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(-) Description

Title :  STRUCTURE OF HUMAN LAFORIN DUAL SPECIFICITY PHOSPHATASE DOMAIN
 
Authors :  R. S. Sankhala, A. C. Koksal, G. Cingolani
Date :  13 Aug 14  (Deposition) - 31 Dec 14  (Release) - 11 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Dual Specificity Phosphatase, Glucan Phosphatase, Malin, Glycogen, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. S. Sankhala, A. C. Koksal, L. Ho, F. Nitschke, B. A. Minassian, G. Cingolani
Dimeric Quaternary Structure Of Human Laforin.
J. Biol. Chem. V. 290 4552 2015
PubMed-ID: 25538239  |  Reference-DOI: 10.1074/JBC.M114.627406

(-) Compounds

Molecule 1 - LAFORIN
    Chains: A, B, C, D
    EC Number: 3.1.3.-, 3.1.3.16, 3.1.3.48
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE80L
    Expression System Strain: BL21(RIL)
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: DUAL SPECIFICITY PHOSPHATASE DOMAIN (UNP RESIDUES 148-331)
    Gene: EPM2A
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GLUCAN PHOSPHATASE, LAFORA PTPASE, LAFPTPASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 16)

Asymmetric Unit (2, 16)
No.NameCountTypeFull Name
1BME12Ligand/IonBETA-MERCAPTOETHANOL
2SO44Ligand/IonSULFATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1BME3Ligand/IonBETA-MERCAPTOETHANOL
2SO41Ligand/IonSULFATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1BME3Ligand/IonBETA-MERCAPTOETHANOL
2SO41Ligand/IonSULFATE ION
Biological Unit 3 (2, 4)
No.NameCountTypeFull Name
1BME3Ligand/IonBETA-MERCAPTOETHANOL
2SO41Ligand/IonSULFATE ION
Biological Unit 4 (2, 4)
No.NameCountTypeFull Name
1BME3Ligand/IonBETA-MERCAPTOETHANOL
2SO41Ligand/IonSULFATE ION

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWARESER A:266 , ASN A:267 , GLY A:269 , VAL A:270 , GLY A:271 , ARG A:272BINDING SITE FOR RESIDUE SO4 A 501
02AC2SOFTWARECYS A:250 , VAL A:324 , HOH A:636 , ALA C:254BINDING SITE FOR RESIDUE BME A 502
03AC3SOFTWARETHR A:274 , CYS A:278 , LEU A:289 , PRO A:301 , LEU A:310BINDING SITE FOR RESIDUE BME A 503
04AC4SOFTWAREASN A:163 , CYS A:329 , TYR C:294BINDING SITE FOR RESIDUE BME A 504
05AC5SOFTWARESER B:266 , ASN B:267 , GLY B:269 , VAL B:270 , GLY B:271 , ARG B:272BINDING SITE FOR RESIDUE SO4 B 501
06AC6SOFTWARECYS B:250 , BME D:502BINDING SITE FOR RESIDUE BME B 502
07AC7SOFTWARECYS B:278 , LEU B:289 , PRO B:301BINDING SITE FOR RESIDUE BME B 503
08AC8SOFTWAREASN B:163 , VAL B:328 , CYS B:329 , LEU B:331BINDING SITE FOR RESIDUE BME B 504
09AC9SOFTWARESER C:266 , ASN C:267 , GLY C:269 , VAL C:270 , GLY C:271 , ARG C:272BINDING SITE FOR RESIDUE SO4 C 501
10BC1SOFTWARECYS C:250 , HIS C:253BINDING SITE FOR RESIDUE BME C 502
11BC2SOFTWARETHR C:274 , CYS C:278 , LEU C:289 , PRO C:301 , LEU C:310BINDING SITE FOR RESIDUE BME C 503
12BC3SOFTWARETYR A:294 , VAL C:328 , CYS C:329BINDING SITE FOR RESIDUE BME C 504
13BC4SOFTWARESER D:266 , ASN D:267 , GLY D:269 , VAL D:270 , GLY D:271 , ARG D:272BINDING SITE FOR RESIDUE SO4 D 501
14BC5SOFTWAREBME B:502 , CYS D:250 , HIS D:253 , ALA D:254BINDING SITE FOR RESIDUE BME D 502
15BC6SOFTWARETHR D:274 , CYS D:278 , LEU D:289 , PRO D:301 , LEU D:310BINDING SITE FOR RESIDUE BME D 503
16BC7SOFTWARETYR B:294 , VAL D:328 , CYS D:329 , LEU D:331BINDING SITE FOR RESIDUE BME D 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4R30)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4R30)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4R30)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4R30)

(-) Exons   (0, 0)

(no "Exon" information available for 4R30)

(-) 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:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..eeee....hhhhhhh.........eeee..hhhhhhhhhhhhh......hhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...hhhhhhhhhh........hhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r30 A 153 QAMHYSRILPNIWLGSCPRQVEHVTIKLKHELGITAVMNFQTEWDIVQNSSGCNRYPEPMTPDTMIKLYREEGLAYIWMPTPDMSTEGRVQMLPQAVCLLHALLEKGHIVYVHSNAGVGRSTAAVCGWLQYVMGWNLRKVQYFLMAKRPAVYIDEEALARAQEDFFQKFGKVRSSVCSL 331
                                   162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322         


Chain B from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..eeee....hhhhhhh.........eeee..hhhhhhhhhhhhh......hhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...hhhhhhhhhh........hhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r30 B 153 QAMHYSRILPNIWLGSCPRQVEHVTIKLKHELGITAVMNFQTEWDIVQNSSGCNRYPEPMTPDTMIKLYREEGLAYIWMPTPDMSTEGRVQMLPQAVCLLHALLEKGHIVYVHSNAGVGRSTAAVCGWLQYVMGWNLRKVQYFLMAKRPAVYIDEEALARAQEDFFQKFGKVRSSVCSL 331
                                   162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322         


Chain C from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..eeee....hhhhhhh.........eeee..hhhhhhhhhhhhh......hhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...hhhhhhhhhh........hhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r30 C 153 QAMHYSRILPNIWLGSCPRQVEHVTIKLKHELGITAVMNFQTEWDIVQNSSGCNRYPEPMTPDTMIKLYREEGLAYIWMPTPDMSTEGRVQMLPQAVCLLHALLEKGHIVYVHSNAGVGRSTAAVCGWLQYVMGWNLRKVQYFLMAKRPAVYIDEEALARAQEDFFQKFGKVRSSVCSL 331
                                   162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322         


Chain D from PDB  Type:PROTEIN  Length:179
                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..eeee....hhhhhhh.........eeee..hhhhhhhhhhhhh......hhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhhhhhhh..eeee....hhhhhhhhhhhhhhh...hhhhhhhhhh........hhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4r30 D 153 QAMHYSRILPNIWLGSCPRQVEHVTIKLKHELGITAVMNFQTEWDIVQNSSGCNRYPEPMTPDTMIKLYREEGLAYIWMPTPDMSTEGRVQMLPQAVCLLHALLEKGHIVYVHSNAGVGRSTAAVCGWLQYVMGWNLRKVQYFLMAKRPAVYIDEEALARAQEDFFQKFGKVRSSVCSL 331
                                   162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322
   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  (0, 0)

(no "SCOP Domain" information available for 4R30)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4R30)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4R30)

(-) Gene Ontology  (27, 27)

Asymmetric Unit(hide GO term definitions)

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