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PDBsum entry 1ab2
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Transferase(phosphotransferase) PDB id
1ab2

 

 

 

 

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Contents
Protein chain
109 a.a. *
* Residue conservation analysis
PDB id:
1ab2
Name: Transferase(phosphotransferase)
Title: Three-dimensional solution structure of the src homology 2 domain of c-abl
Structure: C-abl tyrosine kinase sh2 domain. Chain: a. Engineered: yes
Source: Homo sapiens. Human. Organism_taxid: 9606
NMR struc: 20 models
Authors: M.Overduin,C.B.Rios,B.J.Mayer,D.Baltimore,D.Cowburn
Key ref: M.Overduin et al. (1992). Three-dimensional solution structure of the src homology 2 domain of c-abl. Cell, 70, 697-704. PubMed id: 1505033 DOI: 10.1016/0092-8674(92)90437-H
Date:
19-Jul-93     Release date:   31-Jan-94    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P00519  (ABL1_HUMAN) -  Tyrosine-protein kinase ABL1 from Homo sapiens
Seq:
Struc: 		 
Seq:
Struc: 		 
Seq:
Struc: 		1130 a.a.
109 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 8 residue positions (black crosses)

 Enzyme reactions 
   Enzyme class: E.C.2.7.10.2  - non-specific protein-tyrosine kinase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: L-tyrosyl-[protein] + ATP = O-phospho-L-tyrosyl-[protein] + ADP + H+
L-tyrosyl-[protein]
 + ATP
 = O-phospho-L-tyrosyl-[protein]
 + ADP
 + H(+)
Molecule diagrams generated from .mol files obtained from the KEGG ftp site

 

 
    Added reference    
 
 
DOI no: 10.1016/0092-8674(92)90437-H Cell 70:697-704 (1992)
PubMed id: 1505033  
 
 
Three-dimensional solution structure of the src homology 2 domain of c-abl.
M.Overduin, C.B.Rios, B.J.Mayer, D.Baltimore, D.Cowburn.
 
  ABSTRACT  
 
SH2 regions are protein motifs capable of binding target protein sequences that contain a phosphotyrosine. The solution structure of the abl SH2 product, a protein of 109 residues and 12.1 kd, has been determined by multidimensional nuclear magnetic resonance spectroscopy. It is a compact spherical domain with a pair of three-stranded antiparallel beta sheets and a C-terminal alpha helix enclosing the hydrophobic core. Three arginines project from a short N-terminal alpha helix and one beta sheet into the putative phosphotyrosine-binding site, which lies on a face distal from the termini. Comparison with other SH2 sequences supports a common global fold and mode of phosphotyrosine binding for this family.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
20357770 J.Wojcik, O.Hantschel, F.Grebien, I.Kaupe, K.L.Bennett, J.Barkinge, R.B.Jones, A.Koide, G.Superti-Furga, and S.Koide (2010).
A potent and highly specific FN3 monobody inhibitor of the Abl SH2 domain.
  Nat Struct Mol Biol, 17, 519-527.
PDB code: 3k2m
19909363 K.Alexandropoulos, and A.G.Regelmann (2009).
Regulation of T-lymphocyte physiology by the Chat-H/CasL adapter complex.
  Immunol Rev, 232, 160-174.  
16793553 B.A.Liu, K.Jablonowski, M.Raina, M.Arcé, T.Pawson, and P.D.Nash (2006).
The human and mouse complement of SH2 domain proteins-establishing the boundaries of phosphotyrosine signaling.
  Mol Cell, 22, 851-868.  
17081313 V.Ahola, T.Aittokallio, M.Vihinen, and E.Uusipaikka (2006).
A statistical score for assessing the quality of multiple sequence alignments.
  BMC Bioinformatics, 7, 484.  
15764601 X.Ran, and J.Song (2005).
Structural insight into the binding diversity between the Tyr-phosphorylated human ephrinBs and Nck2 SH2 domain.
  J Biol Chem, 280, 19205-19212.
PDB code: 1z3k
11746693 G.M.Verkhivker, D.Bouzida, D.K.Gehlhaar, P.A.Rejto, L.Schaffer, S.Arthurs, A.B.Colson, S.T.Freer, V.Larson, B.A.Luty, T.Marrone, and P.W.Rose (2001).
Hierarchy of simulation models in predicting molecular recognition mechanisms from the binding energy landscapes: structural analysis of the peptide complexes with SH2 domains.
  Proteins, 45, 456-470.  
11106594 K.Palo, U.Mets, S.Jäger, P.Kask, and K.Gall (2000).
Fluorescence intensity multiple distributions analysis: concurrent determination of diffusion times and molecular brightness.
  Biophys J, 79, 2858-2866.  
10090735 Q.Xu, J.Zheng, R.Xu, G.Barany, and D.Cowburn (1999).
Flexibility of interdomain contacts revealed by topological isomers of bivalent consolidated ligands to the dual Src homology domain SH(32) of abelson.
  Biochemistry, 38, 3491-3497.  
10398925 R.A.Grucza, J.M.Bradshaw, K.Fütterer, and G.Waksman (1999).
SH2 domains: from structure to energetics, a dual approach to the study of structure-function relationships.
  Med Res Rev, 19, 273-293.  
9892643 R.Xu, B.Ayers, D.Cowburn, and T.W.Muir (1999).
Chemical ligation of folded recombinant proteins: segmental isotopic labeling of domains for NMR studies.
  Proc Natl Acad Sci U S A, 96, 388-393.  
10607564 S.C.Li, G.Gish, D.Yang, A.J.Coffey, J.D.Forman-Kay, I.Ernberg, L.E.Kay, and T.Pawson (1999).
Novel mode of ligand binding by the SH2 domain of the human XLP disease gene product SAP/SH2D1A.
  Curr Biol, 9, 1355-1362.  
9422724 E.A.Ottinger, M.C.Botfield, and S.E.Shoelson (1998).
Tandem SH2 domains confer high specificity in tyrosine kinase signaling.
  J Biol Chem, 273, 729-735.  
10417854 J.Dorrestijn, F.J.van Bussel, J.A.Maassen, and D.S.Gomes de Mesquita (1998).
Early steps in insulin action.
  Arch Physiol Biochem, 106, 269-289.  
9817027 T.K.Sawyer (1998).
Src homology-2 domains: structure, mechanisms, and drug discovery.
  Biopolymers, 47, 243-261.  
9364610 A.F.Rocha (1997).
The brain as a symbol-processing machine.
  Prog Neurobiol, 53, 121-198.  
9219519 H.Gram, R.Schmitz, J.F.Zuber, and G.Baumann (1997).
Identification of phosphopeptide ligands for the Src-homology 2 (SH2) domain of Grb2 by phage display.
  Eur J Biochem, 246, 633-637.  
9241420 J.Kuriyan, and D.Cowburn (1997).
Modular peptide recognition domains in eukaryotic signaling.
  Annu Rev Biophys Biomol Struct, 26, 259-288.  
9174343 P.S.Charifson, L.M.Shewchuk, W.Rocque, C.W.Hummel, S.R.Jordan, C.Mohr, G.J.Pacofsky, M.R.Peel, M.Rodriguez, D.D.Sternbach, and T.G.Consler (1997).
Peptide ligands of pp60(c-src) SH2 domains: a thermodynamic and structural study.
  Biochemistry, 36, 6283-6293.
PDB codes: 1a07 1a08 1a09 1a1a 1a1b 1a1c 1a1e
9351806 T.D.Mulhern, G.L.Shaw, C.J.Morton, A.J.Day, and I.D.Campbell (1997).
The SH2 domain from the tyrosine kinase Fyn in complex with a phosphotyrosyl peptide reveals insights into domain stability and binding specificity.
  Structure, 5, 1313-1323.
PDB codes: 1aot 1aou
  8670861 A.L.Breeze, B.V.Kara, D.G.Barratt, M.Anderson, J.C.Smith, R.W.Luke, J.R.Best, and S.A.Cartlidge (1996).
Structure of a specific peptide complex of the carboxy-terminal SH2 domain from the p85 alpha subunit of phosphatidylinositol 3-kinase.
  EMBO J, 15, 3579-3589.
PDB code: 1pic
8577729 D.Pei, J.Wang, and C.T.Walsh (1996).
Differential functions of the two Src homology 2 domains in protein tyrosine phosphatase SH-PTP1.
  Proc Natl Acad Sci U S A, 93, 1141-1145.  
8805596 H.J.Nam, W.G.Haser, T.M.Roberts, and C.A.Frederick (1996).
Intramolecular interactions of the regulatory domains of the Bcr-Abl kinase reveal a novel control mechanism.
  Structure, 4, 1105-1114.
PDB code: 2abl
8589253 J.J.Barchi, M.Nomizu, A.Otaka, P.P.Roller, and T.R.Burke (1996).
Conformational analysis of cyclic hexapeptides designed as constrained ligands for the SH2 domain of the p85 subunit of phosphatidylinositol-3-OH kinase.
  Biopolymers, 38, 191-208.  
8673601 J.Rahuel, B.Gay, D.Erdmann, A.Strauss, C.Garcia-Echeverría, P.Furet, G.Caravatti, H.Fretz, J.Schoepfer, and M.G.Grütter (1996).
Structural basis for specificity of Grb2-SH2 revealed by a novel ligand binding mode.
  Nat Struct Biol, 3, 586-589.
PDB code: 1tze
8794768 K.H.Thornton, W.T.Mueller, P.McConnell, G.Zhu, A.R.Saltiel, and V.Thanabal (1996).
Nuclear magnetic resonance solution structure of the growth factor receptor-bound protein 2 Src homology 2 domain.
  Biochemistry, 35, 11852-11864.
PDB code: 1ghu
8663178 K.Müller, F.O.Gombert, U.Manning, F.Grossmüller, P.Graff, H.Zaegel, J.F.Zuber, F.Freuler, C.Tschopp, and G.Baumann (1996).
Rapid identification of phosphopeptide ligands for SH2 domains. Screening of peptide libraries by fluorescence-activated bead sorting.
  J Biol Chem, 271, 16500-16505.  
8599763 R.T.Nolte, M.J.Eck, J.Schlessinger, S.E.Shoelson, and S.C.Harrison (1996).
Crystal structure of the PI 3-kinase p85 amino-terminal SH2 domain and its phosphopeptide complexes.
  Nat Struct Biol, 3, 364-374.
PDB codes: 2iug 2iuh 2iui
8662795 U.Hemmann, C.Gerhartz, B.Heesel, J.Sasse, G.Kurapkat, J.Grötzinger, A.Wollmer, Z.Zhong, J.E.Darnell, L.Graeve, P.C.Heinrich, and F.Horn (1996).
Differential activation of acute phase response factor/Stat3 and Stat1 via the cytoplasmic domain of the interleukin 6 signal transducer gp130. II. Src homology SH2 domains define the specificity of stat factor activation.
  J Biol Chem, 271, 12999-13007.  
8632995 W.G.Kerr, M.Heller, and L.A.Herzenberg (1996).
Analysis of lipopolysaccharide-response genes in B-lineage cells demonstrates that they can have differentiation stage-restricted expression and contain SH2 domains.
  Proc Natl Acad Sci U S A, 93, 3947-3952.  
8639560 W.J.Metzler, B.Leiting, K.Pryor, L.Mueller, and B.T.Farmer (1996).
The three-dimensional solution structure of the SH2 domain from p55blk kinase.
  Biochemistry, 35, 6201-6211.
PDB codes: 1blj 1blk
7542925 B.Schaffhausen (1995).
SH2 domain structure and function.
  Biochim Biophys Acta, 1242, 61-75.  
7592905 D.Cowburn, J.Zheng, Q.Xu, and G.Barany (1995).
Enhanced affinities and specificities of consolidated ligands for the Src homology (SH) 3 and SH2 domains of Abelson protein-tyrosine kinase.
  J Biol Chem, 270, 26738-26741.  
  7708014 E.M.Phizicky, and S.Fields (1995).
Protein-protein interactions: methods for detection and analysis.
  Microbiol Rev, 59, 94.  
7612891 H.Flaswinkel, M.Barner, and M.Reth (1995).
The tyrosine activation motif as a target of protein tyrosine kinases and SH2 domains.
  Semin Immunol, 7, 21-27.  
7533294 J.Duyster, R.Baskaran, and J.Y.Wang (1995).
Src homology 2 domain as a specificity determinant in the c-Abl-mediated tyrosine phosphorylation of the RNA polymerase II carboxyl-terminal repeated domain.
  Proc Natl Acad Sci U S A, 92, 1555-1559.  
9383454 K.M.Shokat (1995).
Tyrosine kinases: modular signaling enzymes with tunable specificities.
  Chem Biol, 2, 509-514.  
8590001 S.S.Narula, R.W.Yuan, S.E.Adams, O.M.Green, J.Green, T.B.Philips, L.D.Zydowsky, M.C.Botfield, M.Hatada, and E.R.Laird (1995).
Solution structure of the C-terminal SH2 domain of the human tyrosine kinase Syk complexed with a phosphotyrosine pentapeptide.
  Structure, 3, 1061-1073.
PDB codes: 1csy 1csz
8590002 Y.Q.Gosser, J.Zheng, M.Overduin, B.J.Mayer, and D.Cowburn (1995).
The solution structure of Abl SH3, and its relationship to SH2 in the SH(32) construct.
  Structure, 3, 1075-1086.
PDB code: 1awo
8080430 A.R.Saltiel, and S.J.Decker (1994).
Cellular mechanisms of signal transduction for neurotrophins.
  Bioessays, 16, 405-411.  
7521735 C.H.Lee, D.Kominos, S.Jacques, B.Margolis, J.Schlessinger, S.E.Shoelson, and J.Kuriyan (1994).
Crystal structures of peptide complexes of the amino-terminal SH2 domain of the Syp tyrosine phosphatase.
  Structure, 2, 423-438.
PDB codes: 1aya 1ayb 1ayc 1ayd
7512450 C.L.Sawyers, J.McLaughlin, A.Goga, M.Havlik, and O.Witte (1994).
The nuclear tyrosine kinase c-Abl negatively regulates cell growth.
  Cell, 77, 121-131.  
8183901 C.M.Pleiman, C.Abrams, L.T.Gauen, W.Bedzyk, J.Jongstra, A.S.Shaw, and J.C.Cambier (1994).
Distinct p53/56lyn and p59fyn domains associate with nonphosphorylated and phosphorylated Ig-alpha.
  Proc Natl Acad Sci U S A, 91, 4268-4272.  
  11725009 D.Liu, and L.H.Wang (1994).
Oncogenes, Protein Tyrosine Kinases, and Signal Transduction.
  J Biomed Sci, 1, 65-82.  
  7520528 G.Panchamoorthy, T.Fukazawa, L.Stolz, G.Payne, K.Reedquist, S.Shoelson, Z.Songyang, L.Cantley, C.Walsh, and H.Band (1994).
Physical and functional interactions between SH2 and SH3 domains of the Src family protein tyrosine kinase p59fyn.
  Mol Cell Biol, 14, 6372-6385.  
  8065326 M.Yoakim, W.Hou, Z.Songyang, Y.Liu, L.Cantley, and B.Schaffhausen (1994).
Genetic analysis of a phosphatidylinositol 3-kinase SH2 domain reveals determinants of specificity.
  Mol Cell Biol, 14, 5929-5938.  
7517560 S.Koyasu, A.G.Tse, P.Moingeon, R.E.Hussey, A.Mildonian, J.Hannisian, L.K.Clayton, and E.L.Reinherz (1994).
Delineation of a T-cell activation motif required for binding of protein tyrosine kinases containing tandem SH2 domains.
  Proc Natl Acad Sci U S A, 91, 6693-6697.  
8369628 A.R.Saltiel, and M.Ohmichi (1993).
Pleiotropic signaling from receptor tyrosine kinases.
  Curr Opin Neurobiol, 3, 352-359.  
14731533 B.J.Mayer, and D.Baltimore (1993).
Signalling through SH2 and SH3 domains.
  Trends Cell Biol, 3, 8.  
8357828 C.E.Rudd, O.Janssen, K.V.Prasad, M.Raab, A.da Silva, J.C.Telfer, and M.Yamamoto (1993).
src-related protein tyrosine kinases and their surface receptors.
  Biochim Biophys Acta, 1155, 239-266.  
  8395016 C.M.Pleiman, M.R.Clark, L.K.Gauen, S.Winitz, K.M.Coggeshall, G.L.Johnson, A.S.Shaw, and J.C.Cambier (1993).
Mapping of sites on the Src family protein tyrosine kinases p55blk, p59fyn, and p56lyn which interact with the effector molecules phospholipase C-gamma 2, microtubule-associated protein kinase, GTPase-activating protein, and phosphatidylinositol 3-kinase.
  Mol Cell Biol, 13, 5877-5887.  
8387783 G.Panayotou, and M.D.Waterfield (1993).
The assembly of signalling complexes by receptor tyrosine kinases.
  Bioessays, 15, 171-177.  
7684655 G.W.Booker, I.Gout, A.K.Downing, P.C.Driscoll, J.Boyd, M.D.Waterfield, and I.D.Campbell (1993).
Solution structure and ligand-binding site of the SH3 domain of the p85 alpha subunit of phosphatidylinositol 3-kinase.
  Cell, 73, 813-822.
PDB codes: 1pnj 2pni
  7687536 M.E.Noble, A.Musacchio, M.Saraste, S.A.Courtneidge, and R.K.Wierenga (1993).
Crystal structure of the SH3 domain in human Fyn; comparison of the three-dimensional structures of SH3 domains in tyrosine kinases and spectrin.
  EMBO J, 12, 2617-2624.
PDB code: 1shf
  8268793 M.J.Fry, G.Panayotou, G.W.Booker, and M.D.Waterfield (1993).
New insights into protein-tyrosine kinase receptor signaling complexes.
  Protein Sci, 2, 1785-1797.  
  8382612 S.E.Shoelson, M.Sivaraja, K.P.Williams, P.Hu, J.Schlessinger, and M.A.Weiss (1993).
Specific phosphopeptide binding regulates a conformational change in the PI 3-kinase SH2 domain associated with enzyme activation.
  EMBO J, 12, 795-802.  
7680927 S.J.Taylor, and D.Shalloway (1993).
The cell cycle and c-Src.
  Curr Opin Genet Dev, 3, 26-34.  
8402883 X.Y.Fu, and J.J.Zhang (1993).
Transcription factor p91 interacts with the epidermal growth factor receptor and mediates activation of the c-fos gene promoter.
  Cell, 74, 1135-1145.  
1281542 M.Overduin, B.Mayer, C.B.Rios, D.Baltimore, and D.Cowburn (1992).
Secondary structure of Src homology 2 domain of c-Abl by heteronuclear NMR spectroscopy in solution.
  Proc Natl Acad Sci U S A, 89, 11673-11677.  
1423600 T.Pawson, and G.D.Gish (1992).
SH2 and SH3 domains: from structure to function.
  Cell, 71, 359-362.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB code is shown on the right.

 

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