Analysis of interatomic Contacts of Structural Units in PDB entry:
3KD5


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 3KD5 entry

There are 3 chains in PDB entry 3KD5 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
T
 C 1 G 18
P
 G 101 A 113
E
 MET 1ALA 905
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 37 helices in PDB entry 3KD5. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
E
64 77Right-handed alpha
Helix 2
2
E
87 97Right-handed alpha
Helix 3
3
E
104 108Right-handed 310
Helix 4
4
E
163 169Right-handed alpha
Helix 5
5
E
179 183Right-handed 310
Helix 6
6
E
193 208Right-handed alpha
Helix 7
7
E
221 234Right-handed alpha
Helix 8
8
E
235 240Right-handed alpha
Helix 9
9
E
241 243Right-handed 310
Helix 10
10
E
273 281Right-handed alpha
Helix 11
11
E
289 299Right-handed alpha
Helix 12
12
E
308 310Right-handed 310
Helix 13
13
E
311 316Right-handed alpha
Helix 14
14
E
316 339Right-handed alpha
Helix 15
15
E
339 352Right-handed alpha
Helix 16
16
E
354 359Right-handed 310
Helix 17
17
E
360 376Right-handed alpha
Helix 18
18
E
414 424Right-handed alpha
Helix 19
19
E
438 444Right-handed alpha
Helix 20
20
E
469 503Right-handed alpha
Helix 21
21
E
523 532Right-handed alpha
Helix 22
22
E
534 570Right-handed alpha
Helix 23
23
E
579 610Right-handed alpha
Helix 24
24
E
629 637Right-handed alpha
Helix 25
25
E
638 641Right-handed 310
Helix 26
26
E
643 658Right-handed alpha
Helix 27
27
E
658 675Right-handed alpha
Helix 28
28
E
730 734Right-handed 310
Helix 29
29
E
738 755Right-handed alpha
Helix 30
30
E
756 771Right-handed alpha
Helix 31
31
E
772 774Right-handed 310
Helix 32
32
E
787 791Right-handed alpha
Helix 33
33
E
802 815Right-handed alpha
Helix 34
34
E
858 866Right-handed alpha
Helix 35
35
E
867 876Right-handed alpha
Helix 36
36
E
876 888Right-handed alpha
Helix 37
37
E
896 901Right-handed 310
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There are 11 sheets in PDB entry 3KD5. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

There are 3 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
4 11first strand
Strand 2
E
14 20anti-parallel
Strand 3
E
26 31anti-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
E
36 40first strand
Strand 2
E
57 61anti-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
E
50 51first strand
Strand 2
E
378 379parallel
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There are 6 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
186 191first strand
Strand 2
E
145 151parallel
Strand 3
E
133 140anti-parallel
Strand 4
E
110 117anti-parallel
Strand 5
E
212 215parallel
Strand 6
E
269 272parallel
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There are 2 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
153 154first strand
Strand 2
E
157 158anti-parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
248 254first strand
Strand 2
E
259 265anti-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
E
402 403first strand
Strand 2
E
700 704anti-parallel
Strand 3
E
707 715anti-parallel
Strand 4
E
683 689anti-parallel
Strand 5
E
407 412anti-parallel
Strand 6
E
624 628anti-parallel
Strand 7
E
617 619anti-parallel
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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
402 403first strand
Strand 2
E
700 704anti-parallel
Strand 3
E
707 715anti-parallel
Strand 4
E
718 728anti-parallel
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There are 3 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
430 433first strand
Strand 2
E
461 464anti-parallel
Strand 3
E
454 456anti-parallel
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There are 3 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
781 784first strand
Strand 2
E
829 834anti-parallel
Strand 3
E
845 849anti-parallel
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There are 2 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
792 793first strand
Strand 2
E
796 797anti-parallel
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