Analysis of interatomic Contacts of Structural Units in PDB entry:
9NDA


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 9NDA entry

There are 2 chains in PDB entry 9NDA (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASN 409GLY 888
C
 ILE 6ALA 750
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 43 helices in PDB entry 9NDA. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
412 417Right-handed alpha
Helix 2
AA2
A
427 438Right-handed alpha
Helix 3
AA3
A
457 469Right-handed alpha
Helix 4
AA4
A
504 508Right-handed alpha
Helix 5
AA5
A
520 525Right-handed alpha
Helix 6
AA6
A
555 560Right-handed alpha
Helix 7
AA7
A
561 563Right-handed 310
Helix 8
AA8
A
565 571Right-handed alpha
Helix 9
AA9
A
578 590Right-handed alpha
Helix 10
AB1
A
604 608Right-handed alpha
Helix 11
AB2
A
638 661Right-handed alpha
Helix 12
AB3
A
776 792Right-handed alpha
Helix 13
AB4
A
796 801Right-handed alpha
Helix 14
AB5
A
852 858Right-handed alpha
Helix 15
AB6
A
862 866Right-handed 310
Helix 16
AB7
C
57 65Right-handed alpha
Helix 17
AB8
C
73 77Right-handed 310
Helix 18
AB9
C
89 93Right-handed 310
Helix 19
AC1
C
94 113Right-handed alpha
Helix 20
AC2
C
166 172Right-handed alpha
Helix 21
AC3
C
176 188Right-handed alpha
Helix 22
AC4
C
189 194Right-handed alpha
Helix 23
AC5
C
225 228Right-handed 310
Helix 24
AC6
C
267 283Right-handed alpha
Helix 25
AC7
C
297 301Right-handed 310
Helix 26
AC8
C
334 344Right-handed alpha
Helix 27
AC9
C
352 356Right-handed 310
Helix 28
AD1
C
358 360Right-handed 310
Helix 29
AD2
C
361 372Right-handed alpha
Helix 30
AD3
C
374 383Right-handed alpha
Helix 31
AD4
C
412 426Right-handed alpha
Helix 32
AD5
C
427 429Right-handed 310
Helix 33
AD6
C
435 448Right-handed alpha
Helix 34
AD7
C
451 466Right-handed alpha
Helix 35
AD8
C
470 492Right-handed alpha
Helix 36
AD9
C
520 542Right-handed alpha
Helix 37
AE1
C
588 607Right-handed alpha
Helix 38
AE2
C
619 639Right-handed alpha
Helix 39
AE3
C
660 666Right-handed 310
Helix 40
AE4
C
668 673Right-handed 310
Helix 41
AE5
C
695 697Right-handed 310
Helix 42
AE6
C
707 731Right-handed alpha
Helix 43
AE7
C
746 750Right-handed 310
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There are 11 sheets in PDB entry 9NDA. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2,

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
421 425first strand
Strand 2
A
881 886anti-parallel
Strand 3
A
772 774parallel
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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
452 456first strand
Strand 2
A
545 550anti-parallel
Strand 3
A
535 539anti-parallel
Strand 4
A
613 615anti-parallel
Strand 5
A
821 823anti-parallel
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There are 4 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
624 627first strand
Strand 2
A
762 767anti-parallel
Strand 3
A
674 678anti-parallel
Strand 4
A
840 843anti-parallel
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There are 5 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
46 56first strand
Strand 2
C
30 40anti-parallel
Strand 3
C
9 22anti-parallel
Strand 4
C
122 124anti-parallel
Strand 5
C
136 138anti-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
150 151first strand
Strand 2
C
259 260parallel
Strand 3
C
320 321parallel
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There are 3 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
153 158first strand
Strand 2
C
195 201anti-parallel
Strand 3
C
208 209anti-parallel
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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
230 237first strand
Strand 2
C
246 253anti-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
C
295 296first strand
Strand 2
C
311 312anti-parallel
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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
398 400first strand
Strand 2
C
560 563anti-parallel
Strand 3
C
569 572anti-parallel
Strand 4
C
580 582anti-parallel
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There are 4 strands in AB1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
496 501first strand
Strand 2
C
505 510anti-parallel
Strand 3
C
405 409anti-parallel
Strand 4
C
553 558anti-parallel
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There are 3 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
648 650first strand
Strand 2
C
677 680anti-parallel
Strand 3
C
692 693anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il