Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6VWP

Crystal structure of E. coli guanosine kinase in complex with ppGpp

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0006166	biological_process	purine ribonucleoside salvage
A	0008906	molecular_function	inosine kinase activity
A	0016301	molecular_function	kinase activity
A	0016310	biological_process	phosphorylation
A	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
A	0032263	biological_process	GMP salvage
A	0032264	biological_process	IMP salvage
A	0097216	molecular_function	guanosine tetraphosphate binding
A	0106366	molecular_function	guanosine kinase activity
B	0005515	molecular_function	protein binding
B	0005524	molecular_function	ATP binding
B	0006166	biological_process	purine ribonucleoside salvage
B	0008906	molecular_function	inosine kinase activity
B	0016301	molecular_function	kinase activity
B	0016310	biological_process	phosphorylation
B	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
B	0032263	biological_process	GMP salvage
B	0032264	biological_process	IMP salvage
B	0097216	molecular_function	guanosine tetraphosphate binding
B	0106366	molecular_function	guanosine kinase activity
C	0005515	molecular_function	protein binding
C	0005524	molecular_function	ATP binding
C	0006166	biological_process	purine ribonucleoside salvage
C	0008906	molecular_function	inosine kinase activity
C	0016301	molecular_function	kinase activity
C	0016310	biological_process	phosphorylation
C	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
C	0032263	biological_process	GMP salvage
C	0032264	biological_process	IMP salvage
C	0097216	molecular_function	guanosine tetraphosphate binding
C	0106366	molecular_function	guanosine kinase activity
D	0005515	molecular_function	protein binding
D	0005524	molecular_function	ATP binding
D	0006166	biological_process	purine ribonucleoside salvage
D	0008906	molecular_function	inosine kinase activity
D	0016301	molecular_function	kinase activity
D	0016310	biological_process	phosphorylation
D	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
D	0032263	biological_process	GMP salvage
D	0032264	biological_process	IMP salvage
D	0097216	molecular_function	guanosine tetraphosphate binding
D	0106366	molecular_function	guanosine kinase activity
E	0005515	molecular_function	protein binding
E	0005524	molecular_function	ATP binding
E	0006166	biological_process	purine ribonucleoside salvage
E	0008906	molecular_function	inosine kinase activity
E	0016301	molecular_function	kinase activity
E	0016310	biological_process	phosphorylation
E	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
E	0032263	biological_process	GMP salvage
E	0032264	biological_process	IMP salvage
E	0097216	molecular_function	guanosine tetraphosphate binding
E	0106366	molecular_function	guanosine kinase activity
F	0005515	molecular_function	protein binding
F	0005524	molecular_function	ATP binding
F	0006166	biological_process	purine ribonucleoside salvage
F	0008906	molecular_function	inosine kinase activity
F	0016301	molecular_function	kinase activity
F	0016310	biological_process	phosphorylation
F	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
F	0032263	biological_process	GMP salvage
F	0032264	biological_process	IMP salvage
F	0097216	molecular_function	guanosine tetraphosphate binding
F	0106366	molecular_function	guanosine kinase activity
G	0005515	molecular_function	protein binding
G	0005524	molecular_function	ATP binding
G	0006166	biological_process	purine ribonucleoside salvage
G	0008906	molecular_function	inosine kinase activity
G	0016301	molecular_function	kinase activity
G	0016310	biological_process	phosphorylation
G	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
G	0032263	biological_process	GMP salvage
G	0032264	biological_process	IMP salvage
G	0097216	molecular_function	guanosine tetraphosphate binding
G	0106366	molecular_function	guanosine kinase activity
H	0005515	molecular_function	protein binding
H	0005524	molecular_function	ATP binding
H	0006166	biological_process	purine ribonucleoside salvage
H	0008906	molecular_function	inosine kinase activity
H	0016301	molecular_function	kinase activity
H	0016310	biological_process	phosphorylation
H	0016772	molecular_function	transferase activity, transferring phosphorus-containing groups
H	0032263	biological_process	GMP salvage
H	0032264	biological_process	IMP salvage
H	0097216	molecular_function	guanosine tetraphosphate binding
H	0106366	molecular_function	guanosine kinase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	13
Details	binding site for residue G4P A 501

Chain	Residue
A	ARG7
A	ALA395
A	GLN396
A	LYS399
B	ARG434
A	SER9
A	LYS10
A	HIS11
A	ARG302
A	PHE321
A	LYS383
A	TYR391
A	SER393

site_id	AC2
Number of Residues	15
Details	binding site for residue GMP A 502

Chain	Residue
A	ASP40
A	GLN41
A	LEU43
A	ASP45
A	SER65
A	GLY93
A	THR94
A	ASN97
A	PHE164
A	ILE166
A	TYR195
A	ARG198
A	ASN354
A	GLY355
A	ASP358

site_id	AC3
Number of Residues	6
Details	binding site for residue GMP A 503

Chain	Residue
A	LEU275
A	ASP276
A	VAL278
A	PHE295
A	HIS327
A	ARG335

site_id	AC4
Number of Residues	4
Details	binding site for residue K A 504

Chain	Residue
A	LEU244
A	LYS245
A	VAL248
A	TRP277

site_id	AC5
Number of Residues	2
Details	binding site for residue MG A 505

Chain	Residue
A	LEU227
A	GLU257

site_id	AC6
Number of Residues	14
Details	binding site for residue G4P B 501

Chain	Residue
A	ASP433
A	ARG434
B	ARG7
B	SER9
B	LYS10
B	HIS11
B	ARG302
B	PHE321
B	LYS383
B	TYR391
B	SER393
B	ALA395
B	GLN396
B	LYS399

site_id	AC7
Number of Residues	12
Details	binding site for residue GMP B 502

Chain	Residue
B	ASP40
B	GLN41
B	LEU43
B	ASP45
B	SER65
B	GLY93
B	THR94
B	ASN97
B	CYS152
B	ILE166
B	TYR195
B	ARG198

site_id	AC8
Number of Residues	7
Details	binding site for residue GMP B 503

Chain	Residue
B	LEU275
B	ASP276
B	TRP277
B	VAL278
B	HIS327
B	LYS328
B	ARG335

site_id	AC9
Number of Residues	5
Details	binding site for residue K B 504

Chain	Residue
A	LEU130
A	THR133
B	LEU130
B	CYS131
B	THR133

site_id	AD1
Number of Residues	3
Details	binding site for residue K B 505

Chain	Residue
B	LYS245
B	VAL248
B	TRP277

site_id	AD2
Number of Residues	12
Details	binding site for residue G4P C 501

Chain	Residue
C	ARG7
C	SER9
C	LYS10
C	HIS11
C	ARG302
C	PHE321
C	LYS383
C	SER393
C	ALA395
C	GLN396
D	ASP433
D	ARG434

site_id	AD3
Number of Residues	15
Details	binding site for residue GMP C 502

Chain	Residue
C	GLY93
C	THR94
C	ASN97
C	CYS152
C	PHE164
C	ILE166
C	TYR195
C	ARG198
C	ASP358
C	ASP40
C	GLN41
C	LEU43
C	ASP45
C	SER65
C	GLY92

site_id	AD4
Number of Residues	6
Details	binding site for residue GMP C 503

Chain	Residue
C	LEU275
C	ASP276
C	TRP277
C	VAL278
C	HIS327
C	ARG335

site_id	AD5
Number of Residues	6
Details	binding site for residue K C 504

Chain	Residue
C	LEU130
C	CYS131
C	THR133
D	LEU130
D	CYS131
D	THR133

site_id	AD6
Number of Residues	4
Details	binding site for residue K C 505

Chain	Residue
C	LEU244
C	LYS245
C	VAL248
C	TRP277

site_id	AD7
Number of Residues	4
Details	binding site for residue MG C 506

Chain	Residue
C	THR226
C	LEU227
C	GLU257
C	ASP358

site_id	AD8
Number of Residues	13
Details	binding site for residue G4P D 501

Chain	Residue
C	ASP433
C	ARG434
D	ARG7
D	SER9
D	LYS10
D	HIS11
D	ARG302
D	PHE321
D	LYS383
D	SER393
D	ALA395
D	GLN396
D	LYS399

site_id	AD9
Number of Residues	13
Details	binding site for residue GMP D 502

Chain	Residue
D	ASP40
D	GLN41
D	LEU43
D	ASP45
D	SER65
D	GLY93
D	THR94
D	ASN97
D	CYS152
D	PHE164
D	TYR195
D	ARG198
D	ASP358

site_id	AE1
Number of Residues	6
Details	binding site for residue GMP D 503

Chain	Residue
D	LEU275
D	ASP276
D	TRP277
D	VAL278
D	HIS327
D	ARG335

site_id	AE2
Number of Residues	3
Details	binding site for residue K D 504

Chain	Residue
D	LYS245
D	VAL248
D	TRP277

site_id	AE3
Number of Residues	4
Details	binding site for residue MG D 505

Chain	Residue
D	THR226
D	LEU227
D	GLU257
D	ASP358

site_id	AE4
Number of Residues	12
Details	binding site for residue G4P E 501

Chain	Residue
E	ARG7
E	SER9
E	LYS10
E	HIS11
E	ARG302
E	PHE321
E	LYS383
E	SER393
E	ALA395
E	GLN396
F	ASP433
F	ARG434

site_id	AE5
Number of Residues	16
Details	binding site for residue GMP E 502

Chain	Residue
E	ASP40
E	GLN41
E	LEU43
E	ASP45
E	SER65
E	GLY93
E	THR94
E	ASN97
E	CYS152
E	PHE164
E	ILE166
E	TYR195
E	ARG198
E	ASN354
E	ASP358
E	PRO414

site_id	AE6
Number of Residues	5
Details	binding site for residue GMP E 503

Chain	Residue
E	LEU275
E	ASP276
E	TRP277
E	VAL278
E	ARG335

site_id	AE7
Number of Residues	6
Details	binding site for residue K E 504

Chain	Residue
E	LEU130
E	CYS131
E	THR133
F	LEU130
F	CYS131
F	THR133

site_id	AE8
Number of Residues	4
Details	binding site for residue K E 505

Chain	Residue
E	LEU244
E	LYS245
E	VAL248
E	TRP277

site_id	AE9
Number of Residues	3
Details	binding site for residue MG E 506

Chain	Residue
E	LEU227
E	GLU257
E	ASP358

site_id	AF1
Number of Residues	12
Details	binding site for residue G4P F 501

Chain	Residue
E	ASP433
E	ARG434
F	ARG7
F	SER9
F	LYS10
F	HIS11
F	ARG302
F	PHE321
F	LYS383
F	SER393
F	ALA395
F	GLN396

site_id	AF2
Number of Residues	15
Details	binding site for residue GMP F 502

Chain	Residue
F	ASP40
F	GLN41
F	LEU43
F	ASP45
F	SER65
F	GLY92
F	GLY93
F	THR94
F	ASN97
F	CYS152
F	ARG162
F	PHE164
F	TYR195
F	ARG198
F	ASP358

site_id	AF3
Number of Residues	5
Details	binding site for residue GMP F 503

Chain	Residue
F	LEU275
F	ASP276
F	VAL278
F	ASP279
F	HIS327

site_id	AF4
Number of Residues	4
Details	binding site for residue MG F 505

Chain	Residue
F	THR226
F	LEU227
F	GLU257
F	ASP358

site_id	AF5
Number of Residues	13
Details	binding site for residue G4P G 501

Chain	Residue
G	ARG7
G	SER9
G	LYS10
G	HIS11
G	ARG302
G	PHE321
G	LYS383
G	SER393
G	ALA395
G	GLN396
G	LYS399
H	ASP433
H	ARG434

site_id	AF6
Number of Residues	15
Details	binding site for residue GMP G 502

Chain	Residue
G	ASP40
G	GLN41
G	LEU43
G	ASP45
G	SER65
G	GLY93
G	THR94
G	ASN97
G	CYS152
G	PHE164
G	ILE166
G	TYR195
G	ARG198
G	ASN354
G	ASP358

site_id	AF7
Number of Residues	6
Details	binding site for residue GMP G 503

Chain	Residue
G	LEU275
G	ASP276
G	VAL278
G	PHE295
G	HIS327
G	ARG335

site_id	AF8
Number of Residues	2
Details	binding site for residue K G 504

Chain	Residue
G	LYS245
G	VAL248

site_id	AF9
Number of Residues	4
Details	binding site for residue MG G 505

Chain	Residue
G	THR226
G	LEU227
G	GLU257
G	ASP358

site_id	AG1
Number of Residues	13
Details	binding site for residue G4P H 501

Chain	Residue
F	SER426
G	ASP433
G	ARG434
H	ARG7
H	SER9
H	LYS10
H	HIS11
H	ARG302
H	GLN305
H	PHE321
H	LYS383
H	GLN396
H	LYS399

site_id	AG2
Number of Residues	14
Details	binding site for residue GMP H 502

Chain	Residue
H	ASP40
H	GLN41
H	LEU43
H	ASP45
H	SER65
H	GLY92
H	GLY93
H	THR94
H	ASN97
H	CYS152
H	ILE166
H	TYR195
H	ARG198
H	ASP358

site_id	AG3
Number of Residues	6
Details	binding site for residue GMP H 503

Chain	Residue
H	LEU275
H	ASP276
H	VAL278
H	ASP279
H	HIS327
H	ARG335

site_id	AG4
Number of Residues	5
Details	binding site for residue K H 504

Chain	Residue
G	LEU130
G	THR133
H	LEU130
H	CYS131
H	THR133

site_id	AG5
Number of Residues	3
Details	binding site for residue K H 505

Chain	Residue
H	LYS245
H	VAL248
H	TRP277

site_id	AG6
Number of Residues	3
Details	binding site for residue MG H 506

Chain	Residue
H	THR226
H	LEU227
H	GLU257

Functional Information from PROSITE/UniProt

site_id	PS00584
Number of Residues	14
Details	PFKB_KINASES_2 pfkB family of carbohydrate kinases signature 2. NTnGAGDgalAALL

Chain	Residue	Details
A	ASN352-LEU365

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	48
Details	BINDING: BINDING => ECO:0000255\|HAMAP-Rule:MF_02246, ECO:0000305\|PubMed:32857952

Chain	Residue	Details
A	ASP40
B	THR284
B	GLY357
B	ASN402
C	ASP40
C	GLY93
C	ARG198
C	THR284
C	GLY357
C	ASN402
D	ASP40
A	GLY93
D	GLY93
D	ARG198
D	THR284
D	GLY357
D	ASN402
E	ASP40
E	GLY93
E	ARG198
E	THR284
E	GLY357
A	ARG198
E	ASN402
F	ASP40
F	GLY93
F	ARG198
F	THR284
F	GLY357
F	ASN402
G	ASP40
G	GLY93
G	ARG198
A	THR284
G	THR284
G	GLY357
G	ASN402
H	ASP40
H	GLY93
H	ARG198
H	THR284
H	GLY357
H	ASN402
A	GLY357
A	ASN402
B	ASP40
B	GLY93
B	ARG198

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