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


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 8YGJ entry

There are 6 chains in PDB entry 8YGJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
B
 G 1 U 136
C
 T -12 C 28
D
 T -3 A 12
E
 THR 24THR 482
F
 G -24 C 27
A
 ASP 2LEU 1365
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 79 helices in PDB entry 8YGJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
E
24 29Right-handed alpha
Helix 2
AA2
E
33 38Right-handed alpha
Helix 3
AA3
E
67 84Right-handed alpha
Helix 4
AA4
E
115 122Right-handed alpha
Helix 5
AA5
E
131 139Right-handed alpha
Helix 6
AA6
E
154 158Right-handed 310
Helix 7
AA7
E
164 168Right-handed 310
Helix 8
AA8
E
194 214Right-handed alpha
Helix 9
AA9
E
232 251Right-handed alpha
Helix 10
AB1
E
281 291Right-handed alpha
Helix 11
AB2
E
296 309Right-handed alpha
Helix 12
AB3
E
316 321Right-handed alpha
Helix 13
AB4
E
323 329Right-handed alpha
Helix 14
AB5
E
337 353Right-handed alpha
Helix 15
AB6
E
400 405Right-handed alpha
Helix 16
AB7
E
407 428Right-handed alpha
Helix 17
AB8
E
440 446Right-handed alpha
Helix 18
AB9
E
458 466Right-handed alpha
Helix 19
AC1
A
59 94Right-handed alpha
Helix 20
AC2
A
96 103Right-handed alpha
Helix 21
AC3
A
121 132Right-handed alpha
Helix 22
AC4
A
134 145Right-handed alpha
Helix 23
AC5
A
150 164Right-handed alpha
Helix 24
AC6
A
181 196Right-handed alpha
Helix 25
AC7
A
207 213Right-handed alpha
Helix 26
AC8
A
217 228Right-handed alpha
Helix 27
AC9
A
236 247Right-handed alpha
Helix 28
AD1
A
252 257Right-handed alpha
Helix 29
AD2
A
269 282Right-handed alpha
Helix 30
AD3
A
284 307Right-handed alpha
Helix 31
AD4
A
315 343Right-handed alpha
Helix 32
AD5
A
346 352Right-handed alpha
Helix 33
AD6
A
358 364Right-handed alpha
Helix 34
AD7
A
368 382Right-handed alpha
Helix 35
AD8
A
386 396Right-handed alpha
Helix 36
AD9
A
404 410Right-handed 310
Helix 37
AE1
A
411 427Right-handed alpha
Helix 38
AE2
A
430 436Right-handed alpha
Helix 39
AE3
A
436 445Right-handed alpha
Helix 40
AE4
A
477 482Right-handed alpha
Helix 41
AE5
A
483 494Right-handed alpha
Helix 42
AE6
A
512 525Right-handed alpha
Helix 43
AE7
A
541 552Right-handed alpha
Helix 44
AE8
A
560 568Right-handed alpha
Helix 45
AE9
A
591 602Right-handed alpha
Helix 46
AF1
A
603 609Right-handed alpha
Helix 47
AF2
A
612 626Right-handed alpha
Helix 48
AF3
A
628 636Right-handed alpha
Helix 49
AF4
A
644 654Right-handed alpha
Helix 50
AF5
A
664 669Right-handed alpha
Helix 51
AF6
A
678 685Right-handed alpha
Helix 52
AF7
A
692 699Right-handed alpha
Helix 53
AF8
A
703 716Right-handed alpha
Helix 54
AF9
A
719 727Right-handed alpha
Helix 55
AG1
A
730 751Right-handed alpha
Helix 56
AG2
A
777 792Right-handed alpha
Helix 57
AG3
A
794 799Right-handed alpha
Helix 58
AG4
A
802 807Right-handed alpha
Helix 59
AG5
A
808 817Right-handed alpha
Helix 60
AG6
A
860 864Right-handed 310
Helix 61
AG7
A
872 889Right-handed alpha
Helix 62
AG8
A
893 906Right-handed alpha
Helix 63
AG9
A
909 920Right-handed alpha
Helix 64
AH1
A
925 940Right-handed alpha
Helix 65
AH2
A
959 970Right-handed alpha
Helix 66
AH3
A
980 1001Right-handed alpha
Helix 67
AH4
A
1004 1009Right-handed alpha
Helix 68
AH5
A
1032 1041Right-handed alpha
Helix 69
AH6
A
1043 1047Right-handed 310
Helix 70
AH7
A
1078 1088Right-handed alpha
Helix 71
AH8
A
1127 1132Right-handed alpha
Helix 72
AH9
A
1170 1177Right-handed alpha
Helix 73
AI1
A
1177 1186Right-handed alpha
Helix 74
AI2
A
1229 1241Right-handed alpha
Helix 75
AI3
A
1250 1262Right-handed alpha
Helix 76
AI4
A
1264 1280Right-handed alpha
Helix 77
AI5
A
1283 1297Right-handed alpha
Helix 78
AI6
A
1301 1313Right-handed alpha
Helix 79
AI7
A
1340 1344Right-handed 310
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There are 12 sheets in PDB entry 8YGJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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
E
87 90first strand
Strand 2
E
179 185anti-parallel
Strand 3
E
171 174anti-parallel
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There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
98 101first strand
Strand 2
E
110 113anti-parallel
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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
218 221first strand
Strand 2
E
225 230anti-parallel
Strand 3
E
145 150anti-parallel
Strand 4
E
261 263anti-parallel
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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
266 268first strand
Strand 2
E
271 274anti-parallel
Strand 3
E
277 279anti-parallel
Strand 4
E
357 358anti-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
E
388 398first strand
Strand 2
E
376 385anti-parallel
Strand 3
E
366 373anti-parallel
Strand 4
E
432 435parallel
Strand 5
E
470 472parallel
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There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
954 957first strand
Strand 2
A
758 761parallel
Strand 3
A
6 11parallel
Strand 4
A
15 21anti-parallel
Strand 5
A
48 52anti-parallel
Strand 6
A
1093 1096parallel
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There are 7 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
42 46first strand
Strand 2
A
29 36anti-parallel
Strand 3
A
1357 1361parallel
Strand 4
A
1346 1350anti-parallel
Strand 5
A
1203 1206anti-parallel
Strand 6
A
1210 1216anti-parallel
Strand 7
A
1219 1222anti-parallel
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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
507 509first strand
Strand 2
A
659 663anti-parallel
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There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
538 539first strand
Strand 2
A
528 531anti-parallel
Strand 3
A
578 581anti-parallel
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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
837 840first strand
Strand 2
A
855 858anti-parallel
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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
1156 1167first strand
Strand 2
A
1139 1151anti-parallel
Strand 3
A
1196 1198anti-parallel
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There are 2 strands in AB3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
1324 1326first strand
Strand 2
A
1329 1331anti-parallel
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