Analysis of interatomic Contacts of Structural Units in PDB entry:
2YKD


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 2YKD entry

There is 1 chain in PDB entry 2YKD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 4GLU 259
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 10 helices in PDB entry 2YKD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
48 57Right-handed alpha
Helix 2
2
A
82 88Right-handed 310
Helix 3
3
A
96 100Right-handed alpha
Helix 4
4
A
126 128Right-handed 310
Helix 5
5
A
133 137Right-handed alpha
Helix 6
6
A
174 180Right-handed 310
Helix 7
7
A
186 195Right-handed alpha
Helix 8
8
A
214 218Right-handed 310
Helix 9
9
A
231 234Right-handed 310
Helix 10
10
A
238 245Right-handed alpha
Back to top of page

There are 7 sheets in PDB entry 2YKD. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, AG,

There are 2 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
6 11first strand
Strand 2
A
112 124parallel
Back to list of sheets
Back to top of page

There are 2 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
35 39first strand
Strand 2
A
18 28parallel
Back to list of sheets
Back to top of page

There are 2 strands in AC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
43 45first strand
Strand 2
A
18 28anti-parallel
Back to list of sheets
Back to top of page

There are 6 strands in AD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
91 95first strand
Strand 2
A
71 79parallel
Strand 3
A
60 68anti-parallel
Strand 4
A
112 124anti-parallel
Strand 5
A
18 28anti-parallel
Strand 6
A
35 39parallel
Back to list of sheets
Back to top of page

There are 5 strands in AE sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
91 95first strand
Strand 2
A
71 79parallel
Strand 3
A
60 68anti-parallel
Strand 4
A
112 124anti-parallel
Strand 5
A
6 11parallel
Back to list of sheets
Back to top of page

There are 4 strands in AF sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
130 132first strand
Strand 2
A
225 229parallel
Strand 3
A
205 209anti-parallel
Strand 4
A
197 199anti-parallel
Back to list of sheets
Back to top of page

There are 3 strands in AG sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
161 171first strand
Strand 2
A
145 155anti-parallel
Strand 3
A
246 257anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il