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(-) Description

Title :  CYSTAL STRUCTURE OF HUMAN FACTOR VIII C2 DOMAIN IN A TERNARY COMPLEX WITH MURINE INHBITORY ANTIBODIES 3E6 AND G99
 
Authors :  J. D. Walter, S. L. Meeks, J. F. Healey, P. Lollar, P. C. Spiegel
Date :  01 May 13  (Deposition) - 15 Jan 14  (Release) - 15 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.47
Chains :  Asym./Biol. Unit :  C,D,E,F,M
Keywords :  Immunoglobulin Fold, Discoidin Fold, Antibody, Blood Coagulation Factor, Antigen Binding, Blood Plasma, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. D. Walter, R. A. Werther, C. M. Brison, R. K. Cragerud, J. F. Healey, S. L. Meeks, P. Lollar, P. C. Spiegel
Structure Of The Factor Viii C2 Domain In A Ternary Complex With 2 Inhibitor Antibodies Reveals Classical And Nonclassical Epitopes.
Blood V. 122 4270 2013
PubMed-ID: 24085769  |  Reference-DOI: 10.1182/BLOOD-2013-08-519124

(-) Compounds

Molecule 1 - MURINE MONOCLONAL 3E6 FAB HEAVY CHAIN
    Chains: C
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - MURINE MONOCLONAL 3E6 FAB LIGHT CHAIN
    Chains: D
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - MURINE MONOCLONAL G99 FAB HEAVY CHAIN
    Chains: E
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 4 - MURINE MONOCLONAL G99 FAB LIGHT CHAIN
    Chains: F
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 5 - COAGULATION FACTOR VIII
    Chains: M
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: C2 DOMAIN
    Gene: F8, F8C
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ANTIHEMOPHILIC FACTOR, AHF, PROCOAGULANT COMPONENT, FACTOR VIIIA HEAVY CHAIN, 200 KDA ISOFORM, FACTOR VIIIA HEAVY CHAIN, 92 KDA ISOFORM, FACTOR VIII B CHAIN, FACTOR VIIIA LIGHT CHAIN

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : CDEFM

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4KI5)

(-) Sites  (0, 0)

(no "Site" information available for 4KI5)

(-) SS Bonds  (11, 11)

Asymmetric/Biological Unit
No.Residues
1C:22 -C:96
2C:131 -D:213
3C:143 -C:198
4D:23 -D:87
5D:133 -D:193
6E:22 -E:96
7E:137 -F:214
8E:149 -E:204
9F:23 -F:88
10F:134 -F:194
11M:2174 -M:2326

(-) Cis Peptide Bonds  (15, 15)

Asymmetric/Biological Unit
No.Residues
1Phe C:149 -Pro C:150
2Glu C:151 -Pro C:152
3Gln C:174 -Ser C:175
4Trp C:191 -Pro C:192
5Ser D:7 -Pro D:8
6Tyr D:93 -Pro D:94
7Tyr D:139 -Pro D:140
8Phe E:155 -Pro E:156
9Glu E:157 -Pro E:158
10Trp E:197 -Pro E:198
11Ser F:7 -Pro F:8
12Gly F:68 -Ser F:69
13Tyr F:94 -Pro F:95
14Tyr F:140 -Pro F:141
15Asp M:2298 -Pro M:2299

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4KI5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4KI5)

(-) Exons   (0, 0)

(no "Exon" information available for 4KI5)

(-) 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 C from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                           
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...eee.....eeeeeee.hhhhhhh.eeeeee......eeeeee......eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeeee...eeee...eeeee........eeeee.hhhhh....eeeeeeeeeee.....eeee........eeeeeeee....eeeeeeeeee.........eeeeeehhhheeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ki5 C    2 IQLVQSGPELKKPGKTVKISCKASDYTFTDYSLHWVKQAPGKGLKWMGWINTETGDPAYADDFKGRFAFSLETSVRTAYLQINNLKNEDTAIYFCAREDDGLASWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRGPA  219
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211        


Chain D from PDB  Type:PROTEIN  Length:211
                                                                                                                                                                                                                                                    
               SCOP domains d4ki5d1 D:1-106 automated matches                                                                         d4ki5d2 D:107-213 automated matches                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhhhheeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeee.....eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ki5 D    1 QIVLTQSPAIMSASPGEKVTMTCSASSTVSYMYWYQQKPGSSPRFLISDTSNLASGVPVRFSGSGSGTSYSLTISRIEAEDAATYYCQHWSSYPLTFGGGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHSTSPIVKSFNRNEC  213
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190      |202       212 
                                                                                                                                                                                                                              197|             
                                                                                                                                                                                                                               200             


Chain E from PDB  Type:PROTEIN  Length:224
                                                                                                                                                                                                                                                                 
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhh.eeeeeeee.....eeeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeeeee...............eeeee........eeeee.hhhhh....eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.........eeeeeehhhheeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ki5 E    1 QVQLQQSGAELMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGSTNYNERFKGKASFTADSSSNTAYMQLSSLTSEDSAVYYCTRTSYYFGSSYDFDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPALLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPRGP  224
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220    


Chain F from PDB  Type:PROTEIN  Length:209
                                                                                                                                                                                                                                                  
               SCOP domains d4ki5f1 F:1-107 automated matches                                                                         d4ki5f2 F:108-214 automated matches                                                                     SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeeee....eeeeeee.......eeeeee.....eeeeee...ee.......eeeeee..eeeeee..hhhhheeeeeee......ee...eeeeee......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeee...eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ki5 F    1 DIQMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQKPDGTIKRLIYAASTLDSSVPKRFSGSRSGSDYSLTISLDSEDFAVYYCLQYASYPYTFGGGTKVEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHSPIVKSFNRNEC  214
                                    10        20        30        40        50        60        70     || 81        91       101       111       121       131       141       151       161       171       181       191      |205         
                                                                                                      76|                                                                                                                     198|           
                                                                                                       78                                                                                                                      203           


Chain M from PDB  Type:PROTEIN  Length:154
                                                                                                                                                                                           
               SCOP domains d4ki5m_ M: automated matches                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee........hhh.eee...........hhhhh.....................eeeeeeeeeeeeeeeee.eee..eeeeeeeeeeeee......ee.ee..ee..ee........eeeeeeeeeeeeeeeeeeeeee.....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ki5 M 2174 CSMPLGMESKAISDAQITASSYFTNMFATWSPSKARLHLQGRSNAWRPQVNNPKEWLQVDFQKTMKVTGVTTQGVKSLLTSMYVKEFLISSSQDGHQWTLFFQNGKVKVFQGNQDSFTPVVNSLDPPLLTRYLRIHPQSWVHQIALRMEVLGCE 2327
                                  2183      2193      2203      2213      2223      2233      2243      2253      2263      2273      2283      2293      2303      2313      2323
   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  (3, 5)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4KI5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4KI5)

(-) Gene Ontology  (21, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp M:2298 - Pro M:2299   [ RasMol ]  
    Gln C:174 - Ser C:175   [ RasMol ]  
    Glu C:151 - Pro C:152   [ RasMol ]  
    Glu E:157 - Pro E:158   [ RasMol ]  
    Gly F:68 - Ser F:69   [ RasMol ]  
    Phe C:149 - Pro C:150   [ RasMol ]  
    Phe E:155 - Pro E:156   [ RasMol ]  
    Ser D:7 - Pro D:8   [ RasMol ]  
    Ser F:7 - Pro F:8   [ RasMol ]  
    Trp C:191 - Pro C:192   [ RasMol ]  
    Trp E:197 - Pro E:198   [ RasMol ]  
    Tyr D:139 - Pro D:140   [ RasMol ]  
    Tyr D:93 - Pro D:94   [ RasMol ]  
    Tyr F:140 - Pro F:141   [ RasMol ]  
    Tyr F:94 - Pro F:95   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        FA8_HUMAN | P00451: 1cfg 1d7p 1fac 1iqd 2r7e 3cdz 3hnb 3hny 3hob 3j2q 3j2s 4bdv 4pt6 4xzu 5k8d

(-) Related Entries Specified in the PDB File

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