5U06 | pdb_00005u06

Grb7-SH2 with bicyclic peptide inhibitor containing a pY mimetic

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	SH2 domain	8036103	3000197	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SH2 domain	8036103	3000197	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SH2 domain	8036103	3000197	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	SH2 domain	8036103	3000197	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Methyltransf_25	e5u06D1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Methyltransf_25	ECOD (v294.1)
C	Saf-Nte_pilin	e5u06C1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Undecaprenyl diphosphate synthase	F: Saf-Nte_pilin	ECOD (v294.1)
B	Methyltransf_25	e5u06B1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Methyltransf_25	ECOD (v294.1)
A	Methyltransf_25	e5u06A1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: Methyltransf_25	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.505.10	Alpha Beta	2-Layer Sandwich	SHC Adaptor Protein	SH2 domain	CATH (4.3.0)
C	3.30.505.10	Alpha Beta	2-Layer Sandwich	SHC Adaptor Protein	SH2 domain	CATH (4.3.0)
B	3.30.505.10	Alpha Beta	2-Layer Sandwich	SHC Adaptor Protein	SH2 domain	CATH (4.3.0)
A	3.30.505.10	Alpha Beta	2-Layer Sandwich	SHC Adaptor Protein	SH2 domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00017	SH2 domain (SH2)	SH2 domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth L], F [auth M], G [auth N], H [auth P]	bicyclic peptide inhibitor: LYS-PHE-GLU-GLY-CMF-ASP-ASN-GLU-CST	-	-	-
A, B, C, D	Growth factor receptor-bound protein 7	ion binding binding anion binding phosphatidylinositol binding small molecule binding protein binding kinase binding enzyme binding protein kinase binding RNA binding nucleic acid binding identical protein binding	cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation cell surface receptor protein tyrosine kinase signaling pathway cell communication ERBB signaling pathway epidermal growth factor receptor signaling pathway cellular process signal transduction enzyme-linked receptor protein signaling pathway cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation cell surface receptor protein tyrosine kinase signaling pathway cell communication ERBB signaling pathway epidermal growth factor receptor signaling pathway cellular process signal transduction enzyme-linked receptor protein signaling pathway negative regulation of biological process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of protein metabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of locomotion regulation of cell motility positive regulation of biological process positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion positive regulation of cellular process cellular component biogenesis cellular component organization organelle organization cellular component assembly stress granule assembly organelle assembly membraneless organelle assembly cellular component organization or biogenesis	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle organelle membraneless organelle cytoplasm supramolecular complex cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction intracellular anatomical structure cytoplasmic ribonucleoprotein granule intracellular membraneless organelle ribonucleoprotein granule intracellular organelle organelle membraneless organelle cytoplasm supramolecular complex cytoplasmic stress granule cytosol cell periphery plasma membrane membrane cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR001849	Pleckstrin homology domain	Domain
A, B, C, D	IPR000159	Ras-associating domain	Domain
A, B, C, D	IPR035032	Growth factor receptor-bound protein 7, SH2 domain	Domain
A, B, C, D	IPR039664	GRB/APBB1IP	Family
A, B, C, D	IPR015042	BPS (Between PH and SH2) domain	Domain
A, B, C, D	IPR036860	SH2 domain superfamily	Homologous Superfamily
A, B, C, D	IPR039665	APBB1IP, PH domain	Domain
A, B, C, D	IPR046986	Growth factor receptor-bound protein 7, RA domain	Domain
A, B, C, D	IPR000980	SH2 domain	Domain
A, B, C, D	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q14451	renal cell carcinoma prostate cancer adenocarcinoma breast carcinoma collecting duct carcinoma granular cell carcinoma papillary renal cell carcinoma tubular adenocarcinoma chromophobe renal cell carcinoma sarcomatoid renal cell carcinoma Lung Neoplasms osteosarcoma renal carcinoma atopic eczema systemic lupus erythematosus renal cell carcinoma prostate cancer adenocarcinoma breast carcinoma collecting duct carcinoma granular cell carcinoma papillary renal cell carcinoma tubular adenocarcinoma chromophobe renal cell carcinoma sarcomatoid renal cell carcinoma Lung Neoplasms osteosarcoma renal carcinoma atopic eczema systemic lupus erythematosus cribriform carcinoma of breast invasive ductal breast carcinoma bipolar disorder Crohn disease inflammatory bowel disease lung benign neoplasm marginal zone lymphoma primary biliary cholangitis psoriasis breast cancer ulcerative colitis clear cell renal carcinoma cribriform carcinoma ductal breast carcinoma in situ interstitial cystitis

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.