Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5MYV

Crystal structure of SRPK2 in complex with compound 1

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0004672	molecular_function	protein kinase activity
A	0005524	molecular_function	ATP binding
A	0006468	biological_process	protein phosphorylation
B	0004672	molecular_function	protein kinase activity
B	0005524	molecular_function	ATP binding
B	0006468	biological_process	protein phosphorylation
C	0004672	molecular_function	protein kinase activity
C	0005524	molecular_function	ATP binding
C	0006468	biological_process	protein phosphorylation
D	0004672	molecular_function	protein kinase activity
D	0005524	molecular_function	ATP binding
D	0006468	biological_process	protein phosphorylation

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue SO4 A 701

Chain	Residue
A	HIS182
A	HIS183
A	LYS186
A	W4A716

site_id	AC2
Number of Residues	5
Details	binding site for residue SO4 A 702

Chain	Residue
A	GLY101
A	HIS102
A	PHE103
A	SER104
A	LYS121

site_id	AC3
Number of Residues	3
Details	binding site for residue SO4 A 703

Chain	Residue
A	ARG559
A	ARG562
A	ARG605

site_id	AC4
Number of Residues	4
Details	binding site for residue SO4 A 704

Chain	Residue
A	SER687
A	GLY689
A	GLU690
A	ARG693

site_id	AC5
Number of Residues	3
Details	binding site for residue SO4 A 705

Chain	Residue
A	HIS598
A	SER599
A	ARG605

site_id	AC6
Number of Residues	7
Details	binding site for residue SO4 A 706

Chain	Residue
A	TYR79
A	SER125
A	GLY167
A	MET168
A	ASN169
A	GLY170
A	HIS172

site_id	AC7
Number of Residues	4
Details	binding site for residue SO4 A 707

Chain	Residue
A	HIS643
A	HOH808
B	ARG622
B	ARG638

site_id	AC8
Number of Residues	3
Details	binding site for residue SO4 A 708

Chain	Residue
A	LYS97
A	TRP100
A	THR105

site_id	AC9
Number of Residues	5
Details	binding site for residue SO4 A 709

Chain	Residue
A	PHE88
A	ILE165
A	ILE165
A	SER166
A	SER166

site_id	AD1
Number of Residues	2
Details	binding site for residue SO4 A 710

Chain	Residue
A	HIS183
A	LYS186

site_id	AD2
Number of Residues	3
Details	binding site for residue SO4 A 711

Chain	Residue
A	HIS549
A	HOH809
C	LYS550

site_id	AD3
Number of Residues	6
Details	binding site for residue SO4 A 712

Chain	Residue
A	HIS549
A	LYS550
A	HIS551
A	HOH811
A	HOH820
B	HIS549

site_id	AD4
Number of Residues	3
Details	binding site for residue SO4 A 713

Chain	Residue
A	ARG632
B	ARG632
C	ARG632

site_id	AD5
Number of Residues	3
Details	binding site for residue SO4 A 714

Chain	Residue
A	LYS550
B	LYS220
B	HIS549

site_id	AD6
Number of Residues	7
Details	binding site for residue SO4 A 715

Chain	Residue
A	ARG632
A	ARG637
A	ARG642
A	HOH802
B	SO4714
C	ARG632
C	SO4709

site_id	AD7
Number of Residues	12
Details	binding site for residue W4A A 716

Chain	Residue
A	LEU98
A	TRP100
A	PHE177
A	GLU178
A	VAL179
A	LEU180
A	GLY181
A	HIS182
A	TYR239
A	MET243
A	SO4701
A	DMS717

site_id	AD8
Number of Residues	6
Details	binding site for residue DMS A 717

Chain	Residue
A	GLU136
A	VAL157
A	PHE177
A	ASP541
A	LEU542
A	W4A716

site_id	AD9
Number of Residues	3
Details	binding site for residue SO4 B 701

Chain	Residue
B	HIS182
B	HIS183
B	W4A715

site_id	AE1
Number of Residues	6
Details	binding site for residue SO4 B 702

Chain	Residue
A	GLN127
A	HIS128
B	SER687
B	GLY689
B	ARG693
B	HOH802

site_id	AE2
Number of Residues	4
Details	binding site for residue SO4 B 703

Chain	Residue
B	ARG559
B	ARG562
B	ARG605
B	HOH803

site_id	AE3
Number of Residues	3
Details	binding site for residue SO4 B 704

Chain	Residue
B	HIS598
B	SER599
B	ARG605

site_id	AE4
Number of Residues	3
Details	binding site for residue SO4 B 705

Chain	Residue
B	ARG642
B	HIS643
C	ARG637

site_id	AE5
Number of Residues	7
Details	binding site for residue SO4 B 706

Chain	Residue
B	TYR79
B	SER125
B	GLY167
B	MET168
B	ASN169
B	GLY170
B	HIS172

site_id	AE6
Number of Residues	2
Details	binding site for residue SO4 B 707

Chain	Residue
B	LYS550
C	HIS549

site_id	AE7
Number of Residues	6
Details	binding site for residue SO4 B 708

Chain	Residue
A	GLY628
A	LYS629
B	GLY628
B	LYS629
C	GLY628
C	LYS629

site_id	AE8
Number of Residues	3
Details	binding site for residue SO4 B 709

Chain	Residue
B	SER166
C	ILE165
C	SER166

site_id	AE9
Number of Residues	5
Details	binding site for residue SO4 B 710

Chain	Residue
B	GLY101
B	HIS102
B	PHE103
B	SER104
B	LYS121

site_id	AF1
Number of Residues	4
Details	binding site for residue SO4 B 711

Chain	Residue
B	HIS80
B	PRO81
B	LYS97
B	THR105

site_id	AF2
Number of Residues	6
Details	binding site for residue SO4 B 712

Chain	Residue
B	PHE586
B	TYR593
B	LEU594
B	VAL655
B	LYS659
B	TYR660

site_id	AF3
Number of Residues	2
Details	binding site for residue SO4 B 713

Chain	Residue
B	GLU690
B	ARG693

site_id	AF4
Number of Residues	5
Details	binding site for residue SO4 B 714

Chain	Residue
A	ARG632
A	SO4715
B	ASN636
B	ARG637
B	ARG642

site_id	AF5
Number of Residues	10
Details	binding site for residue W4A B 715

Chain	Residue
B	LEU98
B	PHE177
B	GLU178
B	VAL179
B	LEU180
B	GLY181
B	HIS182
B	TYR239
B	MET243
B	SO4701

site_id	AF6
Number of Residues	3
Details	binding site for residue SO4 C 701

Chain	Residue
C	HIS183
C	LYS186
C	W4A711

site_id	AF7
Number of Residues	3
Details	binding site for residue SO4 C 702

Chain	Residue
C	ARG559
C	ARG562
C	ARG605

site_id	AF8
Number of Residues	2
Details	binding site for residue SO4 C 703

Chain	Residue
C	SER687
C	ARG693

site_id	AF9
Number of Residues	3
Details	binding site for residue SO4 C 704

Chain	Residue
C	HIS598
C	SER599
C	ARG605

site_id	AG1
Number of Residues	4
Details	binding site for residue SO4 C 705

Chain	Residue
A	ARG622
A	ARG638
C	ARG642
C	HIS643

site_id	AG2
Number of Residues	6
Details	binding site for residue SO4 C 706

Chain	Residue
C	TYR79
C	SER125
C	GLY167
C	MET168
C	ASN169
C	HIS172

site_id	AG3
Number of Residues	5
Details	binding site for residue SO4 C 707

Chain	Residue
C	GLY101
C	HIS102
C	PHE103
C	SER104
C	LYS121

site_id	AG4
Number of Residues	3
Details	binding site for residue SO4 C 708

Chain	Residue
C	HIS80
C	LYS97
C	THR105

site_id	AG5
Number of Residues	6
Details	binding site for residue SO4 C 709

Chain	Residue
A	ARG637
A	SO4715
B	ARG632
C	ASN636
C	ARG637
C	ARG642

site_id	AG6
Number of Residues	5
Details	binding site for residue SO4 C 710

Chain	Residue
A	HOH811
B	HIS549
B	LYS550
B	HIS551
C	HIS549

site_id	AG7
Number of Residues	8
Details	binding site for residue W4A C 711

Chain	Residue
C	LEU98
C	VAL179
C	LEU180
C	GLY181
C	TYR239
C	MET243
C	SO4701
C	DMS712

site_id	AG8
Number of Residues	6
Details	binding site for residue DMS C 712

Chain	Residue
C	GLU136
C	VAL157
C	PHE177
C	ASP541
C	LEU542
C	W4A711

site_id	AG9
Number of Residues	4
Details	binding site for residue SO4 D 701

Chain	Residue
D	HIS182
D	HIS183
D	LYS186
D	W4A710

site_id	AH1
Number of Residues	5
Details	binding site for residue SO4 D 702

Chain	Residue
D	GLY101
D	HIS102
D	PHE103
D	SER104
D	LYS121

site_id	AH2
Number of Residues	3
Details	binding site for residue SO4 D 703

Chain	Residue
D	ARG559
D	ARG562
D	ARG605

site_id	AH3
Number of Residues	3
Details	binding site for residue SO4 D 704

Chain	Residue
D	SER687
D	GLY689
D	ARG693

site_id	AH4
Number of Residues	3
Details	binding site for residue SO4 D 705

Chain	Residue
D	HIS598
D	SER599
D	ARG605

site_id	AH5
Number of Residues	4
Details	binding site for residue SO4 D 706

Chain	Residue
D	SER125
D	MET168
D	ASN169
D	HIS172

site_id	AH6
Number of Residues	1
Details	binding site for residue SO4 D 707

Chain	Residue
D	LYS141

site_id	AH7
Number of Residues	2
Details	binding site for residue SO4 D 708

Chain	Residue
A	GLN194
D	HIS549

site_id	AH8
Number of Residues	3
Details	binding site for residue SO4 D 709

Chain	Residue
D	ASN636
D	ARG637
D	ARG642

site_id	AH9
Number of Residues	8
Details	binding site for residue W4A D 710

Chain	Residue
D	TRP100
D	PHE177
D	VAL179
D	LEU180
D	GLY181
D	HIS182
D	MET243
D	SO4701

site_id	AI1
Number of Residues	4
Details	binding site for residue DMS D 711

Chain	Residue
D	GLU136
D	VAL157
D	ASP541
D	LEU542

Functional Information from PROSITE/UniProt

site_id	PS00107
Number of Residues	24
Details	PROTEIN_KINASE_ATP Protein kinases ATP-binding region signature. LGWGHFSTVWlCwdmqgkrf..........VAMK

Chain	Residue	Details
A	LEU98-LYS121

site_id	PS00108
Number of Residues	13
Details	PROTEIN_KINASE_ST Serine/Threonine protein kinases active-site signature. IiHtDIKpeNILM

Chain	Residue	Details
A	ILE221-MET233

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	4
Details	ACT_SITE: Proton acceptor => ECO:0000255\|PROSITE-ProRule:PRU00159, ECO:0000255\|PROSITE-ProRule:PRU10027

Chain	Residue	Details
A	ASP225
B	ASP225
C	ASP225
D	ASP225

site_id	SWS_FT_FI2
Number of Residues	8
Details	BINDING: BINDING => ECO:0000250\|UniProtKB:Q9UPE1, ECO:0000255\|PROSITE-ProRule:PRU00159

Chain	Residue	Details
A	LEU98
A	LYS121
B	LEU98
B	LYS121
C	LEU98
C	LYS121
D	LEU98
D	LYS121

site_id	SWS_FT_FI3
Number of Residues	8
Details	SITE: Cleavage; by caspase-3 => ECO:0000269\|PubMed:21056976

Chain	Residue	Details
A	ASP150
A	GLU665
B	ASP150
B	GLU665
C	ASP150
C	GLU665
D	ASP150
D	GLU665

site_id	SWS_FT_FI4
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:24275569

Chain	Residue	Details
A	SER63
B	SER63
C	SER63
D	SER63

site_id	SWS_FT_FI5
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:18691976, ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:24275569

Chain	Residue	Details
A	ARG642
B	ARG642
C	ARG642
D	ARG642

site_id	SWS_FT_FI6
Number of Residues	16
Details	MOD_RES: Phosphoserine => ECO:0000250\|UniProtKB:O54781

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	4
Details	MOD_RES: Phosphothreonine => ECO:0000250\|UniProtKB:O54781

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	4
Details	MOD_RES: Phosphothreonine; by PKB/AKT1 => ECO:0000269\|PubMed:19592491

Chain

Residue

Details

site_id	SWS_FT_FI9
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:18669648, ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:21406692, ECO:0007744\|PubMed:23186163

Chain

Residue

Details

site_id	SWS_FT_FI10
Number of Residues	4
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:16964243, ECO:0007744\|PubMed:18669648, ECO:0007744\|PubMed:20068231, ECO:0007744\|PubMed:21406692, ECO:0007744\|PubMed:24275569

Chain

Residue

Details

site_id	SWS_FT_FI11
Number of Residues	4
Details	MOD_RES: Phosphoserine; by CK2 => ECO:0000250

Chain	Residue	Details
A	SER599
B	SER599
C	SER599
D	SER599

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)