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


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 1YDM entry

There are 3 chains in PDB entry 1YDM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 4PHE 186
B
 GLN 4PHE 186
C
 GLN 4PHE 186
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 25 helices in PDB entry 1YDM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
4 16Right-handed alpha
Helix 2
2
A
17 34Right-handed alpha
Helix 3
3
A
35 40Right-handed alpha
Helix 4
4
A
56 66Right-handed alpha
Helix 5
5
A
92 98Right-handed alpha
Helix 6
6
A
112 116Right-handed 310
Helix 7
7
A
142 146Right-handed 310
Helix 8
8
A
156 158Right-handed 310
Helix 9
9
B
5 16Right-handed alpha
Helix 10
10
B
17 34Right-handed alpha
Helix 11
11
B
35 40Right-handed alpha
Helix 12
12
B
56 66Right-handed alpha
Helix 13
13
B
92 98Right-handed alpha
Helix 14
14
B
112 116Right-handed 310
Helix 15
15
B
138 144Right-handed alpha
Helix 16
16
B
145 147Right-handed 310
Helix 17
17
B
156 158Right-handed 310
Helix 18
18
C
4 16Right-handed alpha
Helix 19
19
C
17 34Right-handed alpha
Helix 20
20
C
35 40Right-handed alpha
Helix 21
21
C
56 66Right-handed alpha
Helix 22
22
C
92 97Right-handed alpha
Helix 23
23
C
112 116Right-handed 310
Helix 24
24
C
138 147Right-handed alpha
Helix 25
25
C
156 158Right-handed 310
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There are 6 sheets in PDB entry 1YDM. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 7 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
84 86first strand
Strand 2
A
69 73anti-parallel
Strand 3
A
43 45parallel
Strand 4
A
118 120parallel
Strand 5
A
150 154parallel
Strand 6
A
175 177parallel
Strand 7
A
182 184anti-parallel
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There are 3 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
132 133first strand
Strand 2
A
125 127anti-parallel
Strand 3
A
160 161parallel
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There are 7 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
85 86first strand
Strand 2
B
69 72anti-parallel
Strand 3
B
43 45parallel
Strand 4
B
118 120parallel
Strand 5
B
150 154parallel
Strand 6
B
175 177parallel
Strand 7
B
182 184anti-parallel
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There are 3 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
132 133first strand
Strand 2
B
125 127anti-parallel
Strand 3
B
160 161parallel
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There are 6 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
82 86first strand
Strand 2
C
69 75anti-parallel
Strand 3
C
43 45parallel
Strand 4
C
118 121parallel
Strand 5
C
152 154parallel
Strand 6
C
175 177parallel
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There are 3 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
132 133first strand
Strand 2
C
125 127anti-parallel
Strand 3
C
160 161parallel
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