KLIFS - the kinase structures database

Version: 3.2
Updated: 29-Oct-2025

Kinase structure
Kinase:	GAK
Family:	NAK
Group:	Other
Species:	HUMAN
IUPHAR/BPS ID:	2027
PDB:	5Y7Z
sc-PDB:
KIDFamMap:	Search
Release date:	2018-08-29
PubMed:	30214852
Chain:	B
Orthosteric ligand:	IRE

More entries for 5Y7Z
5Y7Z	Chain:	A

Structural information
DFG conformation:	in
αC-helix conformation:	in
G-rich loop angle (distance):	57.1° (17.8Å)
G-rich loop rotation:	43°
Quality Score:	8
Resolution:	2.8 Å
Missing Residues:	0
Missing Atoms:	0

Ligand binding mode
Pockets	Subpockets
front gate	BP-I-B

Pocket alignment
Uniprot sequence:	RVLAEGGFAFVYEYALKRLAIIQEVCFMKKLSPNIVQFCSALLLTELCK-GQLVEFLKKHRQKPPIIHRDLKVENLLLLCDFGSA
Sequence structure:	RVLAEGGFAFVYEYALKRLAIIQEVCFMKKLSPNIVQFCSALLLTELCK_GQLVEFLKKHRQKPPIIHRDLKVENLLLLCDFGSA

Ligand affinity
ChEMBL ID:	CHEMBL939
Bioaffinities:	376 records for 84 kinases

Species	Kinase (ChEMBL naming)	Median	Min	Max	Type	Records
Homo sapiens	BR serine/threonine-protein kinase 1	5.5	5.5	5.5	pKi	2
Homo sapiens	CaM kinase II delta	5.6	5.6	5.6	pKi	2
Homo sapiens	CaM kinase II gamma	5.5	5.5	5.5	pKi	2
Homo sapiens	Casein kinase I delta	5.5	5.5	5.5	pKd	1
Homo sapiens	Casein kinase I delta	5.1	5.1	5.1	pKi	2
Homo sapiens	Casein kinase I epsilon	6.4	5.7	6.4	pKd	3
Homo sapiens	Citron Rho-interacting kinase	5.9	5.9	5.9	pKd	2
Homo sapiens	c-Jun N-terminal kinase 2	5.8	5.8	5.9	pKd	2
Homo sapiens	c-Jun N-terminal kinase 2	5.6	5.6	5.6	pKi	2
Homo sapiens	c-Jun N-terminal kinase 3	5.5	5.5	5.6	pKd	3
Homo sapiens	c-Jun N-terminal kinase 3	6.1	6.1	6.1	pKi	2
Homo sapiens	Cyclin-dependent kinase 7	6.2	6.2	6.2	pKd	1
Homo sapiens	Death-associated protein kinase 3	5.2	5.2	5.2	pKd	2
Homo sapiens	Dual specificity mitogen-activated protein kinase kinase 5	6.2	6.2	6.2	pKd	1
Homo sapiens	Ephrin type-A receptor 1	5.4	5.4	5.4	pKd	2
Homo sapiens	Ephrin type-A receptor 3	5.3	5.3	5.3	pKd	1
Homo sapiens	Ephrin type-A receptor 5	5.8	5.8	5.8	pKd	1
Homo sapiens	Ephrin type-A receptor 6	6.2	5.9	6.2	pKd	3
Homo sapiens	Ephrin type-A receptor 8	5.8	5.8	5.8	pKd	2
Homo sapiens	Ephrin type-B receptor 1	5.1	5.1	5.9	pKd	2
Homo sapiens	Ephrin type-B receptor 4	6	6	6	pIC50	1
Homo sapiens	Ephrin type-B receptor 4	5.6	5.6	5.6	pKd	1
Homo sapiens	Epidermal growth factor receptor erbB1	5	5	5.7	pEC50	2
Homo sapiens	Epidermal growth factor receptor erbB1	7.7	4.6	10	pIC50	112
Homo sapiens	Epidermal growth factor receptor erbB1	9	6.9	9.3	pKd	27
Homo sapiens	Epidermal growth factor receptor erbB1	9.4	9.4	9.4	pKi	1
Homo sapiens	Hepatocyte growth factor receptor	5.5	5.5	5.5	pKd	1
Homo sapiens	Homeodomain-interacting protein kinase 4	6.5	6.5	6.5	pKd	1
Homo sapiens	Homeodomain-interacting protein kinase 4	5.9	5.9	5.9	pKi	2
Homo sapiens	Interleukin-1 receptor-associated kinase 1	7.2	7.2	7.2	pKd	1
Homo sapiens	Interleukin-1 receptor-associated kinase 1	6.5	6.5	6.5	pKi	2
Homo sapiens	Interleukin-1 receptor-associated kinase 3	5.8	5.8	5.8	pKd	2
Homo sapiens	Interleukin-1 receptor-associated kinase 4	6.3	6.3	6.3	pKd	1
Homo sapiens	Interleukin-1 receptor-associated kinase 4	6	6	6	pKi	2
Homo sapiens	Leukocyte tyrosine kinase receptor	5.3	5.3	5.3	pKd	1
Homo sapiens	LIM domain kinase 1	5.4	5.4	5.4	pKi	2
Homo sapiens	MAP kinase-interacting serine/threonine-protein kinase MNK1	6.5	6.5	6.5	pKd	2
Homo sapiens	MAP kinase p38 alpha	6.3	6.3	6.3	pKi	2
Homo sapiens	MAP kinase signal-integrating kinase 2	5.9	5.9	6.4	pKd	3
Homo sapiens	MAP kinase signal-integrating kinase 2	6.4	6.4	6.4	pKi	2
Homo sapiens	Misshapen-like kinase 1	4.8	4.8	4.8	pIC50	1
Homo sapiens	Misshapen-like kinase 1	5.8	5.8	5.8	pKd	1
Homo sapiens	Misshapen-like kinase 1	5.3	5.3	5.3	pKi	2
Homo sapiens	Mitogen-activated protein kinase 4	5.5	5.5	5.5	pKd	2
Homo sapiens	Mitogen-activated protein kinase 6	5.8	5.8	5.8	pKd	2
Homo sapiens	Mitogen-activated protein kinase kinase kinase 2	5.5	5.5	5.5	pKd	1
Homo sapiens	Mitogen-activated protein kinase kinase kinase 3	5.7	5.7	5.7	pKd	1
Homo sapiens	Mitogen-activated protein kinase kinase kinase kinase 4	6	6	6	pKi	2
Homo sapiens	Mitogen-activated protein kinase kinase kinase kinase 5	5.8	5.8	5.8	pKi	2
Homo sapiens	myosin light chain kinase 2	5.7	5.7	5.7	pKd	2
Homo sapiens	Myotonin-protein kinase	5.2	5.2	5.2	pKd	2
Homo sapiens	NUAK family SNF1-like kinase 2	5.3	5.3	5.3	pKd	1
Homo sapiens	Phosphorylase kinase gamma subunit 1	5.4	5.4	5.4	pKd	2
Homo sapiens	Phosphorylase kinase gamma subunit 2	5.2	5.2	5.6	pKd	2
Homo sapiens	Phosphorylase kinase gamma subunit 2	5.5	5.5	5.5	pKi	2
Homo sapiens	Protein kinase C mu	5.5	5.5	5.5	pKd	1
Homo sapiens	Protein kinase C nu	5.9	5.9	5.9	pKi	2
Homo sapiens	Receptor protein-tyrosine kinase erbB-2	6.5	5.4	7.6	pIC50	14
Homo sapiens	Receptor protein-tyrosine kinase erbB-2	5.5	5.5	6	pKd	3
Homo sapiens	Receptor protein-tyrosine kinase erbB-2	7.6	7.6	7.6	pKi	2
Homo sapiens	Receptor protein-tyrosine kinase erbB-4	6.3	6.3	6.3	pIC50	1
Homo sapiens	Receptor protein-tyrosine kinase erbB-4	6.4	6.4	6.4	pKd	1
Homo sapiens	Receptor protein-tyrosine kinase erbB-4	6.8	6.8	6.8	pKi	2
Homo sapiens	Receptor tyrosine-protein kinase erbB-3	6.1	6.1	6.1	pKd	1
Homo sapiens	Ribosomal protein S6 kinase alpha 4	5.9	5.9	5.9	pKd	2
Homo sapiens	Serine/threonine-protein kinase 10	6.3	6.1	6.3	pKd	3
Homo sapiens	Serine/threonine-protein kinase 17A	5.7	5.5	5.7	pKd	3
Homo sapiens	Serine/threonine-protein kinase 17B	5.4	5.2	5.4	pKd	3
Homo sapiens	Serine/threonine-protein kinase 2	6	6	6	pKd	3
Homo sapiens	Serine/threonine-protein kinase 2	6.4	6.4	6.4	pKi	2
Homo sapiens	Serine/threonine-protein kinase 36	5.2	5.2	5.2	pKd	1
Homo sapiens	Serine/threonine-protein kinase B-raf	4.5	4.5	5.7	pIC50	2
Homo sapiens	Serine/threonine-protein kinase Chk2	6.1	6.1	6.1	pKd	1
Homo sapiens	Serine/threonine-protein kinase Chk2	6.2	6.2	6.2	pKi	2
Homo sapiens	Serine/threonine-protein kinase D2	5.6	5.6	5.6	pKi	2
Homo sapiens	Serine/threonine-protein kinase DCLK3	5.5	5.5	5.5	pKd	1
Homo sapiens	Serine/threonine-protein kinase GAK	7.9	7.9	8.2	pKd	4
Homo sapiens	Serine/threonine protein kinase NLK	5.4	5.4	5.4	pKd	1
Homo sapiens	Serine/threonine-protein kinase PIM1	5.7	5.7	5.7	pKi	2
Homo sapiens	Serine/threonine-protein kinase PIM3	5.2	5.2	5.2	pKd	2
Homo sapiens	Serine/threonine-protein kinase PIM3	5.9	5.9	5.9	pKi	2
Homo sapiens	Serine/threonine-protein kinase RIPK2	8.4	8.4	8.4	pIC50	1
Homo sapiens	Serine/threonine-protein kinase RIPK2	6.3	6.1	6.3	pKd	3
Homo sapiens	Serine/threonine-protein kinase SBK1	6.3	6.3	6.3	pKd	1
Homo sapiens	Serine/threonine-protein kinase SIK2	5.7	5.7	5.7	pKd	2
Homo sapiens	Serine/threonine-protein kinase SIK2	6.5	6.5	6.5	pKi	2
Homo sapiens	SPS1/STE20-related protein kinase YSK4	6.6	6.6	6.6	pKd	1
Homo sapiens	Stem cell growth factor receptor	5.4	5.3	5.8	pKd	5
Homo sapiens	TRAF2- and NCK-interacting kinase	5.2	5.2	5.2	pKd	1
Homo sapiens	Tyrosine kinase non-receptor protein 2	5.6	5.6	5.6	pIC50	1
Homo sapiens	Tyrosine-protein kinase ABL	5.9	5.9	5.9	pIC50	1
Homo sapiens	Tyrosine-protein kinase ABL	6.2	5.3	6.6	pKd	12
Homo sapiens	Tyrosine-protein kinase ABL2	5.8	5.8	5.8	pKd	1
Homo sapiens	Tyrosine-protein kinase BLK	5.9	5.9	5.9	pKd	2
Homo sapiens	Tyrosine-protein kinase BLK	6	6	6	pKi	2
Homo sapiens	Tyrosine-protein kinase BRK	6	6	6	pIC50	1
Homo sapiens	Tyrosine-protein kinase FGR	5.6	5.6	5.6	pKd	1
Homo sapiens	Tyrosine-protein kinase FRK	5.7	5.7	5.7	pKd	2
Homo sapiens	Tyrosine-protein kinase FRK	6.6	6.6	6.6	pKi	2
Homo sapiens	Tyrosine-protein kinase HCK	7	7	7	pIC50	1
Homo sapiens	Tyrosine-protein kinase HCK	5.4	5.4	5.4	pKd	2
Homo sapiens	Tyrosine-protein kinase HCK	5.6	5.6	5.6	pKi	2
Homo sapiens	Tyrosine-protein kinase LCK	6.2	6	6.2	pKd	3
Homo sapiens	Tyrosine-protein kinase LCK	6.4	6.4	6.4	pKi	2
Homo sapiens	Tyrosine-protein kinase Lyn	6	6	6	pKd	2
Homo sapiens	Tyrosine-protein kinase Lyn	6.8	6.8	6.8	pKi	2
Homo sapiens	Tyrosine-protein kinase receptor FLT3	5.5	5.3	6	pKd	10
Homo sapiens	Tyrosine-protein kinase receptor RET	5.8	5.8	5.8	pIC50	1
Homo sapiens	Tyrosine-protein kinase receptor UFO	5.8	5.8	5.8	pKd	1
Homo sapiens	Tyrosine-protein kinase receptor UFO	5.8	5.8	5.8	pKi	2
Homo sapiens	Tyrosine-protein kinase SRC	6	6	6	pIC50	1
Homo sapiens	Tyrosine-protein kinase SRC	5.4	5.3	5.4	pKd	3
Homo sapiens	Tyrosine-protein kinase TXK	5.2	5.2	5.2	pKd	2
Mus musculus	ULK3 kinase	5.9	5.9	5.9	pKd	1
Homo sapiens	Vascular endothelial growth factor receptor 2	4.8	4.8	7.3	pIC50	4
Homo sapiens	Vascular endothelial growth factor receptor 3	5.2	5.2	5.2	pKi	2

Kinase-ligand interaction pattern

• Hydrophobic • Aromatic face-to-face • Aromatic face-to-edge • H-bond donor • H-bond acceptor • Ionic positive • Ionic negative

g.l

III

αC

1 R
44

2 V
45

3 L
46

4 A
47

5 E
48

6 G
49

7 G
50

8 F
51

9 A
52

10 F
53

11 V
54

12 Y
55

13 E
56

14 Y
66

15 A
67

16 L
68

17 K
69

18 R
70

19 L
71

20 A
81

•

αC

b.l

21 I
82

22 I
83

23 Q
84

24 E
85

25 V
86

26 C
87

27 F
88

28 M
89

29 K
90

30 K
91

31 L
92

32 S
93

33 P
96

34 N
97

35 I
98

36 V
99

37 Q
100

38 F
101

39 C
102

40 S
103

hinge

linker

αD

αE

41 A
104

42 L
120

43 L
121

44 L
122

45 T
123

46 E
124

47 L
125

48 C
126

49 K
127

50 _
_

51 G
128

52 Q
129

53 L
130

54 V
131

55 E
132

56 F
133

57 L
134

58 K
135

59 K
136

60 H
163

•

••

•

••

αE

c.l

VII

VIII

61 R
164

62 Q
165

63 K
166

64 P
167

65 P
168

66 I
169

67 I
170

68 H
171

69 R
172

70 D
173

71 L
174

72 K
175

73 V
176

74 E
177

75 N
178

76 L
179

77 L
180

78 L
181

79 L
189

80 C
190

•

DFG

a.l

81 D
191

82 F
192

83 G
193

84 S
194

85 A
195

•

Interaction pattern search

Search KLIFS for kinase-ligand complexes with similar interaction patterns: