Analysis of interatomic Contacts of Structural Units in PDB entry:
4GDY


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 4GDY entry

There are 2 chains in PDB entry 4GDY (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
MET 1PRO 428
B
MET 1PRO 428
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 41 helices in PDB entry 4GDY. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
A
2 6Right-handed 310
Helix 2
2
A
8 14Right-handed alpha
Helix 3
3
A
42 46Right-handed 310
Helix 4
4
A
64 72Right-handed alpha
Helix 5
5
A
80 96Right-handed alpha
Helix 6
6
A
103 107Right-handed 310
Helix 7
7
A
116 129Right-handed alpha
Helix 8
8
A
142 150Right-handed alpha
Helix 9
9
A
151 153Right-handed 310
Helix 10
10
A
167 176Right-handed alpha
Helix 11
11
A
177 178Right-handed 310
Helix 12
12
A
179 189Right-handed 310
Helix 13
13
A
209 223Right-handed alpha
Helix 14
14
A
233 237Right-handed 310
Helix 15
15
A
245 250Right-handed 310
Helix 16
16
A
278 289Right-handed alpha
Helix 17
17
A
296 342Right-handed alpha
Helix 18
18
A
366 371Right-handed alpha
Helix 19
19
A
385 388Right-handed 310
Helix 20
20
A
406 427Right-handed alpha
Helix 21
21
B
2 6Right-handed 310
Helix 22
22
B
8 14Right-handed alpha
Helix 23
23
B
42 46Right-handed 310
Helix 24
24
B
64 72Right-handed alpha
Helix 25
25
B
80 96Right-handed alpha
Helix 26
26
B
103 107Right-handed 310
Helix 27
27
B
116 129Right-handed alpha
Helix 28
28
B
142 150Right-handed alpha
Helix 29
29
B
151 153Right-handed 310
Helix 30
30
B
167 176Right-handed alpha
Helix 31
31
B
177 178Right-handed 310
Helix 32
32
B
179 189Right-handed 310
Helix 33
33
B
209 223Right-handed alpha
Helix 34
34
B
233 237Right-handed 310
Helix 35
35
B
245 250Right-handed 310
Helix 36
36
B
278 289Right-handed alpha
Helix 37
37
B
296 342Right-handed alpha
Helix 38
38
B
366 372Right-handed alpha
Helix 39
39
B
372 377Right-handed alpha
Helix 40
40
B
385 388Right-handed 310
Helix 41
41
B
406 427Right-handed alpha
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There are 11 sheets in PDB entry 4GDY. 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 2 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
34 35first strand
Strand 2
B
379 380parallel
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There are 4 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
60 63first strand
Strand 2
A
48 54anti-parallel
Strand 3
B
50 55anti-parallel
Strand 4
B
61 63anti-parallel
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There are 5 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
109 114first strand
Strand 2
A
272 277anti-parallel
Strand 3
A
255 260anti-parallel
Strand 4
A
226 230parallel
Strand 5
A
193 196parallel
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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
134 137first strand
Strand 2
A
155 158parallel
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There are 2 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
161 162first strand
Strand 2
A
165 166anti-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
A
345 347first strand
Strand 2
A
355 360anti-parallel
Strand 3
A
397 401anti-parallel
Strand 4
A
381 383anti-parallel
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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
21 23first strand
Strand 2
B
33 35anti-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
B
109 114first strand
Strand 2
B
272 277anti-parallel
Strand 3
B
255 260anti-parallel
Strand 4
B
226 230parallel
Strand 5
B
193 196parallel
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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
134 137first strand
Strand 2
B
155 158parallel
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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
161 162first strand
Strand 2
B
165 166anti-parallel
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There are 4 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
345 347first strand
Strand 2
B
355 360anti-parallel
Strand 3
B
397 401anti-parallel
Strand 4
B
382 383anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il