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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SIX N-TERMINAL DOMAINS OF HUMAN RECEPTOR PROTEIN TYROSINE PHOSPHATASE SIGMA
 
Authors :  C. H. Coles, N. Mitakidis, P. Zhang, J. Elegheert, W. Lu, A. W. Stoker, T. A. M. Craig, E. Y. Jones, A. R. Aricescu
Date :  14 Apr 14  (Deposition) - 12 Nov 14  (Release) - 19 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.15
Chains :  Asym./Biol. Unit :  A
Keywords :  Signaling Protein, Synapse Cell Signalling Cell Surface Receptor, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. H. Coles, N. Mitakidis, P. Zhang, J. Elegheert, W. Lu, A. W. Stoker, T. Nakagawa, A. M. Craig, E. Y. Jones, A. R. Aricescu
Structural Basis For Extracellular Cis And Trans Rptp Sigma Signal Competition In Synaptogenesis.
Nat Commun V. 5 5209 2014
PubMed-ID: 25385546  |  Reference-DOI: 10.1038/NCOMMS6209

(-) Compounds

Molecule 1 - RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE S
    Chains: A
    EC Number: 3.1.3.48
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293T
    Expression System Common: HUMAN
    Expression System Plasmid: PHLSEC
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 30-588
    Gene: PTPRS
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: R-PTP-S,RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE SIGMA,R- PTP-SIGMA

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:250 , GLU A:286binding site for Mono-Saccharide NAG A 702 bound to ASN A 250
2AC2SOFTWARESER A:293 , ASN A:295 , GLN A:312binding site for Mono-Saccharide NAG A 701 bound to ASN A 295

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:54 -A:107
2A:156 -A:207
3A:253 -A:298

(-) Cis Peptide Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1Asp A:59 -Pro A:60
2Gln A:94 -Pro A:95
3Thr A:98 -Pro A:99
4Asn A:161 -Pro A:162
5Gly A:246 -Gly A:247
6Ser A:258 -Pro A:259
7Gly A:361 -Pro A:362

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PBX)

(-) 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:568
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee....eee............eee..........eeeeee....eeeeee..........eeeee.........eeeeeeee..........eeee....eeee....eee..eee.....eeeeee.............eee.....eee........eeeeeeee....eee...eeeeee...eeeeeee....eee.....eee..eeeee...eeeeee.................eee.......eeeeeee....eeeeeeeeee..........eeeee....eeee..........eeeeeeee.......eeeeee...eeee.......eeeeeeeee....eeee...eeee..........eeeeeee.....eeeeee........eeeeeeeee..........eeee.....eeee.......eeeeeeeeee..........eeee.........eeeeeeeee..eeeeeee........eeeeeeee......eeeee....eeee.......eeeeeeeeee..eeeee...eeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pbx A  35 FIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETDQGKYECVATNSAGVRYSSPANLYVRVRRVAPRFSILPMSHEIMPGGNVNITCVAVGSPMPYVKWMQGAEDLTPEDDMPVGRNVLELTDVKDSANYTCVAMSSLGVIEAVAQITVKSLPKAPGTPMVTENTATSITITWDSGNPDPVSYYVIEYKSKSQDGPYQIKEDITTTRYSIGGLSPNSEYEIWVSAVNSIGQGPPSESVVTRTGEQAPASAPRNVQARMLSATTMIVQWEEPVEPNGLIRGYRVYYTMEPEHPVGNWQKHNVDDSLLTTVGSLLEDETYTVRVLAFTSVGDGPLSDPIQVKTQQGVPGQPMNLRAEARSETSITLSWSPPRQESIIKYELLFREGDHGREVGRTFDPTTSYVVEDLKPNTEYAFRLAARSPQGLGAFTPVVRQRTLG 602
                                    44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594
   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 4PBX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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    Asp A:59 - Pro A:60   [ RasMol ]  
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    Gly A:246 - Gly A:247   [ RasMol ]  
    Gly A:361 - Pro A:362   [ RasMol ]  
    Ser A:258 - Pro A:259   [ RasMol ]  
    Thr A:98 - Pro A:99   [ RasMol ]  
 

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  PTPRS_HUMAN | Q13332
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 Related Entries

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

UniProtKB/Swiss-Prot
        PTPRS_HUMAN | Q13332: 2fh7 2yd2 2yd3 2yd9 4bpc

(-) Related Entries Specified in the PDB File

2yd2 CRYSTAL STRUCTURE OF THE N-TERMINAL IG1-2 MODULE OF HUMAN RECEPTOR PROTEIN TYROSINE PHOSPHATASE SIGMA
2yd3 CRYSTAL STRUCTURE OF THE N-TERMINAL IG1-2 MODULE OF HUMAN RECEPTOR PROTEIN TYROSINE PHOSPHATASE SIGMA
2yd9 CRYSTAL STRUCTURE OF THE N-TERMINAL IG1-3 MODULE OF HUMAN RECEPTOR PROTEIN TYROSINE PHOSPHATASE SIGMA