Analysis of interatomic Contacts of Structural Units in PDB entry:
3D9A


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 3D9A entry

There are 3 chains in PDB entry 3D9A (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
C
 LYS 601LEU 729
L
 ASP 1GLU 213
H
 ASP 301ILE 510
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 18 helices in PDB entry 3D9A. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
C
604 615Right-handed alpha
Helix 2
2
C
619 623Right-handed 310
Helix 3
3
C
624 637Right-handed alpha
Helix 4
4
C
679 685Right-handed 310
Helix 5
5
C
688 700Right-handed alpha
Helix 6
6
C
703 707Right-handed 310
Helix 7
7
C
708 715Right-handed alpha
Helix 8
8
C
719 725Right-handed 310
Helix 9
9
L
79 83Right-handed 310
Helix 10
10
L
121 127Right-handed alpha
Helix 11
11
L
183 189Right-handed alpha
Helix 12
12
H
328 332Right-handed 310
Helix 13
13
H
361 364Right-handed 310
Helix 14
14
H
373 375Right-handed 310
Helix 15
15
H
386 390Right-handed 310
Helix 16
16
H
456 458Right-handed 310
Helix 17
17
H
486 488Right-handed 310
Helix 18
18
H
500 503Right-handed 310
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There are 11 sheets in PDB entry 3D9A. 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
C
643 645first strand
Strand 2
C
651 653anti-parallel
Strand 3
C
658 659anti-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
L
4 7first strand
Strand 2
L
19 25anti-parallel
Strand 3
L
70 75anti-parallel
Strand 4
L
62 67anti-parallel
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There are 6 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
L
10 13first strand
Strand 2
L
102 106parallel
Strand 3
L
84 90anti-parallel
Strand 4
L
33 38anti-parallel
Strand 5
L
45 49anti-parallel
Strand 6
L
53 54anti-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
L
10 13first strand
Strand 2
L
102 106parallel
Strand 3
L
84 90anti-parallel
Strand 4
L
97 98anti-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
L
114 118first strand
Strand 2
L
129 139anti-parallel
Strand 3
L
173 182anti-parallel
Strand 4
L
159 163anti-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
L
153 155first strand
Strand 2
L
145 150anti-parallel
Strand 3
L
191 197anti-parallel
Strand 4
L
205 210anti-parallel
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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
303 307first strand
Strand 2
H
318 325anti-parallel
Strand 3
H
377 382anti-parallel
Strand 4
H
367 372anti-parallel
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There are 6 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
311 312first strand
Strand 2
H
407 411parallel
Strand 3
H
391 397anti-parallel
Strand 4
H
334 340anti-parallel
Strand 5
H
344 351anti-parallel
Strand 6
H
357 359anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
420 424first strand
Strand 2
H
435 445anti-parallel
Strand 3
H
474 484anti-parallel
Strand 4
H
463 465anti-parallel
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There are 4 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
420 424first strand
Strand 2
H
435 445anti-parallel
Strand 3
H
474 484anti-parallel
Strand 4
H
469 471anti-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
H
451 454first strand
Strand 2
H
494 499anti-parallel
Strand 3
H
504 509anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il