1TCV - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE PURINE NUCLEOSIDE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN COMPLEX WITH NON-DETERGENT SULFOBETAINE 195 AND ACETATE

Authors :   H. D. Pereira, G. R. Franco, A. Cleasby, R. C. Garratt

Date :   21 May 04 (Deposition) - 24 May 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

Chains :   Asym./Biol. Unit : A,B,C

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

Reference :   H. D. Pereira, G. R. Franco, A. Cleasby, R. C. Garratt
Structures For The Potential Drug Target Purine Nucleoside Phosphorylase From Schistosoma Mansoni Causal Agent Of Schistosomiasis.
J. Mol. Biol. V. 353 584 2005
PubMed-ID: 16182308 | Reference-DOI: 10.1016/J.JMB.2005.08.045
(for further references see the PDB file header)

Molecule 1 - PURINE-NUCLEOSIDE PHOSPHORYLASE
	Chains	:	A, B, C
	EC Number	:	2.4.2.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMAL C2G
	Expression System Strain	:	DH5ALPHA
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	SMPNP
	Organism Scientific	:	SCHISTOSOMA MANSONI
	Organism Taxid	:	6183

		1	2	3
Asymmetric/Biological Unit	:	A	B	C

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 6)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION
2	NDS	3	Ligand/Ion	ETHYL DIMETHYL AMMONIO PROPANE SULFONATE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ALA A:119 , GLY A:120 , TYR A:202 , GLU A:203 , VAL A:219 , GLY A:220 , MET A:221 , ASN A:245 , NDS A:951	BINDING SITE FOR RESIDUE ACT A 900
2	AC2	SOFTWARE	ALA B:119 , GLY B:120 , TYR B:202 , GLU B:203 , VAL B:219 , GLY B:220 , ASN B:245 , NDS B:952	BINDING SITE FOR RESIDUE ACT B 901
3	AC3	SOFTWARE	ALA C:119 , GLY C:120 , TYR C:202 , GLU C:203 , VAL C:219 , ASN C:245 , NDS C:953	BINDING SITE FOR RESIDUE ACT C 902
4	AC4	SOFTWARE	GLY A:34 , SER A:35 , ARG A:86 , HIS A:88 , ASN A:117 , ALA A:118 , TYR A:202 , SER A:222 , ACT A:900 , HOH A:1016 , PHE B:161	BINDING SITE FOR RESIDUE NDS A 951
5	AC5	SOFTWARE	SER B:35 , ARG B:86 , HIS B:88 , TYR B:90 , ASN B:117 , ALA B:118 , TYR B:202 , MET B:221 , SER B:222 , VAL B:262 , ACT B:901 , HOH B:966 , PHE C:161	BINDING SITE FOR RESIDUE NDS B 952
6	AC6	SOFTWARE	PHE A:161 , ARG C:86 , HIS C:88 , TYR C:90 , ALA C:118 , TYR C:202 , MET C:221 , SER C:222 , THR C:244 , VAL C:262 , ACT C:902 , HOH C:987 , HOH C:1031 , HOH C:1050	BINDING SITE FOR RESIDUE NDS C 953

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

Asymmetric/Biological Unit

No.	Residues
1	Gly A:199	-	Pro A:200
2	Gly B:199	-	Pro B:200
3	Gly C:199	-	Pro C:200

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

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

(no "Exon" information available for 1TCV)

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:271
 aligned with Q9BMI9_SCHMA | Q9BMI9 from UniProtKB/TrEMBL  Length:287

    Alignment length:285
                                    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       262       272       282     
         Q9BMI9_SCHMA     3 ESVTANIENVKKVAHHIQKLTSIVPEIGIICGSGLGKLADGVKDKITIPYTKIPNFPQTSVVGHSGNLIFGTLSGRKVVVMQGRFHMYEGYSNDTVALPIRVMKLLGVKILMVSNAAGGLNRSLKLGDFVILKDHIYLPGLGLNNILVGPNQEAFGTRFPALSNAYDRDLRKLAVQVAEENGFGNLVHQGVYVMNGGPCYETPAECTMLLNMGCDVVGMSTIPEVVIARHCGIQVFAVSLVTNISVLDVESDLKPNHEEVLATGAQRAELMQSWFEKIIEKLPKD 287
               SCOP domains d1tcva_ A: automated matches                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains 1tcvA00 A:3-287  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh.....eeee....hhhhhh..eeeeeee.hhh.......---...eeeeeee..eeeeeee...hhhhh.hhhhhhhhhhhhhhhh..eeeeeeeeee.........eeeeeeeeehhhhh........................hhhhhhhhhhhhhhh.hhh.eeeeeeee.......hhhhhhhhhhh...eee..hhhhhhhhhhh..eeeeeeeeeee........-----------hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tcv A   3 ESVTANIENVKKVAHHIQKLTSIVPEIGIICGSGLGKLADGVKDKITIPYTKIPNFPQTS---HSGNLIFGTLSGRKVVVMQGRFHMYEGYSNDTVALPIRVMKLLGVKILMVSNAAGGLNRSLKLGDFVILKDHIYLPGLGLNNILVGPNQEAFGTRFPALSNAYDRDLRKLAVQVAEENGFGNLVHQGVYVMNGGPCYETPAECTMLLNMGCDVVGMSTIPEVVIARHCGIQVFAVSLVTNISVLDVESD-----------GAQRAELMQSWFEKIIEKLPKD 287
                                    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 |       -   |   272       282     
                                                                                      62  66                                                                                                                                                                                         254         266

Chain B from PDB  Type:PROTEIN  Length:274
 aligned with Q9BMI9_SCHMA | Q9BMI9 from UniProtKB/TrEMBL  Length:287

    Alignment length:284
                                    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       263       273       283    
         Q9BMI9_SCHMA     4 SVTANIENVKKVAHHIQKLTSIVPEIGIICGSGLGKLADGVKDKITIPYTKIPNFPQTSVVGHSGNLIFGTLSGRKVVVMQGRFHMYEGYSNDTVALPIRVMKLLGVKILMVSNAAGGLNRSLKLGDFVILKDHIYLPGLGLNNILVGPNQEAFGTRFPALSNAYDRDLRKLAVQVAEENGFGNLVHQGVYVMNGGPCYETPAECTMLLNMGCDVVGMSTIPEVVIARHCGIQVFAVSLVTNISVLDVESDLKPNHEEVLATGAQRAELMQSWFEKIIEKLPKD 287
               SCOP domains d1tcvb_ B: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1tcvB00 B:4-287  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh.....eeee......hhhhhheeeeeee.hhh.......----..eeeeeee..eeeeeee...hhhhh.hhhhhhhhhhhhhhhh..eeeeeeeeee.........eeeeeeeeehhhhh........................hhhhhhhhhhhhhhh.hhh.eeeeeeee.......hhhhhhhhhhh...eee..hhhhhhhhhhh..eeeeeeeeeee.......------hhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tcv B   4 SVTANIENVKKVAHHIQKLTSIVPEIGIICGSGLGKLADGVKDKITIPYTKIPNFPQTS----SGNLIFGTLSGRKVVVMQGRFHMYEGYSNDTVALPIRVMKLLGVKILMVSNAAGGLNRSLKLGDFVILKDHIYLPGLGLNNILVGPNQEAFGTRFPALSNAYDRDLRKLAVQVAEENGFGNLVHQGVYVMNGGPCYETPAECTMLLNMGCDVVGMSTIPEVVIARHCGIQVFAVSLVTNISVLDVES------EEVLATGAQRAELMQSWFEKIIEKLPKD 287
                                    13        23        33        43        53        |-   |    73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253      |263       273       283    
                                                                                     62   67                                                                                                                                                                                       253    260

Chain C from PDB  Type:PROTEIN  Length:280
 aligned with Q9BMI9_SCHMA | Q9BMI9 from UniProtKB/TrEMBL  Length:287

    Alignment length:284
                                    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       263       273       283    
         Q9BMI9_SCHMA     4 SVTANIENVKKVAHHIQKLTSIVPEIGIICGSGLGKLADGVKDKITIPYTKIPNFPQTSVVGHSGNLIFGTLSGRKVVVMQGRFHMYEGYSNDTVALPIRVMKLLGVKILMVSNAAGGLNRSLKLGDFVILKDHIYLPGLGLNNILVGPNQEAFGTRFPALSNAYDRDLRKLAVQVAEENGFGNLVHQGVYVMNGGPCYETPAECTMLLNMGCDVVGMSTIPEVVIARHCGIQVFAVSLVTNISVLDVESDLKPNHEEVLATGAQRAELMQSWFEKIIEKLPKD 287
               SCOP domains d1tcvc_ C: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1tcvC00 C:4-287  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh.....eeee......hhhhhheeeeeee.hhh......----...eeeeeee..eeeeeee...hhhhh.hhhhhhhhhhhhhhhh..eeeeeeeeee.........eeeeeeeeehhhhh........................hhhhhhhhhhhhhhh.hhh.eeeeeeee.......hhhhhhhhhhh...eee..hhhhhhhhhhh..eeeeeeeeeee...........hhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1tcv C   4 SVTANIENVKKVAHHIQKLTSIVPEIGIICGSGLGKLADGVKDKITIPYTKIPNFPQT----HSGNLIFGTLSGRKVVVMQGRFHMYEGYSNDTVALPIRVMKLLGVKILMVSNAAGGLNRSLKLGDFVILKDHIYLPGLGLNNILVGPNQEAFGTRFPALSNAYDRDLRKLAVQVAEENGFGNLVHQGVYVMNGGPCYETPAECTMLLNMGCDVVGMSTIPEVVIARHCGIQVFAVSLVTNISVLDVESDLKPNHEEVLATGAQRAELMQSWFEKIIEKLPKD 287
                                    13        23        33        43        53       | -  |     73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283    
                                                                                    61   66

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: automated matches (59)

Protein domain: automated matches (59)

Blood fluke (Schistosoma mansoni) [TaxId: 6183] (12)

1a	d1tcva_	A:
1b	d1tcvb_	B:
1c	d1tcvc_	C:

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)

Schistosoma mansoni. Organism_taxid: 6183. (5)

1a	1tcvA00	A:3-287
1b	1tcvB00	B:4-287
1c	1tcvC00	C:4-287

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C (Q9BMI9_SCHMA | Q9BMI9)

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:0004731	purine-nucleoside phosphorylase activity	Catalysis of the reaction: purine nucleoside + phosphate = purine + alpha-D-ribose 1-phosphate.
	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:0006139	nucleobase-containing compound metabolic process	Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
	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).

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Gly A:199 - Pro A:200	[ RasMol ]
		Gly B:199 - Pro B:200	[ RasMol ]
		Gly C:199 - Pro C:200	[ RasMol ]

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	1tcv
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	2.4.2.1
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	Q9BMI9_SCHMA \| Q9BMI9	:	1tcu 1td1 3djf 3e0q 3e9r 3e9z 3f8w 3faz 3fb1 3fnq 3iex

1tcu	CRYSTAL STRUCTURE OF THE PURINE NUCLEOSIDE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN COMPLEX WITH PHOSPHATE AND ACETATE
1td1	CRYSTAL STRUCTURE OF THE PURINE NUCLEOSIDE PHOSPHORYLASE FROM SCHISTOSOMA MANSONI IN COMPLEX WITH ACETATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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