Analysis of interatomic Contacts of Structural Units in PDB entry:
5NKJ


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 5NKJ entry

There are 4 chains in PDB entry 5NKJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 VAL 5PHE 315
B
 VAL 5PHE 315
C
 VAL 5PHE 315
D
 VAL 5ASN 307
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 5NKJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
50 53Right-handed 310
Helix 2
AA2
A
146 149Right-handed 310
Helix 3
AA3
A
196 201Right-handed alpha
Helix 4
AA4
A
203 213Right-handed alpha
Helix 5
AA5
A
214 216Right-handed 310
Helix 6
AA6
A
220 242Right-handed alpha
Helix 7
AA7
A
253 266Right-handed alpha
Helix 8
AA8
A
266 282Right-handed alpha
Helix 9
AA9
A
286 315Right-handed alpha
Helix 10
AB1
B
50 53Right-handed 310
Helix 11
AB2
B
146 149Right-handed 310
Helix 12
AB3
B
196 201Right-handed alpha
Helix 13
AB4
B
203 213Right-handed alpha
Helix 14
AB5
B
214 216Right-handed 310
Helix 15
AB6
B
220 242Right-handed alpha
Helix 16
AB7
B
253 266Right-handed alpha
Helix 17
AB8
B
266 282Right-handed alpha
Helix 18
AB9
B
286 315Right-handed alpha
Helix 19
AC1
C
50 53Right-handed 310
Helix 20
AC2
C
146 149Right-handed 310
Helix 21
AC3
C
196 201Right-handed alpha
Helix 22
AC4
C
203 213Right-handed alpha
Helix 23
AC5
C
214 216Right-handed 310
Helix 24
AC6
C
220 242Right-handed alpha
Helix 25
AC7
C
253 266Right-handed alpha
Helix 26
AC8
C
266 282Right-handed alpha
Helix 27
AC9
C
286 315Right-handed alpha
Helix 28
AD1
D
50 53Right-handed 310
Helix 29
AD2
D
146 149Right-handed 310
Helix 30
AD3
D
196 201Right-handed alpha
Helix 31
AD4
D
203 213Right-handed alpha
Helix 32
AD5
D
214 216Right-handed 310
Helix 33
AD6
D
220 242Right-handed alpha
Helix 34
AD7
D
253 266Right-handed alpha
Helix 35
AD8
D
266 282Right-handed alpha
Helix 36
AD9
D
286 315Right-handed alpha
Helix 37
AE1
E
50 53Right-handed 310
Helix 38
AE2
E
146 149Right-handed 310
Helix 39
AE3
E
196 201Right-handed alpha
Helix 40
AE4
E
203 213Right-handed alpha
Helix 41
AE5
E
214 216Right-handed 310
Helix 42
AE6
E
220 242Right-handed alpha
Helix 43
AE7
E
253 266Right-handed alpha
Helix 44
AE8
E
266 282Right-handed alpha
Helix 45
AE9
E
286 315Right-handed alpha
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There are 15 sheets in PDB entry 5NKJ. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6,

There are 2 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
16 20first strand
Strand 2
A
140 144parallel
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There are 6 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
64 65first strand
Strand 2
A
93 94anti-parallel
Strand 3
A
99 110anti-parallel
Strand 4
A
36 48anti-parallel
Strand 5
A
22 31anti-parallel
Strand 6
A
150 151parallel
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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
76 78first strand
Strand 2
A
123 133anti-parallel
Strand 3
A
179 192anti-parallel
Strand 4
A
160 176anti-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
B
16 20first strand
Strand 2
B
140 144parallel
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There are 6 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
64 65first strand
Strand 2
B
93 94anti-parallel
Strand 3
B
99 110anti-parallel
Strand 4
B
36 48anti-parallel
Strand 5
B
22 31anti-parallel
Strand 6
B
150 151parallel
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There are 4 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
76 78first strand
Strand 2
B
123 133anti-parallel
Strand 3
B
179 192anti-parallel
Strand 4
B
160 176anti-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
16 20first strand
Strand 2
C
140 144parallel
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There are 6 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
64 65first strand
Strand 2
C
93 94anti-parallel
Strand 3
C
99 110anti-parallel
Strand 4
C
36 48anti-parallel
Strand 5
C
22 31anti-parallel
Strand 6
C
150 151parallel
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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
76 78first strand
Strand 2
C
123 133anti-parallel
Strand 3
C
179 192anti-parallel
Strand 4
C
160 176anti-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
D
16 20first strand
Strand 2
D
140 144parallel
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There are 6 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
64 65first strand
Strand 2
D
93 94anti-parallel
Strand 3
D
99 110anti-parallel
Strand 4
D
36 48anti-parallel
Strand 5
D
22 31anti-parallel
Strand 6
D
150 151parallel
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There are 4 strands in AB3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
76 78first strand
Strand 2
D
123 133anti-parallel
Strand 3
D
179 192anti-parallel
Strand 4
D
160 176anti-parallel
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There are 2 strands in AB4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
16 20first strand
Strand 2
E
140 144parallel
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There are 6 strands in AB5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
64 65first strand
Strand 2
E
93 94anti-parallel
Strand 3
E
99 110anti-parallel
Strand 4
E
36 48anti-parallel
Strand 5
E
22 31anti-parallel
Strand 6
E
150 151parallel
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There are 4 strands in AB6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
76 78first strand
Strand 2
E
123 133anti-parallel
Strand 3
E
179 192anti-parallel
Strand 4
E
160 176anti-parallel
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