Analysis of interatomic Contacts of Structural Units in PDB entry:
8D4A


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 8D4A entry

There are 5 chains in PDB entry 8D4A (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1LYS 1232
B
 A 4 U 44
C
 A -2 G 25
D
 T 1 T 11
G
 A 1 A 11
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 56 helices in PDB entry 8D4A. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
1 6Right-handed 310
Helix 2
AA2
A
34 48Right-handed alpha
Helix 3
AA3
A
58 79Right-handed alpha
Helix 4
AA4
A
92 102Right-handed alpha
Helix 5
AA5
A
117 119Right-handed 310
Helix 6
AA6
A
128 163Right-handed alpha
Helix 7
AA7
A
164 170Right-handed 310
Helix 8
AA8
A
172 196Right-handed alpha
Helix 9
AA9
A
201 205Right-handed 310
Helix 10
AB1
A
212 219Right-handed alpha
Helix 11
AB2
A
222 239Right-handed alpha
Helix 12
AB3
A
252 256Right-handed 310
Helix 13
AB4
A
263 275Right-handed alpha
Helix 14
AB5
A
275 284Right-handed alpha
Helix 15
AB6
A
287 297Right-handed alpha
Helix 16
AB7
A
299 305Right-handed alpha
Helix 17
AB8
A
310 317Right-handed alpha
Helix 18
AB9
A
324 337Right-handed alpha
Helix 19
AC1
A
342 352Right-handed alpha
Helix 20
AC2
A
358 366Right-handed alpha
Helix 21
AC3
A
371 375Right-handed 310
Helix 22
AC4
A
376 391Right-handed alpha
Helix 23
AC5
A
399 412Right-handed alpha
Helix 24
AC6
A
414 417Right-handed 310
Helix 25
AC7
A
418 438Right-handed alpha
Helix 26
AC8
A
446 460Right-handed alpha
Helix 27
AC9
A
469 483Right-handed alpha
Helix 28
AD1
A
486 503Right-handed alpha
Helix 29
AD2
A
529 557Right-handed alpha
Helix 30
AD3
A
558 560Right-handed 310
Helix 31
AD4
A
591 598Right-handed alpha
Helix 32
AD5
A
615 625Right-handed alpha
Helix 33
AD6
A
647 653Right-handed alpha
Helix 34
AD7
A
654 659Right-handed alpha
Helix 35
AD8
A
661 675Right-handed alpha
Helix 36
AD9
A
675 681Right-handed alpha
Helix 37
AE1
A
682 687Right-handed 310
Helix 38
AE2
A
695 707Right-handed alpha
Helix 39
AE3
A
716 726Right-handed alpha
Helix 40
AE4
A
747 757Right-handed alpha
Helix 41
AE5
A
784 788Right-handed 310
Helix 42
AE6
A
808 818Right-handed alpha
Helix 43
AE7
A
818 838Right-handed alpha
Helix 44
AE8
A
882 886Right-handed 310
Helix 45
AE9
A
920 922Right-handed 310
Helix 46
AF1
A
940 961Right-handed alpha
Helix 47
AF2
A
961 967Right-handed alpha
Helix 48
AF3
A
968 970Right-handed 310
Helix 49
AF4
A
974 983Right-handed alpha
Helix 50
AF5
A
999 1016Right-handed alpha
Helix 51
AF6
A
1019 1028Right-handed alpha
Helix 52
AF7
A
1032 1054Right-handed alpha
Helix 53
AF8
A
1091 1100Right-handed alpha
Helix 54
AF9
A
1105 1117Right-handed alpha
Helix 55
AG1
A
1202 1209Right-handed 310
Helix 56
AG2
A
1211 1232Right-handed alpha
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There are 10 sheets in PDB entry 8D4A. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1,

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
11 18first strand
Strand 2
A
790 799anti-parallel
Strand 3
A
768 774anti-parallel
Strand 4
A
243 250anti-parallel
Strand 5
A
566 572parallel
Strand 6
A
578 584anti-parallel
Strand 7
A
729 732anti-parallel
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There are 7 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
708 715first strand
Strand 2
A
606 613anti-parallel
Strand 3
A
566 572anti-parallel
Strand 4
A
243 250parallel
Strand 5
A
768 774anti-parallel
Strand 6
A
790 799anti-parallel
Strand 7
A
763 765anti-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
113 115first strand
Strand 2
A
89 91anti-parallel
Strand 3
A
199 200anti-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
122 123first strand
Strand 2
A
126 127anti-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
A
866 867first strand
Strand 2
A
855 861anti-parallel
Strand 3
A
899 900anti-parallel
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There are 6 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
866 867first strand
Strand 2
A
855 861anti-parallel
Strand 3
A
843 849anti-parallel
Strand 4
A
1058 1063parallel
Strand 5
A
1158 1161parallel
Strand 6
A
1152 1155anti-parallel
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There are 4 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
887 896first strand
Strand 2
A
870 878anti-parallel
Strand 3
A
914 918parallel
Strand 4
A
904 908anti-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
A
1072 1073first strand
Strand 2
A
1080 1081anti-parallel
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There are 2 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
1120 1122first strand
Strand 2
A
1125 1127anti-parallel
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There are 2 strands in AB1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
1178 1180first strand
Strand 2
A
1186 1188anti-parallel
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