0.017243
0.009955
0.000000
0.000000
0.019911
0.000000
0.000000
0.000000
0.006393
0.00000
0.00000
0.00000
Rosano, C.
Zuccotti, S.
Stefani, M.
Bucciantini, M.
Ramponi, G.
Bolognesi, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
18
90.00
90.00
120.00
57.994
57.994
156.414
H2 O4 P -1
96.987
DIHYDROGENPHOSPHATE ION
non-polymer
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
321
785
10.1016/S0022-2836(02)00713-1
12206761
Crystal Structure and Anion Binding in the Prokaryotic Hydrogenase Maturation Factor Hypf Acylphosphatase-Like Domain
2002
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
SINGLE WAVELENGTH
M
x-ray
1
1.000
1.0
5.2R
ELETTRA
1.000
SYNCHROTRON
ELETTRA BEAMLINE 5.2R
10404.901
HYDROGENASE MATURATION PROTEIN HYPF
ACYLPHOSPHATASE-LIKE DOMAIN, RESIDUES 1-91
1
syn
polymer
96.987
DIHYDROGENPHOSPHATE ION
1
syn
non-polymer
18.015
water
109
nat
water
no
no
MAKNTSCGVQLRIRGKVQGVGFRPFVWQLAQQLNLHGDVCNDGDGVEVRLREDPEVFLVQLYQHCPPLARIDSVEREPFI
WSALPTEFTIR
MAKNTSCGVQLRIRGKVQGVGFRPFVWQLAQQLNLHGDVCNDGDGVEVRLREDPEVFLVQLYQHCPPLARIDSVEREPFI
WSALPTEFTIR
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
1
2.51
50.9
8.50
pH 8.50
repository
Initial release
Version format compliance
Version format compliance
1
0
2002-09-12
1
1
2011-05-08
1
2
2011-07-13
HYDROGENASE MATURATION PROTEIN HYPF "ACYLPHOSPHATASE-LIKE" N-TERMINAL DOMAIN (HYPF-ACP) IN COMPLEX WITH SULFATE
PDBE
Y
PDBE
2002-04-11
REL
2HP
DIHYDROGENPHOSPHATE ION
HOH
water
562
ESCHERICHIA COLI
sample
2HP
1092
2
2HP
2HP
1092
A
HOH
2001
3
HOH
HOH
2001
A
HOH
2002
3
HOH
HOH
2002
A
HOH
2003
3
HOH
HOH
2003
A
HOH
2004
3
HOH
HOH
2004
A
HOH
2005
3
HOH
HOH
2005
A
HOH
2006
3
HOH
HOH
2006
A
HOH
2007
3
HOH
HOH
2007
A
HOH
2008
3
HOH
HOH
2008
A
HOH
2009
3
HOH
HOH
2009
A
HOH
2010
3
HOH
HOH
2010
A
HOH
2011
3
HOH
HOH
2011
A
HOH
2012
3
HOH
HOH
2012
A
HOH
2013
3
HOH
HOH
2013
A
HOH
2014
3
HOH
HOH
2014
A
HOH
2015
3
HOH
HOH
2015
A
HOH
2016
3
HOH
HOH
2016
A
HOH
2017
3
HOH
HOH
2017
A
HOH
2018
3
HOH
HOH
2018
A
HOH
2019
3
HOH
HOH
2019
A
HOH
2020
3
HOH
HOH
2020
A
HOH
2021
3
HOH
HOH
2021
A
HOH
2022
3
HOH
HOH
2022
A
HOH
2023
3
HOH
HOH
2023
A
HOH
2024
3
HOH
HOH
2024
A
HOH
2025
3
HOH
HOH
2025
A
HOH
2026
3
HOH
HOH
2026
A
HOH
2027
3
HOH
HOH
2027
A
HOH
2028
3
HOH
HOH
2028
A
HOH
2029
3
HOH
HOH
2029
A
HOH
2030
3
HOH
HOH
2030
A
HOH
2031
3
HOH
HOH
2031
A
HOH
2032
3
HOH
HOH
2032
A
HOH
2033
3
HOH
HOH
2033
A
HOH
2034
3
HOH
HOH
2034
A
HOH
2035
3
HOH
HOH
2035
A
HOH
2036
3
HOH
HOH
2036
A
HOH
2037
3
HOH
HOH
2037
A
HOH
2038
3
HOH
HOH
2038
A
HOH
2039
3
HOH
HOH
2039
A
HOH
2040
3
HOH
HOH
2040
A
HOH
2041
3
HOH
HOH
2041
A
HOH
2042
3
HOH
HOH
2042
A
HOH
2043
3
HOH
HOH
2043
A
HOH
2044
3
HOH
HOH
2044
A
HOH
2045
3
HOH
HOH
2045
A
HOH
2046
3
HOH
HOH
2046
A
HOH
2047
3
HOH
HOH
2047
A
HOH
2048
3
HOH
HOH
2048
A
HOH
2049
3
HOH
HOH
2049
A
HOH
2050
3
HOH
HOH
2050
A
HOH
2051
3
HOH
HOH
2051
A
HOH
2052
3
HOH
HOH
2052
A
HOH
2053
3
HOH
HOH
2053
A
HOH
2054
3
HOH
HOH
2054
A
HOH
2055
3
HOH
HOH
2055
A
HOH
2056
3
HOH
HOH
2056
A
HOH
2057
3
HOH
HOH
2057
A
HOH
2058
3
HOH
HOH
2058
A
HOH
2059
3
HOH
HOH
2059
A
HOH
2060
3
HOH
HOH
2060
A
HOH
2061
3
HOH
HOH
2061
A
HOH
2062
3
HOH
HOH
2062
A
HOH
2063
3
HOH
HOH
2063
A
HOH
2064
3
HOH
HOH
2064
A
HOH
2065
3
HOH
HOH
2065
A
HOH
2066
3
HOH
HOH
2066
A
HOH
2067
3
HOH
HOH
2067
A
HOH
2068
3
HOH
HOH
2068
A
HOH
2069
3
HOH
HOH
2069
A
HOH
2070
3
HOH
HOH
2070
A
HOH
2071
3
HOH
HOH
2071
A
HOH
2072
3
HOH
HOH
2072
A
HOH
2073
3
HOH
HOH
2073
A
HOH
2074
3
HOH
HOH
2074
A
HOH
2075
3
HOH
HOH
2075
A
HOH
2076
3
HOH
HOH
2076
A
HOH
2077
3
HOH
HOH
2077
A
HOH
2078
3
HOH
HOH
2078
A
HOH
2079
3
HOH
HOH
2079
A
HOH
2080
3
HOH
HOH
2080
A
HOH
2081
3
HOH
HOH
2081
A
HOH
2082
3
HOH
HOH
2082
A
HOH
2083
3
HOH
HOH
2083
A
HOH
2084
3
HOH
HOH
2084
A
HOH
2085
3
HOH
HOH
2085
A
HOH
2086
3
HOH
HOH
2086
A
HOH
2087
3
HOH
HOH
2087
A
HOH
2088
3
HOH
HOH
2088
A
HOH
2089
3
HOH
HOH
2089
A
HOH
2090
3
HOH
HOH
2090
A
HOH
2091
3
HOH
HOH
2091
A
HOH
2092
3
HOH
HOH
2092
A
HOH
2093
3
HOH
HOH
2093
A
HOH
2094
3
HOH
HOH
2094
A
HOH
2095
3
HOH
HOH
2095
A
HOH
2096
3
HOH
HOH
2096
A
HOH
2097
3
HOH
HOH
2097
A
HOH
2098
3
HOH
HOH
2098
A
HOH
2099
3
HOH
HOH
2099
A
HOH
2100
3
HOH
HOH
2100
A
HOH
2101
3
HOH
HOH
2101
A
HOH
2102
3
HOH
HOH
2102
A
HOH
2103
3
HOH
HOH
2103
A
HOH
2104
3
HOH
HOH
2104
A
HOH
2105
3
HOH
HOH
2105
A
HOH
2106
3
HOH
HOH
2106
A
HOH
2107
3
HOH
HOH
2107
A
HOH
2108
3
HOH
HOH
2108
A
HOH
2109
3
HOH
HOH
2109
A
n
1
1
A
n
2
2
A
n
3
3
A
ASN
4
n
4
ASN
4
A
THR
5
n
5
THR
5
A
SER
6
n
6
SER
6
A
CYS
7
n
7
CYS
7
A
GLY
8
n
8
GLY
8
A
VAL
9
n
9
VAL
9
A
GLN
10
n
10
GLN
10
A
LEU
11
n
11
LEU
11
A
ARG
12
n
12
ARG
12
A
ILE
13
n
13
ILE
13
A
ARG
14
n
14
ARG
14
A
GLY
15
n
15
GLY
15
A
LYS
16
n
16
LYS
16
A
VAL
17
n
17
VAL
17
A
GLN
18
n
18
GLN
18
A
GLY
19
n
19
GLY
19
A
VAL
20
n
20
VAL
20
A
GLY
21
n
21
GLY
21
A
PHE
22
n
22
PHE
22
A
ARG
23
n
23
ARG
23
A
PRO
24
n
24
PRO
24
A
PHE
25
n
25
PHE
25
A
VAL
26
n
26
VAL
26
A
TRP
27
n
27
TRP
27
A
GLN
28
n
28
GLN
28
A
LEU
29
n
29
LEU
29
A
ALA
30
n
30
ALA
30
A
GLN
31
n
31
GLN
31
A
GLN
32
n
32
GLN
32
A
LEU
33
n
33
LEU
33
A
ASN
34
n
34
ASN
34
A
LEU
35
n
35
LEU
35
A
HIS
36
n
36
HIS
36
A
GLY
37
n
37
GLY
37
A
ASP
38
n
38
ASP
38
A
VAL
39
n
39
VAL
39
A
CYS
40
n
40
CYS
40
A
ASN
41
n
41
ASN
41
A
ASP
42
n
42
ASP
42
A
GLY
43
n
43
GLY
43
A
ASP
44
n
44
ASP
44
A
GLY
45
n
45
GLY
45
A
VAL
46
n
46
VAL
46
A
GLU
47
n
47
GLU
47
A
VAL
48
n
48
VAL
48
A
ARG
49
n
49
ARG
49
A
LEU
50
n
50
LEU
50
A
ARG
51
n
51
ARG
51
A
GLU
52
n
52
GLU
52
A
ASP
53
n
53
ASP
53
A
PRO
54
n
54
PRO
54
A
GLU
55
n
55
GLU
55
A
VAL
56
n
56
VAL
56
A
PHE
57
n
57
PHE
57
A
LEU
58
n
58
LEU
58
A
VAL
59
n
59
VAL
59
A
GLN
60
n
60
GLN
60
A
LEU
61
n
61
LEU
61
A
TYR
62
n
62
TYR
62
A
GLN
63
n
63
GLN
63
A
HIS
64
n
64
HIS
64
A
CYS
65
n
65
CYS
65
A
PRO
66
n
66
PRO
66
A
PRO
67
n
67
PRO
67
A
LEU
68
n
68
LEU
68
A
ALA
69
n
69
ALA
69
A
ARG
70
n
70
ARG
70
A
ILE
71
n
71
ILE
71
A
ASP
72
n
72
ASP
72
A
SER
73
n
73
SER
73
A
VAL
74
n
74
VAL
74
A
GLU
75
n
75
GLU
75
A
ARG
76
n
76
ARG
76
A
GLU
77
n
77
GLU
77
A
PRO
78
n
78
PRO
78
A
PHE
79
n
79
PHE
79
A
ILE
80
n
80
ILE
80
A
TRP
81
n
81
TRP
81
A
SER
82
n
82
SER
82
A
ALA
83
n
83
ALA
83
A
LEU
84
n
84
LEU
84
A
PRO
85
n
85
PRO
85
A
THR
86
n
86
THR
86
A
GLU
87
n
87
GLU
87
A
PHE
88
n
88
PHE
88
A
THR
89
n
89
THR
89
A
ILE
90
n
90
ILE
90
A
ARG
91
n
91
ARG
91
A
author_and_software_defined_assembly
PQS
6
hexameric
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
-0.5000000000
-0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_555
-y,x-y,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
-0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_555
-x+y,-x,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
0.8660254038
0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
4_556
y,x,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
156.4140000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
5_556
x-y,-y,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
156.4140000000
-0.5000000000
-0.8660254038
0.0000000000
-0.8660254038
0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
6_556
-x,-x+y,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
156.4140000000
A
N
TRP
81
A
N
TRP
81
A
O
SER
6
A
O
SER
6
A
N
ILE
13
A
N
ILE
13
A
O
VAL
46
A
O
VAL
46
A
N
ARG
49
A
N
ARG
49
A
O
ASP
38
A
O
ASP
38
A
N
VAL
39
A
N
VAL
39
A
O
THR
89
A
O
THR
89
1
A
OG
SER
6
A
OG
SER
6
0
Y
1
A
CD
GLN
10
A
CD
GLN
10
0
Y
1
A
OE1
GLN
10
A
OE1
GLN
10
0
Y
1
A
NE2
GLN
10
A
NE2
GLN
10
0
Y
1
A
OE1
GLN
32
A
OE1
GLN
32
0
Y
1
A
MET
1
A
MET
1
1
Y
1
A
ALA
2
A
ALA
2
1
Y
1
A
LYS
3
A
LYS
3
1
Y
1
A
A
O
O
HOH
HOH
2031
2078
1.33
1
A
A
N
O
ASN
HOH
4
2002
1.64
1
A
A
O
O
HOH
HOH
2031
2032
1.90
1
A
A
O
O
CYS
HOH
7
2005
1.94
A
1
A
A
OE1
O
GLN
HOH
32
2038
1.94
1
A
A
OG
CD2
SER
LEU
6
84
2.06
1
A
A
NZ
O
LYS
HOH
16
2016
2.10
B
1
A
A
NZ
O
LYS
HOH
16
2017
2.12
A
1
A
A
OE1
O
GLU
HOH
75
2087
2.17
1
A
A
OE1
O
GLN
HOH
28
2034
2.17
1
A
CYS
7
-11.85
B
1
8.21
1.10
114.20
122.41
A
A
A
CA
CB
SG
CYS
CYS
CYS
7
7
7
B
B
B
N
1
14.70
1.10
114.20
128.90
A
A
A
CA
CB
SG
CYS
CYS
CYS
40
40
40
B
N
1
-13.87
2.30
110.00
96.13
A
A
A
OG1
CB
CG2
THR
THR
THR
89
89
89
B
B
N
1
A
A
CB
SG
CYS
CYS
65
65
-0.103
0.016
1.812
1.709
N
17.3
0.62
0.00
0.31
0.62
0.00
-0.93
IN THE ACTIVE SITE, WE ARE ABLE TO SEE ONLY THE PHOSPHATE MOIETY OF CARBAMOYLPHOSPHATE
0.161
0.131
0.133
1.27
10
1352
25674
5.0
99.9
0.595
0.029
RANDOM
1
OTHER
0.038
1.27
10
109
824
5
0
710
1.270
30.000
1GXU
27134
3.000
0.02700
1
35.7000
10.800
99.9
refinement
REFMAC
data reduction
DENZO
data scaling
SCALEPACK
phasing
CCP4
HYDROGENASE MATURATION PROTEIN HYPF
Hydrogenase Maturation Protein HypF "acylphosphatase-like" N-terminal domain (HypF-ACP) in complex with a substrate. Crystal grown in the presence of carbamoylphosphate
1
N
N
2
N
N
3
N
N
A
GLY
21
A
GLY
21
HELX_P
A
ASN
34
A
ASN
34
1
1
14
A
PRO
54
A
PRO
54
HELX_P
A
HIS
64
A
HIS
64
1
2
11
disulf
2.489
A
A
A
CYS
7
A
SG
CYS
7
1_555
A
CYS
7
A
SG
CYS
7
5_556
PHOSPHATASE
PHOSPHATASE, ACYLPHOSPHATASES, HYDROGENASE MATURATIONS, FIBRIL FORMATION, ZINC-FINGER
HYPF_ECOLI
UNP
1
P30131
1
91
1GXU
1
91
P30131
A
1
1
91
1
GLN
conflict
ALA
83
1GXU
A
P30131
UNP
83
83
5
anti-parallel
anti-parallel
anti-parallel
parallel
A
ARG
70
A
ARG
70
A
TRP
81
A
TRP
81
A
SER
6
A
SER
6
A
LYS
16
A
LYS
16
A
VAL
46
A
VAL
46
A
LEU
50
A
LEU
50
A
GLY
37
A
GLY
37
A
ASN
41
A
ASN
41
A
PHE
88
A
PHE
88
A
ILE
90
A
ILE
90
BINDING SITE FOR RESIDUE 2HP A1092
Software
10
A
GLN
18
A
GLN
18
10
1_555
A
GLY
19
A
GLY
19
10
1_555
A
VAL
20
A
VAL
20
10
1_555
A
GLY
21
A
GLY
21
10
1_555
A
PHE
22
A
PHE
22
10
1_555
A
ARG
23
A
ARG
23
10
1_555
A
PRO
24
A
PRO
24
10
1_555
A
HOH
2019
C
HOH
10
1_555
A
HOH
2108
C
HOH
10
1_555
A
HOH
2109
C
HOH
10
1_555
155
H 3 2