Analysis of interatomic Contacts of Structural Units in PDB entry:
2J28


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 2J28 entry

There are 34 chains in PDB entry 2J28 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
0
ALA 1LYS 56
1
ALA 1LYS 54
2
MET 1LYS 46
3
PRO 1ALA 64
4
MET 1GLY 38
7
LEU 50LYS 67
8
U 18 A 91
9
PHE 2LYS 431
A
G 2 C 118
B
G 1 U 2903
C
VAL 3ARG 269
D
MET 1ALA 209
E
MET 1ALA 201
F
ALA 1LYS 178
G
SER 1LYS 176
H
MET 1GLU 149
I
ALA 1ASP 141
J
MET 1LEU 140
K
ILE 2VAL 122
L
MET 1GLU 144
M
MET 1MET 136
N
MET 1GLU 127
O
MET 1PHE 117
P
SER 1ASN 114
Q
ALA 1ALA 117
R
MET 1ALA 103
S
MET 1ARG 110
T
MET 1ALA 99
U
ALA 1ILE 102
V
MET 1ALA 94
W
ALA 1GLU 84
X
MET 1ALA 63
Y
ALA 1GLU 58
Z
MET 1LYS 70
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 are101 helices in PDB entry 2J28. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
0
8 14Right-handed alpha
Helix 2
2
2
24 35Right-handed alpha
Helix 3
3
3
5 11Right-handed alpha
Helix 4
4
3
51 56Right-handed alpha
Helix 5
5
7
50 65Right-handed alpha
Helix 6
6
9
7 13Right-handed alpha
Helix 7
7
9
25 40Right-handed alpha
Helix 8
8
9
45 60Right-handed alpha
Helix 9
9
9
69 86Right-handed alpha
Helix 10
10
9
116 126Right-handed alpha
Helix 11
11
9
144 155Right-handed alpha
Helix 12
12
9
169 182Right-handed alpha
Helix 13
13
9
197 210Right-handed alpha
Helix 14
14
9
225 228Right-handed 310
Helix 15
15
9
229 238Right-handed alpha
Helix 16
16
9
257 265Right-handed alpha
Helix 17
17
9
286 290Right-handed 310
Helix 18
18
9
301 311Right-handed alpha
Helix 19
19
9
334 340Right-handed alpha
Helix 20
20
9
385 390Right-handed 310
Helix 21
21
9
399 406Right-handed alpha
Helix 22
22
9
409 412Right-handed 310
Helix 23
23
9
413 428Right-handed alpha
Helix 24
24
C
131 134Right-handed 310
Helix 25
25
C
206 210Right-handed 310
Helix 26
26
D
60 66Right-handed alpha
Helix 27
27
D
120 125Right-handed alpha
Helix 28
28
D
154 158Right-handed 310
Helix 29
29
E
28 34Right-handed alpha
Helix 30
30
E
35 39Right-handed 310
Helix 31
31
E
97 103Right-handed alpha
Helix 32
32
E
104 108Right-handed 310
Helix 33
33
E
133 137Right-handed 310
Helix 34
34
E
176 183Right-handed alpha
Helix 35
35
F
3 9Right-handed alpha
Helix 36
36
F
11 16Right-handed alpha
Helix 37
37
F
50 52Right-handed 310
Helix 38
38
F
53 58Right-handed alpha
Helix 39
39
F
93 104Right-handed alpha
Helix 40
40
F
166 172Right-handed alpha
Helix 41
41
G
57 81Right-handed alpha
Helix 42
42
G
136 149Right-handed alpha
Helix 43
43
G
150 152Right-handed 310
Helix 44
44
H
41 48Right-handed alpha
Helix 45
45
H
48 61Right-handed alpha
Helix 46
46
H
69 74Right-handed alpha
Helix 47
47
H
95 107Right-handed alpha
Helix 48
48
I
24 29Right-handed alpha
Helix 49
49
I
33 48Right-handed alpha
Helix 50
50
I
74 84Right-handed alpha
Helix 51
51
I
102 113Right-handed alpha
Helix 52
52
I
120 135Right-handed alpha
Helix 53
53
J
26 38Right-handed alpha
Helix 54
54
J
98 106Right-handed alpha
Helix 55
55
J
112 117Right-handed alpha
Helix 56
56
J
118 122Right-handed 310
Helix 57
57
J
131 136Right-handed 310
Helix 58
58
K
114 118Right-handed 310
Helix 59
59
L
81 86Right-handed alpha
Helix 60
60
L
133 138Right-handed 310
Helix 61
61
M
42 55Right-handed alpha
Helix 62
62
M
108 116Right-handed alpha
Helix 63
63
N
13 31Right-handed alpha
Helix 64
64
N
37 55Right-handed alpha
Helix 65
65
N
60 70Right-handed alpha
Helix 66
66
N
72 81Right-handed alpha
Helix 67
67
N
83 88Right-handed 310
Helix 68
68
O
4 19Right-handed alpha
Helix 69
69
O
67 82Right-handed alpha
Helix 70
70
O
101 114Right-handed alpha
Helix 71
71
P
5 12Right-handed 310
Helix 72
72
Q
6 19Right-handed alpha
Helix 73
73
Q
25 30Right-handed alpha
Helix 74
74
Q
31 36Right-handed alpha
Helix 75
75
Q
37 39Right-handed 310
Helix 76
76
Q
41 49Right-handed alpha
Helix 77
77
Q
52 68Right-handed alpha
Helix 78
78
Q
69 71Right-handed 310
Helix 79
79
Q
74 85Right-handed alpha
Helix 80
80
Q
93 99Right-handed alpha
Helix 81
81
Q
101 114Right-handed alpha
Helix 82
82
S
14 22Right-handed alpha
Helix 83
83
S
23 25Right-handed 310
Helix 84
84
S
29 39Right-handed alpha
Helix 85
85
S
41 45Right-handed 310
Helix 86
86
S
46 61Right-handed alpha
Helix 87
87
T
18 23Right-handed alpha
Helix 88
88
T
23 28Right-handed alpha
Helix 89
89
T
39 49Right-handed alpha
Helix 90
90
V
13 22Right-handed alpha
Helix 91
91
V
43 52Right-handed alpha
Helix 92
92
V
54 58Right-handed 310
Helix 93
93
X
3 7Right-handed 310
Helix 94
94
X
11 15Right-handed 310
Helix 95
95
X
22 28Right-handed alpha
Helix 96
96
X
45 54Right-handed alpha
Helix 97
97
X
56 61Right-handed alpha
Helix 98
98
Y
16 26Right-handed alpha
Helix 99
99
Y
40 50Right-handed alpha
Helix 100
100
Z
48 59Right-handed alpha
Helix 101
101
Z
64 69Right-handed alpha
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There are 19 sheets in PDB entry 2J28. Click on sheet of interest to get list of strands forming it: 9A, CA, A, EA, GA, GB, GC, HA, IA, IB, KA, KB, SA, SB, SC, VA, VB, YA, ZA,

There are 4 strands in 9A sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
9
187 191first strand
Strand 2
9
102 106parallel
Strand 3
9
216 222parallel
Strand 4
9
244 248parallel
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There are 2 strands in CA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
C
75 76first strand
Strand 2
C
94 95anti-parallel
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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
D
106 107first strand
Strand 2
D
175 176anti-parallel
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There are 2 strands in EA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
E
116 117first strand
Strand 2
E
185 186parallel
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There are 3 strands in GA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
G
17 19first strand
Strand 2
G
22 25anti-parallel
Strand 3
G
32 33anti-parallel
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There are 4 strands in GB sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
G
120 123first strand
Strand 2
G
129 134anti-parallel
Strand 3
G
82 87anti-parallel
Strand 4
G
162 163anti-parallel
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There are 2 strands in GC sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
G
102 104first strand
Strand 2
G
112 114anti-parallel
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There are 3 strands in HA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
H
78 82first strand
Strand 2
H
140 148parallel
Strand 3
H
126 132anti-parallel
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There are 3 strands in IA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
I
8 12first strand
Strand 2
I
54 60anti-parallel
Strand 3
I
66 70anti-parallel
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There are 2 strands in IB sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
I
98 101first strand
Strand 2
I
137 140parallel
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There are 5 strands in KA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
K
5 8first strand
Strand 2
K
19 24anti-parallel
Strand 3
K
38 43anti-parallel
Strand 4
K
57 61anti-parallel
Strand 5
K
86 87anti-parallel
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There are 2 strands in KB sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
K
69 70first strand
Strand 2
K
76 77anti-parallel
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There are 2 strands in SA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
S
73 74first strand
Strand 2
S
105 106anti-parallel
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There are 2 strands in SB sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
S
77 78first strand
Strand 2
S
101 102anti-parallel
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There are 2 strands in SC sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
S
83 86first strand
Strand 2
S
94 97anti-parallel
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There are 2 strands in VA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
V
2 6first strand
Strand 2
V
61 65parallel
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There are 4 strands in VB sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
V
38 41first strand
Strand 2
V
27 31anti-parallel
Strand 3
V
86 92parallel
Strand 4
V
73 79anti-parallel
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There are 2 strands in YA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
Y
7 8first strand
Strand 2
Y
54 55anti-parallel
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There are 2 strands in ZA sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
Z
33 34first strand
Strand 2
Z
45 46anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il