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


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 2YDX entry

There are 5 chains in PDB entry 2YDX (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 27LEU 338
B
 MET 27LEU 338
C
 MET 27LEU 338
D
 MET 27LEU 338
E
 MET 27PHE 60
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 are 80 helices in PDB entry 2YDX. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
38 51Right-handed alpha
Helix 2
2
A
74 86Right-handed alpha
Helix 3
3
A
98 105Right-handed alpha
Helix 4
4
A
105 114Right-handed alpha
Helix 5
5
A
114 128Right-handed alpha
Helix 6
6
A
138 140Right-handed 310
Helix 7
7
A
157 174Right-handed alpha
Helix 8
8
A
191 195Right-handed 310
Helix 9
9
A
197 199Right-handed 310
Helix 10
10
A
200 206Right-handed alpha
Helix 11
11
A
224 239Right-handed alpha
Helix 12
12
A
257 270Right-handed alpha
Helix 13
13
A
282 288Right-handed alpha
Helix 14
14
A
297 303Right-handed alpha
Helix 15
15
A
310 320Right-handed alpha
Helix 16
16
A
321 323Right-handed 310
Helix 17
17
B
38 51Right-handed alpha
Helix 18
18
B
74 86Right-handed alpha
Helix 19
19
B
98 105Right-handed alpha
Helix 20
20
B
105 114Right-handed alpha
Helix 21
21
B
114 128Right-handed alpha
Helix 22
22
B
138 140Right-handed 310
Helix 23
23
B
157 174Right-handed alpha
Helix 24
24
B
191 195Right-handed 310
Helix 25
25
B
197 199Right-handed 310
Helix 26
26
B
200 206Right-handed alpha
Helix 27
27
B
224 239Right-handed alpha
Helix 28
28
B
257 270Right-handed alpha
Helix 29
29
B
285 289Right-handed 310
Helix 30
30
B
297 302Right-handed alpha
Helix 31
31
B
310 320Right-handed alpha
Helix 32
32
B
321 323Right-handed 310
Helix 33
33
C
38 51Right-handed alpha
Helix 34
34
C
74 86Right-handed alpha
Helix 35
35
C
98 105Right-handed alpha
Helix 36
36
C
105 114Right-handed alpha
Helix 37
37
C
114 128Right-handed alpha
Helix 38
38
C
138 140Right-handed 310
Helix 39
39
C
157 174Right-handed alpha
Helix 40
40
C
191 195Right-handed 310
Helix 41
41
C
197 199Right-handed 310
Helix 42
42
C
200 206Right-handed alpha
Helix 43
43
C
224 239Right-handed alpha
Helix 44
44
C
257 270Right-handed alpha
Helix 45
45
C
285 289Right-handed 310
Helix 46
46
C
297 303Right-handed alpha
Helix 47
47
C
310 320Right-handed alpha
Helix 48
48
C
321 323Right-handed 310
Helix 49
49
D
38 51Right-handed alpha
Helix 50
50
D
74 86Right-handed alpha
Helix 51
51
D
98 105Right-handed alpha
Helix 52
52
D
105 114Right-handed alpha
Helix 53
53
D
114 128Right-handed alpha
Helix 54
54
D
138 140Right-handed 310
Helix 55
55
D
157 174Right-handed alpha
Helix 56
56
D
191 195Right-handed 310
Helix 57
57
D
197 199Right-handed 310
Helix 58
58
D
200 206Right-handed alpha
Helix 59
59
D
224 239Right-handed alpha
Helix 60
60
D
257 270Right-handed alpha
Helix 61
61
D
285 289Right-handed 310
Helix 62
62
D
297 303Right-handed alpha
Helix 63
63
D
310 320Right-handed alpha
Helix 64
64
D
321 323Right-handed 310
Helix 65
65
E
38 51Right-handed alpha
Helix 66
66
E
74 86Right-handed alpha
Helix 67
67
E
98 105Right-handed alpha
Helix 68
68
E
105 114Right-handed alpha
Helix 69
69
E
114 128Right-handed alpha
Helix 70
70
E
138 140Right-handed 310
Helix 71
71
E
157 174Right-handed alpha
Helix 72
72
E
191 195Right-handed 310
Helix 73
73
E
197 199Right-handed 310
Helix 74
74
E
200 206Right-handed alpha
Helix 75
75
E
224 239Right-handed alpha
Helix 76
76
E
257 270Right-handed alpha
Helix 77
77
E
285 289Right-handed 310
Helix 78
78
E
297 303Right-handed alpha
Helix 79
79
E
310 320Right-handed alpha
Helix 80
80
E
321 323Right-handed 310
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There are 15 sheets in PDB entry 2YDX. Click on sheet of interest to get list of strands forming it: AA, AB, AC, BA, BB, BC, CA, CB, CC, A, DB, C, EA, EB, EC,

There are 7 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
68 69first strand
Strand 2
A
54 59parallel
Strand 3
A
30 34parallel
Strand 4
A
89 92parallel
Strand 5
A
130 136parallel
Strand 6
A
178 182parallel
Strand 7
A
246 249parallel
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There are 2 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
185 186first strand
Strand 2
A
222 223parallel
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There are 2 strands in AC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
211 214first strand
Strand 2
A
276 279parallel
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There are 7 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
68 69first strand
Strand 2
B
54 59parallel
Strand 3
B
30 34parallel
Strand 4
B
89 92parallel
Strand 5
B
130 136parallel
Strand 6
B
178 182parallel
Strand 7
B
246 249parallel
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There are 2 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
185 186first strand
Strand 2
B
222 223parallel
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There are 2 strands in BC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
211 214first strand
Strand 2
B
276 279parallel
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There are 7 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
68 69first strand
Strand 2
C
54 59parallel
Strand 3
C
30 34parallel
Strand 4
C
89 92parallel
Strand 5
C
130 136parallel
Strand 6
C
178 182parallel
Strand 7
C
246 249parallel
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There are 2 strands in CB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
185 186first strand
Strand 2
C
222 223parallel
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There are 2 strands in CC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
211 214first strand
Strand 2
C
276 279parallel
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There are 7 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
68 69first strand
Strand 2
D
54 59parallel
Strand 3
D
30 34parallel
Strand 4
D
89 92parallel
Strand 5
D
130 136parallel
Strand 6
D
178 182parallel
Strand 7
D
246 249parallel
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There are 2 strands in DB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
185 186first strand
Strand 2
D
222 223parallel
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There are 2 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
211 214first strand
Strand 2
D
276 279parallel
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There are 7 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
68 69first strand
Strand 2
E
54 59parallel
Strand 3
E
30 34parallel
Strand 4
E
89 92parallel
Strand 5
E
130 136parallel
Strand 6
E
178 182parallel
Strand 7
E
246 249parallel
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There are 2 strands in EB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
185 186first strand
Strand 2
E
222 223parallel
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There are 2 strands in EC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
211 214first strand
Strand 2
E
276 279parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il