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


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 1YDN entry

There are 4 chains in PDB entry 1YDN (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 2ASP 284
B
 ALA 2ASP 284
C
 ALA 2ASP 284
D
 ALA 2ASP 284
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
Back to top of page

There are 52 helices in PDB entry 1YDN. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
13 18Right-handed alpha
Helix 2
2
A
24 36Right-handed alpha
Helix 3
3
A
54 58Right-handed 310
Helix 4
4
A
59 67Right-handed alpha
Helix 5
5
A
81 91Right-handed alpha
Helix 6
6
A
103 111Right-handed alpha
Helix 7
7
A
114 132Right-handed alpha
Helix 8
8
A
153 168Right-handed alpha
Helix 9
9
A
182 195Right-handed alpha
Helix 10
10
A
198 200Right-handed 310
Helix 11
11
A
212 224Right-handed alpha
Helix 12
12
A
249 260Right-handed alpha
Helix 13
13
A
267 283Right-handed alpha
Helix 14
14
B
13 18Right-handed alpha
Helix 15
15
B
24 37Right-handed alpha
Helix 16
16
B
54 58Right-handed 310
Helix 17
17
B
59 67Right-handed alpha
Helix 18
18
B
81 91Right-handed alpha
Helix 19
19
B
103 111Right-handed alpha
Helix 20
20
B
114 132Right-handed alpha
Helix 21
21
B
153 168Right-handed alpha
Helix 22
22
B
182 195Right-handed alpha
Helix 23
23
B
198 200Right-handed 310
Helix 24
24
B
212 224Right-handed alpha
Helix 25
25
B
249 260Right-handed alpha
Helix 26
26
B
267 283Right-handed alpha
Helix 27
27
C
13 18Right-handed alpha
Helix 28
28
C
24 37Right-handed alpha
Helix 29
29
C
54 58Right-handed 310
Helix 30
30
C
59 67Right-handed alpha
Helix 31
31
C
81 91Right-handed alpha
Helix 32
32
C
103 111Right-handed alpha
Helix 33
33
C
114 132Right-handed alpha
Helix 34
34
C
153 168Right-handed alpha
Helix 35
35
C
182 195Right-handed alpha
Helix 36
36
C
198 200Right-handed 310
Helix 37
37
C
212 224Right-handed alpha
Helix 38
38
C
249 260Right-handed alpha
Helix 39
39
C
267 283Right-handed alpha
Helix 40
40
D
13 18Right-handed alpha
Helix 41
41
D
24 37Right-handed alpha
Helix 42
42
D
54 58Right-handed 310
Helix 43
43
D
59 67Right-handed alpha
Helix 44
44
D
81 91Right-handed alpha
Helix 45
45
D
103 111Right-handed alpha
Helix 46
46
D
114 132Right-handed alpha
Helix 47
47
D
153 168Right-handed alpha
Helix 48
48
D
182 195Right-handed alpha
Helix 49
49
D
198 200Right-handed 310
Helix 50
50
D
212 224Right-handed alpha
Helix 51
51
D
249 260Right-handed alpha
Helix 52
52
D
267 283Right-handed alpha
Back to top of page

There are 12 sheets in PDB entry 1YDN. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L,

There are 2 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
6 9first strand
Strand 2
A
227 230parallel
Back to list of sheets
Back to top of page

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
A
42 47first strand
Strand 2
A
74 78parallel
Strand 3
A
95 101parallel
Strand 4
A
135 141parallel
Strand 5
A
171 176parallel
Strand 6
A
202 206parallel
Back to list of sheets
Back to top of page

There are 2 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
145 146first strand
Strand 2
A
150 151anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
6 9first strand
Strand 2
B
227 230parallel
Back to list of sheets
Back to top of page

There are 6 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
42 47first strand
Strand 2
B
74 78parallel
Strand 3
B
95 101parallel
Strand 4
B
135 141parallel
Strand 5
B
171 176parallel
Strand 6
B
202 206parallel
Back to list of sheets
Back to top of page

There are 2 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
145 146first strand
Strand 2
B
150 151anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
6 9first strand
Strand 2
C
227 230parallel
Back to list of sheets
Back to top of page

There are 6 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
42 47first strand
Strand 2
C
74 78parallel
Strand 3
C
95 101parallel
Strand 4
C
135 141parallel
Strand 5
C
171 176parallel
Strand 6
C
202 206parallel
Back to list of sheets
Back to top of page

There are 2 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
145 146first strand
Strand 2
C
150 151anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
6 9first strand
Strand 2
D
227 230parallel
Back to list of sheets
Back to top of page

There are 6 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
42 47first strand
Strand 2
D
74 78parallel
Strand 3
D
95 101parallel
Strand 4
D
135 141parallel
Strand 5
D
171 176parallel
Strand 6
D
202 206parallel
Back to list of sheets
Back to top of page

There are 2 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
145 146first strand
Strand 2
D
150 151anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il