1OG2.A | CYP2C9

General Structure Information

PDB ID	1og2
HGNC Gene Label(s)	CYP2C9
Structure Name	structure of human cytochrome p450 cyp2c9
Resolution	2.6Å
Reference	AUTH P.A.WILLIAMS,J.COSME,A.WARD,H.C.ANGOVE,AUTH 2 D.MATAK VINKOVIC,H.JHOTITITL CRYSTAL STRUCTURE OF HUMAN CYTOCHROME P450 2C9TITL 2 WITH BOUND WARFARINREF NATURE V. 424 464 2003REFN ISSN 0028-0836PMID 12861225DOI 10.1038/NATURE01862

Variant Set Distributions

ExAC Variants

Number Of Residues	461
Number Of SNVs	161
Number Of Permutations	57026
Optimal Distance Threshold	13.0
K Statistic	0.086
p-value	0.198

COSMIC

Number Of Residues	461
Number Of SNVs	18
Number Of Permutations	6481
Optimal Distance Threshold	19.0
K Statistic	0.124
p-value	0.09

Ripley’s K Analysis Plots

ExACCOSMIC

Variant Set Comparisons

Cosmic vs. ExAC

Number Of ExAC SNVs	161
Number Of COSMIC SNVs	14
Optimal Distance Threshold	8.0
K Statistic	-0.023
p-value	0.426

Pathogenic Proximity Analysis

COSMIC PathProx Analysis

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
10:96698528	rs142240658	P>L	A:30	(7.14, 62.13, 48.24)
10:96698533		G>R	A:32	(9.62, 68.54, 50.64)
10:96698539		T>S	A:34	(6.36, 72.74, 53.73)
10:96698543		P>L	A:35	(3.58, 74.18, 51.21)
10:96698546		L>R	A:36	(2.87, 78.79, 52.36)
10:96698548	COSM1284394	P>S	A:37	(-1.21, 78.61, 52.27)
10:96698554		I>F	A:39	(2.20, 81.22, 47.97)
10:96698558		G>V	A:40	(3.27, 77.60, 47.61)
10:96698561		N>I	A:41	(6.93, 75.95, 47.30)
10:96698563	rs111639787	I>V	A:42	(6.94, 81.20, 45.05)
10:96698574		I>M	A:45	(11.27, 78.44, 43.58)
10:96698576		G>D	A:46	(10.86, 81.58, 42.39)
10:96698585	rs564813580	D>G	A:49	(17.52, 80.41, 37.78)
10:96698587		I>V	A:50	(13.69, 77.67, 38.49)
10:96698597		S>F	A:53	(16.39, 76.73, 43.07)
10:96698603		T>I	A:55	(20.34, 72.33, 42.46)
10:96698606		N>S	A:56	(20.06, 74.74, 45.99)
10:96701636		V>M	A:64	(13.20, 62.47, 44.48)
10:96701646		L>P	A:67	(7.92, 71.54, 44.19)
10:96701654	rs371055887	G>R	A:70	(0.84, 76.28, 44.31)
10:96701655		G>D	A:70	(0.84, 76.28, 44.31)
10:96701658	rs538852786	L>R	A:71	(-2.60, 74.21, 44.83)
10:96701664		P>L	A:73	(1.52, 68.35, 42.59)
10:96701666	rs111808915	I>V	A:74	(5.68, 69.11, 40.77)
10:96701667		I>T	A:74	(5.68, 69.11, 40.77)
10:96701693		V>M	A:83	(17.07, 61.17, 34.88)
10:96701703		A>D	A:86	(12.99, 57.36, 34.63)
10:96701709	rs139656048	I>T	A:88	(16.04, 55.16, 30.10)
10:96701715	rs72558187	L>P	A:90	(10.71, 53.26, 34.35)
10:96701717	rs377542177	G>R	A:91	(9.89, 54.98, 30.03)
10:96701722		E>D	A:92	(6.01, 53.68, 28.50)
10:96701748		P>L	A:101	(-1.45, 76.26, 33.61)
10:96701758	rs367848139	E>D	A:104	(-4.10, 73.66, 29.83)
10:96701762		A>T	A:106	(-2.49, 78.38, 24.62)
10:96701763	COSM1135073	A>D	A:106	(-2.49, 78.38, 24.62)
10:96701768		R>G	A:108	(-7.69, 76.38, 21.32)
10:96701771	COSM3441990	G>R	A:109	(-4.75, 71.38, 20.01)
10:96701960		S>R	A:115	(0.14, 64.66, 22.70)
10:96701973		K>T	A:119	(-3.03, 61.97, 19.16)
10:96701987		R>W	A:124	(7.55, 60.62, 18.42)
10:96701990	rs375805362	R>C	A:125	(6.20, 54.81, 14.59)
10:96701997	rs530507053	S>F	A:127	(7.21, 62.17, 12.38)
10:96702003		M>K	A:129	(9.21, 57.14, 9.50)
10:96702011	rs199523631	R>W	A:132	(13.59, 58.21, 7.72)
10:96702012	rs200183364 COSM1718561 CM087577	R>Q	A:132	(13.59, 58.21, 7.72)
10:96702019		F>L	A:134	(17.43, 59.44, 1.93)
10:96702023	rs377477630	M>L	A:136	(10.31, 62.81, 2.61)
10:96702047	rs1799853	R>C	A:144	(15.50, 69.73, 2.25)
10:96702048	rs141489852	R>H	A:144	(15.50, 69.73, 2.25)
10:96702062		A>T	A:149	(23.99, 76.96, 4.29)
10:96702065	rs17847037	R>C	A:150	(24.08, 77.09, -0.78)
10:96702069	rs369217316	C>Y	A:151	(21.62, 80.81, 1.69)
10:96702072		L>P	A:152	(23.27, 81.44, 6.24)
10:96702077		E>K	A:154	(25.04, 85.16, -0.09)
10:96707539	rs72558190 CM057839	S>L	A:162	(29.01, 95.39, 9.06)
10:96707548		D>G	A:165	(21.78, 91.31, 15.61)
10:96707551	COSM3441997	P>L	A:166	(22.92, 87.77, 14.54)
10:96707565		G>C	A:171	(16.34, 82.38, 12.47)
10:96707569	rs147617899	C>S	A:172	(15.59, 82.54, 9.08)
10:96707571	rs373758696	A>T	A:173	(17.57, 79.06, 8.70)
10:96707574	rs199539783	P>A	A:174	(16.16, 77.33, 11.22)
10:96707578		C>F	A:175	(12.22, 78.31, 9.73)
10:96707587	rs142123260	I>S	A:178	(10.98, 73.40, 9.11)
10:96707592	rs367922573	S>P	A:180	(11.69, 72.55, 2.98)
10:96707593	rs200149294	S>F	A:180	(11.69, 72.55, 2.98)
10:96707595		I>V	A:181	(10.78, 69.51, 5.87)
10:96707610	rs150435881	R>C	A:186	(14.39, 78.31, 0.48)
10:96707622	rs200629270	K>E	A:190	(13.19, 89.10, 0.50)
10:96707648	COSM3442000	M>I	A:198	(9.80, 84.32, 11.34)
10:96707650		E>V	A:199	(5.88, 88.67, 12.54)
10:96707654		K>N	A:200	(3.26, 85.44, 13.88)
10:96707667		I>F	A:205	(9.81, 83.39, 21.38)
10:96707669		I>M	A:205	(9.81, 83.39, 21.38)
10:96707672	rs374225039	K>N	A:206	(8.78, 88.64, 22.89)
10:96707673		I>F	A:207	(4.70, 86.33, 24.74)
10:96707678	rs368462490	L>F	A:208	(6.61, 82.23, 25.95)
10:96707683		S>N	A:210	(7.83, 87.02, 30.37)
10:96707686		P>L	A:211	(9.34, 87.03, 33.59)
10:96707691	rs372756508	I>L	A:213	(4.90, 83.00, 32.07)
10:96707692	rs376006545	I>T	A:213	(4.90, 83.00, 32.07)
10:96707694		Q>K	A:214	(6.40, 80.46, 35.87)
10:96708875		N>I	A:218	(2.43, 79.54, 40.79)
10:96708895		Y>H	A:225	(-8.61, 88.17, 37.22)
10:96708907		T>P	A:229	(-0.84, 86.12, 27.85)
10:96708910		H>D	A:230	(-4.35, 83.19, 26.75)
10:96708912		H>Q	A:230	(-4.35, 83.19, 26.75)
10:96708926		K>R	A:235	(-4.61, 85.85, 17.63)
10:96708929	rs549167718	N>T	A:236	(-0.13, 84.08, 16.74)
10:96708931		V>I	A:237	(-1.39, 79.30, 16.61)
10:96708932		V>A	A:237	(-1.39, 79.30, 16.61)
10:96708935		A>V	A:238	(-4.46, 80.43, 14.15)
10:96708941	rs369745682	M>T	A:240	(0.73, 79.58, 12.23)
10:96708953		I>T	A:244	(-0.41, 75.36, 7.42)
10:96708974	rs2256871	H>R	A:251	(0.44, 70.15, -1.12)
10:96708986		M>R	A:255	(-1.11, 64.80, -4.02)
10:96708995		N>S	A:258	(2.92, 56.56, -5.74)
10:96708998		N>S	A:259	(5.77, 60.26, -6.14)
10:96709004		Q>P	A:261	(8.22, 65.42, -3.03)
10:96709009		F>L	A:263	(5.14, 66.20, 7.19)
10:96709028		M>R	A:269	(-0.08, 59.31, 1.46)
10:96709034		M>T	A:271	(-5.19, 60.80, 5.65)
10:96731861	rs370407644 COSM3442006	E>K	A:274	(-5.77, 55.13, 8.51)
10:96731871	rs374108919	N>S	A:277	(-9.27, 52.05, 9.89)
10:96731876	rs182132442	P>T	A:279	(-11.24, 55.81, 14.14)
10:96731904		E>G	A:288	(-3.42, 72.36, 10.96)
10:96731926		F>L	A:295	(7.24, 75.65, 11.73)
10:96731936	rs72558192	T>A	A:299	(12.87, 77.74, 15.21)
10:96731943		T>M	A:301	(16.30, 75.82, 20.33)
10:96731949		S>I	A:303	(18.33, 80.14, 16.74)
10:96731954		T>S	A:305	(22.24, 77.09, 19.77)
10:96731967		A>V	A:309	(27.91, 79.80, 19.18)
10:96740946		V>A	A:323	(37.37, 74.98, 13.97)
10:96740949		Q>R	A:324	(38.97, 78.18, 10.92)
10:96740951		E>K	A:325	(43.29, 74.44, 12.10)
10:96740958	rs57505750	I>T	A:327	(37.31, 73.68, 8.02)
10:96740964		R>H	A:329	(42.63, 68.80, 8.07)
10:96740967		V>A	A:330	(38.66, 67.95, 6.18)
10:96740981	rs28371685	R>W	A:335	(34.01, 70.40, -0.19)
10:96740982	rs367826293 COSM921746	R>Q	A:335	(34.01, 70.40, -0.19)
10:96740988	rs58368927	P>L	A:337	(30.13, 71.47, 4.20)
10:96741000		D>G	A:341	(33.11, 66.01, 6.64)
10:96741002		R>G	A:342	(30.04, 64.97, 12.40)
10:96741007		S>R	A:343	(34.20, 61.71, 11.40)
10:96741009		H>L	A:344	(36.98, 62.50, 9.21)
10:96741012	rs201055266	M>T	A:345	(35.83, 67.66, 11.82)
10:96741013		M>I	A:345	(35.83, 67.66, 11.82)
10:96741014	rs376725916	P>S	A:346	(37.18, 65.86, 16.15)
10:96741020		T>A	A:348	(34.17, 70.88, 15.22)
10:96741023		D>N	A:349	(31.76, 67.08, 17.18)
10:96741038	COSM3935237 CM074766	E>K	A:354	(30.84, 72.42, 25.47)
10:96741053	rs1057910	I>L	A:359	(23.79, 76.87, 26.52)
10:96741054	rs56165452	I>T	A:359	(23.79, 76.87, 26.52)
10:96741056		D>N	A:360	(21.04, 74.43, 30.05)
10:96741062	rs578144976	L>V	A:362	(15.64, 73.33, 27.58)
10:96741069		T>I	A:364	(13.27, 71.75, 32.98)
10:96741077		P>S	A:367	(6.86, 69.22, 31.09)
10:96741078		P>H	A:367	(6.86, 69.22, 31.09)
10:96741080		H>Y	A:368	(8.05, 64.49, 31.21)
10:96741087		V>A	A:370	(3.24, 59.60, 35.32)
10:96741094		C>W	A:372	(0.79, 54.93, 36.07)
10:96741113		Y>H	A:379	(9.75, 58.27, 47.60)
10:96741114		Y>C	A:379	(9.75, 58.27, 47.60)
10:96741116	rs376551924	L>F	A:380	(3.54, 56.40, 45.59)
10:96741123		P>L	A:382	(0.51, 59.61, 41.49)
10:96741125	COSM3442016	K>E	A:383	(-2.34, 58.20, 36.37)
10:96745793		T>S	A:385	(2.14, 63.35, 38.68)
10:96745799		I>V	A:387	(7.62, 64.75, 36.24)
10:96745806	COSM686008	I>T	A:389	(13.45, 66.11, 33.96)
10:96745809	COSM3868123	S>F	A:390	(17.20, 68.44, 35.74)
10:96745827	rs187793133	H>R	A:396	(26.17, 71.96, 33.98)
10:96745854		E>V	A:405	(29.07, 77.18, 35.45)
10:96745862		D>N	A:408	(36.45, 73.31, 27.68)
10:96745864		D>E	A:408	(36.45, 73.31, 27.68)
10:96745866		P>H	A:409	(36.07, 72.17, 24.15)
10:96745883		E>K	A:415	(44.67, 62.18, 25.25)
10:96745895	rs571415247	F>I	A:419	(34.02, 62.96, 20.25)
10:96745904	rs145299907	S>G	A:422	(28.74, 61.71, 27.39)
10:96745910	rs147634562	Y>H	A:424	(26.60, 62.46, 32.46)
10:96745923		F>S	A:428	(18.63, 67.01, 22.01)
10:96748609	COSM175467	R>W	A:433	(7.85, 62.60, 24.89)
10:96748625		E>G	A:438	(18.78, 64.17, 18.16)
10:96748634	rs565889722	A>V	A:441	(19.99, 69.71, 14.84)
10:96748636	rs368545396 COSM122462	G>S	A:442	(23.00, 68.49, 13.97)
10:96748641		M>I	A:443	(22.20, 67.80, 10.07)
10:96748648	rs371491081	F>L	A:446	(28.73, 70.04, 11.26)
10:96748653	rs59485260	L>F	A:447	(26.22, 71.77, 8.02)
10:96748673		Q>R	A:454	(34.27, 77.60, 4.78)
10:96748674	COSM176457	Q>H	A:454	(34.27, 77.60, 4.78)
10:96748682	rs202201137	N>S	A:457	(36.96, 85.41, 9.96)
10:96748684	COSM428181 COSM540044	L>V	A:458	(33.74, 85.79, 13.65)
10:96748711	COSM921748	L>F	A:467	(32.33, 89.73, 25.95)
10:96748712		L>P	A:467	(32.33, 89.73, 25.95)
10:96748721		T>I	A:470	(26.40, 84.67, 31.54)
10:96748727	rs376962288	V>A	A:472	(19.60, 85.70, 30.30)
10:96748730		V>A	A:473	(17.69, 82.69, 33.12)
10:96748733	rs141011391	N>S	A:474	(13.78, 84.32, 32.70)
10:96748741		A>T	A:477	(14.54, 80.12, 29.56)
10:96748751	rs530950257	P>L	A:480	(21.85, 84.75, 24.64)
10:96748777	rs9332239	P>S	A:489	(35.33, 87.89, 4.22)

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
10:96698548	COSM1284394	P>S	A:37	(-1.21, 78.61, 52.27)
10:96701682	COSM1702806	G>E	A:79	(20.24, 63.45, 38.65)
10:96701699	COSM3441988	E>K	A:85	(15.92, 54.89, 37.57)
10:96701771	COSM3441990	G>R	A:109	(-4.75, 71.38, 20.01)
10:96702012	COSM1718561	R>Q	A:132	(13.59, 58.21, 7.72)
10:96707649	COSM3442001	E>K	A:199	(5.88, 88.67, 12.54)
10:96708881	COSM1702808	S>F	A:220	(-3.91, 79.79, 37.71)
10:96708896	COSM1970852	Y>C	A:225	(-8.61, 88.17, 37.22)
10:96708970	COSM1970858	E>K	A:250	(-1.35, 74.66, -2.62)
10:96708988	COSM1702809	D>N	A:256	(1.97, 62.06, -7.05)
10:96709003	COSM1745982	Q>E	A:261	(8.22, 65.42, -3.03)
10:96731877	COSM1702811	P>L	A:279	(-11.24, 55.81, 14.14)
10:96731940	COSM1675454	E>A	A:300	(13.89, 79.60, 19.82)
10:96740982	COSM921746	R>Q	A:335	(34.01, 70.40, -0.19)
10:96741065	COSM3442014	P>S	A:363	(16.75, 73.83, 32.11)
10:96745844	COSM540045	P>S	A:402	(35.29, 69.18, 35.62)
10:96748624	COSM141303	E>K	A:438	(18.78, 64.17, 18.16)
10:96748643	COSM1350008	E>G	A:444	(20.48, 72.71, 11.40)

1OG2.A | CYP2C9.

1OG2.A | CYP2C9

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