Analysis of interatomic Contacts of Structural Units in PDB entry:
9YKJ


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 9YKJ entry

There are 2 chains in PDB entry 9YKJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 17MET 787
B
 VAL 17ARG 625
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 75 helices in PDB entry 9YKJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
21 26Right-handed 310
Helix 2
AA2
A
36 48Right-handed alpha
Helix 3
AA3
A
71 86Right-handed alpha
Helix 4
AA4
A
99 106Right-handed alpha
Helix 5
AA5
A
107 109Right-handed 310
Helix 6
AA6
A
138 140Right-handed 310
Helix 7
AA7
A
163 173Right-handed alpha
Helix 8
AA8
A
174 176Right-handed 310
Helix 9
AA9
A
183 193Right-handed alpha
Helix 10
AB1
A
193 199Right-handed alpha
Helix 11
AB2
A
203 211Right-handed alpha
Helix 12
AB3
A
220 227Right-handed alpha
Helix 13
AB4
A
227 237Right-handed alpha
Helix 14
AB5
A
247 252Right-handed alpha
Helix 15
AB6
A
275 279Right-handed 310
Helix 16
AB7
A
281 285Right-handed 310
Helix 17
AB8
A
297 299Right-handed 310
Helix 18
AB9
A
300 306Right-handed alpha
Helix 19
AC1
A
308 314Right-handed alpha
Helix 20
AC2
A
331 335Right-handed 310
Helix 21
AC3
A
336 339Right-handed 310
Helix 22
AC4
A
340 345Right-handed alpha
Helix 23
AC5
A
365 368Right-handed 310
Helix 24
AC6
A
369 376Right-handed alpha
Helix 25
AC7
A
384 395Right-handed alpha
Helix 26
AC8
A
413 417Right-handed 310
Helix 27
AC9
A
430 440Right-handed alpha
Helix 28
AD1
A
443 458Right-handed alpha
Helix 29
AD2
A
459 461Right-handed 310
Helix 30
AD3
A
478 483Right-handed alpha
Helix 31
AD4
A
486 491Right-handed 310
Helix 32
AD5
A
492 515Right-handed alpha
Helix 33
AD6
A
518 532Right-handed alpha
Helix 34
AD7
A
534 545Right-handed alpha
Helix 35
AD8
A
546 548Right-handed 310
Helix 36
AD9
A
554 573Right-handed alpha
Helix 37
AE1
A
575 590Right-handed alpha
Helix 38
AE2
A
593 609Right-handed alpha
Helix 39
AE3
A
612 627Right-handed alpha
Helix 40
AE4
A
664 675Right-handed alpha
Helix 41
AE5
A
682 697Right-handed alpha
Helix 42
AE6
A
741 743Right-handed 310
Helix 43
AE7
A
744 758Right-handed alpha
Helix 44
AE8
B
21 26Right-handed 310
Helix 45
AE9
B
36 50Right-handed alpha
Helix 46
AF1
B
71 83Right-handed alpha
Helix 47
AF2
B
100 105Right-handed alpha
Helix 48
AF3
B
106 111Right-handed alpha
Helix 49
AF4
B
165 174Right-handed alpha
Helix 50
AF5
B
184 193Right-handed alpha
Helix 51
AF6
B
193 202Right-handed alpha
Helix 52
AF7
B
207 211Right-handed 310
Helix 53
AF8
B
275 283Right-handed 310
Helix 54
AF9
B
297 299Right-handed 310
Helix 55
AG1
B
300 305Right-handed alpha
Helix 56
AG2
B
308 313Right-handed alpha
Helix 57
AG3
B
331 335Right-handed 310
Helix 58
AG4
B
336 340Right-handed 310
Helix 59
AG5
B
341 349Right-handed alpha
Helix 60
AG6
B
368 373Right-handed alpha
Helix 61
AG7
B
374 376Right-handed 310
Helix 62
AG8
B
384 394Right-handed alpha
Helix 63
AG9
B
413 417Right-handed 310
Helix 64
AH1
B
431 440Right-handed alpha
Helix 65
AH2
B
443 457Right-handed alpha
Helix 66
AH3
B
475 483Right-handed alpha
Helix 67
AH4
B
484 491Right-handed alpha
Helix 68
AH5
B
492 515Right-handed alpha
Helix 69
AH6
B
518 532Right-handed alpha
Helix 70
AH7
B
534 545Right-handed alpha
Helix 71
AH8
B
546 548Right-handed 310
Helix 72
AH9
B
554 573Right-handed alpha
Helix 73
AI1
B
575 589Right-handed alpha
Helix 74
AI2
B
595 609Right-handed alpha
Helix 75
AI3
B
612 625Right-handed alpha
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There are 6 sheets in PDB entry 9YKJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

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
93 95first strand
Strand 2
A
134 136parallel
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There are 4 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
177 180first strand
Strand 2
A
266 271anti-parallel
Strand 3
A
258 263anti-parallel
Strand 4
A
216 219anti-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
A
401 404first strand
Strand 2
A
359 363parallel
Strand 3
A
419 422parallel
Strand 4
A
470 473parallel
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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
A
700 702first strand
Strand 2
A
714 717anti-parallel
Strand 3
A
722 727anti-parallel
Strand 4
A
762 767parallel
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There are 2 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
63 66first strand
Strand 2
B
290 293parallel
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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
B
326 330first strand
Strand 2
B
468 473parallel
Strand 3
B
419 422parallel
Strand 4
B
359 363parallel
Strand 5
B
401 404parallel
Strand 6
B
378 379parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il