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


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 6YMD entry

There are 2 chains in PDB entry 6YMD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLN 3PRO 422
B
 GLN 3ALA 421
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 41 helices in PDB entry 6YMD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
4 13Right-handed alpha
Helix 2
AA2
A
13 30Right-handed alpha
Helix 3
AA3
A
41 49Right-handed alpha
Helix 4
AA4
A
50 55Right-handed 310
Helix 5
AA5
A
69 88Right-handed alpha
Helix 6
AA6
A
98 111Right-handed alpha
Helix 7
AA7
A
122 125Right-handed 310
Helix 8
AA8
A
127 131Right-handed 310
Helix 9
AA9
A
135 140Right-handed alpha
Helix 10
AB1
A
156 168Right-handed alpha
Helix 11
AB2
A
184 196Right-handed alpha
Helix 12
AB3
A
206 212Right-handed alpha
Helix 13
AB4
A
245 257Right-handed alpha
Helix 14
AB5
A
265 280Right-handed alpha
Helix 15
AB6
A
281 305Right-handed alpha
Helix 16
AB7
A
311 313Right-handed 310
Helix 17
AB8
A
329 339Right-handed alpha
Helix 18
AB9
A
366 372Right-handed alpha
Helix 19
AC1
A
375 392Right-handed alpha
Helix 20
AC2
A
395 413Right-handed alpha
Helix 21
AC3
B
4 13Right-handed alpha
Helix 22
AC4
B
13 30Right-handed alpha
Helix 23
AC5
B
41 49Right-handed alpha
Helix 24
AC6
B
50 55Right-handed 310
Helix 25
AC7
B
69 88Right-handed alpha
Helix 26
AC8
B
98 111Right-handed alpha
Helix 27
AC9
B
122 125Right-handed 310
Helix 28
AD1
B
127 131Right-handed 310
Helix 29
AD2
B
135 140Right-handed alpha
Helix 30
AD3
B
156 168Right-handed alpha
Helix 31
AD4
B
184 196Right-handed alpha
Helix 32
AD5
B
206 212Right-handed alpha
Helix 33
AD6
B
245 257Right-handed alpha
Helix 34
AD7
B
265 280Right-handed alpha
Helix 35
AD8
B
281 305Right-handed alpha
Helix 36
AD9
B
311 313Right-handed 310
Helix 37
AE1
B
324 327Right-handed 310
Helix 38
AE2
B
329 339Right-handed alpha
Helix 39
AE3
B
366 372Right-handed alpha
Helix 40
AE4
B
375 392Right-handed alpha
Helix 41
AE5
B
395 413Right-handed alpha
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There are 8 sheets in PDB entry 6YMD. 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
A
31 32first strand
Strand 2
A
342 343parallel
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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
59 60first strand
Strand 2
A
63 64anti-parallel
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There are 7 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
91 93first strand
Strand 2
A
239 243anti-parallel
Strand 3
A
224 228anti-parallel
Strand 4
A
198 202parallel
Strand 5
A
171 174parallel
Strand 6
A
116 120parallel
Strand 7
A
142 146parallel
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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
A
308 309first strand
Strand 2
A
318 322anti-parallel
Strand 3
A
361 365anti-parallel
Strand 4
A
345 346anti-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
B
31 32first strand
Strand 2
B
342 343parallel
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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
59 60first strand
Strand 2
B
63 64anti-parallel
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There are 7 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
91 93first strand
Strand 2
B
239 243anti-parallel
Strand 3
B
224 228anti-parallel
Strand 4
B
198 202parallel
Strand 5
B
171 174parallel
Strand 6
B
116 120parallel
Strand 7
B
142 146parallel
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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
B
308 309first strand
Strand 2
B
318 322anti-parallel
Strand 3
B
361 365anti-parallel
Strand 4
B
345 347anti-parallel
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