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


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 2GDV entry

There are 2 chains in PDB entry 2GDV (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1ALA 504
B
 MET 1ALA 504
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 50 helices in PDB entry 2GDV. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
18 30Right-handed alpha
Helix 2
2
A
67 75Right-handed alpha
Helix 3
3
A
93 103Right-handed alpha
Helix 4
4
A
104 106Right-handed 310
Helix 5
5
A
108 112Right-handed 310
Helix 6
6
A
114 119Right-handed alpha
Helix 7
7
A
124 130Right-handed alpha
Helix 8
8
A
167 184Right-handed alpha
Helix 9
9
A
193 197Right-handed 310
Helix 10
10
A
208 224Right-handed alpha
Helix 11
11
A
236 244Right-handed alpha
Helix 12
12
A
245 247Right-handed 310
Helix 13
13
A
254 266Right-handed alpha
Helix 14
14
A
268 278Right-handed alpha
Helix 15
15
A
311 326Right-handed alpha
Helix 16
16
A
328 334Right-handed alpha
Helix 17
17
A
335 338Right-handed 310
Helix 18
18
A
349 354Right-handed alpha
Helix 19
19
A
357 371Right-handed alpha
Helix 20
20
A
379 383Right-handed alpha
Helix 21
21
A
388 396Right-handed alpha
Helix 22
22
A
397 403Right-handed 310
Helix 23
23
A
407 415Right-handed alpha
Helix 24
24
A
417 433Right-handed alpha
Helix 25
25
A
434 438Right-handed 310
Helix 26
26
A
467 471Right-handed 310
Helix 27
27
B
18 30Right-handed alpha
Helix 28
28
B
67 75Right-handed alpha
Helix 29
29
B
93 103Right-handed alpha
Helix 30
30
B
104 106Right-handed 310
Helix 31
31
B
108 112Right-handed 310
Helix 32
32
B
114 119Right-handed alpha
Helix 33
33
B
124 130Right-handed alpha
Helix 34
34
B
167 184Right-handed alpha
Helix 35
35
B
193 197Right-handed 310
Helix 36
36
B
208 224Right-handed alpha
Helix 37
37
B
236 245Right-handed alpha
Helix 38
38
B
254 266Right-handed alpha
Helix 39
39
B
268 278Right-handed alpha
Helix 40
40
B
311 326Right-handed alpha
Helix 41
41
B
328 334Right-handed alpha
Helix 42
42
B
349 354Right-handed alpha
Helix 43
43
B
357 371Right-handed alpha
Helix 44
44
B
379 383Right-handed alpha
Helix 45
45
B
388 396Right-handed alpha
Helix 46
46
B
397 403Right-handed 310
Helix 47
47
B
407 415Right-handed alpha
Helix 48
48
B
417 433Right-handed alpha
Helix 49
49
B
434 438Right-handed 310
Helix 50
50
B
467 470Right-handed 310
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There are 11 sheets in PDB entry 2GDV. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

There are 9 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
6 9first strand
Strand 2
A
36 39parallel
Strand 3
A
79 85parallel
Strand 4
A
188 192parallel
Strand 5
A
228 231parallel
Strand 6
A
249 252parallel
Strand 7
A
282 284parallel
Strand 8
A
374 378parallel
Strand 9
A
6 9parallel
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There are 2 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
43 44first strand
Strand 2
A
57 61anti-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
88 90first strand
Strand 2
A
160 162anti-parallel
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There are 2 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
140 145first strand
Strand 2
A
148 153anti-parallel
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There are 5 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
439 445first strand
Strand 2
A
449 455anti-parallel
Strand 3
A
460 465anti-parallel
Strand 4
A
480 486anti-parallel
Strand 5
A
489 493anti-parallel
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There are 9 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
6 9first strand
Strand 2
B
36 39parallel
Strand 3
B
79 85parallel
Strand 4
B
188 192parallel
Strand 5
B
228 231parallel
Strand 6
B
249 252parallel
Strand 7
B
282 284parallel
Strand 8
B
374 378parallel
Strand 9
B
6 9parallel
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There are 2 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
43 44first strand
Strand 2
B
57 61anti-parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
88 90first strand
Strand 2
B
160 162anti-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
B
140 145first strand
Strand 2
B
148 153anti-parallel
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There are 2 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
292 293first strand
Strand 2
B
345 346anti-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
B
439 444first strand
Strand 2
B
450 455anti-parallel
Strand 3
B
460 465anti-parallel
Strand 4
B
480 486anti-parallel
Strand 5
B
489 493anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il