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


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 3TDM entry

There are 4 chains in PDB entry 3TDM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 2GLY 121
B
 SER 1PHE 120
C
 SER 1SER 111
D
 SER 1PHE 120
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 24 helices in PDB entry 3TDM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
32 43Right-handed alpha
Helix 2
2
A
62 70Right-handed alpha
Helix 3
3
A
71 73Right-handed 310
Helix 4
4
A
85 95Right-handed alpha
Helix 5
5
A
103 109Right-handed alpha
Helix 6
6
A
110 121Right-handed alpha
Helix 7
7
B
21 26Right-handed alpha
Helix 8
8
B
31 42Right-handed alpha
Helix 9
9
B
62 70Right-handed alpha
Helix 10
10
B
71 73Right-handed 310
Helix 11
11
B
85 95Right-handed alpha
Helix 12
12
B
103 109Right-handed alpha
Helix 13
13
B
110 118Right-handed alpha
Helix 14
14
C
32 42Right-handed alpha
Helix 15
15
C
62 70Right-handed alpha
Helix 16
16
C
71 73Right-handed 310
Helix 17
17
C
85 95Right-handed alpha
Helix 18
18
D
22 25Right-handed alpha
Helix 19
19
D
32 42Right-handed alpha
Helix 20
20
D
62 70Right-handed alpha
Helix 21
21
D
71 73Right-handed 310
Helix 22
22
D
85 95Right-handed alpha
Helix 23
23
D
103 109Right-handed alpha
Helix 24
24
D
110 118Right-handed alpha
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There are 4 sheets in PDB entry 3TDM. Click on sheet of interest to get list of strands forming it: A, B, C, D,

There are 8 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
26 31first strand
Strand 2
A
16 21anti-parallel
Strand 3
A
4 13anti-parallel
Strand 4
A
46 51parallel
Strand 5
A
77 80parallel
Strand 6
A
99 102parallel
Strand 7
B
4 11parallel
Strand 8
B
18 19anti-parallel
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There are 8 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
26 31first strand
Strand 2
A
16 21anti-parallel
Strand 3
A
4 13anti-parallel
Strand 4
B
99 102parallel
Strand 5
B
77 80parallel
Strand 6
B
46 51parallel
Strand 7
B
4 11parallel
Strand 8
B
18 19anti-parallel
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There are 6 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
26 31first strand
Strand 2
C
16 21anti-parallel
Strand 3
C
5 13anti-parallel
Strand 4
C
46 51parallel
Strand 5
C
77 80parallel
Strand 6
C
99 100parallel
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There are 6 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
26 31first strand
Strand 2
D
16 21anti-parallel
Strand 3
D
5 13anti-parallel
Strand 4
D
46 51parallel
Strand 5
D
77 80parallel
Strand 6
D
99 100parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il