Analysis of interatomic Contacts of Structural Units in PDB entry:
5NDX


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 5NDX entry

There is 1 chain in PDB entry 5NDX (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1SER 621
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 17 helices in PDB entry 5NDX. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
29 34Right-handed 310
Helix 2
AA2
A
35 46Right-handed alpha
Helix 3
AA3
A
60 65Right-handed 310
Helix 4
AA4
A
75 88Right-handed alpha
Helix 5
AA5
A
99 103Right-handed 310
Helix 6
AA6
A
109 132Right-handed alpha
Helix 7
AA7
A
132 137Right-handed alpha
Helix 8
AA8
A
154 172Right-handed alpha
Helix 9
AA9
A
189 201Right-handed alpha
Helix 10
AB1
A
234 253Right-handed alpha
Helix 11
AB2
A
276 280Right-handed 310
Helix 12
AB3
A
281 299Right-handed alpha
Helix 13
AB4
A
363 373Right-handed alpha
Helix 14
AB5
A
389 394Right-handed alpha
Helix 15
AB6
A
451 458Right-handed alpha
Helix 16
AB7
A
479 490Right-handed alpha
Helix 17
AB8
A
546 548Right-handed 310
Back to top of page

There are 7 sheets in PDB entry 5NDX. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 3 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
493 494first strand
Strand 2
A
436 445anti-parallel
Strand 3
A
499 503anti-parallel
Back to list of sheets
Back to top of page

There are 9 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
493 494first strand
Strand 2
A
436 445anti-parallel
Strand 3
A
518 526anti-parallel
Strand 4
A
407 413anti-parallel
Strand 5
A
395 401anti-parallel
Strand 6
A
378 385anti-parallel
Strand 7
A
4 17anti-parallel
Strand 8
A
422 431parallel
Strand 9
A
508 516anti-parallel
Back to list of sheets
Back to top of page

There are 8 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
24 27first strand
Strand 2
A
55 58parallel
Strand 3
A
91 95parallel
Strand 4
A
140 142parallel
Strand 5
A
179 184parallel
Strand 6
A
216 219parallel
Strand 7
A
261 263parallel
Strand 8
A
307 310parallel
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
66 67first strand
Strand 2
A
73 74anti-parallel
Back to list of sheets
Back to top of page

There are 2 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
326 330first strand
Strand 2
A
358 362anti-parallel
Back to list of sheets
Back to top of page

There are 3 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
536 545first strand
Strand 2
A
549 557anti-parallel
Strand 3
A
590 594anti-parallel
Back to list of sheets
Back to top of page

There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
579 580first strand
Strand 2
A
566 572anti-parallel
Strand 3
A
601 607anti-parallel
Strand 4
A
618 620anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il