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(-) Description

Title :  CRYSTAL STRUCTURE OF ANTI-MSP2 FV FRAGMENT (MAB4D11) IN COMPLEX WITH 3D7-MSP2 215-222
 
Authors :  J. Seow, R. A. V. Morales, C. A. Macraild, K. Bankala, N. Drinkwater, T. D G. Jaipuria, K. Wilde, R. F. Anders, H. S. Atreya, D. Christ, S. Mcgowan R. S. Norton
Date :  12 Sep 16  (Deposition) - 15 Feb 17  (Release) - 29 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  E,F,I  (1x)
Biol. Unit 2:  A,B,C  (1x)
Biol. Unit 3:  D,G,H  (1x)
Biol. Unit 4:  J,K,L  (1x)
Keywords :  Immunoglobulin Fold, Immune System, C-Terminal Msp2, Unstructured Antigen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Seow, R. A. Morales, C. A. Macraild, B. Krishnarjuna, S. Mcgowan, T. Dingjan, G. Jaipuria, R. Rouet, K. L. Wilde, H. S. Atreya, J. S. Richards, R. F. Anders, D. Christ, N. Drinkwater, R. S. Norton
Structure And Characterisation Of A Key Epitope In The Conserved C-Terminal Domain Of The Malaria Vaccine Candidat Msp2.
J. Mol. Biol. V. 429 836 2017
PubMed-ID: 28189425  |  Reference-DOI: 10.1016/J.JMB.2017.02.003

(-) Compounds

Molecule 1 - FV FRAGMENT (MAB4D1) HEAVY CHAIN
    Chains: E, A, D, J
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - FV FRAGMENT (MAB4D1) HEAVY CHAIN
    Chains: F, B, G, K
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - MEROZOITE SURFACE PROTEIN 2
    Chains: I, C, H, L
    Engineered: YES
    Organism Scientific: PLASMODIUM FALCIPARUM 3D7
    Organism Taxid: 36329
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit : ABCDEFGHIJKL
Biological Unit 1 (1x):     EF  I   
Biological Unit 2 (1x): ABC         
Biological Unit 3 (1x):    D  GH    
Biological Unit 4 (1x):          JKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1ACE4Mod. Amino AcidACETYL GROUP
2NH24Mod. Amino AcidAMINO GROUP
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP
Biological Unit 3 (2, 2)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP
Biological Unit 4 (2, 2)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP

(-) Sites  (0, 0)

(no "Site" information available for 5TBD)

(-) SS Bonds  (10, 10)

Asymmetric Unit
No.Residues
1A:22 -A:96
2B:23 -B:93
3C:5 -L:5
4D:22 -D:96
5E:22 -E:96
6F:23 -F:93
7G:23 -G:93
8I:5 -H:5
9J:22 -J:96
10K:23 -K:93

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Thr F:7 -Pro F:8
2Phe F:99 -Pro F:100
3Thr B:7 -Pro B:8
4Phe B:99 -Pro B:100
5Thr G:7 -Pro G:8
6Phe G:99 -Pro G:100
7Thr K:7 -Pro K:8
8Phe K:99 -Pro K:100

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5TBD)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5TBD)

(-) Exons   (0, 0)

(no "Exon" information available for 5TBD)

(-) 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:114
                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeeee...eeeeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeehhhhh.....eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 5tbd A   1 QVRLQQSGAELVKPGASVKLSCTASGFNIKDDYMHWVKQRPEQGLEWIGRIDPANGNTQYAPKFQDKATITADTSSNTAYLQLTSLTSEDTAVYYCARGGLLRWGQGTSVTVSS 114
                                    10        20        30        40        50        60        70        80        90       100       110    


Chain B from PDB  Type:PROTEIN  Length:110
                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..ee.......eeeeeee............eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 5tbd B   1 DVVMTQTPLTLSVTIGQPASISCKSSQSLLHSNGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGSGSGTDFTLKISSVEAEDLGVYYCWQGTHFPITFGSGTKLE 110
                                    10        20        30        40        50        60        70        80        90       100       110


Chain C from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 5tbd C   0 xNKENCGAAx   9
                            |        9
                            0-ACE    9-NH2


Chain D from PDB  Type:PROTEIN  Length:113
                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeeee...eeeeeeeee....eeee.hhhh..eeeeee....eeeeee...hhhhheeeeeehhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 5tbd D   1 QVRLQQSGAELVKPGASVKLSCTASGFNIKDDYMHWVKQRPEQGLEWIGRIDPANGNTQYAPKFQDKATITADTSSNTAYLQLTSLTSEDTAVYYCARGGLLRWGQGTSVTVS 113
                                    10        20        30        40        50        60        70        80        90       100       110   


Chain E from PDB  Type:PROTEIN  Length:113
                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeeee...eeeeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeehhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 5tbd E   1 QVRLQQSGAELVKPGASVKLSCTASGFNIKDDYMHWVKQRPEQGLEWIGRIDPANGNTQYAPKFQDKATITADTSSNTAYLQLTSLTSEDTAVYYCARGGLLRWGQGTSVTVS 113
                                    10        20        30        40        50        60        70        80        90       100       110   


Chain F from PDB  Type:PROTEIN  Length:111
                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eee......eeeeeee............eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------- Transcript
                 5tbd F   1 DVVMTQTPLTLSVTIGQPASISCKSSQSLLHSNGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGSGSGTDFTLKISSVEAEDLGVYYCWQGTHFPITFGSGTKLEI 111
                                    10        20        30        40        50        60        70        80        90       100       110 


Chain G from PDB  Type:PROTEIN  Length:112
                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eee......eeeeeee............eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 5tbd G   1 DVVMTQTPLTLSVTIGQPASISCKSSQSLLHSNGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGSGSGTDFTLKISSVEAEDLGVYYCWQGTHFPITFGSGTKLEIK 112
                                    10        20        30        40        50        60        70        80        90       100       110  


Chain H from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 5tbd H   0 xNKENCGAAx   9
                            |        9
                            0-ACE    9-NH2


Chain I from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 5tbd I   0 xNKENCGAAx   9
                            |        9
                            |        9-NH2
                            0-ACE     


Chain J from PDB  Type:PROTEIN  Length:113
                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeeee...eeeeeeee......eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeehhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 5tbd J   1 QVRLQQSGAELVKPGASVKLSCTASGFNIKDDYMHWVKQRPEQGLEWIGRIDPANGNTQYAPKFQDKATITADTSSNTAYLQLTSLTSEDTAVYYCARGGLLRWGQGTSVTVS 113
                                    10        20        30        40        50        60        70        80        90       100       110   


Chain K from PDB  Type:PROTEIN  Length:112
                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eee......eeeeeee............eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 5tbd K   1 DVVMTQTPLTLSVTIGQPASISCKSSQSLLHSNGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGSGSGTDFTLKISSVEAEDLGVYYCWQGTHFPITFGSGTKLEIK 112
                                    10        20        30        40        50        60        70        80        90       100       110  


Chain L from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 5tbd L   0 xNKENCGAAx   9
                            |        9
                            0-ACE    9-NH2
   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 5TBD)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5TBD)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5TBD)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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  5tbd
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  MSA2_PLAF7 | P50498
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        MSA2_PLAF7 | P50498: 2mu8 4qy8

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