Analysis of interatomic Contacts of Structural Units in PDB entry:
8DKM


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 8DKM entry

There are 3 chains in PDB entry 8DKM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 1ALA 113
B
 ASP 1ILE 106
P
 VAL 24TYR 357
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 13 helices in PDB entry 8DKM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
88 92Right-handed 310
Helix 2
AA2
B
79 83Right-handed 310
Helix 3
AA3
P
120 141Right-handed alpha
Helix 4
AA4
P
141 150Right-handed alpha
Helix 5
AA5
P
159 179Right-handed alpha
Helix 6
AA6
P
183 194Right-handed alpha
Helix 7
AA7
P
202 226Right-handed alpha
Helix 8
AA8
P
234 257Right-handed alpha
Helix 9
AA9
P
261 279Right-handed alpha
Helix 10
AB1
P
281 292Right-handed alpha
Helix 11
AB2
P
298 323Right-handed alpha
Helix 12
AB3
P
325 330Right-handed alpha
Helix 13
AB4
P
332 355Right-handed alpha
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There are 8 sheets in PDB entry 8DKM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 4 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
5 7first strand
Strand 2
A
17 23anti-parallel
Strand 3
A
79 85anti-parallel
Strand 4
A
69 74anti-parallel
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There are 3 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
45 50first strand
Strand 2
A
35 39anti-parallel
Strand 3
A
94 98anti-parallel
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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
5 6first strand
Strand 2
B
19 24anti-parallel
Strand 3
B
70 75anti-parallel
Strand 4
B
62 67anti-parallel
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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
10 12first strand
Strand 2
B
103 105parallel
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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
45 48first strand
Strand 2
B
33 38anti-parallel
Strand 3
B
85 90anti-parallel
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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
P
26 27first strand
Strand 2
P
39 46anti-parallel
Strand 3
P
85 91anti-parallel
Strand 4
P
70 71anti-parallel
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There are 5 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
P
31 35first strand
Strand 2
P
109 118parallel
Strand 3
P
98 102anti-parallel
Strand 4
P
54 62anti-parallel
Strand 5
P
76 78anti-parallel
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There are 3 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
P
31 35first strand
Strand 2
P
109 118parallel
Strand 3
P
95 96anti-parallel
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