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(-) Description

Title :  TARG1 (C6ORF130), TERMINAL ADP-RIBOSE GLYCOHYDROLASE 1 BOUND TO ADP-HPD
 
Authors :  M. J. Schellenberg, C. D. Appel, J. Krahn, R. S. Williams
Date :  09 Feb 13  (Deposition) - 27 Mar 13  (Release) - 03 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.25
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Dna Repair, Cellular Signaling, Macro Domain, Glycohydrolase, Poly- Adp Ribose, Parp, Adp-Ribose, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Sharifi, R. Morra, C. D. Appel, M. Tallis, B. Chioza, G. Jankevicius M. A. Simpson, I. Matic, E. Ozkan, B. Golia, M. J. Schellenberg, R. Weston, J. G. Williams, M. N. Rossi, H. Galehdari, J. Krahn, A. Wan, R. C. Trembath, A. H. Crosby, D. Ahel, R. Hay, A. G. Ladurner, G. Timinszky, R. S. Williams, I. Ahel
Deficiency Of Terminal Adp-Ribose Protein Glycohydrolase Targ1/C6Orf130 In Neurodegenerative Disease.
Embo J. V. 32 1225 2013
PubMed-ID: 23481255  |  Reference-DOI: 10.1038/EMBOJ.2013.51

(-) Compounds

Molecule 1 - O-ACETYL-ADP-RIBOSE DEACETYLASE 1
    Chains: A, B
    EC Number: 3.5.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 11-152
    Gene: OARD1, C6ORF130
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric Unit (3, 12)
No.NameCountTypeFull Name
1A1R2Ligand/Ion5'-O-[(S)-{[(S)-{[(2R,3R,4S)-3,4-DIHYDROXYPYRROLIDIN-2-YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]ADENOSINE
2CL3Ligand/IonCHLORIDE ION
3EDO7Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1A1R1Ligand/Ion5'-O-[(S)-{[(S)-{[(2R,3R,4S)-3,4-DIHYDROXYPYRROLIDIN-2-YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]ADENOSINE
2CL-1Ligand/IonCHLORIDE ION
3EDO3Ligand/Ion1,2-ETHANEDIOL
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
1A1R1Ligand/Ion5'-O-[(S)-{[(S)-{[(2R,3R,4S)-3,4-DIHYDROXYPYRROLIDIN-2-YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]ADENOSINE
2CL-1Ligand/IonCHLORIDE ION
3EDO4Ligand/Ion1,2-ETHANEDIOL
Biological Unit 3 (2, 9)
No.NameCountTypeFull Name
1A1R2Ligand/Ion5'-O-[(S)-{[(S)-{[(2R,3R,4S)-3,4-DIHYDROXYPYRROLIDIN-2-YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]ADENOSINE
2CL-1Ligand/IonCHLORIDE ION
3EDO7Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:33 , MET A:40 , ALA A:42 , GLY A:43 , ILE A:44 , ALA A:45 , LEU A:47 , LYS A:84 , PRO A:118 , ARG A:119 , GLY A:121 , CYS A:122 , GLY A:123 , LEU A:124 , ASP A:125 , TYR A:150 , LEU A:152 , CL A:202 , HOH A:306 , HOH A:313 , HOH A:317 , HOH A:371 , HOH A:390 , HOH A:391 , HOH A:459 , HOH A:460 , HOH A:465 , HOH A:475 , HOH A:478 , HOH A:512 , HOH A:518 , HOH A:587 , GLU B:138 , HOH B:304 , HOH B:323BINDING SITE FOR RESIDUE A1R A 201
02AC2SOFTWARESER A:35 , ARG A:39 , MET A:40 , A1R A:201BINDING SITE FOR RESIDUE CL A 202
03AC3SOFTWAREGLU A:57 , GLU B:57BINDING SITE FOR RESIDUE CL A 203
04AC4SOFTWAREGLU A:36 , CYS A:38 , LEU A:58 , GLN A:62 , LYS A:63 , HOH A:363BINDING SITE FOR RESIDUE EDO A 204
05AC5SOFTWAREPHE A:22 , CYS A:24 , PRO A:25 , LYS A:26 , LYS A:51 , ARG A:76 , HOH A:542BINDING SITE FOR RESIDUE EDO A 205
06AC6SOFTWAREGLN A:97 , LYS A:98 , GLU A:101 , HOH A:351 , HOH A:354 , HOH A:355 , HOH A:404 , HOH A:441 , HOH A:588 , HOH A:608 , HOH B:493BINDING SITE FOR RESIDUE EDO A 206
07AC7SOFTWAREGLU A:138 , HOH A:302 , HOH A:314 , LEU B:21 , CYS B:33 , MET B:40 , ALA B:42 , GLY B:43 , ILE B:44 , ALA B:45 , LEU B:47 , LYS B:84 , PRO B:118 , ARG B:119 , GLY B:121 , CYS B:122 , GLY B:123 , LEU B:124 , ASP B:125 , CL B:202 , HOH B:306 , HOH B:331 , HOH B:363 , HOH B:389 , HOH B:420 , HOH B:427 , HOH B:460 , HOH B:462 , HOH B:466 , HOH B:492 , HOH B:493 , HOH B:518 , HOH B:580BINDING SITE FOR RESIDUE A1R B 201
08AC8SOFTWARESER B:35 , ARG B:39 , MET B:40 , A1R B:201BINDING SITE FOR RESIDUE CL B 202
09AC9SOFTWAREGLU B:36 , CYS B:38 , LEU B:58 , GLN B:62 , LYS B:63 , HOH B:467BINDING SITE FOR RESIDUE EDO B 203
10BC1SOFTWARETYR B:77 , ASN B:110 , HOH B:393 , HOH B:396 , HOH B:499 , HOH B:545 , HOH B:583BINDING SITE FOR RESIDUE EDO B 204
11BC2SOFTWAREPHE B:22 , CYS B:24 , PRO B:25 , LYS B:51 , ARG B:76BINDING SITE FOR RESIDUE EDO B 205
12BC3SOFTWAREPRO A:91 , HOH B:456BINDING SITE FOR RESIDUE EDO B 206

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4J5R)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4J5R)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4J5R)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4J5R)

(-) Exons   (0, 0)

(no "Exon" information available for 4J5R)

(-) 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:141
                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.hhhhh....eeeeeee........hhhhhhhhhhhhhhhhhhh....eeeeeee..eeeeeeeee.......hhhhhhhhhhhhhhhhhhhh..eeee..........hhhhhhhhhhhhhh....eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j5r A  12 SRITYVKGDLFACPKTDSLAHCISEDCRMGAGIAVLFKKKFGGVQELLNQQKKSGEVAVLKRDGRYIYYLITKKRASHKPTYENLQKSLEAMKSHCLKNGVTDLSMPRIGCGLDRLQWENVSAMIEEVFEATDIKITVYTL 152
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151 


Chain B from PDB  Type:PROTEIN  Length:139
                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..........eeeeeee........hhhhhhhhhhhhhhhhhhh....eeeeeee..eeeeeeeee.......hhhhhhhhhhhhhhhhhhhh..eeee..........hhhhhhhhhhhhhh....eeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j5r B  13 RITYVKGDLFACPKTDSLAHCISEDCRMGAGIAVLFKKKFGGVQELLNQQKKSGEVAVLKRDGRYIYYLITKKRASHKPTYENLQKSLEAMKSHCLKNGVTDLSMPRIGCGLDRLQWENVSAMIEEVFEATDIKITVYT 151
                                    22        32        42        52        62        72        82        92       102       112       122       132       142
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 4J5R)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4J5R)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (5, 5)

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        OARD1_HUMAN | Q9Y530: 2eee 2l8r 2lgr 4j5q 4j5s

(-) Related Entries Specified in the PDB File

4j5q 4j5s