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HIV-1 Nef protein in complex with single domain antibody sdAb19 and an engineered Hck SH3 domain

Source organisms:
Biochemical function: GTP binding
Biological process: not assigned
Cellular component: not assigned

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EC 2.7.10.2: Non-specific protein-tyrosine kinase

Reaction catalysed:
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
Systematic name:
ATP:[protein]-L-tyrosine O-phosphotransferase (non-specific)
Alternative Name(s):
  • ABL
  • ABL1
  • ABL2
  • ABLL
  • ACK1
  • ACK2
  • AGMX1
  • ARG
  • ATK
  • ATP:protein-tyrosine O-phosphotransferase
  • BLK
  • BMX
  • BRK
  • BTK
  • BTKL
  • Bmk
  • Bruton's tyrosine kinase
  • Bsk
  • CAKb
  • CHK
  • CSK
  • CTK
  • CYL
  • Cdgip
  • Cytoplasmic protein tyrosine kinase
  • EMT
  • ETK
  • FAK
  • FAK2
  • FER
  • FES
  • FGR
  • FPS
  • FRK
  • FYN
  • Fadk
  • Fert1/2
  • Focal adhesion kinase
  • HCK
  • HCTK
  • HYL
  • IMD1
  • ITK
  • IYK
  • JAK1
  • JAK2
  • JAK3
  • JTK1
  • JTK9
  • Janus kinase 1
  • Janus kinase 2
  • Janus kinase 3
  • L-JAK
  • LCK
  • LSK
  • LYN
  • MATK
  • Ntk
  • P60c-src protein tyrosine kinase
  • PKB
  • PSCTK
  • PSCTK1
  • PSCTK2
  • PSCTK4
  • PSCTK5
  • PTK2
  • PTK2B
  • PTK6
  • PYK2
  • Protein-tyrosine kinase
  • RAFTK
  • RAK
  • Rlk
  • SLK
  • SRC
  • SRC2
  • SRK
  • SRM
  • SRMS
  • STD
  • SYK
  • SYN
  • Sik
  • TEC
  • TNK1
  • TXK
  • TYK2
  • TYK3
  • Tck
  • Tsk
  • YES1
  • YK2
  • ZAP70

GO terms

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned

Sequence families

Pfam Protein families (Pfam)
PF00469
Domain description: Negative factor, (F-Protein) or Nef
Occurring in:
  1. C-terminal core protein
The deposited structure of PDB entry 4orz contains 1 copy of Pfam domain PF00469 (Negative factor, (F-Protein) or Nef) in C-terminal core protein. Showing 1 copy in chain B.

PF00018
Domain description: SH3 domain
Occurring in:
  1. Tyrosine-protein kinase HCK
The deposited structure of PDB entry 4orz contains 1 copy of Pfam domain PF00018 (SH3 domain) in Tyrosine-protein kinase HCK. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR001452
Domain description: SH3 domain
Occurring in:
  1. Tyrosine-protein kinase HCK
IPR027481
Domain description: HIV-1 Nef protein, core domain superfamily
Occurring in:
  1. C-terminal core protein
IPR013106
Domain description: Immunoglobulin V-set domain
Occurring in:
  1. single domain antibody sdAb19
IPR001558
Domain description: HIV negative factor Nef
Occurring in:
  1. C-terminal core protein
IPR003599
Domain description: Immunoglobulin subtype
Occurring in:
  1. single domain antibody sdAb19
IPR036179
Domain description: Immunoglobulin-like domain superfamily
Occurring in:
  1. single domain antibody sdAb19
IPR007110
Domain description: Immunoglobulin-like domain
Occurring in:
  1. single domain antibody sdAb19
IPR013783
Domain description: Immunoglobulin-like fold
Occurring in:
  1. single domain antibody sdAb19
IPR036028
Domain description: SH3-like domain superfamily
Occurring in:
  1. Tyrosine-protein kinase HCK
IPR043539
Domain description: Grb2-like
Occurring in:
  1. Tyrosine-protein kinase HCK

Structure domains

CATH CATH domains
2.60.40.10
Class: Mainly Beta
Architecture: Sandwich
Topology: Immunoglobulin-like
Homology: Immunoglobulins
Occurring in:
  1. single domain antibody sdAb19
The deposited structure of PDB entry 4orz contains 1 copy of CATH domain 2.60.40.10 (Immunoglobulin-like) in single domain antibody sdAb19. Showing 1 copy in chain C.
3.30.62.10
Class: Alpha Beta
Architecture: 2-Layer Sandwich
Topology: Nef Regulatory Factor
Homology: Nef Regulatory Factor
Occurring in:
  1. C-terminal core protein
The deposited structure of PDB entry 4orz contains 1 copy of CATH domain 3.30.62.10 (Nef Regulatory Factor) in C-terminal core protein. Showing 1 copy in chain B.
2.30.30.40
Class: Mainly Beta
Architecture: Roll
Topology: SH3 type barrels.
Homology: SH3 Domains
Occurring in:
  1. Tyrosine-protein kinase HCK
The deposited structure of PDB entry 4orz contains 1 copy of CATH domain 2.30.30.40 (SH3 type barrels.) in Tyrosine-protein kinase HCK. Showing 1 copy in chain A.

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