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


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 4YFD entry

There are 2 chains in PDB entry 4YFD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
B
 CYS 24ALA 345
A
 GLU 28THR 518
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 4YFD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
B
48 51Right-handed 310
Helix 2
AA2
B
57 63Right-handed alpha
Helix 3
AA3
B
87 90Right-handed 310
Helix 4
AA4
B
105 108Right-handed 310
Helix 5
AA5
B
322 328Right-handed 310
Helix 6
AA6
A
124 128Right-handed 310
Helix 7
AA7
A
205 209Right-handed 310
Helix 8
AA8
A
469 473Right-handed 310
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There are 20 sheets in PDB entry 4YFD. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8, AA9, AB1, AB2, AB3, AB4, AB5, AB6, AB7, AB8, AB9, AC1, AC2,

There are 3 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
25 29first strand
Strand 2
B
123 132parallel
Strand 3
B
35 38parallel
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There are 5 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
25 29first strand
Strand 2
B
123 132parallel
Strand 3
B
110 117anti-parallel
Strand 4
B
67 74anti-parallel
Strand 5
B
81 82anti-parallel
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There are 3 strands in AA3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
43 46first strand
Strand 2
B
98 101anti-parallel
Strand 3
B
92 95anti-parallel
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There are 5 strands in AA4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
146 150first strand
Strand 2
B
221 234parallel
Strand 3
B
208 218anti-parallel
Strand 4
B
174 179anti-parallel
Strand 5
B
182 183anti-parallel
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There are 3 strands in AA5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
156 159first strand
Strand 2
B
196 199anti-parallel
Strand 3
B
190 192anti-parallel
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There are 4 strands in AA6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
244 245first strand
Strand 2
B
267 270anti-parallel
Strand 3
B
310 313anti-parallel
Strand 4
B
302 304anti-parallel
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There are 3 strands in AA7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
279 283first strand
Strand 2
B
331 335anti-parallel
Strand 3
B
339 343anti-parallel
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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
296 299first strand
Strand 2
B
315 318anti-parallel
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There are 4 strands in AA9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
29 35first strand
Strand 2
A
48 57anti-parallel
Strand 3
A
86 91anti-parallel
Strand 4
A
76 80anti-parallel
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There are 5 strands in AB1 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
112 123parallel
Strand 3
A
101 109anti-parallel
Strand 4
A
61 66anti-parallel
Strand 5
A
69 70anti-parallel
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There are 4 strands in AB2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
134 137first strand
Strand 2
A
150 157anti-parallel
Strand 3
A
195 201anti-parallel
Strand 4
A
182 186anti-parallel
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There are 5 strands in AB3 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
142 145first strand
Strand 2
A
228 233parallel
Strand 3
A
210 218anti-parallel
Strand 4
A
163 168anti-parallel
Strand 5
A
171 172anti-parallel
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There are 4 strands in AB4 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
142 145first strand
Strand 2
A
228 233parallel
Strand 3
A
210 218anti-parallel
Strand 4
A
221 224anti-parallel
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There are 3 strands in AB5 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
241 247first strand
Strand 2
A
260 269anti-parallel
Strand 3
A
293 298anti-parallel
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There are 5 strands in AB6 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
252 253first strand
Strand 2
A
316 325parallel
Strand 3
A
305 313anti-parallel
Strand 4
A
273 278anti-parallel
Strand 5
A
281 282anti-parallel
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There are 3 strands in AB7 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
337 341first strand
Strand 2
A
345 349anti-parallel
Strand 3
A
384 388anti-parallel
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There are 4 strands in AB8 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
375 380first strand
Strand 2
A
360 367anti-parallel
Strand 3
A
395 403anti-parallel
Strand 4
A
408 411anti-parallel
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There are 4 strands in AB9 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
375 380first strand
Strand 2
A
360 367anti-parallel
Strand 3
A
395 403anti-parallel
Strand 4
A
415 418anti-parallel
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There are 3 strands in AC1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
429 435first strand
Strand 2
A
441 446anti-parallel
Strand 3
A
483 486anti-parallel
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There are 4 strands in AC2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
474 479first strand
Strand 2
A
457 463anti-parallel
Strand 3
A
494 502anti-parallel
Strand 4
A
514 517anti-parallel
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