Analysis of interatomic Contacts of Structural Units in PDB entry:
2YKP


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 2YKP entry

There are 3 chains in PDB entry 2YKP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 110MET 323
B
 LEU 107MET 323
C
 SER 109MET 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 19 helices in PDB entry 2YKP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
111 153Right-handed alpha
Helix 2
2
A
171 185Right-handed alpha
Helix 3
3
A
224 237Right-handed alpha
Helix 4
4
A
255 262Right-handed alpha
Helix 5
5
A
265 273Right-handed alpha
Helix 6
6
A
300 307Right-handed alpha
Helix 7
7
A
311 316Right-handed alpha
Helix 8
8
B
108 154Right-handed alpha
Helix 9
9
B
171 185Right-handed alpha
Helix 10
10
B
224 237Right-handed alpha
Helix 11
11
B
255 273Right-handed alpha
Helix 12
12
B
300 306Right-handed alpha
Helix 13
13
B
311 317Right-handed alpha
Helix 14
14
C
110 153Right-handed alpha
Helix 15
15
C
171 185Right-handed alpha
Helix 16
16
C
224 237Right-handed alpha
Helix 17
17
C
255 273Right-handed alpha
Helix 18
18
C
300 307Right-handed alpha
Helix 19
19
C
311 317Right-handed alpha
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There are 7 sheets in PDB entry 2YKP. Click on sheet of interest to get list of strands forming it: AA, AB, BA, BB, CA, CB, CC,

There are 5 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
197 202first strand
Strand 2
A
217 221anti-parallel
Strand 3
A
158 161anti-parallel
Strand 4
A
245 251anti-parallel
Strand 5
A
240 242anti-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
A
279 281first strand
Strand 2
A
285 289anti-parallel
Strand 3
A
294 297anti-parallel
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There are 5 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
197 202first strand
Strand 2
B
217 221anti-parallel
Strand 3
B
157 161anti-parallel
Strand 4
B
245 251anti-parallel
Strand 5
B
240 242anti-parallel
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There are 3 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
279 281first strand
Strand 2
B
285 289anti-parallel
Strand 3
B
294 297anti-parallel
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There are 4 strands in CA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
197 202first strand
Strand 2
C
217 221anti-parallel
Strand 3
C
157 161anti-parallel
Strand 4
C
248 251anti-parallel
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There are 2 strands in CB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
241 242first strand
Strand 2
C
245 246anti-parallel
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There are 3 strands in CC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
279 281first strand
Strand 2
C
285 289anti-parallel
Strand 3
C
294 297anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il