Analysis of interatomic Contacts of Structural Units in PDB entry:
3D87


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 3D87 entry

There are 4 chains in PDB entry 3D87 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 1LEU 168
B
 ILE 1SER 306
C
 ARG 1PRO 170
D
 ILE 1CYS 305
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 17 helices in PDB entry 3D87. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
10 25Right-handed alpha
Helix 2
2
A
53 57Right-handed 310
Helix 3
3
A
59 66Right-handed alpha
Helix 4
4
A
67 87Right-handed alpha
Helix 5
5
A
100 117Right-handed alpha
Helix 6
6
A
135 168Right-handed alpha
Helix 7
7
B
59 63Right-handed 310
Helix 8
8
B
206 210Right-handed 310
Helix 9
9
C
10 28Right-handed alpha
Helix 10
10
C
53 57Right-handed 310
Helix 11
11
C
59 65Right-handed alpha
Helix 12
12
C
67 87Right-handed alpha
Helix 13
13
C
87 92Right-handed alpha
Helix 14
14
C
100 115Right-handed alpha
Helix 15
15
C
135 168Right-handed alpha
Helix 16
16
D
59 63Right-handed 310
Helix 17
17
D
206 211Right-handed alpha
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There are 13 sheets in PDB entry 3D87. 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,

There are 10 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
2 5first strand
Strand 2
B
8 13anti-parallel
Strand 3
B
79 86parallel
Strand 4
B
197 205parallel
Strand 5
B
186 194anti-parallel
Strand 6
B
130 138anti-parallel
Strand 7
B
145 148anti-parallel
Strand 8
B
163 173anti-parallel
Strand 9
B
117 124anti-parallel
Strand 10
B
95 96anti-parallel
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There are 5 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
2 5first strand
Strand 2
B
8 13anti-parallel
Strand 3
B
79 86parallel
Strand 4
B
64 70anti-parallel
Strand 5
B
37 40anti-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
B
73 76first strand
Strand 2
B
64 70anti-parallel
Strand 3
B
79 86anti-parallel
Strand 4
B
89 90anti-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
B
108 110first strand
Strand 2
B
117 124anti-parallel
Strand 3
B
163 173anti-parallel
Strand 4
B
152 158anti-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
22 27first strand
Strand 2
B
52 57anti-parallel
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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
B
217 220first strand
Strand 2
B
230 235anti-parallel
Strand 3
B
273 276anti-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
266 269first strand
Strand 2
B
249 254anti-parallel
Strand 3
B
283 290anti-parallel
Strand 4
B
301 304anti-parallel
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There are 6 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
2 3first strand
Strand 2
D
8 13anti-parallel
Strand 3
D
77 86parallel
Strand 4
D
64 70anti-parallel
Strand 5
D
36 40anti-parallel
Strand 6
D
48 49anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
2 3first strand
Strand 2
D
8 13anti-parallel
Strand 3
D
77 86parallel
Strand 4
D
89 90anti-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
D
25 27first strand
Strand 2
D
52 54anti-parallel
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There are 7 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
108 110first strand
Strand 2
D
117 124anti-parallel
Strand 3
D
165 173anti-parallel
Strand 4
D
144 153anti-parallel
Strand 5
D
132 138anti-parallel
Strand 6
D
186 192anti-parallel
Strand 7
D
199 205anti-parallel
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There are 3 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
220 223first strand
Strand 2
D
229 233anti-parallel
Strand 3
D
273 277anti-parallel
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There are 2 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
249 251first strand
Strand 2
D
288 290anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il