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(-) Description

Title :  STRUCTURAL DIVERSITY OF THE HAGFISH VARIABLE LYMPHOCYTE RECEPTORS B59
 
Authors :  J. O. Lee, H. M. Kim, S. C. Oh
Date :  08 Dec 06  (Deposition) - 26 Dec 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Leucine-Rich Repeat Protein, Lrr, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. M. Kim, S. C. Oh, K. J. Lim, J. Kasamatsu, J. Y. Heo, B. S. Park, H. Lee, O. J. Yoo, M. Kasahara, J. O. Lee
Structural Diversity Of The Hagfish Variable Lymphocyte Receptors
J. Biol. Chem. V. 282 6726 2007
PubMed-ID: 17192264  |  Reference-DOI: 10.1074/JBC.M608471200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VARIABLE LYMPHOCYTE RECEPTOR B
    ChainsA, B
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System Cell LineHI5
    Expression System CommonFALL ARMYWORM
    Expression System PlasmidPVL1393
    Expression System Taxid7108
    Expression System Vector TypeBACULOVIRUS
    FragmentLEUCINE-RICH REPEAT (LRR), RESIDUES 24-231
    GeneVLRB
    Organism CommonINSHORE HAGFISH
    Organism ScientificEPTATRETUS BURGERI
    Organism Taxid7764
    SynonymVARIABLE LYMPHOCYTE RECEPTOR B59

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2O6S)

(-) Sites  (0, 0)

(no "Site" information available for 2O6S)

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:24 -A:30
2A:28 -A:37
3A:185 -A:218
4A:187 -A:230
5B:24 -B:30
6B:28 -B:37
7B:185 -B:218
8B:187 -B:230

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Cys A:187 -Pro A:188
2Cys B:187 -Pro B:188

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O6S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O6S)

(-) Exons   (0, 0)

(no "Exon" information available for 2O6S)

(-) 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:208
 aligned with Q4G1L3_EPTBU | Q4G1L3 from UniProtKB/TrEMBL  Length:305

    Alignment length:208
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223        
         Q4G1L3_EPTBU    24 CPSRCSCSGTTVECYSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWINKHSGVVRNSAGSVAPDSAKCSGSGKPVRSIICP 231
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee..eee..................eee.....................eee.....................eee.....................eee.....................eee.....................eee............hhhhhhhhhhh.......................hhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o6s A  24 CPSRCSCSGTTVECYSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWINKHSGVVRNSAGSVAPDSAKCSGSGKPVRSIICP 231
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223        

Chain B from PDB  Type:PROTEIN  Length:208
 aligned with Q4G1L3_EPTBU | Q4G1L3 from UniProtKB/TrEMBL  Length:305

    Alignment length:208
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223        
         Q4G1L3_EPTBU    24 CPSRCSCSGTTVECYSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWINKHSGVVRNSAGSVAPDSAKCSGSGKPVRSIICP 231
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) LRRNT-2o6sB11 B:24-50      ------------------------------------------------------------------------LRR_8-2o6sB01 B:123-182                                     ---DUF3439-2o6sB09 B:186-231                      Pfam domains (1)
           Pfam domains (2) LRRNT-2o6sB12 B:24-50      ------------------------------------------------------------------------LRR_8-2o6sB02 B:123-182                                     ---DUF3439-2o6sB10 B:186-231                      Pfam domains (2)
           Pfam domains (3) ---------------------------------------------------------------------------------------------------LRR_8-2o6sB03 B:123-182                                     ------------------------------------------------- Pfam domains (3)
           Pfam domains (4) ---------------------------------------------------------------------------------------------------LRR_8-2o6sB04 B:123-182                                     ------------------------------------------------- Pfam domains (4)
           Pfam domains (5) ---------------------------------------------------------------------------------------------------LRR_8-2o6sB05 B:123-182                                     ------------------------------------------------- Pfam domains (5)
           Pfam domains (6) ---------------------------------------------------------------------------------------------------LRR_8-2o6sB06 B:123-182                                     ------------------------------------------------- Pfam domains (6)
           Pfam domains (7) ---------------------------------------------------------------------------------------------------LRR_8-2o6sB07 B:123-182                                     ------------------------------------------------- Pfam domains (7)
           Pfam domains (8) ---------------------------------------------------------------------------------------------------LRR_8-2o6sB08 B:123-182                                     ------------------------------------------------- Pfam domains (8)
         Sec.struct. author .....eee..eee..................eee.....................eee.....................eee.....................eee.....................eee.....................eee............hhhhhhhhhhh.......................hhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o6s B  24 CPSRCSCSGTTVECYSQGRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWINKHSGVVRNSAGSVAPDSAKCSGSGKPVRSIICP 231
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223        

   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 2O6S)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2O6S)

(-) Pfam Domains  (3, 12)

Asymmetric Unit
(-)
Clan: LRR (77)
(-)
Family: LRR_8 (41)
1aLRR_8-2o6sB01B:123-182
1bLRR_8-2o6sB02B:123-182
1cLRR_8-2o6sB03B:123-182
1dLRR_8-2o6sB04B:123-182
1eLRR_8-2o6sB05B:123-182
1fLRR_8-2o6sB06B:123-182
1gLRR_8-2o6sB07B:123-182
1hLRR_8-2o6sB08B:123-182

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q4G1L3_EPTBU | Q4G1L3)
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  Cis Peptide Bonds
    Cys A:187 - Pro A:188   [ RasMol ]  
    Cys B:187 - Pro B:188   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q4G1L3_EPTBU | Q4G1L33rfs 4j4l
UniProtKB/TrEMBL
        Q4G1L3_EPTBU | Q4G1L33a79 4uip

(-) Related Entries Specified in the PDB File

2o6q INSHORE HAGFISH VARIABLE LYMPHOCYTE RECEPTOR A29
2o6r INSHORE HAGFISH VARIABLE LYMPHOCYTE RECEPTOR B61