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


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 8PMD entry

There is 1 chain in PDB entry 8PMD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 45GLY 1317
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 45 helices in PDB entry 8PMD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
46 50Right-handed 310
Helix 2
AA2
A
55 100Right-handed alpha
Helix 3
AA3
A
134 185Right-handed alpha
Helix 4
AA4
A
186 193Right-handed alpha
Helix 5
AA5
A
194 214Right-handed alpha
Helix 6
AA6
A
215 237Right-handed alpha
Helix 7
AA7
A
244 287Right-handed alpha
Helix 8
AA8
A
287 294Right-handed alpha
Helix 9
AA9
A
296 344Right-handed alpha
Helix 10
AB1
A
355 376Right-handed alpha
Helix 11
AB2
A
376 398Right-handed alpha
Helix 12
AB3
A
460 469Right-handed alpha
Helix 13
AB4
A
487 489Right-handed 310
Helix 14
AB5
A
490 496Right-handed alpha
Helix 15
AB6
A
511 518Right-handed alpha
Helix 16
AB7
A
524 535Right-handed alpha
Helix 17
AB8
A
537 543Right-handed alpha
Helix 18
AB9
A
553 557Right-handed 310
Helix 19
AC1
A
560 574Right-handed alpha
Helix 20
AC2
A
590 605Right-handed alpha
Helix 21
AC3
A
616 621Right-handed alpha
Helix 22
AC4
A
740 748Right-handed alpha
Helix 23
AC5
A
751 781Right-handed alpha
Helix 24
AC6
A
793 841Right-handed alpha
Helix 25
AC7
A
843 848Right-handed alpha
Helix 26
AC8
A
853 873Right-handed alpha
Helix 27
AC9
A
874 895Right-handed alpha
Helix 28
AD1
A
897 906Right-handed alpha
Helix 29
AD2
A
907 946Right-handed alpha
Helix 30
AD3
A
946 954Right-handed alpha
Helix 31
AD4
A
955 968Right-handed alpha
Helix 32
AD5
A
968 1010Right-handed alpha
Helix 33
AD6
A
1014 1028Right-handed alpha
Helix 34
AD7
A
1029 1033Right-handed 310
Helix 35
AD8
A
1037 1056Right-handed alpha
Helix 36
AD9
A
1118 1127Right-handed alpha
Helix 37
AE1
A
1148 1155Right-handed alpha
Helix 38
AE2
A
1169 1176Right-handed alpha
Helix 39
AE3
A
1184 1195Right-handed alpha
Helix 40
AE4
A
1197 1203Right-handed alpha
Helix 41
AE5
A
1213 1217Right-handed 310
Helix 42
AE6
A
1220 1234Right-handed alpha
Helix 43
AE7
A
1256 1266Right-handed alpha
Helix 44
AE8
A
1299 1307Right-handed alpha
Helix 45
AE9
A
1308 1316Right-handed alpha
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There are 6 sheets in PDB entry 8PMD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6,

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
438 441first strand
Strand 2
A
420 427anti-parallel
Strand 3
A
444 445anti-parallel
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There are 4 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
438 441first strand
Strand 2
A
420 427anti-parallel
Strand 3
A
476 481anti-parallel
Strand 4
A
484 485anti-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
A
498 501first strand
Strand 2
A
579 583parallel
Strand 3
A
609 613parallel
Strand 4
A
450 454parallel
Strand 5
A
625 629parallel
Strand 6
A
634 636anti-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
A
1102 1103first strand
Strand 2
A
1078 1081anti-parallel
Strand 3
A
1136 1139anti-parallel
Strand 4
A
1142 1143anti-parallel
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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
1083 1086first strand
Strand 2
A
1094 1099anti-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
1156 1159first strand
Strand 2
A
1239 1243parallel
Strand 3
A
1269 1273parallel
Strand 4
A
1108 1112parallel
Strand 5
A
1285 1290parallel
Strand 6
A
1293 1298anti-parallel
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