Analysis of interatomic Contacts of Structural Units in PDB entry:
1D5M


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 1D5M entry

There are 5 chains in PDB entry 1D5M (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
GLU 4ASP 181
B
ASP 2ALA 190
C
SER 2LYS 237
D
ARG 805MET 807
D
SER 809LEU 810
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 1D5M. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
A
45 52Right-handed alpha
Helix 2
2
A
55 57Right-handed 310
Helix 3
3
A
58 77Right-handed alpha
Helix 4
4
B
51 53Right-handed 310
Helix 5
5
B
54 63Right-handed alpha
Helix 6
6
B
64 73Right-handed alpha
Helix 7
7
B
73 78Right-handed alpha
Helix 8
8
B
78 87Right-handed alpha
Helix 9
9
B
88 90Right-handed 310
Helix 10
10
C
13 16Right-handed 310
Helix 11
11
C
21 29Right-handed alpha
Helix 12
12
C
70 79Right-handed alpha
Helix 13
13
C
157 173Right-handed alpha
Helix 14
14
C
209 215Right-handed alpha
Helix 15
15
C
216 218Right-handed 310
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There are 11 sheets in PDB entry 1D5M. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K,

There are 8 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
40 43first strand
Strand 2
A
29 35anti-parallel
Strand 3
A
19 26anti-parallel
Strand 4
A
5 15anti-parallel
Strand 5
B
7 18anti-parallel
Strand 6
B
23 32anti-parallel
Strand 7
B
35 41anti-parallel
Strand 8
B
47 49anti-parallel
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There are 4 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
103 112anti-parallel
Strand 3
A
145 153anti-parallel
Strand 4
A
133 134anti-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
88 93first strand
Strand 2
A
103 112anti-parallel
Strand 3
A
145 153anti-parallel
Strand 4
A
138 139anti-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
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 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
114 122anti-parallel
Strand 3
B
155 162anti-parallel
Strand 4
B
142 144anti-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
98 103first strand
Strand 2
B
114 122anti-parallel
Strand 3
B
155 162anti-parallel
Strand 4
B
148 149anti-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
B
136 137first strand
Strand 2
B
128 133anti-parallel
Strand 3
B
170 176anti-parallel
Strand 4
B
184 189anti-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
C
33 38first strand
Strand 2
C
82 86anti-parallel
Strand 3
C
118 120anti-parallel
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There are 3 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
48 52first strand
Strand 2
C
61 67anti-parallel
Strand 3
C
110 115parallel
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There are 5 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
141 152first strand
Strand 2
C
125 138anti-parallel
Strand 3
C
228 236parallel
Strand 4
C
182 191anti-parallel
Strand 5
C
194 199anti-parallel
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There are 2 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
154 156first strand
Strand 2
C
222 224anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il