Analysis of interatomic Contacts of Structural Units in PDB entry:
3KD8


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 3KD8 entry

There are 2 chains in PDB entry 3KD8 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MSE 1GLY 396
B
 MSE 1GLY 396
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 35 helices in PDB entry 3KD8. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
24 29Right-handed alpha
Helix 2
2
A
31 40Right-handed alpha
Helix 3
3
A
60 65Right-handed alpha
Helix 4
4
A
68 73Right-handed alpha
Helix 5
5
A
75 84Right-handed alpha
Helix 6
6
A
111 115Right-handed 310
Helix 7
7
A
118 126Right-handed alpha
Helix 8
8
A
177 179Right-handed 310
Helix 9
9
A
180 200Right-handed alpha
Helix 10
10
A
201 210Right-handed alpha
Helix 11
11
A
231 237Right-handed alpha
Helix 12
12
A
246 256Right-handed alpha
Helix 13
13
A
273 285Right-handed alpha
Helix 14
14
A
306 320Right-handed alpha
Helix 15
15
A
321 326Right-handed 310
Helix 16
16
A
374 378Right-handed 310
Helix 17
17
A
386 394Right-handed alpha
Helix 18
18
B
17 21Right-handed 310
Helix 19
19
B
24 29Right-handed alpha
Helix 20
20
B
31 40Right-handed alpha
Helix 21
21
B
60 65Right-handed alpha
Helix 22
22
B
68 73Right-handed alpha
Helix 23
23
B
75 83Right-handed alpha
Helix 24
24
B
111 115Right-handed 310
Helix 25
25
B
118 126Right-handed alpha
Helix 26
26
B
177 179Right-handed 310
Helix 27
27
B
180 200Right-handed alpha
Helix 28
28
B
201 210Right-handed alpha
Helix 29
29
B
231 237Right-handed alpha
Helix 30
30
B
247 256Right-handed alpha
Helix 31
31
B
273 288Right-handed alpha
Helix 32
32
B
306 321Right-handed alpha
Helix 33
33
B
322 327Right-handed 310
Helix 34
34
B
373 378Right-handed 310
Helix 35
35
B
386 396Right-handed alpha
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There are 6 sheets in PDB entry 3KD8. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 8 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
259 261first strand
Strand 2
A
240 243parallel
Strand 3
A
290 296parallel
Strand 4
A
3 10parallel
Strand 5
A
331 338parallel
Strand 6
A
353 359anti-parallel
Strand 7
A
42 47anti-parallel
Strand 8
A
380 383parallel
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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
A
107 109first strand
Strand 2
A
93 102anti-parallel
Strand 3
A
144 150anti-parallel
Strand 4
A
133 139anti-parallel
Strand 5
A
128 130anti-parallel
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There are 3 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
107 109first strand
Strand 2
A
93 102anti-parallel
Strand 3
A
217 225anti-parallel
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There are 8 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
259 260first strand
Strand 2
B
240 243parallel
Strand 3
B
290 295parallel
Strand 4
B
3 9parallel
Strand 5
B
331 337parallel
Strand 6
B
353 358anti-parallel
Strand 7
B
42 47anti-parallel
Strand 8
B
380 383parallel
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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
B
107 109first strand
Strand 2
B
93 102anti-parallel
Strand 3
B
144 150anti-parallel
Strand 4
B
133 139anti-parallel
Strand 5
B
128 130anti-parallel
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There are 3 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
107 109first strand
Strand 2
B
93 102anti-parallel
Strand 3
B
217 225anti-parallel
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