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


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 5VND entry

There are 2 chains in PDB entry 5VND (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 TYR 463GLU 765
B
 VAL 460GLU 765
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 24 helices in PDB entry 5VND. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
474 476Right-handed 310
Helix 2
AA2
A
522 539Right-handed alpha
Helix 3
AA3
A
568 575Right-handed alpha
Helix 4
AA4
A
596 617Right-handed alpha
Helix 5
AA5
A
625 627Right-handed 310
Helix 6
AA6
A
662 667Right-handed 310
Helix 7
AA7
A
668 675Right-handed alpha
Helix 8
AA8
A
678 695Right-handed alpha
Helix 9
AA9
A
705 715Right-handed alpha
Helix 10
AB1
A
726 737Right-handed alpha
Helix 11
AB2
A
740 744Right-handed 310
Helix 12
AB3
A
746 761Right-handed alpha
Helix 13
AB4
B
474 476Right-handed 310
Helix 14
AB5
B
521 539Right-handed alpha
Helix 15
AB6
B
568 575Right-handed alpha
Helix 16
AB7
B
596 617Right-handed alpha
Helix 17
AB8
B
625 627Right-handed 310
Helix 18
AB9
B
662 667Right-handed 310
Helix 19
AC1
B
668 675Right-handed alpha
Helix 20
AC2
B
678 695Right-handed alpha
Helix 21
AC3
B
705 715Right-handed alpha
Helix 22
AC4
B
726 737Right-handed alpha
Helix 23
AC5
B
740 744Right-handed 310
Helix 24
AC6
B
746 760Right-handed alpha
Back to top of page

There are 4 sheets in PDB entry 5VND. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4,

There are 5 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
478 486first strand
Strand 2
A
491 498anti-parallel
Strand 3
A
508 515anti-parallel
Strand 4
A
558 562anti-parallel
Strand 5
A
547 551anti-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
629 631first strand
Strand 2
A
637 639anti-parallel
Back to list of sheets
Back to top of page

There are 5 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
478 486first strand
Strand 2
B
490 498anti-parallel
Strand 3
B
508 516anti-parallel
Strand 4
B
558 562anti-parallel
Strand 5
B
547 551anti-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
B
629 631first strand
Strand 2
B
637 639anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il