1LAR.B | PTPRF

General Structure Information

PDB ID	1lar
HGNC Gene Label(s)	PTPRF
Structure Name	crystal structure of the tandem phosphatase domains of rptp lar
Resolution	2.0Å
Reference	AUTH H.J.NAM,F.POY,N.X.KRUEGER,H.SAITO,C.A.FREDERICKTITL CRYSTAL STRUCTURE OF THE TANDEM PHOSPHATASETITL 2 DOMAINS OF RPTP LAR.REF CELL(CAMBRIDGE,MASS.) V. 97 449 1999REFN ISSN 0092-8674PMID 10338209DOI 10.1016/S0092-8674(00)80755-2

Variant Set Distributions

ExAC Variants

Number Of Residues	533
Number Of SNVs	131
Number Of Permutations	37868
Optimal Distance Threshold	6.0
K Statistic	0.008
p-value	0.939

COSMIC

Number Of Residues	533
Number Of SNVs	4
Number Of Permutations	38
Optimal Distance Threshold	12.0
K Statistic	0.167
p-value	0.595

Ripley’s K Analysis Plots

ExACCOSMIC

Variant Set Comparisons

Cosmic vs. ExAC

Number Of ExAC SNVs	131
Number Of COSMIC SNVs	8
Optimal Distance Threshold	5.0
K Statistic	0.033
p-value	0.409

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
1:44083141		T>M	B:1340	(58.83, 10.14, 111.50)
1:44083152		S>P	B:1344	(52.27, 3.55, 109.90)
1:44083186		Y>C	B:1355	(40.71, 4.80, 113.62)
1:44083189	COSM909882	A>V	B:1356	(44.37, 6.59, 108.99)
1:44083209		H>D	B:1363	(59.96, 8.52, 118.82)
1:44083218		V>I	B:1366	(56.15, -0.86, 120.05)
1:44083222		I>T	B:1367	(59.60, -2.59, 117.59)
1:44083228		T>I	B:1369	(60.21, -9.67, 116.75)
1:44083409		V>I	B:1374	(57.47, -10.85, 106.62)
1:44083415	rs202116615	G>R	B:1376	(56.12, -5.44, 108.66)
1:44083452		Y>C	B:1388	(57.08, 9.38, 139.22)
1:44083454		R>C	B:1389	(62.15, 8.69, 138.75)
1:44083455	rs370637531 COSM909883	R>H	B:1389	(62.15, 8.69, 138.75)
1:44083479	COSM4008283 COSM4008284	T>M	B:1397	(47.31, 0.33, 121.61)
1:44083508		D>N	B:1407	(50.62, -8.58, 115.93)
1:44083536	rs367870850	R>H	B:1416	(58.29, -9.96, 130.46)
1:44083541		A>T	B:1418	(50.59, -8.48, 133.11)
1:44083554	rs535518899	M>T	B:1422	(39.43, -2.46, 127.54)
1:44083562	rs367752429 COSM1222636	R>W	B:1425	(31.83, 0.00, 126.32)
1:44083563	rs549116245	R>Q	B:1425	(31.83, 0.00, 126.32)
1:44084328	COSM3490007 COSM3490008	R>C	B:1441	(33.47, -19.89, 125.89)
1:44084329		R>H	B:1441	(33.47, -19.89, 125.89)
1:44084362		T>I	B:1452	(43.38, -19.65, 128.47)
1:44084370	rs146964251	D>H	B:1455	(38.21, -15.72, 136.14)
1:44084377		V>G	B:1457	(34.94, -10.62, 137.94)
1:44084385		A>S	B:1460	(29.37, -2.12, 138.33)
1:44084391	rs371587895	Y>H	B:1462	(35.60, -3.30, 137.59)
1:44084394		T>A	B:1463	(35.33, -6.70, 133.86)
1:44084395		T>S	B:1463	(35.33, -6.70, 133.86)
1:44084400	COSM909885	R>C	B:1465	(37.89, -10.46, 131.36)
1:44084401	rs375234489 COSM3400816 COSM3400817	R>H	B:1465	(37.89, -10.46, 131.36)
1:44084409	rs202030226	A>T	B:1468	(46.73, -18.14, 130.23)
1:44084720	rs142031392	S>T	B:1472	(55.01, -21.00, 120.21)
1:44084737		R>C	B:1478	(54.07, -15.46, 130.39)
1:44084738		R>H	B:1478	(54.07, -15.46, 130.39)
1:44084740	rs190997680	E>K	B:1479	(49.07, -15.12, 135.12)
1:44084743	rs17849118	L>V	B:1480	(47.12, -11.57, 131.19)
1:44084758		F>L	B:1485	(35.83, 1.75, 132.95)
1:44084780	rs113456929	G>E	B:1492	(31.63, 12.14, 127.01)
1:44084801		P>L	B:1499	(34.45, 5.72, 139.47)
1:44084821		R>W	B:1506	(41.06, -4.12, 141.45)
1:44084822		R>Q	B:1506	(41.06, -4.12, 141.45)
1:44084827		K>E	B:1508	(48.80, 0.26, 141.60)
1:44084830		A>T	B:1509	(46.99, -4.01, 143.04)
1:44084837		N>S	B:1511	(50.59, -4.78, 138.18)
1:44084842		L>V	B:1513	(56.61, -6.39, 141.77)
1:44084848	COSM1667508	A>T	B:1515	(55.71, -6.41, 135.19)
1:44084858	rs563305665	M>T	B:1518	(50.31, -1.31, 131.89)
1:44084960		A>T	B:1524	(42.58, 4.99, 118.97)
1:44084961		A>V	B:1524	(42.58, 4.99, 118.97)
1:44084966	rs370996086	V>M	B:1526	(44.59, 8.67, 122.07)
1:44084972	COSM4008285 COSM4008286	R>C	B:1528	(38.13, 6.22, 126.56)
1:44084973		R>H	B:1528	(38.13, 6.22, 126.56)
1:44084978		G>S	B:1530	(45.42, 9.04, 128.25)
1:44084987	rs548137409	I>V	B:1533	(48.41, 6.85, 131.17)
1:44084990	rs545781120 COSM1667509	V>M	B:1534	(47.84, 11.22, 133.02)
1:44085002		M>V	B:1538	(50.45, 12.39, 137.90)
1:44085003		M>T	B:1538	(50.45, 12.39, 137.90)
1:44085012	rs139472475	R>Q	B:1541	(54.17, 14.25, 140.58)
1:44085014		M>V	B:1542	(50.05, 13.06, 144.56)
1:44085030		T>M	B:1547	(53.45, 17.58, 142.78)
1:44085035	rs374607021	D>N	B:1549	(52.90, 18.87, 135.17)
1:44085042		Y>C	B:1551	(50.96, 21.97, 129.88)
1:44085051		V>A	B:1554	(49.33, 16.12, 128.36)
1:44085059		M>V	B:1557	(51.68, 11.98, 126.44)
1:44085060		M>T	B:1557	(51.68, 11.98, 126.44)
1:44085061		M>I	B:1557	(51.68, 11.98, 126.44)
1:44085066		S>L	B:1559	(55.62, 13.26, 122.04)
1:44085080		M>V	B:1564	(47.75, 11.24, 124.07)
1:44085090	rs377575574	T>M	B:1567	(39.32, 16.15, 124.36)
1:44085104		V>M	B:1572	(38.76, 19.00, 132.46)
1:44085114	rs371076941	H>R	B:1575	(42.82, 18.92, 135.72)
1:44085117		E>A	B:1576	(37.46, 17.56, 137.69)
1:44085119	rs558223872	A>S	B:1577	(40.28, 13.58, 139.18)
1:44085120	rs373838949 COSM3400818 COSM3400819	A>V	B:1577	(40.28, 13.58, 139.18)
1:44085138	rs145211050	T>M	B:1583	(40.69, 16.08, 148.71)
1:44085143	rs200975835	G>S	B:1585	(42.36, 9.90, 149.43)
1:44085144		G>D	B:1585	(42.36, 9.90, 149.43)
1:44085152		E>Q	B:1588	(40.91, 0.97, 150.95)
1:44085162		A>V	B:1591	(39.96, -6.47, 157.20)
1:44085165		R>H	B:1592	(44.56, -8.46, 158.79)
1:44085167	rs202169828	N>Y	B:1593	(44.00, -3.21, 159.66)
1:44085173	rs142117073	Y>H	B:1595	(39.76, -3.05, 166.87)
1:44085179		H>Y	B:1597	(40.35, 2.75, 160.78)
1:44085186		Q>R	B:1599	(39.81, 1.94, 168.22)
1:44085194	rs150085995	G>S	B:1602	(38.03, 8.23, 168.09)
1:44085200		V>M	B:1604	(41.74, 14.03, 168.31)
1:44085203		P>S	B:1605	(43.35, 14.62, 165.07)
1:44085217		S>R	B:1609	(39.25, 19.96, 167.98)
1:44085219	rs565355095	V>A	B:1610	(36.91, 16.85, 166.84)
1:44085361	COSM292072	S>N	B:1622	(33.18, 18.35, 152.42)
1:44085381		R>C	B:1629	(20.34, 17.55, 139.33)
1:44085382		R>H	B:1629	(20.34, 17.55, 139.33)
1:44085397		N>S	B:1634	(10.70, 21.46, 143.36)
1:44085402	rs565463212	P>S	B:1636	(3.88, 22.68, 141.57)
1:44085406		C>Y	B:1637	(2.39, 18.80, 140.62)
1:44085421	rs534381986	N>S	B:1642	(7.59, 15.05, 148.32)
1:44085424	COSM909888	R>Q	B:1643	(6.62, 11.37, 153.92)
1:44085477		R>C	B:1661	(-4.08, 10.14, 128.76)
1:44085522	rs139706869	G>S	B:1676	(26.15, -1.74, 143.36)
1:44085780		Y>C	B:1683	(20.37, -1.42, 145.65)
1:44085782		I>L	B:1684	(15.02, 1.74, 144.14)
1:44085815	COSM909889 COSM72350	E>K	B:1695	(-1.74, 3.99, 143.02)
1:44085827		R>C	B:1699	(2.97, 3.64, 138.50)
1:44085828	COSM681263	R>H	B:1699	(2.97, 3.64, 138.50)
1:44085832		M>I	B:1700	(8.30, 1.96, 141.01)
1:44085836		W>R	B:1702	(4.54, -4.96, 137.01)
1:44085843		H>R	B:1704	(11.35, 0.21, 137.05)
1:44085844	rs145235828	H>Q	B:1704	(11.35, 0.21, 137.05)
1:44085846	rs142050471	N>S	B:1705	(11.20, -5.91, 137.22)
1:44085857		I>V	B:1709	(9.98, -4.41, 149.28)
1:44085860		V>I	B:1710	(13.46, -3.13, 152.23)
1:44085869		T>A	B:1713	(10.17, 1.84, 159.39)
1:44085878		R>W	B:1716	(2.48, 5.77, 163.58)
1:44085879		R>Q	B:1716	(2.48, 5.77, 163.58)
1:44086155		R>G	B:1731	(-9.83, -6.90, 150.08)
1:44086156	rs372799990 COSM284381	R>H	B:1731	(-9.83, -6.90, 150.08)
1:44086158		S>P	B:1732	(-7.43, -8.19, 147.77)
1:44086162		A>V	B:1733	(-6.14, -4.68, 146.31)
1:44086186		D>A	B:1741	(-3.46, -11.05, 146.29)
1:44086189		P>L	B:1742	(-2.77, -10.92, 150.65)
1:44086194		A>T	B:1744	(1.97, -14.26, 153.69)
1:44086201		Y>F	B:1746	(5.89, -15.58, 157.42)
1:44086204		N>S	B:1747	(5.22, -11.97, 162.49)
1:44086209		P>S	B:1749	(11.70, -11.43, 166.66)
1:44086248		R>W	B:1762	(-2.49, -4.00, 131.77)
1:44086530		R>W	B:1770	(9.08, -12.41, 147.94)
1:44086531		R>L	B:1770	(9.08, -12.41, 147.94)
1:44086566		V>M	B:1782	(21.46, 3.57, 166.31)
1:44086602		G>W	B:1794	(20.72, -11.77, 154.47)
1:44086644		P>S	B:1808	(15.55, -3.69, 141.45)
1:44086651		T>M	B:1810	(12.81, -1.27, 146.75)
1:44086787		G>R	B:1821	(22.00, 3.79, 153.78)
1:44086797		I>T	B:1824	(22.40, 0.40, 150.34)
1:44086808		I>V	B:1828	(28.02, -2.55, 148.94)
1:44086811	rs150260807	V>I	B:1829	(30.84, -3.06, 152.58)
1:44086827	rs373895014 COSM1502929	R>H	B:1834	(31.78, -11.90, 151.43)
1:44086829		Y>H	B:1835	(33.56, -12.10, 147.50)
1:44086838		V>M	B:1838	(38.90, -4.45, 151.36)
1:44086844		D>N	B:1840	(36.42, 2.36, 151.22)
1:44086849		M>I	B:1841	(32.68, 2.98, 154.73)
1:44086854		Q>P	B:1843	(35.20, 6.34, 148.51)
1:44086859	COSM1263472	V>M	B:1845	(28.88, 6.94, 151.34)
1:44086869		L>R	B:1848	(25.72, 6.01, 147.43)
1:44086872		R>H	B:1849	(26.14, 11.42, 150.04)
1:44086875	rs368302488	T>I	B:1850	(26.53, 10.86, 143.41)
1:44087616	rs200249684	Q>R	B:1863	(29.69, 5.63, 164.41)
1:44087628	rs141490430	R>H	B:1867	(28.92, 0.21, 165.34)
1:44087631		A>V	B:1868	(28.75, -3.91, 161.50)
1:44087645		L>F	B:1873	(35.40, -9.42, 160.23)
1:44087648		G>S	B:1874	(33.88, -12.16, 163.19)

1LAR.B | PTPRF.

1LAR.B | PTPRF

General Structure Information

Variant Set Distributions

Ripley’s K Analysis Plots

Variant Set Comparisons

Mapped Variants

[+] ExAC Missense Variants

[+] COSMIC Missense Variants