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


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 6JOD entry

There are 5 chains in PDB entry 6JOD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
CYS 35LEU 340
B
ASP 1PHE 8
C
GLU 1008GLN 1093
H
ASP 1SER 220
L
ASP 1GLU 212
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 22 helices in PDB entry 6JOD. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
AA1
A
41 45Right-handed 310
Helix 2
AA2
A
46 71Right-handed alpha
Helix 3
AA3
A
77 95Right-handed alpha
Helix 4
AA4
A
96 106Right-handed alpha
Helix 5
AA5
A
113 148Right-handed alpha
Helix 6
AA6
A
156 175Right-handed alpha
Helix 7
AA7
A
175 181Right-handed alpha
Helix 8
AA8
A
200 202Right-handed 310
Helix 9
AA9
A
203 220Right-handed alpha
Helix 10
AB1
A
220 242Right-handed alpha
Helix 11
AB2
A
245 285Right-handed alpha
Helix 12
AB3
A
289 319Right-handed alpha
Helix 13
AB4
A
322 334Right-handed alpha
Helix 14
AB5
A
334 340Right-handed alpha
Helix 15
AB6
C
1009 1019Right-handed alpha
Helix 16
AB7
C
1022 1039Right-handed alpha
Helix 17
AB8
C
1068 1082Right-handed alpha
Helix 18
AB9
C
1083 1093Right-handed alpha
Helix 19
AC1
H
87 91Right-handed 310
Helix 20
AC2
L
78 82Right-handed 310
Helix 21
AC3
L
120 127Right-handed alpha
Helix 22
AC4
L
182 186Right-handed alpha
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There are 11 sheets in PDB entry 6JOD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

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
A
182 187first strand
Strand 2
A
192 197anti-parallel
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There are 4 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
H
3 7first strand
Strand 2
H
17 25anti-parallel
Strand 3
H
78 84anti-parallel
Strand 4
H
68 73anti-parallel
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There are 6 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
H
10 12first strand
Strand 2
H
114 118parallel
Strand 3
H
92 98anti-parallel
Strand 4
H
34 39anti-parallel
Strand 5
H
45 51anti-parallel
Strand 6
H
58 60anti-parallel
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There are 4 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
H
10 12first strand
Strand 2
H
114 118parallel
Strand 3
H
92 98anti-parallel
Strand 4
H
109 110anti-parallel
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There are 4 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
H
127 131first strand
Strand 2
H
142 152anti-parallel
Strand 3
H
181 191anti-parallel
Strand 4
H
170 178anti-parallel
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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
H
158 163first strand
Strand 2
H
201 206anti-parallel
Strand 3
H
211 215anti-parallel
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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
L
4 7first strand
Strand 2
L
19 25anti-parallel
Strand 3
L
69 74anti-parallel
Strand 4
L
61 66anti-parallel
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There are 6 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
L
10 13first strand
Strand 2
L
101 105parallel
Strand 3
L
84 90anti-parallel
Strand 4
L
31 37anti-parallel
Strand 5
L
44 48anti-parallel
Strand 6
L
52 53anti-parallel
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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
L
10 13first strand
Strand 2
L
101 105parallel
Strand 3
L
84 90anti-parallel
Strand 4
L
96 97anti-parallel
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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
L
113 117first strand
Strand 2
L
128 138anti-parallel
Strand 3
L
172 181anti-parallel
Strand 4
L
158 162anti-parallel
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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
L
152 154first strand
Strand 2
L
143 149anti-parallel
Strand 3
L
190 197anti-parallel
Strand 4
L
204 209anti-parallel
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