1WPQ.B | GPD1 – ASTRID

1WPQ.B | GPD1

General Structure Information

PDB ID	1wpq
HGNC Gene Label(s)	GPD1
Structure Name	ternary complex of glycerol 3-phosphate dehydrogenase 1 with nad and dihydroxyactone
Resolution	2.5Å
Reference	AUTH X.OU,C.JI,X.HAN,X.ZHAO,X.LI,Y.MAO,L.L.WONG,AUTH 2 M.BARTLAM,Z.RAOTITL CRYSTAL STRUCTURES OF HUMAN GLYCEROL 3-PHOSPHATETITL 2 DEHYDROGENASE 1 (GPD1)REF J.MOL.BIOL. V. 357 858 2006REFN ISSN 0022-2836PMID 16460752DOI 10.1016/J.JMB.2005.12.074

Variant Set Distributions

ExAC Variants

Number Of Residues	348
Number Of SNVs	90
Number Of Permutations	13705
Optimal Distance Threshold	16.0
K Statistic	0.18
p-value	0.642

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
12:50497844		K>M	B:4	(34.11, 64.55, -285.23)
12:50497856		I>T	B:8	(23.92, 56.45, -280.00)
12:50497858		V>I	B:9	(25.35, 51.71, -279.90)
12:50497867		G>R	B:12	(17.20, 52.94, -273.78)
12:50498367	rs200445603	I>V	B:18	(22.58, 59.75, -273.86)
12:50498370	COSM4042580	A>T	B:19	(20.09, 61.10, -277.08)
12:50498379	rs531580958	V>M	B:22	(24.23, 63.64, -277.88)
12:50498385		G>S	B:24	(21.83, 68.79, -278.52)
12:50498406		Q>E	B:31	(32.54, 70.53, -282.47)
12:50498412	rs143876783	D>N	B:33	(27.36, 65.87, -287.70)
12:50498418		R>W	B:35	(23.05, 61.90, -289.36)
12:50498419	rs376236464	R>Q	B:35	(23.05, 61.90, -289.36)
12:50498424		T>S	B:37	(23.14, 57.65, -285.58)
12:50498427		M>L	B:38	(19.75, 55.60, -282.12)
12:50498428		M>T	B:38	(19.75, 55.60, -282.12)
12:50498448	rs148598782	I>V	B:45	(5.29, 48.53, -280.79)
12:50498454		G>S	B:47	(2.71, 46.87, -285.77)
12:50498458		K>I	B:48	(3.30, 50.88, -285.52)
12:50498467		T>I	B:51	(12.53, 52.45, -286.02)
12:50498469		E>K	B:52	(8.54, 53.28, -288.51)
12:50498475	rs2232202	I>V	B:54	(11.82, 56.71, -282.88)
12:50498480		N>K	B:55	(12.27, 58.34, -287.00)
12:50498491		E>G	B:59	(8.36, 59.37, -278.69)
12:50498509	rs200536536	P>L	B:65	(8.84, 57.59, -270.16)
12:50498512		G>A	B:66	(7.90, 61.76, -271.22)
12:50498527		P>R	B:71	(14.71, 65.85, -284.14)
12:50499331		V>M	B:74	(18.52, 58.73, -286.80)
12:50499341		P>L	B:77	(17.64, 49.28, -287.82)
12:50499343		D>N	B:78	(21.87, 47.86, -289.44)
12:50499347	rs147914698	V>G	B:79	(24.68, 48.09, -286.32)
12:50499356		A>V	B:82	(24.77, 53.20, -287.68)
12:50499361		E>K	B:84	(28.71, 52.70, -292.12)
12:50499363		E>D	B:84	(28.71, 52.70, -292.12)
12:50499373	rs141658302	I>F	B:88	(32.47, 59.38, -281.75)
12:50499391	rs534115061	P>S	B:94	(22.23, 45.78, -272.64)
12:50499403	rs374426834	I>L	B:98	(28.19, 44.35, -276.31)
12:50499406		G>S	B:99	(28.94, 41.10, -278.12)
12:50499460		S>A	B:117	(31.46, 52.73, -272.43)
12:50500101		L>V	B:131	(37.37, 45.76, -268.25)
12:50500104	rs148266895	I>V	B:132	(33.00, 45.77, -271.07)
12:50500108	rs184522376	S>L	B:133	(36.33, 48.59, -272.37)
12:50500114		V>A	B:135	(36.31, 43.39, -274.93)
12:50500117	rs199902085	I>T	B:136	(34.50, 46.94, -277.00)
12:50500125	rs201742812	R>C	B:139	(35.69, 41.64, -281.17)
12:50500126	rs141794163	R>H	B:139	(35.69, 41.64, -281.17)
12:50500131		G>S	B:141	(40.24, 48.63, -282.60)
12:50500141	rs146239968	M>T	B:144	(37.69, 52.86, -275.78)
12:50500591		C>Y	B:168	(40.23, 59.53, -270.99)
12:50500612		Q>R	B:175	(37.71, 68.74, -273.54)
12:50500613		Q>H	B:175	(37.71, 68.74, -273.54)
12:50500615		L>H	B:176	(35.94, 65.86, -277.63)
12:50500630		M>T	B:181	(28.47, 63.92, -273.15)
12:50500638		P>S	B:184	(24.07, 72.98, -267.89)
12:50500647		R>C	B:187	(28.65, 70.08, -265.20)
12:50500648		R>H	B:187	(28.65, 70.08, -265.20)
12:50500678	rs2232207	V>A	B:197	(35.93, 54.89, -263.43)
12:50500692		A>S	B:202	(29.88, 47.45, -262.00)
12:50500699		K>T	B:204	(26.90, 50.31, -258.59)
12:50501353		V>L	B:206	(26.22, 44.03, -256.41)
12:50501392		F>I	B:219	(16.02, 46.77, -242.14)
12:50501398	rs565703593 COSM2008728 COSM3384431	D>N	B:221	(18.27, 55.42, -243.97)
12:50501405	rs200251017	T>I	B:223	(20.94, 49.69, -242.79)
12:50501411	rs201609436	A>V	B:225	(24.61, 53.25, -245.04)
12:50501413		A>T	B:226	(26.10, 50.19, -244.09)
12:50501426	COSM1362214	L>P	B:230	(30.41, 47.43, -245.78)
12:50501444	rs144886178	I>T	B:236	(38.35, 49.95, -252.75)
12:50501452	rs147931328	A>T	B:239	(40.20, 47.08, -257.57)
12:50501455		K>Q	B:240	(43.61, 48.14, -254.51)
12:50501495		L>S	B:253	(35.85, 60.09, -253.59)
12:50501498		E>G	B:254	(35.35, 61.04, -258.53)
12:50501504		C>Y	B:256	(32.15, 56.74, -260.24)
12:50501521		I>V	B:262	(24.41, 57.02, -252.83)
12:50501528		T>I	B:264	(21.87, 52.95, -257.22)
12:50501536		G>R	B:267	(16.70, 54.41, -257.25)
12:50501542	COSM694333	R>W	B:269	(16.64, 49.46, -263.31)
12:50501543	rs369575243	R>Q	B:269	(16.64, 49.46, -263.31)
12:50501549	rs141722369	R>Q	B:271	(15.51, 49.37, -254.48)
12:50501563		A>P	B:276	(10.66, 42.15, -254.57)
12:50501566	rs201246290	F>V	B:277	(14.16, 37.98, -254.45)
12:50501572	rs556749953	R>C	B:279	(8.14, 41.87, -251.16)
12:50501573		R>H	B:279	(8.14, 41.87, -251.16)
12:50501576		T>I	B:280	(7.71, 37.79, -253.70)
12:50501578		G>R	B:281	(10.13, 34.82, -254.43)
12:50501810	rs148598781	I>V	B:284	(15.85, 38.03, -260.45)
12:50501849		L>M	B:297	(18.64, 43.98, -263.93)
12:50501861	rs569083382	E>K	B:301	(24.38, 39.96, -264.94)
12:50501870	rs151058941	R>W	B:304	(26.18, 34.37, -262.11)
12:50501871	rs140951668	R>Q	B:304	(26.18, 34.37, -262.11)
12:50501877		L>P	B:306	(31.99, 39.17, -259.08)
12:50501880		Y>F	B:307	(31.01, 32.51, -257.89)
12:50501892		Q>P	B:311	(35.63, 30.33, -258.75)
12:50501899		K>N	B:313	(42.25, 33.59, -258.47)
12:50503249	rs545410105	Q>K	B:333	(21.23, 32.55, -248.98)
12:50503252		P>S	B:334	(17.80, 32.62, -247.07)
12:50503259		G>D	B:336	(17.45, 36.67, -243.76)
12:50503266		F>L	B:338	(22.36, 40.42, -246.63)
12:50503270		H>Y	B:340	(25.42, 36.85, -240.51)
12:50503288	rs145508873	P>S	B:346	(35.41, 42.52, -242.46)
12:50503295		H>R	B:348	(39.37, 47.53, -241.83)