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:E19 6.19463
2R:R:W22 9.2625469
3R:R:L26 3.72405
4R:R:I34 2.255404
5R:R:Q56 7.005475
6R:R:W57 5.0025456
7R:R:F66 6.53516
8R:R:F74 7.124599
9R:R:F80 6.23714719
10R:R:Y93 7.054518
11R:R:F94 3.426508
12R:R:F96 9.16667619
13R:R:F100 9.06509
14R:R:C103 5.75419
15R:R:F104 7.34571719
16R:R:H110 7.37333618
17R:R:I134 2.915404
18R:R:Q140 5.026509
19R:R:Y147 6.91518
20R:R:R154 4.58408
21R:R:F158 5.448513
22R:R:F170 6.285619
23R:R:L174 5.28418
24R:R:W199 6.462575
25R:R:H202 9617
26R:R:I206 7.5225417
27R:R:W217 7.95167619
28R:R:W220 9.14509
29R:R:N228 3.695408
30R:R:W237 12.018568
31R:R:L246 6.04419
32R:R:N249 7.392509
33R:R:W251 6.875496
34R:R:F253 7.91518
35R:R:Y257 7.61286718
36R:R:E261 9.054518
37S:S:E19 6.19483
38S:S:W22 9.2625489
39S:S:L26 4.1175405
40S:S:Q56 6.73445
41S:S:W57 4.4275406
42S:S:F66 7.22426
43S:S:F74 6.8565119
44S:S:F80 6.39729
45S:S:Y93 7.296528
46S:S:F94 4.5475408
47S:S:F96 8.45167629
48S:S:F100 8.76509
49S:S:C103 5.75429
50S:S:F104 7.34571729
51S:S:H110 8.21638
52S:S:V118 2.3025405
53S:S:I134 3.27404
54S:S:Q140 5.026509
55S:S:Y147 6.668528
56S:S:R154 4.89408
57S:S:F158 6.2775423
58S:S:F170 5.06333629
59S:S:L174 5.28428
60S:S:F185 3.6454124
61S:S:W199 6.855445
62S:S:H202 8.785637
63S:S:I206 7.2275437
64S:S:W217 8.07167629
65S:S:W220 9.376509
66S:S:W237 11.18588
67S:S:D238 6.64428
68S:S:L246 6.04429
69S:S:N249 6.058529
70S:S:W251 6.086116
71S:S:F253 7.25167628
72S:S:Y257 6.5738
73S:S:E261 7.878538
   

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:F100 R:R:F96 54.150216.08YesYes099
2R:R:F100 R:R:F104 35.78096.43YesYes099
3R:R:F104 R:R:F253 34.58848.57YesYes198
4R:R:F100 R:R:N249 18.15218.46YesYes099
5R:R:F253 R:R:N249 17.4339.67YesYes089
6R:R:C103 R:R:F104 35.38089.78YesYes199
7R:R:C103 R:R:F66 30.43524.19YesYes196
8R:R:F253 R:R:F66 45.858711.79YesYes186
9R:R:F66 R:R:L107 63.17437.31YesNo169
10R:R:L107 R:R:Y257 31.58475.86NoYes198
11R:R:I206 R:R:L107 30.93465.71YesNo179
12R:R:H110 R:R:I206 11.86836.63YesYes187
13R:R:H110 R:R:H202 18.4457.17YesYes187
14R:R:H202 R:R:L265 19.76726.43YesNo075
15R:R:L265 R:R:Q56 17.79143.99NoYes055
16R:R:H110 R:R:Y257 11.84929.8YesYes188
17R:R:C106 R:R:F66 10.54735.59NoYes086
18R:R:Q56 R:R:W199 11.8647.67YesYes755
19R:R:F170 R:R:Y93 97.93669.28YesYes198
20R:R:F158 R:R:Y93 49.96095.16YesYes138
21R:R:D169 R:R:Y93 49.827613.79NoYes098
22R:R:F170 R:R:L174 36.21193.65YesYes198
23R:R:F158 R:R:Y147 50.12314.13YesYes138
24R:R:D169 R:R:Y147 49.86539.2NoYes098
25R:R:L174 R:R:V177 35.44174.47YesNo189
26R:R:I206 R:R:S188 18.47089.29YesNo077
27R:R:V118 R:R:W199 10.53793.68NoYes055
28R:R:Y147 S:S:L150 99.988914.07YesNo086
29R:R:L150 S:S:L150 10011.07NoNo066
30R:R:L150 S:S:Y147 66.762811.72NoYes268
31R:R:L150 S:S:I151 33.24877.14NoNo268
32S:S:F158 S:S:Y147 33.45464.13YesYes238
33S:S:F158 S:S:Y93 66.41659.28YesYes238
34S:S:F170 S:S:Y93 97.07835.16YesYes298
35S:S:F158 S:S:I151 33.21717.54YesNo238
36S:S:D169 S:S:Y147 33.347710.34NoYes098
37S:S:D169 S:S:Y93 33.315711.49NoYes098
38S:S:F170 S:S:F96 53.57110.72YesYes299
39S:S:F100 S:S:F96 52.823615YesYes099
40S:S:F100 S:S:F104 34.68216.43YesYes099
41S:S:F104 S:S:F253 33.40278.57YesYes298
42S:S:F253 S:S:V70 10.30613.93YesNo088
43S:S:F170 S:S:L174 35.06963.65YesYes298
44S:S:L174 S:S:V177 34.43394.47YesNo289
45S:S:F104 S:S:V177 34.32225.24YesNo299
46S:S:F100 S:S:N249 17.74836.04YesYes099
47S:S:F253 S:S:N249 16.81879.67YesYes289
48S:S:C103 S:S:F104 34.06219.78YesYes299
49S:S:C103 S:S:F66 26.34034.19YesYes296
50S:S:F66 S:S:L107 55.34537.31YesNo069
51S:S:L107 S:S:Y257 40.72485.86NoYes098
52S:S:F253 S:S:F66 39.560511.79YesYes286
53S:S:L107 S:S:T184 13.87062.95NoNo096
54S:S:I206 S:S:Y257 13.85577.25YesYes378
55S:S:I206 S:S:S188 12.23729.29YesNo077
56S:S:S188 S:S:T191 11.42193.2NoNo074
57S:S:K200 S:S:T191 10.60653NoNo064
58R:R:F170 R:R:F96 54.637813.93YesYes199
59R:R:F104 R:R:V177 35.37635.24YesNo199
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.


PDB Summary
PDB 8YZK
Class C
SubFamily Orphan
Type Orphan
SubType GPRC5D
Species Homo Sapiens
Ligand -
Other Ligand(s) -
Protein Partners -
PDB Resolution 3.4
Date 2024-07-03
D.O.I. 10.1038/s41467-024-49625-y
Net Summary
Imin 3.17
Number of Linked Nodes 485
Number of Links 566
Number of Hubs 73
Number of Links mediated by Hubs 289
Number of Communities 12
Number of Nodes involved in Communities 110
Number of Links involved in Communities 153
Path Summary
Number Of Nodes in MetaPath 60
Number Of Links MetaPath 59
Number of Shortest Paths 3150853
Length Of Smallest Path 3
Average Path Length 27.9772
Length of Longest Path 45
Minimum Path Strength 1.24
Average Path Strength 7.71017
Maximum Path Strength 20.555
Minimum Path Correlation 0.7
Average Path Correlation 0.987194
Maximum Path Correlation 1
Minimum % Of Corr. Nodes 4.54545
Average % Of Corr. Nodes 39.221
Maximum % Of Corr. Nodes 100
Minimum Path Hubs % 0
Average Path Hubs % 60.391
Maximum Path Hubs % 100
AnnotationTypeLinks
Gene OntologyMolecular Function• enzyme regulator activity   • catalytic activity, acting on a protein   • molecular function activator activity   • kinase activity   • protein kinase activity   • transferase activity   • protein kinase regulator activity   • phosphotransferase activity, alcohol group as acceptor   • transferase activity, transferring phosphorus-containing groups   • kinase activator activity   • enzyme activator activity   • molecular function regulator activity   • protein kinase activator activity   • catalytic activity   • kinase regulator activity   • molecular transducer activity   • G protein-coupled receptor activity   • transmembrane signaling receptor activity   • signaling receptor activity   • binding   • tetrapyrrole binding   • heme binding   • electron transfer activity   • cation binding   • transition metal ion binding   • iron ion binding   • ion binding   • metal ion binding   • small molecule binding   • electron transport chain   • metabolic process   • cellular process   • generation of precursor metabolites and energy   • protein-containing complex   • receptor complex   • cell periphery   • cellular anatomical structure   • plasma membrane   • membrane   • membrane-bounded organelle   • intracellular organelle   • intracellular anatomical structure   • organelle   • intracellular membrane-bounded organelle   • extracellular exosome   • extracellular vesicle   • extracellular organelle
Gene OntologyBiological Process
Gene OntologyCellular Component• protein-containing complex   • receptor complex   • cell periphery   • cellular anatomical structure   • plasma membrane   • membrane   • membrane-bounded organelle   • intracellular organelle   • intracellular anatomical structure   • organelle   • intracellular membrane-bounded organelle   • extracellular exosome   • extracellular vesicle   • extracellular organelle   • extracellular region   • extracellular space   • vesicle   • extracellular membrane-bounded organelle   • periplasmic space
SCOP2Domain Identifier
SCOP2Family Identifier
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 .
PDBsumOpen PDBsum Page
ChainR
ProteinReceptor
UniProtQ9NZD1
Sequence
>8YZK_Chain_R
CIESTGDYF LLCDAEGPW GIILESLAI LGIVVTILL LLAFLFLMR 
KIQDCSQWN VLPTQLLFL LSVLGLFGL AFAFIIELN QQTAPVRYF 
LFGVLFALC FSCLLAHAS NLVKLVRGC VSFSWTTIL CIAIGCSLL 
QIIIATEYV TLIMTRGMM FVNMTPCQL NVDFVVLLV YVLFLMALT 
FFVSKATFC GPCENWKQH GRLIFITVL FSIIIWVVW ISMLLRGNP 
QFQRQPQWD DPVVCIALV TNAWVFLLL YIVPELCIL YRS


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  

ChainS
ProteinReceptor
UniProtQ9NZD1
Sequence
>8YZK_Chain_S
CIESTGDYF LLCDAEGPW GIILESLAI LGIVVTILL LLAFLFLMR 
KIQDCSQWN VLPTQLLFL LSVLGLFGL AFAFIIELN QQTAPVRYF 
LFGVLFALC FSCLLAHAS NLVKLVRGC VSFSWTTIL CIAIGCSLL 
QIIIATEYV TLIMTRGMM FVNMTPCQL NVDFVVLLV YVLFLMALT 
FFVSKATFC GPCENWKQH GRLIFITVL FSIIIWVVW ISMLLRGNP 
QFQRQPQWD DPVVCIALV TNAWVFLLL YIVPELCIL YRS


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
9IMACOrphanOrphanGPRC5DHomo sapiensTalquetamab--2.652024-09-11doi.org/10.1016/j.jmb.2024.168748
8YZKCOrphanOrphanGPRC5DHomo sapiens---3.42024-07-0310.1038/s41467-024-49625-y




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 8YZK.zip



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