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


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 4APP entry


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

There are 2 chains in PDB entry 4APP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 299LYS 473
A
 LEU 475ARG 591
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 18 helices in PDB entry 4APP. 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 312Right-handed alpha
Helix 2
2
A
316 319Right-handed 310
Helix 3
3
A
355 357Right-handed 310
Helix 4
4
A
359 371Right-handed alpha
Helix 5
5
A
403 408Right-handed alpha
Helix 6
6
A
413 434Right-handed alpha
Helix 7
7
A
442 444Right-handed 310
Helix 8
8
A
478 482Right-handed 310
Helix 9
9
A
483 488Right-handed alpha
Helix 10
10
A
494 511Right-handed alpha
Helix 11
11
A
519 530Right-handed alpha
Helix 12
12
A
537 541Right-handed 310
Helix 13
13
A
542 553Right-handed alpha
Helix 14
14
A
562 567Right-handed alpha
Helix 15
15
A
568 575Right-handed 310
Helix 16
16
A
577 581Right-handed 310
Helix 17
17
A
581 585Right-handed 310
Helix 18
18
A
585 589Right-handed 310
Back to top of page

There are 3 sheets in PDB entry 4APP. Click on sheet of interest to get list of strands forming it: AA, AB, AC,

There are 5 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
321 330first strand
Strand 2
A
333 340anti-parallel
Strand 3
A
346 353anti-parallel
Strand 4
A
390 395anti-parallel
Strand 5
A
381 387anti-parallel
Back to list of sheets
Back to top of page

There are 3 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
401 402first strand
Strand 2
A
446 448anti-parallel
Strand 3
A
454 456anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AC 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
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il