Analysis of interatomic Contacts of Structural Units in PDB entry:
1PD1


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 1PD1 entry

There are 2 chains in PDB entry 1PD1 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ARG 133LYS 926
B
 GLN 482ILE 490
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 29 helices in PDB entry 1PD1. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
144 146Right-handed 310
Helix 2
2
A
150 156Right-handed 310
Helix 3
3
A
164 168Right-handed 310
Helix 4
4
A
192 200Right-handed alpha
Helix 5
5
A
263 268Right-handed 310
Helix 6
6
A
276 279Right-handed 310
Helix 7
7
A
280 285Right-handed alpha
Helix 8
8
A
293 297Right-handed 310
Helix 9
9
A
313 320Right-handed alpha
Helix 10
10
A
320 333Right-handed alpha
Helix 11
11
A
361 365Right-handed 310
Helix 12
12
A
399 414Right-handed alpha
Helix 13
13
A
423 436Right-handed alpha
Helix 14
14
A
481 494Right-handed alpha
Helix 15
15
A
508 518Right-handed alpha
Helix 16
16
A
533 550Right-handed alpha
Helix 17
17
A
638 645Right-handed alpha
Helix 18
18
A
647 664Right-handed alpha
Helix 19
19
A
667 690Right-handed alpha
Helix 20
20
A
706 708Right-handed 310
Helix 21
21
A
709 720Right-handed alpha
Helix 22
22
A
729 743Right-handed alpha
Helix 23
23
A
744 753Right-handed alpha
Helix 24
24
A
790 794Right-handed 310
Helix 25
25
A
817 826Right-handed alpha
Helix 26
26
A
829 833Right-handed 310
Helix 27
27
A
846 859Right-handed alpha
Helix 28
28
A
888 902Right-handed alpha
Helix 29
29
A
912 924Right-handed alpha
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There are 8 sheets in PDB entry 1PD1. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

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
140 142first strand
Strand 2
A
702 704anti-parallel
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There are 4 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
182 184first strand
Strand 2
A
204 207anti-parallel
Strand 3
A
594 600anti-parallel
Strand 4
A
566 572anti-parallel
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There are 4 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
189 190first strand
Strand 2
A
624 636parallel
Strand 3
A
287 291anti-parallel
Strand 4
A
222 223parallel
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There are 5 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
189 190first strand
Strand 2
A
624 636parallel
Strand 3
A
608 619anti-parallel
Strand 4
A
553 562anti-parallel
Strand 5
A
583 588anti-parallel
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There are 3 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
243 245first strand
Strand 2
A
250 252anti-parallel
Strand 3
A
259 261anti-parallel
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There are 4 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
374 378first strand
Strand 2
A
354 358anti-parallel
Strand 3
A
344 350anti-parallel
Strand 4
A
393 395anti-parallel
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There are 7 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
374 378first strand
Strand 2
A
354 358anti-parallel
Strand 3
A
344 350anti-parallel
Strand 4
A
305 311parallel
Strand 5
A
440 446parallel
Strand 6
A
495 503parallel
Strand 7
A
523 527parallel
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There are 5 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
755 758first strand
Strand 2
A
799 803anti-parallel
Strand 3
A
807 812anti-parallel
Strand 4
A
870 875parallel
Strand 5
A
836 837anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il