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(-) Description

Title :  CRYSTAL STRUCTURE OF A RECOMBINANT VATAIREA MACROCARPA SEED LECTIN COMPLEXED WITH TN ANTIGEN
 
Authors :  B. L. Sousa, J. C. Silva-Filho, P. Kumar, A. Lyskowski, G. A. Bezerra, P. Delatorre, B. A. M. Rocha, R. M. S. Cunha, C. S. Nagano, K. Gruber, B. S
Date :  23 Jan 15  (Deposition) - 27 Jan 16  (Release) - 27 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.97
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Legume, Recombinant Lectin, Vatairea, Tn Antigen, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. L. Sousa, J. C. Silva-Filho, P. Kumar, A. Lyskowski, G. A. Bezerra, P. Delatorre, B. A. M. Rocha, R. M. S. Cunha, C. S. Nagano, K. Gruber, B. S. Cavada
Crystal Structure Of A Recombinant Vatairea Macrocarpa Seed Lectin
Int. J. Biochem. Cell Biol. 2016
PubMed: search

(-) Compounds

Molecule 1 - SEED LECTIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-28A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organ: SEED
    Organism Scientific: VATAIREA MACROCARPA
    Organism Taxid: 77050
    Synonym: VML

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 11)

Asymmetric Unit (5, 11)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2CIT1Ligand/IonCITRIC ACID
3MN1Ligand/IonMANGANESE (II) ION
4SO47Ligand/IonSULFATE ION
5TNR1Ligand/IonO-(2-ACETAMIDO-2-DEOXY-ALPHA-D-GALACTOPYRANOSYL)-L-SERINE
Biological Unit 1 (3, 36)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CIT4Ligand/IonCITRIC ACID
3MN-1Ligand/IonMANGANESE (II) ION
4SO428Ligand/IonSULFATE ION
5TNR4Ligand/IonO-(2-ACETAMIDO-2-DEOXY-ALPHA-D-GALACTOPYRANOSYL)-L-SERINE

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:125 , PHE A:127 , ASN A:129 , ASP A:132 , HOH A:425 , HOH A:435binding site for residue CA A 301
02AC2SOFTWAREGLU A:123 , ASP A:125 , ASP A:132 , HIS A:137 , HOH A:433 , HOH A:434binding site for residue MN A 302
03AC3SOFTWARESER A:83 , LYS A:84 , THR A:85 , THR A:126 , PHE A:127 , SER A:128 , SER A:134 , ALA A:135 , ARG A:136 , HIS A:217 , SO4 A:305 , HOH A:458 , HOH A:472 , HOH A:473 , HOH A:487binding site for residue CIT A 303
04AC4SOFTWAREALA A:86 , ASP A:87 , GLY A:104 , GLY A:105 , PHE A:127 , ASN A:129 , GLY A:212 , LEU A:213 , SER A:214 , HIS A:217 , SO4 A:306 , HOH A:406 , HOH A:418 , HOH A:496binding site for residue TNR A 304
05AC5SOFTWARELYS A:84 , HIS A:217 , CIT A:303 , HOH A:406 , HOH A:458 , HOH A:487binding site for residue SO4 A 305
06AC6SOFTWAREASN A:129 , THR A:130 , TNR A:304 , HOH A:465 , HOH A:484binding site for residue SO4 A 306
07AC7SOFTWARELYS A:38 , TYR A:150 , ARG A:215 , HOH A:405binding site for residue SO4 A 307
08AC8SOFTWARELYS A:149 , ARG A:215 , HOH A:486 , HOH A:505binding site for residue SO4 A 308
09AC9SOFTWAREGLN A:101 , HOH A:403 , HOH A:414binding site for residue SO4 A 309
10AD1SOFTWARETHR A:27 , LYS A:29 , LYS A:31 , HOH A:404 , HOH A:409 , HOH A:443binding site for residue SO4 A 310
11AD2SOFTWARELYS A:159 , VAL A:160 , SER A:182 , HOH A:402 , HOH A:421binding site for residue SO4 A 311

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:86 -Asp A:87

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4XTP)

(-) 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:234
                                                                                                                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee.........eeeee..ee.....ee...ee..ee....eeeeee...ee..........eeeeeeeee..........eeeeeeee........hhhhh............eeeeee...........eeeeee......eeee........eeeeeeee....eeeeeeee....eeeeeeee.hhhhhh..eeeeeeeeee..........eeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4xtp A   1 SEVVSFSFTKFNPNPKDIILQGDALVTSKGKLQLTKVKDGKPVDHSLGRALYAAPIHIWDDSTDRVASFATSFSFVVEAPDESKTADGIAFFLAPPDTQPQKDGGFLGLFNDSNKSIQTVAVEFDTFSNTWDPSARHIGINVNSIESMKYVKWGWENGKVANVYISYEASTKTLTASLTYPSNATSYIVSANVDLKSALPEWVRVGFSATSGLSRDHVETHDVLDWSFTSTLQA 234
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4XTP)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

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  Cis Peptide Bonds
    Ala A:86 - Asp A:87   [ RasMol ]  
 
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  LECS_VATMA | P81371
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 Related Entries

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

UniProtKB/Swiss-Prot
        LECS_VATMA | P81371: 4u2a 4u36 4wv8 4xtm 4xxa

(-) Related Entries Specified in the PDB File

4wv8 CRYSTAL STRUCTURE OF A RECOMBINANT VATAIREA MACROCARPA SEED LECTIN COMPLEXED WITH LACTOSE
4xtm
4xxa