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PDBsum entry 5nss
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Top Page protein dna_rna Protein-protein interface(s) pores links
Pore analysis for: 5nss calculated with MOLE 2.0 PDB id
5nss
Pores calculated on whole structure Pores calculated excluding ligands
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30 pores, coloured by radius 30 pores, coloured by radius 30 pores, coloured as in
list below
Pores are connected internal spaces going through the structure. Only pores longer than 25 Å are shown.
Pores
Free R
Length
HPathy
HPhob
Polar
Rel Mut
Residue..type
Ligands
Radius
1 1.47 1.74 63.6 -0.10 -0.11 12.3 75 4 5 3 12 4 1 0  
2 1.80 1.85 81.4 -0.11 -0.15 14.1 78 6 8 4 16 4 0 0  
3 2.08 2.26 102.0 -0.75 -0.45 13.5 82 8 8 5 10 3 0 0  UNK 78 D DA 77 H DA 78 H DA 79 H DA 80 H DC -
13 I DC -12 I
4 1.95 1.95 121.9 -0.06 -0.55 4.2 84 2 1 2 2 0 0 0  UNK 78 D UNK 87 D DA 80 H DG 81 H DT -15 I DG -
14 I DC -
13 I UNK 25 M UNK 26 M UNK 27 M UNK 28 M UNK 29 M
UNK 30 M UNK 33 M UNK 36 M UNK 49 M UNK 276 M UNK
291 M UNK 292 M UNK 293 M UNK 295 M UNK 296 M UNK
298 M UNK 300 M UNK 302 M UNK 400 M UNK 401 M
5 1.65 1.83 144.6 -0.39 -0.17 15.3 84 10 8 7 18 5 3 0  
6 1.58 2.37 146.3 0.83 0.04 5.8 82 3 3 4 20 2 2 0  UNK 78 D UNK 87 D DA 80 H DG 81 H DT 82 H DG -
25 I DC -24 I DT -15 I DG -14 I DC -
13 I UNK 259 M UNK 401 M
7 1.63 1.79 151.9 -0.38 -0.26 13.9 86 4 6 5 11 2 2 0  UNK 97 D UNK 38 M UNK 48 M UNK 49 M UNK 266 M UNK
293 M UNK 294 M UNK 298 M UNK 300 M UNK 302 M
8 2.78 2.93 157.0 -0.77 -0.39 13.2 83 8 11 12 10 3 1 0  UNK 78 D UNK 87 D DA 77 H DA 78 H DA 79 H DA 80 H
DC -13 I DC -12 I
9 1.99 2.00 184.2 -0.56 -0.47 10.7 83 11 9 9 18 4 0 0  DG 73 H DT 74 H DG 75 H UNK 23 M UNK 26 M UNK 29
M UNK 30 M UNK 49 M UNK 276 M UNK 291 M UNK 292 M
UNK 293 M UNK 296 M UNK 298 M UNK 300 M UNK 302 M
10 1.88 1.88 201.4 -0.77 -0.47 12.1 82 10 13 10 12 3 1 0  DG 73 H DT 74 H DG 75 H UNK 23 M UNK 26 M UNK 29
M UNK 30 M UNK 49 M UNK 276 M UNK 291 M UNK 292 M
UNK 293 M UNK 296 M UNK 298 M UNK 300 M UNK 302 M
11 1.41 2.70 267.7 -0.08 -0.06 12.9 86 12 14 11 29 5 4 1  UNK 259 M UNK 260 M UNK 261 M
12 2.81 2.85 275.8 -1.25 -0.53 15.9 84 19 20 18 18 1 6 0  UNK 78 D UNK 87 D DA 80 H DG 81 H DT 82 H DT -
15 I DG -14 I DC -13 I UNK 401 M
13 2.65 2.78 284.0 -1.08 -0.48 15.8 84 17 22 11 22 2 6 0  UNK 78 D UNK 87 D DA 80 H DG 81 H DT 82 H DT -
15 I DG -14 I DC -13 I UNK 401 M
14 1.60 2.32 290.4 -0.58 -0.18 14.8 84 21 18 13 29 7 4 0  UNK 259 M UNK 260 M UNK 261 M
15 2.71 2.75 290.2 -1.52 -0.52 18.1 79 22 20 15 17 3 6 0  UNK 78 D UNK 87 D DA 80 H DG 81 H DT 82 H DT -
15 I DG -14 I DC -13 I UNK 401 M
16 1.47 2.64 297.4 -0.49 -0.23 13.8 83 12 16 11 24 3 6 1  UNK 78 D UNK 87 D DA 80 H DG 81 H DT 82 H DT -
15 I DG -14 I DC -13 I UNK 401 M
17 1.56 1.85 301.4 -1.27 -0.35 17.3 81 14 22 15 14 8 3 0  UNK 78 D UNK 87 D DA 80 H DG 81 H DT 82 H DT -
15 I DG -14 I DC -13 I UNK 401 M UNK 402 M
18 1.88 1.95 379.4 -0.46 -0.31 13.0 82 14 22 13 29 8 3 0  DG 75 H DT -
17 I UNK 259 M UNK 260 M UNK 261 M UNK 407 M UNK
408 M UNK 411 M UNK 413 M
19 2.25 2.26 408.2 -0.92 -0.45 15.7 83 28 32 22 39 6 4 0  DG 75 H DT -17 I UNK 407 M UNK 411 M UNK 413 M
20 1.55 2.83 416.1 -0.85 -0.33 15.3 81 21 30 19 34 13 2 0  DG 75 H DT -
17 I UNK 407 M UNK 408 M UNK 411 M UNK 413 M
21 2.30 2.31 422.6 -1.09 -0.44 17.0 81 30 32 20 38 8 4 0  DG 75 H DT -17 I UNK 407 M UNK 411 M UNK 413 M
22 1.18 1.23 405.3 -1.04 -0.38 16.6 82 27 30 20 37 12 3 0  DG 75 H DT -
17 I UNK 407 M UNK 411 M UNK 412 M UNK 413 M
23 1.22 1.22 422.4 -1.14 -0.37 17.5 82 26 32 21 32 11 4 0  DG 75 H DT -
17 I UNK 407 M UNK 408 M UNK 411 M UNK 413 M
24 2.84 2.84 425.3 -1.03 -0.44 16.2 83 26 35 24 33 5 5 0  DG 75 H DC 76 H DT -
17 I UNK 407 M UNK 411 M UNK 412 M UNK 413 M
25 1.35 2.60 429.8 -0.44 -0.26 14.2 83 22 29 16 45 8 4 1  DG 75 H DT -
17 I UNK 407 M UNK 411 M UNK 412 M UNK 413 M
26 2.73 2.73 439.7 -1.16 -0.42 17.5 81 30 35 21 32 7 5 0  DG 75 H DT -
17 I UNK 407 M UNK 411 M UNK 412 M UNK 413 M
27 1.56 2.83 433.2 -1.00 -0.33 16.6 81 20 33 20 28 12 3 0  DG 75 H DC 76 H DT -
17 I UNK 407 M UNK 411 M UNK 413 M
28 1.30 2.74 446.9 -0.48 -0.24 14.4 83 20 31 17 39 7 5 1  DG 75 H DT -17 I UNK 407 M UNK 411 M UNK 413 M
29 1.45 1.60 448.5 -0.78 -0.38 15.1 83 26 36 16 43 8 6 0  DG 75 H DT -17 I UNK 407 M UNK 411 M UNK 413 M
30 1.22 1.38 454.9 -0.79 -0.32 14.0 83 21 31 21 38 12 4 0  DG 75 H DC 76 H DT -
17 I UNK 407 M UNK 411 M UNK 412 M UNK 413 M

Residue-type_colouring
Positive Negative Neutral Aliphatic Aromatic Pro & Gly Cysteine
H,K,R D,E S,T,N,Q A,V,L,I,M F,Y,W P,G C

Acknowledgement
Pores were calculated by MOLE 2.0 program version 2.5.13.11.08 and visualized using Pymol 0.97rc.
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