7NXJ Chain A
Cyclin-dependent kinase 13 (CDK13)
Active — 99.8%DFG-inαC-inType1 · 5I1
Resolution
2.36 Å
R-value
0.213
Predicted activity confidence99.8%
Structure info
Alternate conformation—
Missing atoms0
Missing residues0
Salt bridge (KinCore)Saltbr-in
Sequence info
PDB sequence
IDWGKRCVDKFDIIGIIGEGTYGQVYKARDKDTGEMVALKKVRLDNEKEGFPITAIREIKILRQLTHQSIINMKEIVTDKEDKKDKGAFYLVFEYMDHDLMGLLESGLVHFNENHIKSFMRQLMEGLDYCHKKNFLHRDIKCSNILLNNRGQIKLADFGLARLYSSEESRPYNKVITLWYRPPELLLGEERYTPAIDVWSCGCILGELFTKKPIFQANQELAQLELISRICGSPCPAVWPDVIKLPYFNTMKPKKQYRRKLREEFVFIPAAALDLFDYMLALDPSKRCTAEQALQCEFLRDVEPSKMPPPDLPLWQDCHELWSK
UniProt reference sequence
FDIIGIIGEGTYGQVYKARDKDTGEMVALKKVRLDNEKEGFPITAIREIKILRQLTHQSIINMKEIVTDKEDALDFKKDKGAFYLVFEYMDHDLMGLLESGLVHFNENHIKSFMRQLMEGLDYCHKKNFLHRDIKCSNILLNNRGQIKLADFGLARLYSSEESRPYTNKVITLWYRPPELLLGEERYTPAIDVWSCGCILGELFTKKPIFQANQELAQLELISRICGSPCPAVWPDVIKLPYFNTMKPKKQYRRKLREEFVFIPAAALDLFDYMLALDPSKRCTAEQALQCEFL
Aligned reference sequence
FDII----------------GIIGEGT----------------YGQVYKARD--KD------------------------------------TGEMVALKKVR--LDNEKEGF--------------------------PITAIREIKILRQL--------------------------THQSIINMKEIVTDKE--DALDFKKDKG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AFYLVFEYMD---------------HDLMGLLES--GLV------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HFNENHIKSFMRQLMEGLDYCHKK---------------------------------------------NFLHRDI-----KCSNILLNN--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RGQIKLADFGLARLYSSEESR--PY--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TNKVITLWYRPPELLLG--E-----------------------------ERYT-PAIDVWSCGCILGELFTK-----------------KPIFQA--------------------------------------------------NQELAQLELISRI--CGSPCPAVWPDVIKLPYFNTMKPKKQYRRKLREEFVFIP------------------------------------------------------------------------AAALDLFDYMLALDPSKRCT--------------AEQALQCEFL
Shaded segments mark residues present in the UniProt reference but not resolved in this structure.
Projected alignment
FDII----------------GIIGEGT----------------YGQVYKARD--KD------------------------------------TGEMVALKKVR--LDNEKEGF--------------------------PITAIREIKILRQL--------------------------THQSIINMKEIVTDKE--D----KKDKG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AFYLVFEYMD---------------HDLMGLLES--GLV------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HFNENHIKSFMRQLMEGLDYCHKK---------------------------------------------NFLHRDI-----KCSNILLNN--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RGQIKLADFGLARLYSSEESR--PY---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NKVITLWYRPPELLLG--E-----------------------------ERYT-PAIDVWSCGCILGELFTK-----------------KPIFQA--------------------------------------------------NQELAQLELISRI--CGSPCPAVWPDVIKLPYFNTMKPKKQYRRKLREEFVFIP------------------------------------------------------------------------AAALDLFDYMLALDPSKRCT--------------AEQALQCEFL
Activation segment
DFGLARLYSSEESR--PY---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------NKVITLWYRPPE
Binding pocket
GIIGEGTYGQVYKVALKKVTAIREIKILRQLTQSIINMKEIYLVFEYMD_HDLMGLLESYCHKKNFLHRDIKCSNILLLADFGLA
Ligand info
Orthosteric ligand
5I1
Allosteric ligand
None
Ligand typeType1
Consensus conformation
DFG conformationin
αC-helix conformationin
Predicted activityactive
KinaDB — structure detail · data from Browse_each_pdb_structure.csv · PDB 7NXJ, Chain A