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


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 1DBM entry

There are 2 chains in PDB entry 1DBM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
L
 ASP 1ARG 211
H
 GLN 1ARG 228
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 9 helices in PDB entry 1DBM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
L
79 83Right-handed 310
Helix 2
2
L
121 126Right-handed alpha
Helix 3
3
L
183 188Right-handed alpha
Helix 4
4
H
28 31Right-handed 310
Helix 5
5
H
61 64Right-handed 310
Helix 6
6
H
73 75Right-handed 310
Helix 7
7
H
83 87Right-handed 310
Helix 8
8
H
163 165Right-handed 310
Helix 9
9
H
213 216Right-handed 310
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There are 11 sheets in PDB entry 1DBM. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

There are 5 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
53 54first strand
Strand 2
L
45 49anti-parallel
Strand 3
L
33 38anti-parallel
Strand 4
L
85 90anti-parallel
Strand 5
L
97 98anti-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
L
53 54first strand
Strand 2
L
45 49anti-parallel
Strand 3
L
33 38anti-parallel
Strand 4
L
85 90anti-parallel
Strand 5
L
102 106anti-parallel
Strand 6
L
10 13parallel
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There are 3 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
19 24first strand
Strand 2
L
70 75anti-parallel
Strand 3
L
62 63anti-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
L
19 24first strand
Strand 2
L
70 75anti-parallel
Strand 3
L
66 67anti-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
L
114 118first strand
Strand 2
L
129 139anti-parallel
Strand 3
L
173 182anti-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
L
145 149first strand
Strand 2
L
191 197anti-parallel
Strand 3
L
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
H
3 6first strand
Strand 2
H
18 25anti-parallel
Strand 3
H
77 82anti-parallel
Strand 4
H
68 72anti-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
H
56 59first strand
Strand 2
H
45 52anti-parallel
Strand 3
H
33 39anti-parallel
Strand 4
H
88 95anti-parallel
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There are 6 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
56 59first strand
Strand 2
H
45 52anti-parallel
Strand 3
H
33 39anti-parallel
Strand 4
H
88 95anti-parallel
Strand 5
H
108 111anti-parallel
Strand 6
H
10 12parallel
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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
H
120 124first strand
Strand 2
H
137 147anti-parallel
Strand 3
H
184 194anti-parallel
Strand 4
H
177 179anti-parallel
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There are 3 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
153 157first strand
Strand 2
H
207 212anti-parallel
Strand 3
H
217 222anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il