Analysis of interatomic Contacts of Structural Units in PDB entry:
3K4D


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 3K4D entry

There are 2 chains in PDB entry 3K4D (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER -1GLY 601
B
 SER -1GLY 601
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 22 helices in PDB entry 3K4D. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
33 37Right-handed 310
Helix 2
2
A
57 62Right-handed alpha
Helix 3
3
A
76 80Right-handed 310
Helix 4
4
A
119 122Right-handed 310
Helix 5
5
A
307 322Right-handed alpha
Helix 6
6
A
334 345Right-handed alpha
Helix 7
7
A
381 400Right-handed alpha
Helix 8
8
A
420 436Right-handed alpha
Helix 9
9
A
456 460Right-handed 310
Helix 10
10
A
477 497Right-handed alpha
Helix 11
11
A
522 540Right-handed alpha
Helix 12
12
A
578 591Right-handed alpha
Helix 13
13
B
33 37Right-handed 310
Helix 14
14
B
57 62Right-handed alpha
Helix 15
15
B
119 122Right-handed 310
Helix 16
16
B
307 322Right-handed alpha
Helix 17
17
B
334 345Right-handed alpha
Helix 18
18
B
381 400Right-handed alpha
Helix 19
19
B
420 436Right-handed alpha
Helix 20
20
B
477 496Right-handed alpha
Helix 21
21
B
522 540Right-handed alpha
Helix 22
22
B
579 591Right-handed alpha
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There are 14 sheets in PDB entry 3K4D. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N,

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
11 12first strand
Strand 2
A
174 179anti-parallel
Strand 3
A
83 88anti-parallel
Strand 4
A
114 117anti-parallel
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There are 6 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
43 45first strand
Strand 2
A
19 24anti-parallel
Strand 3
A
66 74anti-parallel
Strand 4
A
127 135anti-parallel
Strand 5
A
94 99anti-parallel
Strand 6
A
103 108anti-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
A
146 150first strand
Strand 2
A
156 160anti-parallel
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There are 3 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
183 191first strand
Strand 2
A
199 208anti-parallel
Strand 3
A
232 237anti-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
223 228first strand
Strand 2
A
211 217anti-parallel
Strand 3
A
250 257anti-parallel
Strand 4
A
262 269anti-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
274 277first strand
Strand 2
A
280 283anti-parallel
Strand 3
A
286 287anti-parallel
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There are 8 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
441 444first strand
Strand 2
A
405 412parallel
Strand 3
A
347 351parallel
Strand 4
A
325 328parallel
Strand 5
A
290 295parallel
Strand 6
A
543 549parallel
Strand 7
A
500 504parallel
Strand 8
A
463 466parallel
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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
B
11 13first strand
Strand 2
B
174 179anti-parallel
Strand 3
B
83 88anti-parallel
Strand 4
B
114 117anti-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
B
43 46first strand
Strand 2
B
18 23anti-parallel
Strand 3
B
66 74anti-parallel
Strand 4
B
127 135anti-parallel
Strand 5
B
94 99anti-parallel
Strand 6
B
103 108anti-parallel
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There are 2 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
146 150first strand
Strand 2
B
156 160anti-parallel
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There are 3 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
183 191first strand
Strand 2
B
199 208anti-parallel
Strand 3
B
236 237anti-parallel
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There are 4 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
223 225first strand
Strand 2
B
216 217anti-parallel
Strand 3
B
250 257anti-parallel
Strand 4
B
262 269anti-parallel
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There are 3 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
274 277first strand
Strand 2
B
280 283anti-parallel
Strand 3
B
286 288anti-parallel
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There are 9 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
292 295first strand
Strand 2
B
325 328parallel
Strand 3
B
347 351parallel
Strand 4
B
405 412parallel
Strand 5
B
441 445parallel
Strand 6
B
463 466parallel
Strand 7
B
500 505parallel
Strand 8
B
543 548parallel
Strand 9
B
292 295parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il