Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

4P9D

Crystal structure of dCMP deaminase from the cyanophage S-TIM5 in complex with dTMP and dTTP.

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0003824	molecular_function	catalytic activity
A	0004132	molecular_function	dCMP deaminase activity
A	0006220	biological_process	pyrimidine nucleotide metabolic process
A	0008270	molecular_function	zinc ion binding
A	0016787	molecular_function	hydrolase activity
A	0046872	molecular_function	metal ion binding
B	0000166	molecular_function	nucleotide binding
B	0003824	molecular_function	catalytic activity
B	0004132	molecular_function	dCMP deaminase activity
B	0006220	biological_process	pyrimidine nucleotide metabolic process
B	0008270	molecular_function	zinc ion binding
B	0016787	molecular_function	hydrolase activity
B	0046872	molecular_function	metal ion binding
C	0000166	molecular_function	nucleotide binding
C	0003824	molecular_function	catalytic activity
C	0004132	molecular_function	dCMP deaminase activity
C	0006220	biological_process	pyrimidine nucleotide metabolic process
C	0008270	molecular_function	zinc ion binding
C	0016787	molecular_function	hydrolase activity
C	0046872	molecular_function	metal ion binding
D	0000166	molecular_function	nucleotide binding
D	0003824	molecular_function	catalytic activity
D	0004132	molecular_function	dCMP deaminase activity
D	0006220	biological_process	pyrimidine nucleotide metabolic process
D	0008270	molecular_function	zinc ion binding
D	0016787	molecular_function	hydrolase activity
D	0046872	molecular_function	metal ion binding
E	0000166	molecular_function	nucleotide binding
E	0003824	molecular_function	catalytic activity
E	0004132	molecular_function	dCMP deaminase activity
E	0006220	biological_process	pyrimidine nucleotide metabolic process
E	0008270	molecular_function	zinc ion binding
E	0016787	molecular_function	hydrolase activity
E	0046872	molecular_function	metal ion binding
F	0000166	molecular_function	nucleotide binding
F	0003824	molecular_function	catalytic activity
F	0004132	molecular_function	dCMP deaminase activity
F	0006220	biological_process	pyrimidine nucleotide metabolic process
F	0008270	molecular_function	zinc ion binding
F	0016787	molecular_function	hydrolase activity
F	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	5
Details	binding site for residue ZN A 201

Chain	Residue
A	HIS67
A	CYS95
A	CYS98
A	TMP204
A	HOH304

site_id	AC2
Number of Residues	4
Details	binding site for residue MG A 202

Chain	Residue
A	ASN52
A	TTP203
A	HOH301
A	HOH305

site_id	AC3
Number of Residues	15
Details	binding site for residue TTP A 203

Chain	Residue
A	HIS40
A	GLY41
A	TRP42
A	GLY44
A	THR45
A	SER47
A	GLY48
A	ASN52
A	ASN71
A	LYS75
A	MG202
A	HOH301
B	LYS2
B	GLY35
D	GLN104

site_id	AC4
Number of Residues	14
Details	binding site for residue TMP A 204

Chain	Residue
A	CYS22
A	ARG24
A	MET25
A	VAL27
A	ASN43
A	THR61
A	HIS67
A	ALA68
A	GLU69
A	CYS95
A	TYR116
A	ZN201
A	HOH303
A	HOH304

site_id	AC5
Number of Residues	6
Details	binding site for residue CL A 205

Chain	Residue
A	MET76
A	SER79
A	GLU81
D	MET76
D	SER79
D	GLU81

site_id	AC6
Number of Residues	5
Details	binding site for residue ZN B 201

Chain	Residue
B	HIS67
B	CYS95
B	CYS98
B	TMP203
B	HOH305

site_id	AC7
Number of Residues	4
Details	binding site for residue MG B 202

Chain	Residue
B	PRO46
B	ASN52
B	TTP204
B	HOH306

site_id	AC8
Number of Residues	15
Details	binding site for residue TMP B 203

Chain	Residue
B	CYS22
B	ARG24
B	VAL27
B	ASN43
B	THR61
B	VAL65
B	HIS67
B	ALA68
B	GLU69
B	CYS95
B	TYR116
B	ARG117
B	ZN201
B	HOH303
B	HOH305

site_id	AC9
Number of Residues	14
Details	binding site for residue TTP B 204

Chain	Residue
A	LYS2
A	GLY35
B	HIS40
B	GLY41
B	TRP42
B	GLY44
B	THR45
B	SER47
B	GLY48
B	ASN52
B	ASN71
B	LYS75
B	MG202
C	GLN104

site_id	AD1
Number of Residues	6
Details	binding site for residue CL B 205

Chain	Residue
B	MET76
B	SER79
B	GLU81
C	MET76
C	SER79
C	GLU81

site_id	AD2
Number of Residues	5
Details	binding site for residue ZN C 201

Chain	Residue
C	HIS67
C	CYS95
C	CYS98
C	TMP204
C	HOH307

site_id	AD3
Number of Residues	2
Details	binding site for residue MG C 202

Chain	Residue
C	ASN52
C	TTP203

site_id	AD4
Number of Residues	11
Details	binding site for residue TTP C 203

Chain	Residue
C	GLY44
C	THR45
C	SER47
C	GLY48
C	ASN52
C	ASN71
C	MG202
B	GLN104
C	HIS40
C	GLY41
C	TRP42

site_id	AD5
Number of Residues	13
Details	binding site for residue TMP C 204

Chain	Residue
C	ARG24
C	VAL27
C	ASN43
C	THR61
C	HIS67
C	ALA68
C	GLU69
C	SER93
C	CYS95
C	TYR116
C	ZN201
C	HOH304
C	HOH307

site_id	AD6
Number of Residues	5
Details	binding site for residue ZN D 201

Chain	Residue
D	HIS67
D	CYS95
D	CYS98
D	TMP204
D	HOH304

site_id	AD7
Number of Residues	3
Details	binding site for residue MG D 202

Chain	Residue
D	ASN52
D	TTP203
D	HOH305

site_id	AD8
Number of Residues	12
Details	binding site for residue TTP D 203

Chain	Residue
D	HIS40
D	GLY41
D	TRP42
D	GLY44
D	THR45
D	SER47
D	GLY48
D	ASN52
D	ASN71
D	MG202
D	HOH305
E	LYS2

site_id	AD9
Number of Residues	14
Details	binding site for residue TMP D 204

Chain	Residue
D	CYS22
D	ARG24
D	MET25
D	VAL27
D	ASN43
D	THR61
D	HIS67
D	ALA68
D	GLU69
D	CYS95
D	TYR116
D	ZN201
D	HOH304
D	HOH306

site_id	AE1
Number of Residues	4
Details	binding site for residue ZN E 201

Chain	Residue
E	HIS67
E	CYS95
E	CYS98
E	HOH303

site_id	AE2
Number of Residues	4
Details	binding site for residue MG E 202

Chain	Residue
E	PRO46
E	ASN52
E	TTP203
E	HOH302

site_id	AE3
Number of Residues	12
Details	binding site for residue TTP E 203

Chain	Residue
D	LYS2
E	HIS40
E	GLY41
E	TRP42
E	GLY44
E	THR45
E	SER47
E	GLY48
E	ASN52
E	ASN71
E	MG202
F	GLN104

site_id	AE4
Number of Residues	14
Details	binding site for residue TMP E 204

Chain	Residue
E	ARG24
E	VAL27
E	ASN43
E	THR61
E	HIS67
E	ALA68
E	GLU69
E	SER93
E	PRO94
E	CYS95
E	TYR116
E	HOH303
E	HOH304
E	HOH305

site_id	AE5
Number of Residues	6
Details	binding site for residue CL E 205

Chain	Residue
E	MET76
E	SER79
E	GLU81
F	MET76
F	SER79
F	GLU81

site_id	AE6
Number of Residues	5
Details	binding site for residue ZN F 201

Chain	Residue
F	HIS67
F	CYS95
F	CYS98
F	TMP204
F	HOH306

site_id	AE7
Number of Residues	3
Details	binding site for residue MG F 202

Chain	Residue
F	ASN52
F	TTP203
F	HOH301

site_id	AE8
Number of Residues	14
Details	binding site for residue TTP F 203

Chain	Residue
C	LYS2
D	MET1
E	GLN104
F	HIS40
F	GLY41
F	TRP42
F	GLY44
F	THR45
F	SER47
F	GLY48
F	ASN52
F	ASN71
F	MG202
F	HOH301

site_id	AE9
Number of Residues	13
Details	binding site for residue TMP F 204

Chain	Residue
F	CYS22
F	ARG24
F	VAL27
F	ASN43
F	THR61
F	HIS67
F	ALA68
F	GLU69
F	CYS95
F	TYR116
F	ZN201
F	HOH304
F	HOH306

Functional Information from PROSITE/UniProt

site_id	PS00903
Number of Residues	36
Details	CYT_DCMP_DEAMINASES_1 Cytidine and deoxycytidylate deaminases zinc-binding region signature. HAEqnALvkmakssesidgselfcths.............PCpd......CskmI

Chain	Residue	Details
A	HIS67-ILE102

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