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(-) Description

Title :  CRYSTAL STRUCTURE OF THE DBL3X DOMAIN OF THE PLASMODIUM FALCIPURUM VAR2CSA PROTEIN
 
Authors :  K. Singh, A. G. Gittis, P. Nguyen, D. C. Gowda, L. H. Miller, D. N. Garboczi
Date :  23 Mar 08  (Deposition) - 02 Sep 08  (Release) - 24 Nov 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Dbl3X, Var2Csa, Chondroitin-Sulfate Binding Domain, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Singh, A. G. Gittis, P. Nguyen, D. C. Gowda, L. H. Miller, D. N. Garboczi
Structure Of The Dbl3X Domain Of Pregnancy-Associated Malaria Protein Var2Csa Complexed With Chondroitin Sulfate A.
Nat. Struct. Mol. Biol. V. 15 932 2008
PubMed-ID: 19172746  |  Reference-DOI: 10.1038/NSMB1479
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ERYTHROCYTE MEMBRANE PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PLM1
    Expression System Strain: BL21(RIL)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: DBL3X DOMAIN (UNP RESIDUES 1220-1580)
    Gene: VAR
    Organism Common: MALARIA PARASITE
    Organism Scientific: PLASMODIUM FALCIPARUM
    Organism Taxid: 5833
    Strain: IT4

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3CML)

(-) Sites  (0, 0)

(no "Site" information available for 3CML)

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:1230 -A:1273
2A:1251 -A:1264
3A:1344 -A:1437
4A:1462 -A:1546
5A:1476 -A:1501
6A:1505 -A:1574

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe A:1240 -Pro A:1241

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3CML)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3CML)

(-) Exons   (0, 0)

(no "Exon" information available for 3CML)

(-) 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:317
 aligned with Q6UDW7_PLAFA | Q6UDW7 from UniProtKB/TrEMBL  Length:3064

    Alignment length:348
                                  1237      1247      1257      1267      1277      1287      1297      1307      1317      1327      1337      1347      1357      1367      1377      1387      1397      1407      1417      1427      1437      1447      1457      1467      1477      1487      1497      1507      1517      1527      1537      1547      1557      1567        
        Q6UDW7_PLAFA   1228 RGCQSKTYDGKIFPGKGGEKQWICKDTIIHGDTNGACIPPRTQNLCVGELWDKSYGGRSNIKNDTKELLKEKIKNAIHKETELLYEYHDTGTAIISKNDKKGQKGKNDPNGLPKGFCHAVQRSFIDYKNMILGTSVNIYEHIGKLQEDIKKIIEKGTPQQKDKIGGVGSSTENVNAWWKGIEREMWDAVRCAITKINKKNNNSIFNGDECGVSPPTGNDEDQSVSWFKEWGEQFCIERLRYEQNIREACTINGKNEKKCINSKSGQGDKIQGACKRKCEKYKKYISEKKQEWDKQKTKYENKYVGKSASDLLKENYPECISANFDFIFNDNIEYKTYYPYGDYSSICS 1575
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......................ee............eehhhhhh........-----.......hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh..---------.....hhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhh...---------hhhhhhhhhhhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........--------....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh..hhhhhh..hhhhhhhh.hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3cml A 1228 RGCQSKTYDGKIFPGKGGEKQWICKDTIIHGDTNGACIPPRTQNLCVGELWD-----RSNIKNDTKELLKEKIKNAIHKETELLYEYHDTGTAIISKNDK---------NGLPKGFCHAVQRSFIDYKNMILGTSVNIYEHIGKLQEDIKKIIEKGTPQQ---------STENVNAWWKGIEREMWDAVRCAITKINKKNNNSIFNGDECGVSPPTGNDEDQSVSWFKEWGEQFCIERLRYEQNIREACTINGKNEKK--------GDKIQGACKRKCEKYKKYISEKKQEWDKQKTKYENKYVGKSASDLLKENYPECISANFDFIFNDNIEYKTYYPYGDYSSICS 1575
                                  1237      1247      1257      1267      1277 |    1287      1297      1307      1317      1327      1337      1347      1357      1367      1377      1387      1397      1407      1417      1427      1437      1447      1457      1467      1477       | -      1497      1507      1517      1527      1537      1547      1557      1567        
                                                                            1279  1285                                      1327      1337                                              1387      1397                                                                                    1485     1494
   Legend:   → Mismatch (orange background)
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  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 3CML)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3CML)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3CML)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q6UDW7_PLAFA | Q6UDW7)
molecular function
    GO:0004872    receptor activity    Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
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.

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  Cis Peptide Bonds
    Phe A:1240 - Pro A:1241   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        Q6UDW7_PLAFA | Q6UDW7: 2y8d 3bqi 3bqk 3bql 3cpz 4p1t

(-) Related Entries Specified in the PDB File

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