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


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 5DPD entry

There are 2 chains in PDB entry 5DPD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 TYR 43VAL 553
B
 TYR 43VAL 553
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 46 helices in PDB entry 5DPD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
48 51Right-handed 310
Helix 2
AA2
A
52 63Right-handed alpha
Helix 3
AA3
A
86 93Right-handed alpha
Helix 4
AA4
A
104 119Right-handed alpha
Helix 5
AA5
A
129 133Right-handed 310
Helix 6
AA6
A
153 167Right-handed alpha
Helix 7
AA7
A
184 199Right-handed alpha
Helix 8
AA8
A
205 222Right-handed alpha
Helix 9
AA9
A
227 242Right-handed alpha
Helix 10
AB1
A
261 272Right-handed alpha
Helix 11
AB2
A
281 286Right-handed 310
Helix 12
AB3
A
291 301Right-handed alpha
Helix 13
AB4
A
303 316Right-handed alpha
Helix 14
AB5
A
336 343Right-handed 310
Helix 15
AB6
A
354 358Right-handed 310
Helix 16
AB7
A
383 394Right-handed alpha
Helix 17
AB8
A
402 412Right-handed alpha
Helix 18
AB9
A
418 435Right-handed alpha
Helix 19
AC1
A
458 468Right-handed alpha
Helix 20
AC2
A
485 493Right-handed alpha
Helix 21
AC3
A
499 514Right-handed alpha
Helix 22
AC4
A
534 549Right-handed alpha
Helix 23
AC5
B
48 51Right-handed 310
Helix 24
AC6
B
52 63Right-handed alpha
Helix 25
AC7
B
86 93Right-handed alpha
Helix 26
AC8
B
104 119Right-handed alpha
Helix 27
AC9
B
129 133Right-handed 310
Helix 28
AD1
B
134 138Right-handed 310
Helix 29
AD2
B
153 167Right-handed alpha
Helix 30
AD3
B
183 198Right-handed alpha
Helix 31
AD4
B
199 201Right-handed 310
Helix 32
AD5
B
205 222Right-handed alpha
Helix 33
AD6
B
227 243Right-handed alpha
Helix 34
AD7
B
261 271Right-handed alpha
Helix 35
AD8
B
281 286Right-handed 310
Helix 36
AD9
B
291 301Right-handed alpha
Helix 37
AE1
B
304 316Right-handed alpha
Helix 38
AE2
B
336 343Right-handed 310
Helix 39
AE3
B
354 358Right-handed 310
Helix 40
AE4
B
383 394Right-handed alpha
Helix 41
AE5
B
402 412Right-handed alpha
Helix 42
AE6
B
418 435Right-handed alpha
Helix 43
AE7
B
458 467Right-handed alpha
Helix 44
AE8
B
485 494Right-handed alpha
Helix 45
AE9
B
499 514Right-handed alpha
Helix 46
AF1
B
534 549Right-handed alpha
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There are 8 sheets in PDB entry 5DPD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 7 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
123 127first strand
Strand 2
A
97 102parallel
Strand 3
A
74 78parallel
Strand 4
A
140 145parallel
Strand 5
A
168 179parallel
Strand 6
A
319 326anti-parallel
Strand 7
A
274 279anti-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
344 346first strand
Strand 2
A
440 442anti-parallel
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There are 3 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
349 351first strand
Strand 2
A
367 371anti-parallel
Strand 3
A
378 381anti-parallel
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There are 2 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
472 474first strand
Strand 2
A
480 482anti-parallel
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There are 7 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
123 127first strand
Strand 2
B
97 102parallel
Strand 3
B
74 78parallel
Strand 4
B
140 145parallel
Strand 5
B
168 179parallel
Strand 6
B
319 326anti-parallel
Strand 7
B
274 279anti-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
344 346first strand
Strand 2
B
440 442anti-parallel
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There are 3 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
349 351first strand
Strand 2
B
367 371anti-parallel
Strand 3
B
378 381anti-parallel
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There are 2 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
472 474first strand
Strand 2
B
480 482anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il