Analysis of interatomic Contacts of Structural Units in PDB entry:
9D5J


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 9D5J entry

There are 5 chains in PDB entry 9D5J (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 316LEU 699
B
 ASN 235THR 700
C
 G 1 G 12
C
 G 14 G 32
D
 C 1 C 32
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 32 helices in PDB entry 9D5J. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
319 339Right-handed alpha
Helix 2
AA2
A
344 348Right-handed 310
Helix 3
AA3
A
379 383Right-handed 310
Helix 4
AA4
A
395 415Right-handed alpha
Helix 5
AA5
A
417 422Right-handed alpha
Helix 6
AA6
A
501 507Right-handed alpha
Helix 7
AA7
A
515 527Right-handed alpha
Helix 8
AA8
A
532 536Right-handed 310
Helix 9
AA9
A
552 561Right-handed alpha
Helix 10
AB1
A
562 565Right-handed 310
Helix 11
AB2
A
628 641Right-handed alpha
Helix 12
AB3
A
657 664Right-handed alpha
Helix 13
AB4
A
665 682Right-handed alpha
Helix 14
AB5
A
691 696Right-handed 310
Helix 15
AB6
B
236 244Right-handed alpha
Helix 16
AB7
B
280 297Right-handed alpha
Helix 17
AB8
B
303 307Right-handed 310
Helix 18
AB9
B
319 339Right-handed alpha
Helix 19
AC1
B
344 348Right-handed 310
Helix 20
AC2
B
362 364Right-handed 310
Helix 21
AC3
B
379 383Right-handed 310
Helix 22
AC4
B
394 415Right-handed alpha
Helix 23
AC5
B
419 424Right-handed alpha
Helix 24
AC6
B
452 456Right-handed 310
Helix 25
AC7
B
515 527Right-handed alpha
Helix 26
AC8
B
529 535Right-handed alpha
Helix 27
AC9
B
552 561Right-handed alpha
Helix 28
AD1
B
562 565Right-handed 310
Helix 29
AD2
B
628 643Right-handed alpha
Helix 30
AD3
B
657 664Right-handed alpha
Helix 31
AD4
B
665 682Right-handed alpha
Helix 32
AD5
B
691 695Right-handed 310
Back to top of page

There are 9 sheets in PDB entry 9D5J. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 8 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
580 583first strand
Strand 2
A
542 547parallel
Strand 3
A
441 446parallel
Strand 4
A
352 358anti-parallel
Strand 5
A
368 373anti-parallel
Strand 6
A
598 603anti-parallel
Strand 7
A
610 613anti-parallel
Strand 8
A
618 619anti-parallel
Back to list of sheets
Back to top of page

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
A
375 377first strand
Strand 2
A
392 394anti-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
426 428first strand
Strand 2
A
434 436anti-parallel
Back to list of sheets
Back to top of page

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
A
487 492first strand
Strand 2
A
481 484anti-parallel
Strand 3
A
512 514anti-parallel
Back to list of sheets
Back to top of page

There are 3 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
250 253first strand
Strand 2
B
263 269anti-parallel
Strand 3
B
272 278anti-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
B
256 257first strand
Strand 2
B
260 261anti-parallel
Back to list of sheets
Back to top of page

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
B
580 583first strand
Strand 2
B
544 547parallel
Strand 3
B
441 446parallel
Strand 4
B
352 358anti-parallel
Strand 5
B
366 373anti-parallel
Strand 6
B
598 603anti-parallel
Strand 7
B
610 613anti-parallel
Back to list of sheets
Back to top of page

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
B
426 427first strand
Strand 2
B
435 436anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
481 483first strand
Strand 2
B
490 492anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il