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
1R:R:Y15 11.542514
2R:R:E19 8.315415
3R:R:L43 6.5425448
4R:R:F48 6.2475409
5R:R:L54 5.6475429
6R:R:D58 7.175429
7R:R:M66 4.14506
8R:R:F80 7.334583
9R:R:T87 4.7225414
10R:R:M90 5.76406
11R:R:L91 6.265414
12R:R:I92 5.99405
13R:R:F93 8.018506
14R:R:H95 5.474516
15R:R:R111 11.0725438
16R:R:L114 3.3375405
17R:R:Y118 8.64667638
18R:R:P145 6.675415
19R:R:M146 3.83405
20R:R:N150 5.1825485
21R:R:F168 11.885415
22R:R:M172 5.686514
23R:R:Y176 9.104516
24R:R:F182 8.0075405
25R:R:W185 7.48167615
26R:R:Y197 6.73629
27R:R:F239 8.47428
28R:R:W243 9.254528
29R:R:Y254 9.045404
30R:R:V259 3.5875494
31R:R:Y265 13.385404
32R:R:I268 8.495415
33R:R:H272 8.37417
34R:R:N274 7.8775429
35R:R:N278 8.5275429
36R:R:Y282 7.166529
37R:R:T292 7.075447
38L:L:?1 11.72810
   

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:I268 R:R:Y15 19.602612.09YesYes154
2R:R:G23 R:R:M66 11.74811.75NoYes066
3R:R:A26 R:R:G23 14.18171.95NoNo076
4R:R:A26 R:R:S275 15.4273.42NoNo079
5R:R:D58 R:R:S275 19.14274.42YesNo099
6R:R:D58 R:R:N278 19.8616.73YesYes299
7R:R:N274 R:R:N278 95.196710.9YesYes299
8R:R:N274 R:R:W243 91.18897.91YesYes298
9R:R:T94 R:R:W243 99.70133.64NoYes068
10R:R:H95 R:R:T94 1004.11YesNo066
11R:R:H95 R:R:L91 95.33775.14YesYes164
12R:R:L91 R:R:M172 51.75554.24YesYes144
13R:R:F168 R:R:M172 35.11687.46YesYes154
14L:L:?1 R:R:F168 41.222526.18YesYes105
15R:R:L91 R:R:Y176 37.906210.55YesYes146
16R:R:M177 R:R:Y176 38.66475.99NoYes156
17L:L:?1 R:R:M177 38.3195.52YesNo105
18L:L:?1 R:R:I268 30.112111.16YesYes105
19R:R:L269 R:R:V18 22.492611.92NoNo054
20R:R:E19 R:R:H272 10.563216YesYes157
21R:R:I22 R:R:V18 15.02083.07NoNo074
22R:R:F289 R:R:V36 10.741113.11NoNo088
23R:R:T292 R:R:V36 16.43064.76YesNo078
24R:R:L43 R:R:T292 20.56934.42YesYes487
25R:R:F48 R:R:L43 26.201713.4YesYes098
26R:R:F48 R:R:T47 29.4246.49YesNo098
27R:R:R111 R:R:T47 30.46796.47YesNo088
28R:R:D107 R:R:R111 34.458913.1NoYes398
29R:R:D107 R:R:F50 62.459711.94NoNo098
30R:R:F50 R:R:L131 64.17164.87NoNo087
31R:R:L131 R:R:S53 65.83656.01NoNo079
32R:R:S100 R:R:S53 66.65883.26NoNo079
33R:R:L54 R:R:S100 67.47456.01YesNo097
34R:R:L54 R:R:N278 56.08896.87YesYes299
35R:R:D107 R:R:Y118 27.23555.75NoYes398
36R:R:I104 R:R:L54 13.31234.28NoYes289
37R:R:T87 R:R:V171 15.47064.76YesNo045
38R:R:F80 R:R:V171 10.3357.87YesNo035
39R:R:L101 R:R:N278 22.95929.61NoYes089
40R:R:L101 R:R:Y282 21.90197.03NoYes089
41R:R:L102 R:R:V106 13.17472.98NoNo076
42R:R:L110 R:R:V106 14.30922.98NoNo056
43R:R:L110 R:R:L114 15.46724.15NoYes055
44R:R:L114 R:R:Y118 21.13993.52YesYes058
45R:R:L102 R:R:V192 12.04357.45NoNo076
46R:R:Y197 R:R:Y282 16.46423.97YesYes299
47R:R:I196 R:R:V192 10.86873.07NoNo066
48R:R:M174 R:R:N250 25.47335.61NoNo035
49L:L:?1 R:R:N250 26.661514.31YesNo005
50R:R:M174 R:R:R169 13.74198.69NoNo034
51R:R:L253 R:R:R169 12.46984.86NoNo044
52R:R:M174 R:R:Y254 10.96945.99NoYes034
53R:R:L232 R:R:Y197 13.681515.24NoYes089
54R:R:V235 R:R:Y282 10.731112.62NoYes289
55R:R:L232 R:R:T228 12.3022.95NoNo087
56R:R:V235 R:R:V281 10.03961.6NoNo088
57R:R:L253 R:R:V259 11.11374.47NoYes044
58L:L:?1 R:R:H272 11.85896.7YesYes107
59R:R:E19 R:R:L269 17.45435.3YesNo155
60R:R:M172 R:R:T87 15.45054.52YesYes144
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
R:R:E19 R:R:Y15 7.86 1 Yes Yes 5 4 2 2
R:R:I268 R:R:Y15 12.09 1 Yes Yes 5 4 1 2
R:R:E19 R:R:I268 4.1 1 Yes Yes 5 5 2 1
R:R:E19 R:R:H272 16 1 Yes Yes 5 7 2 1
R:R:M90 R:R:V65 9.13 0 Yes No 6 7 1 2
R:R:H272 R:R:V65 4.15 1 Yes No 7 7 1 2
R:R:L68 R:R:M90 4.24 0 No Yes 5 6 2 1
R:R:F168 R:R:T87 5.19 1 Yes Yes 5 4 1 2
R:R:M172 R:R:T87 4.52 1 Yes Yes 4 4 2 2
L:L:?1 R:R:M90 6.45 1 Yes Yes 0 6 0 1
R:R:F168 R:R:M172 7.46 1 Yes Yes 5 4 1 2
R:R:F168 R:R:M177 8.71 1 Yes No 5 5 1 1
L:L:?1 R:R:F168 26.18 1 Yes Yes 0 5 0 1
R:R:M172 R:R:Y176 7.18 1 Yes Yes 4 6 2 2
R:R:M174 R:R:N250 5.61 0 No No 3 5 2 1
R:R:M177 R:R:Y176 5.99 1 No Yes 5 6 1 2
L:L:?1 R:R:M177 5.52 1 Yes No 0 5 0 1
R:R:G267 R:R:L246 3.42 0 No No 6 6 2 1
L:L:?1 R:R:L246 13.52 1 Yes No 0 6 0 1
L:L:?1 R:R:N250 14.31 1 Yes No 0 5 0 1
R:R:L264 R:R:Q261 9.32 0 No No 4 2 1 2
L:L:?1 R:R:L264 9.92 1 Yes No 0 4 0 1
R:R:H272 R:R:I268 6.63 1 Yes Yes 7 5 1 1
L:L:?1 R:R:I268 11.16 1 Yes Yes 0 5 0 1
L:L:?1 R:R:H272 6.7 1 Yes Yes 0 7 0 1
R:R:A69 R:R:M90 3.22 0 No Yes 6 6 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 8YH3_nogp
Class
SubFamily
Type
SubType
Species
Ligand
Other Ligand(s)
Protein Partners
PDB Resolution
Date
D.O.I.
Net Summary
Imin 3.26
Number of Linked Nodes 250
Number of Links 282
Number of Hubs 38
Number of Links mediated by Hubs 137
Number of Communities 10
Number of Nodes involved in Communities 54
Number of Links involved in Communities 71
Path Summary
Number Of Nodes in MetaPath 61
Number Of Links MetaPath 60
Number of Shortest Paths 49871
Length Of Smallest Path 3
Average Path Length 16.0263
Length of Longest Path 36
Minimum Path Strength 1.505
Average Path Strength 6.86067
Maximum Path Strength 22.985
Minimum Path Correlation 0.7
Average Path Correlation 0.926881
Maximum Path Correlation 0.99
Minimum % Of Corr. Nodes 3.44828
Average % Of Corr. Nodes 44.6629
Maximum % Of Corr. Nodes 100
Minimum Path Hubs % 0
Average Path Hubs % 47.9131
Maximum Path Hubs % 100
AnnotationTypeLinks
Gene OntologyMolecular Function• protein-containing complex binding   • binding   • protein binding   • enzyme binding   • GTPase binding   • pyrophosphatase activity   • GTPase activity   • ribonucleoside triphosphate phosphatase activity   • hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides   • hydrolase activity   • hydrolase activity, acting on acid anhydrides   • catalytic activity   • signaling receptor complex adaptor activity   • protein-macromolecule adaptor activity   • molecular adaptor activity   • signaling adaptor activity   • cellular response to stimulus   • regulation of biological process   • regulation of cellular process   • response to stimulus   • signaling   • biological regulation   • phospholipase C-activating G protein-coupled receptor signaling pathway   • cell communication   • G protein-coupled receptor signaling pathway   • cellular process   • signal transduction   • multicellular organismal process   • system process   • sensory perception of chemical stimulus
Gene OntologyBiological Process• cellular response to stimulus   • regulation of biological process   • regulation of cellular process   • response to stimulus   • signaling   • biological regulation   • phospholipase C-activating G protein-coupled receptor signaling pathway   • cell communication   • G protein-coupled receptor signaling pathway   • cellular process   • signal transduction   • multicellular organismal process   • system process   • sensory perception of chemical stimulus   • sensory perception   • nervous system process   • sensory perception of taste   • developmental process   • sensory organ development   • eye development   • animal organ development   • retina development in camera-type eye   • visual system development   • multicellular organism development   • camera-type eye development   • anatomical structure development   • sensory system development   • system development   • cell population proliferation   • cellular response to nitrogen compound   • response to dopamine   • cellular response to dopamine   • response to monoamine   • response to catecholamine   • adenylate cyclase-activating dopamine receptor signaling pathway   • cellular response to catecholamine stimulus   • G protein-coupled dopamine receptor signaling pathway   • response to oxygen-containing compound   • response to nitrogen compound   • adenylate cyclase-activating G protein-coupled receptor signaling pathway   • cellular response to oxygen-containing compound   • cellular response to chemical stimulus   • cellular response to monoamine stimulus   • response to chemical   • adenylate cyclase-modulating G protein-coupled receptor signaling pathway   • response to ketone   • response to prostaglandin   • response to lipid   • response to endogenous stimulus   • response to alcohol   • cellular response to prostaglandin stimulus   • cellular response to endogenous stimulus   • cellular response to prostaglandin E stimulus   • cellular response to alcohol   • response to hormone   • cellular response to lipid   • response to prostaglandin E   • cellular response to ketone   • cellular response to hormone stimulus   • cellular anatomical structure   • membrane   • protein-containing complex   • extrinsic component of plasma membrane   • catalytic complex   • plasma membrane protein complex   • cytoplasmic side of membrane   • plasma membrane   • membrane protein complex   • heterotrimeric G-protein complex   • side of membrane   • cell periphery   • cytoplasmic side of plasma membrane   • GTPase complex
Gene OntologyCellular Component• cellular anatomical structure   • membrane   • protein-containing complex   • extrinsic component of plasma membrane   • catalytic complex   • plasma membrane protein complex   • cytoplasmic side of membrane   • plasma membrane   • membrane protein complex   • heterotrimeric G-protein complex   • side of membrane   • cell periphery   • cytoplasmic side of plasma membrane   • GTPase complex   • extrinsic component of membrane   • extrinsic component of cytoplasmic side of plasma membrane   • membrane-bounded organelle   • non-motile cilium   • 9+0 non-motile cilium   • cilium   • neuron projection   • photoreceptor disc membrane   • photoreceptor outer segment   • plasma membrane bounded cell projection   • cell projection   • photoreceptor cell cilium   • organelle   • organelle membrane   • synapse   • cell junction   • intracellular anatomical structure   • cytoplasm   • molecular transducer activity   • G protein-coupled receptor activity   • transmembrane signaling receptor activity   • signaling receptor activity   • G protein-coupled adenosine receptor activity   • identical protein binding   • protein binding   • binding   • host cell surface binding   • host cell surface receptor binding   • bioluminescence   • metabolic process   • cellular process   • generation of precursor metabolites and energy   • viral process   • fusion of virus membrane with host endosome membrane   • membrane fusion involved in viral entry into host cell   • membrane organization   • cellular component organization   • membrane fusion   • fusion of virus membrane with host plasma membrane   • cellular component organization or biogenesis   • virion attachment to host cell   • biological process involved in interspecies interaction between organisms   • adhesion of symbiont to host cell   • viral life cycle   • adhesion of symbiont to host   • biological process involved in interaction with host   • biological process involved in symbiotic interaction   • non-lytic viral release   • viral budding   • virion assembly   • exit from host cell   • viral budding from plasma membrane   • viral release from host cell   • import into cell   • receptor-mediated endocytosis of virus by host cell   • transport   • establishment of localization   • vesicle-mediated transport   • localization   • symbiont entry into host cell   • clathrin-dependent endocytosis   • symbiont entry into host   • clathrin-dependent endocytosis of virus by host cell   • receptor-mediated endocytosis   • endocytosis   • endocytosis involved in viral entry into host cell   • somatodendritic compartment   • dendrite   • dendritic tree   • virion component   • virion membrane   • viral membrane   • viral envelope   • host cell plasma membrane   • host cellular component   • host cell part   • host cell membrane   • cation binding   • magnesium ion binding   • ion binding   • metal ion binding   • small molecule binding   • guanyl nucleotide binding   • nucleotide binding   • GDP binding   • guanyl ribonucleotide binding   • purine ribonucleotide binding   • nucleoside phosphate binding   • purine nucleotide binding   • anion binding   • heterocyclic compound binding   • carbohydrate derivative binding   • ribonucleotide binding   • G protein-coupled serotonin receptor binding   • signaling receptor binding   • G protein-coupled receptor binding   • protein-containing complex binding   • G-protein beta/gamma-subunit complex binding   • GTP binding   • purine ribonucleoside triphosphate binding   • pyrophosphatase activity   • GTPase activity   • ribonucleoside triphosphate phosphatase activity   • hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides   • hydrolase activity   • hydrolase activity, acting on acid anhydrides   • catalytic activity   • G-protein beta-subunit binding   • regulation of cytoskeleton organization   • regulation of cellular component organization   • regulation of cellular process   • microtubule cytoskeleton organization   • regulation of mitotic spindle organization   • mitotic cell cycle   • cell cycle   • regulation of cell cycle   • microtubule cytoskeleton organization involved in mitosis   • spindle organization   • cell cycle process   • regulation of biological process   • regulation of cell cycle process   • biological regulation   • regulation of microtubule-based process   • regulation of spindle organization   • regulation of organelle organization   • mitotic spindle organization   • organelle organization   • mitotic cell cycle process   • microtubule-based process   • cytoskeleton organization   • regulation of microtubule cytoskeleton organization   • protein localization   • positive regulation of protein localization to cell periphery   • regulation of localization   • protein localization to cell periphery   • cellular localization   • regulation of protein localization   • positive regulation of biological process   • positive regulation of protein localization to cell cortex   • regulation of protein localization to cell periphery   • regulation of cellular localization   • regulation of protein localization to cell cortex   • cellular macromolecule localization   • macromolecule localization   • positive regulation of protein localization   • protein localization to cell cortex   • positive regulation of cellular process   • cell division   • cellular response to stimulus   • response to stimulus   • signaling   • G protein-coupled receptor signaling pathway   • signal transduction   • cell communication   • adenylate cyclase-modulating G protein-coupled receptor signaling pathway   • response to ketone   • response to lipid   • response to alcohol   • cellular response to forskolin   • response to oxygen-containing compound   • cellular response to oxygen-containing compound   • cellular response to chemical stimulus   • cellular response to alcohol   • response to chemical   • response to forskolin   • cellular response to lipid   • cellular response to ketone   • fibroblast proliferation   • cell population proliferation   • cellular response to nitrogen compound   • response to dopamine   • cellular response to dopamine   • response to monoamine   • response to catecholamine   • adenylate cyclase-activating dopamine receptor signaling pathway   • cellular response to catecholamine stimulus   • G protein-coupled dopamine receptor signaling pathway   • response to nitrogen compound   • adenylate cyclase-activating G protein-coupled receptor signaling pathway   • cellular response to monoamine stimulus   • response to prostaglandin   • response to endogenous stimulus   • cellular response to prostaglandin stimulus   • cellular response to endogenous stimulus   • cellular response to prostaglandin E stimulus   • response to hormone   • response to prostaglandin E   • cellular response to hormone stimulus   • midbody   • cell cortex   • intracellular organelle   • centrosome   • microtubule organizing center   • cytoskeleton   • membraneless organelle   • intracellular membraneless organelle   • microtubule cytoskeleton   • nucleus   • intracellular membrane-bounded organelle   • extracellular exosome   • extracellular vesicle   • extracellular organelle   • extracellular region   • extracellular space   • vesicle   • extracellular membrane-bounded organelle
SCOP2Domain Identifier• WD40 repeat-like   • Transducin (heterotrimeric G protein), gamma chain
SCOP2Family Identifier• WD40 repeat-like   • 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 .
Code6MD
PDB ResiduesL:L:?1
Environment DetailsOpen EMBL-EBI Page
Code6MD
NameN-methyladenosine
Synonyms
Identifier
FormulaC11 H15 N5 O4
Molecular Weight281.268
SMILES
PubChem102175
Formal Charge0
Total Atoms35
Total Chiral Atoms4
Total Bonds37
Total Aromatic Bonds10

PDBsumOpen PDBsum Page
ChainR
ProteinReceptor
UniProtP0DMS8
Sequence
>8YH3_nogp_Chain_R
SVTYITEII GLCAIVGNV LVIVVKLNP SLQTTTFYF IVSLALADI 
AVGVLVMPL AIVSLGTIH FYSCLFMTC LLIFTHASI MSLLAIAVD 
RYLRVKLTV RYRVTTRRI WLALGLCWL VSFLVGLTP MFGWNMKLS 
NTFLCFSVM RMDYMVYFS FWIPLVVMC AIYDIFYII RNLEFKTAK 
SLLVLFLFA LWLPLSIIN CIYFGVPQV LYGILLSHA NSMMNPIVY 
AYKIKKFKE TYLLIWTSV LWIVMRQSA DELPRRFLL VFRLCLDQT 
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
8YH6ANucleotideAdenosineA3AHomo sapiensNamodenoson-Gi1/β1/γ23.622024-11-06doi.org/10.1038/s41467-024-53473-1
8YH6 (No Gprot) ANucleotideAdenosineA3AHomo sapiensNamodenoson-3.622024-11-06doi.org/10.1038/s41467-024-53473-1
8YH5ANucleotideAdenosineA3AHomo sapiensRiboprine-Gi1/β1/γ23.662024-11-06doi.org/10.1038/s41467-024-53473-1
8YH5 (No Gprot) ANucleotideAdenosineA3AHomo sapiensRiboprine-3.662024-11-06doi.org/10.1038/s41467-024-53473-1
8YH3ANucleotideAdenosineA3AHomo sapiensN-methyladenosine-Gi1/β1/γ23.42024-11-06doi.org/10.1038/s41467-024-53473-1
8YH3 (No Gprot) ANucleotideAdenosineA3AHomo sapiensN-methyladenosine-3.42024-11-06doi.org/10.1038/s41467-024-53473-1
8YH2ANucleotideAdenosineA3AHomo sapiensAdenosine-Gi1/β1/γ23.272024-11-06doi.org/10.1038/s41467-024-53473-1
8YH2 (No Gprot) ANucleotideAdenosineA3AHomo sapiensAdenosine-3.272024-11-06doi.org/10.1038/s41467-024-53473-1
8YH0ANucleotideAdenosineA3AHomo sapiensNECA-Gi1/β1/γ22.862024-11-06doi.org/10.1038/s41467-024-53473-1
8YH0 (No Gprot) ANucleotideAdenosineA3AHomo sapiensNECA-2.862024-11-06doi.org/10.1038/s41467-024-53473-1
8X17ANucleotideAdenosineA3AHomo sapiensNamodenoson-Gi1/β1/γ23.192024-04-2410.1038/s41467-024-47207-6
8X17 (No Gprot) ANucleotideAdenosineA3AHomo sapiensNamodenoson-3.192024-04-2410.1038/s41467-024-47207-6
8X16ANucleotideAdenosineA3AHomo sapiensPiclidenoson-Gi1/β1/γ23.292024-04-2410.1038/s41467-024-47207-6
8X16 (No Gprot) ANucleotideAdenosineA3AHomo sapiensPiclidenoson-3.292024-04-2410.1038/s41467-024-47207-6




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 8YH3_nogp.zip



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