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


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 1YKF entry

There are 4 chains in PDB entry 1YKF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1ALA 352
B
 MET 1ALA 352
C
 MET 1ALA 352
D
 MET 1ALA 352
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 56 helices in PDB entry 1YKF. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
38 45Right-handed alpha
Helix 2
2
A
93 97Right-handed alpha
Helix 3
3
A
100 102Right-handed 310
Helix 4
4
A
129 132Right-handed alpha
Helix 5
5
A
142 147Right-handed alpha
Helix 6
6
A
151 161Right-handed alpha
Helix 7
7
A
177 189Right-handed alpha
Helix 8
8
A
201 210Right-handed alpha
Helix 9
9
A
223 230Right-handed alpha
Helix 10
10
A
246 255Right-handed 310
Helix 11
11
A
282 284Right-handed 310
Helix 12
12
A
298 310Right-handed alpha
Helix 13
13
A
316 319Right-handed 310
Helix 14
14
A
327 338Right-handed 310
Helix 15
15
B
38 45Right-handed alpha
Helix 16
16
B
93 97Right-handed alpha
Helix 17
17
B
100 102Right-handed 310
Helix 18
18
B
129 132Right-handed alpha
Helix 19
19
B
142 147Right-handed alpha
Helix 20
20
B
151 161Right-handed alpha
Helix 21
21
B
177 189Right-handed alpha
Helix 22
22
B
201 210Right-handed alpha
Helix 23
23
B
223 230Right-handed alpha
Helix 24
24
B
246 255Right-handed 310
Helix 25
25
B
282 284Right-handed 310
Helix 26
26
B
298 310Right-handed alpha
Helix 27
27
B
316 319Right-handed 310
Helix 28
28
B
327 338Right-handed 310
Helix 29
29
C
38 45Right-handed alpha
Helix 30
30
C
93 97Right-handed alpha
Helix 31
31
C
100 102Right-handed 310
Helix 32
32
C
129 132Right-handed alpha
Helix 33
33
C
142 147Right-handed alpha
Helix 34
34
C
151 161Right-handed alpha
Helix 35
35
C
177 189Right-handed alpha
Helix 36
36
C
201 210Right-handed alpha
Helix 37
37
C
223 230Right-handed alpha
Helix 38
38
C
246 255Right-handed 310
Helix 39
39
C
282 284Right-handed 310
Helix 40
40
C
298 310Right-handed alpha
Helix 41
41
C
316 319Right-handed 310
Helix 42
42
C
327 338Right-handed 310
Helix 43
43
D
38 45Right-handed alpha
Helix 44
44
D
93 97Right-handed alpha
Helix 45
45
D
100 102Right-handed 310
Helix 46
46
D
129 132Right-handed alpha
Helix 47
47
D
142 147Right-handed alpha
Helix 48
48
D
151 161Right-handed alpha
Helix 49
49
D
177 189Right-handed alpha
Helix 50
50
D
201 210Right-handed alpha
Helix 51
51
D
223 230Right-handed alpha
Helix 52
52
D
246 255Right-handed 310
Helix 53
53
D
282 284Right-handed 310
Helix 54
54
D
298 310Right-handed alpha
Helix 55
55
D
316 319Right-handed 310
Helix 56
56
D
327 338Right-handed 310
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There are 18 sheets in PDB entry 1YKF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R,

There are 5 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
124 126first strand
Strand 2
A
27 31anti-parallel
Strand 3
A
61 68anti-parallel
Strand 4
A
80 83anti-parallel
Strand 5
A
133 135anti-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
289 292first strand
Strand 2
A
261 264parallel
Strand 3
A
238 241parallel
Strand 4
A
170 173parallel
Strand 5
A
194 197parallel
Strand 6
A
214 216parallel
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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
273 277first strand
Strand 2
B
273 277anti-parallel
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There are 5 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
124 126first strand
Strand 2
B
27 31anti-parallel
Strand 3
B
61 68anti-parallel
Strand 4
B
80 83anti-parallel
Strand 5
B
133 135anti-parallel
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There are 6 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
289 292first strand
Strand 2
B
261 264parallel
Strand 3
B
238 241parallel
Strand 4
B
170 173parallel
Strand 5
B
194 197parallel
Strand 6
B
214 216parallel
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There are 5 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
124 126first strand
Strand 2
C
27 31anti-parallel
Strand 3
C
61 68anti-parallel
Strand 4
C
80 83anti-parallel
Strand 5
C
133 135anti-parallel
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There are 6 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
289 292first strand
Strand 2
C
261 264parallel
Strand 3
C
238 241parallel
Strand 4
C
170 173parallel
Strand 5
C
194 197parallel
Strand 6
C
214 216parallel
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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
C
273 277first strand
Strand 2
D
273 277anti-parallel
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There are 5 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
124 126first strand
Strand 2
D
27 31anti-parallel
Strand 3
D
61 68anti-parallel
Strand 4
D
80 83anti-parallel
Strand 5
D
133 135anti-parallel
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There are 6 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
289 292first strand
Strand 2
D
261 264parallel
Strand 3
D
238 241parallel
Strand 4
D
170 173parallel
Strand 5
D
194 197parallel
Strand 6
D
214 216parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
2 8first strand
Strand 2
A
11 16anti-parallel
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There are 2 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
320 325first strand
Strand 2
A
346 350parallel
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There are 2 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
2 8first strand
Strand 2
B
11 16anti-parallel
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There are 2 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
320 325first strand
Strand 2
B
346 350parallel
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There are 2 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
2 8first strand
Strand 2
C
11 16anti-parallel
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There are 2 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
320 325first strand
Strand 2
C
346 350parallel
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There are 2 strands in Q sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
2 8first strand
Strand 2
D
11 16anti-parallel
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There are 2 strands in R sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
320 325first strand
Strand 2
D
346 350parallel
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