1MAS - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Title :   PURINE NUCLEOSIDE HYDROLASE

Authors :   M. Degano, D. N. Gopaul, G. Scapin, V. L. Schramm, J. C. Sacchettini

Date :   18 Dec 95 (Deposition) - 17 Aug 96 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Hydrolase, Purine Nucleoside Hydrolase, Purine Nucleosidase, Iu-Nh (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Degano, D. N. Gopaul, G. Scapin, V. L. Schramm, J. C. Sacchettini
Three-Dimensional Structure Of The Inosine-Uridine Nucleoside N-Ribohydrolase From Crithidia Fasciculata.
Biochemistry V. 35 5971 1996
PubMed-ID: 8634238 | Reference-DOI: 10.1021/BI952999M
(for further references see the PDB file header)

Molecule 1 - INOSINE-URIDINE NUCLEOSIDE N-RIBOHYDROLASE
	Chains	:	A, B
	EC Number	:	3.2.2.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Gene	:	IU-NH FROM C.FASCICULATA
	Expression System Plasmid	:	PET3D-IUNH
	Expression System Taxid	:	562
	Gene	:	IU-NH FROM C.FASCICULATA
	Mutation	:	YES
	Organism Scientific	:	CRITHIDIA FASCICULATA
	Organism Taxid	:	5656
	Synonym	:	PURINE NUCLEOSIDE HYDROLASE, INOSINE-URIDINE NUCLEOSIDASE, IU-NH

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	K	2	Ligand/Ion	POTASSIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	K	-1	Ligand/Ion	POTASSIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:10 , ASP A:15 , THR A:126 , ASP A:242 , HOH A:902	BINDING SITE FOR RESIDUE K A 900
2	AC2	SOFTWARE	ASP B:10 , ASP B:15 , THR B:126 , ASP B:242	BINDING SITE FOR RESIDUE K B 933
3	ACT	UNKNOWN	ASP A:10 , ASP A:14 , ASP A:15 , HIS A:241 , ASP A:242 , ASP B:10 , ASP B:14 , ASP B:15 , HIS B:241 , ASP B:242	POCKET AT THE C-TERMINAL END OF THE BETA SHEET.

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

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

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IUNH	PS01247	Inosine-uridine preferring nucleoside hydrolase family signature.	IUNH_CRIFA	8-18	2	A:8-18 B:8-18

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IUNH	PS01247	Inosine-uridine preferring nucleoside hydrolase family signature.	IUNH_CRIFA	8-18	4	A:8-18 B:8-18

(no "Exon" information available for 1MAS)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(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:308
 aligned with IUNH_CRIFA | Q27546 from UniProtKB/Swiss-Prot  Length:315

    Alignment length:314
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311    
           IUNH_CRIFA     2 PKKIILDCDPGLDDAVAILLAHGNPEIELLAITTVVGNQTLAKVTRNAQLVADIAGITGVPIAAGCDKPLVRKIMTAGHIHGESGMGTVAYPAEFKNKVDERHAVNLIIDLVMSHEPKTITLVPTGGLTNIAMAARLEPRIVDRVKEVVLMGGGYHEGNATSVAEFNIIIDPEAAHIVFNESWQVTMVGLDLTHQALATPPILQRVKEVDTNPARFMLEIMDYYTKIYQSNRYMAAAAVHDPCAVAYVIDPSVMTTERVPVDIELTGKLTLGMTVADFRNPRPEHCHTQVAVKLDFEKFWGLVLDALERIGDPQ 315
               SCOP domains d1masa_ A: Inosine-uridine nucleoside N-ribohydrolase, IU-NH                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1masA00 A:2-315 Inosine-uridine Nucleoside N-ribohydrolase, chain A                                                                                                                                                                                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhhh....eeeeeee......hhhhhhhhhhhhhh......eeee............------.....................hhhhhhhhhhh.....eeeee....hhhhhhhhh.hhhhhh...eeee..............hhhhhhhhhhhhhhh....eeee.hhhhhh....hhhhhhhhhh..hhhhhhhhhhhhhhhhhh...........hhhhhhhhh.hhheeeee..eee..........eee...........eeeeeee.hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------IUNH       --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mas A   2 AKKIILDCDPGLDDAVAILLAHGNPEIELLAITTVVGNQTLAKVTRNAQLVADIAGITGVPIAAGCDKPLVRKIMT------ESGMGTVAYPAEFKNKVDERHAVNLIIDLVMSHEPKTITLVPTGGLTNIAMAARLEPRIVDRVKEVVLMGGGYHEGNATSVAEFNIIIDPEAAHIVFNESWQVTMVGLDLTHQALATPPILQRVKEVDTNPARFMLEIMDYYTKIYQSNRYMAAAAVHDPCAVAYVIDPSVMTTERVPVDIELTGKLTLGMTVADFRNPRPEHCHTQVAVKLDFEKFWGLVLDALERIGDPQ 315
                                    11        21        31        41        51        61        71     |   -  |     91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311    
                                                                                                      77     84

Chain B from PDB  Type:PROTEIN  Length:295
 aligned with IUNH_CRIFA | Q27546 from UniProtKB/Swiss-Prot  Length:315

    Alignment length:314
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311    
           IUNH_CRIFA     2 PKKIILDCDPGLDDAVAILLAHGNPEIELLAITTVVGNQTLAKVTRNAQLVADIAGITGVPIAAGCDKPLVRKIMTAGHIHGESGMGTVAYPAEFKNKVDERHAVNLIIDLVMSHEPKTITLVPTGGLTNIAMAARLEPRIVDRVKEVVLMGGGYHEGNATSVAEFNIIIDPEAAHIVFNESWQVTMVGLDLTHQALATPPILQRVKEVDTNPARFMLEIMDYYTKIYQSNRYMAAAAVHDPCAVAYVIDPSVMTTERVPVDIELTGKLTLGMTVADFRNPRPEHCHTQVAVKLDFEKFWGLVLDALERIGDPQ 315
               SCOP domains d1masb_ B: Inosine-uridine nucleoside N-ribohydrolase, IU-NH                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1masB00 B:2-315 Inosine-uridine Nucleoside N-ribohydrolase, chain A                                                                                                                                                                                                                                                        CATH domains
           Pfam domains (1) -IU_nuc_hydro-1masB01 B:3-312                                                                                                                                                                                                                                                                                          --- Pfam domains (1)
           Pfam domains (2) -IU_nuc_hydro-1masB02 B:3-312                                                                                                                                                                                                                                                                                          --- Pfam domains (2)
         Sec.struct. author ..eeeeee...hhhhhhhhhhh.....eeeeeee......hhhhhhhhhhhhhhh.....eeee............-------------------........hhhhhhhhhh......eeeee....hhhhhhhhh.hhhhhh...eee..............hhhhhh..hhhhhhhhh...eee..hhhh......hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.........hhhhhhhhh.hhh......eeee..........eeee..........eee.....hhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------IUNH       --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mas B   2 AKKIILDCDPGLDDAVAILLAHGNPEIELLAITTVVGNQTLAKVTRNAQLVADIAGITGVPIAAGCDKPLVRKIMT-------------------KNKVDERHAVNLIIDLVMSHEPKTITLVPTGGLTNIAMAARLEPRIVDRVKEVVLMGGGYHEGNATSVAEFNIIIDPEAAHIVFNESWQVTMVGLDLTHQALATPPILQRVKEVDTNPARFMLEIMDYYTKIYQSNRYMAAAAVHDPCAVAYVIDPSVMTTERVPVDIELTGKLTLGMTVADFRNPRPEHCHTQVAVKLDFEKFWGLVLDALERIGDPQ 315
                                    11        21        31        41        51        61        71     |   -         -     | 101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311    
                                                                                                      77                  97

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Nucleoside hydrolase (27)

Superfamily: Nucleoside hydrolase (27)

Family: Nucleoside hydrolase (22)

Protein domain: Inosine-uridine nucleoside N-ribohydrolase, IU-NH (2)

Crithidia fasciculata [TaxId: 5656] (2)

1a	d1masa_	A:
1b	d1masb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Complex (3881)

Topology: Inosine-uridine Nucleoside N-ribohydrolase; Chain A (17)

Homologous Superfamily: Inosine-uridine Nucleoside N-ribohydrolase, chain A (17)

Crithidia fasciculata. Organism_taxid: 5656. (2)

1a	1masA00	A:2-315
1b	1masB00	B:2-315

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: IU_nuc_hydro] (7)

Family: IU_nuc_hydro (7)

Crithidia fasciculata (2)

1a	IU_nuc_hydro-1masB01	B:3-312
1b	IU_nuc_hydro-1masB02	B:3-312

Asymmetric Unit(hide GO term definitions)

Chain A,B (IUNH_CRIFA | Q27546)

molecular function
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016798	hydrolase activity, acting on glycosyl bonds	Catalysis of the hydrolysis of any glycosyl bond.
	GO:0016799	hydrolase activity, hydrolyzing N-glycosyl compounds	Catalysis of the hydrolysis of any N-glycosyl bond.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0009117	nucleotide metabolic process	The chemical reactions and pathways involving a nucleotide, a 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).

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		K	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		ACT	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1mas)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	1mas
		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
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	IUNH_CRIFA \| Q27546
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	3.2.2.1
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	IUNH_CRIFA \| Q27546
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	IUNH_CRIFA \| Q27546	:	2mas

(no "Related Entries Specified in the PDB File" available for 1MAS)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 2)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (6, 6)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File