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
1H:H:?1 9.724510
2L:L:?1 3.97520
3L:L:N9 9.4025410
4L:L:I10 3.736510
5L:L:Y27 4.545430
6L:L:S33 4.588510
7L:L:C34 3.8925410
8L:L:I39 3.9725430
9L:L:Q45 4.91400
10R:R:F25 1.8625403
11R:R:Y40 5.972527
12R:R:F44 3.7275406
13R:R:I58 5.105456
14R:R:S67 2.615466
15R:R:Y71 6.3975467
16R:R:I73 2.5975405
17R:R:W89 5.32427
18R:R:L119 3.4325407
19R:R:F121 6.74477
20R:R:Y130 3.936508
21R:R:R139 3.428507
22R:R:W152 6.67479
23R:R:H162 5.63494
24R:R:T167 5.945484
25R:R:Y208 4.99408
26R:R:Y244 3.284506
27R:R:T252 3.90754106
28R:R:E277 5.4725426
29R:R:F281 6.3675427
30R:R:H283 5.81409
31R:R:Y291 3.21409
32R:R:V292 5.79407
33R:R:E301 3.2404
34R:R:L305 5.5375404
   

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
1H:H:?1 L:L:Q31 37.37255.97YesNo100
2L:L:Q31 L:L:S33 37.64037.22NoYes100
3L:L:S33 R:R:Q172 55.39225.78YesNo003
4R:R:Q172 R:R:Y92 58.36614.51NoNo036
5R:R:W89 R:R:Y92 59.33468.68YesNo076
6L:L:H2 R:R:W89 59.7794.23NoYes207
7L:L:H2 R:R:E277 76.31172.46NoYes206
8R:R:E277 R:R:Y244 99.12276.73YesYes066
9L:L:K7 L:L:S33 13.12033.06NoYes000
10L:L:K7 R:R:L93 11.70742.82NoNo006
11H:H:?1 L:L:N9 12.863923.41YesYes100
12H:H:?1 L:L:I10 12.83542.56YesYes100
13L:L:N9 R:R:F25 10.44271.21YesYes003
14R:R:E277 R:R:Y40 26.81593.37YesYes267
15R:R:L86 R:R:Y40 21.358214.07NoYes087
16R:R:E277 R:R:F281 35.35019.33YesYes267
17R:R:F44 R:R:L86 20.01372.44YesNo068
18R:R:F44 R:R:V83 15.91183.93YesNo066
19R:R:L248 R:R:Y244 99.9433.52NoYes056
20R:R:L248 R:R:N189 99.97729.61NoNo055
21R:R:N189 R:R:T252 1004.39NoYes056
22R:R:M193 R:R:T252 95.31133.01NoYes1056
23R:R:H245 R:R:M193 98.46182.63NoNo085
24R:R:H245 R:R:W241 98.0633.17NoNo088
25R:R:H283 R:R:W241 97.846511.64YesNo098
26R:R:H283 R:R:N287 84.90292.55YesNo099
27R:R:I122 R:R:N287 84.31042.83NoNo089
28R:R:I122 R:R:Y291 83.70653.63NoYes089
29R:R:I125 R:R:Y291 77.0413.63NoYes089
30R:R:F72 R:R:I125 51.26762.51NoNo088
31R:R:F72 R:R:V292 14.72687.87NoYes087
32R:R:F72 R:R:I58 36.61482.51NoYes086
33R:R:I58 R:R:I73 13.58172.94YesYes065
34R:R:D69 R:R:I58 22.850811.2NoYes586
35R:R:D69 R:R:Q65 22.60012.61NoNo086
36R:R:Q65 R:R:R62 19.93393.5NoNo065
37R:R:E301 R:R:R62 18.58375.82YesNo045
38R:R:E301 R:R:T57 13.0691.41YesNo046
39R:R:L305 R:R:T57 11.66181.47YesNo046
40R:R:I125 R:R:Y71 37.79982.42NoYes087
41R:R:S67 R:R:Y71 11.66182.54YesYes667
42R:R:E124 R:R:Y71 25.323317.96NoYes067
43R:R:E124 R:R:W151 24.01310.9NoNo066
44R:R:F121 R:R:W151 20.01375.01YesNo076
45R:R:F121 R:R:W152 11.52515.01YesYes779
46R:R:F111 R:R:F281 29.79556.43NoYes077
47R:R:A114 R:R:F82 11.22884.16NoNo087
48L:L:?1 R:R:C173 15.91181.7YesNo009
49R:R:C104 R:R:C173 14.52177.28NoNo099
50R:R:C104 R:R:T167 13.12033.38NoYes094
51R:R:F111 R:R:Y112 22.32675.16NoNo075
52R:R:H162 R:R:Y112 21.016311.98YesNo045
53R:R:F237 R:R:H283 37.79983.39NoYes099
54R:R:F237 R:R:L119 31.7042.44NoYes097
55R:R:L119 R:R:P200 27.90988.21YesNo079
56R:R:P200 R:R:T123 21.35823.5NoNo097
57R:R:T123 R:R:V203 20.01373.17NoNo076
58R:R:C207 R:R:V203 17.29051.71NoNo066
59R:R:C207 R:R:Y130 14.52176.72NoYes068
60R:R:I186 R:R:T252 15.91183.04NoYes036
61R:R:F293 R:R:V292 10.64213.93NoYes077
62L:L:?1 L:L:H2 15.78654.13YesNo200
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
H:H:?1 L:L:N9 23.41 1 Yes Yes 0 0 1 0
H:H:?1 L:L:I10 2.56 1 Yes Yes 0 0 1 0
H:H:?1 L:L:Q28 4.78 1 Yes No 0 0 1 0
H:H:?1 L:L:Q31 5.97 1 Yes No 0 0 1 0
H:H:?1 R:R:T26 11.9 1 Yes No 0 4 1 2
L:L:?1 R:R:W89 6.09 2 Yes Yes 0 7 0 1
L:L:?1 R:R:T108 3.15 2 Yes No 0 6 0 1
L:L:H2 R:R:W89 4.23 2 No Yes 0 7 0 1
L:L:H2 R:R:E277 2.46 2 No Yes 0 6 0 1
L:L:H3 R:R:L273 5.14 0 No No 0 5 0 1
L:L:G4 R:R:I274 3.53 0 No No 0 5 0 1
L:L:K7 R:R:L93 2.82 0 No No 0 6 0 1
L:L:N9 R:R:V24 5.91 1 Yes No 0 2 0 1
L:L:C12 R:R:P22 3.77 0 No No 0 3 0 1
L:L:K14 R:R:A20 3.21 0 No No 0 4 0 1
L:L:P20 R:R:D15 3.22 0 No No 0 4 0 1
L:L:L23 R:R:D15 4.07 0 No No 0 4 0 1
L:L:A32 R:R:D170 3.09 0 No No 0 1 0 1
L:L:S33 R:R:Q172 5.78 1 Yes No 0 3 0 1
L:L:R37 R:R:D178 5.96 0 No No 0 6 0 1
L:L:Q45 R:R:E18 3.82 0 Yes No 0 3 0 1
L:L:L48 R:R:P22 3.28 0 No No 0 3 0 1
L:L:F49 R:R:E18 5.83 0 No No 0 3 0 1
R:R:D15 R:R:Y16 9.2 0 No No 4 5 1 2
R:R:F25 R:R:V28 3.93 0 Yes No 3 4 1 2
R:R:I274 R:R:S32 9.29 0 No No 5 3 1 2
R:R:K33 R:R:L93 8.46 0 No No 4 6 2 1
R:R:E277 R:R:Y40 3.37 2 Yes Yes 6 7 1 2
R:R:F281 R:R:Y40 7.22 2 Yes Yes 7 7 2 2
R:R:W89 R:R:Y92 8.68 2 Yes No 7 6 1 2
R:R:Q172 R:R:Y92 4.51 0 No No 3 6 1 2
R:R:H96 R:R:Q172 2.47 0 No No 5 3 2 1
R:R:C104 R:R:C173 7.28 0 No No 9 9 2 1
R:R:D170 R:R:K169 15.21 0 No No 1 3 1 2
R:R:D176 R:R:D178 6.65 0 No No 4 6 2 1
R:R:L248 R:R:Y244 3.52 0 No Yes 5 6 2 1
R:R:T276 R:R:Y244 3.75 0 No Yes 6 6 2 1
R:R:E277 R:R:Y244 6.73 2 Yes Yes 6 6 1 1
R:R:E277 R:R:F281 9.33 2 Yes Yes 6 7 1 2
R:R:M174 R:R:Y177 2.39 0 No No 4 5 1 2
R:R:L107 R:R:W89 2.28 0 No Yes 5 7 2 1
R:R:P22 R:R:T21 1.75 0 No No 3 3 1 2
L:L:?1 R:R:C173 1.7 2 Yes No 0 9 0 1
L:L:C34 R:R:M174 1.62 1 Yes No 0 4 0 1
R:R:L37 R:R:L93 1.38 0 No No 4 6 2 1
R:R:A280 R:R:Y244 1.33 0 No Yes 8 6 2 1
R:R:F25 R:R:K270 1.24 0 Yes No 3 4 1 2
L:L:N9 R:R:F25 1.21 1 Yes Yes 0 3 0 1
L:L:H3 R:R:Y244 1.09 0 No Yes 0 6 0 1
R:R:F25 R:R:R267 1.07 0 Yes No 3 3 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 7RKF_nogp
Class
SubFamily
Type
SubType
Species
Ligand
Other Ligand(s)
Protein Partners
PDB Resolution
Date
D.O.I.
Net Summary
Imin 2.42
Number of Linked Nodes 328
Number of Links 336
Number of Hubs 34
Number of Links mediated by Hubs 129
Number of Communities 10
Number of Nodes involved in Communities 37
Number of Links involved in Communities 40
Path Summary
Number Of Nodes in MetaPath 63
Number Of Links MetaPath 62
Number of Shortest Paths 35582
Length Of Smallest Path 3
Average Path Length 16.1575
Length of Longest Path 35
Minimum Path Strength 1.14
Average Path Strength 4.85965
Maximum Path Strength 17.655
Minimum Path Correlation 0.86
Average Path Correlation 0.98432
Maximum Path Correlation 1
Minimum % Of Corr. Nodes 16.6667
Average % Of Corr. Nodes 88.277
Maximum % Of Corr. Nodes 100
Minimum Path Hubs % 0
Average Path Hubs % 34.3399
Maximum Path Hubs % 100

Details about the values in these tables can be found in the corresponding documentation page .
CodeNAG
PDB ResiduesH:H:?1
Environment DetailsOpen EMBL-EBI Page
CodeNAG
NameN-Acetylglucosamine
SynonymsN-Acetylglucosamine
Identifier
FormulaC8 H15 N O6
Molecular Weight221.208
SMILES
PubChem24139
Formal Charge0
Total Atoms30
Total Chiral Atoms5
Total Bonds30
Total Aromatic Bonds0

CodePCA
PDB ResiduesL:L:?1
Environment DetailsOpen EMBL-EBI Page
CodePCA
NamePidolic acid
SynonymsL-pyroglutamic acid
Identifier
FormulaC5 H7 N O3
Molecular Weight129.114
SMILES
PubChem7405
Formal Charge0
Total Atoms16
Total Chiral Atoms1
Total Bonds16
Total Aromatic Bonds0

CodeGDP
PDB ResiduesO:O:?1
Environment DetailsOpen EMBL-EBI Page
CodeGDP
NameGuanosine-5'-Diphosphate
SynonymsGuanosine-5'-Diphosphate
Identifier
FormulaC10 H15 N5 O11 P2
Molecular Weight443.201
SMILES
PubChem8977
Formal Charge0
Total Atoms43
Total Chiral Atoms4
Total Bonds45
Total Aromatic Bonds5

PDBsumOpen PDBsum Page
ChainR
ProteinReceptor
UniProtP69332
Sequence
>7RKF_nogp_Chain_R
DYDEDATPC VFTDVLNQS KPVTLFLYG VVFLFGSIG NFLVIFTIT 
WRRRIQCSG DVYFINLAA ADLLFVCTL PLWMQYLLD HNSLASVPC 
TLLTACFYV AMFASLCFI TEIALDRYY AIVYMRYRP VKQACLFSI 
FWWIFAVII AIPHFMVVT KKDNQCMTD YDYLEVSYP IILNVELML 
GAFVIPLSV ISYCYYRIS RIVAVSQSR HKGRIVRVL IAVVLVFII 
FWLPYHLTL FVDTLKLLK WISSSCEFE RSLKRALIL TESLAFCHC 
CLNPLLYVF VGTKFRQEL HCLLAEFR


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
7RKFAOtherUnclassifiedUS28Human betaherpesvirus 5FractalkineGDPchim(NtGi1-G11)/β1/γ242022-01-26doi.org/10.1126/sciadv.abl5442
7RKF (No Gprot) AOtherUnclassifiedUS28Human betaherpesvirus 5FractalkineGDP42022-01-26doi.org/10.1126/sciadv.abl5442
7RKMAOtherUnclassifiedUS28Human betaherpesvirus 5Fractalkine-Gi1/β1/γ23.52022-01-26doi.org/10.1126/sciadv.abl5442
7RKM (No Gprot) AOtherUnclassifiedUS28Human betaherpesvirus 5Fractalkine-3.52022-01-26doi.org/10.1126/sciadv.abl5442
7RKNAOtherUnclassifiedUS28Human betaherpesvirus 5Fractalkine-Gi1/β1/γ23.62022-01-26doi.org/10.1126/sciadv.abl5442
7RKN (No Gprot) AOtherUnclassifiedUS28Human betaherpesvirus 5Fractalkine-3.62022-01-26doi.org/10.1126/sciadv.abl5442
4XT1AOtherUnclassifiedUS28Human cytomegalovirus (strain ad169)Fractalkine--2.892015-03-04doi.org/10.1126/science.aaa5026
4XT3AOtherUnclassifiedUS28Human cytomegalovirus (strain ad169)Fractalkine--3.82015-03-04doi.org/10.1126/science.aaa5026
5WB1AOtherUnclassifiedUS28Human cytomegalovirus (strain towne)---3.512018-06-13doi.org/10.7554/eLife.35850
5WB2AOtherUnclassifiedUS28Human cytomegalovirus (strain towne)CX3CL1.35--3.52018-06-13doi.org/10.7554/eLife.35850




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 7RKF_nogp.zip



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