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(-) Description

Title :  HUMAN SMP30/GNL-1,5-AG COMPLEX
 
Authors :  S. Aizawa, M. Senda, A. Harada, N. Maruyama, T. Ishida, T. Aigaki, A. Ish T. Senda
Date :  17 Aug 12  (Deposition) - 10 Apr 13  (Release) - 10 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Beta Propeller Structure, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Aizawa, M. Senda, A. Harada, N. Maruyama, T. Ishida, T. Aigaki, A. Ishigami, T. Senda
Structural Basis Of The Gamma-Lactone-Ring Formation In Ascorbic Acid Biosynthesis By The Senescence Marker Protein-30/Gluconolactonase
Plos One V. 8 53706 2013
PubMed-ID: 23349732  |  Reference-DOI: 10.1371/JOURNAL.PONE.0053706

(-) Compounds

Molecule 1 - REGUCALCIN
    ChainsA, B
    EC Number3.1.1.17
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-21B(+)
    Expression System StrainBL21 (DE3) ROSETTA2 PLYSS
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneSMP30
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymSMP30, GNL, RC, GLUCONOLACTONASE, SENESCENCE MARKER PROTEIN 30

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric Unit (2, 7)
No.NameCountTypeFull Name
1ASO5Ligand/Ion1,5-ANHYDROSORBITOL
2CA2Ligand/IonCALCIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1ASO2Ligand/Ion1,5-ANHYDROSORBITOL
2CA-1Ligand/IonCALCIUM ION
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1ASO3Ligand/Ion1,5-ANHYDROSORBITOL
2CA-1Ligand/IonCALCIUM ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:18 , ASP A:104 , ASN A:154 , ASP A:204 , ASO A:303 , HOH A:476BINDING SITE FOR RESIDUE CA A 301
2AC2SOFTWAREASN A:254 , TYR A:255 , GLY A:291 , ILE A:292 , ALA A:293BINDING SITE FOR RESIDUE ASO A 302
3AC3SOFTWAREGLU A:18 , ARG A:101 , ASN A:103 , ASP A:104 , ASP A:204 , THR A:246 , CA A:301BINDING SITE FOR RESIDUE ASO A 303
4AC4SOFTWAREGLU B:18 , ASP B:104 , ASN B:154 , ASP B:204 , ASO B:302 , HOH B:474BINDING SITE FOR RESIDUE CA B 301
5AC5SOFTWAREGLU B:18 , ILE B:34 , ARG B:101 , ASN B:103 , ASP B:104 , GLU B:121 , ASN B:154 , ASP B:204 , THR B:246 , CA B:301BINDING SITE FOR RESIDUE ASO B 302
6AC6SOFTWARETRP B:22 , GLU B:24 , GLY B:252 , LYS B:253 , ASN B:254 , TYR B:255 , HOH B:428BINDING SITE FOR RESIDUE ASO B 303
7AC7SOFTWAREGLU B:23 , SER B:26 , ARG B:41 , GLY B:67 , GLY B:68 , TYR B:69 , HOH B:475BINDING SITE FOR RESIDUE ASO B 304

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Pro A:124 -Ala A:125

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GNC)

(-) 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:298
                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee......eeeeeee....eeeeee....eeeeee.....eeeee....eeeeee.....eeeee..eeeeee....eeeeeee.......eeeeeeee.....eeeeeee............eeeeee.....eeeeeeee..eeeeee.....eeeeee....eeeeeeee....eeeeeeeeee.hhhhheeeeeee.....eeeeee...eeeeee....eeeeeee.....eeeeeeehhhhheeeeee.....hhhhhhhh.....eeeee.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gnc A   2 SSIKIECVLPENCRCGESPVWEEVSNSLLFVDIPAKKVCRWDSFTKQVQRVTMDAPVSSVALRQSGGYVATIGTKFCALNWKEQSAVVLATVDNDKKNNRFNDGKVDPAGRYFAGTMAEETAPAVLERHQGALYSLFPDHHVKKYFDQVDISNGLDWSLDHKIFYYIDSLSYSVDAFDYDLQTGQISNRRSVYKLEKEEQIPDGMCIDAEGKLWVACYNGGRVIRLDPVTGKRLQTVKLPVDKTTSCCFGGKNYSEMYVTCARDGMDPEGLLRQPEAGGIFKITGLGVKGIAPYSYAG 299
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291        

Chain B from PDB  Type:PROTEIN  Length:297
                                                                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......eeeeeeehhh.eeeeee....eeeeee.....eeeee....eeeeee.....eeeee..eeeeee....eeeeeee.......eeeeeeee.....eeeeeee............eeeeee.....eeeeeeee..eeeeee.....eeeeee....eeeeeee......eeeeeeeee.hhhhheeeeeee.....eeeeee...eeeeee....eeeeeee.....eeeeeeehhhhheeeeee.....hhhhhhhh.....eeeee.............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gnc B   3 SIKIECVLPENCRCGESPVWEEVSNSLLFVDIPAKKVCRWDSFTKQVQRVTMDAPVSSVALRQSGGYVATIGTKFCALNWKEQSAVVLATVDNDKKNNRFNDGKVDPAGRYFAGTMAEETAPAVLERHQGALYSLFPDHHVKKYFDQVDISNGLDWSLDHKIFYYIDSLSYSVDAFDYDLQTGQISNRRSVYKLEKEEQIPDGMCIDAEGKLWVACYNGGRVIRLDPVTGKRLQTVKLPVDKTTSCCFGGKNYSEMYVTCARDGMDPEGLLRQPEAGGIFKITGLGVKGIAPYSYAG 299
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       

   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 4GNC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (43, 43)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        RGN_HUMAN | Q154933g4e 3g4h 4gnb

(-) Related Entries Specified in the PDB File

4gn7 4gn8 4gn9 4gna 4gnb