Analysis of interatomic Contacts of Structural Units in PDB entry:
5VAK


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 5VAK entry

There are 2 chains in PDB entry 5VAK (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 PHE 53LEU 510
B
 GLN 3SER 124
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
Back to top of page

There are 26 helices in PDB entry 5VAK. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
55 62Right-handed 310
Helix 2
AA2
A
92 97Right-handed alpha
Helix 3
AA3
A
101 105Right-handed 310
Helix 4
AA4
A
108 118Right-handed alpha
Helix 5
AA5
A
133 145Right-handed alpha
Helix 6
AA6
A
154 159Right-handed alpha
Helix 7
AA7
A
168 185Right-handed alpha
Helix 8
AA8
A
199 207Right-handed alpha
Helix 9
AA9
A
208 212Right-handed 310
Helix 10
AB1
A
213 230Right-handed alpha
Helix 11
AB2
A
241 251Right-handed alpha
Helix 12
AB3
A
262 288Right-handed alpha
Helix 13
AB4
A
288 293Right-handed alpha
Helix 14
AB5
A
312 327Right-handed alpha
Helix 15
AB6
A
327 336Right-handed alpha
Helix 16
AB7
A
341 348Right-handed alpha
Helix 17
AB8
A
356 364Right-handed alpha
Helix 18
AB9
A
375 379Right-handed 310
Helix 19
AC1
A
381 385Right-handed 310
Helix 20
AC2
A
395 407Right-handed alpha
Helix 21
AC3
A
429 451Right-handed alpha
Helix 22
AC4
A
467 471Right-handed 310
Helix 23
AC5
A
493 506Right-handed alpha
Helix 24
AC6
B
74 76Right-handed 310
Helix 25
AC7
B
87 91Right-handed 310
Helix 26
AC8
B
107 111Right-handed 310
Back to top of page

There are 7 sheets in PDB entry 5VAK. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7,

There are 9 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
86 90first strand
Strand 2
A
148 152parallel
Strand 3
A
188 194parallel
Strand 4
A
235 240parallel
Strand 5
A
295 301parallel
Strand 6
A
370 374parallel
Strand 7
A
411 417parallel
Strand 8
A
453 460parallel
Strand 9
A
86 90parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
304 306first strand
Strand 2
A
391 393anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
421 422first strand
Strand 2
A
474 475anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
479 480first strand
Strand 2
A
491 492anti-parallel
Back to list of sheets
Back to top of page

There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
4 7first strand
Strand 2
B
18 24anti-parallel
Strand 3
B
78 83anti-parallel
Strand 4
B
68 73anti-parallel
Back to list of sheets
Back to top of page

There are 6 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
10 12first strand
Strand 2
B
118 122parallel
Strand 3
B
92 99anti-parallel
Strand 4
B
33 39anti-parallel
Strand 5
B
46 51anti-parallel
Strand 6
B
58 60anti-parallel
Back to list of sheets
Back to top of page

There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
10 12first strand
Strand 2
B
118 122parallel
Strand 3
B
92 99anti-parallel
Strand 4
B
113 114anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il