Analysis of interatomic Contacts of Structural Units in PDB entry:
5DUP


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 5DUP entry

There are 3 chains in PDB entry 5DUP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 53LYS 259
H
 GLU 1PRO 227
L
 SER 2ARG 213
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 9 helices in PDB entry 5DUP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
57 63Right-handed alpha
Helix 2
AA2
A
97 106Right-handed alpha
Helix 3
AA3
A
118 122Right-handed 310
Helix 4
AA4
A
183 191Right-handed alpha
Helix 5
AA5
H
28 32Right-handed 310
Helix 6
AA6
H
170 172Right-handed 310
Helix 7
AA7
H
215 218Right-handed 310
Helix 8
AA8
L
124 130Right-handed alpha
Helix 9
AA9
L
184 189Right-handed alpha
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There are 14 sheets in PDB entry 5DUP. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5,

There are 5 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
110 115first strand
Strand 2
A
252 257anti-parallel
Strand 3
A
171 180anti-parallel
Strand 4
A
247 250anti-parallel
Strand 5
A
147 149anti-parallel
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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
110 115first strand
Strand 2
A
252 257anti-parallel
Strand 3
A
171 180anti-parallel
Strand 4
A
225 233anti-parallel
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There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
132 137first strand
Strand 2
A
140 142anti-parallel
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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
162 165first strand
Strand 2
A
238 242anti-parallel
Strand 3
A
198 201anti-parallel
Strand 4
A
206 209anti-parallel
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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
3 6first strand
Strand 2
H
16 25anti-parallel
Strand 3
H
79 87anti-parallel
Strand 4
H
69 74anti-parallel
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There are 6 strands in AA6 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
122 126parallel
Strand 3
H
93 101anti-parallel
Strand 4
H
33 39anti-parallel
Strand 5
H
45 51anti-parallel
Strand 6
H
60 61anti-parallel
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There are 4 strands in AA7 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
122 126parallel
Strand 3
H
93 101anti-parallel
Strand 4
H
114 118anti-parallel
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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
134 138first strand
Strand 2
H
152 159anti-parallel
Strand 3
H
190 196anti-parallel
Strand 4
H
178 179anti-parallel
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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
165 168first strand
Strand 2
H
208 214anti-parallel
Strand 3
H
219 225anti-parallel
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There are 3 strands in AB1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
18 22first strand
Strand 2
L
72 77anti-parallel
Strand 3
L
64 69anti-parallel
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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
46 50first strand
Strand 2
L
36 40anti-parallel
Strand 3
L
87 92anti-parallel
Strand 4
L
99 100anti-parallel
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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
116 120first strand
Strand 2
L
132 141anti-parallel
Strand 3
L
175 183anti-parallel
Strand 4
L
161 166anti-parallel
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There are 3 strands in AB4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
147 149first strand
Strand 2
L
193 199anti-parallel
Strand 3
L
207 212anti-parallel
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There are 2 strands in AB5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
151 152first strand
Strand 2
L
155 156anti-parallel
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