Orange: nodes, hubs and links specific of opsin_off network

Green: nodes, hubs and links shared by both networks

Purple: nodes, hubs and links specific of opsin_on network

Index: hub id, click on each number to highlight the corresponding hub in the 3D visualization.

Hub: the hub being considered.

Owner: the name of the network the hub belong to or "Shared" if the corresponding hub is present in both networks.

Avg Int. Strength: the average interaction strength of all the links of the corresponding hub in the corresponding network.

Num Of Links: the number of links of the corresponding hub in the corresponding network.

ConSurf: this column reports the ConSurf conservation grades of each hub.


Index Hub Owner opsin_off Avg Int. Strength opsin_on Avg Int. Strength opsin_off Num Of Links opsin_on Num Of Links ConSurf
1NT.S22 opsin_off6.635836.78425
2NT.F24 opsin_off7.153894.61635
3NT.Q28 opsin_off6.541337.29535
4NT.Y29 opsin_off6.970834.62434
5NT.L31 opsin_off6.566676.82434
61x30 opsin_off5.4310.93423
71x39 opsin_off6.221674.10333437
81x47 opsin_off4.56255.57426
91x59 opsin_off8.7708311.425425
101x60 opsin_off7.095555.99635
112x38 opsin_off5.192.95436
122x41 opsin_off7.816678.07425
13E1x51 opsin_off7.251677.57414
143x31 opsin_off5.2324.58524
153x50 opsin_off7.947224.895629
16I2x56 opsin_off6.4658.66427
174x41 opsin_off7.4055435
184x50 opsin_off6.515.97667439
19E2.P180 opsin_off6.044.28633
20E2.H195 opsin_off12.5811.8567434
215x37 opsin_off6.178334.66413
22I3.E239 opsin_off8.206670402
236x31 opsin_off6.03210.8514
247x34 opsin_off7.12253.325424
257x39 opsin_off8.9112.975425
267x42 opsin_off8.664178.18333437
278x47 opsin_off3.62256.04418
288x48 opsin_off4.35750404
298x49 opsin_off5.5051.32416
308x54 opsin_off4.585833.04416
31CT.E332 opsin_off4.645830405
32CT.E341 opsin_off6.866670505
33CT.T342 opsin_off5.014170406
34NT.V20 Shared8.993334.625446
35NT.P23 Shared8.5447.445545
36NT.Y30 Shared8.3186.3475544
37I1x50 Shared6.3956.275447
382x57 Shared5.207338.105547
393x30 Shared5.449174.12456
403x37 Shared6.310838.595446
413x41 Shared9.322788.956655
423x51 Shared6.808336.138457
43E2.Y178 Shared6.842677.48429573
44E2.E181 Shared8.537336.1025544
45E2.Q184 Shared7.278675.7975543
46E2.D190 Shared10.17338.8225444
47E2.Y191 Shared6.006676.274656
48E2.Y192 Shared7.857785.9675645
495x36 Shared7.68255.2425444
505x39 Shared9.021119.366656
515x42 Shared8.46254.73333464
525x461 Shared8.5356.56666
536x44 Shared8.20755.9675449
546x48 Shared8.891678.738658
556x51 Shared9.817338.35556
567x53 Shared14.23179.456459
578x50 Shared10.15338.124458
58Lig Shared8.684447.60286970
59NT.F9 opsin_on9.987789.6275347
60NT.Y10 opsin_on6.377786.592357
61NT.V11 opsin_on4.788893.166358
621x55 opsin_on9.396677.375143
632x42 opsin_on5.792225.01347
642x45 opsin_on8.361115.876359
65E1x50 opsin_on9.414446.948358
663x38 opsin_on6.511114.30667367
674x60 opsin_on8.491118.14345
68E2.W175 opsin_on11.20447.0925345
69E2.R177 opsin_on11.74119.0425345
70E2.M183 opsin_on6.726674.1975342
71E2x50 opsin_on6.948894.8775349
72E2x52 opsin_on5.424444.36833364
73E2.T193 opsin_on10.22677.1925245
745x43 opsin_on4.973335.76333165
755x47 opsin_on5.614.705248
765x51 opsin_on3.456674.9975347
776x40 opsin_on5.1656.886258
78E3.F283 opsin_on6.311117.378354
797x48 opsin_on10.6154.658255
807x54 opsin_on6.316675.0075147
   
Orange: nodes, hubs and links specific of opsin_off network

Green: nodes, hubs and links shared by both networks

Purple: nodes, hubs and links specific of opsin_on network

Index: link id, click on each number to highlight the corresponding link in the 3D visualization.

Node1 Node2: the two nodes of the corresponding link.

Owner: the name of the network the link belong to or "Shared" if the corresponding link is present in both networks.

Recurrence: the relative Recurrence in the filtered pool of shortest paths.

Hub1?, Hub2?: "Yes" if the corresponding node has more than 3 links, otherwise "No".

ConSurf1, ConSurf2: these columns report the ConSurf conservation grades of the two nodes involved in a link.


Index Node1 Node2 Owner opsin_off Recurrence opsin_on Recurrence opsin_off Hub1? opsin_on Hub1? opsin_off Hub2? opsin_on Hub2? ConSurf1 ConSurf2
1E2.Y191 E2x52 opsin_off29.9110YesYesNoYes64
25x36 E2.D190 opsin_off69.67455.5116YesYesYesYes44
3E2.D190 E2.I179 opsin_off64.09575.66983YesYesNoNo41
4E2.I179 E2.P180 opsin_off63.12660NoNoYesNo13
5NT.P23 NT.Q28 opsin_off13.74450YesYesYesNo55
6NT.Q28 NT.Y30 opsin_off12.12677.61603YesNoYesYes54
7NT.L31 NT.Q28 opsin_off12.0736.17616YesNoYesNo45
87x39 7x42 opsin_off33.11780YesNoYesNo57
91x35 7x39 opsin_off25.10170NoNoYesNo55
101x35 E2.M183 opsin_off22.07911.59283NoNoNoYes52
111x39 2x61 opsin_off18.22560YesNoNoNo76
121x53 7x50 opsin_off10.40720NoNoNoNo99
131x53 8x50 opsin_off12.08070.416667NoNoYesYes98
147x53 8x50 opsin_off22.74310YesYesYesYes98
152x43 7x53 opsin_off52.12250NoNoYesYes89
162x43 6x40 opsin_off52.47560NoNoNoYes88
176x40 7x49 opsin_off52.90930NoYesNoNo89
182x46 7x49 opsin_off54.44080NoNoNoNo99
192x46 3x42 opsin_off54.98961.78797NoNoNoNo98
203x42 4x49 opsin_off93.690NoNoNoNo87
212x45 4x49 opsin_off93.99713.37025NoYesNoNo97
222x45 4x50 opsin_off94.59971.34494NoYesYesNo99
232x52 4x50 opsin_off96.0392.36814NoNoYesNo69
242x52 3x31 opsin_off96.58790NoNoYesNo64
253x30 3x31 opsin_off98.62983.89768YesYesYesNo64
263x30 4x61 opsin_off99.33220.427215YesYesNoNo65
273x26 4x61 opsin_off99.78120NoNoNoNo75
283x26 E2.Y178 opsin_off1001.5981NoNoYesYes73
291x60 I1x50 opsin_off17.54055.33755YesNoYesYes57
302x40 I1x50 opsin_off20.20990NoNoYesYes87
312x40 7x53 opsin_off20.34040NoNoYesYes89
328x47 8x49 opsin_off13.65630YesNoYesNo86
337x53 8x47 opsin_off17.92050YesYesYesNo98
341x60 CT.S338 opsin_off11.27470YesNoNoNo59
352x38 3x49 opsin_off12.33020YesNoNoNo68
363x49 3x50 opsin_off18.45780NoNoYesNo89
373x50 6x37 opsin_off37.81570YesNoNoNo98
383x46 6x37 opsin_off38.20720NoNoNoNo98
392x42 3x42 opsin_off40.4640NoYesNoNo78
403x33 E2.Y178 opsin_off57.08141.4557NoNoYesYes43
413x33 Lig opsin_off56.79740NoNoYesYes40
423x37 5x461 opsin_off11.73142.73207YesYesYesYes66
435x42 5x461 opsin_off13.8520.996835YesYesYesYes46
445x39 5x42 opsin_off14.83273.66561YesYesYesYes64
453x50 6x34 opsin_off30.11440YesNoNoNo96
463x54 5x65 opsin_off12.06150NoNoNoNo88
475x65 6x34 opsin_off29.36590NoNoNoNo86
484x60 5x39 opsin_off30.94920NoYesYesYes56
495x65 6x31 opsin_off17.67870NoNoYesNo84
50E2.Y191 E2.Y192 Shared12.646826.1498YesYesYesYes65
515x39 E2x52 Shared44.877912.6319YesYesNoYes64
525x39 E2.S176 Shared79.454214.3671YesYesNoNo65
535x36 E2.S176 Shared78.10729.9473YesYesNoNo45
54E2.P180 E2.Q184 Shared23.865824.462YesNoYesYes33
55E2.P180 NT.P23 Shared22.365114.3407YesNoYesYes35
56E2.P180 NT.F24 Shared10.524340.0949YesNoYesNo35
57E2.Q184 NT.Q28 Shared13.487414.8418YesYesYesNo35
586x51 Lig Shared21.887216.0338YesYesYesYes60
597x42 Lig Shared50.262923.1224YesNoYesYes70
601x32 E2.M183 Shared19.066212.384NoNoNoYes52
611x32 NT.Y29 Shared16.978210.8544NoNoYesNo54
626x51 E2.Y191 Shared15.700134.2194YesYesYesYes66
632x57 7x42 Shared17.317916.8302YesYesYesNo77
64E2.Y178 E2x52 Shared46.852773.3386YesYesNoYes34
652x42 3x46 Shared38.633234.8523NoYesNoNo79
666x48 Lig Shared12.882978.8977YesYesYesYes80
673x37 Lig Shared22.320910.9863YesYesYesYes60
684x60 E2.Y178 Shared32.336714.7574NoYesYesYes53
69NT.F24 NT.N8 opsin_on1.5698211.7458YesNoNoNo54
70E1x50 NT.F24 opsin_on052.2679NoYesYesNo85
71E1x50 E2x50 opsin_on0.0057572780.0475NoYesNoYes89
723x29 E2x50 opsin_on086.73NoNoNoYes59
733x29 E2.Y178 opsin_on0.87702587.5949NoNoYesYes53
744x60 E2.S176 opsin_on018.2384NoYesNoNo55
755x36 E2.T193 opsin_on019.3143YesYesNoYes45
76E2.T193 NT.Y10 opsin_on019.7838NoYesNoYes57
772x63 E1x50 opsin_on1.5525432.8323NoNoNoYes58
782x63 E2.C185 opsin_on031.4504NoNoNoNo55
791x32 E2.C185 opsin_on024.3829NoNoNoNo55
801x42 2x57 opsin_on2.2395812.1835NoNoYesYes77
81E2x52 Lig opsin_on078.9135NoYesYesYes40
825x43 Lig opsin_on017.0992NoYesYesYes50
837x43 7x48 opsin_on010.6118NoNoNoYes65
846x47 6x48 opsin_on6.4807796.097NoNoYesYes88
856x48 6x51 opsin_on023.3597YesYesYesYes86
86E2.I179 E2.Y192 opsin_on013.2648NoNoYesYes15
871x50 2x50 opsin_on0.8866264.7521NoNoNoNo99
882x46 2x50 opsin_on072.7584NoNoNoNo99
892x46 3x43 opsin_on075.3428NoNoNoNo98
903x43 7x49 opsin_on058.75NoNoNoNo89
917x45 7x49 opsin_on0100NoNoNoNo99
926x47 7x45 opsin_on090.4061NoNoNoNo89
931x50 7x50 opsin_on6.1372557.7901NoNoNoNo99
941x56 8x57 opsin_on5.0452912.2468NoNoNoNo75
951x56 I1x50 opsin_on015.6804NoNoYesYes77
968x50 I1x50 opsin_on028.9768YesYesYesYes87
977x54 8x50 opsin_on045.6593NoYesYesYes78
987x50 7x54 opsin_on053.4863NoNoNoYes97
992x37 2x40 opsin_on9.7528212.3259NoNoNoNo78
1002x40 8x50 opsin_on015.6857NoNoYesYes88
1012x37 2x38 opsin_on9.7221210.596NoNoYesNo76
1022x42 3x45 opsin_on1.890328.2595NoYesNoNo77
1033x45 4x49 opsin_on028.2911NoNoNoNo77
1043x38 4x49 opsin_on025.2584NoYesNoNo77
1053x34 3x38 opsin_on030.0422NoNoNoYes57
1063x30 3x34 opsin_on0.90005430.385YesYesNoNo65
1073x30 E2.Y178 opsin_on032.3154YesYesYesYes63
1083x46 7x53 opsin_on031.693NoNoYesYes99
1097x49 7x53 opsin_on040.6751NoNoYesYes99
1102x42 3x49 opsin_on039.9789NoYesNoNo78
1116x44 6x48 opsin_on2.5773418.6709YesYesYesYes98
1126x40 7x53 opsin_on029.0401NoYesYesYes89
1133x51 I2x50 opsin_on3.5215324.0665YesYesNoNo78
1143x52 I2x50 opsin_on027.347NoNoNoNo48
1153x52 I2x51 opsin_on028.9715NoNoNoNo46
116I2x51 I2x54 opsin_on0.88278230.5854NoNoNoNo65
1174x41 I2x54 opsin_on1.7041532.1203YesNoNoNo55
1184x41 I2x56 opsin_on4.3237135.3006YesNoYesNo57
1193x49 I2x56 opsin_on5.5999136.8724NoNoYesNo87
1205x51 6x44 opsin_on015.3745NoYesYesYes79
1215x58 6x40 opsin_on026.9673NoNoNoYes98
1225x58 6x37 opsin_on023.27NoNoNoNo98
1235x65 6x33 opsin_on015.6857NoNoNoNo88
1246x33 6x37 opsin_on019.4568NoNoNoNo88
1255x65 6x30 opsin_on013.8291NoNoNoNo87
1266x58 E3.F283 opsin_on0.023029111.4399NoNoNoYes44
1276x58 E2.Y192 opsin_on1.145714.5675NoNoYesYes45
1287x45 7x48 opsin_on010.1582NoNoNoYes95
1293x43 7x53 opsin_on017.8534NoNoYesYes89

Here, those paths that begin and end at given residue pair(s) or that pass through a residue are used to generate a novel metapath. Such a path filtering is particularly recommended if some information on allosteric residues is available. The selection syntax for a residue pair ("Pairs") is C:C:c534,A:A:?600 (the lower-case "c" stands for cytosine and "?" indicates any non standard amino acid or nucleotide residue). Selection of more than one apical residue pair has the following syntax: C:C:c534,A:A:?600,C:C:c534,A:A:E41. Only one residue can be selected as a tail ("Tail"). For midway residue(s), each residue must be separated by a comma as well e.g. A:A:?600,A:A:E41.

Midway



Download PSN data

2D representation of the global metapath, ligand(s) interactions and
histograms of path distribution according to several parameters
(click on the image to enlarge it 🔍):

A 2D representation of the global communication in the network.

Number of shortest communication paths as a function of the average residue correlation.

Number of shortest communication paths as a function of the average interaction strength of their links.

Number of shortest communication paths as a function of the % of hub nodes in each path.

Number of shortest communication paths as a function of the number of nodes in each path.

Number of shortest communication paths as a function of the % of correlated nodes in each path.


2D representation of the interactions of this orthosteric/allosteric ligand.


Node1Node2OwnerNet1LinkStrengthNet2LinkStrengthComm1Comm2Node1ShellNode2Shell
1x392x57Shared6.224.980122
1x392x60Shared9.033333.010122
1x397x39opsin_off5.3933300122
2x577x42Shared8.279.930121
2x603x28opsin_off11.2900021
3x287x42opsin_off8.5502011
3x28Ligopsin_off4.9166702010
3x32LigShared6.043.140010
3x33E2.Y178Shared5.826674.990112
3x33Ligopsin_off8.7733300110
3x366x48opsin_off4.6900021
3x373x40opsin_off6.6302112
3x373x41Shared5.813337.632112
3x375x461Shared7.3911.082112
3x37LigShared5.413.522110
3x406x44Shared10.154.870122
3x415x461Shared4.936678.462122
4x565x461Shared13.26677.370122
4x60E2.Y178Shared11.593318.082122
4x605x39opsin_off6.7402122
E2.Y178E2x52Shared6.446674.840121
E2.E181E2.Y191Shared5.9833310.12122
6x51E2.E181opsin_off9.7266702112
7x34E2.E181opsin_off9.9233302122
E2.Y191E2x52opsin_off5.6402121
5x39E2x52Shared4.186675.022121
6x51E2.Y191Shared6.953.972112
5x395x42Shared7.223334.132122
5x425x461Shared11.61334.362122
5x435x44opsin_off4.9733300112
5x475x51Shared4.873332.440112
5x47Ligopsin_off6.3466700110
6x446x48Shared16.379.020121
6x487x41opsin_off6.4833300112
6x487x45opsin_off8.2366700112
6x48LigShared14.08673.780110
6x517x34opsin_off7.9833302112
6x51LigShared21.756720.242110
7x397x42opsin_off9.100021
7x42LigShared8.7366710.32110
6x476x48Shared3.483336.530121
6x517x38opsin_off2.6702112
6x52Ligopsin_off2.0933300010
6x526x53opsin_off1.300012
1x397x42opsin_on04.320121
2x563x28opsin_on04.910021
2x593x28opsin_on011.290021
3x28E2x50opsin_on06.082012
3x334x57opsin_on03.360112
3x33E2x52opsin_on04.560111
3x374x56opsin_on012.152112
3x406x48opsin_on020.50121
4x565x43opsin_on03.240121
4x60E2x52opsin_on05.082121
5x43E2x52opsin_on02.920111
E2x52Ligopsin_on03.790110
5x395x43opsin_on012.442121
5x425x43opsin_on03.592121
5x435x461opsin_on03.940112
5x43Ligopsin_on08.450110
5x445x47opsin_on04.290121
5x445x48opsin_on03.770122
5x475x48opsin_on03.770112
5x476x52opsin_on08.320111
6x477x45opsin_on05.160122
6x486x51opsin_on03.860111
6x517x37opsin_on08.342112
6x517x41opsin_on05.342112
5x516x44opsin_on02.440122

Location and physicochemical properties of the interaction partners of this ligand

Interactions of this ligand

Difference Members
Id Description
opsin_off 1U19-Rhodopsin-11-cis-Retinal
2PED-Rhodopsin-9-cis-Retinal
5TE5-Rhodopsin-20-Methanoretinal
opsin_on 6OYA-Rhodopsin-All-trans-retinal-Gt/&β;1/&γ;1
Network Difference
Value opsin_off opsin_on
Imin 3.98667 2.92
Number of Linked Nodes 347 288
Number of Specific Nodes 59 (17.00%) 0  (0.00%)
Number of Shared Nodes 288 (83.00%) 288  (100.00%)
Number of Links 399 331
Number of Specific Links 228 (57.14%) 160  (48.34%)
Number of Shared Links 171 (42.86%) 171  (51.66%)
Number of Hubs 58 47
Number of Specific Hubs 33 (56.90%) 22  (46.81%)
Number of Shared Hubs 25 (43.10%) 25  (53.19%)
Average % Shared Neighbours (Jaccard) 31.72
Average % Shared Neighbours (Otsuka) 40.13
Average % Shared Neighbours (Overlap Coefficient) 48.29
Average % Shared Cliques (k3-6) 78.03
Graphlets Similarity 0.65275
Paths Difference
Value opsin_off opsin_on
Number Of Nodes in MetaPath 66 77
Specific Nodes in MetaPath 27 (40.91%) 38  (49.35%)
Shared Nodes in MetaPath 288 (83.00%) 288  (83.00%)
Number Of Links MetaPath 68 80
Specific Links in MetaPath 49 (72.06%) 61  (76.25%)
Shared Links in MetaPath 171 (42.86%) 171  (42.86%)
Number of Shortest Paths 103239 50607
Length Of Smallest Path 3 3
Average Path Length 18.4548 13.9603
Length of Longest Path 37 30
Minimum Path Strength 0.751667 1.47
Average Path Strength 7.18985 6.10306
Maximum Path Strength 22.8433 17.865
Minimum Path Correlation 0.7 0.7
Average Path Correlation 0.937312 0.936247
Maximum Path Correlation 1 1
Minimum % Of Corr. Nodes 3.125 4.34783
Average % Of Corr. Nodes 47.1355 55.9717
Maximum % Of Corr. Nodes 100 100
Minimum Path Hubs % 0 0
Average Path Hubs % 44.4792 42.6517
Maximum Path Hubs % 100 100

Details about the values in these tables can be found in the corresponding documentation page .

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