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


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 5VDT entry

There are 2 chains in PDB entry 5VDT (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 160GLU 521
B
 MET 160GLU 521
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 30 helices in PDB entry 5VDT. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
161 172Right-handed alpha
Helix 2
AA2
A
175 198Right-handed alpha
Helix 3
AA3
A
262 264Right-handed 310
Helix 4
AA4
A
272 287Right-handed alpha
Helix 5
AA5
A
331 335Right-handed 310
Helix 6
AA6
A
340 345Right-handed alpha
Helix 7
AA7
A
345 353Right-handed alpha
Helix 8
AA8
A
379 389Right-handed alpha
Helix 9
AA9
A
399 403Right-handed 310
Helix 10
AB1
A
405 424Right-handed alpha
Helix 11
AB2
A
434 449Right-handed alpha
Helix 12
AB3
A
451 458Right-handed 310
Helix 13
AB4
A
459 478Right-handed alpha
Helix 14
AB5
A
497 514Right-handed alpha
Helix 15
AB6
A
515 520Right-handed 310
Helix 16
AB7
B
161 173Right-handed alpha
Helix 17
AB8
B
175 198Right-handed alpha
Helix 18
AB9
B
262 264Right-handed 310
Helix 19
AC1
B
272 287Right-handed alpha
Helix 20
AC2
B
331 335Right-handed 310
Helix 21
AC3
B
340 345Right-handed alpha
Helix 22
AC4
B
345 353Right-handed alpha
Helix 23
AC5
B
379 389Right-handed alpha
Helix 24
AC6
B
399 403Right-handed 310
Helix 25
AC7
B
405 424Right-handed alpha
Helix 26
AC8
B
434 449Right-handed alpha
Helix 27
AC9
B
451 458Right-handed 310
Helix 28
AD1
B
459 478Right-handed alpha
Helix 29
AD2
B
497 514Right-handed alpha
Helix 30
AD3
B
515 520Right-handed 310
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There are 8 sheets in PDB entry 5VDT. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 7 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
206 209first strand
Strand 2
A
225 233anti-parallel
Strand 3
A
316 326parallel
Strand 4
A
357 360anti-parallel
Strand 5
A
375 378anti-parallel
Strand 6
A
248 253anti-parallel
Strand 7
A
237 241anti-parallel
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There are 5 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
206 209first strand
Strand 2
A
225 233anti-parallel
Strand 3
A
316 326parallel
Strand 4
A
307 312anti-parallel
Strand 5
A
296 298anti-parallel
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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
266 267first strand
Strand 2
A
270 271anti-parallel
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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
365 366first strand
Strand 2
A
369 370anti-parallel
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There are 7 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
206 209first strand
Strand 2
B
225 233anti-parallel
Strand 3
B
316 326parallel
Strand 4
B
357 360anti-parallel
Strand 5
B
375 378anti-parallel
Strand 6
B
248 253anti-parallel
Strand 7
B
237 241anti-parallel
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There are 5 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
206 209first strand
Strand 2
B
225 233anti-parallel
Strand 3
B
316 326parallel
Strand 4
B
307 312anti-parallel
Strand 5
B
296 298anti-parallel
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There are 2 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
266 267first strand
Strand 2
B
270 271anti-parallel
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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
364 365first strand
Strand 2
B
370 371anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il