Analysis of interatomic Contacts of Structural Units in PDB entry:
3J8F


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 3J8F entry

There are 5 chains in PDB entry 3J8F (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
1
 ALA 20TYR 302
2
 ALA 6GLN 272
3
 GLY 1ALA 235
4
 GLY 2ASN 69
7
 ASP 28PRO 333
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 18 helices in PDB entry 3J8F. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
1
46 50Right-handed 310
Helix 2
2
1
76 81Right-handed alpha
Helix 3
3
1
115 123Right-handed alpha
Helix 4
4
1
172 177Right-handed 310
Helix 5
5
2
43 47Right-handed 310
Helix 6
6
2
57 62Right-handed alpha
Helix 7
7
2
82 87Right-handed alpha
Helix 8
8
2
90 98Right-handed alpha
Helix 9
9
2
144 149Right-handed alpha
Helix 10
10
2
150 154Right-handed 310
Helix 11
11
3
42 49Right-handed 310
Helix 12
12
3
64 68Right-handed 310
Helix 13
13
3
98 104Right-handed alpha
Helix 14
14
3
105 107Right-handed 310
Helix 15
15
3
144 149Right-handed alpha
Helix 16
16
4
35 39Right-handed 310
Helix 17
17
4
49 53Right-handed 310
Helix 18
18
7
211 215Right-handed 310
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There are 19 sheets in PDB entry 3J8F. 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, O, P, Q, R, S,

There are 3 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
1
85 88first strand
Strand 2
1
253 261anti-parallel
Strand 3
1
91 94anti-parallel
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There are 4 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
1
85 88first strand
Strand 2
1
253 261anti-parallel
Strand 3
1
133 142anti-parallel
Strand 4
1
192 195anti-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
1
106 110first strand
Strand 2
1
238 243anti-parallel
Strand 3
1
154 160anti-parallel
Strand 4
1
182 186anti-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
1
205 206first strand
Strand 2
1
125 129anti-parallel
Strand 3
1
267 271anti-parallel
Strand 4
3
39 40anti-parallel
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There are 3 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
2
64 65first strand
Strand 2
2
247 253anti-parallel
Strand 3
2
69 71anti-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
2
64 65first strand
Strand 2
2
247 253anti-parallel
Strand 3
2
106 111anti-parallel
Strand 4
2
205 210anti-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
2
78 79first strand
Strand 2
2
227 238anti-parallel
Strand 3
2
119 128anti-parallel
Strand 4
2
195 199anti-parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
2
99 103first strand
Strand 2
2
259 263anti-parallel
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There are 3 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
3
51 52first strand
Strand 2
3
209 216anti-parallel
Strand 3
3
70 71anti-parallel
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There are 4 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
3
51 52first strand
Strand 2
3
209 216anti-parallel
Strand 3
3
114 121anti-parallel
Strand 4
3
163 168anti-parallel
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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
3
109 111first strand
Strand 2
3
221 223anti-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
3
152 157first strand
Strand 2
3
129 135anti-parallel
Strand 3
3
189 194anti-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
4
6 7first strand
Strand 2
4
26 27anti-parallel
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There are 2 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
7
46 47first strand
Strand 2
7
108 109anti-parallel
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There are 4 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
7
77 79first strand
Strand 2
7
60 65anti-parallel
Strand 3
7
119 128anti-parallel
Strand 4
7
131 139anti-parallel
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There are 4 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
7
146 148first strand
Strand 2
7
161 171anti-parallel
Strand 3
7
200 208anti-parallel
Strand 4
7
186 193anti-parallel
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There are 3 strands in Q sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
7
176 180first strand
Strand 2
7
218 224anti-parallel
Strand 3
7
232 237anti-parallel
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There are 4 strands in R sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
7
242 249first strand
Strand 2
7
262 271anti-parallel
Strand 3
7
296 299anti-parallel
Strand 4
7
290 293anti-parallel
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There are 3 strands in S sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
7
276 281first strand
Strand 2
7
307 315anti-parallel
Strand 3
7
320 328anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il