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

(-) Description

Title :  GENERATION AND CHARACTERIZATION OF A UNIQUE REAGENT THAT RECOGNIZES A PANEL OF RECOMBINANT HUMAN MONOCLONAL ANTIBODY THERAPEUTICS IN THE PRESENCE OF ENDOGENOUS HUMAN IGG
 
Authors :  C. Eigenbrot, S. Shia
Date :  17 Apr 13  (Deposition) - 07 Aug 13  (Release) - 07 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.95
Chains :  Asym./Biol. Unit :  H,L,X,Y
Keywords :  Immunoglobulin, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Wang, V. Quarmby, C. Ng, A. Chuntharapai, T. Shek, C. Eigenbrot, R. F. Kelley, S. Shia, K. Mccutcheon, J. Lowe, C. Leddy, K. Coachman, G. Cain, F. Chu, I. Hotzel, M. Maia, E. Wakshull, J. Yang
Generation And Characterization Of A Unique Reagent That Recognizes A Panel Of Recombinant Human Monoclonal Antibody Therapeutics In The Presence Of Endogenous Human Igg.
Mabs V. 5 540 2013
PubMed-ID: 23774668  |  Reference-DOI: 10.4161/MABS.24822

(-) Compounds

Molecule 1 - ANTIBODY RHUMAB6 FAB FRAGMENT LIGHT CHAIN
    Chains: X
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Taxid: 10029
    Fragment: FAB RHUMAB6
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - ANTIBODY RHUMAB6 FAB FRAGMENT HEAVY CHAIN
    Chains: Y
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Taxid: 10029
    Fragment: FAB 10C4
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - ANTIBODY 10C4 FAB FRAGMENT HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Taxid: 10029
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 4 - ANTIBODY 10C4 FAB FRAGMENT LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Taxid: 10029
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : HLXY

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4K7P)

(-) Sites  (0, 0)

(no "Site" information available for 4K7P)

(-) SS Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:140 -H:195
3L:23 -L:88
4L:134 -L:194
5X:23 -X:88
6X:134 -X:194
7Y:22 -Y:92
8Y:140 -Y:196

(-) Cis Peptide Bonds  (11, 11)

Asymmetric/Biological Unit
No.Residues
1Ser X:7 -Pro X:8
2Ala X:50 -Pro X:51
3Asn X:94 -Pro X:95
4Tyr X:140 -Pro X:141
5Phe Y:146 -Pro Y:147
6Glu Y:148 -Pro Y:149
7Phe H:146 -Pro H:147
8Glu H:148 -Pro H:149
9Ser L:7 -Pro L:8
10Thr L:94 -Pro L:95
11Tyr L:140 -Pro L:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4K7P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4K7P)

(-) Exons   (0, 0)

(no "Exon" information available for 4K7P)

(-) 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:213
                                                                                                                                                                                                                                                      
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee....eee.....eeeeeeee..hhhhh.eeeeee......eeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeee...................eeeee........eeeee.....eeeeeee.....eeee......eeee...ee.....eeeeeeee............eeeeehhhheeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4k7p H    1 QIQLVQSGPELKKPGETVKISCKASGYTFTNFGMNWVKQAPGKGLKWMGWINTYTGEPTYSDDFKGRFALSLETSASTAYLQIDNLKNEDMGTYFCAREGNLWGNYANWFFDVWGAGTTLTVSSASTKGPSVYPLAPSALGCLVKDYFPEPVTVSWNSALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSAGTQSYICNVNHAPSNTKVDKKVD  211
                                    10        20        30        40        50  |     59        69        79   |||  86        96    ||100F|      109       119       138       148       158       168       178       188       198       208   
                                                                              52A                            82A||               100A||||||                        127|                                                                          
                                                                                                              82B|                100B|||||                         137                                                                          
                                                                                                               82C                 100C||||                                                                                                      
                                                                                                                                    100D|||                                                                                                      
                                                                                                                                     100E||                                                                                                      
                                                                                                                                      100F|                                                                                                      
                                                                                                                                       100G                                                                                                      


Chain L from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                       
               SCOP domains d4k7pl1 L:1-107 automated matches                                                                          d4k7pl2 L:108-214 automated matches                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eee......eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee...........eeee........eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee........eeeee.........eeeeeeeeeehhhhh....eeeeee.......eeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4k7p L    1 DIQMTQSPASLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNAKTLAEGVPSRFSGSGSGTQFSLKINNLQPEDFGSYYCQHHYVTPVTFGAGTKLDLKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC  214
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210    


Chain X from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains d4k7px1 X:1-107 automated matches                                                                         d4k7px2 X:108-214 automated matches                                                                         SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeeee....eeeeeee.......eeeee.....eeeeee...ee.......eeeee...eeeeee...hhhhheeeeeee......ee...eeeeee......eeeee..hhhhhhh.eeeeeeeeeee....eeeeeee..ee....eeeee.........eeeeeeeeeehhhhh...eeeeeeee......eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4k7p X    1 DIQMTQSPSSLSASVGDRVTITCRASSSVSYLHWYQQKPGKAPKPLIYAPSNLASGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQWAFNPPTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC  214
                                    10        20      ||31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211   
                                                     27|                                                                                                                                                                                         
                                                      29                                                                                                                                                                                         


Chain Y from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                            
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhheeeeeee......eeeeee......eee.......eeeeeehhh.eeeeee...hhhhheeeeeeeeee.....eeeeee...eeeee........eeeee......eeeeeeeeeee.....eeee........eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4k7p Y    1 EVQLVESGGGLVQPGGSLRLSCAASGYTFTSYNMHWVRQAPGKGLEWVGAIYPGNGATSYNQKFKGRFTISVDKSKNTLYLQMNSLRAEDTAVYYCARVVYYSASYWYFDVWGQGTLVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK  214
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |||101       111       121      |135       145       155       165       175       185       195       205         
                                                                              52A                            82A||               100A||||                         128|                                                                                 
                                                                                                              82B|                100B|||                          133                                                                                 
                                                                                                               82C                 100C||                                                                                                              
                                                                                                                                    100D|                                                                                                              
                                                                                                                                     100E
   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  (4, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4K7P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4K7P)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4K7P)

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Asymmetric/Biological Unit
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  Sites
(no "Sites" information available for 4k7p)
 
  Cis Peptide Bonds
    Ala X:50 - Pro X:51   [ RasMol ]  
    Asn X:94 - Pro X:95   [ RasMol ]  
    Glu H:148 - Pro H:149   [ RasMol ]  
    Glu Y:148 - Pro Y:149   [ RasMol ]  
    Phe H:146 - Pro H:147   [ RasMol ]  
    Phe Y:146 - Pro Y:147   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Ser X:7 - Pro X:8   [ RasMol ]  
    Thr L:94 - Pro L:95   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
    Tyr X:140 - Pro X:141   [ RasMol ]  
 

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  4k7p
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 Related Entries

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