	F:4020-4253
1b	PNP_UDP_1-1y1sF02	F:4020-4253
1c	PNP_UDP_1-1y1sF03	F:4020-4253
1d	PNP_UDP_1-1y1sF04	F:4020-4253
1e	PNP_UDP_1-1y1sF05	F:4020-4253
1f	PNP_UDP_1-1y1sF06	F:4020-4253

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D,E,F (UDP_SALTY | P0A1F6)

molecular function
	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: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).
	GO:0016763	transferase activity, transferring pentosyl groups	Catalysis of the transfer of a pentosyl group from one compound (donor) to another (acceptor).
	GO:0004850	uridine phosphorylase activity	Catalysis of the reaction: uridine + phosphate = uracil + alpha-D-ribose 1-phosphate.
biological process
	GO:0044206	UMP salvage	Any process which produces UMP, uridine monophosphate, from derivatives of it (e.g. cytidine, uridine, cytosine) without de novo synthesis.
	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:0009166	nucleotide catabolic process	The chemical reactions and pathways resulting in the breakdown of nucleotides, any nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic-nucleotides (nucleoside cyclic phosphates).
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1y1s)

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	1y1s
		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
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	UDP_SALTY \| P0A1F6
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		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

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	2.4.2.3
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

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		Disease Information	:	OMIM

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		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
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		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

1ryz	URIDINE PHOSPHORYLASE FROM SALMONELLA TYPHIMURIUM CRYSTAL STRUCTURE AT 2.9A RESOLUTION
1sj9	CRYSTAL STRUCTURE OF THE URIDINE PHOSPHORYLASE FROM SALMONELLA TYPHIMURIUM AT 2.5A RESOLUTION
1y1q
1y1r
1y1t

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 11)

Sites (11, 11)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 6)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 6)

CATH Domains (1, 6)

Pfam Domains (1, 6)

Gene Ontology (9, 9)

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Databases

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File