KLIFS - the kinase structures database

Version: 3.2
Updated: 29-Oct-2025

ABL proto-oncogene 2, non-receptor tyrosine kinase

Kinase structure
Kinase:	ABL2
Family:	Abl
Group:	TK
Species:	HUMAN
IUPHAR/BPS ID:	1924
PDB:	3GVU
sc-PDB:
KIDFamMap:	Search
Release date:	2009-04-21
Chain:	A
(Alternate) Model:	B
Orthosteric ligand:	STI

More entries for 3GVU
3GVU	Alternative model:	A	Chain:	A

Structural information
DFG conformation:	out
αC-helix conformation:	in
G-rich loop angle (distance):	58.7° (17.7Å)
G-rich loop rotation:	9.3°
Quality Score:	9.8
Resolution:	2.05 Å
Missing Residues:	0
Missing Atoms:	2

Ligand binding mode
Pockets	Subpockets	Waters
front gate back	BP-I-A BP-I-B BP-II-out BP-IV	Cluster I1 I4 O1	Ligand No No Yes	Protein Yes Yes No

Allosteric Ligand
Allosteric ligand:	STI

Pocket alignment
Uniprot sequence:	HKLGGGQYGEVYVVAVKTLEFLKEAAVMKEIKPNLVQLLGVYIVTEYMPYGNLLDYLREYLEKKNFIHRDLAARNCLVVADFGLS
Sequence structure:	HKLGGGQYGEVYVVAVKTLEFLKEAAVMKEIKPNLVQLLGVYIVTEYMPYGNLLDYLREYLEKKNFIHRDLAARNCLVVADFGLS

Ligand affinity
ChEMBL ID:	CHEMBL941
Bioaffinities:	228 records for 42 kinases

Species	Kinase (ChEMBL naming)	Median	Min	Max	Type	Records
Homo sapiens	Cell division cycle 2-like protein kinase 6	5.3	5.3	5.3	pKd	2
Homo sapiens	c-Jun N-terminal kinase 1	5.3	5.3	5.5	pKd	3
Homo sapiens	c-Jun N-terminal kinase 2	5.3	5.3	5.3	pKd	1
Homo sapiens	c-Jun N-terminal kinase 3	5.5	5.5	5.5	pKd	3
Homo sapiens	c-Jun N-terminal kinase 3	6	6	6	pKi	1
Homo sapiens	Discoidin domain-containing receptor 2	6.2	6.2	6.9	pIC50	2
Homo sapiens	Discoidin domain-containing receptor 2	7.8	7.8	7.8	pKd	2
Homo sapiens	Dual specificity protein kinase CLK4	5.7	5.4	5.7	pKd	4
Homo sapiens	Dual specificity protein kinase CLK4	5.9	5.9	5.9	pKi	1
Homo sapiens	Dual specificty protein kinase CLK1	5.4	5.4	5.4	pKd	3
Homo sapiens	Ephrin type-A receptor 8	5.9	5.7	5.9	pKd	3
Homo sapiens	Epidermal growth factor receptor erbB1	5.1	5.1	5.1	pKd	2
Homo sapiens	Epithelial discoidin domain-containing receptor 1	6.5	4.5	7.4	pIC50	4
Homo sapiens	Epithelial discoidin domain-containing receptor 1	9.2	9.2	9.2	pKd	2
Homo sapiens	Homeodomain-interacting protein kinase 4	6	6	6	pKd	1
Homo sapiens	Interleukin-1 receptor-associated kinase 1	5.9	5.9	5.9	pKd	1
Homo sapiens	Interleukin-1 receptor-associated kinase 1	5.1	5.1	5.1	pKi	1
Homo sapiens	Macrophage colony stimulating factor receptor	6	5.9	6.5	pIC50	3
Homo sapiens	Macrophage colony stimulating factor receptor	7.7	7.7	8	pKd	2
Homo sapiens	Macrophage colony stimulating factor receptor	6.8	6.8	6.8	pKi	1
Homo sapiens	MAP kinase p38 alpha	4	4	4.9	pIC50	2
Homo sapiens	Maternal embryonic leucine zipper kinase	5.7	5.7	5.7	pKd	2
Homo sapiens	Mixed lineage kinase 7	5.6	5.6	5.6	pKd	2
Homo sapiens	Platelet-derived growth factor receptor alpha	7.1	7.1	7.1	pEC50	1
Homo sapiens	Platelet-derived growth factor receptor alpha	7.1	6.8	8.7	pIC50	6
Homo sapiens	Platelet-derived growth factor receptor alpha	7.5	7.5	7.5	pKd	2
Homo sapiens	Platelet-derived growth factor receptor alpha	6.8	6.8	6.8	pKi	1
Homo sapiens	Platelet-derived growth factor receptor beta	6.6	6.4	7.1	pIC50	4
Homo sapiens	Platelet-derived growth factor receptor beta	7.9	7.6	7.9	pKd	3
Homo sapiens	Platelet-derived growth factor receptor beta	7.3	7.3	7.3	pKi	1
Rattus norvegicus	Platelet-derived growth factor receptor beta	6.8	6.8	6.8	pIC50	1
Homo sapiens	Serine/threonine-protein kinase 17A	5.3	5.3	5.6	pKd	3
Homo sapiens	Serine/threonine-protein kinase B-raf	5.5	5.5	5.5	pKd	2
Homo sapiens	Serine/threonine-protein kinase GAK	6	5.4	6	pKd	3
Homo sapiens	Serine/threonine-protein kinase PLK4	5.1	5.1	5.1	pKd	3
Homo sapiens	Serine/threonine-protein kinase RAF	5.8	5.8	5.8	pKd	2
Homo sapiens	Serine/threonine-protein kinase TAO1	5.4	5.4	5.4	pKi	1
Homo sapiens	Serine/threonine-protein kinase TNNI3K	5.4	5.4	5.4	pKd	2
Homo sapiens	Stem cell growth factor receptor	7	7	7	pEC50	1
Homo sapiens	Stem cell growth factor receptor	7	5	7.8	pIC50	22
Homo sapiens	Stem cell growth factor receptor	7	5.5	7.9	pKd	16
Homo sapiens	Tyrosine-protein kinase ABL	6.7	4.1	7.7	pIC50	32
Homo sapiens	Tyrosine-protein kinase ABL	7.4	5.2	9	pKd	26
Homo sapiens	Tyrosine-protein kinase ABL	7.4	5.2	7.9	pKi	6
Mus musculus	Tyrosine-protein kinase ABL	6.1	4.7	8	pIC50	3
Homo sapiens	Tyrosine-protein kinase ABL2	6.6	6.6	6.6	pIC50	1
Homo sapiens	Tyrosine-protein kinase ABL2	8	6.3	8.2	pKd	5
Homo sapiens	Tyrosine-protein kinase BLK	6.3	6.3	6.3	pKd	2
Homo sapiens	Tyrosine-protein kinase FGR	5.6	5.6	5.6	pKd	2
Homo sapiens	Tyrosine-protein kinase FRK	5.8	5.5	5.8	pKd	3
Homo sapiens	Tyrosine-protein kinase FRK	6.5	6.5	6.5	pKi	1
Homo sapiens	Tyrosine-protein kinase FYN	5.5	5.3	5.5	pKd	3
Homo sapiens	Tyrosine-protein kinase LCK	6.5	6.5	6.8	pIC50	3
Homo sapiens	Tyrosine-protein kinase LCK	7.4	7.2	7.4	pKd	3
Homo sapiens	Tyrosine-protein kinase LCK	6.5	6.5	6.5	pKi	1
Homo sapiens	Tyrosine-protein kinase Lyn	6.7	6.7	6.7	pIC50	1
Homo sapiens	Tyrosine-protein kinase Lyn	6.1	6.1	6.1	pKd	1
Homo sapiens	Tyrosine-protein kinase Lyn	6.7	6.7	6.7	pKi	1
Homo sapiens	Tyrosine-protein kinase receptor FLT3	5.2	5.2	5.2	pKd	1
Gallus gallus	Tyrosine-protein kinase SRC	5.6	5.6	5.6	pIC50	1
Homo sapiens	Tyrosine-protein kinase SRC	4.5	4.5	4.5	pKi	3
Homo sapiens	Tyrosine-protein kinase SYK	5.3	5.3	5.3	pIC50	1
Homo sapiens	Tyrosine-protein kinase SYK	5.3	5.3	5.3	pKi	2
Homo sapiens	Tyrosine-protein kinase TYK2	5.1	5.1	5.1	pKd	2
Homo sapiens	Vascular endothelial growth factor receptor 2	4.6	4.6	4.6	pIC50	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 H
292

2 K
293

3 L
294

4 G
295

5 G
296

6 G
297

7 Q
298

8 Y
299

9 G
300

10 E
301

11 V
302

12 Y
303

13 V
304

14 V
314

15 A
315

16 V
316

17 K
317

18 T
318

19 L
319

20 E
328

•

••

•

αC

b.l

21 F
329

22 L
330

23 K
331

24 E
332

25 A
333

26 A
334

27 V
335

28 M
336

29 K
337

30 E
338

31 I
339

32 K
340

33 P
342

34 N
343

35 L
344

36 V
345

37 Q
346

38 L
347

39 L
348

40 G
349

••

•

hinge

linker

αD

αE

41 V
350

42 Y
358

43 I
359

44 V
360

45 T
361

46 E
362

47 Y
363

48 M
364

49 P
365

50 Y
366

51 G
367

52 N
368

53 L
369

54 L
370

55 D
371

56 Y
372

57 L
373

58 R
374

59 E
375

60 Y
399

•

••

•

αE

c.l

VII

VIII

61 L
400

62 E
401

63 K
402

64 K
403

65 N
404

66 F
405

67 I
406

68 H
407

69 R
408

70 D
409

71 L
410

72 A
411

73 A
412

74 R
413

75 N
414

76 C
415

77 L
416

78 V
417

79 V
425

80 A
426

•

••

•

DFG

a.l

81 D
427

82 F
428

83 G
429

84 L
430

85 S
431

••

Interaction pattern search

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