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


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 3LDK entry

There is 1 chain in PDB entry 3LDK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 20ARG 653
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 12 helices in PDB entry 3LDK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
32 36Right-handed 310
Helix 2
2
A
126 130Right-handed 310
Helix 3
3
A
197 206Right-handed alpha
Helix 4
4
A
213 222Right-handed alpha
Helix 5
5
A
223 224Right-handed 310
Helix 6
6
A
225 229Right-handed 310
Helix 7
7
A
253 255Right-handed 310
Helix 8
8
A
380 387Right-handed alpha
Helix 9
9
A
411 416Right-handed alpha
Helix 10
10
A
438 443Right-handed alpha
Helix 11
11
A
468 476Right-handed alpha
Helix 12
12
A
515 519Right-handed 310
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There are 11 sheets in PDB entry 3LDK. 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 4 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
65 66first strand
Strand 2
A
73 79anti-parallel
Strand 3
A
84 89anti-parallel
Strand 4
A
104 106anti-parallel
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There are 5 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
96 97first strand
Strand 2
A
84 89anti-parallel
Strand 3
A
73 79anti-parallel
Strand 4
A
56 61anti-parallel
Strand 5
A
417 418parallel
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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
116 123first strand
Strand 2
A
132 138anti-parallel
Strand 3
A
154 161anti-parallel
Strand 4
A
168 170anti-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
186 195first strand
Strand 2
A
232 239anti-parallel
Strand 3
A
243 251anti-parallel
Strand 4
A
262 270anti-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
290 299first strand
Strand 2
A
310 319anti-parallel
Strand 3
A
331 343anti-parallel
Strand 4
A
352 363anti-parallel
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There are 3 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
368 376first strand
Strand 2
A
392 399anti-parallel
Strand 3
A
420 421anti-parallel
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There are 5 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
368 376first strand
Strand 2
A
392 399anti-parallel
Strand 3
A
425 435anti-parallel
Strand 4
A
458 467anti-parallel
Strand 5
A
449 453anti-parallel
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There are 3 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
480 484first strand
Strand 2
A
635 644anti-parallel
Strand 3
A
487 489anti-parallel
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There are 6 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
480 484first strand
Strand 2
A
635 644anti-parallel
Strand 3
A
505 513anti-parallel
Strand 4
A
590 597anti-parallel
Strand 5
A
600 605anti-parallel
Strand 6
A
609 614anti-parallel
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There are 6 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
493 496first strand
Strand 2
A
624 629anti-parallel
Strand 3
A
524 531anti-parallel
Strand 4
A
537 542anti-parallel
Strand 5
A
547 551anti-parallel
Strand 6
A
570 573anti-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
A
578 580first strand
Strand 2
A
585 587anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il