Analysis of interatomic Contacts of Structural Units in PDB entry:
3JD7


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 3JD7 entry

There are 4 chains in PDB entry 3JD7 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
1
 GLY 12THR 281
2
 GLY 8GLN 263
3
 GLY 1GLN 238
4
 GLY 2ASN 69
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 3JD7. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
1
33 37Right-handed 310
Helix 2
2
1
59 62Right-handed 310
Helix 3
3
1
63 69Right-handed alpha
Helix 4
4
1
93 96Right-handed 310
Helix 5
5
1
97 104Right-handed alpha
Helix 6
6
1
156 161Right-handed 310
Helix 7
7
2
56 60Right-handed 310
Helix 8
8
2
85 88Right-handed 310
Helix 9
9
2
89 98Right-handed alpha
Helix 10
10
2
142 147Right-handed alpha
Helix 11
11
2
180 187Right-handed 310
Helix 12
12
3
43 48Right-handed alpha
Helix 13
13
3
60 69Right-handed 310
Helix 14
14
3
92 97Right-handed alpha
Helix 15
15
3
98 106Right-handed alpha
Helix 16
16
3
144 150Right-handed alpha
Helix 17
17
4
35 39Right-handed 310
Helix 18
18
4
49 53Right-handed 310
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There are 13 sheets in PDB entry 3JD7. 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 4 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
72 80first strand
Strand 2
1
229 237anti-parallel
Strand 3
1
115 124anti-parallel
Strand 4
1
177 179anti-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
87 91first strand
Strand 2
1
215 220anti-parallel
Strand 3
1
138 144anti-parallel
Strand 4
1
166 170anti-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
189 190first strand
Strand 2
1
107 111anti-parallel
Strand 3
1
243 247anti-parallel
Strand 4
3
39 40anti-parallel
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There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
2
14 18first strand
Strand 2
2
21 25anti-parallel
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There are 5 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
32 33first strand
Strand 2
2
199 204parallel
Strand 3
2
99 111anti-parallel
Strand 4
2
241 257anti-parallel
Strand 5
2
64 65anti-parallel
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There are 5 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
32 33first strand
Strand 2
2
199 204parallel
Strand 3
2
99 111anti-parallel
Strand 4
2
241 257anti-parallel
Strand 5
2
69 71anti-parallel
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There are 5 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
153 154first strand
Strand 2
2
78 81anti-parallel
Strand 3
2
221 225anti-parallel
Strand 4
2
124 128anti-parallel
Strand 5
2
189 190anti-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
119 121first strand
Strand 2
2
229 232anti-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
208 216anti-parallel
Strand 3
3
70 72anti-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
208 216anti-parallel
Strand 3
3
114 120anti-parallel
Strand 4
3
164 167anti-parallel
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There are 4 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
81 86first strand
Strand 2
3
189 199anti-parallel
Strand 3
3
127 135anti-parallel
Strand 4
3
152 157anti-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
177 178first strand
Strand 2
3
107 111anti-parallel
Strand 3
3
221 225anti-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
4 6first strand
Strand 2
4
27 29anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il