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


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 1QMD entry

There are 2 chains in PDB entry 1QMD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 TRP 1LYS 370
B
 TRP 1LYS 370
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 26 helices in PDB entry 1QMD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
9 26Right-handed alpha
Helix 2
2
A
31 44Right-handed alpha
Helix 3
3
A
44 54Right-handed alpha
Helix 4
4
A
55 57Right-handed 310
Helix 5
5
A
73 80Right-handed alpha
Helix 6
6
A
93 111Right-handed alpha
Helix 7
7
A
113 132Right-handed alpha
Helix 8
8
A
149 159Right-handed alpha
Helix 9
9
A
160 163Right-handed 310
Helix 10
10
A
173 182Right-handed alpha
Helix 11
11
A
184 207Right-handed alpha
Helix 12
12
A
213 245Right-handed alpha
Helix 13
13
A
317 319Right-handed 310
Helix 14
14
B
9 26Right-handed alpha
Helix 15
15
B
31 44Right-handed alpha
Helix 16
16
B
44 54Right-handed alpha
Helix 17
17
B
55 57Right-handed 310
Helix 18
18
B
73 80Right-handed alpha
Helix 19
19
B
93 111Right-handed alpha
Helix 20
20
B
113 132Right-handed alpha
Helix 21
21
B
149 159Right-handed alpha
Helix 22
22
B
160 163Right-handed 310
Helix 23
23
B
173 182Right-handed alpha
Helix 24
24
B
184 207Right-handed alpha
Helix 25
25
B
213 245Right-handed alpha
Helix 26
26
B
317 319Right-handed 310
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There are 4 sheets in PDB entry 1QMD. Click on sheet of interest to get list of strands forming it: AA, AB, BA, BB,

There are 4 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
304 310first strand
Strand 2
A
257 264anti-parallel
Strand 3
A
340 347anti-parallel
Strand 4
A
350 356anti-parallel
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There are 4 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
287 291first strand
Strand 2
A
275 282anti-parallel
Strand 3
A
321 329anti-parallel
Strand 4
A
365 368anti-parallel
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There are 4 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
304 310first strand
Strand 2
B
257 264anti-parallel
Strand 3
B
340 347anti-parallel
Strand 4
B
350 356anti-parallel
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There are 4 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
287 291first strand
Strand 2
B
275 282anti-parallel
Strand 3
B
321 329anti-parallel
Strand 4
B
365 368anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il