Analysis of interatomic Contacts of Structural Units in PDB entry:
4JDJ


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 4JDJ entry


Note, this PDB entry contains modified residue(s) PHOSPHOTHREONINE (TPO) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 4 chains in PDB entry 4JDJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 300LYS 473
A
 LEU 475ALA 561
A
 ALA 563ARG 589
B
 ARG -3TYR 2
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 17 helices in PDB entry 4JDJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
300 310Right-handed alpha
Helix 2
2
A
316 319Right-handed 310
Helix 3
3
A
355 357Right-handed 310
Helix 4
4
A
359 361Right-handed 310
Helix 5
5
A
362 373Right-handed alpha
Helix 6
6
A
402 408Right-handed alpha
Helix 7
7
A
413 434Right-handed alpha
Helix 8
8
A
442 444Right-handed 310
Helix 9
9
A
478 482Right-handed 310
Helix 10
10
A
483 488Right-handed alpha
Helix 11
11
A
494 511Right-handed alpha
Helix 12
12
A
519 530Right-handed alpha
Helix 13
13
A
537 541Right-handed 310
Helix 14
14
A
542 553Right-handed alpha
Helix 15
15
A
562 567Right-handed alpha
Helix 16
16
A
568 575Right-handed 310
Helix 17
17
A
577 585Right-handed 310
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There are 3 sheets in PDB entry 4JDJ. Click on sheet of interest to get list of strands forming it: A, B, C,

There are 5 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
321 328first strand
Strand 2
A
334 340anti-parallel
Strand 3
A
346 353anti-parallel
Strand 4
A
390 395anti-parallel
Strand 5
A
381 387anti-parallel
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There are 2 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
436 437first strand
Strand 2
A
463 464anti-parallel
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There are 2 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
446 448first strand
Strand 2
A
454 456anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il