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


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 2PBD entry

There are 4 chains in PDB entry 2PBD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 5GLU 72
A
 GLY 74PHE 375
P
 ALA 1TYR 139
V
 GLY 202SER 238
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 30 helices in PDB entry 2PBD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
55 61Right-handed alpha
Helix 2
2
A
62 65Right-handed 310
Helix 3
3
A
78 92Right-handed alpha
Helix 4
4
A
97 101Right-handed 310
Helix 5
5
A
112 126Right-handed alpha
Helix 6
6
A
137 145Right-handed alpha
Helix 7
7
A
172 175Right-handed 310
Helix 8
8
A
181 197Right-handed alpha
Helix 9
9
A
202 217Right-handed alpha
Helix 10
10
A
222 230Right-handed alpha
Helix 11
11
A
231 233Right-handed 310
Helix 12
12
A
252 260Right-handed alpha
Helix 13
13
A
261 262Right-handed 310
Helix 14
14
A
263 268Right-handed 310
Helix 15
15
A
273 284Right-handed alpha
Helix 16
16
A
285 288Right-handed 310
Helix 17
17
A
289 295Right-handed alpha
Helix 18
18
A
301 305Right-handed 310
Helix 19
19
A
308 321Right-handed alpha
Helix 20
20
A
322 325Right-handed 310
Helix 21
21
A
337 349Right-handed alpha
Helix 22
22
A
350 353Right-handed 310
Helix 23
23
A
359 366Right-handed alpha
Helix 24
24
A
368 374Right-handed alpha
Helix 25
25
P
3 12Right-handed alpha
Helix 26
26
P
38 42Right-handed 310
Helix 27
27
P
43 52Right-handed alpha
Helix 28
28
P
56 60Right-handed 310
Helix 29
29
P
119 137Right-handed alpha
Helix 30
30
V
224 231Right-handed alpha
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There are 7 sheets in PDB entry 2PBD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G,

There are 6 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
29 32first strand
Strand 2
A
16 21anti-parallel
Strand 3
A
8 12anti-parallel
Strand 4
A
103 107parallel
Strand 5
A
131 136parallel
Strand 6
A
357 358anti-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
53 54first strand
Strand 2
A
35 37anti-parallel
Strand 3
A
66 68anti-parallel
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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
A
71 72first strand
Strand 2
A
75 76anti-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
A
169 170first strand
Strand 2
A
160 166anti-parallel
Strand 3
A
176 178anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
169 170first strand
Strand 2
A
160 166anti-parallel
Strand 3
A
150 155anti-parallel
Strand 4
A
297 300parallel
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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
A
238 241first strand
Strand 2
A
247 250anti-parallel
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There are 7 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
P
29 33first strand
Strand 2
P
16 23anti-parallel
Strand 3
P
108 114anti-parallel
Strand 4
P
99 104anti-parallel
Strand 5
P
84 89anti-parallel
Strand 6
P
68 76anti-parallel
Strand 7
P
63 65anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il