Analysis of interatomic Contacts of Structural Units in PDB entry:
5Y9D


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 5Y9D entry

There are 2 chains in PDB entry 5Y9D (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 2ASP 688
B
 THR 2GLU 689
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 68 helices in PDB entry 5Y9D. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
7 19Right-handed alpha
Helix 2
AA2
A
23 33Right-handed alpha
Helix 3
AA3
A
34 51Right-handed alpha
Helix 4
AA4
A
52 55Right-handed 310
Helix 5
AA5
A
58 62Right-handed 310
Helix 6
AA6
A
63 79Right-handed alpha
Helix 7
AA7
A
80 85Right-handed alpha
Helix 8
AA8
A
86 99Right-handed alpha
Helix 9
AA9
A
101 113Right-handed alpha
Helix 10
AB1
A
113 123Right-handed alpha
Helix 11
AB2
A
124 134Right-handed alpha
Helix 12
AB3
A
156 160Right-handed 310
Helix 13
AB4
A
179 183Right-handed 310
Helix 14
AB5
A
260 262Right-handed 310
Helix 15
AB6
A
285 315Right-handed alpha
Helix 16
AB7
A
330 333Right-handed 310
Helix 17
AB8
A
334 372Right-handed alpha
Helix 18
AB9
A
379 418Right-handed alpha
Helix 19
AC1
A
419 428Right-handed 310
Helix 20
AC2
A
429 438Right-handed alpha
Helix 21
AC3
A
439 442Right-handed 310
Helix 22
AC4
A
446 467Right-handed alpha
Helix 23
AC5
A
472 480Right-handed 310
Helix 24
AC6
A
492 497Right-handed alpha
Helix 25
AC7
A
498 525Right-handed alpha
Helix 26
AC8
A
529 537Right-handed alpha
Helix 27
AC9
A
537 562Right-handed alpha
Helix 28
AD1
A
568 587Right-handed alpha
Helix 29
AD2
A
587 594Right-handed alpha
Helix 30
AD3
A
598 618Right-handed alpha
Helix 31
AD4
A
619 627Right-handed alpha
Helix 32
AD5
A
630 635Right-handed alpha
Helix 33
AD6
A
636 640Right-handed 310
Helix 34
AD7
A
644 657Right-handed alpha
Helix 35
AD8
A
670 676Right-handed alpha
Helix 36
AD9
B
7 18Right-handed alpha
Helix 37
AE1
B
23 33Right-handed alpha
Helix 38
AE2
B
34 51Right-handed alpha
Helix 39
AE3
B
58 62Right-handed 310
Helix 40
AE4
B
63 79Right-handed alpha
Helix 41
AE5
B
80 85Right-handed alpha
Helix 42
AE6
B
86 98Right-handed alpha
Helix 43
AE7
B
101 113Right-handed alpha
Helix 44
AE8
B
114 122Right-handed alpha
Helix 45
AE9
B
124 135Right-handed alpha
Helix 46
AF1
B
156 160Right-handed 310
Helix 47
AF2
B
179 183Right-handed 310
Helix 48
AF3
B
260 262Right-handed 310
Helix 49
AF4
B
286 317Right-handed alpha
Helix 50
AF5
B
330 333Right-handed 310
Helix 51
AF6
B
334 371Right-handed alpha
Helix 52
AF7
B
384 419Right-handed alpha
Helix 53
AF8
B
420 428Right-handed 310
Helix 54
AF9
B
429 443Right-handed alpha
Helix 55
AG1
B
446 467Right-handed alpha
Helix 56
AG2
B
472 480Right-handed 310
Helix 57
AG3
B
492 497Right-handed alpha
Helix 58
AG4
B
498 526Right-handed alpha
Helix 59
AG5
B
529 537Right-handed alpha
Helix 60
AG6
B
537 562Right-handed alpha
Helix 61
AG7
B
568 587Right-handed alpha
Helix 62
AG8
B
587 594Right-handed alpha
Helix 63
AG9
B
598 619Right-handed alpha
Helix 64
AH1
B
619 626Right-handed alpha
Helix 65
AH2
B
630 635Right-handed alpha
Helix 66
AH3
B
636 640Right-handed 310
Helix 67
AH4
B
644 657Right-handed alpha
Helix 68
AH5
B
670 676Right-handed alpha
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There are 7 sheets in PDB entry 5Y9D. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
146 147first strand
Strand 2
A
196 205parallel
Strand 3
A
208 218anti-parallel
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There are 5 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
146 147first strand
Strand 2
A
196 205parallel
Strand 3
A
163 167parallel
Strand 4
A
172 176anti-parallel
Strand 5
A
255 258anti-parallel
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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
184 187first strand
Strand 2
A
248 252anti-parallel
Strand 3
A
231 235anti-parallel
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There are 3 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
146 147first strand
Strand 2
B
196 205parallel
Strand 3
B
208 218anti-parallel
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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
146 147first strand
Strand 2
B
196 205parallel
Strand 3
B
163 167parallel
Strand 4
B
172 176anti-parallel
Strand 5
B
255 258anti-parallel
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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
184 187first strand
Strand 2
B
248 252anti-parallel
Strand 3
B
231 235anti-parallel
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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
269 270first strand
Strand 2
B
273 274anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il