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


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 1YMM entry

There are 5 chains in PDB entry 1YMM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LYS 2PRO 183
B
 THR 3ARG 189
C
 GLU 85PRO 98
D
 GLN 9THR 104
E
 GLY 1ARG 246
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 11 helices in PDB entry 1YMM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
45 51Right-handed 310
Helix 2
2
A
56 77Right-handed alpha
Helix 3
3
B
19 22Right-handed 310
Helix 4
4
B
51 53Right-handed 310
Helix 5
5
B
54 64Right-handed alpha
Helix 6
6
B
65 78Right-handed alpha
Helix 7
7
B
78 87Right-handed alpha
Helix 8
8
B
88 90Right-handed 310
Helix 9
9
D
66 70Right-handed 310
Helix 10
10
E
120 124Right-handed 310
Helix 11
11
E
137 142Right-handed alpha
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There are 14 sheets in PDB entry 1YMM. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N,

There are 6 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
42 43first strand
Strand 2
A
29 34anti-parallel
Strand 3
A
19 26anti-parallel
Strand 4
A
6 15anti-parallel
Strand 5
B
12 18anti-parallel
Strand 6
B
23 25anti-parallel
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There are 6 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
7 9first strand
Strand 2
A
6 15anti-parallel
Strand 3
B
12 18anti-parallel
Strand 4
B
27 32anti-parallel
Strand 5
B
35 41anti-parallel
Strand 6
B
48 49anti-parallel
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There are 4 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
91 93first strand
Strand 2
A
103 112anti-parallel
Strand 3
A
145 153anti-parallel
Strand 4
A
133 134anti-parallel
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There are 4 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
91 93first strand
Strand 2
A
103 112anti-parallel
Strand 3
A
145 153anti-parallel
Strand 4
A
138 139anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
126 128first strand
Strand 2
A
118 123anti-parallel
Strand 3
A
161 166anti-parallel
Strand 4
A
174 178anti-parallel
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There are 4 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
98 102first strand
Strand 2
B
115 122anti-parallel
Strand 3
B
155 161anti-parallel
Strand 4
B
142 143anti-parallel
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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
136 138first strand
Strand 2
B
128 133anti-parallel
Strand 3
B
171 176anti-parallel
Strand 4
B
184 188anti-parallel
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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
48 50first strand
Strand 2
D
29 35anti-parallel
Strand 3
D
88 93anti-parallel
Strand 4
D
100 102anti-parallel
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There are 2 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
4 6first strand
Strand 2
E
23 25anti-parallel
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There are 2 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
10 12first strand
Strand 2
E
114 116parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
20 21first strand
Strand 2
E
79 80anti-parallel
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There are 4 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
58 59first strand
Strand 2
E
46 51anti-parallel
Strand 3
E
32 38anti-parallel
Strand 4
E
91 95anti-parallel
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There are 3 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
128 129first strand
Strand 2
E
146 152anti-parallel
Strand 3
E
195 199anti-parallel
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There are 3 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
163 164first strand
Strand 2
E
212 217anti-parallel
Strand 3
E
238 243anti-parallel
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