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(-) Description

Title :  CRYSTAL STRUCTURE OF THE KOREAN PINE (PINUS KORAIENSIS) VICILIN
 
Authors :  T. C. Jin, Y. Wang, Y. Z. Zhang
Date :  25 Jun 13  (Deposition) - 22 Jan 14  (Release) - 15 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Seed Storage Protein, Allergen, Cupin, Seed Storage, Plant Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Jin, Y. Wang, Y. W. Chen, T. J. Fu, M. H. Kothary, T. H. Mchugh, Y. Zhang
Crystal Structure Of Korean Pine (Pinus Koraiensis ) 7S See Storage Protein With Copper Ligands.
J. Agric. Food Chem. V. 62 222 2014
PubMed-ID: 24328105  |  Reference-DOI: 10.1021/JF4039887

(-) Compounds

Molecule 1 - VICILIN
    Chains: A
    Organism Common: CHANNAMU
    Organism Scientific: PINUS KORAIENSIS
    Organism Taxid: 88728
    Other Details: SEEDS

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1CU1Ligand/IonCOPPER (II) ION
2GOL1Ligand/IonGLYCEROL
3PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION
2GOL3Ligand/IonGLYCEROL
3PO43Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:67 , CYS A:338 , PRO A:339 , HIS A:340 , HIS A:379BINDING SITE FOR RESIDUE CU A 501
2AC2SOFTWARESER A:323 , GLU A:383 , ARG A:405 , HOH A:611BINDING SITE FOR RESIDUE PO4 A 502
3AC3SOFTWAREILE A:85 , HIS A:120 , TYR A:191BINDING SITE FOR RESIDUE GOL A 503

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asn A:201 -Pro A:202

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LEJ)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:355
                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4leja1 A:65-231 automated matches                                                                                                                                     d4leja2 A:232-454 automated matches                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eehhhhheeeee...eeeee..hhhhhhhhhhhhh.eeeeeeee...eee..eee.eeeeeeeee.eeeeeeee..eeeeeeee..eeeee.....eeeee......eeeeeeeee.........eee........hhhhhhhhhhhhhhhh.hhhhhhh.........eee.......eehhhhh..eee..eeeeee....hhhhhhhheeeeeeee...eee..eee...eeeeeeee..eeeeeee........eeeeeee....eeee.....eeeee.....eeeeeeee......eee.....hhhhh.hhhhhhhhhh....hhhhhhhh......eee.hhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lej A  65 NPYVFHSDRFRIRASSEAGEIRALPNFGEVSELLEGISRYRVTCIEMKPNTVMLPHYIDAKWILYVTGGRGYIAYVQQNELVKRKLEEGDVFGVPSGHTFYLVNNDDHNSLRIASLLRTESTMRGEYEPFYVAGGRNPETVYSAFSDDVLEAAFNTDVQKLEHIFGAHRRGVIFYASEQPKPFNLRNQKPDFENDNGRFTRAGPKDNPFLDSVDVTVGFGVLNPGTMTAPSHNTKATSIAIVMEGEGRIEMACPHLQDINYERVRARLRTGTVYVVPAGHPITEIASTNGRLEILWFDINTSGNEREFLAGKNNVLQTLEKEVRHLSFNIPRGEEIEEVLQAQKDQVILRGPQRQ 454
                                    74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234     ||265       275       285       295       305       315       325       335     ||359       369       379       389       399       409       419       429       439       449     
                                                                                                                                                                                                         240|                                                                            341|                                                                                                  
                                                                                                                                                                                                          262                                                                             356
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 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

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