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


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 5URD entry

There are 2 chains in PDB entry 5URD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 PRO 62SER 678
B
 VAL 64SER 678
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 51 helices in PDB entry 5URD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
68 77Right-handed alpha
Helix 2
AA2
A
89 102Right-handed alpha
Helix 3
AA3
A
103 106Right-handed 310
Helix 4
AA4
A
113 117Right-handed 310
Helix 5
AA5
A
118 128Right-handed 310
Helix 6
AA6
A
146 148Right-handed 310
Helix 7
AA7
A
149 159Right-handed alpha
Helix 8
AA8
A
182 195Right-handed alpha
Helix 9
AA9
A
211 232Right-handed alpha
Helix 10
AB1
A
254 258Right-handed 310
Helix 11
AB2
A
327 339Right-handed alpha
Helix 12
AB3
A
367 374Right-handed alpha
Helix 13
AB4
A
382 390Right-handed alpha
Helix 14
AB5
A
391 393Right-handed 310
Helix 15
AB6
A
395 405Right-handed alpha
Helix 16
AB7
A
409 420Right-handed alpha
Helix 17
AB8
A
426 434Right-handed alpha
Helix 18
AB9
A
440 448Right-handed alpha
Helix 19
AC1
A
488 496Right-handed alpha
Helix 20
AC2
A
533 536Right-handed 310
Helix 21
AC3
A
537 553Right-handed alpha
Helix 22
AC4
A
575 585Right-handed alpha
Helix 23
AC5
A
604 612Right-handed alpha
Helix 24
AC6
A
612 622Right-handed alpha
Helix 25
AC7
A
635 652Right-handed alpha
Helix 26
AC8
A
655 669Right-handed alpha
Helix 27
AC9
B
68 75Right-handed alpha
Helix 28
AD1
B
89 103Right-handed alpha
Helix 29
AD2
B
104 106Right-handed 310
Helix 30
AD3
B
118 125Right-handed 310
Helix 31
AD4
B
149 159Right-handed alpha
Helix 32
AD5
B
182 194Right-handed alpha
Helix 33
AD6
B
211 224Right-handed alpha
Helix 34
AD7
B
224 229Right-handed alpha
Helix 35
AD8
B
254 258Right-handed 310
Helix 36
AD9
B
327 339Right-handed alpha
Helix 37
AE1
B
367 374Right-handed alpha
Helix 38
AE2
B
382 390Right-handed alpha
Helix 39
AE3
B
391 393Right-handed 310
Helix 40
AE4
B
395 405Right-handed alpha
Helix 41
AE5
B
410 420Right-handed alpha
Helix 42
AE6
B
426 434Right-handed alpha
Helix 43
AE7
B
440 448Right-handed alpha
Helix 44
AE8
B
488 496Right-handed alpha
Helix 45
AE9
B
533 536Right-handed 310
Helix 46
AF1
B
537 553Right-handed alpha
Helix 47
AF2
B
575 585Right-handed alpha
Helix 48
AF3
B
604 612Right-handed alpha
Helix 49
AF4
B
612 622Right-handed alpha
Helix 50
AF5
B
635 652Right-handed alpha
Helix 51
AF6
B
655 669Right-handed alpha
Back to top of page

There are 12 sheets in PDB entry 5URD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3,

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
109 112first strand
Strand 2
A
80 85parallel
Strand 3
A
132 138parallel
Strand 4
A
167 174parallel
Strand 5
A
198 199parallel
Back to list of sheets
Back to top of page

There are 5 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
109 112first strand
Strand 2
A
80 85parallel
Strand 3
A
132 138parallel
Strand 4
A
167 174parallel
Strand 5
A
204 207parallel
Back to list of sheets
Back to top of page

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
245 249first strand
Strand 2
A
345 350anti-parallel
Strand 3
A
365 366anti-parallel
Back to list of sheets
Back to top of page

There are 6 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
454 457first strand
Strand 2
A
319 322anti-parallel
Strand 3
A
508 514anti-parallel
Strand 4
A
282 291anti-parallel
Strand 5
A
300 306anti-parallel
Strand 6
A
468 474anti-parallel
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
A
477 479first strand
Strand 2
A
485 487anti-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
A
590 595first strand
Strand 2
A
560 566parallel
Strand 3
A
528 531parallel
Strand 4
A
626 632parallel
Strand 5
A
672 677parallel
Back to list of sheets
Back to top of page

There are 5 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
109 112first strand
Strand 2
B
80 85parallel
Strand 3
B
132 140parallel
Strand 4
B
167 174parallel
Strand 5
B
198 199parallel
Back to list of sheets
Back to top of page

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
144 145first strand
Strand 2
B
132 140anti-parallel
Strand 3
B
167 174parallel
Strand 4
B
204 207parallel
Back to list of sheets
Back to top of page

There are 3 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
245 249first strand
Strand 2
B
345 350anti-parallel
Strand 3
B
365 366anti-parallel
Back to list of sheets
Back to top of page

There are 6 strands in AB1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
454 457first strand
Strand 2
B
319 322anti-parallel
Strand 3
B
508 514anti-parallel
Strand 4
B
282 291anti-parallel
Strand 5
B
300 306anti-parallel
Strand 6
B
468 474anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
477 479first strand
Strand 2
B
485 487anti-parallel
Back to list of sheets
Back to top of page

There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
590 595first strand
Strand 2
B
560 566parallel
Strand 3
B
528 531parallel
Strand 4
B
626 632parallel
Strand 5
B
672 677parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il