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(-) Description

Title :  DYNAMIC CONFORMATIONS OF THE CD38-MEDIATED NAD CYCLIZATION CAPTURED USING MULTI-COPY CRYSTALLOGRAPHY
 
Authors :  H. Zhang, H. C. Lee, Q. Hao
Date :  16 Aug 10  (Deposition) - 15 Dec 10  (Release) - 19 Jan 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Biol. Unit 5:  E  (1x)
Biol. Unit 6:  F  (1x)
Keywords :  Cd38, Cyclization, Hydrolysis, Cadpr, Adpr, Ara-2'F-Nad, Ara-2'F- Adpr, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Zhang, R. Graeff, Z. Chen, L. R. Zhang, L. H. Zhang, H. C. Lee, Q. Hao
Dynamic Conformations Of The Cd38-Mediated Nad Cyclization Captured In A Single Crystal
J. Mol. Biol. V. 405 1070 2011
PubMed-ID: 21134381  |  Reference-DOI: 10.1016/J.JMB.2010.11.044

(-) Compounds

Molecule 1 - ADP-RIBOSYL CYCLASE 1
    ChainsA, B, C, D, E, F
    EC Number3.2.2.5
    EngineeredYES
    Expression SystemPICHIA PASTORIS
    Expression System PlasmidPPICZALPHA
    Expression System StrainX33
    Expression System Taxid4922
    Expression System Vector TypePLASMID
    FragmentEXTRACELLULAR DOMAIN, RESIDUES 46-300
    GeneCD38
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCD38, CYCLIC ADP-RIBOSE HYDROLASE 1, CADPR HYDROLASE 1, T10

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit ABCDEF
Biological Unit 1 (1x)A     
Biological Unit 2 (1x) B    
Biological Unit 3 (1x)  C   
Biological Unit 4 (1x)   D  
Biological Unit 5 (1x)    E 
Biological Unit 6 (1x)     F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1AVU6Ligand/Ion[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL [(2R,3R,4R)-4-FLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1AVU1Ligand/Ion[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL [(2R,3R,4R)-4-FLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1AVU1Ligand/Ion[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL [(2R,3R,4R)-4-FLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1AVU1Ligand/Ion[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL [(2R,3R,4R)-4-FLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1AVU1Ligand/Ion[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL [(2R,3R,4R)-4-FLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 5 (1, 1)
No.NameCountTypeFull Name
1AVU1Ligand/Ion[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL [(2R,3R,4R)-4-FLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 6 (1, 1)
No.NameCountTypeFull Name
1AVU1Ligand/Ion[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL [(2R,3R,4R)-4-FLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:124 , TRP A:125 , SER A:126 , ARG A:127 , LYS A:129 , LEU A:145 , ASP A:155 , ASP A:156 , TRP A:189 , SER A:193 , SER A:220 , THR A:221 , PHE A:222 , GLU A:226 , HOH A:316BINDING SITE FOR RESIDUE AVU A 301
2AC2SOFTWARETRP B:125 , SER B:126 , ARG B:127 , LEU B:145 , TRP B:189 , SER B:193 , SER B:220 , THR B:221 , PHE B:222 , GLU B:226 , HOH B:308 , HOH B:309BINDING SITE FOR RESIDUE AVU B 301
3AC3SOFTWAREHOH C:31 , TRP C:125 , SER C:126 , ARG C:127 , LYS C:129 , LEU C:145 , ASP C:155 , TRP C:189 , SER C:193 , SER C:220 , THR C:221 , PHE C:222 , GLU C:226 , HOH C:308 , HOH C:332 , HOH C:334 , HOH C:344BINDING SITE FOR RESIDUE AVU C 301
4AC4SOFTWARETRP D:125 , SER D:126 , ARG D:127 , LYS D:129 , LEU D:145 , ASP D:155 , TRP D:189 , SER D:193 , SER D:220 , THR D:221 , PHE D:222 , GLU D:226 , HOH D:324 , HOH D:327 , HOH D:341BINDING SITE FOR RESIDUE AVU D 301
5AC5SOFTWARETRP E:125 , SER E:126 , ARG E:127 , LEU E:145 , TRP E:189 , SER E:193 , PHE E:196 , SER E:220 , THR E:221 , PHE E:222 , GLU E:226 , HOH E:308BINDING SITE FOR RESIDUE AVU E 301
6AC6SOFTWAREHOH F:25 , LEU F:124 , TRP F:125 , SER F:126 , ARG F:127 , LYS F:129 , LEU F:145 , TRP F:189 , SER F:193 , SER F:220 , THR F:221 , PHE F:222 , GLU F:226BINDING SITE FOR RESIDUE AVU F 301

(-) SS Bonds  (30, 30)

Asymmetric Unit
No.Residues
1A:67 -A:82
2A:99 -A:180
3A:119 -A:201
4A:160 -A:173
5A:254 -A:275
6B:67 -B:82
7B:99 -B:180
8B:119 -B:201
9B:160 -B:173
10B:254 -B:275
11C:67 -C:82
12C:99 -C:180
13C:119 -C:201
14C:160 -C:173
15C:254 -C:275
16D:67 -D:82
17D:99 -D:180
18D:119 -D:201
19D:160 -D:173
20D:254 -D:275
21E:67 -E:82
22E:99 -E:180
23E:119 -E:201
24E:160 -E:173
25E:254 -E:275
26F:67 -F:82
27F:99 -F:180
28F:119 -F:201
29F:160 -F:173
30F:254 -F:275

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OFS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 5)

Asymmetric Unit (1, 5)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001323R140WCD38_HUMANPolymorphism1800561A/B/C/D/ER140W

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001323R140WCD38_HUMANPolymorphism1800561AR140W

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001323R140WCD38_HUMANPolymorphism1800561BR140W

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 3 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001323R140WCD38_HUMANPolymorphism1800561CR140W

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 4 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001323R140WCD38_HUMANPolymorphism1800561DR140W

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 5 (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_001323R140WCD38_HUMANPolymorphism1800561ER140W

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 6 (0, 0)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OFS)

(-) Exons   (8, 48)

Asymmetric Unit (8, 48)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000002262791bENSE00001131145chr4:15779901-15780270370CD38_HUMAN1-78786A:46-78
B:46-78
C:46-78
D:46-78
E:46-78
F:46-78
33
33
33
33
33
33
1.2aENST000002262792aENSE00000705354chr4:15818134-15818263130CD38_HUMAN78-121446A:78-121
B:78-121
C:78-121
D:78-121
E:78-121
F:78-121
44
44
44
44
44
44
1.3bENST000002262793bENSE00000705352chr4:15826504-15826639136CD38_HUMAN122-167466A:122-167
B:122-167
C:122-167
D:122-167
E:122-167
F:122-167 (gaps)
46
46
46
46
46
46
1.4ENST000002262794ENSE00000404201chr4:15835840-1583592586CD38_HUMAN167-195296A:167-195
B:167-195
C:167-195
D:167-195
E:167-195
F:167-195
29
29
29
29
29
29
1.5ENST000002262795ENSE00000705349chr4:15839715-1583978874CD38_HUMAN196-220256A:196-220
B:196-220
C:196-220
D:196-220
E:196-220
F:196-220
25
25
25
25
25
25
1.6ENST000002262796ENSE00000705347chr4:15841649-1584174193CD38_HUMAN220-251326A:220-251 (gaps)
B:220-251 (gaps)
C:220-251
D:220-251 (gaps)
E:220-251
F:220-251
32
32
32
32
32
32
1.7bENST000002262797bENSE00000404204chr4:15842075-1584216187CD38_HUMAN251-280306A:251-280
B:251-280
C:251-280
D:251-280
E:251-280
F:251-280
30
30
30
30
30
30
1.8bENST000002262798bENSE00001131136chr4:15850162-15851069908CD38_HUMAN280-300216A:280-281
B:280-281
C:280-281
D:280-280
E:280-281
F:280-280
2
2
2
1
2
1

(-) Sequences/Alignments

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:234
 aligned with CD38_HUMAN | P28907 from UniProtKB/Swiss-Prot  Length:300

    Alignment length:236
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275      
           CD38_HUMAN    46 WRQQWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCNITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLEDTLLGYLADDLTWCGEFNTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLNGSRSKIFDKNSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
               SCOP domains d3ofsa_ A: ADP ribosyl cyclase                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...ee....hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.......hhhhhhhhhhhh....hhhh.eeee.hhhhhhhhhhhh....hhhhhhhhhhhh................ee.........hhhhhhhhhhhhhhhhhh.eeeeeeee................hhhhh....eeeeeeeeee.--........hhhhhhhhhhhhhh..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------W--------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1b  PDB: A:46-78          -------------------------------------------Exon 1.3b  PDB: A:122-167 UniProt: 122-167    ----------------------------Exon 1.5  PDB: A:196-220 ------------------------------Exon 1.7b  PDB: A:251-280     - Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.2a  PDB: A:78-121 UniProt: 78-121    ---------------------------------------------Exon 1.4  PDB: A:167-195     ------------------------Exon 1.6  PDB: A:220-251 (gaps) ----------------------------1. Transcript 1 (2)
                 3ofs A  46 WRQTWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCDITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLADTLLGYLADDLTWCGEFDTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLDGSRSKIFDKDSTFGSVEVHNLQPEKVQTLEAWVIHG--EDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245  |    255       265       275      
                                                                                                                                                                                                                                 245  |                                 
                                                                                                                                                                                                                                    248                                 

Chain B from PDB  Type:PROTEIN  Length:234
 aligned with CD38_HUMAN | P28907 from UniProtKB/Swiss-Prot  Length:300

    Alignment length:236
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275      
           CD38_HUMAN    46 WRQQWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCNITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLEDTLLGYLADDLTWCGEFNTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLNGSRSKIFDKNSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
               SCOP domains d3ofsb_ B: ADP ribosyl cyclase                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee....hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh........hhhhhhhhhhh....hhhh.eeee.hhhhhhhhhhhh....hhhhhhhhhhhh................ee.........hhhhhhhhhhhhhhhhhh.eeeeeeee................hhhhh....eeeeeeeee..--....hhhhhhhhhhhhhhhhhh..eeeeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------W--------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1b  PDB: B:46-78          -------------------------------------------Exon 1.3b  PDB: B:122-167 UniProt: 122-167    ----------------------------Exon 1.5  PDB: B:196-220 ------------------------------Exon 1.7b  PDB: B:251-280     - Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.2a  PDB: B:78-121 UniProt: 78-121    ---------------------------------------------Exon 1.4  PDB: B:167-195     ------------------------Exon 1.6  PDB: B:220-251 (gaps) ----------------------------1. Transcript 1 (2)
                 3ofs B  46 WRQTWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCDITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLADTLLGYLADDLTWCGEFDTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLDGSRSKIFDKDSTFGSVEVHNLQPEKVQTLEAWVIHG--EDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245  |    255       265       275      
                                                                                                                                                                                                                                 245  |                                 
                                                                                                                                                                                                                                    248                                 

Chain C from PDB  Type:PROTEIN  Length:236
 aligned with CD38_HUMAN | P28907 from UniProtKB/Swiss-Prot  Length:300

    Alignment length:236
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275      
           CD38_HUMAN    46 WRQQWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCNITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLEDTLLGYLADDLTWCGEFNTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLNGSRSKIFDKNSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
               SCOP domains d3ofsc_ C: ADP ribosyl cyclase                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh........hhhhhhhhhhhh...hhhh.eeee.hhhhhhhhhhhhh...hhhhhhhhhhhh.....ee..eeee...ee.........hhhhhhhhhhhhhhhhhh.eeeeeeee..........hhhhhhhhhhh....eeeeeeeeee.......hhhhhhhhhhhhhhhhhh..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------W--------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1b  PDB: C:46-78          -------------------------------------------Exon 1.3b  PDB: C:122-167 UniProt: 122-167    ----------------------------Exon 1.5  PDB: C:196-220 ------------------------------Exon 1.7b  PDB: C:251-280     - Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.2a  PDB: C:78-121 UniProt: 78-121    ---------------------------------------------Exon 1.4  PDB: C:167-195     ------------------------Exon 1.6  PDB: C:220-251        ----------------------------1. Transcript 1 (2)
                 3ofs C  46 WRQTWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCDITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLADTLLGYLADDLTWCGEFDTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLDGSRSKIFDKDSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275      

Chain D from PDB  Type:PROTEIN  Length:233
 aligned with CD38_HUMAN | P28907 from UniProtKB/Swiss-Prot  Length:300

    Alignment length:235
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275     
           CD38_HUMAN    46 WRQQWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCNITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLEDTLLGYLADDLTWCGEFNTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLNGSRSKIFDKNSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYR 280
               SCOP domains d3ofsd_ D: ADP ribosyl cyclase                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...ee....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.......hhhhhhhhhhhhh...hhhh.eeee.hhhhhhhhhhhh....hhhhhhhhhhhh................ee.........hhhhhhhhhhhhhhhhhh.eeeeeeee................hhhhh....eeeeeeeee...--...hhhhhhhhhhhhhhhhh...eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------W-------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1b  PDB: D:46-78          -------------------------------------------Exon 1.3b  PDB: D:122-167 UniProt: 122-167    ----------------------------Exon 1.5  PDB: D:196-220 ------------------------------Exon 1.7b  PDB: D:251-280      Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.2a  PDB: D:78-121 UniProt: 78-121    ---------------------------------------------Exon 1.4  PDB: D:167-195     ------------------------Exon 1.6  PDB: D:220-251 (gaps) ----------------------------1 Transcript 1 (2)
                 3ofs D  46 WRQTWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCDITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLADTLLGYLADDLTWCGEFDTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLDGSRSKIFDKDSTFGSVEVHNLQPEKVQTLEAWVIHGG--DSRDLCQDPTIKELESIISKRNIQFSCKNIYR 280
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245|  |   255       265       275     
                                                                                                                                                                                                                                  246  |                               
                                                                                                                                                                                                                                     249                               

Chain E from PDB  Type:PROTEIN  Length:236
 aligned with CD38_HUMAN | P28907 from UniProtKB/Swiss-Prot  Length:300

    Alignment length:236
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275      
           CD38_HUMAN    46 WRQQWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCNITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLEDTLLGYLADDLTWCGEFNTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLNGSRSKIFDKNSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
               SCOP domains d3ofse_ E: ADP ribosyl cyclase                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.......hhhhhhhhhhhhh........eeee.hhhhhhhhhh......hhhhhhhhhhhh................ee.........hhhhhhhhhhhhhhhhhh.eeeeeeee..........hhhhhhhhhhh....eeeeeeeeee.......hhhhhhhhhhhhhhhhhh..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------W--------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1b  PDB: E:46-78          -------------------------------------------Exon 1.3b  PDB: E:122-167 UniProt: 122-167    ----------------------------Exon 1.5  PDB: E:196-220 ------------------------------Exon 1.7b  PDB: E:251-280     - Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.2a  PDB: E:78-121 UniProt: 78-121    ---------------------------------------------Exon 1.4  PDB: E:167-195     ------------------------Exon 1.6  PDB: E:220-251        ----------------------------1. Transcript 1 (2)
                 3ofs E  46 WRQTWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCDITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLADTLLGYLADDLTWCGEFDTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLDGSRSKIFDKDSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYRP 281
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275      

Chain F from PDB  Type:PROTEIN  Length:233
 aligned with CD38_HUMAN | P28907 from UniProtKB/Swiss-Prot  Length:300

    Alignment length:235
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275     
           CD38_HUMAN    46 WRQQWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCNITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQVQRDMFTLEDTLLGYLADDLTWCGEFNTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLNGSRSKIFDKNSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYR 280
               SCOP domains d3ofsf_ F: ADP ribosyl cyclase                                                                                                                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------Rib_hydrolayse-3ofsF01 F:56-280                                                                                                                                                                                                   Pfam domains (1)
           Pfam domains (2) ----------Rib_hydrolayse-3ofsF02 F:56-280                                                                                                                                                                                                   Pfam domains (2)
           Pfam domains (3) ----------Rib_hydrolayse-3ofsF03 F:56-280                                                                                                                                                                                                   Pfam domains (3)
           Pfam domains (4) ----------Rib_hydrolayse-3ofsF04 F:56-280                                                                                                                                                                                                   Pfam domains (4)
           Pfam domains (5) ----------Rib_hydrolayse-3ofsF05 F:56-280                                                                                                                                                                                                   Pfam domains (5)
           Pfam domains (6) ----------Rib_hydrolayse-3ofsF06 F:56-280                                                                                                                                                                                                   Pfam domains (6)
         Sec.struct. author ......ee....hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh........hhhhhhhhhhhh...hhhh.eeee.hhhhhhhhh..--...hhhhhhhhhhhh................ee.........hhhhhhhhhhhhhhhhhh.eeeeeeee................hhhhh....eeeeeeeeee.......hhhhhhhhhhhhhhhhhh..eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1b  PDB: F:46-78          -------------------------------------------Exon 1.3b  PDB: F:122-167 (gaps)              ----------------------------Exon 1.5  PDB: F:196-220 ------------------------------Exon 1.7b  PDB: F:251-280      Transcript 1 (1)
           Transcript 1 (2) --------------------------------Exon 1.2a  PDB: F:78-121 UniProt: 78-121    ---------------------------------------------Exon 1.4  PDB: F:167-195     ------------------------Exon 1.6  PDB: F:220-251        ----------------------------1 Transcript 1 (2)
                 3ofs F  46 WRQTWSGPGTTKRFPETVLARCVKYTEIHPEMRHVDCQSVWDAFKGAFISKHPCDITEEDYQPLMKLGTQTVPCNKILLWSRIKDLAHQFTQV--DMFTLADTLLGYLADDLTWCGEFDTSKINYQSCPDWRKDCSNNPVSVFWKTVSRRFAEAACDVVHVMLDGSRSKIFDKDSTFGSVEVHNLQPEKVQTLEAWVIHGGREDSRDLCQDPTIKELESIISKRNIQFSCKNIYR 280
                                    55        65        75        85        95       105       115       125       135  |  | 145       155       165       175       185       195       205       215       225       235       245       255       265       275     
                                                                                                                      138  |                                                                                                                                           
                                                                                                                         141                                                                                                                                           

   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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 6)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OFS)

(-) Pfam Domains  (1, 6)

Asymmetric Unit

(-) Gene Ontology  (37, 37)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (CD38_HUMAN | P28907)
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:0016798    hydrolase activity, acting on glycosyl bonds    Catalysis of the hydrolysis of any glycosyl bond.
    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:0050853    B cell receptor signaling pathway    A series of molecular signals initiated by the cross-linking of an antigen receptor on a B cell.
    GO:0097190    apoptotic signaling pathway    A series of molecular signals which triggers the apoptotic death of a cell. The pathway starts with reception of a signal, and ends when the execution phase of apoptosis is triggered.
    GO:0007565    female pregnancy    The set of physiological processes that allow an embryo or foetus to develop within the body of a female animal. It covers the time from fertilization of a female ovum by a male spermatozoon until birth.
    GO:0060292    long term synaptic depression    A process that modulates synaptic plasticity such that synapses are changed resulting in the decrease in the rate, or frequency of synaptic transmission at the synapse.
    GO:0043066    negative regulation of apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
    GO:0045779    negative regulation of bone resorption    Any process that stops, prevents, or reduces the frequency, rate or extent of bone resorption.
    GO:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0030890    positive regulation of B cell proliferation    Any process that activates or increases the rate or extent of B cell proliferation.
    GO:0030307    positive regulation of cell growth    Any process that activates or increases the frequency, rate, extent or direction of cell growth.
    GO:0007204    positive regulation of cytosolic calcium ion concentration    Any process that increases the concentration of calcium ions in the cytosol.
    GO:0032024    positive regulation of insulin secretion    Any process that activates or increases the frequency, rate or extent of the regulated release of insulin.
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0045907    positive regulation of vasoconstriction    Any process that activates or increases the frequency, rate or extent of vasoconstriction.
    GO:0034097    response to cytokine    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cytokine stimulus.
    GO:0042493    response to drug    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
    GO:0032355    response to estradiol    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of stimulus by estradiol, a C18 steroid hormone hydroxylated at C3 and C17 that acts as a potent estrogen.
    GO:0009725    response to hormone    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hormone stimulus.
    GO:0033194    response to hydroperoxide    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hydroperoxide stimulus. Hydroperoxides are monosubstitution products of hydrogen peroxide, HOOH.
    GO:0001666    response to hypoxia    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
    GO:0070555    response to interleukin-1    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an interleukin-1 stimulus.
    GO:0032570    response to progesterone    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a progesterone stimulus.
    GO:0032526    response to retinoic acid    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a retinoic acid stimulus.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    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:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    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.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        CD38_HUMAN | P289071yh3 1zvm 2ef1 2hct 2i65 2i66 2i67 2o3q 2o3r 2o3s 2o3t 2o3u 2pgj 2pgl 3dzf 3dzg 3dzh 3dzi 3dzj 3dzk 3f6y 3i9m 3i9n 3raj 3rok 3rom 3rop 3roq 3u4h 3u4i 4cmh 4f45 4f46 4ogw 4tmf 4xjs 4xjt 5f1k 5f1o 5f21

(-) Related Entries Specified in the PDB File

3i9m THE WILD TYPE CD38 IN COMPLEX WITH ARA-2'F-ADPR