Analysis of interatomic Contacts of Structural Units in PDB entry:
6YGD


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 6YGD entry

There are 4 chains in PDB entry 6YGD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 1THR 159
B
 PRO 0ASP 730
C
 LYS 5GLU 75
D
 MET 1GLY 6
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 38 helices in PDB entry 6YGD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
A1
A
13 26Right-handed alpha
Helix 2
A2
A
33 43Right-handed alpha
Helix 3
A3
A
95 110Right-handed alpha
Helix 4
A4
A
124 133Right-handed alpha
Helix 5
B1
B
3 11Right-handed alpha
Helix 6
B2
B
22 32Right-handed alpha
Helix 7
B3
B
46 50Right-handed 310
Helix 8
B4
B
69 73Right-handed alpha
Helix 9
B5
B
83 104Right-handed alpha
Helix 10
B6
B
108 114Right-handed pi
Helix 11
B7
B
116 127Right-handed alpha
Helix 12
B8
B
140 146Right-handed pi
Helix 13
B8
B
147 166Right-handed alpha
Helix 14
B9
B
191 207Right-handed alpha
Helix 15
B10
B
213 229Right-handed alpha
Helix 16
B10
B
230 232Right-handed 310
Helix 17
B10
B
233 237Right-handed alpha
Helix 18
B11
B
243 258Right-handed alpha
Helix 19
B11
B
259 261Right-handed 310
Helix 20
B12
B
274 278Right-handed alpha
Helix 21
B13
B
296 309Right-handed alpha
Helix 22
B13
B
310 313Right-handed 310
Helix 23
B14
B
317 327Right-handed alpha
Helix 24
B15
B
335 346Right-handed alpha
Helix 25
B16
B
358 370Right-handed alpha
Helix 26
B17
B
384 401Right-handed alpha
Helix 27
B18
B
404 428Right-handed alpha
Helix 28
B19
B
431 455Right-handed alpha
Helix 29
B20
B
460 462Right-handed 310
Helix 30
B20
B
463 504Right-handed alpha
Helix 31
B21
B
509 524Right-handed alpha
Helix 32
B22
B
526 563Right-handed alpha
Helix 33
B23
B
579 587Right-handed alpha
Helix 34
B24
B
601 611Right-handed alpha
Helix 35
B25
B
617 651Right-handed alpha
Helix 36
B26
B
666 699Right-handed alpha
Helix 37
C1
C
6 10Right-handed alpha
Helix 38
C2
C
70 75Right-handed alpha
Back to top of page

There are 4 sheets in PDB entry 6YGD. Click on sheet of interest to get list of strands forming it: A, B, C, D,

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
2 8first strand
Strand 2
A
46 53anti-parallel
Strand 3
A
62 72anti-parallel
Strand 4
A
76 87anti-parallel
Strand 5
A
113 121parallel
Strand 6
A
150 158anti-parallel
Strand 7
A
136 141anti-parallel
Back to list of sheets
Back to top of page

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
B
53 55first strand
Strand 2
C
49 58parallel
Strand 3
C
36 46anti-parallel
Strand 4
C
22 32anti-parallel
Strand 5
C
11 18anti-parallel
Strand 6
C
64 69anti-parallel
Strand 7
B
19 21anti-parallel
Back to list of sheets
Back to top of page

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
B
53 55first strand
Strand 2
C
49 58parallel
Strand 3
C
36 46anti-parallel
Strand 4
C
22 32anti-parallel
Strand 5
B
38 40anti-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
B
705 711first strand
Strand 2
B
722 728anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il