1ISG - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   CRYSTAL STRUCTURE ANALYSIS OF BST-1/CD157 WITH ATPGAMMAS

Authors :   S. Yamamoto-Katayama, M. Ariyoshi, K. Ishihara, T. Hirano, H. Jingami K. Morikawa

Date :   05 Dec 01 (Deposition) - 13 Mar 02 (Release) - 15 Feb 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

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

Keywords :   Adp Ribosylcyclase, Nad Glycohydrolase, Cns, Atpgammas, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Yamamoto-Katayama, M. Ariyoshi, K. Ishihara, T. Hirano, H. Jingami, K. Morikawa
Crystallographic Studies On Human Bst-1/Cd157 With Adp-Ribosyl Cyclase And Nad Glycohydrolase Activities.
J. Mol. Biol. V. 316 711 2002
PubMed-ID: 11866528 | Reference-DOI: 10.1006/JMBI.2001.5386
(for further references see the PDB file header)

Molecule 1 - BONE MARROW STROMAL CELL ANTIGEN 1
	Chains	:	A, B
	EC Number	:	3.2.2.5
	Engineered	:	YES
	Expression System	:	TRICHOPLUSIA NI
	Expression System Cell Line	:	HIGH FIVE
	Expression System Common	:	CABBAGE LOOPER
	Expression System Taxid	:	7111
	Expression System Vector	:	AUTOGRAPHA CALIFORNICA NUCLEAR POLYHEDROSIS VIRUS
	Expression System Vector Type	:	BACULOVIRUS
	Fragment	:	EXTRACELLULAR REGION
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	BST-1/CD157, ADP-RIBOSYL CYCLASE 2

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 6)

No.	Name	Count	Type	Full Name
1	AGS	2	Ligand/Ion	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
2	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:79 , SER A:80 , LEU A:83 , ASN A:160 , SER A:162 , GLU A:163 , GLU A:197 , NAG A:267	BINDING SITE FOR RESIDUE NAG A 266
2	AC2	SOFTWARE	PRO A:201 , NAG A:266	BINDING SITE FOR RESIDUE NAG A 267
3	AC3	SOFTWARE	ASN B:79 , SER B:80 , LEU B:83 , ASN B:160 , SER B:162 , GLU B:163 , PRO B:164 , GLU B:197 , NAG B:267	BINDING SITE FOR RESIDUE NAG B 266
4	AC4	SOFTWARE	NAG B:266	BINDING SITE FOR RESIDUE NAG B 267
5	AC5	SOFTWARE	TRP B:77 , ASN B:79 , SER B:80 , HIS B:81 , LEU B:97 , ASP B:107 , PHE B:108 , ASP B:137 , TRP B:140 , PHE B:173 , HOH B:1039 , HOH B:1041 , HOH B:1042	BINDING SITE FOR RESIDUE AGS B 1001
6	AC6	SOFTWARE	TRP A:77 , ASN A:79 , SER A:80 , HIS A:81 , LEU A:97 , ASP A:107 , PHE A:108 , ASP A:137 , TRP A:140 , PHE A:173 , HOH A:1038 , HOH A:1047 , HOH A:1048	BINDING SITE FOR RESIDUE AGS A 1002

Asymmetric/Biological Unit

No.	Residues
1	A:19	-	A:35
2	A:51	-	A:131
3	A:112	-	A:125
4	A:206	-	A:227
5	A:239	-	A:248
6	B:19	-	B:35
7	B:51	-	B:131
8	B:112	-	B:125
9	B:206	-	B:227
10	B:239	-	B:248

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

Asymmetric/Biological Unit (4, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_028438	A	77	V	BST1_HUMAN	Polymorphism	2302466	A/B	A	45	V
2	UniProt	VAR_028439	I	101	V	BST1_HUMAN	Polymorphism	6840615	A/B	I	69	V
3	UniProt	VAR_021964	R	125	H	BST1_HUMAN	Polymorphism	2302465	A/B	R	93	H
4	UniProt	VAR_021965	R	145	Q	BST1_HUMAN	Polymorphism	2302464	A/B	R	113	Q

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

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

Asymmetric/Biological Unit (8, 16)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000265016	1a	ENSE00000799219	chr4:15704573-15704955	383	BST1_HUMAN	1-63	63	2	A:2-31 B:2-31	30 30
1.3	ENST00000265016	3	ENSE00000705579	chr4:15707138-15707264	127	BST1_HUMAN	63-105	43	2	A:31-73 B:31-73	43 43
1.4b	ENST00000265016	4b	ENSE00000705573	chr4:15709134-15709269	136	BST1_HUMAN	106-151	46	2	A:74-119 B:74-119	46 46
1.5b	ENST00000265016	5b	ENSE00000705567	chr4:15713430-15713512	83	BST1_HUMAN	151-178	28	2	A:119-146 B:119-146	28 28
1.6a	ENST00000265016	6a	ENSE00000705562	chr4:15716908-15716984	77	BST1_HUMAN	179-204	26	2	A:147-172 B:147-172	26 26
1.7	ENST00000265016	7	ENSE00000705557	chr4:15717330-15717422	93	BST1_HUMAN	204-235	32	2	A:172-203 B:172-203	32 32
1.8	ENST00000265016	8	ENSE00000705552	chr4:15720530-15720616	87	BST1_HUMAN	235-264	30	2	A:203-232 B:203-232	30 30
1.9	ENST00000265016	9	ENSE00000705457	chr4:15724498-15724557	60	BST1_HUMAN	264-284	21	2	A:232-251 B:232-251	20 20
1.11a	ENST00000265016	11a	ENSE00001221392	chr4:15733363-15733796	434	BST1_HUMAN	284-318	35	0	-	-

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 BST1_HUMAN | Q10588 from UniProtKB/Swiss-Prot  Length:318

    Alignment length:250
                                    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
           BST1_HUMAN    34 WRGEGTSAHLRDIFLGRCAEYRALLSPEQRNKNCTAIWEAFKVALDKDPCSVLPSDYDLFINLSRHSIPRDKSLFWENSHLLVNSFADNTRRFMPLSDVLYGRVADFLSWCRQKNDSGLDYQSCPTSEDCENNPVDSFWKRASIQYSKDSSGVIHVMLNGSEPTGAYPIKGFFADYEIPNLQKEKITRIEIWVMHEIGGPNVESCGEGSMKVLEKRLKDMGFQYSCINDYRPVKLLQCVDHSTHPDCALK 283
               SCOP domains d1isga_ A: Bone marror stromal cell antigen 1, BST-1/CD157 (ADP ribosyl cyclase-2)                                                                                                                                                                         SCOP domains
               CATH domains 1isgA01 A:2-68,A:96-150 ADP Ribosyl Cyclase; Chain A, domain 1     1isgA02 A:69-95,A:151-251  1isgA01 A:2-68,A:96-150                                1isgA02 A:69-95,A:151-251 NAD(P)-binding Rossmann-like Domain                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhh.....hhhhhhhhhhhhh........eee..hhhhhhhhhh......hhhhhhhhhh............................hhhhhhhhhhhhhhhhh..eeeeeeee...........hhhhhhh....hhh.eeeeeeeee.............hhhhhhhhhhhhh...eeeee.hhhhhhhhhh....hhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------V-----------------------V-----------------------H-------------------Q------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1a  PDB: A:2-31        ------------------------------------------Exon 1.4b  PDB: A:74-119 UniProt: 106-151     ---------------------------Exon 1.6a  PDB: A:147-172 ------------------------------Exon 1.8  PDB: A:203-232      ------------------- Transcript 1 (1)
           Transcript 1 (2) -----------------------------Exon 1.3  PDB: A:31-73 UniProt: 63-105     ---------------------------------------------Exon 1.5b  PDB: A:119-146   -------------------------Exon 1.7  PDB: A:172-203        ----------------------------Exon 1.9             Transcript 1 (2)
                 1isg A   2 WRAEGTSAHLRDIFLGRCAEYRALLSPEQRNKDCTAIWEAFKVALDKDPCSVLPSDYDLFITLSRHSIPRDKSLFWENSHLLVNSFADNTRRFMPLSDVLYGRVADFLSWCRQKADSGLDYQSCPTSEDCENNPVDSFWKRASIQYSKDSSGVIHVMLNGSEPTGAYPIKGFFADYEIPNLQKEKITRIEIWVMHEIGGPNVESCGEGSMKVLEKRLKDMGFQYSCINDYRPVKLLQCVDHSTHPDCALK 251
                                    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

Chain B from PDB  Type:PROTEIN  Length:250
 aligned with BST1_HUMAN | Q10588 from UniProtKB/Swiss-Prot  Length:318

    Alignment length:250
                                    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
           BST1_HUMAN    34 WRGEGTSAHLRDIFLGRCAEYRALLSPEQRNKNCTAIWEAFKVALDKDPCSVLPSDYDLFINLSRHSIPRDKSLFWENSHLLVNSFADNTRRFMPLSDVLYGRVADFLSWCRQKNDSGLDYQSCPTSEDCENNPVDSFWKRASIQYSKDSSGVIHVMLNGSEPTGAYPIKGFFADYEIPNLQKEKITRIEIWVMHEIGGPNVESCGEGSMKVLEKRLKDMGFQYSCINDYRPVKLLQCVDHSTHPDCALK 283
               SCOP domains d1isgb_ B: Bone marror stromal cell antigen 1, BST-1/CD157 (ADP ribosyl cyclase-2)                                                                                                                                                                         SCOP domains
               CATH domains 1isgB01 B:2-68,B:96-150 ADP Ribosyl Cyclase; Chain A, domain 1     1isgB02 B:69-95,B:151-251  1isgB01 B:2-68,B:96-150                                1isgB02 B:69-95,B:151-251 NAD(P)-binding Rossmann-like Domain                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee....hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh......hhhhhhhhhhhhh........eee..hhhhhhhhhh......hhhhhhhhhh..................ee........hhhhhhhhhhhhhhhhh..eeeeeeee...........hhhhhhhhhhhhhh.eeeeeeeee.............hhhhhhhhhhhhhh..eeeee.hhhhhhhhhh....hhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------V-----------------------V-----------------------H-------------------Q------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1a  PDB: B:2-31        ------------------------------------------Exon 1.4b  PDB: B:74-119 UniProt: 106-151     ---------------------------Exon 1.6a  PDB: B:147-172 ------------------------------Exon 1.8  PDB: B:203-232      ------------------- Transcript 1 (1)
           Transcript 1 (2) -----------------------------Exon 1.3  PDB: B:31-73 UniProt: 63-105     ---------------------------------------------Exon 1.5b  PDB: B:119-146   -------------------------Exon 1.7  PDB: B:172-203        ----------------------------Exon 1.9             Transcript 1 (2)
                 1isg B   2 WRAEGTSAHLRDIFLGRCAEYRALLSPEQRNKDCTAIWEAFKVALDKDPCSVLPSDYDLFITLSRHSIPRDKSLFWENSHLLVNSFADNTRRFMPLSDVLYGRVADFLSWCRQKADSGLDYQSCPTSEDCENNPVDSFWKRASIQYSKDSSGVIHVMLNGSEPTGAYPIKGFFADYEIPNLQKEKITRIEIWVMHEIGGPNVESCGEGSMKVLEKRLKDMGFQYSCINDYRPVKLLQCVDHSTHPDCALK 251
                                    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

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: Flavodoxin-like (1057)

Superfamily: N-(deoxy)ribosyltransferase-like (76)

Family: ADP ribosyl cyclase-like (60)

Protein domain: Bone marror stromal cell antigen 1, BST-1/CD157 (ADP ribosyl cyclase-2) (6)

Human (Homo sapiens) [TaxId: 9606] (6)

1a	d1isga_	A:
1b	d1isgb_	B:

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: NAD(P)-binding Rossmann-like Domain (1244)

Human (Homo sapiens) (188)

1a	1isgA02	A:69-95,A:151-251
1b	1isgB02	B:69-95,B:151-251

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: ADP Ribosyl Cyclase; Chain A, domain 1 (29)

Homologous Superfamily: ADP Ribosyl Cyclase; Chain A, domain 1 (29)

Human (Homo sapiens) (20)

2a	1isgA01	A:2-68,A:96-150
2b	1isgB01	B:2-68,B:96-150

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (BST1_HUMAN | Q10588)

molecular function
	GO:0050135	NAD(P)+ nucleosidase activity	Catalysis of the reaction: NAD(P)+ + H2O = ADP-ribose(P) + nicotinamide.
	GO:0003953	NAD+ nucleosidase activity	Catalysis of the reaction: NAD+ + H2O = nicotinamide + ADP-ribose.
	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:0016849	phosphorus-oxygen lyase activity	Catalysis of the cleavage of a phosphorus-oxygen bond by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond.
	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.
biological process
	GO:0006959	humoral immune response	An immune response mediated through a body fluid.
	GO:0007275	multicellular organism development	The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
	GO:0030890	positive regulation of B cell proliferation	Any process that activates or increases the rate or extent of B cell proliferation.
cellular component
	GO:0031225	anchored component of membrane	The component of a membrane consisting of the gene products that are tethered to the membrane only by a covalently attached anchor, such as a lipid group that is embedded in the membrane. Gene products with peptide sequences that are embedded in the membrane are excluded from this grouping.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0019898	extrinsic component of membrane	The component of a membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Asymmetric/Biological 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
		AGS	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NAG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]

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

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym./Biol. Unit PNG format \| Asym./Biol. Unit - 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
	1isg
		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
	BST1_HUMAN \| Q10588
		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)
	3.2.2.5
		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
	BST1_HUMAN \| Q10588
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	BST1_HUMAN \| Q10588	:	1isf 1ish 1isi 1isj 1ism

1isf	1ISF CONTAINS THE SAME PROTEIN (LIGAND FREE FORM).
1ish	1ISH CONTAINS THE SAME PROTEIN COMPLEXED WITH ETHENONADP.
1isi	1ISI CONTAINS THE SAME PROTEIN COMPLEXED WITH ETHENONAD.
1isj	1ISJ CONTAINS THE SAME PROTEIN COMPLEXED WITH NMN.
1ism	1ISM CONTAINS THE SAME PROTEIN COMPLEXED WITH NICOTINAMIDE.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 6)

Sites (6, 6)

SS Bonds (10, 10)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (4, 8)

PROSITE Motifs (0, 0)

Exons (8, 16)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (2, 4)

Pfam Domains (0, 0)

Gene Ontology (13, 13)

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