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


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 9JKD entry

There are 3 chains in PDB entry 9JKD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 85ASP 763
B
 G 780 C 809
C
 G 893 U 901
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
Back to top of page

There are 38 helices in PDB entry 9JKD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
97 106Right-handed alpha
Helix 2
AA2
A
107 109Right-handed 310
Helix 3
AA3
A
125 128Right-handed 310
Helix 4
AA4
A
129 138Right-handed alpha
Helix 5
AA5
A
168 181Right-handed alpha
Helix 6
AA6
A
185 199Right-handed alpha
Helix 7
AA7
A
206 215Right-handed alpha
Helix 8
AA8
A
216 218Right-handed 310
Helix 9
AA9
A
226 247Right-handed alpha
Helix 10
AB1
A
255 259Right-handed 310
Helix 11
AB2
A
260 265Right-handed alpha
Helix 12
AB3
A
266 268Right-handed 310
Helix 13
AB4
A
273 280Right-handed 310
Helix 14
AB5
A
286 299Right-handed alpha
Helix 15
AB6
A
299 309Right-handed alpha
Helix 16
AB7
A
315 320Right-handed alpha
Helix 17
AB8
A
354 376Right-handed alpha
Helix 18
AB9
A
390 402Right-handed alpha
Helix 19
AC1
A
420 425Right-handed alpha
Helix 20
AC2
A
426 440Right-handed alpha
Helix 21
AC3
A
447 466Right-handed alpha
Helix 22
AC4
A
490 515Right-handed alpha
Helix 23
AC5
A
518 530Right-handed alpha
Helix 24
AC6
A
545 550Right-handed alpha
Helix 25
AC7
A
556 566Right-handed alpha
Helix 26
AC8
A
572 576Right-handed 310
Helix 27
AC9
A
581 585Right-handed 310
Helix 28
AD1
A
604 615Right-handed alpha
Helix 29
AD2
A
619 635Right-handed alpha
Helix 30
AD3
A
638 652Right-handed alpha
Helix 31
AD4
A
662 678Right-handed alpha
Helix 32
AD5
A
681 692Right-handed alpha
Helix 33
AD6
A
693 695Right-handed 310
Helix 34
AD7
A
698 704Right-handed alpha
Helix 35
AD8
A
705 707Right-handed 310
Helix 36
AD9
A
734 742Right-handed alpha
Helix 37
AE1
A
744 756Right-handed alpha
Helix 38
AE2
A
757 761Right-handed 310
Back to top of page

There are 6 sheets in PDB entry 9JKD. 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
91 92first strand
Strand 2
A
149 150anti-parallel
Back to list of sheets
Back to top of page

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
144 146first strand
Strand 2
A
476 481anti-parallel
Strand 3
A
467 472anti-parallel
Strand 4
A
323 328parallel
Strand 5
A
349 352anti-parallel
Back to list of sheets
Back to top of page

There are 2 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
200 203first strand
Strand 2
A
331 334anti-parallel
Back to list of sheets
Back to top of page

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
A
336 338first strand
Strand 2
A
341 343anti-parallel
Back to list of sheets
Back to top of page

There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
534 537first strand
Strand 2
A
540 544anti-parallel
Strand 3
A
413 415anti-parallel
Strand 4
A
577 579anti-parallel
Back to list of sheets
Back to top of page

There are 2 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
591 595first strand
Strand 2
A
598 602anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il