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


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 4NYL entry

There are 8 chains in PDB entry 4NYL (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
L
 ILE 2GLY 212
H
 GLU 1VAL 219
B
 ASP 1ILE 117
A
 GLU 1THR 213
D
 ASP 1ARG 211
C
 GLU 1GLU 220
F
 ASP 1SER 176
E
 GLU 1SER 185
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 18 helices in PDB entry 4NYL. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
L
79 83Right-handed 310
Helix 2
2
L
121 126Right-handed alpha
Helix 3
3
L
183 187Right-handed alpha
Helix 4
4
H
28 32Right-handed 310
Helix 5
5
H
87 91Right-handed 310
Helix 6
6
H
209 212Right-handed 310
Helix 7
7
A
28 32Right-handed 310
Helix 8
8
A
87 91Right-handed 310
Helix 9
9
D
79 83Right-handed 310
Helix 10
10
D
121 128Right-handed alpha
Helix 11
11
D
183 188Right-handed alpha
Helix 12
12
C
28 32Right-handed 310
Helix 13
13
C
87 91Right-handed 310
Helix 14
14
C
195 198Right-handed 310
Helix 15
15
C
209 212Right-handed 310
Helix 16
16
F
79 83Right-handed 310
Helix 17
17
E
28 32Right-handed 310
Helix 18
18
E
87 91Right-handed 310
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There are 35 sheets in PDB entry 4NYL. 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, S, T, U, V, W, X, Y, Z, AA, AB, AC, AD, AE, AF, AG, AH, AI,

There are 4 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
4 7first strand
Strand 2
L
19 25anti-parallel
Strand 3
L
70 75anti-parallel
Strand 4
L
62 67anti-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
L
10 13first strand
Strand 2
L
102 106parallel
Strand 3
L
84 90anti-parallel
Strand 4
L
33 38anti-parallel
Strand 5
L
45 49anti-parallel
Strand 6
L
53 54anti-parallel
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There are 4 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
114 118first strand
Strand 2
L
129 139anti-parallel
Strand 3
L
173 182anti-parallel
Strand 4
L
159 163anti-parallel
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There are 4 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
153 154first strand
Strand 2
L
145 150anti-parallel
Strand 3
L
191 197anti-parallel
Strand 4
L
205 210anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
3 7first strand
Strand 2
H
18 25anti-parallel
Strand 3
H
78 83anti-parallel
Strand 4
H
68 73anti-parallel
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There are 6 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
10 12first strand
Strand 2
H
115 119parallel
Strand 3
H
92 99anti-parallel
Strand 4
H
34 39anti-parallel
Strand 5
H
45 51anti-parallel
Strand 6
H
58 60anti-parallel
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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
10 12first strand
Strand 2
H
115 119parallel
Strand 3
H
92 99anti-parallel
Strand 4
H
108 111anti-parallel
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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
128 132first strand
Strand 2
H
143 153anti-parallel
Strand 3
H
184 193anti-parallel
Strand 4
H
172 173anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
128 132first strand
Strand 2
H
143 153anti-parallel
Strand 3
H
184 193anti-parallel
Strand 4
H
177 178anti-parallel
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There are 3 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
159 162first strand
Strand 2
H
204 208anti-parallel
Strand 3
H
213 216anti-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
4 7first strand
Strand 2
B
21 25anti-parallel
Strand 3
B
70 75anti-parallel
Strand 4
B
62 67anti-parallel
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There are 6 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
10 13first strand
Strand 2
B
102 106parallel
Strand 3
B
84 90anti-parallel
Strand 4
B
33 38anti-parallel
Strand 5
B
45 49anti-parallel
Strand 6
B
53 54anti-parallel
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There are 4 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
3 7first strand
Strand 2
A
18 25anti-parallel
Strand 3
A
78 83anti-parallel
Strand 4
A
68 73anti-parallel
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There are 6 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
10 12first strand
Strand 2
A
116 119parallel
Strand 3
A
92 99anti-parallel
Strand 4
A
34 39anti-parallel
Strand 5
A
45 51anti-parallel
Strand 6
A
58 60anti-parallel
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There are 4 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
10 12first strand
Strand 2
A
116 119parallel
Strand 3
A
92 99anti-parallel
Strand 4
A
108 111anti-parallel
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There are 4 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
128 130first strand
Strand 2
A
149 153anti-parallel
Strand 3
A
184 189anti-parallel
Strand 4
A
172 173anti-parallel
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There are 4 strands in Q sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
128 130first strand
Strand 2
A
149 153anti-parallel
Strand 3
A
184 189anti-parallel
Strand 4
A
177 178anti-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
A
158 162first strand
Strand 2
A
204 208anti-parallel
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There are 4 strands in S sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
4 7first strand
Strand 2
D
19 25anti-parallel
Strand 3
D
70 75anti-parallel
Strand 4
D
62 67anti-parallel
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There are 6 strands in T sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
10 13first strand
Strand 2
D
102 106parallel
Strand 3
D
84 90anti-parallel
Strand 4
D
33 38anti-parallel
Strand 5
D
45 49anti-parallel
Strand 6
D
53 54anti-parallel
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There are 4 strands in U sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
114 118first strand
Strand 2
D
129 139anti-parallel
Strand 3
D
173 182anti-parallel
Strand 4
D
159 163anti-parallel
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There are 3 strands in V sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
145 150first strand
Strand 2
D
192 197anti-parallel
Strand 3
D
205 209anti-parallel
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There are 4 strands in W sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
3 7first strand
Strand 2
C
18 25anti-parallel
Strand 3
C
78 83anti-parallel
Strand 4
C
68 73anti-parallel
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There are 6 strands in X sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
10 12first strand
Strand 2
C
115 119parallel
Strand 3
C
92 99anti-parallel
Strand 4
C
34 39anti-parallel
Strand 5
C
45 51anti-parallel
Strand 6
C
58 60anti-parallel
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There are 4 strands in Y sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
10 12first strand
Strand 2
C
115 119parallel
Strand 3
C
92 99anti-parallel
Strand 4
C
108 111anti-parallel
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There are 4 strands in Z sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
128 132first strand
Strand 2
C
143 153anti-parallel
Strand 3
C
184 193anti-parallel
Strand 4
C
172 173anti-parallel
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There are 4 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
128 132first strand
Strand 2
C
143 153anti-parallel
Strand 3
C
184 193anti-parallel
Strand 4
C
177 178anti-parallel
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There are 3 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
159 162first strand
Strand 2
C
203 208anti-parallel
Strand 3
C
213 218anti-parallel
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There are 4 strands in AC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
4 7first strand
Strand 2
F
19 25anti-parallel
Strand 3
F
70 75anti-parallel
Strand 4
F
62 66anti-parallel
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There are 6 strands in AD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
10 13first strand
Strand 2
F
102 106parallel
Strand 3
F
84 90anti-parallel
Strand 4
F
33 38anti-parallel
Strand 5
F
45 49anti-parallel
Strand 6
F
53 54anti-parallel
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There are 2 strands in AE sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
163 164first strand
Strand 2
F
174 175anti-parallel
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There are 4 strands in AF sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
3 7first strand
Strand 2
E
18 25anti-parallel
Strand 3
E
78 83anti-parallel
Strand 4
E
69 73anti-parallel
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There are 6 strands in AG sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
10 12first strand
Strand 2
E
115 119parallel
Strand 3
E
92 99anti-parallel
Strand 4
E
34 39anti-parallel
Strand 5
E
45 51anti-parallel
Strand 6
E
58 60anti-parallel
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There are 4 strands in AH sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
10 12first strand
Strand 2
E
115 119parallel
Strand 3
E
92 99anti-parallel
Strand 4
E
108 111anti-parallel
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There are 2 strands in AI sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
177 178first strand
Strand 2
E
184 185anti-parallel
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