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


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 1YRP entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 4 chains in PDB entry 1YRP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 2MET 264
A
 ILE 266ALA 277
B
 SER 2MET 264
B
 ILE 266ALA 277
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 20 helices in PDB entry 1YRP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
8 11Right-handed 310
Helix 2
2
A
57 71Right-handed alpha
Helix 3
3
A
100 107Right-handed alpha
Helix 4
4
A
112 133Right-handed alpha
Helix 5
5
A
185 190Right-handed alpha
Helix 6
6
A
196 213Right-handed alpha
Helix 7
7
A
221 232Right-handed alpha
Helix 8
8
A
237 242Right-handed alpha
Helix 9
9
A
245 254Right-handed alpha
Helix 10
10
A
265 271Right-handed alpha
Helix 11
11
B
8 11Right-handed 310
Helix 12
12
B
57 71Right-handed alpha
Helix 13
13
B
100 107Right-handed alpha
Helix 14
14
B
112 133Right-handed alpha
Helix 15
15
B
185 190Right-handed alpha
Helix 16
16
B
196 213Right-handed alpha
Helix 17
17
B
221 232Right-handed alpha
Helix 18
18
B
237 242Right-handed alpha
Helix 19
19
B
245 254Right-handed alpha
Helix 20
20
B
265 271Right-handed alpha
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There are 6 sheets in PDB entry 1YRP. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 5 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
13 21first strand
Strand 2
A
25 32anti-parallel
Strand 3
A
38 45anti-parallel
Strand 4
A
88 93anti-parallel
Strand 5
A
79 84anti-parallel
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There are 2 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
135 136first strand
Strand 2
A
166 167anti-parallel
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There are 2 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
145 147first strand
Strand 2
A
157 159anti-parallel
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There are 5 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
13 21first strand
Strand 2
B
25 32anti-parallel
Strand 3
B
38 45anti-parallel
Strand 4
B
88 93anti-parallel
Strand 5
B
79 84anti-parallel
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There are 2 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
135 136first strand
Strand 2
B
166 167anti-parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
145 147first strand
Strand 2
B
157 159anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il