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


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 5KDO entry

There are 3 chains in PDB entry 5KDO (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 6ASP 345
B
 SER 2ASN 340
G
 THR 10LYS 65
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 26 helices in PDB entry 5KDO. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
7 32Right-handed alpha
Helix 2
AA2
A
45 58Right-handed alpha
Helix 3
AA3
A
62 68Right-handed alpha
Helix 4
AA4
A
69 92Right-handed alpha
Helix 5
AA5
A
99 114Right-handed alpha
Helix 6
AA6
A
120 133Right-handed alpha
Helix 7
AA7
A
133 141Right-handed alpha
Helix 8
AA8
A
142 146Right-handed 310
Helix 9
AA9
A
151 157Right-handed alpha
Helix 10
AB1
A
158 163Right-handed alpha
Helix 11
AB2
A
170 177Right-handed alpha
Helix 12
AB3
A
207 216Right-handed 310
Helix 13
AB4
A
228 232Right-handed 310
Helix 14
AB5
A
241 255Right-handed alpha
Helix 15
AB6
A
256 260Right-handed 310
Helix 16
AB7
A
270 281Right-handed alpha
Helix 17
AB8
A
282 286Right-handed 310
Helix 18
AB9
A
295 309Right-handed alpha
Helix 19
AC1
A
328 345Right-handed alpha
Helix 20
AC2
B
3 25Right-handed alpha
Helix 21
AC3
B
29 34Right-handed alpha
Helix 22
AC4
G
11 26Right-handed alpha
Helix 23
AC5
G
32 46Right-handed alpha
Helix 24
AC6
G
47 50Right-handed 310
Helix 25
AC7
G
51 56Right-handed alpha
Helix 26
AC8
G
58 62Right-handed 310
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There are 8 sheets in PDB entry 5KDO. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 6 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
185 190first strand
Strand 2
A
195 200anti-parallel
Strand 3
A
34 40parallel
Strand 4
A
220 226parallel
Strand 5
A
263 269parallel
Strand 6
A
319 323parallel
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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
B
46 51first strand
Strand 2
B
336 340anti-parallel
Strand 3
B
327 331anti-parallel
Strand 4
B
315 320anti-parallel
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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
58 63first strand
Strand 2
B
69 74anti-parallel
Strand 3
B
78 83anti-parallel
Strand 4
B
88 94anti-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
B
100 105first strand
Strand 2
B
111 116anti-parallel
Strand 3
B
121 125anti-parallel
Strand 4
B
134 139anti-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
B
146 153first strand
Strand 2
B
156 161anti-parallel
Strand 3
B
166 170anti-parallel
Strand 4
B
175 180anti-parallel
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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
187 192first strand
Strand 2
B
198 203anti-parallel
Strand 3
B
208 212anti-parallel
Strand 4
B
217 222anti-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
B
229 234first strand
Strand 2
B
240 245anti-parallel
Strand 3
B
250 254anti-parallel
Strand 4
B
259 264anti-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
B
273 278first strand
Strand 2
B
284 289anti-parallel
Strand 3
B
294 298anti-parallel
Strand 4
B
304 308anti-parallel
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