Analysis of interatomic Contacts of Structural Units in PDB entry:
3EPD


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 3EPD entry

There are 6 chains in PDB entry 3EPD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
R
VAL 30TYR 242
0
ILE 7VAL 10
1
GLN 24TYR 302
2
ALA 6GLN 271
4
GLY 2ASN 69
3
GLY 1ALA 235
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 21 helices in PDB entry 3EPD. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
1
46 50Right-handed 310
Helix 2
2
1
56 60Right-handed 310
Helix 3
3
1
72 75Right-handed 310
Helix 4
4
1
76 82Right-handed alpha
Helix 5
5
1
116 123Right-handed alpha
Helix 6
6
1
172 177Right-handed 310
Helix 7
7
2
35 37Right-handed 310
Helix 8
8
2
56 60Right-handed 310
Helix 9
9
2
83 87Right-handed 310
Helix 10
10
2
89 98Right-handed alpha
Helix 11
11
2
143 148Right-handed alpha
Helix 12
12
2
149 153Right-handed 310
Helix 13
13
2
176 180Right-handed 310
Helix 14
14
2
185 192Right-handed 310
Helix 15
15
4
35 39Right-handed 310
Helix 16
16
4
50 55Right-handed alpha
Helix 17
17
3
43 48Right-handed alpha
Helix 18
18
3
64 69Right-handed 310
Helix 19
19
3
98 105Right-handed alpha
Helix 20
20
3
144 149Right-handed alpha
Helix 21
21
3
182 186Right-handed 310
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There are 16 sheets in PDB entry 3EPD. 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, O, P,

There are 3 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
R
46 48first strand
Strand 2
R
107 109anti-parallel
Strand 3
R
93 95anti-parallel
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There are 5 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
R
84 86first strand
Strand 2
R
78 80anti-parallel
Strand 3
R
61 66anti-parallel
Strand 4
R
122 127anti-parallel
Strand 5
R
134 136anti-parallel
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There are 4 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
R
146 152first strand
Strand 2
R
163 169anti-parallel
Strand 3
R
203 207anti-parallel
Strand 4
R
190 192anti-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
R
177 180first strand
Strand 2
R
219 223anti-parallel
Strand 3
R
232 236anti-parallel
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There are 3 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
0
8 10first strand
Strand 2
4
4 8parallel
Strand 3
4
25 29anti-parallel
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There are 4 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
1
85 94first strand
Strand 2
1
254 272anti-parallel
Strand 3
1
125 142anti-parallel
Strand 4
1
192 196anti-parallel
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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
1
85 94first strand
Strand 2
1
254 272anti-parallel
Strand 3
1
125 142anti-parallel
Strand 4
1
205 206anti-parallel
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There are 5 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
1
105 109first strand
Strand 2
1
240 245anti-parallel
Strand 3
1
154 160anti-parallel
Strand 4
1
182 186anti-parallel
Strand 5
3
13 14anti-parallel
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There are 2 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
2
14 18first strand
Strand 2
2
21 25anti-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
2
32 33first strand
Strand 2
2
204 209parallel
Strand 3
2
99 111anti-parallel
Strand 4
2
245 262anti-parallel
Strand 5
2
64 65anti-parallel
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There are 5 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
2
32 33first strand
Strand 2
2
204 209parallel
Strand 3
2
99 111anti-parallel
Strand 4
2
245 262anti-parallel
Strand 5
2
69 72anti-parallel
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There are 5 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
2
154 155first strand
Strand 2
2
78 82anti-parallel
Strand 3
2
226 238anti-parallel
Strand 4
2
118 128anti-parallel
Strand 5
2
194 198anti-parallel
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There are 3 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
3
51 52first strand
Strand 2
3
207 216anti-parallel
Strand 3
3
70 73anti-parallel
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There are 4 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
3
51 52first strand
Strand 2
3
207 216anti-parallel
Strand 3
3
114 120anti-parallel
Strand 4
3
163 168anti-parallel
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There are 4 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
3
83 86first strand
Strand 2
3
189 194anti-parallel
Strand 3
3
129 135anti-parallel
Strand 4
3
152 157anti-parallel
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There are 3 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
3
177 178first strand
Strand 2
3
107 111anti-parallel
Strand 3
3
221 225anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il