Analysis of interatomic Contacts of Structural Units in PDB entry:
3D4R


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 3D4R entry

There are 6 chains in PDB entry 3D4R (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 HIS -7GLU 150
B
 GLU -6GLU 150
C
 HIS -7GLU 150
D
 HIS -7GLU 150
E
 PHE -2GLU 150
F
 HIS -7GLU 150
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 12 helices in PDB entry 3D4R. 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 24Right-handed 310
Helix 2
2
A
50 53Right-handed 310
Helix 3
3
B
22 24Right-handed 310
Helix 4
4
B
51 53Right-handed 310
Helix 5
5
C
22 24Right-handed 310
Helix 6
6
C
50 53Right-handed 310
Helix 7
7
D
22 24Right-handed 310
Helix 8
8
D
51 53Right-handed 310
Helix 9
9
E
22 24Right-handed 310
Helix 10
10
E
50 53Right-handed 310
Helix 11
11
F
22 24Right-handed 310
Helix 12
12
F
50 53Right-handed 310
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There are 22 sheets in PDB entry 3D4R. 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,

There are 13 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
5 9first strand
Strand 2
A
41 46anti-parallel
Strand 3
A
17 21anti-parallel
Strand 4
A
26 29anti-parallel
Strand 5
B
26 29anti-parallel
Strand 6
B
17 21anti-parallel
Strand 7
B
41 46anti-parallel
Strand 8
B
5 9anti-parallel
Strand 9
B
64 67anti-parallel
Strand 10
B
73 77anti-parallel
Strand 11
A
73 77anti-parallel
Strand 12
A
64 67anti-parallel
Strand 13
A
5 9anti-parallel
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There are 2 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
55 56first strand
Strand 2
A
59 60anti-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
84 88first strand
Strand 2
A
139 149anti-parallel
Strand 3
A
128 136anti-parallel
Strand 4
A
101 103anti-parallel
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There are 3 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
92 95first strand
Strand 2
A
108 113anti-parallel
Strand 3
A
119 123anti-parallel
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There are 2 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
55 56first strand
Strand 2
B
59 60anti-parallel
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There are 4 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
84 90first strand
Strand 2
B
141 149anti-parallel
Strand 3
B
128 135anti-parallel
Strand 4
B
102 103anti-parallel
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There are 3 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
92 95first strand
Strand 2
B
108 113anti-parallel
Strand 3
B
119 123anti-parallel
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There are 13 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
5 9first strand
Strand 2
C
41 46anti-parallel
Strand 3
C
17 21anti-parallel
Strand 4
C
26 30anti-parallel
Strand 5
D
26 30anti-parallel
Strand 6
D
17 21anti-parallel
Strand 7
D
41 46anti-parallel
Strand 8
D
5 9anti-parallel
Strand 9
D
64 67anti-parallel
Strand 10
D
73 77anti-parallel
Strand 11
C
73 77anti-parallel
Strand 12
C
64 67anti-parallel
Strand 13
C
5 9anti-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
55 56first strand
Strand 2
C
59 60anti-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
C
84 88first strand
Strand 2
C
139 149anti-parallel
Strand 3
C
128 136anti-parallel
Strand 4
C
101 103anti-parallel
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There are 3 strands in K sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
92 95first strand
Strand 2
C
108 113anti-parallel
Strand 3
C
119 123anti-parallel
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There are 2 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
-3 -2first strand
Strand 2
D
1 2anti-parallel
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There are 2 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
55 56first strand
Strand 2
D
59 60anti-parallel
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There are 4 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
84 90first strand
Strand 2
D
141 149anti-parallel
Strand 3
D
128 135anti-parallel
Strand 4
D
102 103anti-parallel
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There are 3 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
92 95first strand
Strand 2
D
108 113anti-parallel
Strand 3
D
119 123anti-parallel
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There are 13 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
5 9first strand
Strand 2
E
41 46anti-parallel
Strand 3
E
17 21anti-parallel
Strand 4
E
26 30anti-parallel
Strand 5
F
26 30anti-parallel
Strand 6
F
17 21anti-parallel
Strand 7
F
41 46anti-parallel
Strand 8
F
5 9anti-parallel
Strand 9
F
64 67anti-parallel
Strand 10
F
73 77anti-parallel
Strand 11
E
73 77anti-parallel
Strand 12
E
64 68anti-parallel
Strand 13
E
5 9anti-parallel
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There are 2 strands in Q sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
55 56first strand
Strand 2
E
59 60anti-parallel
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There are 4 strands in R sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
84 88first strand
Strand 2
E
139 149anti-parallel
Strand 3
E
128 136anti-parallel
Strand 4
E
101 103anti-parallel
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There are 3 strands in S sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
92 95first strand
Strand 2
E
108 113anti-parallel
Strand 3
E
119 123anti-parallel
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There are 2 strands in T sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
55 56first strand
Strand 2
F
59 60anti-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
F
84 88first strand
Strand 2
F
143 149anti-parallel
Strand 3
F
128 135anti-parallel
Strand 4
F
101 103anti-parallel
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There are 3 strands in V sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
F
92 95first strand
Strand 2
F
108 113anti-parallel
Strand 3
F
119 123anti-parallel
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