Analysis of interatomic Contacts of Structural Units in PDB entry:
4D4U


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 4D4U entry

There are 4 chains in PDB entry 4D4U (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 2VAL 243
A
 TRP 245ALA 315
B
 SER 2VAL 243
B
 TRP 245ALA 315
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 8 helices in PDB entry 4D4U. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
5 8Right-handed 310
Helix 2
2
A
48 50Right-handed 310
Helix 3
3
A
98 103Right-handed 310
Helix 4
4
A
273 277Right-handed 310
Helix 5
5
B
5 8Right-handed 310
Helix 6
6
B
48 50Right-handed 310
Helix 7
7
B
98 103Right-handed alpha
Helix 8
8
B
273 277Right-handed 310
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There are 20 sheets in PDB entry 4D4U. Click on sheet of interest to get list of strands forming it: AA, AB, AC, AD, AE, AF, AG, AH, AI, AJ, BA, BB, BC, BD, BE, BF, BG, BH, BI, BJ,

There are 4 strands in AA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
15 20first strand
Strand 2
A
23 29anti-parallel
Strand 3
A
34 40anti-parallel
Strand 4
A
44 46parallel
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There are 4 strands in AB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
15 20first strand
Strand 2
A
23 29anti-parallel
Strand 3
A
34 40anti-parallel
Strand 4
A
52 55anti-parallel
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There are 2 strands in AC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
44 46first strand
Strand 2
A
34 40parallel
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There are 4 strands in AD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
63 67first strand
Strand 2
A
71 77anti-parallel
Strand 3
A
83 89anti-parallel
Strand 4
A
93 96anti-parallel
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There are 4 strands in AE sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
112 116first strand
Strand 2
A
125 130anti-parallel
Strand 3
A
135 141anti-parallel
Strand 4
A
146 154anti-parallel
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There are 4 strands in AF sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
161 166first strand
Strand 2
A
175 181anti-parallel
Strand 3
A
187 193anti-parallel
Strand 4
A
197 198parallel
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There are 4 strands in AG sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
161 166first strand
Strand 2
A
175 181anti-parallel
Strand 3
A
187 193anti-parallel
Strand 4
A
203 206anti-parallel
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There are 2 strands in AH sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
197 198first strand
Strand 2
A
187 193parallel
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There are 4 strands in AI sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
215 220first strand
Strand 2
A
228 234anti-parallel
Strand 3
A
239 246anti-parallel
Strand 4
A
250 259anti-parallel
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There are 4 strands in AJ sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
266 271first strand
Strand 2
A
280 285anti-parallel
Strand 3
A
295 300anti-parallel
Strand 4
A
304 307anti-parallel
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There are 4 strands in BA sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
15 20first strand
Strand 2
B
23 29anti-parallel
Strand 3
B
34 40anti-parallel
Strand 4
B
44 46parallel
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There are 4 strands in BB sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
15 20first strand
Strand 2
B
23 29anti-parallel
Strand 3
B
34 40anti-parallel
Strand 4
B
52 55anti-parallel
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There are 2 strands in BC sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
44 46first strand
Strand 2
B
34 40parallel
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There are 4 strands in BD sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
63 67first strand
Strand 2
B
71 77anti-parallel
Strand 3
B
83 89anti-parallel
Strand 4
B
93 96anti-parallel
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There are 4 strands in BE sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
112 116first strand
Strand 2
B
125 130anti-parallel
Strand 3
B
135 141anti-parallel
Strand 4
B
146 154anti-parallel
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There are 4 strands in BF sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
161 166first strand
Strand 2
B
175 181anti-parallel
Strand 3
B
187 193anti-parallel
Strand 4
B
197 198parallel
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There are 4 strands in BG sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
161 166first strand
Strand 2
B
175 181anti-parallel
Strand 3
B
187 193anti-parallel
Strand 4
B
203 206anti-parallel
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There are 2 strands in BH sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
197 198first strand
Strand 2
B
187 193parallel
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There are 4 strands in BI sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
215 220first strand
Strand 2
B
228 234anti-parallel
Strand 3
B
239 246anti-parallel
Strand 4
B
250 259anti-parallel
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There are 4 strands in BJ sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
266 271first strand
Strand 2
B
280 285anti-parallel
Strand 3
B
295 300anti-parallel
Strand 4
B
304 307anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il