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(-) Description

Title :  A STRUCTURAL MOTIF IN THE VARIANT SURFACE GLYCOPROTEINS OF TRYPANOSOMA BRUCEI
 
Authors :  M. L. Blum, J. A. Down, P. Metcalf, D. M. Freymann, D. C. Wiley
Date :  19 Nov 98  (Deposition) - 25 Nov 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Vsg, Trypanosome, Antigenic Variation, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. L. Blum, J. A. Down, A. M. Gurnett, M. Carrington, M. J. Turner, D. C. Wiley
A Structural Motif In The Variant Surface Glycoproteins Of Trypanosoma Brucei.
Nature V. 362 603 1993
PubMed-ID: 8464512  |  Reference-DOI: 10.1038/362603A0
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VARIANT SURFACE GLYCOPROTEIN ILTAT 1.24
    Chains: A, B
    Fragment: N-TERMINAL VARIABLE DOMAIN
    Organism Scientific: TRYPANOSOMA BRUCEI
    Organism Taxid: 5691
    Synonym: VSG
    Variant: ILTAT 1.24

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 2VSG)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:14 -A:139
2A:120 -A:181
3B:14 -B:139
4B:120 -B:181

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2VSG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2VSG)

(-) 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:358
 aligned with VSI4_TRYBB | P26329 from UniProtKB/Swiss-Prot  Length:514

    Alignment length:358
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373        
           VSI4_TRYBB    24 THFGVKYELWQPECELTAELRKTAGVAKMKVNSDLNSFKTLELTKMKLLTFAAKFPESKEALTLRALEAALNTDLRALRDNIANGIDRAVRATAYASEAAGALFSGIQTLHDATDGTTYCLSASGQGSNGNAAMASQGCKPLALPELLTEDSYNTDVISDKGFPKISPLTNAQGQGKSGECGLFQAASGAQATNTGVQFSGGSRINLGLGAIVASAAQQPTRPDLSDFSGTARNQADTLYGKAHASITELLQLAQGPKPGQTEVETMKLLAQKTAALDSIKFQLAASTGKKTSDYKEDENLKTEYFGKTESNIEALWNKVKEEKVKGADPEDPSKESKISDLNTEEQLQRVLDYYAVA 381
               SCOP domains d2vsga_ A: Variant surface glycoprotein (N-terminal domain)                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 2vsgA01 A:1-30,A:84-251       2vsgA02 A:31-83,A:252-358                            2vsgA01 A:1-30,A:84-251 Variant Surface Glycoprotein, subunit A domain 1                                                                                                2vsgA02 A:31-83,A:252-358 Variant Surface Glycoprotein, subunit A, domain 2                                 CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......................hhh..................................hhh..............................eeehhh.eee..................hhh...hhhhhhhhhhhhh...........hhhhhhhhhh.hhhhhhhhhhhhhh....hhh...hhhhhhhh......hhhhhhhhh...eee.........eeehhh...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vsg A   1 THFGVKYELWQPECELTAELRKTAGVAKMKVNSDLNSFKTLELTKMKLLTFAAKFPESKEALTLRALEAALNTDLRALRDNIANGIDRAVRATAYASEAAGALFSGIQTLHDATDGTTYCLSASGQGSNGNAAMASQGCKPLALPELLTEDSYNTDVISDKGFPKISPLTNAQGQGKSGECGLFQAASGAQATNTGVQFSGGSRINLGLGAIVASAAQQPTRPDLSDFSGTARNQADTLYGKAHASITELLQLAQGPKPGQTEVETMKLLAQKTAALDSIKFQLAASTGKKTSDYKEDENLKTEYFGKTESNIEALWNKVKEEKVKGADPEDPSKESKISDLNTEEQLQRVLDYYAVA 358
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350        


Chain B from PDB  Type:PROTEIN  Length:358
 aligned with VSI4_TRYBB | P26329 from UniProtKB/Swiss-Prot  Length:514

    Alignment length:358
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373        
           VSI4_TRYBB    24 THFGVKYELWQPECELTAELRKTAGVAKMKVNSDLNSFKTLELTKMKLLTFAAKFPESKEALTLRALEAALNTDLRALRDNIANGIDRAVRATAYASEAAGALFSGIQTLHDATDGTTYCLSASGQGSNGNAAMASQGCKPLALPELLTEDSYNTDVISDKGFPKISPLTNAQGQGKSGECGLFQAASGAQATNTGVQFSGGSRINLGLGAIVASAAQQPTRPDLSDFSGTARNQADTLYGKAHASITELLQLAQGPKPGQTEVETMKLLAQKTAALDSIKFQLAASTGKKTSDYKEDENLKTEYFGKTESNIEALWNKVKEEKVKGADPEDPSKESKISDLNTEEQLQRVLDYYAVA 381
               SCOP domains d2vsgb_ B: Variant surface glycoprotein (N-terminal domain)                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 2vsgB01 B:1-30,B:84-251       2vsgB02 B:31-83,B:252-358                            2vsgB01 B:1-30,B:84-251 Variant Surface Glycoprotein, subunit A domain 1                                                                                                2vsgB02 B:31-83,B:252-358 Variant Surface Glycoprotein, subunit A, domain 2                                 CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......................hhh...................................................................eee....eee..................hhhhh.hhhhhhhhhhhhh...........hhhhhhhhh..hhhhhhhhhhhhhhh...hhh...hhhhhhhh..hhhhhhhhhhhhhhh.eee.........eeehhh...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vsg B   1 THFGVKYELWQPECELTAELRKTAGVAKMKVNSDLNSFKTLELTKMKLLTFAAKFPESKEALTLRALEAALNTDLRALRDNIANGIDRAVRATAYASEAAGALFSGIQTLHDATDGTTYCLSASGQGSNGNAAMASQGCKPLALPELLTEDSYNTDVISDKGFPKISPLTNAQGQGKSGECGLFQAASGAQATNTGVQFSGGSRINLGLGAIVASAAQQPTRPDLSDFSGTARNQADTLYGKAHASITELLQLAQGPKPGQTEVETMKLLAQKTAALDSIKFQLAASTGKKTSDYKEDENLKTEYFGKTESNIEALWNKVKEEKVKGADPEDPSKESKISDLNTEEQLQRVLDYYAVA 358
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350
   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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Coiled coil proteins (689)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2VSG)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (VSI4_TRYBB | P26329)
biological process
    GO:0020012    evasion or tolerance of host immune response    Any process, either active or passive, by which an organism avoids the effects of the host organism's immune response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
cellular component
    GO:0031225    anchored component of membrane    The component of a membrane consisting of the gene products that are tethered to the membrane only by a covalently attached anchor, such as a lipid group that is embedded in the membrane. Gene products with peptide sequences that are embedded in the membrane are excluded from this grouping.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2vsg)
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        VSI4_TRYBB | P26329: 2jwg 2jwh

(-) Related Entries Specified in the PDB File

1vsg VARIANT MITAT 1.2