Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

2VTB

Structure of cryptochrome 3 - DNA complex

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0000719	biological_process	photoreactive repair
A	0003677	molecular_function	DNA binding
A	0003729	molecular_function	mRNA binding
A	0003904	molecular_function	deoxyribodipyrimidine photo-lyase activity
A	0003913	molecular_function	DNA photolyase activity
A	0005524	molecular_function	ATP binding
A	0005739	cellular_component	mitochondrion
A	0006139	biological_process	nucleobase-containing compound metabolic process
A	0006281	biological_process	DNA repair
A	0009507	cellular_component	chloroplast
A	0009536	cellular_component	plastid
A	0009881	molecular_function	photoreceptor activity
A	0010181	molecular_function	FMN binding
A	0071949	molecular_function	FAD binding
B	0000166	molecular_function	nucleotide binding
B	0000719	biological_process	photoreactive repair
B	0003677	molecular_function	DNA binding
B	0003729	molecular_function	mRNA binding
B	0003904	molecular_function	deoxyribodipyrimidine photo-lyase activity
B	0003913	molecular_function	DNA photolyase activity
B	0005524	molecular_function	ATP binding
B	0005739	cellular_component	mitochondrion
B	0006139	biological_process	nucleobase-containing compound metabolic process
B	0006281	biological_process	DNA repair
B	0009507	cellular_component	chloroplast
B	0009536	cellular_component	plastid
B	0009881	molecular_function	photoreceptor activity
B	0010181	molecular_function	FMN binding
B	0071949	molecular_function	FAD binding
C	0000166	molecular_function	nucleotide binding
C	0000719	biological_process	photoreactive repair
C	0003677	molecular_function	DNA binding
C	0003729	molecular_function	mRNA binding
C	0003904	molecular_function	deoxyribodipyrimidine photo-lyase activity
C	0003913	molecular_function	DNA photolyase activity
C	0005524	molecular_function	ATP binding
C	0005739	cellular_component	mitochondrion
C	0006139	biological_process	nucleobase-containing compound metabolic process
C	0006281	biological_process	DNA repair
C	0009507	cellular_component	chloroplast
C	0009536	cellular_component	plastid
C	0009881	molecular_function	photoreceptor activity
C	0010181	molecular_function	FMN binding
C	0071949	molecular_function	FAD binding
D	0000166	molecular_function	nucleotide binding
D	0000719	biological_process	photoreactive repair
D	0003677	molecular_function	DNA binding
D	0003729	molecular_function	mRNA binding
D	0003904	molecular_function	deoxyribodipyrimidine photo-lyase activity
D	0003913	molecular_function	DNA photolyase activity
D	0005524	molecular_function	ATP binding
D	0005739	cellular_component	mitochondrion
D	0006139	biological_process	nucleobase-containing compound metabolic process
D	0006281	biological_process	DNA repair
D	0009507	cellular_component	chloroplast
D	0009536	cellular_component	plastid
D	0009881	molecular_function	photoreceptor activity
D	0010181	molecular_function	FMN binding
D	0071949	molecular_function	FAD binding
E	0000166	molecular_function	nucleotide binding
E	0000719	biological_process	photoreactive repair
E	0003677	molecular_function	DNA binding
E	0003729	molecular_function	mRNA binding
E	0003904	molecular_function	deoxyribodipyrimidine photo-lyase activity
E	0003913	molecular_function	DNA photolyase activity
E	0005524	molecular_function	ATP binding
E	0005739	cellular_component	mitochondrion
E	0006139	biological_process	nucleobase-containing compound metabolic process
E	0006281	biological_process	DNA repair
E	0009507	cellular_component	chloroplast
E	0009536	cellular_component	plastid
E	0009881	molecular_function	photoreceptor activity
E	0010181	molecular_function	FMN binding
E	0071949	molecular_function	FAD binding
F	0000166	molecular_function	nucleotide binding
F	0000719	biological_process	photoreactive repair
F	0003677	molecular_function	DNA binding
F	0003729	molecular_function	mRNA binding
F	0003904	molecular_function	deoxyribodipyrimidine photo-lyase activity
F	0003913	molecular_function	DNA photolyase activity
F	0005524	molecular_function	ATP binding
F	0005739	cellular_component	mitochondrion
F	0006139	biological_process	nucleobase-containing compound metabolic process
F	0006281	biological_process	DNA repair
F	0009507	cellular_component	chloroplast
F	0009536	cellular_component	plastid
F	0009881	molecular_function	photoreceptor activity
F	0010181	molecular_function	FMN binding
F	0071949	molecular_function	FAD binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	28
Details	BINDING SITE FOR RESIDUE FAD A 998

Chain	Residue
A	TYR272
A	PHE388
A	ASN391
A	ARG394
A	GLN395
A	LEU420
A	ASP422
A	TYR423
A	ASP424
A	SER427
A	ASN428
A	SER285
A	ASN431
A	TRP432
A	HOH2173
A	HOH2174
A	HOH2240
A	HOH2269
A	HOH2270
G	DT2
G	TCP3
A	THR286
A	LYS287
A	PHE288
A	SER289
A	LEU292
A	GLU325
A	ARG329

site_id	AC2
Number of Residues	19
Details	BINDING SITE FOR RESIDUE MHF A 999

Chain	Residue
A	HIS83
A	LYS89
A	CYS146
A	SER147
A	GLU148
A	GLU149
A	ASN341
A	PHE344
A	HIS345
A	GLU417
A	TYR423
A	PRO425
A	TYR429
A	HOH2271
A	HOH2272
B	PHE188
B	ASP189
B	ASP192
B	LYS338

site_id	AC3
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CL A 1501

Chain	Residue
A	ARG51
A	ASP54
A	ASP56
A	HIS142
A	ARG300
A	HOH2190

site_id	AC4
Number of Residues	27
Details	BINDING SITE FOR RESIDUE FAD B 998

Chain	Residue
B	TYR272
B	SER285
B	THR286
B	LYS287
B	PHE288
B	SER289
B	LEU292
B	GLU325
B	ARG329
B	PHE332
B	PHE388
B	ASN391
B	ARG394
B	LEU420
B	ASP422
B	TYR423
B	ASP424
B	ASN428
B	ASN431
B	TRP432
B	HOH2123
B	HOH2124
B	HOH2158
B	HOH2168
B	HOH2176
H	DT2
H	TCP3

site_id	AC5
Number of Residues	18
Details	BINDING SITE FOR RESIDUE MHF B 999

Chain	Residue
A	PHE188
A	ASP189
A	LYS338
A	HOH2129
B	HIS83
B	LYS89
B	CYS146
B	SER147
B	GLU148
B	GLU149
B	ASN341
B	PHE344
B	HIS345
B	GLU417
B	TYR423
B	PRO425
B	TYR429
B	HOH2178

site_id	AC6
Number of Residues	5
Details	BINDING SITE FOR RESIDUE CL B 1498

Chain	Residue
B	ASP54
B	ASP56
B	HIS142
B	ARG300
B	ARG51

site_id	AC7
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL B 1499

Chain	Residue
B	GLY281
B	HOH2108
B	HOH2175

site_id	AC8
Number of Residues	3
Details	BINDING SITE FOR RESIDUE ACT B 1500

Chain	Residue
B	ARG119
B	ASP224
B	ASP225

site_id	AC9
Number of Residues	28
Details	BINDING SITE FOR RESIDUE FAD C 998

Chain	Residue
C	TYR272
C	SER285
C	THR286
C	LYS287
C	PHE288
C	SER289
C	LEU292
C	GLU325
C	ARG329
C	PHE332
C	PHE388
C	ASN391
C	ARG394
C	GLN395
C	LEU420
C	ASP422
C	TYR423
C	ASP424
C	ASN428
C	ASN431
C	TRP432
C	HOH2159
C	HOH2161
C	HOH2209
C	HOH2223
C	HOH2252
I	DT2
I	TCP3

site_id	BC1
Number of Residues	19
Details	BINDING SITE FOR RESIDUE MHF C 999

Chain	Residue
C	LYS89
C	CYS146
C	SER147
C	GLU148
C	GLU149
C	ASN341
C	PHE344
C	HIS345
C	GLU417
C	TYR423
C	PRO425
C	TYR429
C	HOH2253
C	HOH2255
C	HOH2256
C	HOH2257
D	PHE188
D	ASP189
D	LYS338

site_id	BC2
Number of Residues	5
Details	BINDING SITE FOR RESIDUE CL C 1499

Chain	Residue
C	ARG51
C	ASP54
C	ASP56
C	HIS142
C	ARG300

site_id	BC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL C 1500

Chain	Residue
C	GLY281
C	HOH2142
C	HOH2243

site_id	BC4
Number of Residues	29
Details	BINDING SITE FOR RESIDUE FAD D 998

Chain	Residue
D	TYR272
D	SER285
D	THR286
D	LYS287
D	PHE288
D	SER289
D	LEU292
D	GLU325
D	ARG329
D	PHE332
D	PHE388
D	ASN391
D	ARG394
D	GLN395
D	LEU420
D	ASP422
D	TYR423
D	ASP424
D	SER427
D	ASN428
D	ASN431
D	TRP432
D	HOH2143
D	HOH2144
D	HOH2190
D	HOH2200
D	HOH2205
J	DT2
J	TCP3

site_id	BC5
Number of Residues	19
Details	BINDING SITE FOR RESIDUE MHF D 999

Chain	Residue
C	PHE188
C	ASP189
C	ASP192
C	LYS338
D	LYS89
D	CYS146
D	SER147
D	GLU148
D	GLU149
D	ASN341
D	PHE344
D	HIS345
D	GLU417
D	TYR423
D	PRO425
D	TYR429
D	HOH2206
D	HOH2208
D	HOH2209

site_id	BC6
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CL D 1498

Chain	Residue
D	ARG51
D	ASP54
D	ASP56
D	HIS142
D	ARG300
D	HOH2160

site_id	BC7
Number of Residues	29
Details	BINDING SITE FOR RESIDUE FAD E 998

Chain	Residue
E	TYR272
E	SER285
E	THR286
E	LYS287
E	PHE288
E	SER289
E	LEU292
E	GLU325
E	ARG329
E	PHE332
E	PHE388
E	ASN391
E	ARG394
E	GLN395
E	LEU420
E	ASP422
E	TYR423
E	ASP424
E	SER427
E	ASN428
E	ASN431
E	TRP432
E	HOH2146
E	HOH2147
E	HOH2197
E	HOH2211
E	HOH2230
K	DT2
K	TCP3

site_id	BC8
Number of Residues	17
Details	BINDING SITE FOR RESIDUE MHF E 999

Chain	Residue
E	LYS89
E	CYS146
E	SER147
E	GLU148
E	GLU149
E	ASN341
E	PHE344
E	HIS345
E	GLU417
E	TYR423
E	PRO425
E	TYR429
E	HOH2231
E	HOH2233
F	PHE188
F	ASP189
F	LYS338

site_id	BC9
Number of Residues	5
Details	BINDING SITE FOR RESIDUE CL E 1499

Chain	Residue
E	ARG51
E	ASP54
E	ASP56
E	HIS142
E	ARG300

site_id	CC1
Number of Residues	27
Details	BINDING SITE FOR RESIDUE FAD F 998

Chain	Residue
F	TYR272
F	SER285
F	THR286
F	LYS287
F	PHE288
F	SER289
F	LEU292
F	GLU325
F	ARG329
F	PHE388
F	ASN391
F	ARG394
F	GLN395
F	LEU420
F	ASP422
F	TYR423
F	ASP424
F	SER427
F	ASN428
F	ASN431
F	TRP432
F	HOH2077
F	HOH2078
F	HOH2106
F	HOH2116
L	DT2
L	TCP3

site_id	CC2
Number of Residues	19
Details	BINDING SITE FOR RESIDUE MHF F 999

Chain	Residue
E	PHE188
E	ASP189
E	ASP192
E	LYS338
E	HOH2107
F	HIS83
F	LYS89
F	CYS146
F	SER147
F	GLU148
F	GLU149
F	ASN341
F	PHE344
F	HIS345
F	GLU417
F	TYR423
F	PRO425
F	TYR429
F	HOH2119

site_id	CC3
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CL F 1498

Chain	Residue
F	HIS5
F	GLY281
F	HOH2068

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	822
Details	Domain: {"description":"Photolyase/cryptochrome alpha/beta"}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	54
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

Catalytic Information from CSA

site_id	CSA1
Number of Residues	3
Details	Annotated By Reference To The Literature 1dnp

Chain	Residue	Details
A	TRP356
A	TRP432
A	TRP409

site_id	CSA2
Number of Residues	3
Details	Annotated By Reference To The Literature 1dnp

Chain	Residue	Details
C	TRP356
C	TRP432
C	TRP409

site_id	CSA3
Number of Residues	3
Details	Annotated By Reference To The Literature 1dnp

Chain	Residue	Details
D	TRP356
D	TRP432
D	TRP409

site_id	CSA4
Number of Residues	3
Details	Annotated By Reference To The Literature 1dnp

Chain	Residue	Details
E	TRP356
E	TRP432
E	TRP409

site_id	CSA5
Number of Residues	3
Details	Annotated By Reference To The Literature 1dnp

Chain	Residue	Details
F	TRP356
F	TRP432
F	TRP409

site_id	CSA6
Number of Residues	3
Details	Annotated By Reference To The Literature 1dnp

Chain	Residue	Details
B	TRP356
B	TRP432
B	TRP409

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