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


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 1NAK entry

There are 6 chains in PDB entry 1NAK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
L
 ASP 1ASN 212
H
 GLU 1ASP 229
P
 LYS 312ALA 323
M
 ASP 1ASN 212
I
 GLU 1ASP 229
Q
 LYS 312ALA 323
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 12 helices in PDB entry 1NAK. 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 189Right-handed alpha
Helix 4
4
H
28 32Right-handed 310
Helix 5
5
H
83 87Right-handed 310
Helix 6
6
H
163 165Right-handed 310
Helix 7
7
M
79 83Right-handed 310
Helix 8
8
M
121 126Right-handed alpha
Helix 9
9
M
183 189Right-handed alpha
Helix 10
10
I
28 32Right-handed 310
Helix 11
11
I
83 87Right-handed 310
Helix 12
12
I
163 165Right-handed 310
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There are 18 sheets in PDB entry 1NAK. 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 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 14first strand
Strand 2
L
102 107parallel
Strand 3
L
84 90anti-parallel
Strand 4
L
33 38anti-parallel
Strand 5
L
44 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
77 82anti-parallel
Strand 4
H
67 72anti-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
11 12first strand
Strand 2
H
107 111parallel
Strand 3
H
88 94anti-parallel
Strand 4
H
34 40anti-parallel
Strand 5
H
44 51anti-parallel
Strand 6
H
57 59anti-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
120 124first strand
Strand 2
H
137 147anti-parallel
Strand 3
H
184 194anti-parallel
Strand 4
H
171 179anti-parallel
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There are 3 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
153 157first strand
Strand 2
H
207 212anti-parallel
Strand 3
H
217 222anti-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
M
4 7first strand
Strand 2
M
19 25anti-parallel
Strand 3
M
70 75anti-parallel
Strand 4
M
62 67anti-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
M
10 14first strand
Strand 2
M
102 107parallel
Strand 3
M
84 90anti-parallel
Strand 4
M
33 38anti-parallel
Strand 5
M
44 49anti-parallel
Strand 6
M
53 54anti-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
M
10 14first strand
Strand 2
M
102 107parallel
Strand 3
M
84 90anti-parallel
Strand 4
M
97 98anti-parallel
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There are 4 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
M
114 118first strand
Strand 2
M
129 139anti-parallel
Strand 3
M
173 182anti-parallel
Strand 4
M
159 163anti-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
M
153 154first strand
Strand 2
M
145 150anti-parallel
Strand 3
M
191 197anti-parallel
Strand 4
M
205 210anti-parallel
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There are 4 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
3 7first strand
Strand 2
I
18 25anti-parallel
Strand 3
I
77 82anti-parallel
Strand 4
I
67 72anti-parallel
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There are 6 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
11 12first strand
Strand 2
I
107 111parallel
Strand 3
I
88 94anti-parallel
Strand 4
I
34 40anti-parallel
Strand 5
I
44 51anti-parallel
Strand 6
I
57 59anti-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
I
120 124first strand
Strand 2
I
137 147anti-parallel
Strand 3
I
184 194anti-parallel
Strand 4
I
171 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
I
120 124first strand
Strand 2
I
137 147anti-parallel
Strand 3
I
184 194anti-parallel
Strand 4
I
177 179anti-parallel
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There are 3 strands in R sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
153 157first strand
Strand 2
I
207 212anti-parallel
Strand 3
I
217 222anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il