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


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 1YPP entry

There are 2 chains in PDB entry 1YPP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 1ILE 282
B
 THR 1ILE 282
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 15 helices in PDB entry 1YPP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
38 40Right-handed 310
Helix 2
2
A
64 66Right-handed 310
Helix 3
3
A
165 167Right-handed 310
Helix 4
4
A
171 177Right-handed alpha
Helix 5
5
A
183 191Right-handed alpha
Helix 6
6
A
194 196Right-handed 310
Helix 7
7
A
204 207Right-handed 310
Helix 8
8
A
212 231Right-handed alpha
Helix 9
9
B
165 167Right-handed 310
Helix 10
10
B
171 177Right-handed 310
Helix 11
11
B
183 191Right-handed alpha
Helix 12
12
B
194 196Right-handed 310
Helix 13
13
B
205 207Right-handed 310
Helix 14
14
B
212 231Right-handed alpha
Helix 15
15
B
257 260Right-handed alpha
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There are 16 sheets in PDB entry 1YPP. Click on sheet of interest to get list of strands forming it: S11, S12, S13, S14, S21, S22, S23, S3, S41, S42, S43, S44, S51, S52, S53, S6,

There are 6 strands in S11 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
150 160first strand
Strand 2
A
133 140anti-parallel
Strand 3
A
42 49anti-parallel
Strand 4
A
92 95anti-parallel
Strand 5
A
116 123anti-parallel
Strand 6
A
150 160parallel
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There are 6 strands in S12 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
150 160first strand
Strand 2
A
133 140anti-parallel
Strand 3
A
42 49anti-parallel
Strand 4
A
99 101anti-parallel
Strand 5
A
116 123anti-parallel
Strand 6
A
150 160parallel
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There are 4 strands in S13 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
150 160first strand
Strand 2
A
133 140anti-parallel
Strand 3
A
42 49anti-parallel
Strand 4
A
34 36anti-parallel
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There are 3 strands in S14 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
150 160first strand
Strand 2
A
141 147anti-parallel
Strand 3
A
202 204anti-parallel
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There are 3 strands in S21 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
56 60first strand
Strand 2
A
67 73anti-parallel
Strand 3
A
76 76anti-parallel
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There are 5 strands in S22 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
56 60first strand
Strand 2
A
67 73anti-parallel
Strand 3
A
16 22anti-parallel
Strand 4
A
1 8anti-parallel
Strand 5
A
265 267parallel
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There are 4 strands in S23 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
24 26first strand
Strand 2
A
16 22anti-parallel
Strand 3
A
1 8anti-parallel
Strand 4
A
265 267parallel
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There are 2 strands in S3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
82 84first strand
Strand 2
A
278 280parallel
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There are 6 strands in S41 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
150 160first strand
Strand 2
B
133 140anti-parallel
Strand 3
B
42 49anti-parallel
Strand 4
B
92 95anti-parallel
Strand 5
B
116 123anti-parallel
Strand 6
B
150 160parallel
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There are 6 strands in S42 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
150 160first strand
Strand 2
B
133 140anti-parallel
Strand 3
B
42 49anti-parallel
Strand 4
B
99 101anti-parallel
Strand 5
B
116 123anti-parallel
Strand 6
B
150 160parallel
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There are 4 strands in S43 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
150 160first strand
Strand 2
B
133 140anti-parallel
Strand 3
B
42 49anti-parallel
Strand 4
B
34 36anti-parallel
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There are 3 strands in S44 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
150 160first strand
Strand 2
B
141 147anti-parallel
Strand 3
B
202 204anti-parallel
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There are 3 strands in S51 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
56 60first strand
Strand 2
B
67 73anti-parallel
Strand 3
B
76 76anti-parallel
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There are 5 strands in S52 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
56 60first strand
Strand 2
B
67 73anti-parallel
Strand 3
B
16 22anti-parallel
Strand 4
B
1 8anti-parallel
Strand 5
B
265 267parallel
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There are 4 strands in S53 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
24 26first strand
Strand 2
B
16 22anti-parallel
Strand 3
B
1 8anti-parallel
Strand 4
B
265 267parallel
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There are 2 strands in S6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
82 84first strand
Strand 2
B
278 280parallel
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