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:N37 3.5725423
2R:R:L41 2.444526
3R:R:Y45 3.99333627
4R:R:I48 4.955407
5R:R:N56 4.41409
6R:R:M63 3.522566
7R:R:K68 4.2325406
8R:R:Y76 4.236507
9R:R:D84 4.984509
10R:R:F87 8.0575427
11R:R:L91 3.36428
12R:R:W94 4.0075427
13R:R:W102 9.025419
14R:R:H113 4.29516
15R:R:Y116 4.6475426
16R:R:I126 3.494507
17R:R:F129 4.565475
18R:R:D133 6408
19R:R:Y135 6.05648
20R:R:V160 4.025407
21R:R:Y190 8.424514
22R:R:W195 5.3525415
23R:R:H203 4.864534
24R:R:I215 3.7375487
25R:R:I222 2.992548
26R:R:T241 3.39407
27R:R:F248 7.872539
28R:R:W252 8.936539
29R:R:Y255 5.89167637
30R:R:Y256 5.575638
31R:R:I259 5.252535
32R:R:I265 3.1225453
33R:R:I270 3.256555
34R:R:F292 6.745427
35R:R:H294 9.0425439
   

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:I261 R:R:I265 15.24552.94NoYes053
2R:R:I261 R:R:V280 18.63953.07NoNo055
3R:R:D262 R:R:V280 19.69394.38NoNo955
4R:R:D262 R:R:I284 21.8652.8NoNo054
5R:R:E288 R:R:I284 21.38912.73NoNo054
6R:R:E288 R:R:Y116 37.85744.49NoYes056
7R:R:W94 R:R:Y116 51.94964.82YesYes276
8R:R:W94 R:R:Y45 12.36772.89YesYes277
9R:R:L41 R:R:Y45 33.45664.69YesYes267
10R:R:F292 R:R:Y45 15.69586.19YesYes277
11R:R:F292 R:R:I48 12.66063.77YesYes077
12R:R:F293 R:R:I48 10.3765.02NoYes057
13R:R:F87 R:R:Y116 38.23826.19YesYes276
14R:R:F87 R:R:L91 46.54933.65YesYes278
15R:R:L91 R:R:W94 36.38193.42YesYes287
16R:R:C296 R:R:I48 16.14628.18NoYes077
17R:R:C296 R:R:G52 10.3761.96NoNo078
18R:R:F87 R:R:N119 1008.46YesNo078
19R:R:D84 R:R:N119 98.63075.39YesNo098
20R:R:D84 R:R:N56 40.48995.39YesYes099
21R:R:N56 R:R:S81 33.99852.98YesNo099
22R:R:S81 R:R:V59 32.65484.85NoNo098
23R:R:V59 R:R:Y302 31.30385.05NoNo089
24R:R:M63 R:R:Y302 24.55615.99YesNo069
25R:R:K68 R:R:M63 10.42732.88YesYes066
26R:R:D84 R:R:L80 78.26685.43YesNo099
27R:R:I126 R:R:L80 77.18675.71YesNo079
28R:R:I126 R:R:I130 61.93392.94YesNo078
29R:R:I130 R:R:Y76 59.74084.84NoYes087
30R:R:D133 R:R:Y76 54.3885.75YesYes087
31R:R:W252 R:R:Y255 15.04056.75YesYes397
32R:R:H294 R:R:W252 12.719213.75YesYes399
33R:R:C295 R:R:H294 15.04414.42NoYes099
34R:R:E288 R:R:Y255 18.60655.61NoYes057
35R:R:V112 R:R:W94 90.05974.9NoYes057
36R:R:F93 R:R:V112 87.68352.62NoNo065
37R:R:F104 R:R:F93 86.0364.29NoNo076
38R:R:F104 R:R:W102 84.476315.03NoYes079
39R:R:A100 R:R:V99 18.0281.7NoNo054
40R:R:P42 R:R:V99 19.63531.77NoNo054
41R:R:L41 R:R:P42 21.23531.64YesNo065
42R:R:A100 R:R:Y103 16.41342.67NoNo053
43R:R:C109 R:R:W102 41.3323.92NoYes199
44R:R:C186 R:R:W102 41.434510.45NoYes199
45R:R:C109 R:R:H113 40.33242.95NoYes196
46R:R:A175 R:R:H113 11.91374.39NoYes046
47R:R:C186 R:R:H113 40.43134.42NoYes196
48R:R:D171 R:R:H113 16.046.3NoYes146
49R:R:H113 R:R:R188 51.75193.39YesNo165
50R:R:D171 R:R:T117 14.26068.67NoNo045
51R:R:T117 R:R:T168 11.91374.71NoNo056
52R:R:D133 R:R:R134 44.41113.57YesNo089
53R:R:R134 R:R:T241 42.25832.59NoYes097
54R:R:T241 R:R:Y219 37.0526.24YesNo078
55R:R:I222 R:R:Y135 13.46612.42YesYes488
56R:R:I222 R:R:Y219 28.81412.42YesNo088
57R:R:R188 R:R:Y190 50.199512.35NoYes154
58R:R:F199 R:R:Y190 18.74579.28NoYes054
59R:R:F199 R:R:P170 16.62585.78NoNo058
60R:R:I169 R:R:P170 14.27533.39NoNo038
61R:R:I169 R:R:L166 11.91372.85NoNo034
62R:R:N101 R:R:Y103 14.79152.33NoNo043
63R:R:N101 R:R:Y184 13.16222.33NoNo045
64R:R:V196 R:R:Y190 18.54066.31NoYes044
65R:R:I222 R:R:L226 11.7492.85YesNo088
66R:R:I48 R:R:L91 14.6782.85YesYes078
67R:R:L91 R:R:Y45 10.57373.52YesYes287
68R:R:F292 R:R:F87 16.321913.93YesYes277
69R:R:C295 R:R:D84 15.97774.67NoYes099
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 8YU7
Class A
SubFamily Protein
Type Chemokine
SubType CXCR4
Species Homo Sapiens
Ligand -
Other Ligand(s) -
Protein Partners -
PDB Resolution 3.01
Date 2025-03-05
D.O.I. doi.org/10.1016/j.celrep.2025.115255
Net Summary
Imin 2.62
Number of Linked Nodes 256
Number of Links 282
Number of Hubs 35
Number of Links mediated by Hubs 128
Number of Communities 9
Number of Nodes involved in Communities 54
Number of Links involved in Communities 70
Path Summary
Number Of Nodes in MetaPath 70
Number Of Links MetaPath 69
Number of Shortest Paths 53110
Length Of Smallest Path 3
Average Path Length 15.8175
Length of Longest Path 34
Minimum Path Strength 1.275
Average Path Strength 5.10396
Maximum Path Strength 12.74
Minimum Path Correlation 0.7
Average Path Correlation 0.923301
Maximum Path Correlation 1
Minimum % Of Corr. Nodes 3.84615
Average % Of Corr. Nodes 41.9924
Maximum % Of Corr. Nodes 100
Minimum Path Hubs % 0
Average Path Hubs % 42.7855
Maximum Path Hubs % 100
AnnotationTypeLinks
Gene OntologyMolecular Function• molecular transducer activity   • coreceptor activity   • signaling receptor activity   • cytoskeletal protein binding   • myosin light chain binding   • protein binding   • binding   • myosin binding   • C-C chemokine binding   • chemokine binding   • cytokine binding   • G protein-coupled chemoattractant receptor activity   • C-X-C motif chemokine 12 receptor activity   • C-X-C chemokine receptor activity   • chemokine receptor activity   • G protein-coupled receptor activity   • transmembrane signaling receptor activity   • cytokine receptor activity   • immune receptor activity   • ubiquitin protein ligase binding   • ubiquitin-like protein ligase binding   • enzyme binding   • virus receptor activity   • exogenous protein binding   • C-C chemokine receptor activity   • ubiquitin binding   • ubiquitin-like protein binding   • actin binding   • developmental process   • multicellular organism development   • multicellular organismal process   • head development   • central nervous system development   • anatomical structure development   • animal organ development   • brain development   • nervous system development   • system development   • regulation of biological process   • cell adhesion   • regulation of cellular process   • regulation of cell adhesion
Gene OntologyBiological Process• developmental process   • multicellular organism development   • multicellular organismal process   • head development   • central nervous system development   • anatomical structure development   • animal organ development   • brain development   • nervous system development   • system development   • regulation of biological process   • cell adhesion   • regulation of cellular process   • regulation of cell adhesion   • biological regulation   • cellular process   • apoptotic process   • cell death   • programmed cell death   • membrane organization   • cellular component organization   • myelination   • myelin maintenance   • axon ensheathment   • ensheathment of neurons   • plasma membrane organization   • cellular component organization or biogenesis   • endomembrane system organization   • cell chemotaxis   • cellular response to stimulus   • chemotaxis   • dendritic cell chemotaxis   • response to stimulus   • response to external stimulus   • leukocyte migration   • dendritic cell migration   • cellular response to chemical stimulus   • taxis   • immune system process   • response to chemical   • mononuclear cell migration   • cell migration   • cell motility   • leukocyte chemotaxis   • locomotion   • response to decreased oxygen levels   • response to hypoxia   • response to stress   • response to oxygen levels   • response to abiotic stimulus   • positive regulation of cytosolic calcium ion concentration   • regulation of biological quality   • neurogenesis   • cellular developmental process   • cell differentiation   • regulation of response to external stimulus   • regulation of chemotaxis   • regulation of response to stimulus   • regulation of locomotion   • immune response   • cell surface receptor signaling pathway   • chemokine (C-X-C motif) ligand 12 signaling pathway   • signaling   • CXCL12-activated CXCR4 signaling pathway   • response to cytokine   • response to chemokine   • cytokine-mediated signaling pathway   • cellular response to chemokine   • chemokine-mediated signaling pathway   • cell communication   • response to peptide   • G protein-coupled receptor signaling pathway   • cellular response to cytokine stimulus   • signal transduction   • C-X-C chemokine receptor CXCR4 signaling pathway   • intracellular signal transduction   • calcium-mediated signaling   • intracellular signaling cassette   • regulation of multicellular organismal development   • regulation of developmental process   • positive regulation of biological process   • vasculature development   • regulation of vasculature development   • circulatory system development   • positive regulation of developmental process   • positive regulation of vasculature development   • positive regulation of multicellular organismal process   • regulation of multicellular organismal process   • positive regulation of cell communication   • positive regulation of signal transduction   • regulation of signal transduction   • positive regulation of macrophage migration inhibitory factor signaling pathway   • positive regulation of response to cytokine stimulus   • positive regulation of response to stimulus   • macrophage migration inhibitory factor signaling pathway   • positive regulation of cellular process   • regulation of signaling   • regulation of macrophage migration inhibitory factor signaling pathway   • regulation of cytokine-mediated signaling pathway   • regulation of response to cytokine stimulus   • regulation of cell communication   • positive regulation of cytokine-mediated signaling pathway   • positive regulation of signaling   • homeostatic process   • adaptive thermogenesis   • positive regulation of metabolic process   • multicellular organismal-level homeostasis   • regulation of cold-induced thermogenesis   • cold-induced thermogenesis   • temperature homeostasis   • positive regulation of cold-induced thermogenesis   • metabolic process   • regulation of metabolic process   • positive regulation of locomotion   • regulation of cell motility   • positive regulation of cell migration   • positive regulation of cell motility   • regulation of cell migration   • biological process involved in interspecies interaction between organisms   • response to other organism   • response to external biotic stimulus   • response to virus   • response to biotic stimulus   • defense response   • inflammatory response   • positive regulation of nervous system development   • cell development   • regulation of neurogenesis   • regulation of cell differentiation   • regulation of gliogenesis   • positive regulation of gliogenesis   • regulation of cell development   • regulation of nervous system development   • gliogenesis   • positive regulation of cell differentiation   • positive regulation of neurogenesis   • positive regulation of oligodendrocyte differentiation   • positive regulation of cell development   • regulation of glial cell differentiation   • positive regulation of glial cell differentiation   • oligodendrocyte differentiation   • glial cell differentiation   • regulation of oligodendrocyte differentiation   • cell periphery   • cellular anatomical structure   • cell surface   • membrane   • plasma membrane   • external side of plasma membrane   • side of membrane   • extracellular exosome   • membrane-bounded organelle   • extracellular vesicle   • extracellular organelle   • extracellular region   • organelle   • extracellular space
Gene OntologyCellular Component• cell periphery   • cellular anatomical structure   • cell surface   • membrane   • plasma membrane   • external side of plasma membrane   • side of membrane   • extracellular exosome   • membrane-bounded organelle   • extracellular vesicle   • extracellular organelle   • extracellular region   • organelle   • extracellular space   • vesicle   • extracellular membrane-bounded organelle   • cell leading edge   • intracellular anatomical structure   • cytoplasm   • anchoring junction   • cell junction   • intracellular organelle   • lytic vacuole   • vacuole   • intracellular membrane-bounded organelle   • lysosome   • protein-containing complex   • cytoplasmic vesicle   • intracellular vesicle   • early endosome   • endosome   • endomembrane system   • late endosome
SCOP2Domain Identifier• G protein-coupled receptor-like
SCOP2Family Identifier• 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
>8YU7_Chain_R
EPCFREENA NFNKIFLPT IYSIIFLTG IVGNGLVIL VMGYQKKLR 
SMTDKYRLH LSVADLLFV ITLPFWAVD AVANWYFGN FLCKAVHVI 
YTVNLYSSV LILAFISLD RYLAIVHAT NSQRPRKLL AEKVVYVGV 
WIPALLLTI PDFIFANVS EADDRYICD RFYPNDLWV VVFQFQHIM 
VGLILPGIV ILSCYCIII SKLSHSKGH QKRKALKTT VILILAFFA 
CWLPYYIGI SIDSFILLE IIKQGCEFE NTVHKWISI TEALAFFHC 
CLNPILYAF 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
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




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