- PDB-8aq5: KRAS G12C IN COMPLEX WITH GDP AND COMPOUND 16 -
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基本情報
登録情報
データベース: PDB / ID: 8aq5
タイトル
KRAS G12C IN COMPLEX WITH GDP AND COMPOUND 16
要素
GTPase KRas
キーワード
HYDROLASE / K-RAS G12C / GTPASE / GDP BOUND / CYSTEINE MUTATION / COVALENT BINDING / SIGNALING PROTEIN / SMALL G-PROTEIN / SWITCH2 POCKET
機能・相同性
機能・相同性情報
forebrain astrocyte development / negative regulation of epithelial cell differentiation / regulation of synaptic transmission, GABAergic / epithelial tube branching involved in lung morphogenesis / type I pneumocyte differentiation / Rac protein signal transduction / skeletal muscle cell differentiation / positive regulation of Rac protein signal transduction / Signaling by RAS GAP mutants / Signaling by RAS GTPase mutants ...forebrain astrocyte development / negative regulation of epithelial cell differentiation / regulation of synaptic transmission, GABAergic / epithelial tube branching involved in lung morphogenesis / type I pneumocyte differentiation / Rac protein signal transduction / skeletal muscle cell differentiation / positive regulation of Rac protein signal transduction / Signaling by RAS GAP mutants / Signaling by RAS GTPase mutants / Activation of RAS in B cells / RAS signaling downstream of NF1 loss-of-function variants / RUNX3 regulates p14-ARF / SOS-mediated signalling / Activated NTRK3 signals through RAS / Activated NTRK2 signals through RAS / SHC1 events in ERBB4 signaling / Signalling to RAS / SHC-related events triggered by IGF1R / glial cell proliferation / Activated NTRK2 signals through FRS2 and FRS3 / Estrogen-stimulated signaling through PRKCZ / SHC-mediated cascade:FGFR3 / MET activates RAS signaling / Signaling by PDGFRA transmembrane, juxtamembrane and kinase domain mutants / Signaling by PDGFRA extracellular domain mutants / SHC-mediated cascade:FGFR2 / PTK6 Regulates RHO GTPases, RAS GTPase and MAP kinases / SHC-mediated cascade:FGFR4 / Signaling by FGFR4 in disease / SHC-mediated cascade:FGFR1 / Erythropoietin activates RAS / protein-membrane adaptor activity / FRS-mediated FGFR3 signaling / Signaling by CSF3 (G-CSF) / Signaling by FLT3 ITD and TKD mutants / positive regulation of glial cell proliferation / homeostasis of number of cells within a tissue / FRS-mediated FGFR2 signaling / FRS-mediated FGFR4 signaling / Signaling by FGFR3 in disease / p38MAPK events / Tie2 Signaling / FRS-mediated FGFR1 signaling / Signaling by FGFR2 in disease / striated muscle cell differentiation / GRB2 events in EGFR signaling / SHC1 events in EGFR signaling / EGFR Transactivation by Gastrin / Signaling by FLT3 fusion proteins / FLT3 Signaling / Ras activation upon Ca2+ influx through NMDA receptor / Signaling by FGFR1 in disease / GRB2 events in ERBB2 signaling / CD209 (DC-SIGN) signaling / NCAM signaling for neurite out-growth / SHC1 events in ERBB2 signaling / Downstream signal transduction / Constitutive Signaling by Overexpressed ERBB2 / Insulin receptor signalling cascade / small monomeric GTPase / Signaling by phosphorylated juxtamembrane, extracellular and kinase domain KIT mutants / G protein activity / VEGFR2 mediated cell proliferation / FCERI mediated MAPK activation / Signaling by ERBB2 TMD/JMD mutants / RAF activation / regulation of long-term neuronal synaptic plasticity / Signaling by high-kinase activity BRAF mutants / Constitutive Signaling by EGFRvIII / visual learning / MAP2K and MAPK activation / Signaling by ERBB2 ECD mutants / Signaling by ERBB2 KD Mutants / Signaling by SCF-KIT / cytoplasmic side of plasma membrane / Regulation of RAS by GAPs / RAS processing / Negative regulation of MAPK pathway / Signaling by RAF1 mutants / Signaling by moderate kinase activity BRAF mutants / Paradoxical activation of RAF signaling by kinase inactive BRAF / Signaling downstream of RAS mutants / Signaling by CSF1 (M-CSF) in myeloid cells / GDP binding / MAPK cascade / Signaling by BRAF and RAF1 fusions / Constitutive Signaling by Ligand-Responsive EGFR Cancer Variants / DAP12 signaling / Ca2+ pathway / gene expression / actin cytoskeleton organization / RAF/MAP kinase cascade / neuron apoptotic process / mitochondrial outer membrane / negative regulation of neuron apoptotic process / Ras protein signal transduction / positive regulation of protein phosphorylation / Golgi membrane / focal adhesion 類似検索 - 分子機能
Small GTPase, Ras-type / small GTPase Ras family profile. / Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases / Rho (Ras homology) subfamily of Ras-like small GTPases / Ras subfamily of RAS small GTPases / Small GTPase / Ras family / Rab subfamily of small GTPases / Small GTP-binding protein domain / P-loop containing nucleoside triphosphate hydrolase 類似検索 - ドメイン・相同性
解像度: 1.8→37.69 Å / Cor.coef. Fo:Fc: 0.949 / Cor.coef. Fo:Fc free: 0.93 / SU R Cruickshank DPI: 0.14 / 交差検証法: THROUGHOUT / SU R Blow DPI: 0.152 / SU Rfree Blow DPI: 0.136 / SU Rfree Cruickshank DPI: 0.131
Rfactor
反射数
%反射
Selection details
Rfree
0.2151
773
-
RANDOM
Rwork
0.1755
-
-
-
obs
0.1774
15361
86.8 %
-
原子変位パラメータ
Biso mean: 19.6 Å2
Baniso -1
Baniso -2
Baniso -3
1-
1.3731 Å2
0 Å2
-0.5904 Å2
2-
-
-0.8403 Å2
0 Å2
3-
-
-
-0.5328 Å2
Refine analyze
Luzzati coordinate error obs: 0.21 Å
精密化ステップ
サイクル: LAST / 解像度: 1.8→37.69 Å
タンパク質
核酸
リガンド
溶媒
全体
原子数
1336
0
63
188
1587
拘束条件
Refine-ID
タイプ
Dev ideal
数
Restraint function
Weight
X-RAY DIFFRACTION
t_bond_d
0.008
1446
HARMONIC
2
X-RAY DIFFRACTION
t_angle_deg
0.93
1968
HARMONIC
2
X-RAY DIFFRACTION
t_dihedral_angle_d
514
SINUSOIDAL
2
X-RAY DIFFRACTION
t_gen_planes
246
HARMONIC
5
X-RAY DIFFRACTION
t_it
1446
HARMONIC
10
X-RAY DIFFRACTION
t_chiral_improper_torsion
186
SEMIHARMONIC
5
X-RAY DIFFRACTION
t_ideal_dist_contact
1431
SEMIHARMONIC
4
X-RAY DIFFRACTION
t_omega_torsion
3.38
X-RAY DIFFRACTION
t_other_torsion
14.68
LS精密化 シェル
解像度: 1.8→1.82 Å
Rfactor
反射数
%反射
Rfree
0.2648
22
-
Rwork
0.2208
-
-
obs
0.2235
405
63.21 %
精密化 TLS
Origin x: 4.0549 Å / Origin y: 8.8246 Å / Origin z: 14.453 Å