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


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 1YKJ entry

There are 2 chains in PDB entry 1YKJ (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1001GLU 1394
B
 MET 2001GLU 2394
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 35 helices in PDB entry 1YKJ. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
1011 1024Right-handed alpha
Helix 2
2
A
1035 1040Right-handed alpha
Helix 3
3
A
1050 1059Right-handed alpha
Helix 4
4
A
1062 1069Right-handed alpha
Helix 5
5
A
1088 1093Right-handed alpha
Helix 6
6
A
1101 1117Right-handed alpha
Helix 7
7
A
1165 1169Right-handed 310
Helix 8
8
A
1170 1174Right-handed 310
Helix 9
9
A
1230 1234Right-handed 310
Helix 10
10
A
1235 1247Right-handed alpha
Helix 11
11
A
1248 1255Right-handed alpha
Helix 12
12
A
1285 1287Right-handed 310
Helix 13
13
A
1292 1296Right-handed 310
Helix 14
14
A
1297 1318Right-handed alpha
Helix 15
15
A
1321 1326Right-handed 310
Helix 16
16
A
1327 1351Right-handed alpha
Helix 17
17
A
1357 1374Right-handed alpha
Helix 18
18
A
1374 1386Right-handed alpha
Helix 19
19
B
2011 2024Right-handed alpha
Helix 20
20
B
2035 2041Right-handed alpha
Helix 21
21
B
2049 2059Right-handed alpha
Helix 22
22
B
2087 2092Right-handed alpha
Helix 23
23
B
2101 2115Right-handed alpha
Helix 24
24
B
2165 2169Right-handed 310
Helix 25
25
B
2170 2174Right-handed 310
Helix 26
26
B
2230 2234Right-handed 310
Helix 27
27
B
2235 2247Right-handed alpha
Helix 28
28
B
2248 2254Right-handed alpha
Helix 29
29
B
2285 2287Right-handed 310
Helix 30
30
B
2292 2296Right-handed 310
Helix 31
31
B
2297 2320Right-handed alpha
Helix 32
32
B
2321 2326Right-handed 310
Helix 33
33
B
2327 2351Right-handed alpha
Helix 34
34
B
2357 2372Right-handed alpha
Helix 35
35
B
2374 2386Right-handed alpha
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There are 8 sheets in PDB entry 1YKJ. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H,

There are 6 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
1119 1121first strand
Strand 2
A
1028 1031parallel
Strand 3
A
1005 1008parallel
Strand 4
A
1154 1157parallel
Strand 5
A
1281 1283parallel
Strand 6
A
1277 1278anti-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
1047 1049first strand
Strand 2
A
1097 1099anti-parallel
Strand 3
A
1070 1072anti-parallel
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There are 8 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
1083 1087first strand
Strand 2
A
1074 1078anti-parallel
Strand 3
A
1200 1202parallel
Strand 4
A
1209 1213anti-parallel
Strand 5
A
1219 1225anti-parallel
Strand 6
A
1175 1190anti-parallel
Strand 7
A
1260 1274anti-parallel
Strand 8
A
1289 1290anti-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
1125 1130first strand
Strand 2
A
1138 1143anti-parallel
Strand 3
A
1146 1151anti-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
2119 2121first strand
Strand 2
B
2028 2031parallel
Strand 3
B
2005 2008parallel
Strand 4
B
2154 2157parallel
Strand 5
B
2281 2283parallel
Strand 6
B
2277 2278anti-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
2047 2048first strand
Strand 2
B
2097 2099anti-parallel
Strand 3
B
2071 2073anti-parallel
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There are 8 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
2082 2086first strand
Strand 2
B
2075 2079anti-parallel
Strand 3
B
2199 2203parallel
Strand 4
B
2209 2215anti-parallel
Strand 5
B
2218 2225anti-parallel
Strand 6
B
2175 2190anti-parallel
Strand 7
B
2260 2274anti-parallel
Strand 8
B
2289 2290anti-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
B
2125 2130first strand
Strand 2
B
2138 2143anti-parallel
Strand 3
B
2146 2151anti-parallel
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