Analysis of interatomic Contacts of Structural Units in PDB entry:
8VDC


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 8VDC entry

There are 2 chains in PDB entry 8VDC (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASN 16LYS 481
B
 ARG 99PHE 110
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 18 helices in PDB entry 8VDC. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
16 21Right-handed alpha
Helix 2
AA2
A
34 40Right-handed alpha
Helix 3
AA3
A
42 55Right-handed alpha
Helix 4
AA4
A
55 68Right-handed alpha
Helix 5
AA5
A
71 76Right-handed alpha
Helix 6
AA6
A
77 80Right-handed 310
Helix 7
AA7
A
93 108Right-handed alpha
Helix 8
AA8
A
117 131Right-handed alpha
Helix 9
AA9
A
132 148Right-handed alpha
Helix 10
AB1
A
168 170Right-handed 310
Helix 11
AB2
A
261 282Right-handed alpha
Helix 12
AB3
A
298 305Right-handed 310
Helix 13
AB4
A
338 356Right-handed alpha
Helix 14
AB5
A
371 380Right-handed alpha
Helix 15
AB6
A
380 412Right-handed alpha
Helix 16
AB7
A
435 445Right-handed alpha
Helix 17
AB8
A
451 458Right-handed alpha
Helix 18
AB9
A
466 479Right-handed alpha
Back to top of page

There are 6 sheets in PDB entry 8VDC. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

There are 6 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
30 31first strand
Strand 2
A
172 177parallel
Strand 3
A
184 192anti-parallel
Strand 4
A
204 210anti-parallel
Strand 5
A
214 221anti-parallel
Strand 6
A
229 237anti-parallel
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
112 114first strand
Strand 2
A
425 427anti-parallel
Back to list of sheets
Back to top of page

There are 3 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
162 167first strand
Strand 2
A
149 156anti-parallel
Strand 3
A
246 249anti-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
285 290first strand
Strand 2
A
329 334anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
310 312first strand
Strand 2
B
106 108anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
315 317first strand
Strand 2
A
323 325anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il