Analysis of interatomic Contacts of Structural Units in PDB entry:
6PDJ


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 6PDJ entry

There are 2 chains in PDB entry 6PDJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLY 222GLU 393
A
 THR 395ALA 500
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 14 helices in PDB entry 6PDJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
241 243Right-handed 310
Helix 2
AA2
A
281 286Right-handed alpha
Helix 3
AA3
A
290 295Right-handed alpha
Helix 4
AA4
A
323 328Right-handed alpha
Helix 5
AA5
A
330 335Right-handed alpha
Helix 6
AA6
A
337 358Right-handed alpha
Helix 7
AA7
A
366 368Right-handed 310
Helix 8
AA8
A
403 407Right-handed 310
Helix 9
AA9
A
408 415Right-handed alpha
Helix 10
AB1
A
418 435Right-handed alpha
Helix 11
AB2
A
445 455Right-handed alpha
Helix 12
AB3
A
466 477Right-handed alpha
Helix 13
AB4
A
480 484Right-handed 310
Helix 14
AB5
A
486 500Right-handed alpha
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There are 4 sheets in PDB entry 6PDJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 5 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
245 253first strand
Strand 2
A
257 264anti-parallel
Strand 3
A
268 275anti-parallel
Strand 4
A
313 317anti-parallel
Strand 5
A
303 307anti-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
A
360 361first strand
Strand 2
A
387 388anti-parallel
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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
370 372first strand
Strand 2
A
378 380anti-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
A
394 395first strand
Strand 2
A
416 417anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il