2VX3 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE HUMAN DUAL SPECIFICITY TYROSINE-PHOSPHORYLATION-REGULATED KINASE 1A

Authors :   A. K. Roos, M. Soundararajan, A. C. W. Pike, O. Fedorov, O. King, N. Burge C. Philips, P. Filippakopoulos, C. H. Arrowsmith, M. Wikstrom, A. Edw F. Von Delft, C. Bountra, S. Knapp

Date :   30 Jun 08 (Deposition) - 16 Sep 08 (Release) - 26 Jun 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Serine/Threonine-Protein Kinase, Minibrain Homolog, Nucleotide-Binding, Transferase, Phosphoprotein, Tyrosine-Protein Kinase, Casp8, Kinase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Soundararajan, A. K. Roos, P. Savitsky, P. Filippakopoulos, A. N. Kettenbach, J. V. Olsen, S. A. Gerber, J. Eswaran, S. Knapp, J. M. Elkins
Structures Of Down Syndrome Kinases, Dyrks, Reveal Mechanisms Of Kinase Activation And Substrate Recognition.
Structure V. 21 986 2013
PubMed-ID: 23665168 | Reference-DOI: 10.1016/J.STR.2013.03.012

Molecule 1 - DUAL SPECIFICITY TYROSINE-PHOSPHORYLATION- REGULATED KINASE 1A
	Chains	:	A, B, C, D
	EC Number	:	2.7.12.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PNIC28-BSA4
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	R3-PRARE2
	Fragment	:	RESIDUES 127-485
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	PROTEIN KINASE MINIBRAIN HOMOLOG, MNBH, HMNB, HP86, DUAL SPECIFICITY YAK1-RELATED KINASE

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 32)

No.	Name	Count	Type	Full Name
1	CL	8	Ligand/Ion	CHLORIDE ION
2	D15	4	Ligand/Ion	N-(5-{[(2S)-4-AMINO-2-(3-CHLOROPHENYL)BUTANOYL]AMINO}-1H-INDAZOL-3-YL)BENZAMIDE
3	P6G	8	Ligand/Ion	HEXAETHYLENE GLYCOL
4	PTR	4	Mod. Amino Acid	O-PHOSPHOTYROSINE
5	SO4	8	Ligand/Ion	SULFATE ION

Biological Unit 1 (4, 6)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	D15	1	Ligand/Ion	N-(5-{[(2S)-4-AMINO-2-(3-CHLOROPHENYL)BUTANOYL]AMINO}-1H-INDAZOL-3-YL)BENZAMIDE
3	P6G	3	Ligand/Ion	HEXAETHYLENE GLYCOL
4	PTR	1	Mod. Amino Acid	O-PHOSPHOTYROSINE
5	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (4, 8)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	D15	1	Ligand/Ion	N-(5-{[(2S)-4-AMINO-2-(3-CHLOROPHENYL)BUTANOYL]AMINO}-1H-INDAZOL-3-YL)BENZAMIDE
3	P6G	3	Ligand/Ion	HEXAETHYLENE GLYCOL
4	PTR	1	Mod. Amino Acid	O-PHOSPHOTYROSINE
5	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 3 (4, 6)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	D15	1	Ligand/Ion	N-(5-{[(2S)-4-AMINO-2-(3-CHLOROPHENYL)BUTANOYL]AMINO}-1H-INDAZOL-3-YL)BENZAMIDE
3	P6G	1	Ligand/Ion	HEXAETHYLENE GLYCOL
4	PTR	1	Mod. Amino Acid	O-PHOSPHOTYROSINE
5	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 4 (4, 4)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	D15	1	Ligand/Ion	N-(5-{[(2S)-4-AMINO-2-(3-CHLOROPHENYL)BUTANOYL]AMINO}-1H-INDAZOL-3-YL)BENZAMIDE
3	P6G	1	Ligand/Ion	HEXAETHYLENE GLYCOL
4	PTR	1	Mod. Amino Acid	O-PHOSPHOTYROSINE
5	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (26, 26)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLY A:166 , LYS A:167 , GLY A:168 , GLY A:171 , GLN A:172 , VAL A:173 , ALA A:186 , GLU A:239 , MET A:240 , LEU A:241 , SER A:242 , ASN A:292 , LEU A:294 , ASP A:307 , CL A:620 , P6G A:700 , SO4 A:1483 , HOH A:2035	BINDING SITE FOR RESIDUE D15 A 600
02	AC2	SOFTWARE	LYS A:188 , ASP A:307 , D15 A:600	BINDING SITE FOR RESIDUE CL A 620
03	AC3	SOFTWARE	ASP A:162 , LYS A:175 , D15 A:600	BINDING SITE FOR RESIDUE P6G A 700
04	AC4	SOFTWARE	GLN A:201 , GLN C:201	BINDING SITE FOR RESIDUE P6G A 701
05	AC5	SOFTWARE	TYR A:319	BINDING SITE FOR RESIDUE P6G A 702
06	AC6	SOFTWARE	ILE B:165 , GLY B:166 , GLY B:168 , GLY B:171 , GLN B:172 , VAL B:173 , ALA B:186 , LYS B:188 , GLU B:239 , LEU B:241 , SER B:242 , ASN B:292 , LEU B:294 , ASP B:307 , CL B:620 , P6G B:700 , SO4 B:1482 , ARG D:179	BINDING SITE FOR RESIDUE D15 B 600
07	AC7	SOFTWARE	LYS B:188 , ASP B:307 , D15 B:600	BINDING SITE FOR RESIDUE CL B 620
08	AC8	SOFTWARE	ASP B:162 , LYS B:175 , MET B:240 , D15 B:600	BINDING SITE FOR RESIDUE P6G B 700
09	AC9	SOFTWARE	GLN B:201 , HIS B:227 , GLN D:201 , LEU D:234	BINDING SITE FOR RESIDUE P6G B 701
10	BC1	SOFTWARE	ASP B:247 , ASN B:251 , GLU D:160	BINDING SITE FOR RESIDUE P6G B 702
11	BC2	SOFTWARE	ILE C:165 , GLY C:166 , LYS C:167 , GLY C:168 , GLY C:171 , VAL C:173 , ALA C:186 , LYS C:188 , GLU C:239 , MET C:240 , LEU C:241 , SER C:242 , ASN C:292 , LEU C:294 , ASP C:307 , CL C:620 , SO4 C:1482	BINDING SITE FOR RESIDUE D15 C 600
12	BC3	SOFTWARE	LYS C:188 , ASP C:307 , D15 C:600	BINDING SITE FOR RESIDUE CL C 620
13	BC4	SOFTWARE	ASP C:162 , LYS C:175 , TRP C:184	BINDING SITE FOR RESIDUE P6G C 700
14	BC5	SOFTWARE	ILE D:165 , GLY D:166 , LYS D:167 , GLY D:168 , GLY D:171 , GLN D:172 , VAL D:173 , ALA D:186 , GLU D:239 , MET D:240 , LEU D:241 , SER D:242 , TYR D:243 , ASN D:292 , LEU D:294 , ASP D:307 , CL D:620 , SO4 D:1482	BINDING SITE FOR RESIDUE D15 D 600
15	BC6	SOFTWARE	LYS D:188 , ASP D:307 , D15 D:600	BINDING SITE FOR RESIDUE CL D 620
16	BC7	SOFTWARE	ASP D:162 , LYS D:175 , TRP D:184	BINDING SITE FOR RESIDUE P6G D 700
17	BC8	SOFTWARE	GLY C:168 , SER C:169 , LYS C:289 , D15 C:600 , HOH C:2026	BINDING SITE FOR RESIDUE SO4 C1482
18	BC9	SOFTWARE	GLY A:168 , SER A:169 , LYS A:289 , ASP A:307 , ASP A:410 , D15 A:600	BINDING SITE FOR RESIDUE SO4 A1483
19	CC1	SOFTWARE	ASP C:410 , GLY D:168 , SER D:169 , LYS D:289 , D15 D:600	BINDING SITE FOR RESIDUE SO4 D1482
20	CC2	SOFTWARE	SER B:169 , LYS B:289 , D15 B:600	BINDING SITE FOR RESIDUE SO4 B1482
21	CC3	SOFTWARE	ASN B:365 , GLU B:366 , LYS B:393 , ARG D:300	BINDING SITE FOR RESIDUE SO4 B1483
22	CC4	SOFTWARE	LYS C:225 , ARG C:226	BINDING SITE FOR RESIDUE SO4 C1483
23	CC5	SOFTWARE	LYS C:264 , ARG C:300 , SER C:301	BINDING SITE FOR RESIDUE SO4 C1484
24	CC6	SOFTWARE	LYS B:264 , ARG B:300 , SER B:301	BINDING SITE FOR RESIDUE SO4 B1484
25	CC7	SOFTWARE	HIS B:424 , LYS B:453	BINDING SITE FOR RESIDUE CL B1485
26	CC8	SOFTWARE	ARG B:325	BINDING SITE FOR RESIDUE CL D1484

(no "SS Bond" information available for 2VX3)

(no "Cis Peptide Bond" information available for 2VX3)

Asymmetric Unit (1, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_009395	Y	415	F	DYR1A_HUMAN	Polymorphism	---	A/B/C/D	Y	415	F

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_009395	Y	415	F	DYR1A_HUMAN	Polymorphism	---	A	Y	415	F

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_009395	Y	415	F	DYR1A_HUMAN	Polymorphism	---	B	Y	415	F

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 3 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_009395	Y	415	F	DYR1A_HUMAN	Polymorphism	---	C	Y	415	F

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 4 (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_009395	Y	415	F	DYR1A_HUMAN	Polymorphism	---	D	Y	415	F

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	DYR1A_HUMAN	165-188	4	A:165-188 B:165-188 C:165-188 D:165-188
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	DYR1A_HUMAN	283-295	4	A:283-295 B:283-295 C:283-295 D:283-295

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	DYR1A_HUMAN	165-188	1	A:165-188 - - -
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	DYR1A_HUMAN	283-295	1	A:283-295 - - -

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	DYR1A_HUMAN	165-188	1	- B:165-188 - -
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	DYR1A_HUMAN	283-295	1	- B:283-295 - -

Biological Unit 3 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	DYR1A_HUMAN	165-188	1	- - C:165-188 -
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	DYR1A_HUMAN	283-295	1	- - C:283-295 -

Biological Unit 4 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROTEIN_KINASE_ATP	PS00107	Protein kinases ATP-binding region signature.	DYR1A_HUMAN	165-188	1	- - - D:165-188
2	PROTEIN_KINASE_ST	PS00108	Serine/Threonine protein kinases active-site signature.	DYR1A_HUMAN	283-295	1	- - - D:283-295

(no "Exon" information available for 2VX3)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:347
 aligned with DYR1A_HUMAN | Q13627 from UniProtKB/Swiss-Prot  Length:763

    Alignment length:347
                                   144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       
          DYR1A_HUMAN   135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKHDTEMKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQYIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKTKDGKREYKPPGTRKLHNILGVETGGPGGRRAGESGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFKK 481
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhh.............ee...eeeeeeeeee..eeeeeeee....eeeeeeee..hhhhhhhhhhhhhhhhhhhhh.hhhhhh...eeeeeee..eeeeeee....hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh.....ee....hhh.eee.......eee......ee..........hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhhheee.....eee................hhhhhhh....hhhhh.......hhhhhhhhhhhhhhhh........hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------F------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------PROTEIN_KINASE_ATP      ----------------------------------------------------------------------------------------------PROTEIN_KINAS------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vx3 A 135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKHDTEMKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQyIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKTKDGKREYKPPGTRKLHNILGVETGGPGGRRAGESGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFKK 481
                                   144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314      |324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       
                                                                                                                                                                                                                    321-PTR

Chain B from PDB  Type:PROTEIN  Length:341
 aligned with DYR1A_HUMAN | Q13627 from UniProtKB/Swiss-Prot  Length:763

    Alignment length:346
                                   144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474      
          DYR1A_HUMAN   135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKHDTEMKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQYIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKTKDGKREYKPPGTRKLHNILGVETGGPGGRRAGESGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFK 480
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.............ee...eeeeeeeeee..eeeeeeee....eeeeeeee..hhhhhhhhhhhhhhhhhhhhh..hhhhh...eeeeeee..eeeeeee....hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....ee....hhh.eee.......eee......ee..........hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhhheee.....eee...-----........hhhhhh.....hhhhh.......hhhhhhhhhhhhhhhh........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------F----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------PROTEIN_KINASE_ATP      ----------------------------------------------------------------------------------------------PROTEIN_KINAS----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vx3 B 135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKHDTEMKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQyIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKT-----EYKPPGTRKLHNILGVETGGPGGRRAGESGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFK 480
                                   144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314      |324       334       344       354       364       374       384       394       404   |   414       424       434       444       454       464       474      
                                                                                                                                                                                                                    321-PTR                                                                                408   414

Chain C from PDB  Type:PROTEIN  Length:339
 aligned with DYR1A_HUMAN | Q13627 from UniProtKB/Swiss-Prot  Length:763

    Alignment length:346
                                   144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474      
          DYR1A_HUMAN   135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKHDTEMKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQYIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKTKDGKREYKPPGTRKLHNILGVETGGPGGRRAGESGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFK 480
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.............ee...eeeeeeeeee..eeeeeeee....eeeeeeee..hhhhhhhhhhhhhhhhhhhh.---hhhh...eeeeeee..eeeeeee....hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....ee....hhh.eee.......eee......ee..........hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhhhh.hhhh.eee.....eee.....-..........hhhhhh.....hhhhh.---...hhhhhhhhhhhhhhhh........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------F----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------PROTEIN_KINASE_ATP      ----------------------------------------------------------------------------------------------PROTEIN_KINAS----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vx3 C 135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKH---MKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQyIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKTKD-KREYKPPGTRKLHNILGVETGGPGGRR---SGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFK 480
                                   144       154       164       174       184       194       204        |-  |    224       234       244       254       264       274       284       294       304       314      |324       334       344       354       364       374       384       394       404     | 414       424       434   |   444       454       464       474      
                                                                                                        213 217                                                                                                     321-PTR                                                                                  410 |                       438 442                                      
                                                                                                                                                                                                                                                                                                               412

Chain D from PDB  Type:PROTEIN  Length:343
 aligned with DYR1A_HUMAN | Q13627 from UniProtKB/Swiss-Prot  Length:763

    Alignment length:346
                                   144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474      
          DYR1A_HUMAN   135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKHDTEMKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQYIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKTKDGKREYKPPGTRKLHNILGVETGGPGGRRAGESGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFK 480
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------------------Pkinase-2vx3D01 D:159-479                                                                                                                                                                                                                                                                                                        - Pfam domains (1)
           Pfam domains (2) ------------------------Pkinase-2vx3D02 D:159-479                                                                                                                                                                                                                                                                                                        - Pfam domains (2)
           Pfam domains (3) ------------------------Pkinase-2vx3D03 D:159-479                                                                                                                                                                                                                                                                                                        - Pfam domains (3)
           Pfam domains (4) ------------------------Pkinase-2vx3D04 D:159-479                                                                                                                                                                                                                                                                                                        - Pfam domains (4)
         Sec.struct. author ..hhhh.............ee...eeeeeeeeee..eeeeeeee....eeeeeeee..hhhhhhhhhhhhhhhhhhhhh..hhhhh...eeeeeee..eeeeeee....hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh....ee....hhh.eee.......eee......ee..........hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhh..hhhhhh...hhhh.eee.....eee...---..........hhhhhh.....hhhhh.......hhhhhhhhhhhhhhhh........hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------F----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------PROTEIN_KINASE_ATP      ----------------------------------------------------------------------------------------------PROTEIN_KINAS----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vx3 D 135 VYNDGYDDDNYDYIVKNGEKWMDRYEIDSLIGKGSFGQVVKAYDRVEQEWVAIKIIKNKKAFLNQAQIEVRLLELMNKHDTEMKYYIVHLKRHFMFRNHLCLVFEMLSYNLYDLLRNTNFRGVSLNLTRKFAQQMCTALLFLATPELSIIHCDLKPENILLCNPKRSAIKIVDFGSSCQLGQRIYQyIQSRFYRSPEVLLGMPYDLAIDMWSLGCILVEMHTGEPLFSGANEVDQMNKIVEVLGIPPAHILDQAPKARKFFEKLPDGTWNLKKT---KREYKPPGTRKLHNILGVETGGPGGRRAGESGHTVADYLKFKDLILRMLDYDPKTRIQPYYALQHSFFK 480
                                   144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314      |324       334       344       354       364       374       384       394       404   |   414       424       434       444       454       464       474      
                                                                                                                                                                                                                    321-PTR                                                                                408 412

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	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 2VX3)

(no "CATH Domain" information available for 2VX3)

Asymmetric Unit

Clans(

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Families(

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Organisms( (-)

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Clan: PKinase (934)

Family: Pkinase (680)

Homo sapiens (Human) (521)

1a	Pkinase-2vx3D01	D:159-479
1b	Pkinase-2vx3D02	D:159-479
1c	Pkinase-2vx3D03	D:159-479
1d	Pkinase-2vx3D04	D:159-479

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (DYR1A_HUMAN | Q13627)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0004715	non-membrane spanning protein tyrosine kinase activity	Catalysis of the reaction: ATP + protein L-tyrosine = ADP + protein L-tyrosine phosphate by a non-membrane spanning protein.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0004672	protein kinase activity	Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
	GO:0043621	protein self-association	Interacting selectively and non-covalently with a domain within the same polypeptide.
	GO:0004674	protein serine/threonine kinase activity	Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
	GO:0004712	protein serine/threonine/tyrosine kinase activity	Catalysis of the reactions: ATP + a protein serine = ADP + protein serine phosphate; ATP + a protein threonine = ADP + protein threonine phosphate; and ATP + a protein tyrosine = ADP + protein tyrosine phosphate.
	GO:0004713	protein tyrosine kinase activity	Catalysis of the reaction: ATP + a protein tyrosine = ADP + protein tyrosine phosphate.
	GO:0048156	tau protein binding	Interacting selectively and non-covalently with tau protein. tau is a microtubule-associated protein, implicated in Alzheimer's disease, Down Syndrome and ALS.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0007623	circadian rhythm	Any biological process in an organism that recurs with a regularity of approximately 24 hours.
	GO:0043518	negative regulation of DNA damage response, signal transduction by p53 class mediator	Any process that stops, prevents, or reduces the frequency, rate or extent of the cascade of processes induced by the cell cycle regulator phosphoprotein p53, or an equivalent protein, in response to the detection of DNA damage.
	GO:0048025	negative regulation of mRNA splicing, via spliceosome	Any process that stops, prevents or reduces the rate or extent of mRNA splicing via a spliceosomal mechanism.
	GO:0007399	nervous system development	The process whose specific outcome is the progression of nervous tissue over time, from its formation to its mature state.
	GO:0018105	peptidyl-serine phosphorylation	The phosphorylation of peptidyl-serine to form peptidyl-O-phospho-L-serine.
	GO:0018107	peptidyl-threonine phosphorylation	The phosphorylation of peptidyl-threonine to form peptidyl-O-phospho-L-threonine.
	GO:0018108	peptidyl-tyrosine phosphorylation	The phosphorylation of peptidyl-tyrosine to form peptidyl-O4'-phospho-L-tyrosine.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
	GO:0090312	positive regulation of protein deacetylation	Any process that increases the rate, frequency, or extent of protein deacetylation, the removal of an acetyl group from a protein amino acid. An acetyl group is CH3CO-, derived from acetic [ethanoic] acid.
	GO:0046777	protein autophosphorylation	The phosphorylation by a protein of one or more of its own amino acid residues (cis-autophosphorylation), or residues on an identical protein (trans-autophosphorylation).
	GO:0006468	protein phosphorylation	The process of introducing a phosphate group on to a protein.
	GO:0000381	regulation of alternative mRNA splicing, via spliceosome	Any process that modulates the frequency, rate or extent of alternative splicing of nuclear mRNAs.
cellular component
	GO:0030529	intracellular ribonucleoprotein complex	An intracellular macromolecular complex containing both protein and RNA molecules.
	GO:0016607	nuclear speck	A discrete extra-nucleolar subnuclear domain, 20-50 in number, in which splicing factors are seen to be localized by immunofluorescence microscopy.
	GO:0005654	nucleoplasm	That part of the nuclear content other than the chromosomes or the nucleolus.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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	2vx3
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	DYR1A_HUMAN \| Q13627
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	2.7.12.1
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2wo6	HUMAN DUAL-SPECIFICITY TYROSINE-PHOSPHORYLATION -REGULATED KINASE 1A IN COMPLEX WITH A CONSENSUS SUBSTRATE PEPTIDE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 32)

Sites (26, 26)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 4)

PROSITE Motifs (2, 8)

Exons (0, 0)

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SCOP Domains (0, 0)

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Pfam Domains (1, 4)

Gene Ontology (29, 29)

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