1C3X - JenaLib

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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   PURINE NUCLEOSIDE PHOSPHORYLASE FROM CELLULOMONAS SP. IN COMPLEX WITH 8-IODO-GUANINE

Authors :   J. Tebbe, A. Bzowska, B. Wielgus-Kutrowska, W. Schroeder, Z. Kazimier D. Shugar, W. Saenger, G. Koellner

Date :   29 Jul 99 (Deposition) - 22 Dec 99 (Release) - 01 Feb 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

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

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

Reference :   J. Tebbe, A. Bzowska, B. Wielgus-Kutrowska, W. Schroder, Z. Kazimierczuk, D. Shugar, W. Saenger, G. Koellner
Crystal Structure Of The Purine Nucleoside Phosphorylase (Pnp) From Cellulomonas Sp. And Its Implication For The Mechanism Of Trimeric Pnps.
J. Mol. Biol. V. 294 1239 1999
PubMed-ID: 10600382 | Reference-DOI: 10.1006/JMBI.1999.3327

Molecule 1 - PENTOSYLTRANSFERASE
	Chains	:	A, B, C
	Organism Scientific	:	CELLULOMONAS SP.
	Organism Taxid	:	40001

		1	2	3
Asymmetric/Biological Unit	:	A	B	C

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 7)

No.	Name	Count	Type	Full Name
1	8IG	3	Ligand/Ion	8-IODO-GUANINE
2	CA	1	Ligand/Ion	CALCIUM ION
3	PO4	3	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER C:46 , ARG C:103 , HIS C:105 , ASN C:134 , GLY C:135 , SER C:223 , HOH C:314 , HOH C:319 , HOH C:417	BINDING SITE FOR RESIDUE PO4 C 301
2	AC2	SOFTWARE	GLY B:45 , SER B:46 , ARG B:103 , HIS B:105 , ASN B:134 , GLY B:135 , SER B:223 , HOH B:337 , HOH B:387	BINDING SITE FOR RESIDUE PO4 B 302
3	AC3	SOFTWARE	GLY A:45 , SER A:46 , ARG A:103 , HIS A:105 , ASN A:134 , GLY A:135 , SER A:223 , HOH A:322 , HOH A:389 , HOH A:453	BINDING SITE FOR RESIDUE PO4 A 303
4	AC4	SOFTWARE	GLU A:53 , GLY B:126 , GLU B:128 , HOH B:386 , HOH B:396 , HOH B:427 , HOH B:564	BINDING SITE FOR RESIDUE CA B 300
5	AC5	SOFTWARE	CYS C:136 , GLY C:137 , TYR C:203 , GLU C:204 , VAL C:220 , GLY C:221 , MET C:222 , THR C:245 , HOH C:314 , HOH C:425 , HOH C:439	BINDING SITE FOR RESIDUE 8IG C 304
6	AC6	SOFTWARE	GLY B:135 , CYS B:136 , GLY B:137 , TYR B:203 , GLU B:204 , GLY B:221 , MET B:222 , THR B:245 , HOH B:337 , HOH B:426 , HOH B:511	BINDING SITE FOR RESIDUE 8IG B 305
7	AC7	SOFTWARE	GLY A:135 , CYS A:136 , GLY A:137 , TYR A:203 , GLU A:204 , VAL A:220 , GLY A:221 , MET A:222 , THR A:245 , HOH A:322 , HOH A:394	BINDING SITE FOR RESIDUE 8IG A 306

(no "SS Bond" information available for 1C3X)

Asymmetric/Biological Unit

No.	Residues
1	Gly A:200	-	Pro A:201
2	Gly B:200	-	Pro B:201
3	Gly C:200	-	Pro C:201

(no "SAP(SNP)/Variant" information available for 1C3X)

Asymmetric/Biological Unit (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PNP_MTAP_2	PS01240	Purine and other phosphorylases family 2 signature.	PUNA_CELSP	98-139	3	A:98-139 B:98-139 C:98-139

(no "Exon" information available for 1C3X)

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:266
 aligned with PUNA_CELSP | P81989 from UniProtKB/Swiss-Prot  Length:282

    Alignment length:274
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278    
           PUNA_CELSP     9 PPLDDPATDPFLVARAAADHIAQATGVEGHDMALVLGSGWGGAAELLGEVVAEVPTHEIPGFSAPAVAGHLSVTRSIRVERADGSVRHALVLGSRTHLYEGKGVRAVVHGVRTAAATGAETLILTNGCGGLNQEWGAGTPVLLSDHINLTARSPLEGPTFVDLTDVYSPRLRELAHRVDPTLPEGVYAQFPGPHYETPAEVRMAGILGADLVGMSTTLEAIAARHCGLEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAGPRISALLADIAKR 282
               SCOP domains d1c3xa_ A: Purine nucleoside phosphorylase, PNP                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1c3xA00 A:9-282  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhh.....eeee.............eeeeeee.hhh....--------.eeeeeeee.....eeeeeee....hhhhh.hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeee...................hhhhhhhhhhhh....eeeeee.......hhhhhhhhhhh...eee..hhhhhhhhhhh..eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------PNP_MTAP_2  PDB: A:98-139 UniProt: 98-139 ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c3x A   9 PPLDDPATDPFLVARAAADHIAQATGVEGHDMALVLGSGWGGAAELLGEVVAEVPTHEIPGFS--------SVTRSIRVERADGSVRHALVLGSRTHLYEGKGVRAVVHGVRTAAATGAETLILTNGCGGLNQEWGAGTPVLLSDHINLTARSPLEGPTFVDLTDVYSPRLRELAHRVDPTLPEGVYAQFPGPHYETPAEVRMAGILGADLVGMSTTLEAIAARHCGLEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAGPRISALLADIAKR 282
                                    18        28        38        48        58        68  |      - |      88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278    
                                                                                         71       80

Chain B from PDB  Type:PROTEIN  Length:266
 aligned with PUNA_CELSP | P81989 from UniProtKB/Swiss-Prot  Length:282

    Alignment length:274
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278    
           PUNA_CELSP     9 PPLDDPATDPFLVARAAADHIAQATGVEGHDMALVLGSGWGGAAELLGEVVAEVPTHEIPGFSAPAVAGHLSVTRSIRVERADGSVRHALVLGSRTHLYEGKGVRAVVHGVRTAAATGAETLILTNGCGGLNQEWGAGTPVLLSDHINLTARSPLEGPTFVDLTDVYSPRLRELAHRVDPTLPEGVYAQFPGPHYETPAEVRMAGILGADLVGMSTTLEAIAARHCGLEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAGPRISALLADIAKR 282
               SCOP domains d1c3xb_ B: Purine nucleoside phosphorylase, PNP                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1c3xB00 B:9-282  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhh.....eeee.............eeeeeee.hhh....--------.eeeeeeee.....eeeeee.....hhhhh.hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeee...................hhhhhhhhhhhh....eeeeee.......hhhhhhhhhhh...eee..hhhhhhhhhhh..eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------PNP_MTAP_2  PDB: B:98-139 UniProt: 98-139 ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c3x B   9 PPLDDPATDPFLVARAAADHIAQATGVEGHDMALVLGSGWGGAAELLGEVVAEVPTHEIPGFS--------SVTRSIRVERADGSVRHALVLGSRTHLYEGKGVRAVVHGVRTAAATGAETLILTNGCGGLNQEWGAGTPVLLSDHINLTARSPLEGPTFVDLTDVYSPRLRELAHRVDPTLPEGVYAQFPGPHYETPAEVRMAGILGADLVGMSTTLEAIAARHCGLEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAGPRISALLADIAKR 282
                                    18        28        38        48        58        68  |      - |      88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278    
                                                                                         71       80

Chain C from PDB  Type:PROTEIN  Length:266
 aligned with PUNA_CELSP | P81989 from UniProtKB/Swiss-Prot  Length:282

    Alignment length:274
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278    
           PUNA_CELSP     9 PPLDDPATDPFLVARAAADHIAQATGVEGHDMALVLGSGWGGAAELLGEVVAEVPTHEIPGFSAPAVAGHLSVTRSIRVERADGSVRHALVLGSRTHLYEGKGVRAVVHGVRTAAATGAETLILTNGCGGLNQEWGAGTPVLLSDHINLTARSPLEGPTFVDLTDVYSPRLRELAHRVDPTLPEGVYAQFPGPHYETPAEVRMAGILGADLVGMSTTLEAIAARHCGLEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAGPRISALLADIAKR 282
               SCOP domains d1c3xc_ C: Purine nucleoside phosphorylase, PNP                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1c3xC00 C:9-282  [code=3.40.50.1580, no name defined]                                                                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhh.....eeee.............eeeeeee.hhh....--------.eeeeeeee.....eeeeeee....hhhhh.hhhhhhhhhhhhhhh...eeeeeeeeee.........eeeeeeeee...................hhhhhhhhhhhh....eeeeee.......hhhhhhhhhhhh..eee..hhhhhhhhhhh..eeeeeeeeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------PNP_MTAP_2  PDB: C:98-139 UniProt: 98-139 ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1c3x C   9 PPLDDPATDPFLVARAAADHIAQATGVEGHDMALVLGSGWGGAAELLGEVVAEVPTHEIPGFS--------SVTRSIRVERADGSVRHALVLGSRTHLYEGKGVRAVVHGVRTAAATGAETLILTNGCGGLNQEWGAGTPVLLSDHINLTARSPLEGPTFVDLTDVYSPRLRELAHRVDPTLPEGVYAQFPGPHYETPAEVRMAGILGADLVGMSTTLEAIAARHCGLEVLGVSLVTNLAAGISPTPLSHAEVIEAGQAAGPRISALLADIAKR 282
                                    18        28        38        48        58        68  |      - |      88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278    
                                                                                         71       80

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: Purine nucleoside phosphorylase, PNP (93)

Cellulomonas sp. [TaxId: 40001] (2)

1a	d1c3xa_	A:
1b	d1c3xb_	B:
1c	d1c3xc_	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)

Cellulomonas sp.. Organism_taxid: 40001 (2)

1a	1c3xA00	A:9-282
1b	1c3xB00	B:9-282
1c	1c3xC00	C:9-282

(no "Pfam Domain" information available for 1C3X)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C (PUNA_CELSP | P81989)

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).
	GO:0016763	transferase activity, transferring pentosyl groups	Catalysis of the transfer of a pentosyl 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:200 - Pro A:201	[ RasMol ]
		Gly B:200 - Pro B:201	[ RasMol ]
		Gly C:200 - Pro C:201	[ RasMol ]

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	1c3x
		Family and Domain Information	:	ProDom \| SYSTERS
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	PUNA_CELSP \| P81989
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UniProtKB/Swiss-Prot
	PUNA_CELSP \| P81989	:	1qe5

1a69	PURINE NUCLEOSIDE PHOSPHORYLASE FROM E. COLI IN COMPLEX WITH FORMYCIN B AND SULPHATE
1qe5	PURINE NUCLEOSIDE PHOPSHORYLASE FROM CELLULOMONAS SP. IN COMPLEX WITH PHOSPHATE
1vfn	PURINE NUCLEOSIDE PHOSPHORYLASE FROM CALF SPLEEN IN COMPLEX WITH HYPOXANTHINE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 7)

Sites (7, 7)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 3)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 3)

CATH Domains (1, 3)

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Gene Ontology (7, 7)

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