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(-) Description

Title :  STRUCTURE OF A PRODUCT BOUND PHOSPHATASE
 
Authors :  C. W. Vander Kooi
Date :  13 Oct 14  (Deposition) - 07 Jan 15  (Release) - 04 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,C
Keywords :  Dual Specificity Phosphatase, Carbohydrate Binding Module, Phosphatase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Raththagala, M. K. Brewer, M. W. Parker, A. R. Sherwood, B. K. Wong, S. Hsu, T. M. Bridges, B. C. Paasch, L. M. Hellman, S. Husodo, D. A. Meekins, A. O. Taylor, B. D. Turner, K. D. Auger, V. V. Dukhande, S. Chakravarthy, P. Sanz, V. L. Woods, S. Li, C. W. Vander Kooi, M. S. Gentry
Structural Mechanism Of Laforin Function In Glycogen Dephosphorylation And Lafora Disease.
Mol. Cell V. 57 261 2015
PubMed-ID: 25544560  |  Reference-DOI: 10.1016/J.MOLCEL.2014.11.020

(-) Compounds

Molecule 1 - LAFORIN
    Chains: A, C
    EC Number: 3.1.3.-, 3.1.3.16, 3.1.3.48
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: EPM2A
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GLUCAN PHOSPHATASE, LAFORA PTPASE, LAFPTPASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 32)

Asymmetric/Biological Unit (2, 32)
No.NameCountTypeFull Name
1GLC30Ligand/IonALPHA-D-GLUCOSE
2PO42Ligand/IonPHOSPHATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:235 , SER A:266 , ASN A:267 , ALA A:268 , GLY A:269 , VAL A:270 , GLY A:271 , ARG A:272 , GLC A:405 , GLC A:406BINDING SITE FOR RESIDUE PO4 A 401
02AC2SOFTWARESER A:25 , TRP A:32 , TRP A:85 , GLC A:415 , GLC A:416BINDING SITE FOR RESIDUE GLC A 417
03AC3SOFTWAREASP C:235 , SER C:266 , ASN C:267 , ALA C:268 , GLY C:269 , VAL C:270 , GLY C:271 , ARG C:272 , GLC C:404 , GLC C:405 , GLC C:406BINDING SITE FOR RESIDUE PO4 C 401
04AC4SOFTWARESER C:25 , TRP C:32BINDING SITE FOR RESIDUE GLC C 415
05AC5SOFTWAREMET A:139 , THR A:142 , ASP A:197 , PRO A:234 , ASP A:235 , MET A:236 , SER A:237 , ARG A:241 , ASN A:267 , ALA A:268 , GLY A:271 , ARG A:272 , TYR A:304 , PO4 A:401 , GLC A:408 , GLC A:409 , GLC A:410 , HOH A:513 , HOH A:519 , HOH A:535 , LYS C:140 , THR C:143 , ASP C:144 , HOH C:543BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 402 TO 407
06AC6SOFTWAREGLC A:402 , GLC A:403 , LYS C:140 , ASP C:144 , PHE C:147 , HOH C:543BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 408 TO 410
07AC7SOFTWARETRP A:32 , LYS A:87 , TRP A:99 , ASN A:102 , GLY A:103 , PRO A:104 , ASP A:107 , GLC A:417BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 411 TO 416
08AC8SOFTWARELYS A:140 , THR A:143 , ASP A:144 , HOH A:536 , MET C:139 , THR C:143 , ASP C:197 , PRO C:234 , ASP C:235 , MET C:236 , ARG C:241 , ASN C:267 , GLY C:271 , ARG C:272 , TYR C:304 , PO4 C:401 , GLC C:408 , GLC C:409 , GLC C:410 , HOH C:520 , HOH C:556BINDING SITE FOR CHAIN C OF POLYSACCHARIDE RESIDUES 402 TO 407
09AC9SOFTWARELYS A:140 , ASP A:144 , PHE A:147 , HOH A:536 , TRP C:196 , GLC C:402 , GLC C:403BINDING SITE FOR CHAIN C OF POLYSACCHARIDE RESIDUES 408 TO 410
10BC1SOFTWAREARG A:31 , TRP C:32 , LYS C:87 , TRP C:99 , ASN C:102 , GLY C:103 , ASP C:107 , HOH C:569BINDING SITE FOR CHAIN C OF POLYSACCHARIDE RESIDUES 411 TO 414

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4RKK)

(-) Sequences/Alignments

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:317
                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeehhhhhh...eeeeee.hhhhh..hhhhhee.ee...............eeeeeeeeee.....eeeeeeee.....eee...hhhhheee..hhh.ee..eee...ee........hhhhhhhhhhhhhhhh....eeeee..eeee....hhhhhhh.........eeee..hhhhhhhhhhhhh......hhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhhhhhh...hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rkk A  -2 GSHMRFRFGVVVPPAVAGARPELLVVGSRPELGRWEPRGAVRLRPAGTAAGDGALALQEPGLWLGEVELAARVDTFWYKFLKREPGGELSWEGNGPHHDRCCTYNENNLVDGVYCLPIGHWIEATGHTNEMKHTTDFYFNIAGHQAMHYSRILPNIWLGSCPRQVEHVTIKLKHELGITAVMNFQTEWDIVQNSSGCNRYPEPMTPDTMIKLYREEGLAYIWMPTPDMSTEGRVQMLPQAVCLLHALLEKGHIVYVHSNAGVGRSTAAVCGWLQYVMGWNLRKVQYFLMAKRPAVYIDEEALARAQEDFFQKFGKVR 325
                                     7        17        27        37        47        57        67||      88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       
                                                                                                 68|                                                                                                                                                                                                                                                     
                                                                                                  80                                                                                                                                                                                                                                                     


Chain C from PDB  Type:PROTEIN  Length:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeehhhhhhh..eeeeee.hhhhh..hhhhhee.ee...............eeeeeeeeee.....eeeeeeee.....eee...hhhhheee..hhh.ee..eee...ee........hhhhhhhhhhhhhhh.....eeeee..eeee....hhhhhhh.........eeee..hhhhhhhhhhhhh......hhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhhhhhhhhh...eeee.....hhhhhhhhhhhhhh...hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rkk C  -2 GSHMRFRFGVVVPPAVAGARPELLVVGSRPELGRWEPRGAVRLRPAGTAAGDGALALQEPGLWLGEVELAARVDTFWYKFLKREPGGELSWEGNGPHHDRCCTYNENNLVDGVYCLPIGHWIEATGHTNEMKHTTDFYFNIAGHQAMHYSRILPNIWLGSCPRQVEHVTIKLKHELGITAVMNFQTEWDIVQNSSGCNRYPEPMTPDTMIKLYREEGLAYIWMPTPDMSTEGRVQMLPQAVCLLHALLEKGHIVYVHSNAGVGRSTAAVCGWLQYVMGWNLRKVQYFLMAKRPAVYIDEEALARAQEDFFQKFGK 323
                                     7        17        27        37        47        57        67||      88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318     
                                                                                                 68|                                                                                                                                                                                                                                                   
                                                                                                  80
   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 4RKK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

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        EPM2A_HUMAN | O95278: 4r30

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