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


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 8VPP entry


Note, this PDB entry contains modified residue(s) PHOSPHOSERINE (SEP) . This residue is treated as heterogroup (ligand) both in the PDB entry and in LPC/CSU analysis.

There are 5 chains in PDB entry 8VPP (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 CYS 52ARG 54
A
 PHE 56ASN 59
A
 ILE 61ASN 72
A
 THR 74LEU 1015
B
 VAL 615GLN 1020
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 60 helices in PDB entry 8VPP. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
66 71Right-handed alpha
Helix 2
AA2
A
85 90Right-handed alpha
Helix 3
AA3
A
136 141Right-handed alpha
Helix 4
AA4
A
141 150Right-handed alpha
Helix 5
AA5
A
151 157Right-handed alpha
Helix 6
AA6
A
157 166Right-handed alpha
Helix 7
AA7
A
166 194Right-handed alpha
Helix 8
AA8
A
201 210Right-handed alpha
Helix 9
AA9
A
211 247Right-handed alpha
Helix 10
AB1
A
258 277Right-handed alpha
Helix 11
AB2
A
277 304Right-handed alpha
Helix 12
AB3
A
308 314Right-handed alpha
Helix 13
AB4
A
320 327Right-handed alpha
Helix 14
AB5
A
338 347Right-handed alpha
Helix 15
AB6
A
348 351Right-handed 310
Helix 16
AB7
A
356 363Right-handed 310
Helix 17
AB8
A
365 394Right-handed alpha
Helix 18
AB9
A
403 407Right-handed 310
Helix 19
AC1
A
418 423Right-handed 310
Helix 20
AC2
A
426 431Right-handed alpha
Helix 21
AC3
A
444 450Right-handed alpha
Helix 22
AC4
A
452 486Right-handed alpha
Helix 23
AC5
A
491 496Right-handed alpha
Helix 24
AC6
A
504 522Right-handed alpha
Helix 25
AC7
A
527 553Right-handed alpha
Helix 26
AC8
A
565 584Right-handed alpha
Helix 27
AC9
A
584 606Right-handed alpha
Helix 28
AD1
A
613 633Right-handed alpha
Helix 29
AD2
A
650 653Right-handed 310
Helix 30
AD3
A
654 666Right-handed alpha
Helix 31
AD4
A
684 702Right-handed alpha
Helix 32
AD5
A
715 727Right-handed alpha
Helix 33
AD6
A
749 766Right-handed alpha
Helix 34
AD7
A
840 851Right-handed alpha
Helix 35
AD8
A
852 856Right-handed 310
Helix 36
AD9
A
867 871Right-handed 310
Helix 37
AE1
A
872 878Right-handed alpha
Helix 38
AE2
A
880 885Right-handed alpha
Helix 39
AE3
A
895 899Right-handed 310
Helix 40
AE4
A
903 915Right-handed alpha
Helix 41
AE5
A
925 933Right-handed alpha
Helix 42
AE6
A
941 948Right-handed alpha
Helix 43
AE7
A
948 966Right-handed alpha
Helix 44
AE8
A
985 997Right-handed alpha
Helix 45
AE9
B
616 630Right-handed alpha
Helix 46
AF1
B
636 640Right-handed 310
Helix 47
AF2
B
654 666Right-handed alpha
Helix 48
AF3
B
680 702Right-handed alpha
Helix 49
AF4
B
715 727Right-handed alpha
Helix 50
AF5
B
749 766Right-handed alpha
Helix 51
AF6
B
819 823Right-handed 310
Helix 52
AF7
B
840 851Right-handed alpha
Helix 53
AF8
B
870 886Right-handed alpha
Helix 54
AF9
B
896 899Right-handed 310
Helix 55
AG1
B
903 914Right-handed alpha
Helix 56
AG2
B
925 929Right-handed 310
Helix 57
AG3
B
930 934Right-handed 310
Helix 58
AG4
B
941 948Right-handed alpha
Helix 59
AG5
B
948 964Right-handed alpha
Helix 60
AG6
B
985 997Right-handed alpha
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There are 2 sheets in PDB entry 8VPP. Click on sheet of interest to get list of strands forming it: AA1, AA2,

There are 9 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
707 712first strand
Strand 2
A
671 677parallel
Strand 3
A
644 647parallel
Strand 4
A
736 740parallel
Strand 5
A
769 774parallel
Strand 6
A
1004 1008anti-parallel
Strand 7
A
971 975parallel
Strand 8
A
829 833parallel
Strand 9
A
859 862parallel
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There are 10 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
707 712first strand
Strand 2
B
671 677parallel
Strand 3
B
644 646parallel
Strand 4
B
736 740parallel
Strand 5
B
769 775parallel
Strand 6
B
1003 1008anti-parallel
Strand 7
B
971 975parallel
Strand 8
B
829 833parallel
Strand 9
B
859 864parallel
Strand 10
B
891 894parallel
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