Analysis of interatomic Contacts of Structural Units in PDB entry:
1YKD


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 1YKD entry

There are 2 chains in PDB entry 1YKD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 58VAL 440
B
 VAL 58LYS 441
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 31 helices in PDB entry 1YKD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
60 76Right-handed alpha
Helix 2
2
A
79 100Right-handed alpha
Helix 3
3
A
123 127Right-handed 310
Helix 4
4
A
137 147Right-handed alpha
Helix 5
5
A
155 161Right-handed 310
Helix 6
6
A
162 173Right-handed alpha
Helix 7
7
A
210 215Right-handed alpha
Helix 8
8
A
221 228Right-handed alpha
Helix 9
9
A
231 268Right-handed alpha
Helix 10
10
A
271 287Right-handed alpha
Helix 11
11
A
324 334Right-handed alpha
Helix 12
12
A
342 346Right-handed 310
Helix 13
13
A
349 360Right-handed alpha
Helix 14
14
A
397 401Right-handed 310
Helix 15
15
A
405 409Right-handed 310
Helix 16
16
A
413 440Right-handed alpha
Helix 17
17
B
60 76Right-handed alpha
Helix 18
18
B
79 100Right-handed alpha
Helix 19
19
B
137 147Right-handed alpha
Helix 20
20
B
155 161Right-handed 310
Helix 21
21
B
162 173Right-handed alpha
Helix 22
22
B
210 215Right-handed alpha
Helix 23
23
B
221 229Right-handed alpha
Helix 24
24
B
231 267Right-handed alpha
Helix 25
25
B
271 287Right-handed alpha
Helix 26
26
B
324 334Right-handed alpha
Helix 27
27
B
342 346Right-handed 310
Helix 28
28
B
349 360Right-handed alpha
Helix 29
29
B
397 401Right-handed 310
Helix 30
30
B
405 409Right-handed 310
Helix 31
31
B
413 441Right-handed alpha
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There are 4 sheets in PDB entry 1YKD. Click on sheet of interest to get list of strands forming it: A, B, C, D,

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
132 134first strand
Strand 2
A
115 121anti-parallel
Strand 3
A
101 110anti-parallel
Strand 4
A
191 200anti-parallel
Strand 5
A
179 185anti-parallel
Strand 6
A
150 152anti-parallel
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There are 6 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
315 321first strand
Strand 2
A
303 309anti-parallel
Strand 3
A
289 298anti-parallel
Strand 4
A
378 387anti-parallel
Strand 5
A
366 372anti-parallel
Strand 6
A
337 339anti-parallel
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There are 6 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
132 134first strand
Strand 2
B
115 122anti-parallel
Strand 3
B
101 110anti-parallel
Strand 4
B
191 200anti-parallel
Strand 5
B
179 185anti-parallel
Strand 6
B
150 152anti-parallel
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There are 6 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
315 321first strand
Strand 2
B
303 309anti-parallel
Strand 3
B
289 298anti-parallel
Strand 4
B
378 387anti-parallel
Strand 5
B
366 372anti-parallel
Strand 6
B
337 339anti-parallel
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