Analysis of interatomic Contacts of Structural Units in PDB entry:
4PDD


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 4PDD entry

There are 3 chains in PDB entry 4PDD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 THR 33GLU 334
B
 THR 33GLU 334
C
 THR 33PHE 71
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 4PDD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
45 62Right-handed alpha
Helix 2
AA2
A
78 88Right-handed alpha
Helix 3
AA3
A
100 104Right-handed 310
Helix 4
AA4
A
105 113Right-handed 310
Helix 5
AA5
A
119 129Right-handed alpha
Helix 6
AA6
A
129 142Right-handed alpha
Helix 7
AA7
A
166 171Right-handed alpha
Helix 8
AA8
A
180 189Right-handed alpha
Helix 9
AA9
A
198 200Right-handed 310
Helix 10
AB1
A
201 208Right-handed alpha
Helix 11
AB2
A
217 224Right-handed alpha
Helix 12
AB3
A
225 229Right-handed 310
Helix 13
AB4
A
249 253Right-handed alpha
Helix 14
AB5
A
256 292Right-handed alpha
Helix 15
AB6
A
301 310Right-handed alpha
Helix 16
AB7
A
312 321Right-handed alpha
Helix 17
AB8
A
321 331Right-handed alpha
Helix 18
AB9
B
45 62Right-handed alpha
Helix 19
AC1
B
78 89Right-handed alpha
Helix 20
AC2
B
100 104Right-handed 310
Helix 21
AC3
B
105 113Right-handed 310
Helix 22
AC4
B
119 129Right-handed alpha
Helix 23
AC5
B
129 141Right-handed alpha
Helix 24
AC6
B
166 171Right-handed alpha
Helix 25
AC7
B
180 189Right-handed alpha
Helix 26
AC8
B
198 200Right-handed 310
Helix 27
AC9
B
201 208Right-handed alpha
Helix 28
AD1
B
217 224Right-handed alpha
Helix 29
AD2
B
225 229Right-handed 310
Helix 30
AD3
B
249 253Right-handed alpha
Helix 31
AD4
B
256 292Right-handed alpha
Helix 32
AD5
B
301 310Right-handed alpha
Helix 33
AD6
B
312 321Right-handed alpha
Helix 34
AD7
B
321 331Right-handed alpha
Helix 35
AD8
C
45 62Right-handed alpha
Helix 36
AD9
C
78 88Right-handed alpha
Helix 37
AE1
C
100 104Right-handed 310
Helix 38
AE2
C
105 113Right-handed 310
Helix 39
AE3
C
119 129Right-handed alpha
Helix 40
AE4
C
129 141Right-handed alpha
Helix 41
AE5
C
166 171Right-handed alpha
Helix 42
AE6
C
180 189Right-handed alpha
Helix 43
AE7
C
198 200Right-handed 310
Helix 44
AE8
C
201 208Right-handed alpha
Helix 45
AE9
C
217 224Right-handed alpha
Helix 46
AF1
C
225 229Right-handed 310
Helix 47
AF2
C
249 253Right-handed alpha
Helix 48
AF3
C
256 292Right-handed alpha
Helix 49
AF4
C
301 310Right-handed alpha
Helix 50
AF5
C
312 321Right-handed alpha
Helix 51
AF6
C
321 331Right-handed alpha
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There are 9 sheets in PDB entry 4PDD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9,

There are 6 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
66 71first strand
Strand 2
A
33 38parallel
Strand 3
A
93 97parallel
Strand 4
A
232 248anti-parallel
Strand 5
A
144 159anti-parallel
Strand 6
A
213 216anti-parallel
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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
66 71first strand
Strand 2
A
33 38parallel
Strand 3
A
93 97parallel
Strand 4
A
232 248anti-parallel
Strand 5
A
295 297parallel
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There are 2 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
174 177first strand
Strand 2
A
193 196parallel
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There are 6 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
66 71first strand
Strand 2
B
33 38parallel
Strand 3
B
93 97parallel
Strand 4
B
232 248anti-parallel
Strand 5
B
144 159anti-parallel
Strand 6
B
213 216anti-parallel
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There are 5 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
66 71first strand
Strand 2
B
33 38parallel
Strand 3
B
93 97parallel
Strand 4
B
232 248anti-parallel
Strand 5
B
295 297parallel
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There are 2 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
174 177first strand
Strand 2
B
193 196parallel
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There are 6 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
66 71first strand
Strand 2
C
33 38parallel
Strand 3
C
93 97parallel
Strand 4
C
232 248anti-parallel
Strand 5
C
144 159anti-parallel
Strand 6
C
213 216anti-parallel
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There are 5 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
66 71first strand
Strand 2
C
33 38parallel
Strand 3
C
93 97parallel
Strand 4
C
232 248anti-parallel
Strand 5
C
295 297parallel
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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
C
174 177first strand
Strand 2
C
193 196parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il