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(-)Asym./Biol. Unit
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(-) Description

Title :  CRYSTAL STRUCTURE OF VAR2CSA DBL3X DOMAIN IN THE PRESENCE OF DODECASACCHARIDE OF CSA
 
Authors :  K. Singh, A. G. Gittis, P. Nguyen, D. C. Gowda, L. H. Miller, D. N. Garboczi
Date :  01 Apr 08  (Deposition) - 02 Sep 08  (Release) - 24 Nov 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Dbl3X, Var2Csa, Chondroitin Sulphate A (Csa), Pregnancy- Associated Malaria, 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 Scientific: PLASMODIUM FALCIPARUM
    Organism Taxid: 5833
    Strain: A4

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION

(-) Sites  (0, 0)

(no "Site" information available for 3CPZ)

(-) 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 3CPZ)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3CPZ)

(-) 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:297
 aligned with Q6UDW7_PLAFA | Q6UDW7 from UniProtKB/TrEMBL  Length:3064

    Alignment length:349
                                  1236      1246      1256      1266      1276      1286      1296      1306      1316      1326      1336      1346      1356      1366      1376      1386      1396      1406      1416      1426      1436      1446      1456      1466      1476      1486      1496      1506      1516      1526      1536      1546      1556      1566         
        Q6UDW7_PLAFA   1227 IRGCQSKTYDGKIFPGKGGEKQWICKDTIIHGDTNGACIPPRTQNLCVGELWDKSYGGRSNIKNDTKELLKEKIKNAIHKETELLYEYHDTGTAIISKNDKKGQKGKNDPNGLPKGFCHAVQRSFIDYKNMILGTSVNIYEHIGKLQEDIKKIIEKGTPQQKDKIGGVGSSTENVNAWWKGIEREMWDAVRCAITKINKKNNNSIFNGDECGVSPPTGNDEDQSVSWFKEWGEQFCIERLRYEQNIREACTINGKNEKKCINSKSGQGDKIQGACKRKCEKYKKYISEKKQEWDKQKTKYENKYVGKSASDLLKENYPECISANFDFIFNDNIEYKTYYPYGDYSSICS 1575
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................ee............eehhhhhh.......------------.hhhhhhhhhhhhhhhhhhhhhhhhhh..........----------....hhhhhhhhhhhhhhhhhh...........hhhhhhhh.........---------..hhhhhhhhhhhhhhhhhhhh.........--.............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.-------------------..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.hhhhhh....hhhhhh.hhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3cpz A 1227 IRGCQSKTYDGKIFPGKGGEKQWICKDTIIHGDTNGACIPPRTQNLCVGELW------------DTKELLKEKIKNAIHKETELLYEYHDTGTAIISKNDK----------GLPKGFCHAVQRSFIDYKNMILGTSVNIYEHIGKLQEDIKKIIEKGTPQQ---------STENVNAWWKGIEREMWDAVRCAITKINKKN--SIFNGDECGVSPPTGNDEDQSVSWFKEWGEQFCIERLRYEQNIREACT-------------------IQGACKRKCEKYKKYISEKKQEWDKQKTKYENKYVGKSASDLLKENYPECISANFDFIFNDNIEYKTYYPYGDYSSICS 1575
                                  1236      1246      1256      1266      1276 |       -    | 1296      1306      1316      1326|        - |    1346      1356      1366      1376      1386|        -|     1406      1416      1426|  |  1436      1446      1456      1466      1476|        -         -|     1506      1516      1526      1536      1546      1556      1566         
                                                                            1278         1291                                1327       1338                                             1387      1397                          1427  |                                           1477                1497                                                                              
                                                                                                                                                                                                                                    1430
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  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 3CPZ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) 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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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

3cml THE SAME PROTEIN WITH NO LIGAND.