Analysis of interatomic Contacts of Structural Units in PDB entry:
2DYS


Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 2DYS entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 28 chains in PDB entry 2DYS (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
PHE 2LYS 514
B
ALA 2LEU 227
C
HIS 3SER 261
D
SER 4LYS 147
E
HIS 5VAL 109
F
ALA 1HIS 98
G
ALA 1GLY 10
G
GLY 12LYS 84
H
LYS 7ILE 85
I
THR 2LYS 73
J
PHE 1LYS 58
K
ALA 6ARG 54
L
HIS 2LYS 47
M
ILE 1SER 43
N
PHE 2LYS 514
O
ALA 2LEU 227
P
HIS 3SER 261
Q
SER 4LYS 147
R
HIS 5VAL 109
S
ALA 1HIS 98
T
ALA 1GLY 10
T
GLY 12LYS 84
U
LYS 7ILE 85
V
THR 2LYS 73
W
PHE 1LYS 58
X
ALA 6ARG 54
Y
HIS 2LYS 47
Z
ILE 1SER 43
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
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There are144 helices in PDB entry 2DYS. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
A
1 7Right-handed alpha
Helix 2
2
A
11 41Right-handed alpha
Helix 3
3
A
50 68Right-handed alpha
Helix 4
4
A
69 75Right-handed alpha
Helix 5
5
A
76 87Right-handed alpha
Helix 6
6
A
94 104Right-handed alpha
Helix 7
7
A
104 118Right-handed alpha
Helix 8
8
A
140 171Right-handed alpha
Helix 9
9
A
177 181Right-handed 310
Helix 10
10
A
182 215Right-handed alpha
Helix 11
11
A
221 225Right-handed 310
Helix 12
12
A
227 262Right-handed alpha
Helix 13
13
A
269 284Right-handed alpha
Helix 14
14
A
285 286Right-handed 310
Helix 15
15
A
287 292Right-handed 310
Helix 16
16
A
298 312Right-handed alpha
Helix 17
17
A
312 328Right-handed alpha
Helix 18
18
A
335 359Right-handed alpha
Helix 19
19
A
360 368Right-handed alpha
Helix 20
20
A
370 382Right-handed alpha
Helix 21
21
A
383 402Right-handed alpha
Helix 22
22
A
406 426Right-handed alpha
Helix 23
23
A
426 434Right-handed alpha
Helix 24
24
A
444 446Right-handed 310
Helix 25
25
A
447 479Right-handed alpha
Helix 26
26
A
487 495Right-handed 310
Helix 27
27
B
14 46Right-handed alpha
Helix 28
28
B
60 87Right-handed alpha
Helix 29
29
B
124 128Right-handed 310
Helix 30
30
B
166 169Right-handed 310
Helix 31
31
B
203 206Right-handed 310
Helix 32
32
B
215 226Right-handed alpha
Helix 33
33
C
15 38Right-handed alpha
Helix 34
34
C
40 66Right-handed alpha
Helix 35
35
C
72 107Right-handed alpha
Helix 36
36
C
109 113Right-handed 310
Helix 37
37
C
128 153Right-handed alpha
Helix 38
38
C
155 184Right-handed alpha
Helix 39
39
C
190 224Right-handed alpha
Helix 40
40
C
232 256Right-handed alpha
Helix 41
41
D
7 11Right-handed 310
Helix 42
42
D
34 44Right-handed alpha
Helix 43
43
D
45 46Right-handed 310
Helix 44
44
D
47 51Right-handed 310
Helix 45
45
D
52 64Right-handed alpha
Helix 46
46
D
67 72Right-handed alpha
Helix 47
47
D
76 103Right-handed alpha
Helix 48
48
D
108 111Right-handed 310
Helix 49
49
D
112 126Right-handed alpha
Helix 50
50
D
134 136Right-handed 310
Helix 51
51
E
7 21Right-handed alpha
Helix 52
52
E
25 37Right-handed alpha
Helix 53
53
E
44 58Right-handed alpha
Helix 54
54
E
60 75Right-handed alpha
Helix 55
55
E
80 97Right-handed alpha
Helix 56
56
F
8 13Right-handed alpha
Helix 57
57
F
14 26Right-handed alpha
Helix 58
58
G
12 23Right-handed alpha
Helix 59
59
G
23 39Right-handed alpha
Helix 60
60
H
25 46Right-handed alpha
Helix 61
61
H
49 52Right-handed 310
Helix 62
62
H
53 64Right-handed alpha
Helix 63
63
H
65 79Right-handed alpha
Helix 64
64
I
11 39Right-handed alpha
Helix 65
65
I
39 53Right-handed alpha
Helix 66
66
I
55 67Right-handed alpha
Helix 67
67
J
4 14Right-handed alpha
Helix 68
68
J
25 55Right-handed alpha
Helix 69
69
K
8 36Right-handed alpha
Helix 70
70
L
17 45Right-handed alpha
Helix 71
71
M
11 36Right-handed alpha
Helix 72
72
M
36 42Right-handed alpha
Helix 73
73
N
1 7Right-handed alpha
Helix 74
74
N
11 42Right-handed alpha
Helix 75
75
N
50 68Right-handed alpha
Helix 76
76
N
69 75Right-handed alpha
Helix 77
77
N
76 87Right-handed alpha
Helix 78
78
N
94 104Right-handed alpha
Helix 79
79
N
104 118Right-handed alpha
Helix 80
80
N
140 171Right-handed alpha
Helix 81
81
N
177 181Right-handed 310
Helix 82
82
N
182 215Right-handed alpha
Helix 83
83
N
221 225Right-handed 310
Helix 84
84
N
227 262Right-handed alpha
Helix 85
85
N
269 284Right-handed alpha
Helix 86
86
N
285 286Right-handed 310
Helix 87
87
N
287 292Right-handed 310
Helix 88
88
N
298 312Right-handed alpha
Helix 89
89
N
312 328Right-handed alpha
Helix 90
90
N
335 359Right-handed alpha
Helix 91
91
N
360 368Right-handed alpha
Helix 92
92
N
370 383Right-handed alpha
Helix 93
93
N
383 402Right-handed alpha
Helix 94
94
N
406 426Right-handed alpha
Helix 95
95
N
426 434Right-handed alpha
Helix 96
96
N
444 446Right-handed 310
Helix 97
97
N
447 479Right-handed alpha
Helix 98
98
N
487 495Right-handed 310
Helix 99
99
O
14 46Right-handed alpha
Helix 100
100
O
60 88Right-handed alpha
Helix 101
101
O
124 128Right-handed 310
Helix 102
102
O
166 169Right-handed 310
Helix 103
103
O
203 207Right-handed 310
Helix 104
104
O
215 226Right-handed alpha
Helix 105
105
P
15 38Right-handed alpha
Helix 106
106
P
40 66Right-handed alpha
Helix 107
107
P
72 107Right-handed alpha
Helix 108
108
P
109 113Right-handed 310
Helix 109
109
P
128 153Right-handed alpha
Helix 110
110
P
155 184Right-handed alpha
Helix 111
111
P
190 224Right-handed alpha
Helix 112
112
P
232 256Right-handed alpha
Helix 113
113
Q
7 11Right-handed 310
Helix 114
114
Q
34 44Right-handed alpha
Helix 115
115
Q
45 46Right-handed 310
Helix 116
116
Q
47 51Right-handed 310
Helix 117
117
Q
52 64Right-handed alpha
Helix 118
118
Q
67 72Right-handed alpha
Helix 119
119
Q
76 103Right-handed alpha
Helix 120
120
Q
108 111Right-handed 310
Helix 121
121
Q
112 126Right-handed alpha
Helix 122
122
Q
134 136Right-handed 310
Helix 123
123
R
7 21Right-handed alpha
Helix 124
124
R
25 37Right-handed alpha
Helix 125
125
R
44 58Right-handed alpha
Helix 126
126
R
60 75Right-handed alpha
Helix 127
127
R
80 97Right-handed alpha
Helix 128
128
S
8 13Right-handed alpha
Helix 129
129
S
14 27Right-handed alpha
Helix 130
130
T
12 23Right-handed alpha
Helix 131
131
T
23 39Right-handed alpha
Helix 132
132
U
25 46Right-handed alpha
Helix 133
133
U
49 52Right-handed 310
Helix 134
134
U
53 64Right-handed alpha
Helix 135
135
U
65 79Right-handed alpha
Helix 136
136
V
11 39Right-handed alpha
Helix 137
137
V
39 53Right-handed alpha
Helix 138
138
V
55 66Right-handed alpha
Helix 139
139
W
4 14Right-handed alpha
Helix 140
140
W
25 55Right-handed alpha
Helix 141
141
X
8 36Right-handed alpha
Helix 142
142
Y
17 45Right-handed alpha
Helix 143
143
Z
11 36Right-handed alpha
Helix 144
144
Z
36 42Right-handed alpha
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There are 14 sheets in PDB entry 2DYS. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N,

There are 2 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
482 484first strand
Strand 2
M
2 3anti-parallel
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There are 3 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
510 511first strand
Strand 2
F
55 60parallel
Strand 3
F
70 75anti-parallel
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There are 5 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
116 120first strand
Strand 2
B
105 110anti-parallel
Strand 3
B
95 102anti-parallel
Strand 4
B
150 156parallel
Strand 5
B
180 184anti-parallel
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There are 3 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
142 145first strand
Strand 2
B
208 214parallel
Strand 3
B
190 195anti-parallel
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There are 2 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
161 165first strand
Strand 2
B
170 174anti-parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
D
138 139first strand
Strand 2
D
144 145anti-parallel
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There are 3 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
F
47 50first strand
Strand 2
F
88 92parallel
Strand 3
F
80 81anti-parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
N
482 484first strand
Strand 2
Z
2 3anti-parallel
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There are 3 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
N
510 511first strand
Strand 2
S
55 60parallel
Strand 3
S
70 75anti-parallel
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There are 5 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
O
116 120first strand
Strand 2
O
105 110anti-parallel
Strand 3
O
95 102anti-parallel
Strand 4
O
150 156parallel
Strand 5
O
180 184anti-parallel
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There are 3 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
O
142 145first strand
Strand 2
O
209 214parallel
Strand 3
O
190 194anti-parallel
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There are 2 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
O
161 165first strand
Strand 2
O
170 174anti-parallel
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There are 2 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
Q
138 139first strand
Strand 2
Q
144 145anti-parallel
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There are 3 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
S
47 50first strand
Strand 2
S
88 92parallel
Strand 3
S
80 81anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il