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

(-) Description

Title :  2H2 FAB FRAGMENT OF IMMATURE DENGUE VIRUS
 
Authors :  Z. Wang, M. G. Rossmann
Date :  22 May 13  (Deposition) - 24 Jul 13  (Release) - 21 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.31
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Fab Fragment, Immature Dengue, Pr Peptide, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Wang, L. Li, J. G. Pennington, J. Sheng, M. L. Yap, P. Plevka, G. Meng, L. Sun, W. Jiang, M. G. Rossmann
Obstruction Of Dengue Virus Maturation By Fab Fragments Of The 2H2 Antibody.
J. Virol. V. 87 8909 2013
PubMed-ID: 23740974  |  Reference-DOI: 10.1128/JVI.00472-13

(-) Compounds

Molecule 1 - IG HEAVY CHAIN V REGION MOPC 21, IGH PROTEIN
    Cell: HYBRIDOMA
    Chains: H
    Engineered: YES
    Expression System: MUS MUSCULUS
    Expression System Taxid: 10090
    Gene: IGH-1A, IGH
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - IG KAPPA CHAIN V-V REGION MOPC 21, ANTI-COLORECTAL CARCINOMA LIGHT CHAIN
    Cell: HYBRIDOMA
    Chains: L
    Engineered: YES
    Expression System: MUS MUSCULUS
    Expression System Taxid: 10090
    Gene: GM16939
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : HL

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4KVC)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:147 -H:202
3L:23 -L:88
4L:134 -L:194

(-) Cis Peptide Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1Glu H:42 -Lys H:43
2Tyr H:102 -Pro H:103
3Leu H:131 -Ala H:132
4Phe H:153 -Pro H:154
5Glu H:155 -Pro H:156
6Trp H:195 -Pro H:196
7Ser L:7 -Pro L:8
8Ser L:76 -Ser L:77
9Tyr L:94 -Pro L:95
10Tyr L:140 -Pro L:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KVC)

(-) 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:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhheeeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeeee.....eeeee...eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh.....ee...eee..eeeeeeeeeee.hhh.....eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kvc H   1 DVQLVESGGGLVQPGGSRKLSCAASGFTFSSFGMHWVRQAPEKGLEWVAYISSGSSTLHYADTVKGRFTISRDNPKNTLFLQMTSLRSEDTAMYYCARWGNYPHYAMDYWGQGTSVTVSSAKTTAPSVYPLAPVCDGTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEPR 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220


Chain L from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                    
               SCOP domains d4kvcl1 L:1-107 automated matches                                                                          d4kvcl2 L:108-212 automated matches                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kvc L   1 NIVMTQSPKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGSATDFTLTISSVQAEDLADYHCGQGYSYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   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  (2, 2)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 6)

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 4kvc)
 
  Cis Peptide Bonds
    Glu H:155 - Pro H:156   [ RasMol ]  
    Glu H:42 - Lys H:43   [ RasMol ]  
    Leu H:131 - Ala H:132   [ RasMol ]  
    Phe H:153 - Pro H:154   [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Ser L:76 - Ser L:77   [ RasMol ]  
    Trp H:195 - Pro H:196   [ RasMol ]  
    Tyr H:102 - Pro H:103   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
    Tyr L:94 - Pro L:95   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        HVM16_MOUSE | P01783: 1igc 3j42
        KV5A2_MOUSE | P01634: 1igc 1uyw 3j42
        Q7TS98_MOUSE | Q7TS98: 1d5b 1d5i 1d6v 2exp 2exq 5vpl
UniProtKB/TrEMBL
        Q6PIP8_MOUSE | Q6PIP8: 2ai0 2ipt 2r2h 3j42 4pb0
        Q7TS98_MOUSE | Q7TS98: 1i8m 1jgl 1jhk 1jnl 1jnn 3bgf 3j42

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4KVC)