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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  IGG-FAB FRAGMENT OF MOUSE MONOCLONAL ANTIBODY CTM01
 
Authors :  M. J. Banfield, R. L. Brady
Date :  06 Mar 97  (Deposition) - 18 Mar 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immunoglobulin, Fab Fragment, Humanisation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. J. Banfield, D. J. King, A. Mountain, R. L. Brady
Vl:Vh Domain Rotations In Engineered Antibodies: Crystal Structures Of The Fab Fragments From Two Murine Antitumor Antibodies And Their Engineered Human Constructs.
Proteins V. 29 161 1997 (for further references see the PDB file header)

(-) Compounds

Molecule 1 - IGG CTM01 FAB (LIGHT CHAIN)
    Chains: L
    Fragment: FAB FRAGMENT
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: EACH OF THE FOUR DOMAINS ADOPT THE IMMUNOGLOBULIN SUPERFAMILY FOLD
 
Molecule 2 - IGG CTM01 FAB (HEAVY CHAIN)
    Chains: H
    Fragment: FAB FRAGMENT
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Other Details: EACH OF THE FOUR DOMAINS ADOPT THE IMMUNOGLOBULIN SUPERFAMILY FOLD

 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 1AE6)

(-) Sites  (0, 0)

(no "Site" information available for 1AE6)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:140 -H:195
3L:23 -L:88
4L:133 -L:193

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Arg L:39 -Pro L:40
2Tyr L:94 -Pro L:95
3Tyr L:139 -Pro L:140
4Phe H:146 -Pro H:147
5Glu H:148 -Pro H:149

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1AE6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1AE6)

(-) Exons   (0, 0)

(no "Exon" information available for 1AE6)

(-) 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:218
 aligned with Q99LC4_MOUSE | Q99LC4 from UniProtKB/TrEMBL  Length:463

    Alignment length:218
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229        
        Q99LC4_MOUSE     20 QVQLQQSGAELARPGASVRLSCKASGYTFTGYGVSWVKQRTGQGLEWVGEIYPGSGNTYYSEKFKGKATLTTDKSSSTAYMHLSSLTSEDSAVYFCARSSYYSYDLFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIV  237
               SCOP domains d1ae6h1 H:1-114 Immunoglobulin heavy chain variable domain, VH                                                           d1ae6h2 H:115-211 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                   SCOP domains
               CATH domains 1ae6H01 H:1-114 Immunoglobulins                                                                                          1ae6H02 H:115-211 Immunoglobulins                                                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eeee...eeeeeeeee...hhh.eeeeeee......eeeeee......eee.......eeeeee....eeeeeee...hhh.eeeeeeee..............eeeeee.......eeeee...........eeeeeeeeee.....eee.....................eeeeeeeee....hhh...eeeeee....eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1ae6 H    1 QIQLQQSGPELVKPGASVKISCKASGYTFTDYYINWMKQKPGQGLEWIGWIDPGSGNTKYNEKFKGKATLTVDTSSSTAYMQLSSLTSEDTAVYFCAREKTTYYYAMDYWGQGTSVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKIV  211
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |||103       113       123       133       143       153       163       173       183       193       203        
                                                                              52A                            82A||               100A||                                                                                                               
                                                                                                              82B|                100B|                                                                                                               
                                                                                                               82C                 100C                                                                                                               


Chain L from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                            
               SCOP domains d1ae6l1 L:1-106A Immunoglobulin light chain kappa variable domain, VL-kappa                                     d1ae6l2 L:107-213 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1ae6L01 L:1-107 Immunoglobulins                                                                                  1ae6L02 L:108-210 Immunoglobulins                                                                      --- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeee.....eeeeee.............eeeeee.......eeee............eeeeee..eeeeee....hhh.eeeeeee...........eeeee........eeee...hhhhhh..eeeeeee........eeeeee..eee...................eeeeeee.........eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1ae6 L    1 DIVMTQAAPSVPVTPGESLSISCRSSKSLLHSNGDTFLYWFLQRPGQSPQLLIYRMSNLASGVPDRFSGSGSGTAFTLRVSRVEAEDVGVYYCMQHLEYPFTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC  213
                                    10        20       27C||      35        45        55        65        75        85        95       105 |     114       124       134       144       154       164       174       184       194       204         
                                                     27A||||                                                                            106A                                                                                                           
                                                      27B|||                                                                                                                                                                                           
                                                       27C||                                                                                                                                                                                           
                                                        27D|                                                                                                                                                                                           
                                                         27E
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 1AE6)

(-) Gene Ontology  (24, 24)

Asymmetric/Biological Unit(hide GO term definitions)
Chain H   (Q99LC4_MOUSE | Q99LC4)

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  Sites
(no "Sites" information available for 1ae6)
 
  Cis Peptide Bonds
    Arg L:39 - Pro L:40   [ RasMol ]  
    Glu H:148 - Pro H:149   [ RasMol ]  
    Phe H:146 - Pro H:147   [ RasMol ]  
    Tyr L:139 - Pro L:140   [ RasMol ]  
    Tyr L:94 - Pro L:95   [ RasMol ]  
 

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  1ae6
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  IGH1M_MOUSE | P01869
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  Q99LC4_MOUSE | Q99LC4
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 Related Entries

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

UniProtKB/Swiss-Prot
        IGH1M_MOUSE | P01869: 15c8 1a0q 1a3l 1acy 1c12 1cic 1ck0 1cl7 1f11 1f58 1igy 1jhk 1jrh 1kc5 1kcr 1kcu 1ken 1l7t 1ors 1qfu 1ruq 1rur 1s5i 25c8 2ajs 2aju 2ajv 2ajx 2ajy 2ajz 2ak1
        Q99LC4_MOUSE | Q99LC4: 1afv 3hkf
UniProtKB/TrEMBL
        Q99LC4_MOUSE | Q99LC4: 1e6j 1f58 1gig 1jhk 1jnl 1jnn 2a1w 2ntf 2vir 2vis 2vit 4q0x

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1AE6)