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- PDB-1hcs: NMR STRUCTURE OF THE HUMAN SRC SH2 DOMAIN COMPLEX -

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Basic information

Entry
Database: PDB / ID: 1hcs
TitleNMR STRUCTURE OF THE HUMAN SRC SH2 DOMAIN COMPLEX
Components
  • ACETYL-PYEEIE-OH
  • HUMAN SRC
KeywordsCOMPLEX (SIGNAL TRANSDUCTION/PEPTIDE) / HUMAN PP60C-SRC SH2 DOMAIN / COMPLEX (SIGNAL TRANSDUCTION-PEPTIDE) COMPLEX
Function / homology
Function and homology information


regulation of caveolin-mediated endocytosis / regulation of toll-like receptor 3 signaling pathway / cellular response to progesterone stimulus / positive regulation of platelet-derived growth factor receptor-beta signaling pathway / positive regulation of dephosphorylation / regulation of cell projection assembly / negative regulation of telomere maintenance / Regulation of commissural axon pathfinding by SLIT and ROBO / regulation of epithelial cell migration / ERBB2 signaling pathway ...regulation of caveolin-mediated endocytosis / regulation of toll-like receptor 3 signaling pathway / cellular response to progesterone stimulus / positive regulation of platelet-derived growth factor receptor-beta signaling pathway / positive regulation of dephosphorylation / regulation of cell projection assembly / negative regulation of telomere maintenance / Regulation of commissural axon pathfinding by SLIT and ROBO / regulation of epithelial cell migration / ERBB2 signaling pathway / Regulation of gap junction activity / negative regulation of focal adhesion assembly / BMP receptor binding / positive regulation of integrin activation / positive regulation of protein processing / Activated NTRK2 signals through FYN / Netrin mediated repulsion signals / regulation of intracellular estrogen receptor signaling pathway / intestinal epithelial cell development / negative regulation of neutrophil activation / regulation of vascular permeability / focal adhesion assembly / connexin binding / osteoclast development / Activated NTRK3 signals through PI3K / cellular response to fluid shear stress / signal complex assembly / positive regulation of small GTPase mediated signal transduction / branching involved in mammary gland duct morphogenesis / Co-stimulation by CD28 / Regulation of RUNX1 Expression and Activity / DCC mediated attractive signaling / EPH-Ephrin signaling / positive regulation of podosome assembly / positive regulation of lamellipodium morphogenesis / regulation of bone resorption / Ephrin signaling / Signal regulatory protein family interactions / odontogenesis / negative regulation of mitochondrial depolarization / podosome / MET activates PTK2 signaling / cellular response to peptide hormone stimulus / Regulation of KIT signaling / regulation of early endosome to late endosome transport / Signaling by ALK / leukocyte migration / phospholipase activator activity / oogenesis / Co-inhibition by CTLA4 / GP1b-IX-V activation signalling / EPHA-mediated growth cone collapse / Receptor Mediated Mitophagy / p130Cas linkage to MAPK signaling for integrins / interleukin-6-mediated signaling pathway / stress fiber assembly / positive regulation of Notch signaling pathway / Signaling by EGFR / RUNX2 regulates osteoblast differentiation / stimulatory C-type lectin receptor signaling pathway / negative regulation of intrinsic apoptotic signaling pathway / Fc-gamma receptor signaling pathway involved in phagocytosis / forebrain development / regulation of cell-cell adhesion / uterus development / PECAM1 interactions / Recycling pathway of L1 / GRB2:SOS provides linkage to MAPK signaling for Integrins / regulation of heart rate by cardiac conduction / RHOU GTPase cycle / protein tyrosine kinase activator activity / RET signaling / signaling receptor activator activity / negative regulation of anoikis / FCGR activation / Long-term potentiation / positive regulation of epithelial cell migration / progesterone receptor signaling pathway / positive regulation of protein serine/threonine kinase activity / EPH-ephrin mediated repulsion of cells / GAB1 signalosome / ephrin receptor signaling pathway / vascular endothelial growth factor receptor signaling pathway / negative regulation of hippo signaling / bone resorption / negative regulation of protein-containing complex assembly / Nuclear signaling by ERBB4 / phospholipase binding / ephrin receptor binding / T cell costimulation / cellular response to platelet-derived growth factor stimulus / p38MAPK events / Signaling by ERBB2 / Integrin signaling / EPHB-mediated forward signaling / ionotropic glutamate receptor binding / positive regulation of TORC1 signaling / NCAM signaling for neurite out-growth / Downregulation of ERBB4 signaling / Downstream signal transduction
Similarity search - Function
SH2 domain / SHC Adaptor Protein / : / SH3 domain / SH2 domain / Src homology 2 (SH2) domain profile. / Src homology 2 domains / SH2 domain / Src homology 3 domains / SH2 domain superfamily ...SH2 domain / SHC Adaptor Protein / : / SH3 domain / SH2 domain / Src homology 2 (SH2) domain profile. / Src homology 2 domains / SH2 domain / Src homology 3 domains / SH2 domain superfamily / SH3-like domain superfamily / Src homology 3 (SH3) domain profile. / SH3 domain / Tyrosine-protein kinase, catalytic domain / Tyrosine kinase, catalytic domain / Tyrosine protein kinases specific active-site signature. / Tyrosine-protein kinase, active site / Serine-threonine/tyrosine-protein kinase, catalytic domain / Protein tyrosine and serine/threonine kinase / Protein kinase, ATP binding site / Protein kinases ATP-binding region signature. / Protein kinase domain profile. / Protein kinase domain / Protein kinase-like domain superfamily / 2-Layer Sandwich / Alpha Beta
Similarity search - Domain/homology
Proto-oncogene tyrosine-protein kinase Src
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR
AuthorsGampe Junior, R.T. / Xu, R.X.
Citation
Journal: Biochemistry / Year: 1995
Title: Solution structure of the human pp60c-src SH2 domain complexed with a phosphorylated tyrosine pentapeptide.
Authors: Xu, R.X. / Word, J.M. / Davis, D.G. / Rink, M.J. / Willard Jr., D.H. / Gampe Jr., R.T.
#1: Journal: J.Biol.Chem. / Year: 1994
Title: Peptide Inhibitors of Src SH3-Sh2(Slash)Phosphoprotein Interactions
Authors: Gilmer, T. / Rodriguez, M. / Jordan, S. / Crosby, R. / Alligood, K. / Green, M. / Kimery, M. / Wagner, C. / Kinder, D. / Charifson, P. / Hassell, A.M. / Willard, D. / Luther, M. / Rusnak, D. ...Authors: Gilmer, T. / Rodriguez, M. / Jordan, S. / Crosby, R. / Alligood, K. / Green, M. / Kimery, M. / Wagner, C. / Kinder, D. / Charifson, P. / Hassell, A.M. / Willard, D. / Luther, M. / Rusnak, D. / Sternbach, D.D. / Mehrotra, M. / Peel, M. / Shampine, L. / Davis, R. / Robbins, J. / Patel, I.R. / Kassel, D. / Burkhart, W. / Moyer, M. / Bradshaw, T. / Berman, J.
#2: Journal: Cell(Cambridge,Mass.) / Year: 1994
Title: Nuclear Magnetic Resonance Structure of an Sh2 Domain of Phospholipase C-Gamma1 Complexed with a High Affinity Binding Peptide
Authors: Pascal, S.M. / Singer, A.U. / Gish, G. / Yamazaki, T. / Shoelson, S.E. / Pawson, T. / Kay, L.E. / Forman-Kay, J.D.
#3: Journal: Cell(Cambridge,Mass.) / Year: 1993
Title: Binding of a High Affinity Phosphotyrosyl Peptide to the Src Sh2 Domain: Crystal Structures of the Complexed and Peptide-Free Forms
Authors: Waksman, G. / Shoelson, S.E. / Pant, N. / Cowburn, D. / Kuriyan, J.
#4: Journal: Nature / Year: 1993
Title: Recognition of a High-Affinity Phosphotyrosyl Peptide by the Src Homology-2 Domain of P56Lck
Authors: Eck, M.J. / Shoelson, S.E. / Harrison, S.C.
#5: Journal: Mol.Cell.Biol. / Year: 1985
Title: Human Cellular Src Gene: Nucleotide Sequence and Derived Amino Acid Sequence of the Region Coding for the Carboxy-Terminal Two-Thirds of Pp60C-Src
Authors: Anderson, S.K. / Gibbs, C.P. / Tanaka, A. / Kung, H.J. / Fugita, D.J.
History
DepositionSep 2, 1994Processing site: BNL
Revision 1.0Sep 15, 1995Provider: repository / Type: Initial release
Revision 1.1Mar 3, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 2022Group: Database references / Derived calculations / Other
Category: database_2 / pdbx_database_status ...database_2 / pdbx_database_status / pdbx_struct_assembly / pdbx_struct_oper_list / struct_conn / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _struct_conn.pdbx_leaving_atom_flag / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
Revision 1.4Oct 30, 2024Group: Data collection / Structure summary
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / pdbx_entry_details / pdbx_modification_feature

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Structure visualization

Structure viewerMolecule:
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Assembly

Deposited unit
A: ACETYL-PYEEIE-OH
B: HUMAN SRC


Theoretical massNumber of molelcules
Total (without water)13,0922
Polymers13,0922
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)1 / -
Representative

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Components

#1: Protein/peptide ACETYL-PYEEIE-OH


Mass: 787.705 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
#2: Protein HUMAN SRC / PP60==C-SRC==


Mass: 12303.886 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Gene: NUCLEOTIDE SEQUENCE A / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P12931
Has protein modificationY

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR

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Sample preparation

Crystal grow
*PLUS
Method: other / Details: NMR

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Processing

Software
NameClassification
X-PLORmodel building
X-PLORrefinement
X-PLORphasing
NMR softwareName: X-PLOR / Developer: BRUNGER / Classification: refinement
NMR ensembleConformers submitted total number: 1

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