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:Y1 8.424500
2L:L:?2 10.086500
3R:R:Y56 7.018537
4R:R:N67 6.08409
5R:R:Y77 9.3375405
6R:R:I86 4.782506
7R:R:Y87 7.93677
8R:R:F89 5.9775406
9R:R:L91 6.502519
10R:R:D95 8.124519
11R:R:T101 3.9457
12R:R:L102 7.315407
13R:R:Q105 6.03455
14R:R:W114 8.625688
15R:R:F116 10.6507
16R:R:Y130 11.5671725
17R:R:N131 5.92528
18R:R:F133 5.5875407
19R:R:T134 7.7425428
20R:R:M141 6.105477
21R:R:Y147 7.295408
22R:R:H152 3.8825406
23R:R:R160 6.564506
24R:R:W173 8.634529
25R:R:R190 8.2375493
26R:R:F202 7.31606
27R:R:K214 7.83405
28R:R:F218 7.425415
29R:R:Y233 5.71167618
30R:R:K252 2.095402
31R:R:F270 7.795419
32R:R:W274 9.10833618
33R:R:H278 6.8425417
34R:R:F280 5.135405
35R:R:I289 3.65441
36R:R:R291 8.7525441
37R:R:D293 5.82403
38R:R:H301 9.352534
39R:R:I304 6.66435
40R:R:Y308 8.44557
41R:R:N310 8.6075419
42R:R:N314 8.1825419
43R:R:L317 2.225408
44R:R:Y318 6.60167619
45R:R:F325 8.864568
46W:W:?1 10.7311020
   

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
1L:L:?2 L:L:Y1 35.749316.69YesYes000
2L:L:Y1 R:R:M132 50.74658.38YesNo008
3L:L:?2 R:R:I304 64.3678.71YesYes005
4R:R:I304 R:R:Y56 58.08079.67YesYes357
5R:R:L102 R:R:Y56 50.58215.86YesYes077
6R:R:L102 R:R:Y308 41.389414.07YesYes077
7L:L:?2 L:L:?5 11.406612.26YesNo000
8L:L:?2 R:R:I277 36.89865.81YesNo005
9R:R:M132 R:R:W274 52.58015.82NoYes088
10R:R:N310 R:R:W274 96.857713.56YesYes198
11R:R:N310 R:R:N314 1008.17YesYes199
12R:R:H278 R:R:I277 42.61853.98YesNo075
13R:R:H278 R:R:W274 46.40515.29YesYes178
14R:R:L91 R:R:N314 48.00458.24YesYes199
15R:R:L91 R:R:Y318 50.26324.69YesYes199
16R:R:M142 R:R:Y318 75.91977.18NoYes099
17R:R:I88 R:R:M142 24.75964.37NoNo089
18R:R:F325 R:R:I88 23.86945.02YesNo088
19R:R:L139 R:R:N314 47.65418.24NoYes189
20R:R:L139 R:R:Y318 47.4784.69NoYes189
21R:R:M142 R:R:Y87 54.37714.79NoYes097
22R:R:N169 R:R:Y87 27.038210.47NoYes077
23R:R:I168 R:R:Y87 14.99397.25NoYes757
24R:R:N169 R:R:N90 20.449819.07NoNo079
25R:R:N90 R:R:W173 19.55125.65NoYes099
26R:R:T101 R:R:Y308 34.04694.99YesYes577
27R:R:T101 R:R:V124 32.04074.76YesNo075
28R:R:V124 R:R:W114 24.32786.13NoYes058
29R:R:C121 R:R:W114 15.90245.22NoYes898
30R:R:C121 R:R:T189 14.80963.38NoNo094
31R:R:E118 R:R:T189 10.312111.29NoNo044
32R:R:Y233 R:R:Y318 24.99544.96YesYes189
33R:R:F159 R:R:I168 14.22663.77NoNo035
34R:R:F159 R:R:I148 13.38967.54NoNo035
35R:R:H152 R:R:I148 12.44793.98YesNo065
36R:R:V263 R:R:Y233 12.24536.31NoYes078
37R:R:L237 R:R:V263 11.313510.43NoNo057
38R:R:L237 R:R:T260 10.381810.32NoNo057
39R:R:D322 R:R:F325 11.278719.11NoYes088
40R:R:D322 R:R:N324 10.34866.73NoNo087
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:Y1 R:R:Y129 6.95 0 Yes No 0 5 0 1
L:L:Y1 R:R:M132 8.38 0 Yes No 0 8 0 1
L:L:Y1 R:R:V217 6.31 0 Yes No 0 5 0 1
L:L:Y1 R:R:V281 3.79 0 Yes No 0 6 0 1
L:L:?2 R:R:I277 5.81 0 Yes No 0 5 0 1
L:L:?2 R:R:I304 8.71 0 Yes Yes 0 5 0 1
L:L:F4 R:R:Q105 4.68 0 No Yes 0 5 0 1
L:L:F4 R:R:K108 4.96 0 No No 0 4 0 1
L:L:F4 R:R:L125 14.61 0 No No 0 5 0 1
L:L:?5 R:R:K214 11.05 0 No Yes 0 5 0 1
L:L:?5 R:R:W284 18.84 0 No No 0 4 0 1
R:R:H301 R:R:Y56 13.07 3 Yes Yes 4 7 2 2
R:R:I304 R:R:Y56 9.67 3 Yes Yes 5 7 1 2
R:R:Q105 R:R:T101 4.25 5 Yes Yes 5 7 1 2
R:R:T101 R:R:Y308 4.99 5 Yes Yes 7 7 2 2
R:R:D128 R:R:Q105 3.92 5 No Yes 5 5 2 1
R:R:Q105 R:R:Y308 11.27 5 Yes Yes 5 7 1 2
R:R:K108 R:R:W114 5.8 0 No Yes 4 8 1 2
R:R:D128 R:R:Y308 9.2 5 No Yes 5 7 2 2
R:R:I183 R:R:Y129 10.88 0 No No 4 5 2 1
R:R:F133 R:R:M132 3.73 0 Yes No 7 8 2 1
R:R:M132 R:R:W274 5.82 0 No Yes 8 8 1 2
R:R:D210 R:R:K214 9.68 0 No Yes 4 5 2 1
R:R:K214 R:R:V281 7.59 0 Yes No 5 6 1 1
R:R:H278 R:R:W274 5.29 1 Yes Yes 7 8 2 2
R:R:H278 R:R:I277 3.98 1 Yes No 7 5 2 1
R:R:C303 R:R:I277 4.91 0 No No 6 5 2 1
R:R:I289 R:R:W284 4.7 4 Yes No 1 4 2 1
R:R:R291 R:R:W284 28.99 4 Yes No 1 4 2 1
R:R:I289 R:R:R291 3.76 4 Yes Yes 1 1 2 2
R:R:I304 R:R:L300 4.28 3 Yes No 5 5 1 2
R:R:H301 R:R:I304 3.98 3 Yes Yes 4 5 2 1
R:R:K214 R:R:T285 3 0 Yes No 5 4 1 2

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

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:N90 R:R:W173 5.65 0 No Yes 9 9 2 1
R:R:L93 R:R:L97 4.15 0 No No 6 7 2 2
R:R:L93 R:R:W173 6.83 0 No Yes 6 9 2 1
R:R:L97 R:R:N131 10.98 0 No Yes 7 8 2 1
R:R:L119 W:W:?1 5.92 0 No Yes 3 0 1 0
R:R:A187 R:R:K122 4.82 0 No No 4 7 2 1
R:R:A123 W:W:?1 8.99 0 No Yes 4 0 1 0
R:R:M184 R:R:S126 10.73 2 No No 4 6 1 1
R:R:S126 W:W:?1 5.36 2 No Yes 6 0 1 0
R:R:I127 R:R:N131 5.66 2 No Yes 5 8 1 1
R:R:I127 W:W:?1 7.13 2 No Yes 5 0 1 0
R:R:N131 R:R:Y130 4.65 2 Yes Yes 8 5 1 1
R:R:T134 R:R:Y130 6.24 2 Yes Yes 8 5 2 1
R:R:W173 R:R:Y130 9.65 2 Yes Yes 9 5 1 1
R:R:S177 R:R:Y130 6.36 2 No Yes 4 5 1 1
R:R:Y130 W:W:?1 48.5 2 Yes Yes 5 0 1 0
R:R:N131 R:R:T134 4.39 2 Yes Yes 8 8 1 2
R:R:N131 W:W:?1 3.92 2 Yes Yes 8 0 1 0
R:R:T134 R:R:W173 16.98 2 Yes Yes 8 9 2 1
R:R:W173 W:W:?1 4.06 2 Yes Yes 9 0 1 0
R:R:S177 W:W:?1 4.28 2 No Yes 4 0 1 0
R:R:M184 W:W:?1 16.13 2 No Yes 4 0 1 0
R:R:K122 W:W:?1 3.02 0 No Yes 7 0 1 0
R:R:G180 R:R:Y130 2.9 0 No Yes 7 5 2 1
R:R:A176 R:R:Y130 2.67 0 No Yes 8 5 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 9YDQ_nogp
Class
SubFamily
Type
SubType
Species
Ligand
Other Ligand(s)
Protein Partners
PDB Resolution
Date
D.O.I.
Net Summary
Imin 3.73
Number of Linked Nodes 281
Number of Links 310
Number of Hubs 46
Number of Links mediated by Hubs 184
Number of Communities 10
Number of Nodes involved in Communities 52
Number of Links involved in Communities 67
Path Summary
Number Of Nodes in MetaPath 41
Number Of Links MetaPath 40
Number of Shortest Paths 81102
Length Of Smallest Path 3
Average Path Length 16.1032
Length of Longest Path 35
Minimum Path Strength 1.13
Average Path Strength 7.38638
Maximum Path Strength 32.315
Minimum Path Correlation 0.7
Average Path Correlation 0.924455
Maximum Path Correlation 0.99
Minimum % Of Corr. Nodes 3.44828
Average % Of Corr. Nodes 43.478
Maximum % Of Corr. Nodes 100
Minimum Path Hubs % 0
Average Path Hubs % 55.2795
Maximum Path Hubs % 100
AnnotationTypeLinks
Gene OntologyMolecular Function
Gene OntologyBiological Process
Gene OntologyCellular Component
SCOP2Domain Identifier• Transducin (heterotrimeric G protein), gamma chain
SCOP2Family Identifier• 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 .
CodeDAL
PDB ResiduesL:L:?2
Environment DetailsOpen EMBL-EBI Page
CodeDAL
NameD-Alanine
SynonymsD-Alanine
Identifier
FormulaC3 H7 N O2
Molecular Weight89.093
SMILES
PubChem71080
Formal Charge0
Total Atoms13
Total Chiral Atoms1
Total Bonds12
Total Aromatic Bonds0

CodeDLE
PDB ResiduesL:L:?5
Environment DetailsOpen EMBL-EBI Page
CodeDLE
NameD-Leucine
Synonyms(R)-leucine
Identifier
FormulaC6 H13 N O2
Molecular Weight131.173
SMILES
PubChem6950207
Formal Charge0
Total Atoms22
Total Chiral Atoms1
Total Bonds21
Total Aromatic Bonds0

Code_W_
PDB ResiduesW:W:?1
Environment DetailsOpen EMBL-EBI Page
Code_W_
Name
Synonyms
Identifier
Formula
Molecular Weight
SMILES
PubChem
Formal Charge
Total Atoms
Total Chiral Atoms
Total Bonds
Total Aromatic Bonds

PDBsumOpen PDBsum Page
ChainR
ProteinReceptor
UniProtP41143
Sequence
>9YDQ_nogp_Chain_R
SASSLALAI AITALYSAV CAVGLLGNV LVMFGIVRY TKMKTATNI 
YIFNLALAD ALATSTLPF QSAKYLMET WPFGELLCK AVLSIDYYN 
MFTSIFTLT MMSVDRYIA VCHPVKALD FRTPAKAKL INICIWVLA 
SGVGVPIMV MAVTRPRDG AVVCMLQFP SPSWYWDTV TKICVFLFA 
FVVPILIIT VCYGLMLLR LRSVRLLSG SKEKDRSLR RITRMVLVV 
VGAFVVCWA PIHIFVIVW TLVDIDRRD PLVVAALHL CIALGYANS 
SLNPVLYAF LDENFKRCF RQLCR


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
4EJ4APeptideOpioidδMus musculusNaltrindole--3.42012-05-16doi.org/10.1038/nature11111
4N6HAPeptideOpioidδHomo sapiensNaltrindoleNa-1.82013-12-25doi.org/10.1038/nature12944
4RWAAPeptideOpioidδHomo sapiensDIPP-NH2--3.282015-01-14doi.org/10.1038/nsmb.2965
4RWDAPeptideOpioidδHomo sapiensDIPP-NH2Na-2.72015-01-14doi.org/10.1038/nsmb.2965
6PT2APeptideOpioidδHomo sapiensKGCHM07--2.82019-12-11doi.org/10.1126/sciadv.aax9115
6PT3APeptideOpioidδHomo sapiensDPI-287--3.32019-12-11doi.org/10.1126/sciadv.aax9115
8F7SAPeptideOpioidδHomo sapiensDeltorphin-Gi1/β1/γ232022-12-14doi.org/10.1016/j.cell.2022.12.026
8F7S (No Gprot) APeptideOpioidδHomo sapiensDeltorphin-32022-12-14doi.org/10.1016/j.cell.2022.12.026
8Y45APeptideOpioidδHomo sapiensADL5859-Gi2/β1/γ23.452024-11-27doi.org/10.1038/s41467-024-52601-1
8Y45 (No Gprot) APeptideOpioidδHomo sapiensADL5859-3.452024-11-27doi.org/10.1038/s41467-024-52601-1
9CGJAPeptideOpioidδHomo sapiensC6-Quino-Gi1/β1/γ22.82025-04-02doi.org/10.1038/s41467-025-57734-5
9CGJ (No Gprot) APeptideOpioidδHomo sapiensC6-Quino-2.82025-04-02doi.org/10.1038/s41467-025-57734-5
9CGKAPeptideOpioidδHomo sapiensC5-Quino-Gi1/β1/γ22.622025-04-02doi.org/10.1038/s41467-025-57734-5
9CGK (No Gprot) APeptideOpioidδHomo sapiensC5-Quino-2.622025-04-02doi.org/10.1038/s41467-025-57734-5
9YDPAPeptideOpioidδHomo sapiensDADLE-chim(NtGi1L-Gs-CtGi1)/β1/γ21.952025-12-1010.1101/2025.10.16.682975
9YDP (No Gprot) APeptideOpioidδHomo sapiensDADLE-1.952025-12-1010.1101/2025.10.16.682975
9YDQAPeptideOpioidδHomo sapiensDADLEMIPS3614chim(NtGi1L-Gs-CtGi1)/β1/γ21.942025-12-1010.1101/2025.10.16.682975
9YDQ (No Gprot) APeptideOpioidδHomo sapiensDADLEMIPS36141.942025-12-1010.1101/2025.10.16.682975
9YDRAPeptideOpioidδHomo sapiensDADLEMIPS3983chim(NtGi1L-Gs-CtGi1)/β1/γ22.142025-12-1010.1101/2025.10.16.682975
9YDR (No Gprot) APeptideOpioidδHomo sapiensDADLEMIPS39832.142025-12-1010.1101/2025.10.16.682975
8Y71APeptideOpioidδHomo sapiensA1D6FBMS986187Gi1/β1/γ22.972026-01-07To be published
8Y71 (No Gprot) APeptideOpioidδHomo sapiensA1D6FBMS9861872.972026-01-07To be published




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 9YDQ_nogp.zip



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