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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ANTI-AAHI FAB9C2 ANTIBODY
 
Authors :  I. P. Fabrichny, G. Mondielli, S. Conrod, M. F. Martin-Eauclaire, Y. Bo P. Marchot
Date :  10 Jan 12  (Deposition) - 07 Mar 12  (Release) - 02 May 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immune System, Androctonus, Alpha-Toxin, Combining Site, Epitope, Pharmacological Site, Venom, Voltage- Activated Sodium Channel, Scorpion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. P. Fabrichny, G. Mondielli, S. Conrod, M. F. Martin-Eauclaire, Y. Bourne, P. Marchot
Structural Insights Into Antibody Sequestering And Neutralizing Of Na+-Channel & [Alpha]-Type Modulator From Old-World Scorpion Venom
J. Biol. Chem. V. 287 14136 2012
PubMed-ID: 22371498  |  Reference-DOI: 10.1074/JBC.M111.315382
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FAB ANTIBODY, HEAVY CHAIN
    Chains: H
    Fragment: VARIABLE DOMAIN, RESIDUES 1-231
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: IGG2A, K-ISSUED ANTIBODY
 
Molecule 2 - FAB ANTIBODY, LIGHT CHAIN
    Chains: L
    Fragment: VARIABLE DOMAIN, RESIDUES 1-214
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: IGG2A, K-ISSUED ANTIBODY

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : HL

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4AEH)

(-) Sites  (0, 0)

(no "Site" information available for 4AEH)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:146 -H:201
3L:23 -L:88
4L:134 -L:194

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Phe H:152 -Pro H:153
2Glu H:154 -Pro H:155
3Trp H:194 -Pro H:195
4Ser L:7 -Pro L:8
5Ile L:94 -Pro L:95
6Tyr L:140 -Pro L:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4AEH)

(-) 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 H from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...eeee.....eeeeeeee..hhhhh.eeeeee.....eeeeeeee....eeee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeeeee....eeeee...eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.........eeeeeehhhheeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4aeh H   1 QVQLQQPGAEVVKPGASVRLSCKASGYSFTSNWINWVKQRPGQGLEWIGNISPGGSNTNHNEKFKSKATLTADTSSSTAYMQLSSLTSDDSAVYYCARYDGDYGSFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSESITCNVAHPASSTKVDKKIEPRG 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220


Chain L from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                    
               SCOP domains d4aehl1 L:1-107 automated matches                                                                          d4aehl2 L:108-212 automated matches                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee...........eeeee.......eeeee..hhhhhhh.eeeeeeeeeee....eeeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeeee..eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4aeh L   1 DVQMTQSPASLSVSVGETVTITCRASENIYRNLAWYQQKQGKSPQLLVYAATNLAAGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYCQHFWNIPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   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, 2)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4AEH)

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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 4aeh)
 
  Cis Peptide Bonds
    Glu H:154 - Pro H:155   [ RasMol ]  
    Ile L:94 - Pro L:95   [ RasMol ]  
    Phe H:152 - Pro H:153   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Trp H:194 - Pro H:195   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
 

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