Color ConSurf Grade
      No Conservation data available
      1
      2
      3
      4
      5
      6
      7
      8
      9

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

Hub: the hub being considered.

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

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

Community: the id of the community the link belong to, otherwise 0.

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

Index Hub Avg Int. Strength Num Of Links Community ConSurf
1L:L:?1 6.811671210
2R:R:E50 4.7825414
3R:R:L53 4.5875405
4R:R:T58 3.765405
5R:R:Y61 7.7925408
6R:R:F79 8.435406
7R:R:Y92 7.508547
8R:R:R110 11.5625417
9R:R:H114 6.85415
10R:R:Y135 6.634515
11R:R:M138 5.088517
12R:R:R152 5.77429
13R:R:F186 4.24507
14R:R:F205 7.91504
15R:R:Y207 7.76667613
16R:R:E216 3.2375403
17R:R:F227 13.8725418
18R:R:F231 5.2175407
19R:R:Y238 7.395608
20R:R:L245 1.8475408
21R:R:F279 7.50667618
22R:R:Y282 7.375816
23R:R:H283 15.2175418
24R:R:R286 8.57333616
25R:R:Y289 8.50833614
26R:R:Q293 7.3675414
27R:R:E303 6.565411
28R:R:H306 5.975414
29R:R:N309 8.315415
30R:R:E310 6.52415
31R:R:L313 5.015415
32R:R:P324 5.195409
33R:R:Y327 8.465439
34R:R:I334 6.6875438
   

Color ConSurf Grade
      No Conservation data available
      1
      2
      3
      4
      5
      6
      7
      8
      9

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.

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

Int. Strength: the interaction strength between the two nodes.

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

Community: the id of the community the link belong to, otherwise 0.

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

Index Node1 Node2 Recurrence Int. Strength Hub1? Hub2? Community ConSurf1 ConSurf2
1R:R:Y207 R:R:Y289 25.03435.96YesYes134
2R:R:H306 R:R:Y207 17.13825.44YesYes143
3L:L:?1 R:R:F205 19.5934.76YesYes004
4R:R:K307 R:R:L53 10.927711.28NoYes035
5L:L:?1 R:R:Y135 19.387312.21YesYes105
6R:R:L313 R:R:Y61 17.98944.69YesYes058
7R:R:R110 R:R:Y61 11.006315.43YesYes078
8R:R:S317 R:R:Y61 11.51636.36NoYes078
9R:R:I64 R:R:S317 10.79233.1NoNo077
10R:R:C321 R:R:I64 10.06996.55NoNo077
11R:R:F134 R:R:Y135 12.66686.19NoYes175
12R:R:F134 R:R:L103 20.76027.31NoNo077
13R:R:L103 R:R:S320 13.80723NoNo078
14R:R:D100 R:R:S320 12.807311.78NoNo098
15R:R:Y135 R:R:Y282 23.23845.96YesYes156
16R:R:M138 R:R:Y282 52.58194.79YesYes176
17R:R:F279 R:R:M138 59.45293.73YesYes187
18R:R:F275 R:R:F279 1009.65NoYes098
19R:R:F275 R:R:I234 94.62398.79NoNo098
20R:R:I234 R:R:S149 92.694210.84NoNo089
21R:R:S149 R:R:Y238 91.724412.72NoYes098
22R:R:R152 R:R:Y238 61.34918.23YesYes098
23R:R:I148 R:R:R152 46.09547.52NoYes099
24R:R:I148 R:R:L93 28.93884.28NoNo098
25R:R:F79 R:R:L93 27.76837.31YesNo068
26R:R:F79 R:R:Y327 19.392313.41YesYes069
27L:L:?1 R:R:R286 15.22866.33YesYes106
28R:R:R286 R:R:Y282 34.888512.35YesYes166
29L:L:?1 R:R:N309 14.88916.26YesYes105
30R:R:N309 R:R:Y282 33.31495.81YesYes156
31R:R:S316 R:R:Y282 52.44315.09NoYes176
32R:R:F279 R:R:S316 52.12535.28YesNo187
33R:R:I148 R:R:Y92 17.15833.63NoYes097
34R:R:I89 R:R:R152 14.64673.76NoYes279
35R:R:I89 R:R:K155 13.52965.82NoNo278
36R:R:C204 R:R:F205 11.20036.98NoYes094
37L:L:?1 R:R:K128 11.40936.43YesNo108
38L:L:?1 R:R:M136 13.09999.2YesNo005
39R:R:F186 R:R:M136 11.49294.98YesNo075
40R:R:S268 R:R:Y238 10.95453.82NoYes078
41R:R:R286 R:R:Y289 20.355517.49YesYes164
42R:R:L313 R:R:Y282 23.50767.03YesYes156
43R:R:N309 R:R:Y289 18.139913.96YesYes154
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.

ConSurf Conservation Grade (See documentation): 

 n/a   1    2    3    4    5    6    7    8    9  

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.


Links and nodes colored according to ConSurf Conservation Grade (See documentation): 

 n/a   1    2    3    4    5    6    7    8    9  

Node1 Node2 LinkStrength Comm IsNode1Hub? IsNode2Hub? Node1Cons Node2Cons Node1Shell Node2Shell
L:L:?1 R:R:K128 6.43 1 Yes No 0 8 0 1
L:L:?1 R:R:Y135 12.21 1 Yes Yes 0 5 0 1
L:L:?1 R:R:M136 9.2 1 Yes No 0 5 0 1
L:L:?1 R:R:T193 4.8 1 Yes No 0 5 0 1
L:L:?1 R:R:F205 4.76 1 Yes Yes 0 4 0 1
L:L:?1 R:R:F219 7.14 1 Yes No 0 5 0 1
L:L:?1 R:R:N220 10.73 1 Yes No 0 4 0 1
L:L:?1 R:R:L223 6.31 1 Yes No 0 5 0 1
L:L:?1 R:R:R286 6.33 1 Yes Yes 0 6 0 1
L:L:?1 R:R:Y289 5.34 1 Yes Yes 0 4 0 1
L:L:?1 R:R:N309 6.26 1 Yes Yes 0 5 0 1
R:R:F205 R:R:R110 17.1 0 Yes Yes 4 7 1 2
R:R:F205 R:R:Y113 6.19 0 Yes No 4 5 1 2
R:R:K128 R:R:T193 4.5 1 No No 8 5 1 1
R:R:K128 R:R:L194 5.64 1 No No 8 4 1 2
R:R:F205 R:R:G131 4.52 0 Yes No 4 6 1 2
R:R:F134 R:R:Y135 6.19 1 No Yes 7 5 2 1
R:R:F134 R:R:L313 3.65 1 No Yes 7 5 2 2
R:R:Y135 R:R:Y282 5.96 1 Yes Yes 5 6 1 2
R:R:R286 R:R:Y135 4.12 1 Yes Yes 6 5 1 1
R:R:L313 R:R:Y135 4.69 1 Yes Yes 5 5 2 1
R:R:F186 R:R:M136 4.98 0 Yes No 7 5 2 1
R:R:L223 R:R:Y139 17.58 0 No No 5 7 1 2
R:R:E216 R:R:M189 4.06 0 Yes No 3 4 2 2
R:R:F219 R:R:M189 8.71 0 No No 5 4 1 2
R:R:E216 R:R:T193 4.23 0 Yes No 3 5 2 1
R:R:C204 R:R:F205 6.98 5 No Yes 9 4 2 1
R:R:Y207 R:R:Y289 5.96 1 Yes Yes 3 4 2 1
R:R:Q293 R:R:Y207 12.4 1 Yes Yes 4 3 2 2
R:R:R286 R:R:V224 3.92 1 Yes No 6 4 1 2
R:R:R286 R:R:Y282 12.35 1 Yes Yes 6 6 1 2
R:R:N309 R:R:Y282 5.81 1 Yes Yes 5 6 1 2
R:R:L313 R:R:Y282 7.03 1 Yes Yes 5 6 2 2
R:R:R286 R:R:Y289 17.49 1 Yes Yes 6 4 1 1
R:R:N309 R:R:R286 7.23 1 Yes Yes 5 6 1 1
R:R:Q293 R:R:Y289 4.51 1 Yes Yes 4 4 2 1
R:R:V305 R:R:Y289 3.79 0 No Yes 4 4 2 1
R:R:N309 R:R:Y289 13.96 1 Yes Yes 5 4 1 1
R:R:I290 R:R:N220 2.83 0 No No 5 4 2 1
L:L:?1 R:R:G185 2.23 1 Yes No 0 4 0 1
R:R:G184 R:R:G185 2.11 0 No No 3 4 2 1

Location and physicochemical properties of the interaction partners of this ligand

Interactions of this ligand

Similarities between the interactions of this ligand and those of other networks

PDB Summary
PDB 8XBE_nogp
Class
SubFamily
Type
SubType
Species
Ligand
Other Ligand(s)
Protein Partners
PDB Resolution
Date
D.O.I.
Net Summary
Imin 3.53
Number of Linked Nodes 281
Number of Links 307
Number of Hubs 34
Number of Links mediated by Hubs 125
Number of Communities 5
Number of Nodes involved in Communities 43
Number of Links involved in Communities 64
Path Summary
Number Of Nodes in MetaPath 44
Number Of Links MetaPath 43
Number of Shortest Paths 92715
Length Of Smallest Path 3
Average Path Length 14.2244
Length of Longest Path 28
Minimum Path Strength 1.265
Average Path Strength 7.15827
Maximum Path Strength 24.655
Minimum Path Correlation 0.7
Average Path Correlation 0.937869
Maximum Path Correlation 0.99
Minimum % Of Corr. Nodes 5
Average % Of Corr. Nodes 50.7614
Maximum % Of Corr. Nodes 100
Minimum Path Hubs % 0
Average Path Hubs % 44.3805
Maximum Path Hubs % 100
AnnotationTypeLinks
Gene OntologyMolecular Function
Gene OntologyBiological Process
Gene OntologyCellular Component
SCOP2Domain Identifier• Ras-like P-loop GTPases   • Transducin (heterotrimeric G protein), gamma chain
SCOP2Family Identifier• Ras-like P-loop GTPases   • Transducin (heterotrimeric G protein), gamma chain
Membrane Protein Annotations-• Orientations of Proteins in Membranes database (OPM)   • Protein Data Bank of Transmembrane Proteins (PDBTM)   • MemProtMD


Details about the values in these tables can be found in the corresponding documentation page .
CodeKW0
PDB ResiduesL:L:?1
Environment DetailsOpen EMBL-EBI Page
CodeKW0
Name(2~{S})-2-azanyl-3-[[(2~{R})-1-ethoxy-3-[(~{Z})-octadec-9-enoyl]oxy-propan-2-yl]oxy-oxidanyl-phosphoryl]oxy-propanoic acid
Synonyms
Identifier
FormulaC26 H50 N O9 P
Molecular Weight551.65
SMILES
PubChem118584207
Formal Charge0
Total Atoms87
Total Chiral Atoms2
Total Bonds86
Total Aromatic Bonds0

PDBsumOpen PDBsum Page
ChainR
ProteinReceptor
UniProtQ9UPC5
Sequence
>8XBE_nogp_Chain_R
TCPMDEKLL STVLTTSYS VIFIVGLVG NIIALYVFL GIHRKRNSI 
QIYLLNVAI ADLLLIFCL PFRIMYHIN QNKWTLGVI LCKVVGTLF 
YMNMYISII LLGFISLDR YIKINRSIQ QRKAITTKQ SIYVCCIVW 
MLALGGFLT MIILTLKKG GHNSTMCFH YRDKHNAKG EAIFNFILV 
VMFWLIFLL IILSYIKIG KNLLRISKR RSKFPNSGK YATTARNSF 
IVLIIFTIC FVPYHAFRF IYISSQLNV SSCYWKEIV HKTNEIMLV 
LSSFNSCLD PVMYFLMSS NIRKIMCQL L


Click on each residue to open a popup with some information about it.

ConSurf Conservation Grade (See documentation): 

 n/a   1    2    3    4    5    6    7    8    9  




This receptor, from the same or other species and bound to the same or other ligands, is also present in the following networks:
Show PDB Class SubFamily Type SubType Species Orthosteric Ligand Other Ligand(s) Protein Partners Resolution Date DOI
8XBGAOrphanOrphanGPR34Homo sapiensS3E-LysoPS--3.432024-05-1510.1038/s41467-024-45046-z
8XBEAOrphanOrphanGPR34Homo sapiensS3E-LysoPS-Gi1/β1/γ13.42024-05-1510.1038/s41467-024-45046-z
8XBE (No Gprot) AOrphanOrphanGPR34Homo sapiensS3E-LysoPS-3.42024-05-1510.1038/s41467-024-45046-z
8IZ4AOrphanOrphanGPR34Homo sapiensLysophosphatidylserine-Gi1/β1/γ22.942024-04-10To be published
8IZ4 (No Gprot) AOrphanOrphanGPR34Homo sapiensLysophosphatidylserine-2.942024-04-10To be published
8IYXAOrphanOrphanGPR34Homo sapiensYL-365--3.342024-03-2010.1073/pnas.2308435120
8XBIAOrphanOrphanGPR34Homo sapiensS3E-LysoPS--3.062023-12-27To be published
8XBHAOrphanOrphanGPR34Homo sapiensS3E-LysoPS-Gi1/β1/γ22.832023-12-27To be published
8XBH (No Gprot) AOrphanOrphanGPR34Homo sapiensS3E-LysoPS-2.832023-12-27To be published
8WRBAOrphanOrphanGPR34Homo sapiensLysophosphatidylserine-Gi1/β1/γ22.912023-11-0810.1371/journal.pbio.3002387
8WRB (No Gprot) AOrphanOrphanGPR34Homo sapiensLysophosphatidylserine-2.912023-11-0810.1371/journal.pbio.3002387
8K4NAOrphanOrphanGPR34Homo sapiensVF0-Gi1/β1/γ22.832023-10-25To be published
8K4N (No Gprot) AOrphanOrphanGPR34Homo sapiensVF0-2.832023-10-25To be published
8SAIAOrphanOrphanGPR34Homo sapiens1-Oleoyl-2-Hydroxy-Sn-Glycero-3-Phospho-L-Serine-Gi1/β1/γ23.272023-10-0410.1073/pnas.2308435120
8SAI (No Gprot) AOrphanOrphanGPR34Homo sapiens1-Oleoyl-2-Hydroxy-Sn-Glycero-3-Phospho-L-Serine-3.272023-10-0410.1073/pnas.2308435120




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 8XBE_nogp.zip



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