2G76.B | PHGDH

General Structure Information

PDB ID	2g76
HGNC Gene Label(s)	PHGDH
Structure Name	crystal structure of human 3-phosphoglycerate dehydrogenase
Resolution	1.7Å
Reference	AUTH A.P.TURNBULL,E.SALAH,P.SAVITSKY,O.GILEADI,F.VON DELFT,AUTH 2 A.EDWARDS,C.ARROWSMITH,J.WEIGELT,M.SUNDSTROM,U.OPPERMANNTITL CRYSTAL STRUCTURE OF HUMAN 3-PHOSPHOGLYCERATE DEHYDROGENASEREF TO BE PUBLISHEDREFN

Variant Set Distributions

ExAC Variants

Number Of Residues	301
Number Of SNVs	89
Number Of Permutations	41556
Optimal Distance Threshold	6.0
K Statistic	0.019
p-value	0.366

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
1:120254664		R>W	B:6	(20.68, -22.33, 27.97)
1:120254670	rs199784256	V>L	B:8	(15.98, -18.26, 25.56)
1:120254679		S>G	B:11	(7.31, -13.78, 24.34)
1:120254683		D>G	B:12	(7.19, -10.42, 23.15)
1:120254710		I>N	B:21	(23.48, -11.72, 19.93)
1:120254724		G>R	B:26	(24.94, -20.91, 22.29)
1:120254732	rs147049140	Q>H	B:28	(17.65, -23.50, 22.34)
1:120254754		S>G	B:36	(-1.46, -18.12, 26.41)
1:120254764		E>G	B:39	(0.30, -21.07, 24.92)
1:120254765		E>D	B:39	(0.30, -21.07, 24.92)
1:120254767		L>R	B:40	(4.14, -18.55, 28.55)
1:120263811		V>F	B:52	(9.97, -9.63, 27.62)
1:120263814		R>C	B:53	(8.50, -4.48, 23.83)
1:120263815	rs372842833 COSM675024	R>H	B:53	(8.50, -4.48, 23.83)
1:120263818		S>C	B:54	(5.42, -4.87, 27.20)
1:120263820		A>T	B:55	(2.96, -8.04, 26.25)
1:120263835	rs140185619	A>T	B:60	(3.73, -15.00, 40.01)
1:120263838	COSM3472244 COSM3472245	D>N	B:61	(0.95, -17.54, 38.86)
1:120263880	rs200509653	A>S	B:75	(13.28, -4.80, 25.94)
1:120263881		A>V	B:75	(13.28, -4.80, 25.94)
1:120263892		V>L	B:79	(10.07, -3.87, 35.80)
1:120263896		D>V	B:80	(6.42, -1.98, 34.08)
1:120263899	rs587625944	N>S	B:81	(6.17, -6.69, 32.16)
1:120263913		A>T	B:86	(8.41, -12.98, 42.59)
1:120263916	rs142988234	A>T	B:87	(11.60, -13.11, 41.04)
1:120263940	rs587672049	M>L	B:95	(18.15, -8.51, 32.89)
1:120266004	rs182600362	P>R	B:98	(18.64, 1.42, 30.39)
1:120266027	rs199809714	A>T	B:106	(13.06, 12.32, 22.93)
1:120266054		C>S	B:115	(1.44, 18.40, 18.03)
1:120266061		A>V	B:117	(1.24, 23.97, 19.22)
1:120269481		P>A	B:121	(-3.24, 15.48, 15.26)
1:120269488		A>V	B:123	(-6.11, 18.70, 11.53)
1:120269491		T>M	B:124	(-5.31, 15.21, 9.99)
1:120269497		S>L	B:126	(-10.64, 17.79, 9.98)
1:120269499		M>L	B:127	(-8.55, 17.71, 6.24)
1:120269512		K>I	B:131	(-13.84, 19.28, 8.41)
1:120269517	rs139129607	E>K	B:133	(-11.65, 23.42, 10.72)
1:120269521	COSM894684	R>Q	B:134	(-7.61, 28.77, 7.96)
1:120269527		K>R	B:136	(-10.96, 24.48, 15.42)
1:120269637	rs200037593	T>I	B:140	(1.11, 28.47, 19.55)
1:120269642	rs143155925	L>M	B:142	(7.38, 26.83, 20.27)
1:120269660		G>R	B:148	(9.36, 22.16, 31.55)
1:120269691		E>G	B:158	(18.77, 14.64, 24.58)
1:120269693		V>I	B:159	(14.00, 17.22, 25.21)
1:120269700		T>S	B:161	(19.11, 20.21, 23.30)
1:120269702		R>W	B:162	(16.83, 17.70, 20.53)
1:120269703	COSM894685 rs587777483	R>Q	B:162	(16.83, 17.70, 20.53)
1:120269715		F>S	B:166	(12.32, 24.74, 17.92)
1:120269720		M>L	B:168	(11.69, 26.67, 23.93)
1:120269724		K>R	B:169	(13.35, 29.33, 29.09)
1:120277258		T>S	B:170	(14.98, 25.12, 29.01)
1:120277260		I>V	B:171	(12.89, 25.56, 33.18)
1:120277261		I>T	B:171	(12.89, 25.56, 33.18)
1:120277281	rs148390302	S>A	B:178	(23.88, 19.35, 39.26)
1:120277294	rs376632509 COSM894688	S>L	B:182	(21.87, 21.49, 34.04)
1:120277306		G>D	B:186	(20.50, 24.66, 29.33)
1:120277312		Q>P	B:188	(17.34, 27.73, 35.20)
1:120277318	rs369944394	L>Q	B:190	(14.08, 26.50, 39.44)
1:120277320		P>S	B:191	(12.38, 25.40, 42.86)
1:120277359		V>M	B:204	(7.31, 14.23, 32.50)
1:120277365	rs146721224	T>S	B:206	(10.34, 10.74, 35.90)
1:120277377		P>T	B:210	(6.09, 6.97, 45.25)
1:120277378		P>L	B:210	(6.09, 6.97, 45.25)
1:120277384		T>M	B:212	(6.79, 10.64, 40.71)
1:120277928	rs587691658	N>K	B:217	(-1.59, 17.26, 41.20)
1:120277933		N>I	B:219	(-1.54, 21.47, 44.16)
1:120277941		A>S	B:222	(-3.24, 25.59, 40.47)
1:120277951		K>R	B:225	(0.82, 29.96, 32.64)
1:120277963	COSM1333243	R>H	B:229	(-0.25, 23.85, 25.83)
1:120277965	rs587709758	V>M	B:230	(0.96, 18.71, 29.42)
1:120277980	rs147066269	R>C	B:235	(6.21, 4.98, 32.58)
1:120277981		R>H	B:235	(6.21, 4.98, 32.58)
1:120277989		I>L	B:238	(3.97, 10.93, 36.45)
1:120277992		V>M	B:239	(0.17, 13.17, 34.96)
1:120277995		D>N	B:240	(-3.57, 12.65, 38.18)
1:120278004		A>T	B:243	(-6.33, 16.26, 37.23)
1:120278013	COSM1220391 COSM4021276	R>W	B:246	(-10.25, 17.50, 37.51)
1:120278014		R>Q	B:246	(-10.25, 17.50, 37.51)
1:120278016	rs374248197	A>T	B:247	(-7.64, 20.97, 33.58)
1:120278017	rs201782441	A>V	B:247	(-7.64, 20.97, 33.58)
1:120278040		G>R	B:255	(-3.28, 20.42, 26.49)
1:120278049	rs139830902	L>V	B:258	(-0.98, 11.19, 26.89)
1:120278062		T>M	B:262	(-2.59, 4.12, 34.73)
1:120279741		P>L	B:265	(-4.99, -0.94, 27.22)
1:120279746	rs142622658	R>W	B:267	(-11.27, -0.85, 30.73)
1:120279750		D>V	B:268	(-11.08, 5.81, 31.50)
1:120279752		R>W	B:269	(-10.90, 5.51, 26.32)
1:120279753	rs375031910	R>Q	B:269	(-10.90, 5.51, 26.32)
1:120279766	rs370045696	D>E	B:273	(-12.30, 10.49, 23.92)
1:120279767	rs150995624	H>N	B:274	(-10.64, 16.27, 25.52)
1:120279795		L>P	B:283	(4.66, 4.52, 20.14)
1:120279825	rs147049991	R>H	B:293	(19.54, 1.14, 20.09)
1:120279831		G>E	B:295	(18.13, -6.30, 21.73)
1:120279838		E>D	B:297	(20.96, -3.33, 25.97)
1:120279840		I>T	B:298	(18.76, -7.97, 26.70)
1:120279842		A>S	B:299	(21.54, -10.21, 24.45)
1:120279845		V>L	B:300	(24.99, -8.66, 25.49)
1:120279854	rs149175408	V>M	B:303	(26.16, -13.69, 26.32)
1:120279858		D>A	B:304	(28.15, -11.14, 29.19)