Analysis of interatomic Contacts of Structural Units in PDB entry:
1AQD


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 1AQD entry

There are 12 chains in PDB entry 1AQD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 GLU 3ASP 181
B
 ARG 4ALA 190
C
 GLY 2ALA 15
D
 GLU 3GLU 179
E
 ARG 4ALA 190
F
 SER 3ALA 15
G
 GLU 3GLU 179
H
 ARG 4ALA 190
I
 GLY 2ALA 15
J
 GLU 3GLU 179
K
 ARG 4ARG 191
L
 GLY 2ALA 15
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 21 helices in PDB entry 1AQD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
46 48Right-handed 310
Helix 2
2
A
56 76Right-handed alpha
Helix 3
3
B
52 63Right-handed 310
Helix 4
4
B
65 72Right-handed alpha
Helix 5
5
B
74 77Right-handed alpha
Helix 6
6
B
79 86Right-handed alpha
Helix 7
7
D
46 50Right-handed 310
Helix 8
8
D
56 76Right-handed alpha
Helix 9
9
E
52 63Right-handed alpha
Helix 10
10
E
65 77Right-handed alpha
Helix 11
11
E
79 86Right-handed alpha
Helix 12
12
G
46 50Right-handed 310
Helix 13
13
G
56 76Right-handed alpha
Helix 14
14
H
52 63Right-handed 310
Helix 15
15
H
65 77Right-handed alpha
Helix 16
16
H
79 89Right-handed alpha
Helix 17
17
J
46 50Right-handed 310
Helix 18
18
J
56 76Right-handed alpha
Helix 19
19
K
52 63Right-handed 310
Helix 20
20
K
66 77Right-handed alpha
Helix 21
21
K
79 86Right-handed alpha
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There are 24 sheets in PDB entry 1AQD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X,

There are 4 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
7 14first strand
Strand 2
A
19 26anti-parallel
Strand 3
A
29 35anti-parallel
Strand 4
A
40 43anti-parallel
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There are 3 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
88 93first strand
Strand 2
A
102 112anti-parallel
Strand 3
A
145 154anti-parallel
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There are 4 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
126 128first strand
Strand 2
A
118 123anti-parallel
Strand 3
A
161 166anti-parallel
Strand 4
A
174 178anti-parallel
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There are 4 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
9 18first strand
Strand 2
B
23 32anti-parallel
Strand 3
B
35 41anti-parallel
Strand 4
B
47 49anti-parallel
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There are 4 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
98 103first strand
Strand 2
B
112 122anti-parallel
Strand 3
B
155 164anti-parallel
Strand 4
B
142 144anti-parallel
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There are 3 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
128 133first strand
Strand 2
B
170 176anti-parallel
Strand 3
B
184 189anti-parallel
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There are 4 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
7 14first strand
Strand 2
D
19 26anti-parallel
Strand 3
D
29 35anti-parallel
Strand 4
D
40 43anti-parallel
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There are 3 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
88 93first strand
Strand 2
D
102 112anti-parallel
Strand 3
D
145 154anti-parallel
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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
126 128first strand
Strand 2
D
118 123anti-parallel
Strand 3
D
161 166anti-parallel
Strand 4
D
174 178anti-parallel
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There are 4 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
9 18first strand
Strand 2
E
23 32anti-parallel
Strand 3
E
35 41anti-parallel
Strand 4
E
46 49anti-parallel
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There are 4 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
98 103first strand
Strand 2
E
112 122anti-parallel
Strand 3
E
155 164anti-parallel
Strand 4
E
142 144anti-parallel
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There are 3 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
127 133first strand
Strand 2
E
170 177anti-parallel
Strand 3
E
184 189anti-parallel
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There are 4 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
G
7 14first strand
Strand 2
G
19 26anti-parallel
Strand 3
G
29 35anti-parallel
Strand 4
G
40 43anti-parallel
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There are 3 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
G
88 93first strand
Strand 2
G
102 112anti-parallel
Strand 3
G
145 154anti-parallel
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There are 4 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
G
126 128first strand
Strand 2
G
118 123anti-parallel
Strand 3
G
161 166anti-parallel
Strand 4
G
174 178anti-parallel
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There are 4 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
9 18first strand
Strand 2
H
23 32anti-parallel
Strand 3
H
35 41anti-parallel
Strand 4
H
47 49anti-parallel
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There are 4 strands in Q sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
98 103first strand
Strand 2
H
112 122anti-parallel
Strand 3
H
155 164anti-parallel
Strand 4
H
142 144anti-parallel
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There are 3 strands in R sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
H
127 133first strand
Strand 2
H
170 177anti-parallel
Strand 3
H
184 189anti-parallel
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There are 4 strands in S sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
J
7 14first strand
Strand 2
J
19 26anti-parallel
Strand 3
J
29 35anti-parallel
Strand 4
J
40 43anti-parallel
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There are 3 strands in T sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
J
88 93first strand
Strand 2
J
102 112anti-parallel
Strand 3
J
145 154anti-parallel
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There are 4 strands in U sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
J
126 128first strand
Strand 2
J
118 123anti-parallel
Strand 3
J
161 166anti-parallel
Strand 4
J
174 178anti-parallel
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There are 4 strands in V sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
K
9 18first strand
Strand 2
K
23 32anti-parallel
Strand 3
K
35 41anti-parallel
Strand 4
K
47 49anti-parallel
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There are 4 strands in W sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
K
98 103first strand
Strand 2
K
112 122anti-parallel
Strand 3
K
155 164anti-parallel
Strand 4
K
142 144anti-parallel
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There are 3 strands in X sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
K
127 133first strand
Strand 2
K
170 177anti-parallel
Strand 3
K
184 189anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il