Analysis of interatomic Contacts of Structural Units in PDB entry:
5J04


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 5J04 entry

There are 2 chains in PDB entry 5J04 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 TYR 5LYS 428
B
 TYR 5LYS 428
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 34 helices in PDB entry 5J04. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
63 67Right-handed 310
Helix 2
AA2
A
69 84Right-handed alpha
Helix 3
AA3
A
90 103Right-handed alpha
Helix 4
AA4
A
111 130Right-handed alpha
Helix 5
AA5
A
133 140Right-handed alpha
Helix 6
AA6
A
157 160Right-handed 310
Helix 7
AA7
A
178 200Right-handed alpha
Helix 8
AA8
A
218 234Right-handed alpha
Helix 9
AA9
A
248 251Right-handed 310
Helix 10
AB1
A
266 281Right-handed alpha
Helix 11
AB2
A
294 306Right-handed alpha
Helix 12
AB3
A
320 331Right-handed alpha
Helix 13
AB4
A
339 344Right-handed alpha
Helix 14
AB5
A
345 359Right-handed alpha
Helix 15
AB6
A
375 384Right-handed alpha
Helix 16
AB7
A
396 414Right-handed alpha
Helix 17
AB8
A
415 417Right-handed 310
Helix 18
AB9
B
63 67Right-handed 310
Helix 19
AC1
B
69 84Right-handed alpha
Helix 20
AC2
B
90 103Right-handed alpha
Helix 21
AC3
B
111 130Right-handed alpha
Helix 22
AC4
B
133 140Right-handed alpha
Helix 23
AC5
B
157 160Right-handed 310
Helix 24
AC6
B
178 200Right-handed alpha
Helix 25
AC7
B
218 233Right-handed alpha
Helix 26
AC8
B
248 251Right-handed 310
Helix 27
AC9
B
266 281Right-handed alpha
Helix 28
AD1
B
294 306Right-handed alpha
Helix 29
AD2
B
320 330Right-handed alpha
Helix 30
AD3
B
339 344Right-handed alpha
Helix 31
AD4
B
345 359Right-handed alpha
Helix 32
AD5
B
375 384Right-handed alpha
Helix 33
AD6
B
396 414Right-handed alpha
Helix 34
AD7
B
415 417Right-handed 310
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There are 8 sheets in PDB entry 5J04. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 3 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
9 18first strand
Strand 2
A
24 32anti-parallel
Strand 3
A
37 41anti-parallel
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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
145 146first strand
Strand 2
A
418 419parallel
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There are 9 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
148 149first strand
Strand 2
A
387 390parallel
Strand 3
A
362 366parallel
Strand 4
A
335 338parallel
Strand 5
A
310 313parallel
Strand 6
A
283 287parallel
Strand 7
A
242 246parallel
Strand 8
A
168 172anti-parallel
Strand 9
A
151 155anti-parallel
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There are 3 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
253 254first strand
Strand 2
A
257 260anti-parallel
Strand 3
A
263 265anti-parallel
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There are 3 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
9 18first strand
Strand 2
B
24 32anti-parallel
Strand 3
B
37 41anti-parallel
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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
B
145 146first strand
Strand 2
B
418 419parallel
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There are 9 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
148 149first strand
Strand 2
B
387 390parallel
Strand 3
B
362 366parallel
Strand 4
B
335 338parallel
Strand 5
B
310 313parallel
Strand 6
B
283 287parallel
Strand 7
B
242 246parallel
Strand 8
B
168 172anti-parallel
Strand 9
B
151 155anti-parallel
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There are 3 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
253 254first strand
Strand 2
B
257 260anti-parallel
Strand 3
B
263 265anti-parallel
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