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(-) Description

Title :  CRYSTAL STRUCTURE OF AN ANTIGEN-BINDING FRAGMENT FROM A HUMANIZED VERSION OF THE ANTI-HUMAN FAS ANTIBODY HFE7A
 
Authors :  S. Ito, T. Takayama, H. Hanzawa, T. Takahashi, K. Miyadai, N. Serizawa, T. Hata, H. Haruyama
Date :  11 Jan 02  (Deposition) - 25 Feb 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immunoglobulin, Fab, Anti_fas, Agonistic_antibody, Apoptosis, Antibody_humanization, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Haruyama, S. Ito, K. Miyadai, T. Takahashi, R. Kawaida, T. Takayama, H. Hanzawa, T. Hata, J. Yamaguchi, H. Yoshida-Kato, K. Ichikawa, J. Ohsumi, S. Yonehara, N. Serizawa
Humanization Of The Mouse Anti-Fas Antibody Hfe7A And Crystal Structure Of The Humanized Hfe7A Fab Fragment
Biol. Pharm. Bull. V. 25 1537 2002
PubMed-ID: 12499636  |  Reference-DOI: 10.1248/BPB.25.1537
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HUMANIZED ANTIBODY HFE7A, LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: CHLOROCEBUS AETHIOPS
    Expression System Cell Line: COS-1
    Expression System Common: AFRICAN GREEN MONKEY
    Expression System Plasmid: PEE
    Expression System Taxid: 9534
    Expression System Vector Type: PLASMID
    Fragment: FAB FRAGMENT
    Organism Common: HOUSE MOUSE, HUMAN
    Organism Scientific: MUS MUSCULUS, HOMO SAPIENS
    Organism Taxid: 10090,9606
    Strain: ,
 
Molecule 2 - HUMANIZED ANTIBODY HFE7A, HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: CHLOROCEBUS AETHIOPS
    Expression System Cell Line: COS-1
    Expression System Common: AFRICAN GREEN MONKEY
    Expression System Plasmid: PEE
    Expression System Taxid: 9534
    Expression System Vector Type: PLASMID
    Fragment: FAB FRAGMENT
    Organism Common: HOUSE MOUSE, HUMAN
    Organism Scientific: MUS MUSCULUS, HOMO SAPIENS
    Organism Taxid: 10090,9606
    Strain: ,

 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 1IT9)

(-) Sites  (0, 0)

(no "Site" information available for 1IT9)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:148 -H:204
3L:23 -L:92
4L:138 -L:198

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Ser L:7 -Pro L:8
2Asp L:98 -Pro L:99
3Tyr L:144 -Pro L:145
4Phe H:154 -Pro H:155
5Glu H:156 -Pro H:157

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IT9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1IT9)

(-) Exons   (0, 0)

(no "Exon" information available for 1IT9)

(-) 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:219
                                                                                                                                                                                                                                                           
               SCOP domains d1it9h1 H:1-121 Immunoglobulin heavy chain variable domain, VH                                                           d1it9h2 H:122-219 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                    SCOP domains
               CATH domains 1it9H01 H:1-121 Immunoglobulins                                                                                          1it9H02 H:122-219 Immunoglobulins                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee....eeeeeeeee..hhhhh.eeeeee.....eeeeeeee....eeee.......eeeeee....eeeeeee..hhhhheeeeeeeeeee..eeeeeee...eeeee........eeee...........eee..eeee.......eeee........eeeeeeee.....eeeeeeeeeehhhhh....eeeeee....eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1it9 H   1 QVQLVQSGAEVKKPGASVKVSCKASGYTFTSYWMQWVKQAPGQGLEWMGEIDPSDSYTNYNQKFKGKATLTVDTSTSTAYMELSSLRSEDTAVYYCARNRDYSNNWYFDVWGEGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKV 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         


Chain L from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains d1it9l1 L:1-111 Immunoglobulin light chain kappa variable domain, VL-kappa                                     d1it9l2 L:112-214 Immunoglobulin light chain kappa constant domain, CL-kappa                            SCOP domains
               CATH domains 1it9L01 L:1-112 Immunoglobulins                                                                                 1it9L02 L:113-214 Immunoglobulins                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee...........eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee...........eeeee.......eeeee....hhhhhheeeeeeeeeee.....eeeeee........eeeee.........eeeeeeeeeehhhhh....eeeeee.......eeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1it9 L   1 EIVLTQSPGTLSLSPGERATLSCKASQSVDYDGDSYMNWYQQKPGQAPRLLIYAASNLESGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQSNEDPRTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFN 214
                                    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)
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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  (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 1IT9)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1IT9)

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  Sites
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  Cis Peptide Bonds
    Asp L:98 - Pro L:99   [ RasMol ]  
    Glu H:156 - Pro H:157   [ RasMol ]  
    Phe H:154 - Pro H:155   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Tyr L:144 - Pro L:145   [ RasMol ]  
 

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 Related Entries

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(-) Related Entries Specified in the PDB File

1iqw 1IQW CONTAINS FAB FRAGMENT OF THE MOUSE ANTI-HUMAN FAS ANTIBODY HFE7A