Analysis of interatomic Contacts of Structural Units in PDB entry:
1YM4


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 1YM4 entry

There are 9 chains in PDB entry 1YM4 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
GLY -3ASN 385
B
SER -2ASN 385
C
GLY -3ASN 385
X
GLU 1ASN 3
X
ALA 5ALA 5
Y
GLU 1ASN 3
Y
ALA 5ALA 5
Z
GLU 1ASN 3
Z
ALA 5ALA 5
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 33 helices in PDB entry 1YM4. Click on helix of interest for CSU analysis.
Helix
number
Helix
ID
Chain
ID
Initial
residue
Terminal
residue
Helix class
Helix 1
1
A
53 57Right-handed 310
Helix 2
2
A
123 127Right-handed 310
Helix 3
3
A
135 144Right-handed alpha
Helix 4
4
A
218 222Right-handed 310
Helix 5
5
A
238 252Right-handed alpha
Helix 6
6
A
258 264Right-handed alpha
Helix 7
7
A
276 280Right-handed 310
Helix 8
8
A
301 305Right-handed alpha
Helix 9
9
A
334 339Right-handed alpha
Helix 10
10
A
379 383Right-handed 310
Helix 11
11
B
53 57Right-handed 310
Helix 12
12
B
123 127Right-handed 310
Helix 13
13
B
135 144Right-handed alpha
Helix 14
14
B
180 182Right-handed 310
Helix 15
15
B
216 222Right-handed 310
Helix 16
16
B
238 252Right-handed alpha
Helix 17
17
B
276 280Right-handed 310
Helix 18
18
B
301 305Right-handed alpha
Helix 19
19
B
311 315Right-handed 310
Helix 20
20
B
334 339Right-handed alpha
Helix 21
21
B
347 349Right-handed 310
Helix 22
22
B
378 383Right-handed 310
Helix 23
23
C
53 57Right-handed 310
Helix 24
24
C
123 127Right-handed 310
Helix 25
25
C
135 144Right-handed alpha
Helix 26
26
C
216 221Right-handed alpha
Helix 27
27
C
238 252Right-handed alpha
Helix 28
28
C
258 264Right-handed alpha
Helix 29
29
C
276 280Right-handed 310
Helix 30
30
C
301 305Right-handed alpha
Helix 31
31
C
334 339Right-handed alpha
Helix 32
32
C
347 349Right-handed 310
Helix 33
33
C
379 383Right-handed 310
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There are 15 sheets in PDB entry 1YM4. 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,

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
61 70first strand
Strand 2
A
75 86anti-parallel
Strand 3
A
14 20anti-parallel
Strand 4
A
6 9anti-parallel
Strand 5
A
169 176anti-parallel
Strand 6
A
150 155anti-parallel
Strand 7
A
341 346anti-parallel
Strand 8
A
351 357anti-parallel
Strand 9
A
184 192anti-parallel
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There are 13 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
61 70first strand
Strand 2
A
75 86anti-parallel
Strand 3
A
95 106anti-parallel
Strand 4
A
38 41parallel
Strand 5
A
117 120anti-parallel
Strand 6
A
25 32parallel
Strand 7
A
14 20anti-parallel
Strand 8
A
6 9anti-parallel
Strand 9
A
169 176anti-parallel
Strand 10
A
150 155anti-parallel
Strand 11
A
341 346anti-parallel
Strand 12
A
351 357anti-parallel
Strand 13
A
184 192anti-parallel
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There are 5 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
211 212first strand
Strand 2
A
203 208anti-parallel
Strand 3
A
283 288anti-parallel
Strand 4
A
294 300anti-parallel
Strand 5
A
369 375anti-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
225 227first strand
Strand 2
A
331 333parallel
Strand 3
A
234 237anti-parallel
Strand 4
A
324 327parallel
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There are 3 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
A
268 270first strand
Strand 2
A
318 322anti-parallel
Strand 3
A
306 309anti-parallel
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There are 9 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
61 70first strand
Strand 2
B
75 86anti-parallel
Strand 3
B
14 20anti-parallel
Strand 4
B
6 8anti-parallel
Strand 5
B
170 176anti-parallel
Strand 6
B
150 155anti-parallel
Strand 7
B
341 346anti-parallel
Strand 8
B
351 357anti-parallel
Strand 9
B
184 192anti-parallel
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There are 13 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
61 70first strand
Strand 2
B
75 86anti-parallel
Strand 3
B
94 106anti-parallel
Strand 4
B
38 41parallel
Strand 5
B
117 120anti-parallel
Strand 6
B
25 32parallel
Strand 7
B
14 20anti-parallel
Strand 8
B
6 8anti-parallel
Strand 9
B
170 176anti-parallel
Strand 10
B
150 155anti-parallel
Strand 11
B
341 346anti-parallel
Strand 12
B
351 357anti-parallel
Strand 13
B
184 192anti-parallel
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There are 5 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
200 201first strand
Strand 2
B
225 227anti-parallel
Strand 3
B
331 333parallel
Strand 4
B
234 237anti-parallel
Strand 5
B
326 327parallel
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There are 5 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
211 212first strand
Strand 2
B
203 208anti-parallel
Strand 3
B
283 288anti-parallel
Strand 4
B
294 300anti-parallel
Strand 5
B
369 375anti-parallel
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There are 3 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
B
268 271first strand
Strand 2
B
317 322anti-parallel
Strand 3
B
306 308anti-parallel
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There are 9 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
66 70first strand
Strand 2
C
75 79anti-parallel
Strand 3
C
100 106anti-parallel
Strand 4
C
39 41parallel
Strand 5
C
117 120anti-parallel
Strand 6
C
25 32parallel
Strand 7
C
15 20anti-parallel
Strand 8
C
82 86anti-parallel
Strand 9
C
94 98anti-parallel
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There are 13 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
C
66 70first strand
Strand 2
C
75 79anti-parallel
Strand 3
C
100 106anti-parallel
Strand 4
C
39 41parallel
Strand 5
C
117 120anti-parallel
Strand 6
C
25 32parallel
Strand 7
C
15 20anti-parallel
Strand 8
C
6 9anti-parallel
Strand 9
C
169 176anti-parallel
Strand 10
C
150 155anti-parallel
Strand 11
C
342 346anti-parallel
Strand 12
C
351 357anti-parallel
Strand 13
C
184 192anti-parallel
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There are 5 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
C
200 201first strand
Strand 2
C
225 227anti-parallel
Strand 3
C
331 333parallel
Strand 4
C
234 237anti-parallel
Strand 5
C
324 327parallel
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There are 5 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number
Chain
ID
Initial
residue
Terminal
residue
Strand sense
Strand 1
C
211 212first strand
Strand 2
C
203 208anti-parallel
Strand 3
C
283 288anti-parallel
Strand 4
C
294 300anti-parallel
Strand 5
C
369 375anti-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
C
269 270first strand
Strand 2
C
318 322anti-parallel
Strand 3
C
306 308anti-parallel
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