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


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 5NBD entry

There are 3 chains in PDB entry 5NBD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1LYS 564
B
 MET 1LYS 564
C
 GLN 1SER 123
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 51 helices in PDB entry 5NBD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
2 7Right-handed alpha
Helix 2
AA2
A
11 37Right-handed alpha
Helix 3
AA3
A
37 47Right-handed alpha
Helix 4
AA4
A
48 53Right-handed 310
Helix 5
AA5
A
58 63Right-handed 310
Helix 6
AA6
A
67 117Right-handed alpha
Helix 7
AA7
A
120 126Right-handed alpha
Helix 8
AA8
A
128 138Right-handed alpha
Helix 9
AA9
A
138 171Right-handed alpha
Helix 10
AB1
A
172 186Right-handed alpha
Helix 11
AB2
A
192 200Right-handed alpha
Helix 12
AB3
A
201 221Right-handed alpha
Helix 13
AB4
A
221 229Right-handed alpha
Helix 14
AB5
A
231 251Right-handed alpha
Helix 15
AB6
A
251 256Right-handed alpha
Helix 16
AB7
A
257 281Right-handed alpha
Helix 17
AB8
A
291 317Right-handed alpha
Helix 18
AB9
A
321 330Right-handed alpha
Helix 19
AC1
A
387 396Right-handed alpha
Helix 20
AC2
A
414 424Right-handed alpha
Helix 21
AC3
A
438 445Right-handed alpha
Helix 22
AC4
A
450 461Right-handed alpha
Helix 23
AC5
A
463 468Right-handed alpha
Helix 24
AC6
A
472 476Right-handed 310
Helix 25
AC7
A
486 500Right-handed alpha
Helix 26
AC8
A
516 530Right-handed alpha
Helix 27
AC9
B
1 5Right-handed 310
Helix 28
AD1
B
10 37Right-handed alpha
Helix 29
AD2
B
37 47Right-handed alpha
Helix 30
AD3
B
60 64Right-handed 310
Helix 31
AD4
B
67 119Right-handed alpha
Helix 32
AD5
B
120 127Right-handed alpha
Helix 33
AD6
B
128 169Right-handed alpha
Helix 34
AD7
B
172 187Right-handed alpha
Helix 35
AD8
B
192 200Right-handed alpha
Helix 36
AD9
B
201 221Right-handed alpha
Helix 37
AE1
B
221 229Right-handed alpha
Helix 38
AE2
B
231 256Right-handed alpha
Helix 39
AE3
B
257 281Right-handed alpha
Helix 40
AE4
B
289 320Right-handed alpha
Helix 41
AE5
B
321 323Right-handed 310
Helix 42
AE6
B
324 333Right-handed alpha
Helix 43
AE7
B
387 396Right-handed alpha
Helix 44
AE8
B
414 422Right-handed alpha
Helix 45
AE9
B
438 445Right-handed alpha
Helix 46
AF1
B
454 461Right-handed alpha
Helix 47
AF2
B
463 468Right-handed alpha
Helix 48
AF3
B
472 476Right-handed 310
Helix 49
AF4
B
486 501Right-handed alpha
Helix 50
AF5
B
516 531Right-handed alpha
Helix 51
AF6
C
61 65Right-handed 310
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There are 5 sheets in PDB entry 5NBD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5,

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
348 350first strand
Strand 2
A
371 373anti-parallel
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There are 6 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
425 426first strand
Strand 2
A
505 507parallel
Strand 3
A
535 538parallel
Strand 4
A
378 381parallel
Strand 5
A
551 555parallel
Strand 6
A
560 562anti-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
B
425 426first strand
Strand 2
B
505 507parallel
Strand 3
B
535 538parallel
Strand 4
B
378 381parallel
Strand 5
B
553 555parallel
Strand 6
B
560 562anti-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
C
5 6first strand
Strand 2
C
17 23anti-parallel
Strand 3
C
78 84anti-parallel
Strand 4
C
72 73anti-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
C
34 38first strand
Strand 2
C
46 51anti-parallel
Strand 3
C
58 59anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il