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(-) Description

Title :  CRYSTAL STRUCTURE OF PUMPKIN SEED GLOBULIN
 
Authors :  T. Itoh, T. Fukuda, B. Mikami, S. Utsumi
Date :  01 Nov 05  (Deposition) - 14 Nov 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Cucubitin, Pumpkin Seed Storage Globulin, Plant Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Itoh, T. Fukuda, B. Mikami, S. Utsumi
Crystal Structure Of Pumpkin Seed Globulin
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 11S GLOBULIN BETA SUBUNIT
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET21D
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Common: WINTER SQUASH
    Organism Scientific: CUCURBITA MAXIMA
    Organism Taxid: 3661
    Synonym: GLOBULIN CUCURBITIN
    Tissue: SEED

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:345 , LYS A:387BINDING SITE FOR RESIDUE MG A 501
2AC2SOFTWAREVAL A:335 , HIS A:338 , LYS A:387 , ARG A:447BINDING SITE FOR RESIDUE MG A 502

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:27 -A:60
2A:103 -A:282

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2EVX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2EVX)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
111S_SEED_STORAGEPS00305 11-S plant seed storage proteins signature.11SB_CUCMA296-318  1A:279-297
Biological Unit 1 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
111S_SEED_STORAGEPS00305 11-S plant seed storage proteins signature.11SB_CUCMA296-318  3A:279-297

(-) Exons   (0, 0)

(no "Exon" information available for 2EVX)

(-) 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:382
 aligned with 11SB_CUCMA | P13744 from UniProtKB/Swiss-Prot  Length:480

    Alignment length:428
                                    56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466        
           11SB_CUCMA    47 ACRLENLRAQDPVRRAEAEAIFTEVWDQDNDEFQCAGVNMIRHTIRPKGLLLPGFSNAPKLIFVAQGFGIRGIAIPGCAETYQTDLRRSQSAGSAFKDQHQKIRPFREGDLLVVPAGVSHWMYNRGQSDLVLIVFADTRNVANQIDPYLRKFYLAGRPEQVERGVEEWERSSRKGSSGEKSGNIFSGFADEFLEEAFQIDGGLVRKLKGEDDERDRIVQVDEDFEVLLPEKDEEERSRGRYIESESESENGLEETICTLRLKQNIGRSVRADVFNPRGGRISTANYHTLPILRQVRLSAERGVLYSNAMVAPHYTVNSHSVMYATRGNARVQVVDNFGQSVFDGEVREGQVLMIPQNFVVIKRASDRGFEWIAFKTNDNAITNLLAGRVSQMRMLPLGVLSNMYRISREEAQRLKYGQQEMRVLSPGR 474
               SCOP domains d2evxa1 A:26-253 automated matches                                                                                                                                                                                                                           --d2evxa2 A:281-453 automated matches                                                                                                                                           SCOP domains
               CATH domains 2evxA01 A:26-290 Jelly Rolls                                                                                                                                                                                                                                             2evxA02 A:291-453 Jelly Rolls                                                                                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeee...eeeee....hhhhhhhheeeeeeee...eeeeeeee...eeeeeee.eeeeee........ee....--------...ee...eeee..eeeee.....eeeee.....eeeeeeee.............eee............-------------..........hhhhhhhhhh.hhhhhhhhhh.......eee.........-------------------------hhhhhh..eee........eee...eeeeee......hhhhhh.eeeeeee....eeeeeee....eeeeeeeeeeeeeee.....eeeeeeee...eeee....eeeeeeeeeeeeeeeee......eee.....hhhhhhhhhhhhhhhh.hhhhhhhhhh......ee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------11S_SEED_STORAGE       ------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2evx A  26 ACRLENLRAQDPVRRAEAEAGFTEVWDQDNDEFQCAGVNMIRHTIRPKGLLLPGFSNAPKLIFVAQGFGIRGIAIPGCAETYQTDLR--------FKDQHQKIRPFREGDLLVVPAGVSHWMYNRGQSDLVLIVFADTRNVANQIDPYLRKFYLAGRPEQVERGV-------------EKSGNIFSGFADEFLEEAFQIDGGLVRKLKGEDDERDRIVQVDEDFEVLL-------------------------ETICTLRLKQNIGRSERADVFNPRGGRISTANYHTLPILRQVRLSAERGVLYSNAMVAPHYTVNSHSVMYATRGNARVQVVDNFGQSVFDGEVREGQVLMIPQNFVVIKRASDRGFEWIAFKTNDNAITNLLAGRVSQMRMLPLGVLSNMYRISREEAQRLKYGQQEMRVLSPGR 453
                                    35        45        55        65        75        85        95       105      |  -     | 125       135       145       155       165       175       185    |    -       205       215       225       235       245       | -         -         -   |   285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445        
                                                                                                                112      121                                                                  190           204                                              253                       279
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (1, 2)

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

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2EVX)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (11SB_CUCMA | P13744)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0045735    nutrient reservoir activity    Functions in the storage of nutritious substrates.

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 Related Entries

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UniProtKB/Swiss-Prot
        11SB_CUCMA | P13744: 2e9q

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