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(-) Description

Authors :  A. Kuglstatter, A. Wong
Date :  08 Nov 10  (Deposition) - 12 Jan 11  (Release) - 27 Apr 11  (Revision)
Resolution :  2.55
Chains :  Asym./Biol. Unit :  A
Keywords :  Helix C-Out, Dfg-In, Transferase, Transferase-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  A. Kuglstatter, A. Wong, S. Tsing, S. W. Lee, Y. Lou, A. G. Villasenor, J. M. Bradshaw, D. Shaw, J. W. Barnett, M. F. Browner
Insights Into The Conformational Flexibility Of Bruton'S Tyrosine Kinase From Multiple Ligand Complex Structures.
Protein Sci. V. 20 428 2011
PubMed-ID: 21280133  |  Reference-DOI: 10.1002/PRO.575

(-) Compounds

    EC Number2.7.10.2
    Expression System Cell LineSF9
    Expression System CommonFALL ARMYWORM
    Expression System Taxid7108
    Expression System Vector TypeBACULOVIRUS
    FragmentUNP RESIDUES 387-659
    GeneAGMX1, ATK, BPK, BTK
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

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

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
1AC1SOFTWARELEU A:408 , GLY A:409 , VAL A:416 , ALA A:428 , THR A:474 , GLU A:475 , TYR A:476 , MET A:477 , ALA A:478 , GLY A:480 , LEU A:528 , LEU A:542 , SER A:543 , VAL A:546BINDING SITE FOR RESIDUE 585 A 1

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PIY)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
1Arg A:468 -Pro A:469

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (69, 69)

Asymmetric/Biological Unit (69, 69)
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_006239L408PBTK_HUMANDisease (XLA)128621198AL408P
02UniProtVAR_008313G414RBTK_HUMANDisease (XLA)  ---AG414R
03UniProtVAR_006240Y418HBTK_HUMANDisease (XLA)144079566AY418H
04UniProtVAR_006241I429NBTK_HUMANDisease (XLA)  ---AI429N
05UniProtVAR_006242K430EBTK_HUMANDisease (XLA)128620184AK430E
06UniProtVAR_008314K430RBTK_HUMANDisease (XLA)  ---AK430R
07UniProtVAR_008315E445DBTK_HUMANDisease (XLA)  ---AE445D
08UniProtVAR_008316G462DBTK_HUMANDisease (XLA)  ---AG462D
09UniProtVAR_008317G462VBTK_HUMANDisease (XLA)  ---AG462V
10UniProtVAR_006243Y476DBTK_HUMANDisease (XLA)  ---AY476D
11UniProtVAR_006244M477RBTK_HUMANDisease (XLA)  ---AM477R
12UniProtVAR_074309C481SBTK_HUMANUnclassified  ---AC481S
13UniProtVAR_006245C502FBTK_HUMANDisease (XLA)  ---AC502F
14UniProtVAR_006246C502WBTK_HUMANDisease (XLA)41310709AC502W
15UniProtVAR_006247C506RBTK_HUMANDisease (XLA)128621200AC506R
16UniProtVAR_006248C506YBTK_HUMANDisease (XLA)  ---AC506Y
17UniProtVAR_008318A508DBTK_HUMANDisease (XLA)  ---AA508D
18UniProtVAR_008319M509IBTK_HUMANDisease (XLA)  ---AM509I
19UniProtVAR_006249M509VBTK_HUMANDisease (XLA)  ---AM509V
20UniProtVAR_008961L512PBTK_HUMANDisease (XLA)  ---AL512P
21UniProtVAR_008962L512QBTK_HUMANDisease (XLA)  ---AL512Q
22UniProtVAR_008320L518RBTK_HUMANDisease (XLA)  ---AL518R
23UniProtVAR_006251R520QBTK_HUMANDisease (XLA)128621202AR520Q
24UniProtVAR_008321D521GBTK_HUMANDisease (XLA)  ---AD521G
25UniProtVAR_006252D521HBTK_HUMANDisease (XLA)  ---AD521H
26UniProtVAR_006253D521NBTK_HUMANDisease (XLA)  ---AD521N
27UniProtVAR_008322A523EBTK_HUMANDisease (XLA)  ---AA523E
28UniProtVAR_008323R525GBTK_HUMANDisease (XLA)  ---AR525G
29UniProtVAR_006254R525PBTK_HUMANDisease (XLA)  ---AR525P
30UniProtVAR_006255R525QBTK_HUMANDisease (XLA)128620183AR525Q
31UniProtVAR_006256N526KBTK_HUMANDisease (XLA)  ---AN526K
32UniProtVAR_008324V535FBTK_HUMANDisease (XLA)  ---AV535F
33UniProtVAR_006257L542PBTK_HUMANDisease (XLA)128621203AL542P
34UniProtVAR_008963R544GBTK_HUMANDisease (XLA)  ---AR544G
35UniProtVAR_006258R544KBTK_HUMANDisease (XLA)  ---AR544K
36UniProtVAR_008325F559SBTK_HUMANDisease (XLA)  ---AF559S
37UniProtVAR_006259R562PBTK_HUMANDisease (XLA)28935176AR562P
38UniProtVAR_006260R562WBTK_HUMANDisease (XLA)128621204AR562W
39UniProtVAR_008326W563LBTK_HUMANDisease (XLA)  ---AW563L
40UniProtVAR_006261E567KBTK_HUMANDisease (XLA)  ---AE567K
41UniProtVAR_008964S578YBTK_HUMANDisease (XLA)  ---AS578Y
42UniProtVAR_006262W581RBTK_HUMANDisease (XLA)128621205AW581R
43UniProtVAR_006263A582VBTK_HUMANDisease (XLA)  ---AA582V
44UniProtVAR_008327F583SBTK_HUMANDisease (XLA)  ---AF583S
45UniProtVAR_006264M587LBTK_HUMANDisease (XLA)  ---AM587L
46UniProtVAR_008328E589DBTK_HUMANDisease (XLA)  ---AE589D
47UniProtVAR_006265E589GBTK_HUMANDisease (XLA)128621206AE589G
48UniProtVAR_008965E589KBTK_HUMANDisease (XLA)  ---AE589K
49UniProtVAR_006267S592PBTK_HUMANDisease (XLA)  ---AS592P
50UniProtVAR_006268G594EBTK_HUMANDisease (XLA)  ---AG594E
51UniProtVAR_006269G594RBTK_HUMANDisease (XLA)  ---AG594R
52UniProtVAR_006270Y598CBTK_HUMANDisease (XLA)  ---AY598C
53UniProtVAR_006271A607DBTK_HUMANDisease (XLA)128621208AA607D
54UniProtVAR_006272G613DBTK_HUMANDisease (XLA)128621209AG613D
55UniProtVAR_008330P619ABTK_HUMANDisease (XLA)  ---AP619A
56UniProtVAR_006273P619SBTK_HUMANDisease (XLA)  ---AP619S
57UniProtVAR_008331P619TBTK_HUMANDisease (XLA)  ---AP619T
58UniProtVAR_008332A622PBTK_HUMANDisease (XLA)  ---AA622P
59UniProtVAR_008333V626GBTK_HUMANDisease (XLA)  ---AV626G
60UniProtVAR_006274M630IBTK_HUMANPolymorphism  ---AM630I
61UniProtVAR_006275M630KBTK_HUMANDisease (XLA)128621210AM630K
62UniProtVAR_008334M630TBTK_HUMANDisease (XLA)  ---AM630T
63UniProtVAR_006276C633YBTK_HUMANDisease (XLA)  ---AC633Y
64UniProtVAR_006277R641CBTK_HUMANDisease (XLA)  ---AR641C
65UniProtVAR_006278R641HBTK_HUMANDisease (XLA)  ---AR641H
66UniProtVAR_008335F644LBTK_HUMANDisease (XLA)  ---AF644L
67UniProtVAR_006279F644SBTK_HUMANDisease (XLA)  ---AF644S
68UniProtVAR_006280L647PBTK_HUMANDisease (XLA)  ---AL647P
69UniProtVAR_006281L652PBTK_HUMANDisease (XLA)128622212AL652P

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
1PROTEIN_KINASE_ATPPS00107 Protein kinases ATP-binding region signature.BTK_HUMAN408-430  1A:408-430
2PROTEIN_KINASE_TYRPS00109 Tyrosine protein kinases specific active-site signature.BTK_HUMAN517-529  1A:517-529

(-) Exons   (7, 7)

Asymmetric/Biological Unit (7, 7)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.15aENST0000030873115aENSE00000673981X:100611943-100611772172BTK_HUMAN393-450581A:393-450 (gaps)58

(-) 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:262
 aligned with BTK_HUMAN | Q06187 from UniProtKB/Swiss-Prot  Length:659

    Alignment length:268
                                   400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650        
               SCOP domains d3piya_ A: automated matches                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -----------Pkinase_Tyr-3piyA01 A:402-651                                                                                                                                                                                                                             ------- Pfam domains
         Sec.struct. author .hhhhh.hhh.eeeeeeeee....eeeeeee...eeeeeee.------hhhhhhhhhhhhh........eeeee......eeeee.....hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee.................hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhh...hhhhh.hhhhhhhhhhhhhhhh Sec.struct. author
             SAPs(SNPs) (1) -----------------P-----R---H----------NE--------------D----------------D-------------DR---S--------------------F---R-DI--P-----R-QG-E-GK--------F------P-G--------------S--PL---K----------Y--RVS---L-D--P-E---C--------D-----D-----A--P---G---I--Y-------C--L--P----P------ SAPs(SNPs) (1)
             SAPs(SNPs) (2) ---------------------------------------R-------------------------------V---------------------------------------W---Y--V--Q--------H---P------------------K-----------------W--------------------------G----R------------------------S----------K----------H--S-------------- SAPs(SNPs) (2)
             SAPs(SNPs) (3) ----------------------------------------------------------------------------------------------------------------------------------N---Q---------------------------------------------------------------K-----------------------------T----------T---------------------------- SAPs(SNPs) (3)
                    PROSITE -----------------PROTEIN_KINASE_ATP     --------------------------------------------------------------------------------------PROTEIN_KINAS--------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.1--------------------------------------------------------Exon 1.16b  PDB: A:450-522 UniProt: 450-522                              Exon 1.17             ---------------------------------------Exon 1.19b  PDB: A:584-636 UniProt: 584-636          Exon 1.20b             Transcript 1 (1)
           Transcript 1 (2) --Exon 1.15a  PDB: A:393-450 (gaps) UniProt: 393-450        ---------------------------------------------------------------------------------------------Exon 1.18b  PDB: A:544-584               -------------------------------------------------------------------------- Transcript 1 (2)
                                   400       410       420       430 |     440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650        
                                                                   432    439                                                                                                                                                                                                                           

   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)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
Clan: PKinase (934)

(-) Gene Ontology  (49, 49)

Asymmetric/Biological Unit(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 2ge9 2z0p 3gen 3k54 3ocs 3oct 3p08 3pix 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

3pix 3piz 3pj1 3pj2 3pj3