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(-) Description

Title :  THEORETICAL MODEL FOR HUMAN CD20 PROTEIN
 
Authors :  S. Arunkumar
Date :  01 Feb 04  (Deposition) - 24 Feb 04  (Release) - 24 Feb 04  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  B-Cell Activation, Antigen, Transmembrane, Phosphorylation, Multigene Family (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Arunkumar
Theoretical Model For Human Cd20 Protein
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - B-LYMPHOCYTE ANTIGEN CD20
    ChainsA
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    SynonymB-LYMPHOCYTE SURFACE ANTIGEN B1, LEU-16, BP35

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1S8B)

(-) Sites  (0, 0)

(no "Site" information available for 1S8B)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1S8B)

(-) Cis Peptide Bonds  (2, 2)

Theoretical Model
No.Residues
1Val A:207 -Ile A:208
2Val A:228 -Leu A:229

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1S8B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1S8B)

(-) Exons   (6, 6)

Theoretical Model (6, 6)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.4aENST000003899394aENSE00001507321chr11:60229654-60230006353CD20_HUMAN1-53531A:4-5350
1.5ENST000003899395ENSE00001107914chr11:60230475-60230594120CD20_HUMAN54-93401A:54-9340
1.6cENST000003899396cENSE00001507320chr11:60231761-6023181757CD20_HUMAN94-112191A:94-11219
1.7cENST000003899397cENSE00001107910chr11:60233394-60233630237CD20_HUMAN113-191791A:113-19179
1.8bENST000003899398bENSE00001028073chr11:60234432-60234533102CD20_HUMAN192-225341A:192-22534
1.9eENST000003899399eENSE00001107918chr11:60235723-602382252503CD20_HUMAN226-297721A:226-29772

(-) Sequences/Alignments

Theoretical Model
   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:294
 aligned with CD20_HUMAN | P11836 from UniProtKB/Swiss-Prot  Length:297

    Alignment length:294
                                    13        23        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    
           CD20_HUMAN     4 PRNSVNGTFPAEPMKGPIAMQSGPKPLFRRMSSLVGPTQSFFMRESKTLGAVQIMNGLFHIALGGLLMIPAGIYAPICVTVWYPLWGGIMYIISGSLLAATEKNSRKCLVKGKMIMNSLSLFAAISGMILSIMDILNIKISHFLKMESLNFIRAHTPYINIYNCEPANPSEKNSPSTQYCYSIQSLFLGILSVMLIFAFFQELVIAGIVENEWKRTCSRPKSNIVLLSAEEKKEQTIEIKEEVVGLTETSSQPKNEEDIEIIPIQEEEEEETETNFPEPPQDQESSPIENDSSP 297
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........hhhhhhhhheee.............hhhhhhhhhhhhh...eeee...eeee...eee...eeeeeee..eeee......eeeeeeeeeeeeee.....eeee..hhhhhh......eeeeeeeeeeeeeeeeeee......eeeeeeeeeeeeeeeee.........eeeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeeeee...eeee......eeeeeeeeeeeeee.....eeee.....eeeeeeeeeeeeee.......ee............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
               Transcript 1 Exon 1.4a  PDB: A:4-53 UniProt: 1-53 [INCOMPLETE] Exon 1.5  PDB: A:54-93 UniProt: 54-93   Exon 1.6c          Exon 1.7c  PDB: A:113-191 UniProt: 113-191                                     Exon 1.8b  PDB: A:192-225         Exon 1.9e  PDB: A:226-297 UniProt: 226-297                               Transcript 1
                 1s8b A   4 PRNSVNGTFPAEPMKGPIAMQSGPKPLFRRMSSLVGPTQSFFMRESKTLGAVQIMNGLFHIALGGLLMIPAGIYAPICVTVWYPLWGGIMYIISGSLLAATEKNSRKCLVKGKMIMNSLSLFAAISGMILSIMDILNIKISHFLKMESLNFIRAHTPYINIYNCEPANPSEKNSPSTQYCYSIQSLFLGILSVMLIFAFFQELVIAGIVENEWKRTCSRPKSNIVLLSAEEKKEQTIEIKEEVVGLTETSSQPKNEEDIEIIPIQEEEEEETETNFPEPPQDQESSPIENDSSP 297
                                    13        23        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    

   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 1S8B)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1S8B)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1S8B)

(-) Gene Ontology  (13, 13)

Theoretical Model(hide GO term definitions)
Chain A   (CD20_HUMAN | P11836)
molecular function
    GO:0023026    MHC class II protein complex binding    Interacting selectively and non-covalently with the class II major histocompatibility complex.
    GO:0005154    epidermal growth factor receptor binding    Interacting selectively and non-covalently with the epidermal growth factor receptor.
    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:0042113    B cell activation    The change in morphology and behavior of a mature or immature B cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific.
    GO:0042100    B cell proliferation    The expansion of a B cell population by cell division. Follows B cell activation.
    GO:0006959    humoral immune response    An immune response mediated through a body fluid.
cellular component
    GO:0009897    external side of plasma membrane    The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    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:0005887    integral component of plasma membrane    The component of the plasma 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.
    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
    Val A:207 - Ile A:208   [ RasMol ]  
    Val A:228 - Leu A:229   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        CD20_HUMAN | P118362osl 3bky 3pp4

(-) Related Entries Specified in the PDB File

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