4U5W
Crystal Structure of HIV-1 Nef-SF2 Core Domain in Complex with the Src Family Kinase Hck SH3-SH2 Tandem Regulatory Domains
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Chains | Domain Info | Class | Fold | Superfamily | Family | Domain | Species | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | d4u5wa_ | Alpha and beta proteins (a+b) | Regulatory factor Nef | Regulatory factor Nef | Regulatory factor Nef | automated matches | HIV-1 (HIV-1 M:B_ARV2/SF2 ) [TaxId: 11685 ], | SCOPe (2.08) |
C | d4u5wc_ | Alpha and beta proteins (a+b) | Regulatory factor Nef | Regulatory factor Nef | Regulatory factor Nef | automated matches | HIV-1 (HIV-1 M:B_ARV2/SF2 ) [TaxId: 11685 ], | SCOPe (2.08) |
B | d4u5wb1 | All beta proteins | SH3-like barrel | SH3-domain | automated matches | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
D | d4u5wd1 | All beta proteins | SH3-like barrel | SH3-domain | automated matches | automated matches | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
D | d4u5wd2 | Alpha and beta proteins (a+b) | SH2-like | SH2 domain | SH2 domain | Hemopoetic cell kinase Hck | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
D | d4u5wd3 | Artifacts | Tags | Tags | Tags | C-terminal Tags | Human (Homo sapiens ) [TaxId: 9606 ], | SCOPe (2.08) |
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
B | SCOP2B Superfamily | SH3-domain | 8041589 | 3000153 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | SH2 domain | 8035661 | 3000197 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | SH2 domain | 8035661 | 3000197 | SCOP2B (2022-06-29) |
D | SCOP2B Superfamily | SH3-domain | 8041589 | 3000153 | 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) |
---|---|---|---|---|---|---|---|---|
A | F-protein | e4u5wA1 | A: a+b three layers | X: Regulatory factor Nef (From Topology) | H: Regulatory factor Nef (From Topology) | T: Regulatory factor Nef | F: F-protein | ECOD (1.6) |
C | F-protein | e4u5wC1 | A: a+b three layers | X: Regulatory factor Nef (From Topology) | H: Regulatory factor Nef (From Topology) | T: Regulatory factor Nef | F: F-protein | ECOD (1.6) |
B | SH3_1 | e4u5wB2 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: SH3_1 | ECOD (1.6) |
B | SH2 | e4u5wB1 | A: a+b two layers | X: SH2 (From Topology) | H: SH2 (From Topology) | T: SH2 | F: SH2 | ECOD (1.6) |
D | SH3_1 | e4u5wD2 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: SH3_1 | ECOD (1.6) |
D | SH2 | e4u5wD1 | A: a+b two layers | X: SH2 (From Topology) | H: SH2 (From Topology) | T: SH2 | F: SH2 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 3.30.62.10 | Alpha Beta | 2-Layer Sandwich | Nef Regulatory Factor | Nef Regulatory Factor | CATH (4.3.0) |
C | 3.30.62.10 | Alpha Beta | 2-Layer Sandwich | Nef Regulatory Factor | Nef Regulatory Factor | CATH (4.3.0) |
B | 2.30.30.40 | Mainly Beta | Roll | SH3 type barrels. | SH3 Domains | CATH (utative) |
B | 3.30.505.10 | Alpha Beta | 2-Layer Sandwich | SHC Adaptor Protein | SH2 domain | CATH (utative) |
D | 2.30.30.40 | Mainly Beta | Roll | SH3 type barrels. | SH3 Domains | CATH (utative) |
D | 3.30.505.10 | Alpha Beta | 2-Layer Sandwich | SHC Adaptor Protein | SH2 domain | CATH (utative) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00017 | SH2 domain (SH2) | SH2 domain | - | Domain | |
PF00018 | SH3 domain (SH3_1) | SH3 domain | SH3 (Src homology 3) domains are often indicative of a protein involved in signal transduction related to cytoskeletal organisation. First described in the Src cytoplasmic tyrosine kinase Swiss:P12931. The structure is a partly opened beta barrel. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR001558 | HIV negative factor Nef | Family | |
IPR027480 | HIV-1 Nef protein, anchor domain superfamily | Homologous Superfamily | |
IPR027481 | HIV-1 Nef protein, core domain superfamily | Homologous Superfamily | |
IPR008266 | Tyrosine-protein kinase, active site | Active Site | |
IPR020635 | Tyrosine-protein kinase, catalytic domain | Domain | |
IPR036028 | SH3-like domain superfamily | Homologous Superfamily | |
IPR000719 | Protein kinase domain | Domain | |
IPR001452 | SH3 domain | Domain | |
IPR017441 | Protein kinase, ATP binding site | Binding Site | |
IPR036860 | SH2 domain superfamily | Homologous Superfamily | |
IPR000980 | SH2 domain | Domain | |
IPR001245 | Serine-threonine/tyrosine-protein kinase, catalytic domain | Domain | |
IPR035851 | Tyrosine-protein kinase HCK, SH2 domain | Domain | |
IPR011009 | Protein kinase-like domain superfamily | Homologous Superfamily | |
IPR050198 | Non-receptor tyrosine kinases involved in cell signaling | Family |