Analysis of interatomic Contacts of Structural Units in PDB entry:
4D88


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 4D88 entry

There is 1 chain in PDB entry 4D88 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER -2ASN 372
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 13 helices in PDB entry 4D88. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
-2 3Right-handed alpha
Helix 2
2
A
53 57Right-handed 310
Helix 3
3
A
123 127Right-handed 310
Helix 4
4
A
135 145Right-handed alpha
Helix 5
5
A
167 169Right-handed 310
Helix 6
6
A
203 209Right-handed 310
Helix 7
7
A
225 239Right-handed alpha
Helix 8
8
A
247 251Right-handed 310
Helix 9
9
A
263 267Right-handed 310
Helix 10
10
A
288 292Right-handed alpha
Helix 11
11
A
298 302Right-handed 310
Helix 12
12
A
321 326Right-handed alpha
Helix 13
13
A
334 336Right-handed 310
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There are 6 sheets in PDB entry 4D88. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F,

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
6 9first strand
Strand 2
A
13 20anti-parallel
Strand 3
A
25 32anti-parallel
Strand 4
A
117 120parallel
Strand 5
A
38 41anti-parallel
Strand 6
A
94 106parallel
Strand 7
A
75 86anti-parallel
Strand 8
A
61 70anti-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
A
6 9first strand
Strand 2
A
13 20anti-parallel
Strand 3
A
75 86anti-parallel
Strand 4
A
61 70anti-parallel
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There are 5 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
159 163first strand
Strand 2
A
150 154anti-parallel
Strand 3
A
328 333anti-parallel
Strand 4
A
338 344anti-parallel
Strand 5
A
171 179anti-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
A
187 188first strand
Strand 2
A
212 214anti-parallel
Strand 3
A
318 320parallel
Strand 4
A
221 224anti-parallel
Strand 5
A
311 314parallel
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There are 5 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
198 199first strand
Strand 2
A
190 195anti-parallel
Strand 3
A
270 275anti-parallel
Strand 4
A
281 287anti-parallel
Strand 5
A
356 362anti-parallel
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There are 3 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
255 258first strand
Strand 2
A
304 309anti-parallel
Strand 3
A
293 295anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il