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(-) Description

Title :  T1L REOVIRUS SIGMA1 COMPLEXED WITH 5C6 FAB FRAGMENTS
 
Authors :  T. Stehle, M. H. Dietrich
Date :  25 Nov 16  (Deposition) - 21 Dec 16  (Release) - 08 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.70
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F,G,H,N
Keywords :  Reovirus Sigma1, Virus Antibody Complex, Neutralization, Viral Protein, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. H. Dietrich, K. M. Ogden, S. P. Katen, K. Reiss, D. M. Sutherland, R. H. Carnahan, M. Goff, T. Cooper, T. S. Dermody, T. Stehle
Structural Insights Into Reovirus Sigma 1 Interactions With Two Neutralizing Antibodies.
J. Virol. V. 91 2017
PubMed-ID: 27928010  |  Reference-DOI: 10.1128/JVI.01621-16

(-) Compounds

Molecule 1 - OUTER CAPSID PROTEIN SIGMA-1
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: S1
    Organism Scientific: REOVIRUS TYPE 1 (STRAIN LANG)
    Organism Taxid: 10884
    Synonym: SIGMA1,CELL ATTACHMENT PROTEIN,HEMAGGLUTININ
 
Molecule 2 - 5C6 FAB LIGHT CHAIN
    Chains: D, F, G
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - 5C6 FAB HEAVY CHAIN
    Chains: E, H, N
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  123456789
Asymmetric/Biological Unit : ABCDEFGHN

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5MHS)

(-) Sites  (0, 0)

(no "Site" information available for 5MHS)

(-) SS Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1D:23 -D:92
2E:22 -E:95
3F:23 -F:92
4F:137 -F:197
5G:23 -G:92
6G:137 -G:197
7H:22 -H:95
8H:150 -H:205
9N:22 -N:95
10N:150 -N:205

(-) Cis Peptide Bonds  (16, 16)

Asymmetric/Biological Unit
No.Residues
1Tyr A:313 -Pro A:314
2Asp A:407 -Pro A:408
3Tyr B:313 -Pro B:314
4Asp B:407 -Pro B:408
5Tyr C:313 -Pro C:314
6Asp C:407 -Pro C:408
7Ser D:7 -Pro D:8
8Tyr D:143 -Pro D:144
9Ser F:7 -Pro F:8
10Tyr F:143 -Pro F:144
11Ser G:7 -Pro G:8
12Tyr G:143 -Pro G:144
13Phe H:156 -Pro H:157
14Glu H:158 -Pro H:159
15Phe N:156 -Pro N:157
16Glu N:158 -Pro N:159

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5MHS)

(-) 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 A from PDB  Type:PROTEIN  Length:163
                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee...eeee....eeeehhhhhheeeeeeeeeeeee..eeeeeeeeeeeeee..eeeeee..eeee.....eeeeee.........hhhhhh........eeeeeeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eeee..eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs A 308 LPTYRYPLELDTANNRVQVADRFGMRTGTWTGQLQYQHPQLSWRANVTLNLMKVDDWLVLSFSQMTTNSIMADGKFVINFVSGLSSGWQTGDTEPSSTIDPLSTTFAAVQFLNNGQRIDAFRIMGVSEWTDGELEIKNYGGTYTGHTQVYWAPWTIMYPCNVR 470
                                   317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467   


Chain B from PDB  Type:PROTEIN  Length:163
                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee...eeee....eeeehhhhhheeeeeeeeeeeee..eeeeeeeeeeeeee..eeeeee..eeee.....eeeeee.........hhhhhh........eeeeeeeeeee..eeeeeeeeeeeeeee..eeeeeeeee......eeee..eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs B 308 LPTYRYPLELDTANNRVQVADRFGMRTGTWTGQLQYQHPQLSWRANVTLNLMKVDDWLVLSFSQMTTNSIMADGKFVINFVSGLSSGWQTGDTEPSSTIDPLSTTFAAVQFLNNGQRIDAFRIMGVSEWTDGELEIKNYGGTYTGHTQVYWAPWTIMYPCNVR 470
                                   317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467   


Chain C from PDB  Type:PROTEIN  Length:163
                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee...eeee....eeeehhhhhheeeeeeeeeeeee..eeeeeeeeeeeeee..eeeeee..eeee.....eeeeee.........hhhhhh........eeeeeeeeeee..eeeeeeeeeeeeeee..eeeeeeee.......eeee..eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs C 308 LPTYRYPLELDTANNRVQVADRFGMRTGTWTGQLQYQHPQLSWRANVTLNLMKVDDWLVLSFSQMTTNSIMADGKFVINFVSGLSSGWQTGDTEPSSTIDPLSTTFAAVQFLNNGQRIDAFRIMGVSEWTDGELEIKNYGGTYTGHTQVYWAPWTIMYPCNVR 470
                                   317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467   


Chain D from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....ee..ee.eeeeee.....eeeeee...ee........eeee...eeeeee.........eeeeee...........eeeee......eeee...hhhhhhhheeeeeeeeeee.......eeee..ee....eeeee.........eeeeeeeeeehhhhh....eeeee........eeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs D   1 DIVLTQSPASLAVSLGQRATISCRASKSVSTSGYSYMQWYQQKPGQPPKLLIYLASNLESGVPVRFSGSGSGTDFTLNIHPVEEEDAAIYYCQHSRELPPTFGAGTKLELKADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR 214
                                    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:210
                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee...ee.....eeeeeee.......eeeeeeee...eeeeee.....eee.hhhh..eeeeee....eeeeee........eeeeeeeee.................eeeee........eeeee...eeeeeeeeee.....eeee........eeeeeeeee..eeeeeeeeee..........eeeeee....eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5mhs E   1 QVQLKQSGPGLVQPSQSLSITCTVSGFSLTNYAIHWVRQSPLEWLGVIWSGGSTDYNAAFISRLSISKDNFKSQVFFKMNSLQSNDTAIYYCARKEELYGYDGYLFFDVWGAGTTVTVSSAKTTAPSVYPLVPSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPALLQSGLYTLSSSVTVTSNTWPSQTITCNVAHPASSTKVDKKIE 221
                                    10        20        30        40||      53        63        73        83        93       103       113       123       133  ||   151       161       171       181       191       201       211       221
                                                                   41|                                                                                        136|                                                                            
                                                                    45                                                                                         145                                                                            


Chain F from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....ee..ee.eeeeee.....eeeeee...ee.........eee...eeeeee.........eeeeee...........eeeee......eeeee..hhhhhhhheeeeeeeeeee.....eee...........eeeee.........eeeeeeeeeehhhhh.......eee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs F   1 DIVLTQSPASLAVSLGQRATISCRASKSVSTSGYSYMQWYQQKPGQPPKLLIYLASNLESGVPVRFSGSGSGTDFTLNIHPVEEEDAAIYYCQHSRELPPTFGAGTKLELKADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSF 212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210  


Chain G from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....ee..ee.eeeeee.....eeeeee...ee.......eeeee...eeeeee.........eeeeee...........eeeee......eeeee..hhhhhhhheeeeeeeeeee.....ee.....eeeeee........eeeeeeeeeehhhhh........ee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs G   1 DIVLTQSPASLAVSLGQRATISCRASKSVSTSGYSYMQWYQQKPGQPPKLLIYLASNLESGVPVRFSGSGSGTDFTLNIHPVEEEDAAIYYCQHSRELPPTFGAGTKLELKADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSF 212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150  ||   167       177       187       197       207     
                                                                                                                                                                                  153|                                                   
                                                                                                                                                                                   161                                                   


Chain H from PDB  Type:PROTEIN  Length:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..........eeeeeee.......eeeeeeee...eeeeeeee...eeee.hhhhh.eeeeee....eeeeee.........eeeeeeee............eeeeeee............eee....eeee.......eeee....eee...ee..eeeeeee..............eeee............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs H   2 VQLKQSGPGLVQPSQSLSITCTVSGFSLTNYAIHWVRQSPGLEWLGVIWSGGSTDYNAAFISRLSISKDNFKSQVFFKMNSLQSNDTAIYYCARKEELYGYDGYLFFDVWGAGTTVTVSSAKTTAPSVYPLVPGCLVKGYFPEPVTLTWNSGVHTFPALLQSGLYTLSSSVTVTSNTWPSQTITCNVAHPASSTKVDKKIE 221
                                    11        21        31        41|       53        63        73        83        93       103       113       123       133  ||   155       165|      180       190       200       210       220 
                                                                  41|                                                                                         136|             165|                                                  
                                                                   44                                                                                          149              171                                                  


Chain N from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...........eeeeeee......eeeeeeeee...eeeeeeee.....eee.hhhh..eeeeee....eeeeee...hhhhheeeeeeeee............ee...eee............eeeeeeeee.......eeee.hhh....eee...eee..eeeeeeeeeee..........eeee.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5mhs N   1 QVQLKQSGPGLVQPSQSLSITCTVSGFSLTNYAIHWVRQSPGKGLEWLGVIWSGGSTDYNAAFISRLSISKDNFKSQVFFKMNSLQSNDTAIYYCARKEELYGYDGYLFFDVWGAGTTVTVSSAKTTAPSSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPALLQSGLYTLSSSVTVTSNTWPSQTITCNVAHPASSTKVDK 218
                                    10        20        30        40        50        60        70        80        90       100       110       120       130|      153       163       173       183       193       203       213     
                                                                                                                                                           130|                                                                          
                                                                                                                                                            144
   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 5MHS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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Asymmetric/Biological Unit
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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 5mhs)
 
  Cis Peptide Bonds
    Asp A:407 - Pro A:408   [ RasMol ]  
    Asp B:407 - Pro B:408   [ RasMol ]  
    Asp C:407 - Pro C:408   [ RasMol ]  
    Glu H:158 - Pro H:159   [ RasMol ]  
    Glu N:158 - Pro N:159   [ RasMol ]  
    Phe H:156 - Pro H:157   [ RasMol ]  
    Phe N:156 - Pro N:157   [ RasMol ]  
    Ser D:7 - Pro D:8   [ RasMol ]  
    Ser F:7 - Pro F:8   [ RasMol ]  
    Ser G:7 - Pro G:8   [ RasMol ]  
    Tyr A:313 - Pro A:314   [ RasMol ]  
    Tyr B:313 - Pro B:314   [ RasMol ]  
    Tyr C:313 - Pro C:314   [ RasMol ]  
    Tyr D:143 - Pro D:144   [ RasMol ]  
    Tyr F:143 - Pro F:144   [ RasMol ]  
    Tyr G:143 - Pro G:144   [ RasMol ]  
 

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  5mhs
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  SIGM1_REOVL | P04506
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 Related Entries

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

UniProtKB/Swiss-Prot
        SIGM1_REOVL | P04506: 4gu3 4gu4 4odb 4xc5

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