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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ANTI-PRION FAB 3F4
 
Authors :  Z. F. Kanyo, K. M. Pan, R. A. Williamson, D. R. Burton, S. B. Prusiner, R. J. Fletterick, F. E. Cohen
Date :  14 Aug 99  (Deposition) - 17 Apr 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Anti-Prion Antibody, Fab 3F4, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. F. Kanyo, K. M. Pan, R. A. Williamson, D. R. Burton, S. B. Prusiner, R. J. Fletterick, F. E. Cohen
Antibody Binding Defines A Structure For An Epitope That Participates In The Prpc-->Prpsc Conformational Change.
J. Mol. Biol. V. 293 855 1999
PubMed-ID: 10543972  |  Reference-DOI: 10.1006/JMBI.1999.3193
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FAB ANTIBODY LIGHT CHAIN
    Chains: L
    Fragment: HEAVY CHAIN
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: ANTI-PRION FAB 3F4
 
Molecule 2 - FAB ANTIBODY HEAVY CHAIN
    Chains: H
    Fragment: LIGHT CHAIN
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: ANTI-PRION FAB 3F4

 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 1CR9)

(-) Sites  (0, 0)

(no "Site" information available for 1CR9)

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:137 -H:192
3L:23 -L:88
4L:134 -L:194
5L:214 -H:125

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Thr L:7 -Pro L:8
2Phe L:94 -Pro L:95
3Tyr L:140 -Pro L:141
4Phe H:143 -Pro H:144
5Glu H:145 -Pro H:146
6Trp H:185 -Pro H:186

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1CR9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1CR9)

(-) Exons   (0, 0)

(no "Exon" information available for 1CR9)

(-) 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:217
                                                                                                                                                                                                                                                          
               SCOP domains d1cr9h1 H:1-110 Immunoglobulin heavy chain variable domain, VH                                                    d1cr9h2 H:111-213 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                         SCOP domains
               CATH domains 1cr9H01 H:1-110 Immunoglobulins                                                                                   1cr9H02 H:111-209 Immunoglobulins                                                                  ---- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...eee.....eeeeeee...hhhhh.eeeeee.....eeeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeee....eee..eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh....eeeeeeeee..eeeeeeeeeee.........eeeeeehhhheeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1cr9 H    1 KVKLQQSGAELVRSGASVKLSCTASGFNIKDYYIQWVKQRPEQGLEWIGWIDPENGNSEYAPRFQGKATMTADTLSNTAYLQLSSLTSEDTAVYYCNADLHDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRVTS  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96       106       116       126       136       146       156       166       176       186       196       206       
                                                                              52A                            82A||                                                                                                                                   
                                                                                                              82B|                                                                                                                                   
                                                                                                               82C                                                                                                                                   


Chain L from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                            
               SCOP domains d1cr9l1 L:1-106A Immunoglobulin light chain kappa variable domain, VL-kappa                                     d1cr9l2 L:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1cr9L01 L:1-108 Immunoglobulins                                                                                  1cr9L02 L:109-214 Immunoglobulins                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeeee....eeeeeee............eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeeee......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1cr9 L    1 DVVMTQTPLSLSVTIGQPASISCKSSQSLLDSDGKTYLIWVFQRPGQSPKRLIFLVSKRDSGVPDRFTGSGSGTDFTLKISRVEAEDVGVYYCWQGTHFPHTVGGGTKLEIARADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC  214
                                    10        20       27C||      35        45        55        65        75        85        95| ||   105 ||    115       125       135       145       155       165       175       185       195       205         
                                                     27A||||                                                                  95A ||    106A|                                                                                                          
                                                      27B|||                                                                     97|      108                                                                                                          
                                                       27C||                                                                      99                                                                                                                   
                                                        27D|                                                                                                                                                                                           
                                                         27E
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (4, 4)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1CR9)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1CR9)

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  Cis Peptide Bonds
    Glu H:145 - Pro H:146   [ RasMol ]  
    Phe H:143 - Pro H:144   [ RasMol ]  
    Phe L:94 - Pro L:95   [ RasMol ]  
    Thr L:7 - Pro L:8   [ RasMol ]  
    Trp H:185 - Pro H:186   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
 

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 Related Entries

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