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(-) Description

Title :  HOMOLOGY MODEL OF A GALACTOSE-SPECIFIC C-TYPE LECTIN FROM BITIS ARIETANS VENOM.
 
Authors :  P. A. Abreu, M. G. Albuquerque, C. R. Rodrigues, H. C. Castro
Date :  29 Sep 06  (Deposition) - 10 Oct 06  (Release) - 10 Oct 06  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,B,C#
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 
Keywords :  Snake Venom Lectin, Galactose, Theoretical Model. (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. A. Abreu, M. G. Albuquerque, C. R. Rodrigues, H. C. Castro
Structure-Function Interferences Based On Molecular Modeling, Sequence-Based Methods And Biological Data Analysis Of Snake Venom Lectins
Toxicon
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BITIS ARIETANS C-TYPE LECTIN
    Chains: A, B
    Organism Scientific: BITIS ARIETANS
    Strain: VENOM

 Structural Features

(-) Chains, Units

  
Theoretical Model : 
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 

Summary Information (see also Sequences/Alignments below)

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

Theoretical Model (3, 3)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2GAL1Ligand/IonBETA-D-GALACTOSE
3NA1Ligand/IonSODIUM ION

(-) Sites  (0, 0)

(no "Site" information available for 2IJ6)

(-) SS Bonds  (9, 9)

Theoretical Model
No.Residues
1A:3 -A:14
2A:31 -A:131
3A:38 -A:133
4A:86 -B:86
5A:106 -A:123
6B:3 -B:14
7B:31 -B:131
8B:38 -B:133
9B:106 -B:123

(-) Cis Peptide Bonds  (2, 2)

Theoretical Model
No.Residues
1Gln A:96 -Pro A:97
2Gln B:96 -Pro B:97

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2IJ6)

(-) PROSITE Motifs  (2, 4)

Theoretical Model (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1C_TYPE_LECTIN_2PS50041 C-type lectin domain profile.LECG_BITAR10-132
 		  2A:10-132
B:10-132
2C_TYPE_LECTIN_1PS00615 C-type lectin domain signature.LECG_BITAR106-131
 		  2A:106-131
B:106-131

(-) Exons   (0, 0)

(no "Exon" information available for 2IJ6)

(-) Sequences/Alignments

Theoretical Model
   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:135
 aligned with LECG_BITAR | Q9PSN0 from UniProtKB/Swiss-Prot  Length:135

    Alignment length:135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     
           LECG_BITAR     1 NNCPPDWLPMNGLCYKIFDELKAWEDAERFCRKYKPGCHLASFHQYGESLEIAEYISDYHKGQAEVWIGLWDKKKDFSWEWTDRSCTDYLTWDKNQPDHYQNKEFCVELVSLTGYRLWNDQVCGSKNAFLCQCKF 135
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee..eeeeeeeeeehhhhhhhhhhhhh..eee....hhhhhhhhhhhhhhhh.....eeeeeee......eee.................hhhhh..eeee.hhhh...eeee.....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------C_TYPE_LECTIN_2  PDB: A:10-132 UniProt: 10-132                                                                             --- PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------C_TYPE_LECTIN_1           ---- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ij6 A   1 NNCPPDWLPMNGLCYKIFDELKAWEDAERFCRKYKPGCHLASFHQYGESLEIAEYISDYHKGQAEVWIGLWDKKKDFSWEWTDRSCTDYLTWDKNQPDHYQNKEFCVELVSLTGYRLWNDQVCGSKNAFLCQCKF 135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     


Chain B from PDB  Type:PROTEIN  Length:135
 aligned with LECG_BITAR | Q9PSN0 from UniProtKB/Swiss-Prot  Length:135

    Alignment length:135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     
           LECG_BITAR     1 NNCPPDWLPMNGLCYKIFDELKAWEDAERFCRKYKPGCHLASFHQYGESLEIAEYISDYHKGQAEVWIGLWDKKKDFSWEWTDRSCTDYLTWDKNQPDHYQNKEFCVELVSLTGYRLWNDQVCGSKNAFLCQCKF 135
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eee..eeeeeeeeeehhhhhhhhhhhhh..eee....hhhhhhhhhhhhhhhh.....eeeeeee......eee.................hhhhh..eeee.hhhh...eeee.....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------C_TYPE_LECTIN_2  PDB: B:10-132 UniProt: 10-132                                                                             --- PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------C_TYPE_LECTIN_1           ---- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ij6 B   1 NNCPPDWLPMNGLCYKIFDELKAWEDAERFCRKYKPGCHLASFHQYGESLEIAEYISDYHKGQAEVWIGLWDKKKDFSWEWTDRSCTDYLTWDKNQPDHYQNKEFCVELVSLTGYRLWNDQVCGSKNAFLCQCKF 135
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   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 2IJ6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2IJ6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2IJ6)

(-) Gene Ontology  (4, 4)

Theoretical Model(hide GO term definitions)
Chain A,B   (LECG_BITAR | Q9PSN0)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0000771    agglutination involved in conjugation    The aggregation or adhesion of compatible mating types via complementary cell-cell interactions prior to the formation of irreversible cellular contacts during conjugation.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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(-) Related Entries Specified in the PDB File

1jzn CRYSTAL STRUCTURE OF A GALACTOSE-SPECIFIC C-TYPE LECTIN