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(-) Description

Title :  CRYSTAL STRUCTURE OF TRICHOSANTHES KIRILOWII LECTIN-1 AND ITS RELATION TO THE TYPE 2 RIBOSOME INACTIVATING PROTEINS
 
Authors :  M. Li, J. J. Chai, Y. P. Wang, K. Y. Wang, R. C. Bi
Date :  07 Sep 00  (Deposition) - 18 Mar 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Trichosanthes Kirilowii, Lectin, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Li, J. J. Chai, Y. P. Wang, K. Y. Wang, R. C. Bi
Crystal Structure Of Trichosanthes Kirilowii Lectin-1 And Its Relation To The Type 2 Ribosome Inactivating Proteins
Protein Pept. Lett. V. 8 81 2003
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (LECTIN 1 A CHAIN)
    Chains: A
    Organism Scientific: TRICHOSANTHES KIRILOWII
    Organism Taxid: 3677
    Synonym: TKL-1
 
Molecule 2 - PROTEIN (LECTIN 1 B CHAIN)
    Chains: B
    Organism Scientific: TRICHOSANTHES KIRILOWII
    Organism Taxid: 3677
    Synonym: TKL-1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1GGP)

(-) Sites  (0, 0)

(no "Site" information available for 1GGP)

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:248 -B:11
2B:25 -B:44
3B:68 -B:85
4B:156 -B:169
5B:195 -B:212

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1GGP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1GGP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1GGP)

(-) Exons   (0, 0)

(no "Exon" information available for 1GGP)

(-) 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:234
 aligned with Q7SIF0_TRIKI | Q7SIF0 from UniProtKB/TrEMBL  Length:234

    Alignment length:234
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230    
         Q7SIF0_TRIKI     1 STDASYNADIKEERDAAEGPMAHGIPALNAGALDEARAYATVDSANTDEEVSVAVDVTNLAVVAYRAGSNSYFHAAAPGSSLSHLFSRSSQHTLGFDNTYGDMAQAAGSNRKAIPLGAAALESGIASLNSKNPLARTLMVIIQMLVEAARFRYIQNNVDVSIETQSAFAADAAMISLENNWANLSALVQGSSGGQGTFASSATLQNAEDEPIIVDAVYHPTVAAVLALMLRKAC 234
               SCOP domains d1ggpa_ A: Lectin 1 A-chain                                                                                                                                                                                                                SCOP domains
               CATH domains 1ggpA01 A:12-166 Ricin (A subunit), domain 1                                                                                                         1ggpA02 A:167-248 Ricin (A Subunit), domain 2                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.......................eeeeee......eeeeee.....eeeee....eee....hhhhhhhh.............hhhhhhhhhh.hhhh.eehhhhhhhhhhhhhhh...hhhhhhhhhhhh....hhhhhhhhhhhhhhh..ee.hhhhhhhhhhhhhhhhhhhh......eeeeeeeee.....eeeeee..hhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1ggp A  12 STDASYNADIKEERDAAEGPMAHGIPALNAGALDEARAYATVDSANTDEEVSVAVDVTNLAVVAYRAGSNSYFHAAAPGSSLSHLFSRSSQHTLGFDNTYGDMAQAAGSNRKAIPLGAAALESGIASLNSKNPLARTLMVIIQMLVEAARFRYIQNNVDVSIETQSAFAADAAMISLENNWANLSALVQGSSGGQGTFASSATLQNAEDEPIIVDAVYHPTVAAVLALMLRKAC 248
                                    21        31        41|       52     || 63        73        83        93       103       113       123       133       143  ||   157       167       177       187       197       207 ||||  215       225       235  |||  244    
                                                        41|             58|                                                                                   146|                                                       209|||                         238||         
                                                         43              60                                                                                    151                                                        601||                          603|         
                                                                                                                                                                                                                           602|                           239         
                                                                                                                                                                                                                            210                                       


Chain B from PDB  Type:PROTEIN  Length:254
 aligned with Q7SIF1_TRIKI | Q7SIF1 from UniProtKB/TrEMBL  Length:254

    Alignment length:254
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250    
         Q7SIF1_TRIKI     1 CAAATVRIAGRDGFCADVNGEGQNGAAIILKKCAENDNQLWTLKREATIRSNGGCLTTAAAEQAKAGIYDCTQATAELSAWEIADNGTIINPASSLVLSSGAANSLLDLGVQTNSYASAQGWRTGNETSASVTQISGSAQLCMQAGNGPANLWMSECRAGKAEQQWALLTDKSIRSETNSDNCLTSAADAGPKTILLALCSGPASQRWVFDDDGSILSLYDDKQMDSEGAAAAAKQIILWWNAAEPNQIWLALF 254
               SCOP domains d1ggpb1 B:11-140 Plant cytotoxin B-chain (lectin)                                                                             d1ggpb2 B:141-267 Plant cytotoxin B-chain (lectin)                                                                               SCOP domains
               CATH domains 1ggpB01 B:11-143  [code=2.80.10.50, no name defined]                                                                             1ggpB02 B:144-267  [code=2.80.10.50, no name defined]                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeehhh.eeeee.........eeeee.......eeeee..........eeeee.....eeeee.....hhhhhh.ee.....ee......eee.......ee.eee..........ee......eeeeeehhhhhee..........ee.........eeeee...eeee.....eee............eee.........ee.....ee......eeee.........eeee....hhhhh.eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ggp B  11 CAAATVRIAGRDGFCADVNGEGQNGAAIILKKCAENDNQLWTLKREATIRSNGGCLTTAAAEQAKAGIYDCTQATAELSAWEIADNGTIINPASSLVLSSGAANSLLDLGVQTNSYASAQGWRTGNETSASVTQISGSAQLCMQAGNGPANLWMSECRAGKAEQQWALLTDKSIRSETNSDNCLTSAADAGPKTILLALCSGPASQRWVFDDDGSILSLYDDKQMDSEGAAAAAKQIILWWNAAEPNQIWLALF 267
                                    20        30  ||    41   ||   53        63        73||      84        94       104       114       124       134       144       154    |||605|      172       182       192       202       212|      223       233       243       253       263    
                                                 33|        45|                        74|                                                                                159|| |||                                              212|                                                     
                                                  35         48                         76                                                                                 604| |||                                               214                                                     
                                                                                                                                                                            160 |||                                                                                                       
                                                                                                                                                                              162||                                                                                                       
                                                                                                                                                                               605|                                                                                                       
                                                                                                                                                                                163
   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  (2, 3)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (3, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Few Secondary Structures (1120)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1GGP)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q7SIF0_TRIKI | Q7SIF0)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0030598    rRNA N-glycosylase activity    Catalysis of the hydrolysis of the N-glycosylic bond at A-4324 in 28S rRNA from rat ribosomes or corresponding sites in 28S RNA from other species.
biological process
    GO:0006952    defense response    Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
    GO:0017148    negative regulation of translation    Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.

Chain B   (Q7SIF1_TRIKI | Q7SIF1)

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