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(-) Description

Authors :  J. -W. Cheng, K. -C. Huang
Date :  18 Mar 06  (Deposition) - 24 Oct 06  (Release) - 24 Feb 09  (Revision)
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Sh2 Domain, Btk, Structure, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  K. -C. Huang, H. -T. Cheng, M. -T. Pai, S. -R. Tzeng, J. -W. Cheng
Solution Structure And Phosphopeptide Binding Of The Sh2 Domain From The Human Bruton'S Tyrosine Kinase
J. Biomol. Nmr V. 36 73 2006
PubMed-ID: 16969585  |  Reference-DOI: 10.1007/S10858-006-9064-3
(for further references see the PDB file header)

(-) Compounds

    EC Number2.7.1.112
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET21B
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentSH2 DOMAIN
    GeneBTK, AGMX1, ATK, BPK
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2GE9)

(-) Sites  (0, 0)

(no "Site" information available for 2GE9)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2GE9)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2GE9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (19, 19)

NMR Structure (19, 19)
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_008305R288QBTK_HUMANDisease (XLA)  ---AR19Q
02UniProtVAR_006227R288WBTK_HUMANDisease (XLA)128621194AR19W
03UniProtVAR_006228L295PBTK_HUMANDisease (XLA)  ---AL26P
04UniProtVAR_006230G302EBTK_HUMANDisease (XLA)  ---AG33E
05UniProtVAR_008306G302RBTK_HUMANDisease (XLA)  ---AG33R
06UniProtVAR_006231R307GBTK_HUMANDisease (XLA)128621195AR38G
07UniProtVAR_008307R307TBTK_HUMANDisease (XLA)  ---AR38T
08UniProtVAR_008308D308EBTK_HUMANDisease (XLA)  ---AD39E
09UniProtVAR_008309V319ABTK_HUMANDisease (XLA)  ---AV50A
10UniProtVAR_006232Y334SBTK_HUMANDisease (XLA)128621196AY65S
11UniProtVAR_006233L358FBTK_HUMANDisease (XLA)  ---AL89F
12UniProtVAR_006234Y361CBTK_HUMANDisease (XLA)28935478AY92C
13UniProtVAR_006235H362QBTK_HUMANDisease (XLA)  ---AH93Q
14UniProtVAR_006236H364PBTK_HUMANDisease (XLA)  ---AH95P
15UniProtVAR_006237N365YBTK_HUMANDisease (XLA)  ---AN96Y
16UniProtVAR_008310S366FBTK_HUMANDisease (XLA)  ---AS97F
17UniProtVAR_008311L369FBTK_HUMANDisease (XLA)  ---AL100F
18UniProtVAR_006238I370MBTK_HUMANDisease (XLA)  ---AI101M
19UniProtVAR_008312R372GBTK_HUMANDisease (XLA)  ---AR103G

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

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
1SH2PS50001 Src homology 2 (SH2) domain profile.BTK_HUMAN281-377  1A:12-108

(-) Exons   (5, 5)

NMR Structure (5, 5)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength

(-) Sequences/Alignments

NMR Structure
   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:118
 aligned with BTK_HUMAN | Q06187 from UniProtKB/Swiss-Prot  Length:659

    Alignment length:118
                                   279       289       299       309       319       329       339       349       359       369       379        
               SCOP domains d2ge9a_ A: automated matches                                                                                           SCOP domains
               CATH domains 2ge9A00 A:1-118 SHC Adaptor Protein                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author Sec.struct. author
             SAPs(SNPs) (1) ------------------Q------P------E----GE----------A--------------S-----------------------F--CQ-PYF--FM-G--------------- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ------------------W-------------R----T-------------------------------------------------------------------------------- SAPs(SNPs) (2)
                    PROSITE -----------SH2  PDB: A:12-108 UniProt: 281-377                                                              ---------- PROSITE
           Transcript 1 (1) Exon 1.10  ------------------Exon 1.12  PDB: A:30-56    ------------------------------------------Exon 1.14b           Transcript 1 (1)
           Transcript 1 (2) ----------Exon 1.11          --------------------------Exon 1.13b  PDB: A:56-99 UniProt: 325-368   ------------------- Transcript 1 (2)
                                    10        20        30        40        50        60        70        80        90       100       110        

   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, 1)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2GE9)

(-) Gene Ontology  (49, 49)

NMR Structure(hide GO term definitions)
Chain A   (BTK_HUMAN | Q06187)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0008289    lipid binding    Interacting selectively and non-covalently with a lipid.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0004715    non-membrane spanning protein tyrosine kinase activity    Catalysis of the reaction: ATP + protein L-tyrosine = ADP + protein L-tyrosine phosphate by a non-membrane spanning protein.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005547    phosphatidylinositol-3,4,5-trisphosphate binding    Interacting selectively and non-covalently with phosphatidylinositol-3,4,5-trisphosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 3', 4' and 5' positions.
    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).
    GO:0004672    protein kinase activity    Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
    GO:0004713    protein tyrosine kinase activity    Catalysis of the reaction: ATP + a protein tyrosine = ADP + protein tyrosine phosphate.
    GO:0005102    receptor binding    Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
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:0050853    B cell receptor signaling pathway    A series of molecular signals initiated by the cross-linking of an antigen receptor on a B cell.
    GO:0038095    Fc-epsilon receptor signaling pathway    A series of molecular signals initiated by the binding of the Fc portion of immunoglobulin E (IgE) to an Fc-epsilon receptor on the surface of a signal-receiving cell, and ending with regulation of a downstream cellular process, e.g. transcription. The Fc portion of an immunoglobulin is its C-terminal constant region.
    GO:0007249    I-kappaB kinase/NF-kappaB signaling    The process in which a signal is passed on to downstream components within the cell through the I-kappaB-kinase (IKK)-dependent activation of NF-kappaB. The cascade begins with activation of a trimeric IKK complex (consisting of catalytic kinase subunits IKKalpha and/or IKKbeta, and the regulatory scaffold protein NEMO) and ends with the regulation of transcription of target genes by NF-kappaB. In a resting state, NF-kappaB dimers are bound to I-kappaB proteins, sequestering NF-kappaB in the cytoplasm. Phosphorylation of I-kappaB targets I-kappaB for ubiquitination and proteasomal degradation, thus releasing the NF-kappaB dimers, which can translocate to the nucleus to bind DNA and regulate transcription.
    GO:0002755    MyD88-dependent toll-like receptor signaling pathway    Any series of molecular signals generated as a consequence of binding to a toll-like receptor where the MyD88 adaptor molecule mediates transduction of the signal. Toll-like receptors directly bind pattern motifs from a variety of microbial sources to initiate innate immune response.
    GO:0002250    adaptive immune response    An immune response mediated by cells expressing specific receptors for antigen produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory).
    GO:0006915    apoptotic process    A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
    GO:0097190    apoptotic signaling pathway    A series of molecular signals which triggers the apoptotic death of a cell. The pathway starts with reception of a signal, and ends when the execution phase of apoptosis is triggered.
    GO:0019722    calcium-mediated signaling    Any intracellular signal transduction in which the signal is passed on within the cell via calcium ions.
    GO:0048469    cell maturation    A developmental process, independent of morphogenetic (shape) change, that is required for a cell to attain its fully functional state.
    GO:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:0035556    intracellular signal transduction    The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell.
    GO:0007498    mesoderm development    The process whose specific outcome is the progression of the mesoderm over time, from its formation to the mature structure. The mesoderm is the middle germ layer that develops into muscle, bone, cartilage, blood and connective tissue.
    GO:0001818    negative regulation of cytokine production    Any process that stops, prevents, or reduces the rate of production of a cytokine.
    GO:0038083    peptidyl-tyrosine autophosphorylation    The phosphorylation by a protein of one or more of its own tyrosine amino acid residues, or a tyrosine residue on an identical protein.
    GO:0018108    peptidyl-tyrosine phosphorylation    The phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0045579    positive regulation of B cell differentiation    Any process that activates or increases the frequency, rate or extent of B cell differentiation.
    GO:0051092    positive regulation of NF-kappaB transcription factor activity    Any process that activates or increases the frequency, rate or extent of activity of the transcription factor NF-kappaB.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.
    GO:0002902    regulation of B cell apoptotic process    Any process that modulates the frequency, rate, or extent of B cell apoptotic process.
    GO:0002721    regulation of B cell cytokine production    Any process that modulates the frequency, rate, or extent of B cell cytokine production.
    GO:0042127    regulation of cell proliferation    Any process that modulates the frequency, rate or extent of cell proliferation.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
    GO:0007169    transmembrane receptor protein tyrosine kinase signaling pathway    A series of molecular signals initiated by the binding of an extracellular ligand to a receptor on the surface of the target cell where the receptor possesses tyrosine kinase activity, and ending with regulation of a downstream cellular process, e.g. transcription.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0031410    cytoplasmic vesicle    A vesicle found in the cytoplasm of a cell.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0031234    extrinsic component of cytoplasmic side of plasma membrane    The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its cytoplasmic surface, but not integrated into the hydrophobic region.
    GO:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0045121    membrane raft    Any of the small (10-200 nm), heterogeneous, highly dynamic, sterol- and sphingolipid-enriched membrane domains that compartmentalize cellular processes. Small rafts can sometimes be stabilized to form larger platforms through protein-protein and protein-lipid interactions.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    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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 Related Entries

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

        BTK_HUMAN | Q061871aww 1awx 1b55 1btk 1bwn 1k2p 1qly 2z0p 3gen 3k54 3ocs 3oct 3p08 3pix 3piy 3piz 3pj1 3pj2 3pj3 4nwm 4ot5 4ot6 4otf 4otq 4otr 4rfy 4rfz 4rg0 4rx5 4yhf 4z3v 4zly 4zlz 5bpy 5bq0 5fbn 5fbo 5j87 5jrs 5kup 5p9f 5p9g 5p9h 5p9i 5p9j 5p9k 5p9l 5p9m 5t18 5u9d 5vgo

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2GE9)