Orange: nodes, hubs and links specific of succinate_off network

Green: nodes, hubs and links shared by both networks

Purple: nodes, hubs and links specific of succinate_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 succinate_off Avg Int. Strength succinate_on Avg Int. Strength succinate_off Num Of Links succinate_on Num Of Links ConSurf
11x50 succinate_off050439
22x44 succinate_off1000536
32x64 succinate_off10050434
43x29 succinate_off500426
53x36 succinate_off1000427
63x38 succinate_off500437
73x54 succinate_off00428
84x41 succinate_off00433
9E2x50 succinate_off500419
105x43 succinate_off1000435
115x61 succinate_off00528
127x45 succinate_off1000439
138x50 succinate_off1000628
14Lig Shared1001001190
151x23 Shared00443
161x39 Shared100100578
171x57 Shared10050657
182x42 Shared10050448
192x53 Shared10050547
20E1x50 Shared100100558
21E1x52 Shared100100447
223x37 Shared100100557
233x42 Shared100100547
243x51 Shared10050448
253x56 Shared00446
26I2x52 Shared10050444
27I2x57 Shared100100446
28E2 Shared1001001693
295x47 Shared050558
306x44 Shared100100459
316x48 Shared100100648
326x51 Shared100100556
336x52 Shared100100658
346x55 Shared100100776
357x34 Shared100100555
367x38 Shared10050445
377x42 Shared5050447
387x52 Shared00447
397x53 Shared10050549
401x27 succinate_on050253
411x34 succinate_on00345
421x38 succinate_on00344
432x50 succinate_on0100349
443x30 succinate_on00345
453x32 succinate_on0100247
464x45 succinate_on00346
474x50 succinate_on050349
484x57 succinate_on00246
494x61 succinate_on0100243
505x35 succinate_on00243
515x39 succinate_on0100346
525x54 succinate_on00248
535x58 succinate_on0100368
54I3 succinate_on00044
556x34 succinate_on00246
566x58 succinate_on00344
577x49 succinate_on5050359
587x54 succinate_on0100267
   
Orange: nodes, hubs and links specific of succinate_off network

Green: nodes, hubs and links shared by both networks

Purple: nodes, hubs and links specific of succinate_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 succinate_off Recurrence succinate_on Recurrence succinate_off Hub1? succinate_on Hub1? succinate_off Hub2? succinate_on Hub2? ConSurf1 ConSurf2
1E1x50 Lig succinate_off17.72820YesYesYesYes80
21x23 7x28 succinate_off12.86290YesYesNoNo34
31x27 7x28 succinate_off19.19988.59596NoYesNoNo34
41x27 7x31 succinate_off20.85650NoYesNoNo34
56x58 7x31 succinate_off22.76244.99585NoYesNoNo44
66x58 7x34 succinate_off15.60927.2833NoYesYesYes45
77x38 Lig succinate_off18.21476.13127YesYesYesYes50
82x53 2x54 succinate_off10.85240YesYesNoNo75
91x50 2x47 succinate_off94.08930YesNoNoNo98
102x47 7x53 succinate_off93.12020NoNoYesYes89
111x57 7x53 succinate_off74.20190YesYesYesYes79
127x53 8x50 succinate_off16.26860YesYesYesNo98
131x57 2x40 succinate_off68.74550YesYesNoNo78
142x37 2x40 succinate_off68.81381.75021NoNoNoNo78
152x37 I2x52 succinate_off61.11783.48934NoNoYesYes74
163x36 7x42 succinate_off36.13190YesNoYesYes77
173x36 6x48 succinate_off26.37310YesNoYesYes78
186x44 6x48 succinate_off19.41294.49183YesYesYesYes98
193x43 6x44 succinate_off28.01770NoNoYesYes89
203x43 7x52 succinate_off25.53680NoNoYesYes87
213x46 6x36 succinate_off18.18250NoNoNoNo98
222x42 3x46 succinate_off16.88380YesYesNoNo89
232x53 3x35 succinate_off10.92080YesYesNoNo78
242x49 3x35 succinate_off14.67230NoNoNoNo88
252x49 3x38 succinate_off13.24092.92994NoNoYesNo87
26E1x50 E1x52 succinate_off10.56290YesYesYesYes87
273x36 6x51 succinate_off23.86410YesNoYesYes76
286x48 6x52 succinate_off47.61960YesYesYesYes88
293x51 5x61 succinate_off23.87218.66242YesYesYesNo88
303x55 5x64 succinate_off13.30920NoNoNoNo84
314x60 5x39 succinate_off15.86652.63639NoNoNoYes86
326x54 7x37 succinate_off30.24939.14982NoNoNoNo57
336x54 6x57 succinate_off26.26863.05732NoNoNoNo55
346x57 7x30 succinate_off24.26220NoNoNoNo55
356x61 7x30 succinate_off20.61525.15093NoNoNoNo35
366x61 7x27 succinate_off18.58872.57546NoNoNoNo33
376x62 7x27 succinate_off16.55810NoNoNoNo33
385x33 6x62 succinate_off14.51952.28746NoNoNoNo13
395x32 5x33 succinate_off10.41014.56937NoNoNoNo21
405x61 6x34 succinate_off10.46640YesNoNoYes86
414x59 4x60 succinate_off13.21670NoNoNoNo48
426x44 7x45 succinate_off10.9650YesYesYesNo99
437x34 7x38 Shared17.519123.0186YesYesYesYes55
441x39 Lig Shared12.046615.9346YesYesYesYes80
451x39 7x39 Shared13.176548.0587YesYesNoNo85
467x42 Lig Shared34.471210.7948YesYesYesYes70
472x53 7x42 Shared45.231234.1346YesYesYesYes77
482x53 7x46 Shared37.2095100YesYesNoNo78
492x50 7x46 Shared41.998499.5015NoYesNoNo98
501x50 2x50 Shared10036.627YesNoNoYes99
516x36 7x52 Shared20.587123.9324NoNoYesYes87
522x50 7x49 Shared62.69453.9407NoYesNoYes99
536x48 7x45 Shared53.140331.1105YesYesYesNo89
547x45 7x49 Shared63.112232.7056YesNoNoYes99
553x36 3x37 Shared15.456427.7264YesNoYesYes77
566x55 7x34 Shared12.798611.1659YesYesYesYes65
576x52 6x55 Shared32.746324.1817YesYesYesYes86
586x51 6x52 Shared10.635317.6849YesYesYesYes68
59I2x52 I2x57 Shared57.454837.5741YesYesYesYes46
603x56 I2x57 Shared53.675131.249YesYesYesYes66
613x55 3x56 Shared48.898325.1675NoNoYesYes86
623x51 3x55 Shared34.519523.5669YesYesNoNo88
633x37 5x43 Shared14.961816.1728YesYesYesNo75
646x51 7x37 Shared32.88715.198YesYesNoNo67
656x55 E2 Shared26.875822.3428YesYesYesYes63
665x39 5x43 Shared12.858911.4484NoYesYesNo65
673x32 Lig succinate_on0.36992413.0712NoYesYesYes70
681x23 1x27 succinate_on010.7893YesYesNoYes33
691x27 1x30 succinate_on025.4888NoYesNoNo34
701x30 1x34 succinate_on027.5935NoNoNoYes45
711x34 7x39 succinate_on2.3964631.188NoYesNoNo55
721x37 1x38 succinate_on011.0717NoNoNoYes54
731x38 7x39 succinate_on9.6139914.8435NoYesNoNo45
741x39 7x42 succinate_on023.6223YesYesYesYes87
751x50 7x50 succinate_on3.0277430.7339YesNoNoNo99
761x53 7x50 succinate_on023.4783NoNoNoNo99
771x53 7x54 succinate_on013.686NoNoNoYes97
782x43 3x46 succinate_on010.9831NoNoNoNo89
792x50 3x39 succinate_on079.9446NoYesNoNo99
802x49 3x39 succinate_on078.787NoNoNoNo89
812x49 4x50 succinate_on074.6829NoNoNoYes89
823x42 4x50 succinate_on0.012062771.609YesYesNoYes79
833x42 4x49 succinate_on2.9875367.8704YesYesNoNo77
843x45 4x49 succinate_on065.3171NoNoNoNo77
852x42 3x45 succinate_on1.3671155.0263YesYesNoNo87
862x42 3x49 succinate_on047.8316YesYesNoNo88
872x39 3x49 succinate_on3.1604344.9682NoNoNoNo78
882x39 I2x52 succinate_on043.506NoNoYesYes74
892x53 3x36 succinate_on028.2415YesYesYesNo77
902x56 3x32 succinate_on034.19NoNoNoYes67
912x56 3x28 succinate_on4.0973131.1437NoNoNoNo65
922x59 3x28 succinate_on1.4354629.604NoNoNoNo75
932x59 E1x50 succinate_on013.5973NoNoYesYes78
942x59 E1x52 succinate_on1.4073215.2479NoNoYesYes77
954x57 4x61 succinate_on019.1803NoYesNoYes63
963x30 4x57 succinate_on020.7311NoYesNoYes56
973x33 E2 succinate_on9.0711740.8031NoNoYesYes53
984x61 E2 succinate_on1.3108223.5558NoYesYesYes33
99E2 E2x52 succinate_on8.2509113.2761YesYesNoNo35
1001x39 7x38 succinate_on023.3841YesYesYesYes85
1013x30 4x54 succinate_on1.5882610.4126NoYesNoNo54
1026x51 7x34 succinate_on012.5284YesYesYesYes65
1035x47 6x52 succinate_on3.5022149.3548YesYesYesYes88
1045x47 6x44 succinate_on020.3323YesYesYesYes89
1055x47 6x48 succinate_on7.0486527.3553YesYesYesYes88
1067x49 7x53 succinate_on047.7042NoYesYesYes99
1075x54 6x44 succinate_on017.8621NoYesYesYes89
1085x54 5x58 succinate_on011.8582NoYesNoYes88
1094x64 E2 succinate_on3.1644633.2263NoNoYesYes43
1104x64 5x35 succinate_on022.4259NoNoNoYes43
1115x32 5x35 succinate_on8.3433913.5863NoNoNoYes23
1123x50 7x53 succinate_on011.1271NoNoYesYes99
1133x50 5x58 succinate_on012.7278NoNoNoYes98
1147x52 7x53 succinate_on044.7466YesYesYesYes79
1156x39 7x52 succinate_on2.7784514.982NoNoYesYes67
1166x39 6x42 succinate_on013.2429NoNoNoNo65
1176x32 6x36 succinate_on020.3877NoNoNoNo78
1186x32 6x33 succinate_on8.327314.9211NoNoNoNo78
1196x30 6x33 succinate_on013.0324NoNoNoNo08
1206x58 7x30 succinate_on010.2742NoYesNoNo45
1213x37 6x55 succinate_on3.0237210.0194YesYesYesYes76
1222x53 3x32 succinate_on050.0582YesYesNoYes77
1236x58 E2 succinate_on9.1757110.3185NoYesYesYes43
1243x32 3x33 succinate_on033.2041NoYesNoNo75
1253x37 6x52 succinate_on7.3100113.974YesYesYesYes78

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
1x31Ligsuccinate_off5.201010
1x39LigShared6.67510.1750110
2x60LigShared10.6256.010010
2x64LigShared17.4358.541010
E1x50Ligsuccinate_off10.16501010
3x29LigShared27.397.081010
3x32LigShared11.9955.3551110
E2x50Ligsuccinate_off4.7201010
7x38LigShared13.85525.161110
7x42LigShared4.5355.831110
1x312x64Shared11.7858.421011
1x351x39Shared4.6912.8950021
1x352x64Shared10.557.0350021
1x392x57Shared7.035.2750112
1x397x39Shared11.139.040112
2x532x57succinate_off9.7401022
2x537x42Shared1513.931021
2x563x28Shared5.857.3150022
2x59E1x52Shared16.769.581022
2x593x28Shared9.11515.431022
2x63E1x50Shared4.949.2650021
2x647x38succinate_off5.1401011
E1x50E1x52succinate_off12.5401012
3x28E1x50succinate_off4.5200021
E1x50E2x50Shared9.147.1851011
3x25E2x50succinate_off7.2800021
3x29E2x50succinate_off7.6601011
3x29E2x52succinate_off5.9601011
3x327x42succinate_off7.3101111
3x334x57succinate_off6.9201112
3x334x61succinate_off11.16501112
3x33E2Shared8.7110.181112
3x367x42succinate_off9.13500021
4x61E2Shared7.1810.0451122
E2E2succinate_off20.30501122
E2E2x52Shared11.514.451121
7x34E2x52succinate_off8.0501121
7x34E2Shared5.275.341122
7x347x38Shared13.8918.521121
7x357x38succinate_off5.63500021
3x294x65Shared4.3855.641012
1x392x61Shared2.423.630112
3x21E2succinate_off2.1100022
2x67Ligsuccinate_off0.4200010
3x33Ligsuccinate_on07.461110
E2x52Ligsuccinate_on08.351110
1x397x38succinate_on05.140111
1x397x42succinate_on08.7650111
2x533x32succinate_on07.9151021
2x533x36succinate_on04.871022
2x563x32succinate_on06.6350021
2x59E1x50succinate_on06.41021
3x25E1x50succinate_on07.840021
3x323x33succinate_on04.51111
4x574x61succinate_on05.710122
4x614x65succinate_on05.891122
7x38E2x52succinate_on05.9551111
1x427x42succinate_on04.080021
3x21E1x50succinate_on02.110021

Location and physicochemical properties of the interaction partners of this ligand

Interactions of this ligand

Difference Members
Id Description
succinate_off 6RNK-Succinate-NF-56-EJ40
6Z10-Succinate-PubChem 154585554
succinate_on 8YKW-Succinate-Succinic acid-Gi1/β1/γ1
8YKX-Succinate-Maleic acid-Gi1/β1/γ1
Network Difference
Value succinate_off succinate_on
Imin 4.46 4.26
Number of Linked Nodes 265 269
Number of Specific Nodes 10 (3.77%) 14  (5.20%)
Number of Shared Nodes 255 (96.23%) 255  (94.80%)
Number of Links 308 303
Number of Specific Links 140 (45.45%) 135  (44.55%)
Number of Shared Links 168 (54.55%) 168  (55.45%)
Number of Hubs 39 45
Number of Specific Hubs 13 (33.33%) 19  (42.22%)
Number of Shared Hubs 26 (66.67%) 26  (57.78%)
Average % Shared Neighbours (Jaccard) 40.08
Average % Shared Neighbours (Otsuka) 48.84
Average % Shared Neighbours (Overlap Coefficient) 57.22
Average % Shared Cliques (k3-6) 80.11
Graphlets Similarity 0.66341
Paths Difference
Value succinate_off succinate_on
Number Of Nodes in MetaPath 63 77
Specific Nodes in MetaPath 22 (34.92%) 36  (46.75%)
Shared Nodes in MetaPath 255 (96.23%) 255  (96.23%)
Number Of Links MetaPath 66 83
Specific Links in MetaPath 42 (63.64%) 59  (71.08%)
Shared Links in MetaPath 168 (54.55%) 168  (54.55%)
Number of Shortest Paths 52483 50746
Length Of Smallest Path 3 3
Average Path Length 14.1198 12.6816
Length of Longest Path 36 32
Minimum Path Strength 1.27 0.6175
Average Path Strength 8.21559 7.18724
Maximum Path Strength 22.4125 21.84
Minimum Path Correlation 0.7 0.7
Average Path Correlation 0.91028 0.922785
Maximum Path Correlation 0.99 0.99
Minimum % Of Corr. Nodes 3.84615 3.33333
Average % Of Corr. Nodes 42.3904 51.5669
Maximum % Of Corr. Nodes 100 100
Minimum Path Hubs % 0 0
Average Path Hubs % 46.9527 49.1463
Maximum Path Hubs % 100 100

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

You can download a compressed (zip) file with structure(s), 3D outputs (as PyMol and VMD scripts) and numerical data files (as csv and plain text files).

Download succinate_off_on.zip<



You can click to copy the link of this page to easily come back here later

or use this QR code to link and share this page.



You can also  read or  download a guide explaining the meaning of all files and numerical data.