Analysis of interatomic Contacts of Structural Units in PDB entry:
3GD1


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 3GD1 entry

There are 4 chains in PDB entry 3GD1 (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
C
 ASP 3ARG 393
E
 VAL 8ARG 393
I
 GLN 3ALA 360
Z
 THR 371ALA 378
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 10 helices in PDB entry 3GD1. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
C
98 107Right-handed alpha
Helix 2
2
C
135 138Right-handed 310
Helix 3
3
C
312 315Right-handed 310
Helix 4
4
E
312 315Right-handed 310
Helix 5
5
E
335 338Right-handed 310
Helix 6
6
I
16 19Right-handed 310
Helix 7
7
I
92 96Right-handed 310
Helix 8
8
I
310 313Right-handed 310
Helix 9
9
I
333 339Right-handed alpha
Helix 10
10
I
344 356Right-handed alpha
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There are 21 sheets in PDB entry 3GD1. 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, Q, R, S, T, U,

There are 5 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
112 117first strand
Strand 2
C
37 42anti-parallel
Strand 3
C
19 22anti-parallel
Strand 4
C
7 12anti-parallel
Strand 5
C
387 390parallel
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There are 5 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
26 29first strand
Strand 2
C
163 172parallel
Strand 3
C
140 151anti-parallel
Strand 4
C
52 63anti-parallel
Strand 5
C
76 87anti-parallel
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There are 5 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
26 29first strand
Strand 2
C
163 172parallel
Strand 3
C
140 151anti-parallel
Strand 4
C
127 130anti-parallel
Strand 5
C
287 289anti-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
C
185 187first strand
Strand 2
C
199 203anti-parallel
Strand 3
C
214 222anti-parallel
Strand 4
C
266 267anti-parallel
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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
185 187first strand
Strand 2
C
199 203anti-parallel
Strand 3
C
214 222anti-parallel
Strand 4
C
270 274anti-parallel
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There are 5 strands in F sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
207 209first strand
Strand 2
C
341 352parallel
Strand 3
C
317 329anti-parallel
Strand 4
C
228 241anti-parallel
Strand 5
C
247 249anti-parallel
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There are 5 strands in G sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
207 209first strand
Strand 2
C
341 352parallel
Strand 3
C
317 329anti-parallel
Strand 4
C
228 241anti-parallel
Strand 5
C
252 258anti-parallel
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There are 5 strands in H sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
113 117first strand
Strand 2
E
37 41anti-parallel
Strand 3
E
20 22anti-parallel
Strand 4
E
9 11anti-parallel
Strand 5
E
389 390parallel
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There are 2 strands in I sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
27 29first strand
Strand 2
E
170 172parallel
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There are 4 strands in J sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
75 80first strand
Strand 2
E
56 63anti-parallel
Strand 3
E
140 148anti-parallel
Strand 4
E
164 167anti-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
E
128 130first strand
Strand 2
E
287 289anti-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
E
184 187first strand
Strand 2
E
197 203anti-parallel
Strand 3
E
214 222anti-parallel
Strand 4
E
270 274anti-parallel
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There are 2 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
208 209first strand
Strand 2
E
351 352parallel
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There are 4 strands in N sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
E
247 258first strand
Strand 2
E
227 241anti-parallel
Strand 3
E
317 330anti-parallel
Strand 4
E
340 349anti-parallel
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There are 4 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
7 14first strand
Strand 2
I
323 329anti-parallel
Strand 3
I
314 319anti-parallel
Strand 4
I
303 309anti-parallel
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There are 4 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
30 31first strand
Strand 2
I
37 43anti-parallel
Strand 3
I
48 54anti-parallel
Strand 4
I
63 65anti-parallel
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There are 4 strands in Q sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
70 73first strand
Strand 2
I
80 84anti-parallel
Strand 3
I
87 90anti-parallel
Strand 4
I
100 103anti-parallel
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There are 4 strands in R sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
110 115first strand
Strand 2
I
118 122anti-parallel
Strand 3
I
126 131anti-parallel
Strand 4
I
140 143anti-parallel
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There are 4 strands in S sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
155 158first strand
Strand 2
I
164 173anti-parallel
Strand 3
I
176 185anti-parallel
Strand 4
I
193 195anti-parallel
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There are 4 strands in T sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
198 204first strand
Strand 2
I
213 221anti-parallel
Strand 3
I
226 232anti-parallel
Strand 4
I
246 249anti-parallel
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There are 4 strands in U sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
I
261 267first strand
Strand 2
I
272 277anti-parallel
Strand 3
I
281 286anti-parallel
Strand 4
I
292 297anti-parallel
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