Analysis of interatomic Contacts of Structural Units in PDB entry:
1YJ5


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 1YJ5 entry

There are 3 chains in PDB entry 1YJ5 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LEU 144GLY 522
B
 ARG 140GLY 522
C
 SER 6SER 110
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 33 helices in PDB entry 1YJ5. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
197 209Right-handed alpha
Helix 2
2
A
218 223Right-handed alpha
Helix 3
3
A
227 243Right-handed alpha
Helix 4
4
A
262 271Right-handed alpha
Helix 5
5
A
279 283Right-handed 310
Helix 6
6
A
307 317Right-handed alpha
Helix 7
7
A
322 327Right-handed alpha
Helix 8
8
A
341 345Right-handed 310
Helix 9
9
A
376 385Right-handed alpha
Helix 10
10
A
386 389Right-handed 310
Helix 11
11
A
395 399Right-handed alpha
Helix 12
12
A
400 414Right-handed alpha
Helix 13
13
A
426 441Right-handed alpha
Helix 14
14
A
452 467Right-handed alpha
Helix 15
15
A
474 485Right-handed alpha
Helix 16
16
A
489 493Right-handed 310
Helix 17
17
A
509 517Right-handed alpha
Helix 18
18
B
197 208Right-handed alpha
Helix 19
19
B
218 223Right-handed alpha
Helix 20
20
B
227 243Right-handed alpha
Helix 21
21
B
262 271Right-handed alpha
Helix 22
22
B
307 317Right-handed alpha
Helix 23
23
B
322 329Right-handed alpha
Helix 24
24
B
341 345Right-handed 310
Helix 25
25
B
376 385Right-handed alpha
Helix 26
26
B
386 389Right-handed 310
Helix 27
27
B
394 399Right-handed alpha
Helix 28
28
B
400 414Right-handed alpha
Helix 29
29
B
426 441Right-handed alpha
Helix 30
30
B
452 467Right-handed alpha
Helix 31
31
B
474 485Right-handed alpha
Helix 32
32
B
489 493Right-handed 310
Helix 33
33
B
509 517Right-handed alpha
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There are 8 sheets in PDB entry 1YJ5. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 7 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
146 149first strand
Strand 2
A
152 156anti-parallel
Strand 3
A
247 251anti-parallel
Strand 4
A
211 217parallel
Strand 5
A
166 169parallel
Strand 6
A
284 286parallel
Strand 7
A
320 321parallel
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There are 2 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
176 177first strand
Strand 2
A
192 193anti-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
391 394first strand
Strand 2
A
418 421parallel
Strand 3
A
366 370parallel
Strand 4
A
444 449parallel
Strand 5
A
497 500parallel
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There are 7 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
146 149first strand
Strand 2
B
152 156anti-parallel
Strand 3
B
247 251anti-parallel
Strand 4
B
210 217parallel
Strand 5
B
165 169parallel
Strand 6
B
284 286parallel
Strand 7
B
320 321parallel
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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
B
176 177first strand
Strand 2
B
192 193anti-parallel
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There are 5 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
391 393first strand
Strand 2
B
418 420parallel
Strand 3
B
366 370parallel
Strand 4
B
444 449parallel
Strand 5
B
497 500parallel
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There are 6 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
22 23first strand
Strand 2
C
9 13anti-parallel
Strand 3
C
101 107anti-parallel
Strand 4
C
92 94anti-parallel
Strand 5
C
73 74anti-parallel
Strand 6
C
77 78anti-parallel
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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
30 33first strand
Strand 2
C
51 56anti-parallel
Strand 3
C
61 66anti-parallel
Strand 4
C
85 87anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il