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(-) Description

Title :  FAB FRAGMENT OF A MONOCLONAL ANTI-E-SELECTIN ANTIBODY
 
Authors :  A. Rodriguez-Romero, O. Almog, M. Tordova, Z. Randhawa
Date :  16 Feb 98  (Deposition) - 20 Apr 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immunoglobulin, Fab, Antibody, Anti-E-Selectin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Rodriguez-Romero, O. Almog, M. Tordova, Z. Randhawa, G. L. Gilliland
Primary And Tertiary Structures Of The Fab Fragment Of A Monoclonal Anti-E-Selectin 7A9 Antibody That Inhibits Neutrophil Attachment To Endothelial Cells.
J. Biol. Chem. V. 273 11770 1998
PubMed-ID: 9565600  |  Reference-DOI: 10.1074/JBC.273.19.11770
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MONOCLONAL ANTI-E-SELECTIN 7A9 ANTIBODY (LIGHT CHAIN)
    Cell Line: SP-20 FUSION MOUSE-MOUSE HYBRIDOMA
    Chains: L
    Fragment: FAB FRAGMENT
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - MONOCLONAL ANTI-E-SELECTIN 7A9 ANTIBODY (HEAVY CHAIN)
    Cell Line: SP-20 FUSION MOUSE-MOUSE HYBRIDOMA
    Chains: H
    Fragment: FAB FRAGMENT
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 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 1A5F)

(-) Sites  (0, 0)

(no "Site" information available for 1A5F)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:147 -H:199
3L:23 -L:94
4L:140 -L:200

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Ser L:7 -Pro L:8
2Tyr L:100 -Pro L:101
3Tyr L:146 -Pro L:147
4Phe H:153 -Pro H:154
5Glu H:155 -Pro H:156

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1A5F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1A5F)

(-) Exons   (0, 0)

(no "Exon" information available for 1A5F)

(-) 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:212
                                                                                                                                                                                                                                                    
               SCOP domains d1a5fh1 H:1-120 Immunoglobulin heavy chain variable domain, VH                                                     d1a5fh2 H:121-217 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                   SCOP domains
               CATH domains 1a5fH01 H:1-120 Immunoglobulins                                                                                    1a5fH02 H:121-216 Immunoglobulins                                                               - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee..eeeee.....eeeeeeee...hhh..eeeeee.....eeeeeee......eee.......eeee......eeeeee....hhh.eeeeee...........eeeee........eeeee............eeeeeee.......eeee........eee..........eeeeeee........eeeeee....eeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a5f H   1 EVALQQSGAELVKPGASVKLSCAASGFTIKDAYMHWVKQKPEQGLEWIGRIDSGSSNTNYDPTFKGKATITADDSSNTAYLQMSSLTSEDTAVYYCARVYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVSVPTSTETVTCNVAHAPSSTKVDKKIVPR 217
                                    10        20        30        40        50        60        70        80        90       105       115       125       135       145       155       165       175       185       195       205       215  
                                                                                                                             99|                                                                                                                
                                                                                                                             105                                                                                                                


Chain L from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains d1a5fl1 L:1-113 Immunoglobulin light chain kappa variable domain, VL-kappa                                       d1a5fl2 L:114-220 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1a5fL01 L:1-114 Immunoglobulins                                                                                   1a5fL02 L:115-217 Immunoglobulins                                                                      --- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeee....eeeeeee..............eeeeee......eeee.............eeeeee..eeeeeee........eeeeee............eeee.......eeeee...hhhhh..eeeeeeeee..........eee........eeeee...........eeeeeeeehhhhh...eeeeee........eeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a5f L   1 DIVMTQSPSSLTVTTGEKVTMTCKSSQSLLNSGAQKNYLTWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLSISGVQAEDLAVYYCQNNYNYPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
   Legend:   → Mismatch (orange background)
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    → 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  (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 1A5F)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1A5F)

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  Cis Peptide Bonds
    Glu H:155 - Pro H:156   [ RasMol ]  
    Phe H:153 - Pro H:154   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Tyr L:100 - Pro L:101   [ RasMol ]  
    Tyr L:146 - Pro L:147   [ RasMol ]  
 

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  1a5f
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