Analysis of interatomic Contacts of Structural Units in PDB entry:
3E88


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 3E88 entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 8 chains in PDB entry 3E88 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LYS 146LYS 308
A
 PHE 310ILE 450
A
 GLN 466ARG 480
B
 LYS 146LYS 308
B
 PHE 310ILE 450
B
 GLN 466ARG 480
C
 GLY 3GLU 12
D
 GLY 3GLU 12
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 28 helices in PDB entry 3E88. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
148 150Right-handed 310
Helix 2
2
A
185 191Right-handed alpha
Helix 3
3
A
193 207Right-handed alpha
Helix 4
4
A
237 245Right-handed alpha
Helix 5
5
A
248 269Right-handed alpha
Helix 6
6
A
313 317Right-handed 310
Helix 7
7
A
318 323Right-handed 310
Helix 8
8
A
330 346Right-handed alpha
Helix 9
9
A
354 365Right-handed alpha
Helix 10
10
A
374 385Right-handed alpha
Helix 11
11
A
399 405Right-handed alpha
Helix 12
12
A
406 410Right-handed 310
Helix 13
13
A
413 419Right-handed alpha
Helix 14
14
A
440 445Right-handed alpha
Helix 15
15
B
148 150Right-handed 310
Helix 16
16
B
185 191Right-handed alpha
Helix 17
17
B
193 207Right-handed alpha
Helix 18
18
B
237 245Right-handed alpha
Helix 19
19
B
248 269Right-handed alpha
Helix 20
20
B
313 317Right-handed 310
Helix 21
21
B
318 323Right-handed 310
Helix 22
22
B
330 346Right-handed alpha
Helix 23
23
B
354 365Right-handed alpha
Helix 24
24
B
374 385Right-handed alpha
Helix 25
25
B
399 405Right-handed alpha
Helix 26
26
B
406 410Right-handed 310
Helix 27
27
B
413 419Right-handed alpha
Helix 28
28
B
440 445Right-handed alpha
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There are 8 sheets in PDB entry 3E88. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 6 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
152 160first strand
Strand 2
A
164 171anti-parallel
Strand 3
A
177 184anti-parallel
Strand 4
A
224 230anti-parallel
Strand 5
A
215 220anti-parallel
Strand 6
A
475 476anti-parallel
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There are 3 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
235 236first strand
Strand 2
A
281 283anti-parallel
Strand 3
A
289 291anti-parallel
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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
271 272first strand
Strand 2
A
298 299anti-parallel
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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
A
311 312first strand
Strand 2
C
10 11anti-parallel
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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
152 160first strand
Strand 2
B
164 171anti-parallel
Strand 3
B
177 184anti-parallel
Strand 4
B
224 230anti-parallel
Strand 5
B
215 220anti-parallel
Strand 6
B
475 476anti-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
B
235 236first strand
Strand 2
B
281 283anti-parallel
Strand 3
B
289 291anti-parallel
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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
B
271 272first strand
Strand 2
B
298 299anti-parallel
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There are 2 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
311 312first strand
Strand 2
D
10 11anti-parallel
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