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(-) Description

Title :  CHARCOT-LEYDEN CRYSTAL PROTEIN - PCMBS COMPLEX
 
Authors :  S. J. Ackerman, M. P. Savage, L. Liu, D. D. Leonidas, M. A. Kwatia, G. J. Swaminathan, K. R. Acharya
Date :  16 Nov 00  (Deposition) - 15 Nov 01  (Release) - 15 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Galectin-10, Serine Esterase, Eosinophil Lysophospholipase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. J. Ackerman, L. Liu, M. A. Kwatia, M. P. Savage, D. D. Leonidas, G. J. Swaminathan, K. R. Acharya
Charcot-Leyden Crystal Protein (Galectin-10) Is Not A Dual Function Galectin With Lysophospholipase Activity But Binds A Lysophospholipase Inhibitor In A Novel Structural Fashion
J. Biol. Chem. V. 277 14859 2002
PubMed-ID: 11834744  |  Reference-DOI: 10.1074/JBC.M200221200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - EOSINOPHIL LYSOPHOSPHOLIPASE
    CellEOSINOPHIL
    Cellular LocationPRIMARY GRANULE
    ChainsA
    EC Number3.1.1.5
    OrganelleGRANULE
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCOVALENTLY BOUND TO PCMBS
    SynonymCHARCOT-LEYDEN CRYSTAL PROTEIN, GALECTIN-10, LYSOLECITHIN ACYLHYDROLASE, SERINE ESTERASE
    TissueBLOOD

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1PMB2Ligand/IonPARA-MERCURY-BENZENESULFONIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:29 , ASP A:85BINDING SITE FOR RESIDUE PMB A 929
2AC2SOFTWAREGLU A:33 , TYR A:35 , CYS A:57 , ARG A:60 , ARG A:61BINDING SITE FOR RESIDUE PMB A 957

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1HDK)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Val A:6 -Pro A:7

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric/Biological Unit (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_014765A28VLEG10_HUMANPolymorphism17608AV28V

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GALECTINPS51304 Galactoside-binding lectin (galectin) domain profile.LEG10_HUMAN6-138  1A:6-138

(-) Exons   (4, 4)

Asymmetric/Biological Unit (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002218041ENSE00001477760chr19:40228668-4022857891LEG10_HUMAN1-551A:2-54
1.2ENST000002218042ENSE00000877644chr19:40225713-4022563777LEG10_HUMAN6-31261A:6-3126
1.3ENST000002218043ENSE00000706193chr19:40225133-40224923211LEG10_HUMAN31-101711A:31-10171
1.4ENST000002218044ENSE00000877645chr19:40222145-40221896250LEG10_HUMAN102-142411A:102-14039

(-) 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:139
 aligned with LEG10_HUMAN | Q05315 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:139
                                    11        21        31        41        51        61        71        81        91       101       111       121       131         
          LEG10_HUMAN     2 SLLPVPYTEAASLSTGSTVTIKGRPLACFLNEPYLQVDFHTEMKEESDIVFHFQVCFGRRVVMNSREYGAWKQQVESKNMPFQDGQEFELSISVLPDKYQVMVNGQSSYTFDHRIKPEAVKMVQVWRDISLTKFNVSYL 140
               SCOP domains d1hdka_ A: Charcot-Leyden crystal (CLC) protein                                                                                             SCOP domains
               CATH domains 1hdkA00 A:2-140  [code=2.60.120.200, no name defined]                                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee.......eeeeeeee..hhhhh.eeeeeee........eeeeeeee...eeeeeeee..ee...eee..........eeeeeee...eeeeee..eeeeeee...hhhhh.eeeeee.eeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------V---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----GALECTIN  PDB: A:6-138 UniProt: 6-138                                                                                                -- PROSITE
           Transcript 1 (1) 1.1 Exon 1.2  PDB: A:6-31     ----------------------------------------------------------------------Exon 1.4  PDB: A:102-140 [INCOMPLETE]   Transcript 1 (1)
           Transcript 1 (2) -----------------------------Exon 1.3  PDB: A:31-101 UniProt: 31-101                                --------------------------------------- Transcript 1 (2)
                 1hdk A   2 SLLPVPYTEAASLSTGSTVTIKGRPLVCFLNEPYLQVDFHTEMKEESDIVFHFQVCFGRRVVMNSREYGAWKQQVESKNMPFQDGQEFELSISVLPDKYQVMVNGQSSYTFDHRIKPEAVKMVQVWRDISLTKFNVSYL 140
                                    11        21        31        41        51        61        71        81        91       101       111       121       131         

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1HDK)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LEG10_HUMAN | Q05315)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0097153    cysteine-type endopeptidase activity involved in apoptotic process    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the apoptotic process.
    GO:0004622    lysophospholipase activity    Catalysis of the reaction: 2-lysophosphatidylcholine + H2O = glycerophosphocholine + a carboxylate.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0070231    T cell apoptotic process    Any apoptotic process in a T cell, a type of lymphocyte whose defining characteristic is the expression of a T cell receptor complex.
    GO:0007275    multicellular organism development    The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
    GO:0002667    regulation of T cell anergy    Any process that modulates the frequency, rate, or extent of T cell anergy.
    GO:0002724    regulation of T cell cytokine production    Any process that modulates the frequency, rate, or extent of T cell cytokine production.
    GO:0046006    regulation of activated T cell proliferation    Any process that modulates the frequency, rate or extent of activated T cell proliferation.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LEG10_HUMAN | Q053151g86 1lcl 1qkq

(-) Related Entries Specified in the PDB File

1lcl CHARCOT-LEYDEN CRYSTAL PROTEIN
1qkq CHARCOT-LEYDEN CRYSTAL PROTEIN - MANNOSE COMPLEX