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cryo-EM structure of DEPTOR bound to human mTOR complex 2, overall refinement

Source organism: Homo sapiens
Biochemical function: protein binding
Biological process: negative regulation of apoptotic process
Cellular component: lysosomal membrane

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EC 2.7.11.1: Non-specific serine/threonine protein kinase

Reaction catalysed:
ATP + a protein = ADP + a phosphoprotein
Systematic name:
ATP:protein phosphotransferase (non-specific)
Alternative Name(s):
  • A-kinase
  • AP50 kinase
  • ATP-protein transphosphorylase
  • Beta-IIPKC
  • Beta-adrenergic receptor kinase
  • CK-2
  • CKI
  • CKII
  • Calcium-dependent protein kinase C
  • Calcium/phospholipid-dependent protein kinase
  • Casein kinase
  • Casein kinase (phosphorylating)
  • Casein kinase 2
  • Casein kinase I
  • Casein kinase II
  • Cyclic AMP-dependent protein kinase
  • Cyclic AMP-dependent protein kinase A
  • Cyclic monophosphate-dependent protein kinase
  • Cyclic nucleotide-dependent protein kinase
  • Cyclin-dependent kinase
  • Cytidine 3',5'-cyclic monophosphate-responsive protein kinase
  • Dsk1
  • Epsilon PKC
  • Glycogen synthase A kinase
  • Glycogen synthase a kinase
  • Glycogen synthase kinase
  • HIPK2
  • Hpr kinase
  • Hydroxyalkyl-protein kinase
  • M phase-specific cdc2 kinase
  • MAPK
  • Mitogen-activated S6 kinase
  • Mitogen-activated protein kinase
  • P82 kinase
  • PKA
  • PKC
  • Phosphorylase B kinase kinase
  • Phosphorylase b kinase kinase
  • Phosphorylase b kinase kinase
  • Protein glutamyl kinase
  • Protein kinase (phosphorylating)
  • Protein kinase A
  • Protein kinase CK2
  • Protein kinase p58
  • Protein phosphokinase
  • Protein serine kinase
  • Protein serine-threonine kinase
  • Protein-aspartyl kinase
  • Protein-cysteine kinase
  • Protein-serine kinase
  • Prp4 protein kinase
  • Raf kinase
  • Raf-1
  • Ribosomal S6 protein kinase
  • Ribosomal protein S6 kinase II
  • STK32
  • Serine kinase
  • Serine protein kinase
  • Serine(threonine) protein kinase
  • Serine-specific protein kinase
  • Serine/threonine protein kinase
  • T-antigen kinase
  • Threonine-specific protein kinase
  • Twitchin kinase
  • Type-2 casein kinase
  • WEE1Hu
  • Wee 1-like kinase
  • Wee-kinase
  • cAMP-dependent protein kinase
  • cAMP-dependent protein kinase A
  • cGMP-dependent protein kinase

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

Sequence families

Pfam Protein families (Pfam)
PF00400
Domain description: WD domain, G-beta repeat
Occurring in:
  1. Target of rapamycin complex subunit LST8
The deposited structure of PDB entry 7pe7 contains 10 copies of Pfam domain PF00400 (WD domain, G-beta repeat) in Target of rapamycin complex subunit LST8. Showing 5 copies in chain F [auth C].

PF00610
Domain description: Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP)
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
The deposited structure of PDB entry 7pe7 contains 4 copies of Pfam domain PF00610 (Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP)) in DEP domain-containing mTOR-interacting protein. Showing 2 copies in chain I (this domain is out of the observed residue ranges!).

PF16979
Domain description: SAPK-interacting protein 1 (Sin1), Pleckstrin-homology
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF16979 (SAPK-interacting protein 1 (Sin1), Pleckstrin-homology) in Target of rapamycin complex 2 subunit MAPKAP1. Showing 1 copy in chain H [auth G] (this domain is out of the observed residue ranges!).

PF16978
Domain description: SAPK-interacting protein 1 (Sin1), middle CRIM domain
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF16978 (SAPK-interacting protein 1 (Sin1), middle CRIM domain) in Target of rapamycin complex 2 subunit MAPKAP1. Showing 1 copy in chain H [auth G].

PF05422
Domain description: Stress-activated map kinase interacting protein 1 (SIN1)
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF05422 (Stress-activated map kinase interacting protein 1 (SIN1)) in Target of rapamycin complex 2 subunit MAPKAP1. Showing 1 copy in chain H [auth G].

PF14665
Domain description: Rapamycin-insensitive companion of mTOR, phosphorylation-site
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF14665 (Rapamycin-insensitive companion of mTOR, phosphorylation-site) in Rapamycin-insensitive companion of mTOR. Showing 1 copy in chain G [auth E] (this domain is out of the observed residue ranges!).

PF14668
Domain description: Rapamycin-insensitive companion of mTOR, domain 5
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF14668 (Rapamycin-insensitive companion of mTOR, domain 5) in Rapamycin-insensitive companion of mTOR. Showing 1 copy in chain G [auth E].

PF14663
Domain description: Rapamycin-insensitive companion of mTOR RasGEF_N domain
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF14663 (Rapamycin-insensitive companion of mTOR RasGEF_N domain) in Rapamycin-insensitive companion of mTOR. Showing 1 copy in chain G [auth E].

PF14666
Domain description: Rapamycin-insensitive companion of mTOR, middle domain
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF14666 (Rapamycin-insensitive companion of mTOR, middle domain) in Rapamycin-insensitive companion of mTOR. Showing 1 copy in chain G [auth E].

PF14664
Domain description: Rapamycin-insensitive companion of mTOR, N-term
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF14664 (Rapamycin-insensitive companion of mTOR, N-term) in Rapamycin-insensitive companion of mTOR. Showing 1 copy in chain G [auth E].

PF02260
Domain description: FATC domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF02260 (FATC domain) in Serine/threonine-protein kinase mTOR. Showing 1 copy in chain E [auth A].

PF00454
Domain description: Phosphatidylinositol 3- and 4-kinase
Occurring in:
  1. Serine/threonine-protein kinase mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF00454 (Phosphatidylinositol 3- and 4-kinase) in Serine/threonine-protein kinase mTOR. Showing 1 copy in chain E [auth A].

PF08771
Domain description: FKBP12-rapamycin binding domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF08771 (FKBP12-rapamycin binding domain) in Serine/threonine-protein kinase mTOR. Showing 1 copy in chain E [auth A].

PF02259
Domain description: FAT domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF02259 (FAT domain) in Serine/threonine-protein kinase mTOR. Showing 1 copy in chain E [auth A].

PF11865
Domain description: Serine/threonine-protein kinase mTOR domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
The deposited structure of PDB entry 7pe7 contains 2 copies of Pfam domain PF11865 (Domain of unknown function (DUF3385)) in Serine/threonine-protein kinase mTOR. Showing 1 copy in chain E [auth A].

InterPro InterPro annotations
IPR001680
Domain description: WD40 repeat
Occurring in:
  1. Target of rapamycin complex subunit LST8
IPR000591
Domain description: DEP domain
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
IPR011989
Domain description: Armadillo-like helical
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR020472
Domain description: G-protein beta WD-40 repeat
Occurring in:
  1. Target of rapamycin complex subunit LST8
IPR000403
Domain description: Phosphatidylinositol 3-/4-kinase, catalytic domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR016024
Domain description: Armadillo-type fold
Occurring in:
  1. Serine/threonine-protein kinase mTOR
  2. Rapamycin-insensitive companion of mTOR
IPR001478
Domain description: PDZ domain
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
IPR036034
Domain description: PDZ superfamily
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
IPR036390
Domain description: Winged helix DNA-binding domain superfamily
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
IPR036388
Domain description: Winged helix-like DNA-binding domain superfamily
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
IPR029259
Domain description: Rapamycin-insensitive companion of mTOR, phosphorylation-site
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
IPR029452
Domain description: Rapamycin-insensitive companion of mTOR, domain 5
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
IPR029451
Domain description: Rapamycin-insensitive companion of mTOR, middle domain
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
IPR028267
Domain description: Rapamycin-insensitive companion of mTOR, N-terminal domain
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
IPR003152
Domain description: FATC domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR018936
Domain description: Phosphatidylinositol 3/4-kinase, conserved site
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR036738
Domain description: FKBP12-rapamycin binding domain superfamily
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR037336
Domain description: DEP domain-containing mTOR-interacting protein, DEP domain 2
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
IPR037335
Domain description: DEP domain-containing mTOR-interacting protein, DEP domain 1
Occurring in:
  1. DEP domain-containing mTOR-interacting protein
IPR031313
Domain description: SAPK-interacting protein 1, Pleckstrin-homology domain
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
IPR011993
Domain description: PH-like domain superfamily
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
IPR031567
Domain description: Sin1, middle CRIM domain
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
IPR032679
Domain description: Sin1, N-terminal
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
IPR008828
Domain description: TORC2 component Sin1/Avo1
Occurring in:
  1. Target of rapamycin complex 2 subunit MAPKAP1
IPR029453
Domain description: Rapamycin-insensitive companion of mTOR, domain 4
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
IPR028268
Domain description: Pianissimo family
Occurring in:
  1. Rapamycin-insensitive companion of mTOR
IPR019775
Domain description: WD40 repeat, conserved site
Occurring in:
  1. Target of rapamycin complex subunit LST8
IPR015943
Domain description: WD40/YVTN repeat-like-containing domain superfamily
Occurring in:
  1. Target of rapamycin complex subunit LST8
IPR011047
Domain description: Quinoprotein alcohol dehydrogenase-like superfamily
Occurring in:
  1. Target of rapamycin complex subunit LST8
IPR037588
Domain description: Target of rapamycin complex subunit LST8
Occurring in:
  1. Target of rapamycin complex subunit LST8
IPR036940
Domain description: Phosphatidylinositol 3-/4-kinase, catalytic domain superfamily
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR026683
Domain description: Serine/threonine-protein kinase TOR, catalytic domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR011009
Domain description: Protein kinase-like domain superfamily
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR009076
Domain description: FKBP12-rapamycin binding domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR003151
Domain description: PIK-related kinase, FAT
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR011990
Domain description: Tetratricopeptide-like helical domain superfamily
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR014009
Domain description: PIK-related kinase
Occurring in:
  1. Serine/threonine-protein kinase mTOR
IPR024585
Domain description: Serine/threonine-protein kinase mTOR domain
Occurring in:
  1. Serine/threonine-protein kinase mTOR

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