Analysis of interatomic Contacts of Structural Units in PDB entry:
3ND9


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 3ND9 entry

There is 1 chain in PDB entry 3ND9 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 63ALA 588
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 20 helices in PDB entry 3ND9. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
215 222Right-handed alpha
Helix 2
2
A
242 251Right-handed alpha
Helix 3
3
A
268 275Right-handed alpha
Helix 4
4
A
276 278Right-handed 310
Helix 5
5
A
286 289Right-handed 310
Helix 6
6
A
302 307Right-handed alpha
Helix 7
7
A
307 322Right-handed alpha
Helix 8
8
A
359 370Right-handed alpha
Helix 9
9
A
402 411Right-handed alpha
Helix 10
10
A
418 424Right-handed alpha
Helix 11
11
A
439 451Right-handed alpha
Helix 12
12
A
454 480Right-handed alpha
Helix 13
13
A
481 484Right-handed 310
Helix 14
14
A
485 502Right-handed alpha
Helix 15
15
A
516 540Right-handed alpha
Helix 16
16
A
543 549Right-handed alpha
Helix 17
17
A
551 559Right-handed alpha
Helix 18
18
A
560 562Right-handed 310
Helix 19
19
A
564 570Right-handed alpha
Helix 20
20
A
570 585Right-handed alpha
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There are 5 sheets in PDB entry 3ND9. Click on sheet of interest to get list of strands forming it: A, B, C, D, E,

There are 2 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
73 76first strand
Strand 2
A
191 194anti-parallel
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There are 7 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
84 86first strand
Strand 2
A
291 296parallel
Strand 3
A
255 261parallel
Strand 4
A
325 331parallel
Strand 5
A
383 392parallel
Strand 6
A
372 375anti-parallel
Strand 7
A
203 205anti-parallel
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There are 8 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
84 86first strand
Strand 2
A
291 296parallel
Strand 3
A
255 261parallel
Strand 4
A
325 331parallel
Strand 5
A
383 392parallel
Strand 6
A
229 233parallel
Strand 7
A
413 414parallel
Strand 8
A
436 437anti-parallel
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There are 4 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
146 150first strand
Strand 2
A
135 140anti-parallel
Strand 3
A
118 122anti-parallel
Strand 4
A
166 168anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
129 130first strand
Strand 2
A
157 162anti-parallel
Strand 3
A
175 178anti-parallel
Strand 4
A
184 187anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il