Analysis of interatomic Contacts of Structural Units in PDB entry:
3GD4


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 3GD4 entry

There are 2 chains in PDB entry 3GD4 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 PRO 128HIS 610
B
 SER 129HIS 610
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
Back to top of page

There are 30 helices in PDB entry 3GD4. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
139 153Right-handed alpha
Helix 2
2
A
171 175Right-handed 310
Helix 3
3
A
176 181Right-handed alpha
Helix 4
4
A
185 190Right-handed alpha
Helix 5
5
A
206 210Right-handed 310
Helix 6
6
A
266 271Right-handed alpha
Helix 7
7
A
273 278Right-handed alpha
Helix 8
8
A
285 299Right-handed alpha
Helix 9
9
A
308 326Right-handed alpha
Helix 10
10
A
344 357Right-handed alpha
Helix 11
11
A
405 410Right-handed alpha
Helix 12
12
A
453 469Right-handed alpha
Helix 13
13
A
583 594Right-handed alpha
Helix 14
14
A
599 605Right-handed alpha
Helix 15
15
A
606 608Right-handed 310
Helix 16
16
B
139 153Right-handed alpha
Helix 17
17
B
171 175Right-handed 310
Helix 18
18
B
176 181Right-handed alpha
Helix 19
19
B
185 190Right-handed alpha
Helix 20
20
B
206 210Right-handed 310
Helix 21
21
B
266 271Right-handed alpha
Helix 22
22
B
273 278Right-handed alpha
Helix 23
23
B
285 299Right-handed alpha
Helix 24
24
B
308 326Right-handed alpha
Helix 25
25
B
344 357Right-handed alpha
Helix 26
26
B
403 410Right-handed alpha
Helix 27
27
B
453 469Right-handed alpha
Helix 28
28
B
583 594Right-handed alpha
Helix 29
29
B
599 605Right-handed alpha
Helix 30
30
B
606 608Right-handed 310
Back to top of page

There are 16 sheets in PDB entry 3GD4. 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, P,

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
223 227first strand
Strand 2
A
157 161parallel
Strand 3
A
129 136parallel
Strand 4
A
249 257parallel
Strand 5
A
241 244anti-parallel
Strand 6
A
232 236anti-parallel
Back to list of sheets
Back to top of page

There are 6 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
223 227first strand
Strand 2
A
157 161parallel
Strand 3
A
129 136parallel
Strand 4
A
249 257parallel
Strand 5
A
432 434parallel
Strand 6
A
427 429anti-parallel
Back to list of sheets
Back to top of page

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
191 193first strand
Strand 2
A
199 201anti-parallel
Back to list of sheets
Back to top of page

There are 2 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
261 263first strand
Strand 2
A
399 401anti-parallel
Back to list of sheets
Back to top of page

There are 5 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
280 282first strand
Strand 2
A
392 395parallel
Strand 3
A
301 305parallel
Strand 4
A
328 332parallel
Strand 5
A
361 363parallel
Back to list of sheets
Back to top of page

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
A
368 374first strand
Strand 2
A
377 382anti-parallel
Strand 3
A
387 390anti-parallel
Back to list of sheets
Back to top of page

There are 3 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
420 421first strand
Strand 2
A
439 443parallel
Strand 3
A
447 449anti-parallel
Back to list of sheets
Back to top of page

There are 6 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
480 484first strand
Strand 2
A
490 495anti-parallel
Strand 3
A
571 578anti-parallel
Strand 4
A
562 568anti-parallel
Strand 5
A
503 507anti-parallel
Strand 6
A
539 542parallel
Back to list of sheets
Back to top of page

There are 6 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
223 228first strand
Strand 2
B
157 162parallel
Strand 3
B
130 136parallel
Strand 4
B
249 257parallel
Strand 5
B
241 244anti-parallel
Strand 6
B
232 236anti-parallel
Back to list of sheets
Back to top of page

There are 6 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
223 228first strand
Strand 2
B
157 162parallel
Strand 3
B
130 136parallel
Strand 4
B
249 257parallel
Strand 5
B
432 434parallel
Strand 6
B
427 429anti-parallel
Back to list of sheets
Back to top of page

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
B
191 193first strand
Strand 2
B
199 201anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in L sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
261 263first strand
Strand 2
B
399 401anti-parallel
Back to list of sheets
Back to top of page

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
B
280 282first strand
Strand 2
B
392 395parallel
Strand 3
B
301 305parallel
Strand 4
B
328 332parallel
Strand 5
B
361 363parallel
Back to list of sheets
Back to top of page

There are 3 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
368 374first strand
Strand 2
B
377 382anti-parallel
Strand 3
B
387 390anti-parallel
Back to list of sheets
Back to top of page

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
B
420 421first strand
Strand 2
B
439 443parallel
Strand 3
B
447 450anti-parallel
Back to list of sheets
Back to top of page

There are 5 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
480 484first strand
Strand 2
B
490 495anti-parallel
Strand 3
B
571 578anti-parallel
Strand 4
B
562 568anti-parallel
Strand 5
B
503 507anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il