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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 INHIBITOR AND PHOSPHATE ION AT 2.11A RESOLUTION

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

Date :   19 Nov 04 (Deposition) - 22 Nov 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.11

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

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

Reference :   M. V. Dontsova, A. G. Gabdoulkhakov, G. S. Kachalova, C. Betzel, S. E. Ealick, A. M. Mikhailov
Crystal Structures Of Salmonella Typhimurium Uridine Phosphorylase In Complex With Inhibitor And Phosphate.
To Be Published
PubMed: search

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
	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, 5)

No.	Name	Count	Type	Full Name
1	ANU	2	Ligand/Ion	2,2'-ANHYDROURIDINE
2	PO4	3	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG B:6048 , ANU D:706 , GLY D:3026 , ARG D:3091 , ILE D:3092 , GLY D:3093 , THR D:3094	BINDING SITE FOR RESIDUE PO4 D 703
2	AC2	SOFTWARE	ARG A:1048 , GLY F:4026 , ARG F:4030 , ARG F:4091 , ILE F:4092 , GLY F:4093 , THR F:4094	BINDING SITE FOR RESIDUE PO4 F 704
3	AC3	SOFTWARE	ANU B:707 , GLY B:6026 , ARG B:6030 , ARG B:6091 , ILE B:6092 , GLY B:6093 , THR B:6094 , ARG D:3048	BINDING SITE FOR RESIDUE PO4 B 705
4	AC4	SOFTWARE	HIS B:6008 , HOH D:209 , PO4 D:703 , ARG D:3091 , THR D:3094 , PHE D:3162 , GLN D:3166 , ARG D:3168 , TYR D:3195 , GLU D:3196 , MET D:3197 , GLU D:3198	BINDING SITE FOR RESIDUE ANU D 706
5	AC5	SOFTWARE	HOH B:65 , PO4 B:705 , ILE B:6069 , THR B:6094 , THR B:6095 , GLY B:6096 , PHE B:6162 , GLN B:6166 , ARG B:6168 , GLU B:6196 , MET B:6197 , GLU B:6198 , ILE B:6220 , HIS D:3008 , ARG D:3048	BINDING SITE FOR RESIDUE ANU B 707

(no "SS Bond" information available for 1Y1R)

(no "Cis Peptide Bond" information available for 1Y1R)

(no "SAP(SNP)/Variant" information available for 1Y1R)

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 1Y1R)

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:251
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:251
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252 
           UDP_SALTY      3 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1ra_ A: Uridine phosphorylase                                                                                                                                                                                                                            SCOP domains
               CATH domains 1y1rA00 A:1003-1253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhh...eee......hhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhhh..eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1r A 1003 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL 1253
                                  1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252

Chain B from PDB  Type:PROTEIN  Length:242
 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 d1y1rb_ B: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1rB00 B:6004-6253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh...eeeee....hhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhhh..eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee........--------hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1r B 6004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPN--------SHAVKIVVEAARRLL 6253
                                  6013      6023      6033      6043      6053      6063      6073      6083      6093      6103      6113      6123      6133      6143      6153      6163      6173      6183      6193      6203      6213      6223      |  -     |6243      6253
                                                                                                                                                                                                                                                           6230     6239

Chain C from PDB  Type:PROTEIN  Length:243
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:251
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252 
           UDP_SALTY      3 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1rc_ C: Uridine phosphorylase                                                                                                                                                                                                                            SCOP domains
               CATH domains 1y1rC00 C:2003-2253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhh...eee...hhhhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeee...........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhh...eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh....ee.hhhhhhhhhhh...eeeeeeee......--------hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1r C 2003 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQ--------MKQTESHAVKIVVEAARRLL 2253
                                  2012      2022      2032      2042      2052      2062      2072      2082      2092      2102      2112      2122      2132      2142      2152      2162      2172      2182      2192      2202      2212      2222  |      - |    2242      2252 
                                                                                                                                                                                                                                                       2225     2234

Chain D from PDB  Type:PROTEIN  Length:241
 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 d1y1rd_ D: Uridine phosphorylase                                                                                                                                                                                                                           SCOP domains
               CATH domains 1y1rD00 D:3004-3253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh...eee...hhhhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhhh..eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhh...eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee..---------hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1r D 3004 SDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRT---------MKQTESHAVKIVVEAARRLL 3253
                                  3013      3023      3033      3043      3053      3063      3073      3083      3093      3103      3113      3123      3133      3143      3153      3163      3173      3183      3193      3203      3213      3223|        -|     3243      3253
                                                                                                                                                                                                                                                     3224      3234

Chain E from PDB  Type:PROTEIN  Length:241
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:251
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252 
           UDP_SALTY      3 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1re_ E: Uridine phosphorylase                                                                                                                                                                                                                            SCOP domains
               CATH domains 1y1rE00 E:5003-5253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhh...eee...hhhhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhhh..eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhh...eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee...----------hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1r E 5003 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQ----------QTESHAVKIVVEAARRLL 5253
                                  5012      5022      5032      5042      5052      5062      5072      5082      5092      5102      5112      5122      5132      5142      5152      5162      5172      5182      5192      5202      5212      5222  |      -   |  5242      5252 
                                                                                                                                                                                                                                                       5225       5236

Chain F from PDB  Type:PROTEIN  Length:240
 aligned with UDP_SALTY | P0A1F6 from UniProtKB/Swiss-Prot  Length:253

    Alignment length:251
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252 
           UDP_SALTY      3 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQEIPNAETMKQTESHAVKIVVEAARRLL  253
               SCOP domains d1y1rf_ F: Uridine phosphorylase                                                                                                                                                                                                                            SCOP domains
               CATH domains 1y1rF00 F:4003-4253  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                   CATH domains
           Pfam domains (1) -----------------PNP_UDP_1-1y1rF01 F:4020-4253                                                                                                                                                                                                              Pfam domains (1)
           Pfam domains (2) -----------------PNP_UDP_1-1y1rF02 F:4020-4253                                                                                                                                                                                                              Pfam domains (2)
           Pfam domains (3) -----------------PNP_UDP_1-1y1rF03 F:4020-4253                                                                                                                                                                                                              Pfam domains (3)
           Pfam domains (4) -----------------PNP_UDP_1-1y1rF04 F:4020-4253                                                                                                                                                                                                              Pfam domains (4)
           Pfam domains (5) -----------------PNP_UDP_1-1y1rF05 F:4020-4253                                                                                                                                                                                                              Pfam domains (5)
           Pfam domains (6) -----------------PNP_UDP_1-1y1rF06 F:4020-4253                                                                                                                                                                                                              Pfam domains (6)
         Sec.struct. author .........hhhhhh...eeeee.hhhhhhhhhh..eeeeeeeee..eeeeeeee..eeeeee....hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeeee.hhhhhh......ee.hhhhhhhhhhhhhhhh..eeeeeeeee...hhhhh.........hhhhhhhhhhhhhh...eee.hhhhhhhhhhh...eeeeeeeeeee.....-----------hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------PNP_UDP_1       ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1y1r F 4003 KSDVFHLGLTKNDLQGAQLAIVPGDPERVEKIAALMDKPVKLASHREFTSWRAELDGKAVIVCSTGIGGPSTSIAVEELAQLGIRTFLRIGTTGAIQPHINVGDVLVTTASVRLDGASLHFAPMEFPAVADFACTTALVEAAKSIGATTHVGVTASSDTFYPGQERYDTYSGRVVRRFKGSMEEWQAMGVMNYEMESATLLTMCASQGLRAGMVAGVIVNRTQQE-----------SHAVKIVVEAARRLL 4253
                                  4012      4022      4032      4042      4052      4062      4072      4082      4092      4102      4112      4122      4132      4142      4152      4162      4172      4182      4192      4202      4212      4222    |    -      4242      4252 
                                                                                                                                                                                                                                                         4227        4239

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	d1y1ra_	A:
1b	d1y1rb_	B:
1c	d1y1rc_	C:
1d	d1y1rd_	D:
1e	d1y1re_	E:
1f	d1y1rf_	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	1y1rA00	A:1003-1253
1b	1y1rC00	C:2003-2253
1c	1y1rB00	B:6004-6253
1d	1y1rD00	D:3004-3253
1e	1y1rE00	E:5003-5253
1f	1y1rF00	F:4003-4253

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PUP (121)

Family: PNP_UDP_1 (121)

Salmonella typhimurium (11)

1a	PNP_UDP_1-1y1rF01	F:4020-4253
1b	PNP_UDP_1-1y1rF02	F:4020-4253
1c	PNP_UDP_1-1y1rF03	F:4020-4253
1d	PNP_UDP_1-1y1rF04	F:4020-4253
1e	PNP_UDP_1-1y1rF05	F:4020-4253
1f	PNP_UDP_1-1y1rF06	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 1y1r)

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Access by PDB/NDB ID
	1y1r
		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)
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	2.4.2.3
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1ryz	URIDINE PHOSPHORYLASE FROM SALMONELLA TYPHIMURIUM CRYSTAL STRUCTURE AT 2.9 A RESOLUTION
1sj9	CRYSTAL STRUCTURE OF THE URIDINE PHOSPHORYLASE FROM SALMONELLA TYPHIMURIUM AT 2.5A RESOLUTION
1y1q
1y1s
1y1t

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 5)

Sites (5, 5)

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)

Visualization

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Still Images

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Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File