Analysis of interatomic Contacts of Structural Units in PDB entry:
6JDO


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 6JDO entry

There are 2 chains in PDB entry 6JDO (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1GLY 293
B
 MET 1LYS 291
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 6JDO. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
35 51Right-handed alpha
Helix 2
AA2
A
75 83Right-handed 310
Helix 3
AA3
A
86 93Right-handed alpha
Helix 4
AA4
A
104 114Right-handed alpha
Helix 5
AA5
A
153 157Right-handed 310
Helix 6
AA6
A
174 179Right-handed alpha
Helix 7
AA7
A
179 188Right-handed alpha
Helix 8
AA8
A
195 205Right-handed alpha
Helix 9
AA9
A
207 233Right-handed alpha
Helix 10
AB1
A
248 259Right-handed alpha
Helix 11
AB2
A
260 265Right-handed 310
Helix 12
AB3
A
276 292Right-handed alpha
Helix 13
AB4
B
35 51Right-handed alpha
Helix 14
AB5
B
75 83Right-handed 310
Helix 15
AB6
B
86 93Right-handed alpha
Helix 16
AB7
B
104 114Right-handed alpha
Helix 17
AB8
B
153 157Right-handed 310
Helix 18
AB9
B
174 179Right-handed alpha
Helix 19
AC1
B
179 188Right-handed alpha
Helix 20
AC2
B
195 205Right-handed alpha
Helix 21
AC3
B
207 233Right-handed alpha
Helix 22
AC4
B
248 259Right-handed alpha
Helix 23
AC5
B
261 265Right-handed 310
Helix 24
AC6
B
276 291Right-handed alpha
Back to top of page

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

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
22 30first strand
Strand 2
A
12 19anti-parallel
Strand 3
A
2 8anti-parallel
Strand 4
A
57 62parallel
Strand 5
A
99 103parallel
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
65 67first strand
Strand 2
A
70 72anti-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
A
142 143first strand
Strand 2
A
133 139anti-parallel
Strand 3
A
124 129anti-parallel
Strand 4
A
236 240parallel
Strand 5
A
267 270parallel
Back to list of sheets
Back to top of page

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
B
22 30first strand
Strand 2
B
12 19anti-parallel
Strand 3
B
2 8anti-parallel
Strand 4
B
57 62parallel
Strand 5
B
99 103parallel
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
B
65 67first strand
Strand 2
B
70 72anti-parallel
Back to list of sheets
Back to top of page

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
142 143first strand
Strand 2
B
133 139anti-parallel
Strand 3
B
124 129anti-parallel
Strand 4
B
236 240parallel
Strand 5
B
267 270parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il