Analysis of interatomic Contacts of Structural Units in PDB entry:
3VKM


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 3VKM entry

There are 2 chains in PDB entry 3VKM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1TRP 317
B
 MET 1TRP 317
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 4 helices in PDB entry 3VKM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
132 135Right-handed alpha
Helix 2
1
A
297 300Right-handed alpha
Helix 3
3
B
132 135Right-handed alpha
Helix 4
4
B
297 300Right-handed alpha
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There are 12 sheets in PDB entry 3VKM. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L,

There are 6 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
11 14first strand
Strand 2
A
145 152anti-parallel
Strand 3
A
30 39anti-parallel
Strand 4
A
101 110anti-parallel
Strand 5
A
113 118anti-parallel
Strand 6
A
121 127anti-parallel
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There are 6 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
19 23first strand
Strand 2
A
136 142anti-parallel
Strand 3
A
44 51anti-parallel
Strand 4
A
61 70anti-parallel
Strand 5
A
75 82anti-parallel
Strand 6
A
85 87anti-parallel
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There are 6 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
19 23first strand
Strand 2
A
136 142anti-parallel
Strand 3
A
44 51anti-parallel
Strand 4
A
61 70anti-parallel
Strand 5
A
75 82anti-parallel
Strand 6
A
90 93anti-parallel
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There are 5 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
310 317first strand
Strand 2
A
198 207anti-parallel
Strand 3
A
265 274anti-parallel
Strand 4
A
277 282anti-parallel
Strand 5
A
285 291anti-parallel
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There are 7 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
4 6first strand
Strand 2
A
187 192anti-parallel
Strand 3
A
301 307anti-parallel
Strand 4
A
212 219anti-parallel
Strand 5
A
225 234anti-parallel
Strand 6
A
238 245anti-parallel
Strand 7
A
248 250anti-parallel
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There are 7 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
4 6first strand
Strand 2
A
187 192anti-parallel
Strand 3
A
301 307anti-parallel
Strand 4
A
212 219anti-parallel
Strand 5
A
225 234anti-parallel
Strand 6
A
238 245anti-parallel
Strand 7
A
252 255anti-parallel
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There are 6 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
11 14first strand
Strand 2
B
145 152anti-parallel
Strand 3
B
30 39anti-parallel
Strand 4
B
101 110anti-parallel
Strand 5
B
113 118anti-parallel
Strand 6
B
121 127anti-parallel
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There are 6 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
19 23first strand
Strand 2
B
136 142anti-parallel
Strand 3
B
44 51anti-parallel
Strand 4
B
61 70anti-parallel
Strand 5
B
75 82anti-parallel
Strand 6
B
85 87anti-parallel
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There are 6 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
19 23first strand
Strand 2
B
136 142anti-parallel
Strand 3
B
44 51anti-parallel
Strand 4
B
61 70anti-parallel
Strand 5
B
75 82anti-parallel
Strand 6
B
90 93anti-parallel
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There are 5 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
310 317first strand
Strand 2
B
198 207anti-parallel
Strand 3
B
265 274anti-parallel
Strand 4
B
277 282anti-parallel
Strand 5
B
285 291anti-parallel
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There are 7 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
4 6first strand
Strand 2
B
187 192anti-parallel
Strand 3
B
301 307anti-parallel
Strand 4
B
212 219anti-parallel
Strand 5
B
225 234anti-parallel
Strand 6
B
238 245anti-parallel
Strand 7
B
248 250anti-parallel
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There are 7 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
4 6first strand
Strand 2
B
187 192anti-parallel
Strand 3
B
301 307anti-parallel
Strand 4
B
212 219anti-parallel
Strand 5
B
225 234anti-parallel
Strand 6
B
238 245anti-parallel
Strand 7
B
252 255anti-parallel
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