Analysis of interatomic Contacts of Structural Units in PDB entry:
8YRD


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 8YRD entry

There are 6 chains in PDB entry 8YRD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 16LYS 525
B
 THR 10LYS 394
C
 ASN 10GLN 168
F
 ASN 10GLN 168
D
 VAL 16LYS 525
E
 THR 10LYS 394
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 are112 helices in PDB entry 8YRD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
24 30Right-handed alpha
Helix 2
AA2
A
31 36Right-handed 310
Helix 3
AA3
A
63 90Right-handed alpha
Helix 4
AA4
A
91 94Right-handed 310
Helix 5
AA5
A
96 128Right-handed alpha
Helix 6
AA6
A
130 162Right-handed alpha
Helix 7
AA7
A
165 170Right-handed alpha
Helix 8
AA8
A
170 175Right-handed alpha
Helix 9
AA9
A
179 189Right-handed alpha
Helix 10
AB1
A
196 205Right-handed alpha
Helix 11
AB2
A
212 227Right-handed alpha
Helix 12
AB3
A
230 240Right-handed alpha
Helix 13
AB4
A
242 258Right-handed alpha
Helix 14
AB5
A
262 293Right-handed alpha
Helix 15
AB6
A
300 310Right-handed alpha
Helix 16
AB7
A
315 322Right-handed alpha
Helix 17
AB8
A
323 325Right-handed 310
Helix 18
AB9
A
331 339Right-handed alpha
Helix 19
AC1
A
341 353Right-handed alpha
Helix 20
AC2
A
354 357Right-handed 310
Helix 21
AC3
A
365 376Right-handed alpha
Helix 22
AC4
A
378 393Right-handed alpha
Helix 23
AC5
A
403 411Right-handed alpha
Helix 24
AC6
A
426 430Right-handed 310
Helix 25
AC7
A
450 460Right-handed alpha
Helix 26
AC8
A
468 474Right-handed alpha
Helix 27
AC9
A
477 485Right-handed alpha
Helix 28
AD1
A
508 516Right-handed alpha
Helix 29
AD2
A
521 525Right-handed 310
Helix 30
AD3
B
16 27Right-handed alpha
Helix 31
AD4
B
50 57Right-handed alpha
Helix 32
AD5
B
87 91Right-handed 310
Helix 33
AD6
B
108 134Right-handed alpha
Helix 34
AD7
B
135 139Right-handed 310
Helix 35
AD8
B
140 146Right-handed alpha
Helix 36
AD9
B
146 165Right-handed alpha
Helix 37
AE1
B
166 173Right-handed alpha
Helix 38
AE2
B
176 207Right-handed alpha
Helix 39
AE3
B
214 224Right-handed alpha
Helix 40
AE4
B
227 240Right-handed alpha
Helix 41
AE5
B
243 253Right-handed alpha
Helix 42
AE6
B
254 266Right-handed alpha
Helix 43
AE7
B
267 273Right-handed alpha
Helix 44
AE8
B
279 305Right-handed alpha
Helix 45
AE9
B
313 339Right-handed alpha
Helix 46
AF1
B
340 345Right-handed 310
Helix 47
AF2
B
353 377Right-handed alpha
Helix 48
AF3
B
381 391Right-handed alpha
Helix 49
AF4
C
11 21Right-handed alpha
Helix 50
AF5
C
25 41Right-handed alpha
Helix 51
AF6
C
53 73Right-handed alpha
Helix 52
AF7
C
74 81Right-handed alpha
Helix 53
AF8
C
87 101Right-handed alpha
Helix 54
AF9
C
104 119Right-handed alpha
Helix 55
AG1
C
125 145Right-handed alpha
Helix 56
AG2
C
152 161Right-handed alpha
Helix 57
AG3
F
11 21Right-handed alpha
Helix 58
AG4
F
25 41Right-handed alpha
Helix 59
AG5
F
53 73Right-handed alpha
Helix 60
AG6
F
74 81Right-handed alpha
Helix 61
AG7
F
87 101Right-handed alpha
Helix 62
AG8
F
104 119Right-handed alpha
Helix 63
AG9
F
125 145Right-handed alpha
Helix 64
AH1
F
152 161Right-handed alpha
Helix 65
AH2
D
24 30Right-handed alpha
Helix 66
AH3
D
31 36Right-handed 310
Helix 67
AH4
D
63 90Right-handed alpha
Helix 68
AH5
D
91 94Right-handed 310
Helix 69
AH6
D
96 128Right-handed alpha
Helix 70
AH7
D
130 162Right-handed alpha
Helix 71
AH8
D
165 170Right-handed alpha
Helix 72
AH9
D
170 175Right-handed alpha
Helix 73
AI1
D
179 189Right-handed alpha
Helix 74
AI2
D
196 205Right-handed alpha
Helix 75
AI3
D
212 227Right-handed alpha
Helix 76
AI4
D
230 240Right-handed alpha
Helix 77
AI5
D
242 258Right-handed alpha
Helix 78
AI6
D
262 293Right-handed alpha
Helix 79
AI7
D
300 310Right-handed alpha
Helix 80
AI8
D
315 322Right-handed alpha
Helix 81
AI9
D
323 325Right-handed 310
Helix 82
AJ1
D
331 339Right-handed alpha
Helix 83
AJ2
D
341 353Right-handed alpha
Helix 84
AJ3
D
354 357Right-handed 310
Helix 85
AJ4
D
365 376Right-handed alpha
Helix 86
AJ5
D
378 393Right-handed alpha
Helix 87
AJ6
D
403 411Right-handed alpha
Helix 88
AJ7
D
426 430Right-handed 310
Helix 89
AJ8
D
450 460Right-handed alpha
Helix 90
AJ9
D
468 474Right-handed alpha
Helix 91
AK1
D
477 485Right-handed alpha
Helix 92
AK2
D
508 516Right-handed alpha
Helix 93
AK3
D
521 525Right-handed 310
Helix 94
AK4
E
16 27Right-handed alpha
Helix 95
AK5
E
50 57Right-handed alpha
Helix 96
AK6
E
87 91Right-handed 310
Helix 97
AK7
E
108 134Right-handed alpha
Helix 98
AK8
E
135 139Right-handed 310
Helix 99
AK9
E
140 146Right-handed alpha
Helix 100
AL1
E
146 165Right-handed alpha
Helix 101
AL2
E
166 173Right-handed alpha
Helix 102
AL3
E
176 207Right-handed alpha
Helix 103
AL4
E
214 224Right-handed alpha
Helix 104
AL5
E
227 240Right-handed alpha
Helix 105
AL6
E
243 253Right-handed alpha
Helix 106
AL7
E
254 266Right-handed alpha
Helix 107
AL8
E
267 273Right-handed alpha
Helix 108
AL9
E
279 305Right-handed alpha
Helix 109
AM1
E
313 339Right-handed alpha
Helix 110
AM2
E
340 345Right-handed 310
Helix 111
AM3
E
353 377Right-handed alpha
Helix 112
AM4
E
381 391Right-handed alpha
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There are 4 sheets in PDB entry 8YRD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 2 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
416 417first strand
Strand 2
A
424 425anti-parallel
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There are 3 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
444 448first strand
Strand 2
A
437 441anti-parallel
Strand 3
C
163 167anti-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
F
163 167first strand
Strand 2
D
437 441anti-parallel
Strand 3
D
444 448anti-parallel
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There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
416 417first strand
Strand 2
D
424 425anti-parallel
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