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


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 4QKD entry

There are 6 chains in PDB entry 4QKD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 16VAL 109
A
 ASP 111PRO 206
B
 MET 16VAL 109
B
 ASP 111PRO 206
C
 MET 16VAL 109
C
 ASP 111PRO 206
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 15 helices in PDB entry 4QKD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
22 29Right-handed alpha
Helix 2
2
A
41 58Right-handed alpha
Helix 3
3
A
82 97Right-handed alpha
Helix 4
4
A
169 174Right-handed alpha
Helix 5
5
A
181 184Right-handed 310
Helix 6
6
B
22 29Right-handed alpha
Helix 7
7
B
41 58Right-handed alpha
Helix 8
8
B
82 97Right-handed alpha
Helix 9
9
B
169 174Right-handed alpha
Helix 10
10
B
181 184Right-handed 310
Helix 11
11
C
22 29Right-handed alpha
Helix 12
12
C
41 58Right-handed alpha
Helix 13
13
C
82 97Right-handed alpha
Helix 14
14
C
169 174Right-handed alpha
Helix 15
15
C
181 184Right-handed 310
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There are 9 sheets in PDB entry 4QKD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I,

There are 9 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
18 20first strand
Strand 2
A
154 159anti-parallel
Strand 3
A
141 147anti-parallel
Strand 4
A
175 179anti-parallel
Strand 5
A
107 121anti-parallel
Strand 6
A
197 203anti-parallel
Strand 7
A
131 137anti-parallel
Strand 8
A
164 168anti-parallel
Strand 9
A
33 36anti-parallel
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There are 6 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
18 20first strand
Strand 2
A
154 159anti-parallel
Strand 3
A
141 147anti-parallel
Strand 4
A
175 179anti-parallel
Strand 5
A
107 121anti-parallel
Strand 6
A
70 78anti-parallel
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There are 2 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
186 187first strand
Strand 2
A
190 191anti-parallel
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There are 9 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
18 20first strand
Strand 2
B
154 159anti-parallel
Strand 3
B
141 147anti-parallel
Strand 4
B
175 179anti-parallel
Strand 5
B
107 121anti-parallel
Strand 6
B
197 203anti-parallel
Strand 7
B
131 137anti-parallel
Strand 8
B
164 168anti-parallel
Strand 9
B
33 36anti-parallel
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There are 6 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
18 20first strand
Strand 2
B
154 159anti-parallel
Strand 3
B
141 147anti-parallel
Strand 4
B
175 179anti-parallel
Strand 5
B
107 121anti-parallel
Strand 6
B
70 78anti-parallel
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There are 2 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
186 187first strand
Strand 2
B
190 191anti-parallel
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There are 9 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
18 20first strand
Strand 2
C
154 159anti-parallel
Strand 3
C
141 147anti-parallel
Strand 4
C
175 179anti-parallel
Strand 5
C
107 121anti-parallel
Strand 6
C
197 203anti-parallel
Strand 7
C
131 137anti-parallel
Strand 8
C
164 168anti-parallel
Strand 9
C
33 36anti-parallel
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There are 6 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
18 20first strand
Strand 2
C
154 159anti-parallel
Strand 3
C
141 147anti-parallel
Strand 4
C
175 179anti-parallel
Strand 5
C
107 121anti-parallel
Strand 6
C
70 78anti-parallel
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There are 2 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
186 187first strand
Strand 2
C
190 191anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il