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


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 3NDM entry

There are 4 chains in PDB entry 3NDM (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 MET 5ASN 402
B
 PHE 7ASN 402
C
 MET 5ASN 402
D
 PHE 7ASN 402
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 76 helices in PDB entry 3NDM. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
6 20Right-handed alpha
Helix 2
2
A
26 42Right-handed alpha
Helix 3
3
A
43 48Right-handed alpha
Helix 4
4
A
49 59Right-handed alpha
Helix 5
5
A
59 70Right-handed alpha
Helix 6
6
A
72 74Right-handed 310
Helix 7
7
A
109 115Right-handed alpha
Helix 8
8
A
120 131Right-handed alpha
Helix 9
9
A
163 167Right-handed 310
Helix 10
10
A
174 192Right-handed alpha
Helix 11
11
A
200 202Right-handed 310
Helix 12
12
A
242 247Right-handed alpha
Helix 13
13
A
257 273Right-handed alpha
Helix 14
14
A
282 292Right-handed alpha
Helix 15
15
A
292 297Right-handed alpha
Helix 16
16
A
306 317Right-handed alpha
Helix 17
17
A
319 323Right-handed 310
Helix 18
18
A
329 334Right-handed alpha
Helix 19
19
A
335 339Right-handed 310
Helix 20
20
A
344 348Right-handed 310
Helix 21
21
A
364 368Right-handed 310
Helix 22
22
A
391 395Right-handed 310
Helix 23
23
B
10 18Right-handed alpha
Helix 24
24
B
26 42Right-handed alpha
Helix 25
25
B
43 48Right-handed alpha
Helix 26
26
B
49 70Right-handed alpha
Helix 27
27
B
72 74Right-handed 310
Helix 28
28
B
110 115Right-handed alpha
Helix 29
29
B
119 131Right-handed alpha
Helix 30
30
B
171 192Right-handed alpha
Helix 31
31
B
200 202Right-handed 310
Helix 32
32
B
242 246Right-handed 310
Helix 33
33
B
258 273Right-handed alpha
Helix 34
34
B
282 292Right-handed alpha
Helix 35
35
B
306 317Right-handed alpha
Helix 36
36
B
319 323Right-handed 310
Helix 37
37
B
329 334Right-handed alpha
Helix 38
38
B
335 339Right-handed 310
Helix 39
39
B
391 395Right-handed 310
Helix 40
40
C
6 20Right-handed alpha
Helix 41
41
C
26 42Right-handed alpha
Helix 42
42
C
49 59Right-handed alpha
Helix 43
43
C
59 70Right-handed alpha
Helix 44
44
C
72 74Right-handed 310
Helix 45
45
C
109 115Right-handed alpha
Helix 46
46
C
120 131Right-handed alpha
Helix 47
47
C
163 167Right-handed 310
Helix 48
48
C
171 192Right-handed alpha
Helix 49
49
C
200 202Right-handed 310
Helix 50
50
C
242 247Right-handed alpha
Helix 51
51
C
258 273Right-handed alpha
Helix 52
52
C
282 292Right-handed alpha
Helix 53
53
C
292 297Right-handed alpha
Helix 54
54
C
306 317Right-handed alpha
Helix 55
55
C
344 348Right-handed 310
Helix 56
56
C
364 368Right-handed 310
Helix 57
57
D
10 18Right-handed alpha
Helix 58
58
D
26 42Right-handed alpha
Helix 59
59
D
43 48Right-handed alpha
Helix 60
60
D
49 70Right-handed alpha
Helix 61
61
D
72 74Right-handed 310
Helix 62
62
D
109 115Right-handed alpha
Helix 63
63
D
119 131Right-handed alpha
Helix 64
64
D
163 167Right-handed 310
Helix 65
65
D
171 192Right-handed alpha
Helix 66
66
D
200 202Right-handed 310
Helix 67
67
D
242 247Right-handed alpha
Helix 68
68
D
258 273Right-handed alpha
Helix 69
69
D
282 292Right-handed alpha
Helix 70
70
D
292 297Right-handed alpha
Helix 71
71
D
306 317Right-handed alpha
Helix 72
72
D
319 323Right-handed 310
Helix 73
73
D
329 334Right-handed alpha
Helix 74
74
D
335 339Right-handed 310
Helix 75
75
D
344 348Right-handed 310
Helix 76
76
D
391 395Right-handed 310
Back to top of page

There are 16 sheets in PDB entry 3NDM. 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 4 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
76 80first strand
Strand 2
A
92 95anti-parallel
Strand 3
A
101 108anti-parallel
Strand 4
A
88 89anti-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
76 80first strand
Strand 2
A
92 95anti-parallel
Strand 3
A
101 108anti-parallel
Strand 4
A
148 154anti-parallel
Strand 5
A
139 144anti-parallel
Strand 6
A
399 400anti-parallel
Back to list of sheets
Back to top of page

There are 3 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
159 160first strand
Strand 2
A
204 206anti-parallel
Strand 3
A
212 214anti-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
194 195first strand
Strand 2
A
221 222anti-parallel
Back to list of sheets
Back to top of page

There are 2 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
228 229first strand
Strand 2
A
255 256anti-parallel
Back to list of sheets
Back to top of page

There are 6 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
76 84first strand
Strand 2
B
88 95anti-parallel
Strand 3
B
101 108anti-parallel
Strand 4
B
148 153anti-parallel
Strand 5
B
139 144anti-parallel
Strand 6
B
399 400anti-parallel
Back to list of sheets
Back to top of page

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
194 195first strand
Strand 2
B
221 222anti-parallel
Back to list of sheets
Back to top of page

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
204 206first strand
Strand 2
B
212 214anti-parallel
Back to list of sheets
Back to top of page

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
B
228 229first strand
Strand 2
B
255 256anti-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
C
76 78first strand
Strand 2
C
88 95anti-parallel
Strand 3
C
101 108anti-parallel
Strand 4
C
148 154anti-parallel
Strand 5
C
139 144anti-parallel
Strand 6
C
399 400anti-parallel
Back to list of sheets
Back to top of page

There are 3 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
159 160first strand
Strand 2
C
204 206anti-parallel
Strand 3
C
212 214anti-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
C
194 195first strand
Strand 2
C
221 222anti-parallel
Back to list of sheets
Back to top of page

There are 6 strands in M sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
76 80first strand
Strand 2
D
88 95anti-parallel
Strand 3
D
101 108anti-parallel
Strand 4
D
148 153anti-parallel
Strand 5
D
139 144anti-parallel
Strand 6
D
399 400anti-parallel
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
D
159 160first strand
Strand 2
D
204 206anti-parallel
Strand 3
D
212 214anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in O sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
194 195first strand
Strand 2
D
221 222anti-parallel
Back to list of sheets
Back to top of page

There are 2 strands in P sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
D
228 229first strand
Strand 2
D
255 256anti-parallel
Back to list of sheets
Back to top of page
Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il