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


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 5VTM entry

There are 3 chains in PDB entry 5VTM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
W
 GLU 44LYS 205
X
 VAL 44GLY 316
V
 SER 38GLY 126
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 15 helices in PDB entry 5VTM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
W
44 63Right-handed alpha
Helix 2
AA2
W
169 176Right-handed alpha
Helix 3
AA3
X
45 66Right-handed alpha
Helix 4
AA4
X
82 86Right-handed 310
Helix 5
AA5
X
105 109Right-handed 310
Helix 6
AA6
X
122 136Right-handed alpha
Helix 7
AA7
X
139 155Right-handed alpha
Helix 8
AA8
X
161 165Right-handed 310
Helix 9
AA9
X
167 172Right-handed alpha
Helix 10
AB1
X
187 194Right-handed 310
Helix 11
AB2
X
197 205Right-handed alpha
Helix 12
AB3
X
223 231Right-handed alpha
Helix 13
AB4
X
234 246Right-handed alpha
Helix 14
AB5
X
252 262Right-handed alpha
Helix 15
AB6
V
39 60Right-handed alpha
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There are 8 sheets in PDB entry 5VTM. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 2 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
W
69 70first strand
Strand 2
W
76 77anti-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
W
80 83first strand
Strand 2
W
89 94anti-parallel
Strand 3
W
109 116anti-parallel
Strand 4
W
119 124anti-parallel
Strand 5
W
137 142anti-parallel
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There are 4 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
W
159 160first strand
Strand 2
W
145 153anti-parallel
Strand 3
W
180 187anti-parallel
Strand 4
W
191 198anti-parallel
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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
X
91 92first strand
Strand 2
X
98 104anti-parallel
Strand 3
X
278 287anti-parallel
Strand 4
X
290 300anti-parallel
Strand 5
X
306 312anti-parallel
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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
X
110 111first strand
Strand 2
X
208 209parallel
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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
X
116 117first strand
Strand 2
X
120 121anti-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
X
217 218first strand
Strand 2
X
272 273parallel
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There are 4 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
V
67 75first strand
Strand 2
V
78 87anti-parallel
Strand 3
V
95 101anti-parallel
Strand 4
V
119 125anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il