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


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 3KDF entry

There are 4 chains in PDB entry 3KDF (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 2GLY 116
D
 HIS 45ALA 172
C
 SER 1VAL 118
B
 HIS 45LYS 171
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 12 helices in PDB entry 3KDF. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
3 7Right-handed 310
Helix 2
2
A
13 21Right-handed 310
Helix 3
3
A
95 109Right-handed alpha
Helix 4
4
A
110 113Right-handed 310
Helix 5
5
D
50 56Right-handed alpha
Helix 6
6
D
152 172Right-handed alpha
Helix 7
7
C
3 7Right-handed 310
Helix 8
8
C
13 21Right-handed 310
Helix 9
9
C
95 109Right-handed alpha
Helix 10
10
C
110 113Right-handed 310
Helix 11
11
B
50 56Right-handed alpha
Helix 12
12
B
152 170Right-handed alpha
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There are 6 sheets in PDB entry 3KDF. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 7 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
10 12first strand
Strand 2
A
24 34parallel
Strand 3
A
66 73anti-parallel
Strand 4
A
79 86anti-parallel
Strand 5
A
50 54parallel
Strand 6
A
40 44anti-parallel
Strand 7
A
24 34anti-parallel
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There are 7 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
47 48first strand
Strand 2
D
73 85parallel
Strand 3
D
125 135anti-parallel
Strand 4
D
138 148anti-parallel
Strand 5
D
102 107parallel
Strand 6
D
89 95anti-parallel
Strand 7
D
73 85anti-parallel
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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
D
58 59first strand
Strand 2
D
64 66anti-parallel
Strand 3
D
69 70anti-parallel
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There are 7 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
10 12first strand
Strand 2
C
24 34parallel
Strand 3
C
66 73anti-parallel
Strand 4
C
79 86anti-parallel
Strand 5
C
50 54parallel
Strand 6
C
40 44anti-parallel
Strand 7
C
24 34anti-parallel
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There are 7 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
47 48first strand
Strand 2
B
73 85parallel
Strand 3
B
125 135anti-parallel
Strand 4
B
138 148anti-parallel
Strand 5
B
102 107parallel
Strand 6
B
89 95anti-parallel
Strand 7
B
73 85anti-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
58 60first strand
Strand 2
B
63 66anti-parallel
Strand 3
B
69 71anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il