4M4R.C | EPHA4

General Structure Information

PDB ID	4m4r
HGNC Gene Label(s)	EPHA4
Structure Name	epha4 ectodomain complex with ephrin a5
Resolution	3.13Å
Reference	AUTH K.XU,D.TZVETKOVA-ROBEV,Y.XU,Y.GOLDGUR,Y.P.CHAN,J.P.HIMANEN,AUTH 2 D.B.NIKOLOVTITL INSIGHTS INTO EPH RECEPTOR TYROSINE KINASE ACTIVATION FROMTITL 2 CRYSTAL STRUCTURES OF THE EPHA4 ECTODOMAIN AND ITS COMPLEXTITL 3 WITH EPHRIN-A5.REF PROC.NATL.ACAD.SCI.USA V. 110 14634 2013REFN ISSN 0027-8424PMID 23959867DOI 10.1073/PNAS.1311000110

Variant Set Distributions

ExAC Variants

Number Of Residues	516
Number Of SNVs	91
Number Of Permutations	74557
Optimal Distance Threshold	13.0
K Statistic	0.05
p-value	0.522

COSMIC

Number Of Residues	516
Number Of SNVs	9
Number Of Permutations	13778
Optimal Distance Threshold	23.0
K Statistic	0.111
p-value	0.878

Ripley’s K Analysis Plots

ExACCOSMIC

Variant Set Comparisons

Cosmic vs. ExAC

Number Of ExAC SNVs	91
Number Of COSMIC SNVs	7
Optimal Distance Threshold	8.0
K Statistic	0.031
p-value	0.563

Pathogenic Proximity Analysis

COSMIC PathProx Analysis

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
2:222436886		A>G	C:28	(-95.31, -13.05, -45.84)
2:222436887		A>T	C:28	(-95.31, -13.05, -45.84)
2:222433487		R>T	C:37	(-93.66, -14.30, -27.34)
2:222433484		S>F	C:38	(-90.73, -8.71, -28.76)
2:222433475	rs201423814 COSM122867 COSM122868	G>A	C:41	(-89.25, -5.90, -21.13)
2:222433458		A>T	C:47	(-103.47, -2.48, -14.54)
2:222433453		S>R	C:48	(-107.29, -2.05, -13.39)
2:222433454		S>N	C:48	(-107.29, -2.05, -13.39)
2:222433451		P>L	C:49	(-106.54, -3.44, -10.40)
2:222429101		S>N	C:58	(-91.53, -14.52, -14.32)
2:222429094		M>I	C:60	(-90.18, -20.53, -18.87)
2:222429060	rs369440148	V>L	C:72	(-105.29, -13.80, -12.71)
2:222429053		N>S	C:74	(-108.39, -13.63, -7.84)
2:222429054	rs139915472	N>H	C:74	(-108.39, -13.63, -7.84)
2:222429045		E>K	C:77	(-112.18, -13.46, -4.21)
2:222429021	rs374795790 COSM4091861 COSM4091862	R>G	C:85	(-104.33, -0.39, -21.53)
2:222429015		D>Y	C:87	(-99.42, 0.03, -25.05)
2:222429002		R>Q	C:91	(-105.00, 1.45, -38.84)
2:222429003	COSM4091859 COSM4091860	R>G	C:91	(-105.00, 1.45, -38.84)
2:222428987		R>K	C:96	(-110.47, -6.79, -40.47)
2:222428984		V>A	C:97	(-106.79, -6.48, -37.09)
2:222428985	rs144149406	V>L	C:97	(-106.79, -6.48, -37.09)
2:222428948		N>S	C:109	(-112.74, -29.20, -10.66)
2:222428937		G>S	C:113	(-113.61, -24.69, -2.63)
2:222428934	COSM3407601 COSM3407602	V>I	C:114	(-113.90, -22.67, -5.49)
2:222428930	rs200482476	M>T	C:115	(-118.55, -24.35, -5.15)
2:222428895	rs371268826	Y>H	C:127	(-110.03, 1.27, -26.23)
2:222428871	COSM1405767 COSM1405768	R>G	C:135	(-100.95, 8.64, -19.46)
2:222428847		V>F	C:143	(-115.70, -2.74, -27.84)
2:222428843		K>R	C:144	(-117.08, -7.94, -25.90)
2:222428840	COSM3391513 COSM3391514	I>T	C:145	(-113.69, -8.79, -29.43)
2:222428836		D>E	C:146	(-115.46, -12.85, -27.86)
2:222428745		S>G	C:177	(-111.09, 4.43, -38.45)
2:222428741		K>T	C:178	(-109.80, 6.07, -35.19)
2:222428742		K>Q	C:178	(-109.80, 6.07, -35.19)
2:222428730		Y>H	C:182	(-105.53, 1.76, -26.69)
2:222428714		D>G	C:187	(-110.74, -11.49, -14.70)
2:222428709		G>R	C:189	(-112.61, -15.37, -12.15)
2:222428661		P>S	C:205	(-97.48, -10.70, -51.37)
2:222428657		L>P	C:206	(-94.21, -8.13, -54.43)
2:222428652		V>F	C:208	(-94.75, -11.69, -60.97)
2:222428648	rs144035247	R>H	C:209	(-98.99, -14.00, -60.85)
2:222428649		R>C	C:209	(-98.99, -14.00, -60.85)
2:222428621		I>T	C:218	(-103.15, -3.84, -47.20)
2:222428606		T>M	C:223	(-113.22, -11.63, -43.74)
2:222428600		S>F	C:225	(-112.81, -8.35, -48.92)
2:222428592	COSM1718745 COSM1718746	E>K	C:228	(-109.12, -3.98, -58.46)
2:222428582		G>V	C:231	(-100.52, -4.05, -63.17)
2:222428570		N>S	C:235	(-88.75, -4.96, -68.39)
2:222428571		N>H	C:235	(-88.75, -4.96, -68.39)
2:222428567		N>S	C:236	(-88.79, -6.46, -72.06)
2:222428560		E>D	C:238	(-96.37, -4.80, -74.20)
2:222428504		I>T	C:257	(-107.74, -10.76, -65.13)
2:222428485		N>K	C:263	(-91.24, -8.13, -76.32)
2:222428483		A>G	C:264	(-89.63, -10.04, -79.70)
2:222428468	rs35084379	R>Q	C:269	(-86.07, -17.92, -68.48)
2:222365877	rs200631562	Y>C	C:280	(-81.78, -20.75, -79.58)
2:222365868		A>G	C:283	(-90.78, -13.68, -84.10)
2:222365869	rs146488160	A>T	C:283	(-90.78, -13.68, -84.10)
2:222365866		L>F	C:284	(-94.29, -13.11, -83.32)
2:222365863		S>P	C:285	(-95.37, -11.71, -79.09)
2:222365859	rs200225096	T>M	C:286	(-97.92, -14.51, -80.14)
2:222365799	rs537081277 COSM210124	S>L	C:306	(-84.43, -13.07, -87.25)
2:222365787		D>G	C:310	(-76.29, -19.47, -93.83)
2:222365763	rs139457656	N>S	C:318	(-93.12, -16.03, -99.83)
2:222365761		D>N	C:319	(-90.91, -15.71, -94.66)
2:222365740		T>A	C:326	(-83.27, -22.16, -99.36)
2:222347389		N>I	C:334	(-84.33, -36.34, -118.73)
2:222347376		N>K	C:338	(-93.04, -34.84, -130.18)
2:222347320	COSM269110 COSM3782129 COSM3782128 COSM269111	R>H	C:357	(-88.32, -24.56, -101.71)
2:222347290		K>R	C:367	(-85.29, -19.11, -128.82)
2:222347281	COSM21131	G>E	C:370	(-79.45, -19.44, -136.17)
2:222347270		P>A	C:374	(-74.60, -17.57, -131.97)
2:222347266		S>I	C:375	(-77.08, -16.97, -128.89)
2:222347257		R>Q	C:378	(-86.14, -11.56, -132.45)
2:222347242		G>V	C:383	(-100.04, -16.53, -130.61)
2:222347236		H>R	C:385	(-101.08, -21.45, -125.82)
2:222347201		K>E	C:397	(-96.22, -32.69, -119.74)
2:222347184		D>E	C:402	(-100.23, -21.93, -133.70)
2:222347179		L>P	C:404	(-93.69, -21.41, -138.75)
2:222347173		H>R	C:406	(-88.58, -26.25, -142.69)
2:222347121		N>K	C:423	(-78.87, -17.02, -107.55)
2:222347122		N>S	C:423	(-78.87, -17.02, -107.55)
2:222347111		D>N	C:427	(-77.39, -23.87, -114.18)
2:222347098		S>F	C:431	(-82.03, -26.60, -124.15)
2:222347093	rs537001502	T>A	C:433	(-82.78, -27.18, -131.05)
2:222322686		Q>R	C:448	(-92.84, -16.13, -166.47)
2:222322665		Y>C	C:455	(-94.62, -25.82, -183.89)
2:222322636		D>H	C:465	(-94.26, -17.23, -151.18)
2:222322632	rs375452175	R>Q	C:466	(-95.95, -20.04, -147.95)
2:222322633	rs199981171	R>W	C:466	(-95.95, -20.04, -147.95)
2:222321483		E>K	C:485	(-109.94, -32.58, -179.19)
2:222321479	rs368046283	R>Q	C:486	(-109.81, -29.82, -172.65)
2:222321468		I>V	C:490	(-98.42, -33.91, -166.43)
2:222321456	rs184634347	A>T	C:494	(-86.43, -29.84, -160.61)
2:222321453		A>T	C:495	(-86.32, -27.02, -162.49)
2:222321446		N>S	C:497	(-86.94, -24.16, -166.06)
2:222321447		N>D	C:497	(-86.94, -24.16, -166.06)
2:222321431		G>D	C:502	(-95.57, -30.11, -179.61)
2:222321420	rs552992707	L>F	C:506	(-102.24, -20.04, -184.16)
2:222321344	rs145616014	T>K	C:531	(-101.54, -18.39, -177.76)
2:222320369	COSM122865 COSM122866	R>Q	C:538	(-84.82, -21.95, -182.29)
2:222320363	rs556830861	I>T	C:540	(-88.22, -26.87, -187.81)
2:222320364		I>V	C:540	(-88.22, -26.87, -187.81)

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
2:222428898	COSM4091855	Y>H	C:126	(-112.02, -2.96, -30.15)
2:222428871	COSM1405768	R>C	C:135	(-100.95, 8.64, -19.46)
2:222428676	COSM3426128	F>L	C:200	(-102.08, -10.48, -37.30)
2:222428592	COSM1718746	E>K	C:228	(-109.12, -3.98, -58.46)
2:222365784	COSM1205457	R>Q	C:311	(-71.04, -18.02, -97.44)
2:222347308	COSM230958	S>F	C:361	(-91.92, -23.95, -111.29)
2:222347282	COSM1405758	G>R	C:370	(-79.45, -19.44, -136.17)
2:222347228	COSM1614433	P>S	C:388	(-101.14, -25.36, -120.02)
2:222347194	COSM3045928	S>F	C:399	(-98.05, -28.33, -125.66)
2:222347195	COSM1405753	S>P	C:399	(-98.05, -28.33, -125.66)
2:222321470	COSM1405751	R>P	C:489	(-101.11, -32.70, -172.27)
2:222321462	COSM173357	R>W	C:492	(-92.29, -35.34, -163.09)

4M4R.C | EPHA4.

4M4R.C | EPHA4

General Structure Information

Variant Set Distributions

Ripley’s K Analysis Plots

Variant Set Comparisons

Pathogenic Proximity Analysis

Mapped Variants

[+] ExAC Missense Variants

[+] COSMIC Missense Variants