Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4XDS

Deoxyguanosinetriphosphate Triphosphohydrolase from Escherichia coli with Nickel

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000287	molecular_function	magnesium ion binding
A	0003697	molecular_function	single-stranded DNA binding
A	0003924	molecular_function	GTPase activity
A	0006203	biological_process	dGTP catabolic process
A	0008832	molecular_function	dGTPase activity
A	0015949	biological_process	nucleobase-containing small molecule interconversion
A	0016787	molecular_function	hydrolase activity
A	0016793	molecular_function	triphosphoric monoester hydrolase activity
A	0030145	molecular_function	manganese ion binding
A	0042802	molecular_function	identical protein binding
A	0043099	biological_process	pyrimidine deoxyribonucleoside salvage
A	0050897	molecular_function	cobalt ion binding
B	0000287	molecular_function	magnesium ion binding
B	0003697	molecular_function	single-stranded DNA binding
B	0003924	molecular_function	GTPase activity
B	0006203	biological_process	dGTP catabolic process
B	0008832	molecular_function	dGTPase activity
B	0015949	biological_process	nucleobase-containing small molecule interconversion
B	0016787	molecular_function	hydrolase activity
B	0016793	molecular_function	triphosphoric monoester hydrolase activity
B	0030145	molecular_function	manganese ion binding
B	0042802	molecular_function	identical protein binding
B	0043099	biological_process	pyrimidine deoxyribonucleoside salvage
B	0050897	molecular_function	cobalt ion binding
C	0000287	molecular_function	magnesium ion binding
C	0003697	molecular_function	single-stranded DNA binding
C	0003924	molecular_function	GTPase activity
C	0006203	biological_process	dGTP catabolic process
C	0008832	molecular_function	dGTPase activity
C	0015949	biological_process	nucleobase-containing small molecule interconversion
C	0016787	molecular_function	hydrolase activity
C	0016793	molecular_function	triphosphoric monoester hydrolase activity
C	0030145	molecular_function	manganese ion binding
C	0042802	molecular_function	identical protein binding
C	0043099	biological_process	pyrimidine deoxyribonucleoside salvage
C	0050897	molecular_function	cobalt ion binding
D	0000287	molecular_function	magnesium ion binding
D	0003697	molecular_function	single-stranded DNA binding
D	0003924	molecular_function	GTPase activity
D	0006203	biological_process	dGTP catabolic process
D	0008832	molecular_function	dGTPase activity
D	0015949	biological_process	nucleobase-containing small molecule interconversion
D	0016787	molecular_function	hydrolase activity
D	0016793	molecular_function	triphosphoric monoester hydrolase activity
D	0030145	molecular_function	manganese ion binding
D	0042802	molecular_function	identical protein binding
D	0043099	biological_process	pyrimidine deoxyribonucleoside salvage
D	0050897	molecular_function	cobalt ion binding
E	0000287	molecular_function	magnesium ion binding
E	0003697	molecular_function	single-stranded DNA binding
E	0003924	molecular_function	GTPase activity
E	0006203	biological_process	dGTP catabolic process
E	0008832	molecular_function	dGTPase activity
E	0015949	biological_process	nucleobase-containing small molecule interconversion
E	0016787	molecular_function	hydrolase activity
E	0016793	molecular_function	triphosphoric monoester hydrolase activity
E	0030145	molecular_function	manganese ion binding
E	0042802	molecular_function	identical protein binding
E	0043099	biological_process	pyrimidine deoxyribonucleoside salvage
E	0050897	molecular_function	cobalt ion binding
F	0000287	molecular_function	magnesium ion binding
F	0003697	molecular_function	single-stranded DNA binding
F	0003924	molecular_function	GTPase activity
F	0006203	biological_process	dGTP catabolic process
F	0008832	molecular_function	dGTPase activity
F	0015949	biological_process	nucleobase-containing small molecule interconversion
F	0016787	molecular_function	hydrolase activity
F	0016793	molecular_function	triphosphoric monoester hydrolase activity
F	0030145	molecular_function	manganese ion binding
F	0042802	molecular_function	identical protein binding
F	0043099	biological_process	pyrimidine deoxyribonucleoside salvage
F	0050897	molecular_function	cobalt ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	6
Details	binding site for residue NI A 601

Chain	Residue
A	HIS69
A	HIS117
A	ASP268
A	HOH1001
A	HOH1002
A	HOH1003

site_id	AC2
Number of Residues	4
Details	binding site for residue SO4 A 602

Chain	Residue
A	LYS232
A	ASN186
A	LYS211
A	TYR212

site_id	AC3
Number of Residues	4
Details	binding site for residue SO4 A 603

Chain	Residue
A	ARG139
A	SER156
A	ARG415
A	SER419

site_id	AC4
Number of Residues	3
Details	binding site for residue SO4 A 604

Chain	Residue
A	ARG433
A	VAL434
A	LYS435

site_id	AC5
Number of Residues	3
Details	binding site for residue SO4 A 605

Chain	Residue
A	ARG38
A	ASN200
B	ARG326

site_id	AC6
Number of Residues	4
Details	binding site for residue SO4 A 606

Chain	Residue
A	ARG15
A	HIS194
A	TYR242
A	ARG245

site_id	AC7
Number of Residues	1
Details	binding site for residue SO4 A 607

Chain	Residue
A	ARG442

site_id	AC8
Number of Residues	6
Details	binding site for residue SO4 A 608

Chain	Residue
A	LEU88
A	LYS89
A	LYS92
A	LEU93
A	LEU94
A	GLU95

site_id	AC9
Number of Residues	4
Details	binding site for residue SO4 A 609

Chain	Residue
A	ARG326
A	TYR335
B	ARG38
B	ASN200

site_id	AD1
Number of Residues	1
Details	binding site for residue SO4 A 610

Chain	Residue
A	GLN290

site_id	AD2
Number of Residues	2
Details	binding site for residue SO4 A 611

Chain	Residue
A	SER448
A	THR449

site_id	AD3
Number of Residues	6
Details	binding site for residue NI B 601

Chain	Residue
B	HIS69
B	HIS117
B	ASP268
B	HOH1001
B	HOH1002
B	HOH1003

site_id	AD4
Number of Residues	4
Details	binding site for residue SO4 B 602

Chain	Residue
B	ASN186
B	LYS211
B	TYR212
B	LYS232

site_id	AD5
Number of Residues	3
Details	binding site for residue SO4 B 603

Chain	Residue
B	ARG139
B	ARG415
B	SER419

site_id	AD6
Number of Residues	4
Details	binding site for residue SO4 B 604

Chain	Residue
B	LYS431
B	ARG433
B	VAL434
B	LYS435

site_id	AD7
Number of Residues	3
Details	binding site for residue SO4 B 605

Chain	Residue
B	ARG15
B	HIS194
B	TYR242

site_id	AD8
Number of Residues	1
Details	binding site for residue SO4 B 606

Chain	Residue
B	ARG442

site_id	AD9
Number of Residues	4
Details	binding site for residue SO4 B 607

Chain	Residue
B	LYS92
B	LEU93
B	LEU94
B	GLU95

site_id	AE1
Number of Residues	2
Details	binding site for residue SO4 B 608

Chain	Residue
B	SER448
B	THR449

site_id	AE2
Number of Residues	3
Details	binding site for residue SO4 B 609

Chain	Residue
A	GLN3
B	SER156
B	ARG161

site_id	AE3
Number of Residues	6
Details	binding site for residue NI C 601

Chain	Residue
C	HIS69
C	HIS117
C	ASP268
C	HOH1001
C	HOH1002
C	HOH1003

site_id	AE4
Number of Residues	4
Details	binding site for residue SO4 C 602

Chain	Residue
C	ASN186
C	LYS211
C	TYR212
C	LYS232

site_id	AE5
Number of Residues	4
Details	binding site for residue SO4 C 603

Chain	Residue
C	ARG139
C	SER156
C	ARG415
C	SER419

site_id	AE6
Number of Residues	3
Details	binding site for residue SO4 C 604

Chain	Residue
C	ARG433
C	VAL434
C	LYS435

site_id	AE7
Number of Residues	4
Details	binding site for residue SO4 C 605

Chain	Residue
C	ARG15
C	HIS194
C	TYR242
C	ARG245

site_id	AE8
Number of Residues	1
Details	binding site for residue SO4 C 606

Chain	Residue
C	ARG442

site_id	AE9
Number of Residues	5
Details	binding site for residue SO4 C 607

Chain	Residue
C	ARG326
C	TYR335
D	ARG17
D	ARG38
D	ASN200

site_id	AF1
Number of Residues	3
Details	binding site for residue SO4 C 608

Chain	Residue
C	HIS13
C	GLN20
C	GLY21

site_id	AF2
Number of Residues	1
Details	binding site for residue SO4 C 609

Chain	Residue
C	ARG161

site_id	AF3
Number of Residues	9
Details	binding site for residue SO4 C 610

Chain	Residue
C	LEU210
C	THR213
C	TYR235
C	ILE243
C	ARG247
C	ALA253
C	LEU254
C	TYR255
C	SER256

site_id	AF4
Number of Residues	2
Details	binding site for residue SO4 C 611

Chain	Residue
C	ASN365
C	HIS366

site_id	AF5
Number of Residues	1
Details	binding site for residue SO4 C 612

Chain	Residue
C	THR449

site_id	AF6
Number of Residues	3
Details	binding site for residue SO4 C 613

Chain	Residue
C	HIS182
C	ARG214
C	LYS231

site_id	AF7
Number of Residues	4
Details	binding site for residue SO4 C 614

Chain	Residue
C	ARG47
C	MET197
C	ARG450
C	HIS451

site_id	AF8
Number of Residues	2
Details	binding site for residue SO4 C 615

Chain	Residue
C	ARG15
C	TYR16

site_id	AF9
Number of Residues	5
Details	binding site for residue SO4 D 601

Chain	Residue
C	ARG17
C	ARG38
C	ASN200
D	ARG326
D	TYR335

site_id	AG1
Number of Residues	6
Details	binding site for residue NI D 602

Chain	Residue
D	HIS69
D	HIS117
D	ASP268
D	HOH1001
D	HOH1002
D	HOH1003

site_id	AG2
Number of Residues	4
Details	binding site for residue SO4 D 603

Chain	Residue
D	ASN186
D	LYS211
D	TYR212
D	LYS232

site_id	AG3
Number of Residues	3
Details	binding site for residue SO4 D 604

Chain	Residue
D	ARG139
D	ARG415
D	SER419

site_id	AG4
Number of Residues	3
Details	binding site for residue SO4 D 605

Chain	Residue
D	ARG433
D	VAL434
D	LYS435

site_id	AG5
Number of Residues	4
Details	binding site for residue SO4 D 606

Chain	Residue
D	ARG15
D	HIS194
D	TYR242
D	ARG245

site_id	AG6
Number of Residues	1
Details	binding site for residue SO4 D 607

Chain	Residue
D	ARG442

site_id	AG7
Number of Residues	5
Details	binding site for residue SO4 D 608

Chain	Residue
D	LYS89
D	LYS92
D	LEU93
D	LEU94
D	GLU95

site_id	AG8
Number of Residues	4
Details	binding site for residue SO4 D 609

Chain	Residue
D	ARG137
D	GLN178
D	HIS182
D	SO4612

site_id	AG9
Number of Residues	4
Details	binding site for residue SO4 D 610

Chain	Residue
D	HIS13
D	HIS13
D	GLN20
D	GLY21

site_id	AH1
Number of Residues	1
Details	binding site for residue SO4 D 611

Chain	Residue
D	ARG15

site_id	AH2
Number of Residues	4
Details	binding site for residue SO4 D 612

Chain	Residue
D	HIS182
D	ARG214
D	LYS231
D	SO4609

site_id	AH3
Number of Residues	8
Details	binding site for residue SO4 D 614

Chain	Residue
D	LEU210
D	THR213
D	TYR235
D	ILE243
D	ARG247
D	ALA253
D	TYR255
D	SER256

site_id	AH4
Number of Residues	6
Details	binding site for residue NI E 601

Chain	Residue
E	HIS69
E	HIS117
E	ASP268
E	HOH1001
E	HOH1002
E	HOH1003

site_id	AH5
Number of Residues	4
Details	binding site for residue SO4 E 602

Chain	Residue
E	ASN186
E	LYS211
E	TYR212
E	LYS232

site_id	AH6
Number of Residues	3
Details	binding site for residue SO4 E 603

Chain	Residue
E	ARG139
E	ARG415
E	SER419

site_id	AH7
Number of Residues	3
Details	binding site for residue SO4 E 604

Chain	Residue
E	ARG433
E	VAL434
E	LYS435

site_id	AH8
Number of Residues	4
Details	binding site for residue SO4 E 605

Chain	Residue
E	ARG15
E	HIS194
E	TYR242
E	ARG245

site_id	AH9
Number of Residues	1
Details	binding site for residue SO4 E 606

Chain	Residue
E	ARG442

site_id	AI1
Number of Residues	5
Details	binding site for residue SO4 E 607

Chain	Residue
E	LYS89
E	LYS92
E	LEU93
E	LEU94
E	GLU95

site_id	AI2
Number of Residues	5
Details	binding site for residue SO4 E 608

Chain	Residue
E	ARG326
E	TYR335
F	ARG17
F	ARG38
F	ASN200

site_id	AI3
Number of Residues	4
Details	binding site for residue SO4 E 609

Chain	Residue
E	PRO346
E	TYR347
E	GLN350
E	SO4610

site_id	AI4
Number of Residues	2
Details	binding site for residue SO4 E 610

Chain	Residue
E	ARG87
E	SO4609

site_id	AI5
Number of Residues	2
Details	binding site for residue SO4 E 611

Chain	Residue
E	HIS13
E	GLY21

site_id	AI6
Number of Residues	3
Details	binding site for residue SO4 E 612

Chain	Residue
E	ARG59
E	ASN60
F	TYR492

site_id	AI7
Number of Residues	1
Details	binding site for residue SO4 E 613

Chain	Residue
E	ARG499

site_id	AI8
Number of Residues	3
Details	binding site for residue SO4 E 614

Chain	Residue
E	HIS182
E	ARG214
E	LYS231

site_id	AI9
Number of Residues	3
Details	binding site for residue SO4 E 615

Chain	Residue
E	ARG137
E	GLN178
E	HIS182

site_id	AJ1
Number of Residues	9
Details	binding site for residue SO4 E 616

Chain	Residue
E	LEU210
E	THR213
E	TYR235
E	ILE243
E	ARG247
E	ALA253
E	LEU254
E	TYR255
E	SER256

site_id	AJ2
Number of Residues	5
Details	binding site for residue SO4 F 601

Chain	Residue
E	ARG17
E	ARG38
E	ASN200
F	ARG326
F	TYR335

site_id	AJ3
Number of Residues	6
Details	binding site for residue NI F 602

Chain	Residue
F	HIS69
F	HIS117
F	ASP268
F	HOH1001
F	HOH1002
F	HOH1003

site_id	AJ4
Number of Residues	4
Details	binding site for residue SO4 F 603

Chain	Residue
F	ASN186
F	LYS211
F	TYR212
F	LYS232

site_id	AJ5
Number of Residues	4
Details	binding site for residue SO4 F 604

Chain	Residue
F	ARG139
F	SER156
F	ARG415
F	SER419

site_id	AJ6
Number of Residues	4
Details	binding site for residue SO4 F 605

Chain	Residue
F	LYS431
F	ARG433
F	VAL434
F	LYS435

site_id	AJ7
Number of Residues	5
Details	binding site for residue SO4 F 606

Chain	Residue
F	ARG15
F	TYR16
F	HIS194
F	TYR242
F	ARG245

site_id	AJ8
Number of Residues	1
Details	binding site for residue SO4 F 607

Chain	Residue
F	ARG442

site_id	AJ9
Number of Residues	3
Details	binding site for residue SO4 F 608

Chain	Residue
F	LYS92
F	LEU94
F	GLU95

site_id	AK1
Number of Residues	8
Details	binding site for residue SO4 F 609

Chain	Residue
F	LEU210
F	THR213
F	TYR235
F	ILE243
F	ARG247
F	ALA253
F	TYR255
F	SER256

site_id	AK2
Number of Residues	4
Details	binding site for residue SO4 F 610

Chain	Residue
F	LYS8
F	GLY21
F	VAL22
F	ASN251

site_id	AK3
Number of Residues	3
Details	binding site for residue SO4 F 611

Chain	Residue
F	ARG137
F	GLN178
F	HIS182

site_id	AK4
Number of Residues	5
Details	binding site for residue SO4 F 612

Chain	Residue
F	ARG7
F	LYS23
F	THR24
F	GLU25
F	GLU101

site_id	AK5
Number of Residues	1
Details	binding site for residue SO4 F 613

Chain	Residue
F	LYS175

site_id	AK6
Number of Residues	3
Details	binding site for residue SO4 F 614

Chain	Residue
F	HIS13
F	GLN20
F	GLY21

site_id	AK7
Number of Residues	3
Details	binding site for residue SO4 F 615

Chain	Residue
F	ARG47
F	ARG450
F	SO4618

site_id	AK8
Number of Residues	1
Details	binding site for residue SO4 F 616

Chain	Residue
F	ARG163

site_id	AK9
Number of Residues	2
Details	binding site for residue SO4 F 617

Chain	Residue
F	SER156
F	ARG161

site_id	AL1
Number of Residues	2
Details	binding site for residue SO4 F 618

Chain	Residue
F	THR449
F	SO4615

site_id	AL2
Number of Residues	4
Details	binding site for residue SO4 F 619

Chain	Residue
F	HIS182
F	ARG214
F	LYS231
F	PRO233

site_id	AL3
Number of Residues	2
Details	binding site for residue SO4 F 620

Chain	Residue
F	ASN365
F	HIS366

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1242
Details	Domain: {"description":"HD","evidences":[{"source":"PROSITE-ProRule","id":"PRU01175","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

Catalytic Information from CSA

site_id	MCSA1
Number of Residues	5
Details	M-CSA 966

Chain	Residue	Details
A	HIS69	metal ligand
A	HIS117	metal ligand
A	ASP118	metal ligand
A	ASP268	metal ligand
A	ARG442	unknown

site_id	MCSA2
Number of Residues	5
Details	M-CSA 966

Chain	Residue	Details
B	HIS69	metal ligand
B	HIS117	metal ligand
B	ASP118	metal ligand
B	ASP268	metal ligand
B	ARG442	unknown

site_id	MCSA3
Number of Residues	5
Details	M-CSA 966

Chain	Residue	Details
C	HIS69	metal ligand
C	HIS117	metal ligand
C	ASP118	metal ligand
C	ASP268	metal ligand
C	ARG442	unknown

site_id	MCSA4
Number of Residues	5
Details	M-CSA 966

Chain	Residue	Details
D	HIS69	metal ligand
D	HIS117	metal ligand
D	ASP118	metal ligand
D	ASP268	metal ligand
D	ARG442	unknown

site_id	MCSA5
Number of Residues	5
Details	M-CSA 966

Chain	Residue	Details
E	HIS69	metal ligand
E	HIS117	metal ligand
E	ASP118	metal ligand
E	ASP268	metal ligand
E	ARG442	unknown

site_id	MCSA6
Number of Residues	5
Details	M-CSA 966

Chain	Residue	Details
F	HIS69	metal ligand
F	HIS117	metal ligand
F	ASP118	metal ligand
F	ASP268	metal ligand
F	ARG442	unknown

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