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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HUMAN FACTOR VIII C2 DOMAIN IN COMPLEX WITH MURINE 3E6 INHIBITORY ANTIBODY
 
Authors :  P. C. Spiegel, M. E. Wuerth
Date :  05 Feb 15  (Deposition) - 09 Dec 15  (Release) - 16 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.61
Chains :  Asym. Unit :  A,B,E,F,G,M
Biol. Unit 1:  A,B,M  (1x)
Biol. Unit 2:  E,F,G  (1x)
Keywords :  Immunoglobulin, Blood Coagulation, Antibody, Discoidin, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Wuerth, R. K. Cragerud, P. Clint Spiegel
Structure Of The Human Factor Viii C2 Domain In Complex Wit The 3E6 Inhibitory Antibody.
Sci Rep V. 5 17216 2015
PubMed-ID: 26598467  |  Reference-DOI: 10.1038/SREP17216
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 3E6 ANTIBODY FAB HEAVY CHAIN
    Chains: A, E
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - 3E6 ANTIBODY FAB LIGHT CHAIN
    Chains: B, F
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - COAGULATION FACTOR VIII
    Chains: M, G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: F8, F8C
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ANTIHEMOPHILIC FACTOR,AHF,PROCOAGULANT COMPONENT

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABEFGM
Biological Unit 1 (1x): AB   M
Biological Unit 2 (1x):   EFG 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1MG3Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:130 , CYS A:131 , THR A:134 , THR A:135binding site for residue MG A 301
2AC2SOFTWARETYR M:2195 , GLN M:2222binding site for residue MG M 2401
3AC3SOFTWARESER F:120 , SER F:121 , GLU F:122binding site for residue MG F 301

(-) SS Bonds  (11, 11)

Asymmetric Unit
No.Residues
1A:22 -A:96
2A:131 -B:213
3A:143 -A:198
4B:23 -B:87
5B:133 -B:193
6E:22 -E:96
7E:143 -E:198
8F:23 -F:87
9F:133 -F:193
10G:2174 -G:2326
11M:2174 -M:2326

(-) Cis Peptide Bonds  (16, 16)

Asymmetric Unit
No.Residues
1Phe A:149 -Pro A:150
2Glu A:151 -Pro A:152
3Gln A:174 -Ser A:175
4Trp A:191 -Pro A:192
5Ser B:7 -Pro B:8
6Tyr B:93 -Pro B:94
7Tyr B:139 -Pro B:140
8Asp M:2298 -Pro M:2299
9Phe E:149 -Pro E:150
10Glu E:151 -Pro E:152
11Gln E:174 -Ser E:175
12Trp E:191 -Pro E:192
13Ser F:7 -Pro F:8
14Tyr F:93 -Pro F:94
15Tyr F:139 -Pro F:140
16Asp G:2298 -Pro G:2299

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4XZU)

(-) Sequences/Alignments

Asymmetric 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 A from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...eee.....eeeeeee.........eeeeee.....eeeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeeee...eeee...eeeee........eeeee........eeeeeeeeeee.....eeee.hhh....eeeeeeee....eeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xzu A    2 IQLVQSGPELKKPGKTVKISCKASDYTFTDYSLHWVKQAPGKGLKWMGWINTETGDPAYADDFKGRFAFSLETSVRTAYLQINNLKNEDTAIYFCAREDDGLASWGQGTTLTVSSAKTTAPSVYPLAPVCTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPR  216
                                    11        21        31        41        51        61        71        81        91       101       111       121       131|      143       153       163       173       183       193       203       213   
                                                                                                                                                           131|                                                                                  
                                                                                                                                                            134                                                                                  


Chain B from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 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..hhhhhh..eeeeeeeeeee....eeeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeeee......eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xzu B    1 QIVLTQSPAIMSASPGEKVTMTCSASSTVSYMYWYQQKPGSSPRFLISDTSNLASGVPVRFSGSGSGTSYSLTISRIEAEDAATYYCQHWSSYPLTFGGGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHSTSTSPIVKSFNRNEC  213
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210   


Chain E from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                 
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...eee.....eeeeeee...hhhhh.eeeeee......eeeeee......eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeeee...eeee...eeeee........eeee.....eeeeeeeeeee.....eeee........eee...ee....eeeeeeeeee.........eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xzu E    2 IQLVQSGPELKKPGKTVKISCKASDYTFTDYSLHWVKQAPGKGLKWMGWINTETGDPAYADDFKGRFAFSLETSVRTAYLQINNLKNEDTAIYFCAREDDGLASWGQGTTLTVSSAKTTAPSVYPLAPGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEP  215
                                    11        21        31        41        51        61        71        81        91       101       111       121       137       147       157       167       177       187       197       207        
                                                                                                                                                         129|                                                                               
                                                                                                                                                          136                                                                               


Chain F from PDB  Type:PROTEIN  Length:195
                                                                                                                                                                                                                                    
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 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..hhhhhhh.eeeeeeeeeee.............eeeee.........eeeeeeeeeehhhhh............... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xzu F    1 QIVLTQSPAIMSASPGEKVTMTCSASSTVSYMYWYQQKPGSSPRFLISDTSNLASGVPVRFSGSGSGTSYSLTISRIEAEDAATYYCQHWSSYPLTFGGGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYETCEATHIVKSFNRNE  212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       156       166       176       186|    ||207     
                                                                                                                                                                             148|                            186|  197|        
                                                                                                                                                                              155                             192   204        


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


Chain M from PDB  Type:PROTEIN  Length:154
                                                                                                                                                                                           
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee........hhh.eee...ee....eehhhhh.....................eeeeeeeeeeeeeeeee.eee..eeeeeeeeeeeee......ee.ee..ee..ee........eeeeeeeeeeeeeeeeeeeeee.....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4xzu 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  (0, 0)

(no "SCOP Domain" information available for 4XZU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (21, 21)

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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 4ki5 4pt6 5k8d

(-) Related Entries Specified in the PDB File

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