Analysis of interatomic Contacts of Structural Units in PDB entry:
2VD8


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 2VD8 entry

There are 38 chains in PDB entry 2VD8 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 3ILE 26
A
 GLU 28ALA 53
A
 ILE 55GLN 109
A
 GLU 111ILE 117
A
 LEU 119MET 126
A
 TYR 128ARG 144
A
 GLU 146LEU 147
A
 GLY 149LEU 151
A
 SER 153ASP 181
A
 GLN 183LEU 194
A
 GLU 196PRO 201
A
 PHE 203PHE 244
A
 LEU 246THR 254
A
 VAL 256ILE 263
A
 GLY 265THR 276
A
 THR 278GLY 306
A
 ARG 308THR 332
A
 VAL 334GLY 377
A
 VAL 379ILE 389
B
 ALA 4ILE 26
B
 GLU 28ALA 53
B
 ILE 55GLN 109
B
 GLU 111ILE 117
B
 LEU 119MET 126
B
 TYR 128ARG 144
B
 GLU 146LEU 147
B
 GLY 149LEU 151
B
 SER 153ASP 181
B
 GLN 183LEU 194
B
 GLU 196PRO 201
B
 PHE 203PHE 244
B
 LEU 246THR 254
B
 VAL 256ILE 263
B
 GLY 265THR 276
B
 THR 278GLY 306
B
 ARG 308THR 332
B
 VAL 334GLY 377
B
 VAL 379ILE 389
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 34 helices in PDB entry 2VD8. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
16 30Right-handed alpha
Helix 2
2
A
40 46Right-handed alpha
Helix 3
3
A
48 59Right-handed alpha
Helix 4
4
A
68 78Right-handed alpha
Helix 5
5
A
91 93Right-handed 310
Helix 6
6
A
94 101Right-handed alpha
Helix 7
7
A
109 120Right-handed alpha
Helix 8
8
A
143 155Right-handed alpha
Helix 9
9
A
177 197Right-handed alpha
Helix 10
10
A
208 213Right-handed alpha
Helix 11
11
A
238 242Right-handed 310
Helix 12
12
A
269 273Right-handed 310
Helix 13
13
A
288 292Right-handed 310
Helix 14
14
A
294 298Right-handed 310
Helix 15
15
A
346 354Right-handed alpha
Helix 16
16
A
357 364Right-handed alpha
Helix 17
17
A
384 388Right-handed 310
Helix 18
18
B
16 30Right-handed alpha
Helix 19
19
B
40 46Right-handed alpha
Helix 20
20
B
48 60Right-handed alpha
Helix 21
21
B
68 78Right-handed alpha
Helix 22
22
B
91 93Right-handed 310
Helix 23
23
B
94 101Right-handed alpha
Helix 24
24
B
109 120Right-handed alpha
Helix 25
25
B
143 155Right-handed alpha
Helix 26
26
B
177 197Right-handed alpha
Helix 27
27
B
208 215Right-handed alpha
Helix 28
28
B
238 242Right-handed 310
Helix 29
29
B
269 273Right-handed 310
Helix 30
30
B
288 292Right-handed 310
Helix 31
31
B
294 298Right-handed 310
Helix 32
32
B
346 355Right-handed alpha
Helix 33
33
B
357 364Right-handed alpha
Helix 34
34
B
384 389Right-handed alpha
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There are 7 sheets in PDB entry 2VD8. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, BA, BB, BC,

There are 3 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
343 345first strand
Strand 2
A
333 340anti-parallel
Strand 3
A
250 262anti-parallel
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There are 7 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
343 345first strand
Strand 2
A
333 340anti-parallel
Strand 3
A
301 304anti-parallel
Strand 4
A
307 312anti-parallel
Strand 5
A
320 324anti-parallel
Strand 6
A
280 285anti-parallel
Strand 7
A
250 262anti-parallel
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There are 9 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
35 39first strand
Strand 2
A
222 225parallel
Strand 3
A
204 205first strand
Strand 4
A
160 166parallel
Strand 5
A
126 131parallel
Strand 6
A
103 106parallel
Strand 7
A
84 86parallel
Strand 8
A
63 66parallel
Strand 9
A
35 39parallel
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There are 2 strands in AD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
267 268first strand
Strand 2
A
274 275anti-parallel
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There are 6 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
343 345first strand
Strand 2
B
333 340anti-parallel
Strand 3
B
378 383first strand
Strand 4
B
371 375anti-parallel
Strand 5
B
11 15parallel
Strand 6
B
250 262anti-parallel
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There are 9 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
35 39first strand
Strand 2
B
222 225parallel
Strand 3
B
204 205first strand
Strand 4
B
160 166parallel
Strand 5
B
126 131parallel
Strand 6
B
104 106parallel
Strand 7
B
84 86parallel
Strand 8
B
63 66parallel
Strand 9
B
35 39parallel
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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
267 268first strand
Strand 2
B
274 275anti-parallel
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