Analysis of interatomic Contacts of Structural Units in PDB entry:
4PYD


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 4PYD entry

There are 6 chains in PDB entry 4PYD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ALA 13VAL 157
B
 ILE 7GLY 149
C
 LEU 4VAL 157
D
 THR 5LYS 156
E
 ALA 9SER 148
F
 THR 24LEU 145
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 29 helices in PDB entry 4PYD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
37 46Right-handed alpha
Helix 2
2
A
53 67Right-handed alpha
Helix 3
3
A
68 73Right-handed alpha
Helix 4
4
A
92 94Right-handed 310
Helix 5
5
A
111 131Right-handed alpha
Helix 6
6
B
37 47Right-handed alpha
Helix 7
7
B
52 68Right-handed alpha
Helix 8
8
B
68 73Right-handed alpha
Helix 9
9
B
92 94Right-handed 310
Helix 10
10
B
111 131Right-handed alpha
Helix 11
11
C
37 46Right-handed alpha
Helix 12
12
C
53 67Right-handed alpha
Helix 13
13
C
68 73Right-handed alpha
Helix 14
14
C
92 94Right-handed 310
Helix 15
15
C
111 131Right-handed alpha
Helix 16
16
D
37 46Right-handed alpha
Helix 17
17
D
53 67Right-handed alpha
Helix 18
18
D
68 73Right-handed alpha
Helix 19
19
D
92 94Right-handed 310
Helix 20
20
D
111 131Right-handed alpha
Helix 21
21
E
54 67Right-handed alpha
Helix 22
22
E
68 73Right-handed alpha
Helix 23
23
E
111 131Right-handed alpha
Helix 24
24
F
37 46Right-handed alpha
Helix 25
25
F
48 51Right-handed 310
Helix 26
26
F
52 67Right-handed alpha
Helix 27
27
F
68 73Right-handed alpha
Helix 28
28
F
92 94Right-handed 310
Helix 29
29
F
111 131Right-handed alpha
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There are 6 sheets in PDB entry 4PYD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

There are 5 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
83 91first strand
Strand 2
A
96 107anti-parallel
Strand 3
A
24 35anti-parallel
Strand 4
A
138 148anti-parallel
Strand 5
A
155 156anti-parallel
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There are 4 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
83 91first strand
Strand 2
B
96 107anti-parallel
Strand 3
B
24 35anti-parallel
Strand 4
B
138 148anti-parallel
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There are 4 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
83 91first strand
Strand 2
C
96 107anti-parallel
Strand 3
C
24 35anti-parallel
Strand 4
C
138 139anti-parallel
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There are 5 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
83 91first strand
Strand 2
C
96 107anti-parallel
Strand 3
C
24 35anti-parallel
Strand 4
C
143 148anti-parallel
Strand 5
C
155 156anti-parallel
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There are 8 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
83 91first strand
Strand 2
D
96 107anti-parallel
Strand 3
D
24 35anti-parallel
Strand 4
D
138 147anti-parallel
Strand 5
F
138 144anti-parallel
Strand 6
F
25 35anti-parallel
Strand 7
F
96 106anti-parallel
Strand 8
F
83 91anti-parallel
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There are 4 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
83 91first strand
Strand 2
E
96 107anti-parallel
Strand 3
E
24 35anti-parallel
Strand 4
E
138 147anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il