Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

2XCE

Structure of YncF in complex with dUpNHpp

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000287	molecular_function	magnesium ion binding
A	0004170	molecular_function	dUTP diphosphatase activity
A	0006226	biological_process	dUMP biosynthetic process
A	0009117	biological_process	nucleotide metabolic process
A	0016787	molecular_function	hydrolase activity
A	0046081	biological_process	dUTP catabolic process
A	0046872	molecular_function	metal ion binding
B	0000287	molecular_function	magnesium ion binding
B	0004170	molecular_function	dUTP diphosphatase activity
B	0006226	biological_process	dUMP biosynthetic process
B	0009117	biological_process	nucleotide metabolic process
B	0016787	molecular_function	hydrolase activity
B	0046081	biological_process	dUTP catabolic process
B	0046872	molecular_function	metal ion binding
C	0000287	molecular_function	magnesium ion binding
C	0004170	molecular_function	dUTP diphosphatase activity
C	0006226	biological_process	dUMP biosynthetic process
C	0009117	biological_process	nucleotide metabolic process
C	0016787	molecular_function	hydrolase activity
C	0046081	biological_process	dUTP catabolic process
C	0046872	molecular_function	metal ion binding
D	0000287	molecular_function	magnesium ion binding
D	0004170	molecular_function	dUTP diphosphatase activity
D	0006226	biological_process	dUMP biosynthetic process
D	0009117	biological_process	nucleotide metabolic process
D	0016787	molecular_function	hydrolase activity
D	0046081	biological_process	dUTP catabolic process
D	0046872	molecular_function	metal ion binding
E	0000287	molecular_function	magnesium ion binding
E	0004170	molecular_function	dUTP diphosphatase activity
E	0006226	biological_process	dUMP biosynthetic process
E	0009117	biological_process	nucleotide metabolic process
E	0016787	molecular_function	hydrolase activity
E	0046081	biological_process	dUTP catabolic process
E	0046872	molecular_function	metal ion binding
F	0000287	molecular_function	magnesium ion binding
F	0004170	molecular_function	dUTP diphosphatase activity
F	0006226	biological_process	dUMP biosynthetic process
F	0009117	biological_process	nucleotide metabolic process
F	0016787	molecular_function	hydrolase activity
F	0046081	biological_process	dUTP catabolic process
F	0046872	molecular_function	metal ion binding

Functional Information from PDB Data

site_id	AC1
Number of Residues	25
Details	BINDING SITE FOR RESIDUE DUP A 1131

Chain	Residue
A	ASN76
A	HOH2080
A	HOH2122
A	HOH2123
A	HOH2125
A	HOH2126
A	HOH2127
A	HOH2128
A	HOH2129
A	HOH2135
C	SER64
A	GLY79
C	HOH2035
C	HOH2070
C	HOH2071
D	ASP33
D	LYS105
D	HOH2106
A	ILE81
A	TYR85
A	TRP92
A	PHE93
A	PRO95
A	CA1134
A	GOL1135

site_id	AC2
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CA A 1132

Chain	Residue
A	GLN112
A	GOL1133
A	HOH2035
A	HOH2036
A	HOH2130
B	DUP1131

site_id	AC3
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL A 1133

Chain	Residue
A	TRP25
A	GLN112
A	CA1132
A	HOH2130
A	HOH2131
A	HOH2132
B	VAL80
B	DUP1131
B	HOH2072

site_id	AC4
Number of Residues	23
Details	BINDING SITE FOR RESIDUE DUP B 1131

Chain	Residue
A	SER64
A	CA1132
A	GOL1133
A	HOH2036
A	HOH2068
A	HOH2132
B	ASN76
B	GLY79
B	ILE81
B	TYR85
B	TRP92
B	PHE93
B	PRO95
B	HOH2072
B	HOH2116
B	HOH2117
B	HOH2118
B	HOH2119
B	HOH2120
B	HOH2121
E	LYS105
E	HOH2042
E	HOH2098

site_id	AC5
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CA B 1132

Chain	Residue
B	HOH2029
B	HOH2030
C	DUP1131
C	HOH2124

site_id	AC6
Number of Residues	24
Details	BINDING SITE FOR RESIDUE DUP C 1131

Chain	Residue
B	ARG63
B	SER64
B	SER65
B	GLN112
B	CA1132
B	HOH2030
C	ASN76
C	GLY79
C	VAL80
C	ILE81
C	TYR85
C	TRP92
C	PHE93
C	PRO95
C	HOH2087
C	HOH2123
C	HOH2125
C	HOH2126
C	HOH2127
C	HOH2128
C	HOH2129
C	HOH2130
F	GLU103
F	HOH2112

site_id	AC7
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CA A 1134

Chain	Residue
A	DUP1131
A	GOL1135
A	HOH2133
C	GLN112
C	HOH2034
C	HOH2035

site_id	AC8
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL A 1135

Chain	Residue
A	CA1134
A	HOH2133
A	HOH2134
A	HOH2135
C	TRP25
C	GLN112
A	VAL80
A	DUP1131

site_id	AC9
Number of Residues	28
Details	BINDING SITE FOR RESIDUE DUP D 1131

Chain	Residue
B	ASP33
B	GLU103
B	LYS105
D	ASN76
D	GLY79
D	ILE81
D	TYR85
D	TRP92
D	PHE93
D	PRO95
D	CA1133
D	GOL1134
D	HOH2126
D	HOH2127
D	HOH2128
D	HOH2129
D	HOH2130
D	HOH2131
D	HOH2132
D	HOH2133
D	HOH2134
D	HOH2135
D	HOH2136
D	HOH2138
F	SER64
F	HOH2032
F	HOH2071
F	HOH2072

site_id	BC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CA D 1146

Chain	Residue
D	HOH2033
D	HOH2034
E	DUP1131
E	HOH2119

site_id	BC2
Number of Residues	9
Details	BINDING SITE FOR RESIDUE GOL D 1132

Chain	Residue
C	ASN69
C	ASP108
C	ARG109
C	HOH2074
C	HOH2081
D	GLY107
D	ASP108
D	ARG109
D	HOH2137

site_id	BC3
Number of Residues	22
Details	BINDING SITE FOR RESIDUE DUP E 1131

Chain	Residue
C	HOH2106
D	ARG63
D	SER64
D	SER65
D	GLN112
D	CA1146
E	ASN76
E	GLY79
E	VAL80
E	ILE81
E	TYR85
E	TRP92
E	PHE93
E	PRO95
E	HOH2079
E	HOH2118
E	HOH2120
E	HOH2121
E	HOH2122
E	HOH2123
E	HOH2124
E	HOH2125

site_id	BC4
Number of Residues	4
Details	BINDING SITE FOR RESIDUE CA E 1146

Chain	Residue
E	HOH2030
E	HOH2032
F	DUP1131
F	HOH2133

site_id	BC5
Number of Residues	3
Details	BINDING SITE FOR RESIDUE CA E 1147

Chain	Residue
D	HOH2055
E	HOH2052
F	HOH2052

site_id	BC6
Number of Residues	10
Details	BINDING SITE FOR RESIDUE GOL E 1132

Chain	Residue
A	ASN69
A	PHE70
A	ASP108
A	ARG109
A	HOH2069
A	HOH2073
E	GLY107
E	ASP108
E	ARG109
E	HOH2126

site_id	BC7
Number of Residues	21
Details	BINDING SITE FOR RESIDUE DUP F 1131

Chain	Residue
A	HOH2099
E	ARG63
E	SER64
E	SER65
E	GLN112
E	CA1146
F	ASN76
F	GLY79
F	VAL80
F	ILE81
F	TYR85
F	TRP92
F	PHE93
F	PRO95
F	HOH2089
F	HOH2132
F	HOH2135
F	HOH2136
F	HOH2137
F	HOH2138
F	HOH2139

site_id	BC8
Number of Residues	6
Details	BINDING SITE FOR RESIDUE CA D 1133

Chain	Residue
D	DUP1131
D	GOL1134
D	HOH2140
F	GLN112
F	HOH2030
F	HOH2032

site_id	BC9
Number of Residues	10
Details	BINDING SITE FOR RESIDUE GOL F 1132

Chain	Residue
B	GLY107
B	ASP108
B	ARG109
F	ASN69
F	PHE70
F	ASP108
F	ARG109
F	HOH2075
F	HOH2082
F	HOH2140

site_id	CC1
Number of Residues	8
Details	BINDING SITE FOR RESIDUE GOL D 1134

Chain	Residue
D	VAL80
D	DUP1131
D	CA1133
D	HOH2138
D	HOH2139
D	HOH2140
F	TRP25
F	GLN112

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	6
Details	ACT_SITE: Proton acceptor => ECO:0000305\|PubMed:20823546, ECO:0000305\|PubMed:23897460

Chain	Residue	Details
A	ASP82
B	ASP82
C	ASP82
D	ASP82
E	ASP82
F	ASP82

site_id	SWS_FT_FI2
Number of Residues	24
Details	BINDING: BINDING => ECO:0000305\|PubMed:20823546, ECO:0007744\|PDB:2XCE

Chain	Residue	Details
A	SER64
B	TYR85
B	PHE93
C	SER64
C	ASN76
C	TYR85
C	PHE93
D	SER64
D	ASN76
D	TYR85
D	PHE93
E	SER64
E	ASN76
E	TYR85
E	PHE93
F	SER64
F	ASN76
F	TYR85
F	PHE93
A	ASN76
A	TYR85
A	PHE93
B	SER64
B	ASN76

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