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:K1 7.672510
2L:L:P2 7.54667610
3L:L:L5 5.36410
4L:L:F14 3.105430
5L:L:V18 7.6875450
6L:L:N22 9.612550
7L:L:K27 10.2775460
8L:L:T31 8.0075440
9L:L:P32 7.7075440
10L:L:Q37 7.80833640
11L:L:V39 8.575460
12L:L:R41 6.3125460
13L:L:L42 7.815450
14L:L:Q48 9.0225460
15L:L:L55 6.7575430
16L:L:W57 8.02430
17L:L:I58 4.13430
18R:R:F40 4.96405
19R:R:L41 3.604506
20R:R:N56 5.01409
21R:R:M63 4.1175476
22R:R:M72 4.86254106
23R:R:Y76 7.2475407
24R:R:R77 6.5475478
25R:R:F87 4.998517
26R:R:W94 7.965617
27R:R:W102 8.478589
28R:R:F104 10.35407
29R:R:C109 5.74489
30R:R:H113 5.7675406
31R:R:Y116 7.336516
32R:R:Y121 6.3475417
33R:R:F129 3.635405
34R:R:Y135 7.96254128
35R:R:R148 7.55106
36R:R:V160 4.716507
37R:R:D171 7.8225404
38R:R:Y190 8.05833614
39R:R:N192 4.695411
40R:R:W195 7.33515
41R:R:F199 7.98415
42R:R:Y219 7.848528
43R:R:L244 5.4625427
44R:R:W252 6.934509
45R:R:Y255 7.89617
46R:R:Y256 8.448518
47R:R:H281 9.8375494
48R:R:E288 8.908515
49R:R:F292 7.484517
50R:R:L301 2.8275427
51R:R:Y302 5.748529
52R:R:F309 6.64578
   

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:K1 L:L:P2 75.17633.35YesYes100
2L:L:P2 R:R:Y116 29.112911.13YesYes106
3L:L:K1 R:R:W94 30.397811.6YesYes107
4R:R:W94 R:R:Y116 30.12529.65YesYes176
5L:L:P2 R:R:E288 18.1986.29YesYes105
6L:L:P2 R:R:F292 29.23745.78YesYes107
7R:R:E288 R:R:Y255 15.209616.83YesYes157
8L:L:K1 R:R:D187 1008.3YesNo003
9R:R:D187 R:R:F189 99.2974.78NoNo033
10R:R:F189 R:R:S178 98.59139.25NoNo031
11L:L:P32 R:R:S178 98.24673.56YesNo001
12L:L:P32 L:L:T31 50.68473.5YesYes400
13L:L:P32 L:L:Y7 49.666215.3YesNo400
14L:L:Q37 L:L:Y7 49.22333.38YesNo400
15L:L:Q37 L:L:T31 49.228211.34YesYes400
16L:L:F14 L:L:I38 33.02222.51YesNo000
17L:L:I38 L:L:I51 39.18512.94NoNo000
18L:L:A40 L:L:I51 41.23733.25NoNo000
19L:L:A40 L:L:V23 43.27363.39NoNo500
20L:L:V18 L:L:V23 47.38421.6YesNo500
21L:L:N22 L:L:V18 51.249214.78YesYes500
22L:L:K43 L:L:N22 73.63884.2NoYes000
23L:L:K24 L:L:K43 75.66342.87NoNo000
24L:L:K24 L:L:R41 85.76536.19NoYes000
25L:L:K27 L:L:R41 43.83268.66YesYes600
26L:L:K27 L:L:V39 45.84966.07YesYes600
27L:L:L29 L:L:V39 92.59938.94NoYes000
28L:L:L29 L:L:Q37 93.558311.98NoYes000
29L:L:Q48 L:L:R41 43.92127.01YesYes600
30L:L:Q48 L:L:V39 44.822115.76YesYes600
31L:L:L42 L:L:V49 10.24385.96YesNo000
32L:L:L42 L:L:N22 14.25348.24YesYes500
33L:L:F14 L:L:P53 26.90294.33YesNo300
34L:L:D52 L:L:P53 22.771512.88NoNo300
35L:L:D52 L:L:L55 20.71529.5NoYes300
36R:R:F87 R:R:Y116 58.54066.19YesYes176
37R:R:C295 R:R:F87 68.21844.19NoYes097
38R:R:F292 R:R:F87 35.9766.43YesYes177
39R:R:C295 R:R:D84 65.47156.22NoNo099
40R:R:D84 R:R:N56 18.58969.42NoYes099
41R:R:N56 R:R:S81 13.85762.98YesNo099
42R:R:S81 R:R:V59 12.49116.46NoNo098
43R:R:F309 R:R:V59 11.10873.93YesNo788
44R:R:D84 R:R:N298 49.53756.73NoNo099
45R:R:L80 R:R:N298 48.94938.24NoNo099
46R:R:L80 R:R:Y302 34.47733.52NoYes099
47R:R:I130 R:R:Y302 12.81914.84NoYes289
48R:R:I130 R:R:Y76 13.33456.04NoYes087
49R:R:I126 R:R:L80 14.5984.28NoNo079
50R:R:I126 R:R:V160 13.94344.61NoYes077
51R:R:F87 R:R:H294 29.57234.53YesNo079
52L:L:K1 R:R:H113 18.98195.24YesYes006
53R:R:H294 R:R:W252 24.538712.7NoYes099
54R:R:W252 R:R:Y256 11.10668.68YesYes098
55R:R:F248 R:R:W252 27.48487.02NoYes099
56R:R:F248 R:R:F249 26.03949.65NoNo1394
57R:R:F249 R:R:L216 25.43888.53NoNo044
58R:R:I245 R:R:L216 24.16094.28NoNo074
59R:R:I245 R:R:Y219 23.51958.46NoYes078
60R:R:L244 R:R:Y302 22.23537.03YesYes279
61R:R:L244 R:R:Y219 19.08227.03YesYes278
62R:R:S131 R:R:Y219 14.772312.72NoYes298
63R:R:C218 R:R:S131 13.45016.89NoNo069
64R:R:C218 R:R:Y135 10.7715.38NoYes068
65R:R:T241 R:R:Y219 21.45414.99NoYes078
66R:R:I223 R:R:T241 20.12366.08NoNo047
67R:R:I223 R:R:L238 16.12365.71NoNo045
68R:R:L238 R:R:R235 14.78752.43NoNo055
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:K1 R:R:W94 11.6 1 Yes Yes 0 7 0 1
L:L:K1 R:R:H113 5.24 1 Yes Yes 0 6 0 1
L:L:K1 R:R:D187 8.3 1 Yes No 0 3 0 1
L:L:P2 R:R:W94 12.16 1 Yes Yes 0 7 0 1
L:L:P2 R:R:Y116 11.13 1 Yes Yes 0 6 0 1
L:L:P2 R:R:E288 6.29 1 Yes Yes 0 5 0 1
L:L:P2 R:R:F292 5.78 1 Yes Yes 0 7 0 1
L:L:V3 R:R:Y255 3.79 1 No Yes 0 7 0 1
L:L:V3 R:R:I259 4.61 1 No No 0 5 0 1
L:L:V3 R:R:E288 4.28 1 No Yes 0 5 0 1
L:L:S4 R:R:S285 4.89 0 No No 0 5 0 1
L:L:S4 R:R:E288 4.31 0 No Yes 0 5 0 1
L:L:L5 R:R:W94 3.42 1 Yes Yes 0 7 0 1
L:L:R8 R:R:R30 3.2 0 No No 0 5 0 1
L:L:R8 R:R:D262 5.96 0 No No 0 5 0 1
L:L:R8 R:R:L266 6.07 0 No No 0 3 0 1
L:L:P10 R:R:F29 4.33 0 No No 0 4 0 1
L:L:F13 R:R:E268 10.49 0 No No 0 2 0 1
L:L:P32 R:R:S178 3.56 4 Yes No 0 1 0 1
L:L:P32 R:R:I185 8.47 4 Yes No 0 3 0 1
L:L:N33 R:R:F189 12.08 0 No No 0 3 0 1
L:L:V39 R:R:P27 3.53 6 Yes No 0 5 0 1
L:L:R47 R:R:E26 3.49 0 No No 0 2 0 1
L:L:Q48 R:R:P27 7.9 6 Yes No 0 5 0 1
R:R:E26 R:R:K25 9.45 0 No No 2 4 1 2
R:R:F29 R:R:P27 8.67 0 No No 4 5 1 1
R:R:H281 R:R:R30 15.8 9 Yes No 4 5 2 1
R:R:L41 R:R:N37 4.12 0 Yes No 6 3 2 2
R:R:H281 R:R:N37 3.83 9 Yes No 4 3 2 2
R:R:N37 R:R:S285 5.96 9 No No 3 5 2 1
R:R:L41 R:R:Y45 7.03 0 Yes No 6 7 2 2
R:R:F292 R:R:Y45 6.19 1 Yes No 7 7 1 2
R:R:F87 R:R:Y116 6.19 1 Yes Yes 7 6 2 1
R:R:F87 R:R:L120 3.65 1 Yes No 7 7 2 2
R:R:F292 R:R:F87 6.43 1 Yes Yes 7 7 1 2
R:R:T90 R:R:W94 6.06 0 No Yes 6 7 2 1
R:R:V112 R:R:W94 4.9 0 No Yes 5 7 2 1
R:R:W94 R:R:Y116 9.65 1 Yes Yes 7 6 1 1
R:R:C109 R:R:H113 4.42 8 Yes Yes 9 6 2 1
R:R:D171 R:R:H113 7.56 0 Yes Yes 4 6 2 1
R:R:A175 R:R:H113 5.85 0 No Yes 4 6 2 1
R:R:L120 R:R:Y116 3.52 1 No Yes 7 6 2 1
R:R:F292 R:R:Y116 6.19 1 Yes Yes 7 6 1 1
R:R:F189 R:R:S178 9.25 0 No No 3 1 1 1
R:R:I185 R:R:R183 3.76 0 No No 3 3 1 2
R:R:D187 R:R:F189 4.78 0 No No 3 3 1 1
R:R:L266 R:R:V197 4.47 0 No No 3 3 1 2
R:R:D262 R:R:Q200 5.22 0 No No 5 5 1 2
R:R:H203 R:R:Y255 4.36 1 No Yes 4 7 2 1
R:R:H203 R:R:Y256 10.89 1 No Yes 4 8 2 2
R:R:Y255 R:R:Y256 8.94 1 Yes Yes 7 8 1 2
R:R:I259 R:R:Y255 9.67 1 No Yes 5 7 1 1
R:R:T287 R:R:Y255 3.75 0 No Yes 6 7 2 1
R:R:E288 R:R:Y255 16.83 1 Yes Yes 5 7 1 1
R:R:D262 R:R:I284 4.2 0 No No 5 4 1 2
R:R:H281 R:R:S285 6.97 9 Yes No 4 5 2 1
R:R:E288 R:R:F292 12.83 1 Yes Yes 5 7 1 1
L:L:S6 R:R:D187 2.94 0 No No 0 3 0 1
R:R:I204 R:R:I259 2.94 0 No No 5 5 2 1
R:R:A180 R:R:I185 1.62 0 No No 1 3 2 1
L:L:L5 R:R:A98 1.58 1 Yes No 0 5 0 1
R:R:A98 R:R:L41 1.58 0 No Yes 5 6 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

PDB Summary
PDB 8K3Z_nogp
Class
SubFamily
Type
SubType
Species
Ligand
Other Ligand(s)
Protein Partners
PDB Resolution
Date
D.O.I.
Net Summary
Imin 3.2
Number of Linked Nodes 329
Number of Links 383
Number of Hubs 52
Number of Links mediated by Hubs 186
Number of Communities 13
Number of Nodes involved in Communities 85
Number of Links involved in Communities 114
Path Summary
Number Of Nodes in MetaPath 69
Number Of Links MetaPath 68
Number of Shortest Paths 212314
Length Of Smallest Path 3
Average Path Length 23.1747
Length of Longest Path 45
Minimum Path Strength 1.36
Average Path Strength 6.66711
Maximum Path Strength 17.03
Minimum Path Correlation 0.71
Average Path Correlation 0.946268
Maximum Path Correlation 0.99
Minimum % Of Corr. Nodes 2.63158
Average % Of Corr. Nodes 41.9738
Maximum % Of Corr. Nodes 100
Minimum Path Hubs % 0
Average Path Hubs % 45.26
Maximum Path Hubs % 100
AnnotationTypeLinks
Gene OntologyMolecular Function
Gene OntologyBiological Process
Gene OntologyCellular Component
SCOP2Domain Identifier• Transducin (heterotrimeric G protein), gamma chain   • Interleukin 8-like chemokines   • Ras-like P-loop GTPases   • G protein-coupled receptor-like
SCOP2Family Identifier• Transducin (heterotrimeric G protein), gamma chain   • Interleukin 8-like chemokines   • Ras-like P-loop GTPases   • G protein-coupled receptor-like
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
UniProtP61073
Sequence
>8K3Z_nogp_Chain_R
KEPCFREEN ANFNKIFLP TIYSIIFLT GIVGNGLVI LVMGYQKKL 
RSMTDKYRL HLSVADLLF VITLPFWAV DAVANWYFG NFLCKAVHV 
IYTVNLYSS VLILAFISL DRYLAIVHA TNSQRPRKL LAEKVVYVG 
VWIPALLLT IPDFIFANV SEADDRYIC DRFYPNDLW VVVFQFQHI 
MVGLILPGI VILSCYCII ISKLSHSKG HQKRKALKT TVILILAFF 
ACWLPYYIG ISIDSFILL EIIKQGCEF ENTVHKWIS ITEALAFFH 
CCLNPILYA FLGAKFKTS AQHALTSV


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
8YU7AProteinChemokineCXCR4Homo sapiens---3.012025-03-05doi.org/10.1016/j.celrep.2025.115255
8U4NAProteinChemokineCXCR4Homo sapiens--Gi1/β1/γ22.722024-03-13doi.org/10.1101/2024.02.09.579708
8U4N (No Gprot) AProteinChemokineCXCR4Homo sapiens--2.722024-03-13doi.org/10.1101/2024.02.09.579708
8U4OAProteinChemokineCXCR4Homo sapiensCXCL12-Gi1/β1/γ23.292024-03-13doi.org/10.1101/2024.02.09.579708
8U4O (No Gprot) AProteinChemokineCXCR4Homo sapiensCXCL12-3.292024-03-13doi.org/10.1101/2024.02.09.579708
8U4PAProteinChemokineCXCR4Homo sapiensAMD3100-Gi1/β1/γ23.152024-03-13doi.org/10.1101/2024.02.09.579708
8U4P (No Gprot) AProteinChemokineCXCR4Homo sapiensAMD3100-3.152024-03-13doi.org/10.1101/2024.02.09.579708
8U4QAProteinChemokineCXCR4Homo sapiensREGN7663-Fab-Gi1/β1/γ23.362024-03-13doi.org/10.1101/2024.02.09.579708
8U4Q (No Gprot) AProteinChemokineCXCR4Homo sapiensREGN7663-Fab-3.362024-03-13doi.org/10.1101/2024.02.09.579708
8U4RAProteinChemokineCXCR4Homo sapiensREGN7663-Fab--3.12024-03-13doi.org/10.1101/2024.02.09.579708
3ODUAProteinChemokineCXCR4Homo sapiensIT1t--2.52010-10-27doi.org/10.1126/science.1194396
3OE0AProteinChemokineCXCR4Homo sapiensCVX15--2.92010-10-27doi.org/10.1126/science.1194396
3OE6AProteinChemokineCXCR4Homo sapiensIT1t--3.22010-10-27doi.org/10.1126/science.1194396
3OE8AProteinChemokineCXCR4Homo sapiensIT1t--3.12010-10-27doi.org/10.1126/science.1194396
3OE9AProteinChemokineCXCR4Homo sapiensIT1t--3.12010-10-27doi.org/10.1126/science.1194396
4RWSAProteinChemokineCXCR4Homo sapiensvMIP-II--3.12015-02-11doi.org/10.1126/science.1261064
8K3ZAProteinChemokineCXCR4Homo sapiensCXCL12-Gi1/β1/γ12.812024-07-17doi.org/10.1016/j.celrep.2024.114578
8K3Z (No Gprot) AProteinChemokineCXCR4Homo sapiensCXCL12-2.812024-07-17doi.org/10.1016/j.celrep.2024.114578
8U4SAProteinChemokineCXCR4Homo sapiensREGN7663-Fab--3.352024-03-13doi.org/10.1038/s41594-024-01397-1
8U4TAProteinChemokineCXCR4Homo sapiensREGN7663-Fab--3.382024-03-13doi.org/10.1038/s41594-024-01397-1
8ZPLAProteinChemokineCXCR4Homo sapiensHF51116--3.012025-02-26doi.org/10.1073/pnas.2425795122
8ZPMAProteinChemokineCXCR4Homo sapiensAMD070--3.22025-02-26doi.org/10.1073/pnas.2425795122
8ZPNAProteinChemokineCXCR4Homo sapiensAMD3100--3.312025-02-26doi.org/10.1073/pnas.2425795122




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 8K3Z_nogp.zip



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