Analysis of interatomic Contacts of Structural Units in PDB entry:
1M8D


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 1M8D entry

There are 2 chains in PDB entry 1M8D (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 77ASN 497
B
 GLN 77ASN 497
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 40 helices in PDB entry 1M8D. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
93 98Right-handed 310
Helix 2
2
A
116 120Right-handed 310
Helix 3
3
A
129 147Right-handed alpha
Helix 4
4
A
152 171Right-handed alpha
Helix 5
5
A
176 190Right-handed alpha
Helix 6
6
A
196 200Right-handed 310
Helix 7
7
A
213 230Right-handed alpha
Helix 8
8
A
231 233Right-handed 310
Helix 9
9
A
277 287Right-handed alpha
Helix 10
10
A
316 320Right-handed 310
Helix 11
11
A
330 337Right-handed 310
Helix 12
12
A
369 374Right-handed alpha
Helix 13
13
A
374 379Right-handed alpha
Helix 14
14
A
385 393Right-handed alpha
Helix 15
15
A
399 402Right-handed 310
Helix 16
16
A
403 423Right-handed alpha
Helix 17
17
A
429 449Right-handed alpha
Helix 18
18
A
454 459Right-handed alpha
Helix 19
19
A
467 472Right-handed 310
Helix 20
20
A
488 492Right-handed 310
Helix 21
21
B
93 98Right-handed 310
Helix 22
22
B
116 120Right-handed 310
Helix 23
23
B
129 146Right-handed alpha
Helix 24
24
B
152 171Right-handed alpha
Helix 25
25
B
176 190Right-handed alpha
Helix 26
26
B
196 200Right-handed 310
Helix 27
27
B
213 230Right-handed alpha
Helix 28
28
B
231 233Right-handed 310
Helix 29
29
B
277 287Right-handed alpha
Helix 30
30
B
316 320Right-handed 310
Helix 31
31
B
330 337Right-handed 310
Helix 32
32
B
369 374Right-handed alpha
Helix 33
33
B
374 379Right-handed alpha
Helix 34
34
B
385 393Right-handed alpha
Helix 35
35
B
399 402Right-handed 310
Helix 36
36
B
403 423Right-handed alpha
Helix 37
37
B
429 449Right-handed alpha
Helix 38
38
B
454 459Right-handed alpha
Helix 39
39
B
467 472Right-handed 310
Helix 40
40
B
488 493Right-handed alpha
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There are 14 sheets in PDB entry 1M8D. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N,

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
79 82first strand
Strand 2
A
89 92anti-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
204 207first strand
Strand 2
A
237 240parallel
Strand 3
A
363 364anti-parallel
Strand 4
A
345 346anti-parallel
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There are 3 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
252 253first strand
Strand 2
A
301 304anti-parallel
Strand 3
A
311 313anti-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
263 265first strand
Strand 2
A
271 273anti-parallel
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There are 2 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
322 324first strand
Strand 2
A
339 341anti-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
356 358first strand
Strand 2
A
350 353anti-parallel
Strand 3
A
482 484anti-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
A
367 368first strand
Strand 2
A
427 428parallel
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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
79 82first strand
Strand 2
B
89 92anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
204 207first strand
Strand 2
B
237 240parallel
Strand 3
B
363 364anti-parallel
Strand 4
B
345 346anti-parallel
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There are 3 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
252 253first strand
Strand 2
B
301 304anti-parallel
Strand 3
B
311 313anti-parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
263 265first strand
Strand 2
B
271 273anti-parallel
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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
B
322 324first strand
Strand 2
B
339 341anti-parallel
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There are 3 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
356 358first strand
Strand 2
B
350 353anti-parallel
Strand 3
B
482 484anti-parallel
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There are 2 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
367 368first strand
Strand 2
B
427 428parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il