Analysis of interatomic Contacts of Structural Units in PDB entry:
3GDU


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 3GDU entry

There are 9 chains in PDB entry 3GDU (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 ASP 38ASN 200
A
 GLY 202ALA 353
B
 PHE 37ASN 200
B
 GLY 202THR 354
C
 GLU 42ASN 200
C
 GLY 202THR 354
D
 TYR 408PHE 410
E
 TYR 408PHE 410
F
 TYR 408PHE 410
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 20 helices in PDB entry 3GDU. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
38 42Right-handed 310
Helix 2
2
A
47 55Right-handed alpha
Helix 3
3
A
95 99Right-handed alpha
Helix 4
4
A
160 164Right-handed 310
Helix 5
5
A
238 251Right-handed alpha
Helix 6
6
A
291 297Right-handed alpha
Helix 7
7
A
316 325Right-handed alpha
Helix 8
8
B
47 55Right-handed alpha
Helix 9
9
B
95 99Right-handed alpha
Helix 10
10
B
160 164Right-handed 310
Helix 11
11
B
238 252Right-handed alpha
Helix 12
12
B
294 298Right-handed 310
Helix 13
13
B
316 322Right-handed alpha
Helix 14
14
B
323 325Right-handed 310
Helix 15
15
C
47 55Right-handed alpha
Helix 16
16
C
96 98Right-handed 310
Helix 17
17
C
160 164Right-handed 310
Helix 18
18
C
238 252Right-handed alpha
Helix 19
19
C
291 297Right-handed alpha
Helix 20
20
C
314 323Right-handed alpha
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There are 13 sheets in PDB entry 3GDU. 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,

There are 7 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
58 64first strand
Strand 2
A
76 84anti-parallel
Strand 3
A
90 94anti-parallel
Strand 4
A
127 131anti-parallel
Strand 5
A
113 122anti-parallel
Strand 6
A
103 107anti-parallel
Strand 7
A
58 64anti-parallel
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There are 7 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
154 159first strand
Strand 2
A
167 178anti-parallel
Strand 3
A
189 192anti-parallel
Strand 4
A
233 237anti-parallel
Strand 5
A
212 219anti-parallel
Strand 6
A
203 207anti-parallel
Strand 7
A
154 159anti-parallel
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There are 2 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
257 258first strand
Strand 2
A
349 350anti-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
310 311first strand
Strand 2
A
303 307anti-parallel
Strand 3
A
330 337anti-parallel
Strand 4
A
340 347anti-parallel
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There are 7 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
113 115first strand
Strand 2
B
103 107anti-parallel
Strand 3
B
58 66anti-parallel
Strand 4
B
74 84anti-parallel
Strand 5
B
90 94anti-parallel
Strand 6
B
127 131anti-parallel
Strand 7
B
117 122anti-parallel
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There are 7 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
154 159first strand
Strand 2
B
167 175anti-parallel
Strand 3
B
190 192anti-parallel
Strand 4
B
233 237anti-parallel
Strand 5
B
212 219anti-parallel
Strand 6
B
204 207anti-parallel
Strand 7
B
154 159anti-parallel
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There are 2 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
257 258first strand
Strand 2
B
349 350anti-parallel
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There are 2 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
330 331first strand
Strand 2
B
346 347anti-parallel
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There are 7 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
58 66first strand
Strand 2
C
74 84anti-parallel
Strand 3
C
91 94anti-parallel
Strand 4
C
127 131anti-parallel
Strand 5
C
113 122anti-parallel
Strand 6
C
103 107anti-parallel
Strand 7
C
58 66anti-parallel
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There are 7 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
154 159first strand
Strand 2
C
167 178anti-parallel
Strand 3
C
189 192anti-parallel
Strand 4
C
233 237anti-parallel
Strand 5
C
212 219anti-parallel
Strand 6
C
203 207anti-parallel
Strand 7
C
154 159anti-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
257 258first strand
Strand 2
C
349 350anti-parallel
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There are 4 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
303 304first strand
Strand 2
C
282 287anti-parallel
Strand 3
C
261 264anti-parallel
Strand 4
F
409 410anti-parallel
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There are 4 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
310 311first strand
Strand 2
C
306 307anti-parallel
Strand 3
C
330 337anti-parallel
Strand 4
C
340 347anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il