3E77.B | PSAT1

General Structure Information

PDB ID	3e77
HGNC Gene Label(s)	PSAT1
Structure Name	human phosphoserine aminotransferase in complex with plp
Resolution	2.5Å
Reference	AUTH L.LEHTIO,T.KARLBERG,J.ANDERSSON,C.H.ARROWSMITH,H.BERGLUND,AUTH 2 C.BOUNTRA,R.COLLINS,L.G.DAHLGREN,A.M.EDWARDS,S.FLODIN,AUTH 3 A.FLORES,S.GRASLUND,M.HAMMARSTROM,A.JOHANSSON,I.JOHANSSON,AUTH 4 T.KOTENYOVA,M.MOCHE,M.E.NILSSON,P.NORDLUND,T.NYMAN,K.OLESEN,AUTH 5 C.PERSSON,J.SAGEMARK,S.G.THORSELL,L.TRESAUGUES,AUTH 6 S.VAN DEN BERG,M.WELIN,M.WIKSTROM,M.WISNIEWSKA,J.WEIGELT,AUTH 7 H.SCHUELER,STRUCTURAL GENOMICS CONSORTIUM (SGC)TITL HUMAN PHOSPHOSERINE AMINOTRANSFERASE IN COMPLEX WITH PLPREF TO BE PUBLISHEDREFN

Variant Set Distributions

ExAC Variants

COSMIC

Ripley’s K Analysis Plots

ExACCOSMIC

Variant Set Comparisons

Cosmic vs. ExAC

Number Of ExAC SNVs	99
Number Of COSMIC SNVs	3
Optimal Distance Threshold	9.0
K Statistic	0.294
p-value	0.13

Pathogenic Proximity Analysis

COSMIC PathProx Analysis

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
9:80912179		P>L	B:18	(54.67, -69.95, 6.70)
9:80915519	rs180707620	V>G	B:21	(52.38, -67.71, 10.17)
9:80915522		L>W	B:22	(53.00, -63.72, 8.15)
9:80915530		I>V	B:25	(51.68, -62.45, 13.06)
9:80915551	rs373736401	Y>H	B:32	(47.85, -62.94, 21.85)
9:80915561		V>D	B:35	(44.58, -59.71, 25.96)
9:80915563	rs367577346	G>R	B:36	(45.03, -55.79, 24.86)
9:80915566	rs141408971	I>V	B:37	(48.69, -56.59, 24.95)
9:80916880		H>Q	B:44	(59.45, -61.43, 30.95)
9:80916890		D>N	B:48	(49.43, -63.95, 28.64)
9:80916899		K>Q	B:51	(49.82, -69.73, 28.19)
9:80916901		K>N	B:51	(49.82, -69.73, 28.19)
9:80916911		N>D	B:55	(53.09, -73.85, 23.17)
9:80916912		N>S	B:55	(53.09, -73.85, 23.17)
9:80916918		E>G	B:57	(59.28, -76.43, 25.86)
9:80916921		N>S	B:58	(55.68, -78.45, 24.99)
9:80916929	rs150812587	R>W	B:61	(60.11, -81.55, 25.01)
9:80919659	rs373205386	P>L	B:67	(64.06, -87.11, 25.61)
9:80919662		D>G	B:68	(61.84, -86.71, 29.99)
9:80919668		Y>S	B:70	(67.68, -84.44, 26.64)
9:80919672	rs542332287	K>N	B:71	(66.46, -79.49, 30.24)
9:80919700		G>S	B:81	(76.71, -68.00, 20.35)
9:80919719		P>L	B:87	(82.58, -73.96, 24.79)
9:80919743		A>E	B:95	(90.38, -81.03, 32.80)
9:80919752		C>Y	B:98	(89.79, -80.58, 25.05)
9:80919755	rs587777778	A>V	B:99	(87.67, -80.27, 21.68)
9:80919775		A>S	B:106	(81.85, -72.47, 7.17)
9:80919781		S>P	B:108	(82.32, -75.94, 11.34)
9:80919785		A>V	B:109	(85.02, -73.44, 10.91)
9:80919787	COSM3218562	K>Q	B:110	(83.02, -69.31, 11.86)
9:80919794		A>V	B:112	(86.45, -74.21, 15.74)
9:80919797	rs373888510	E>V	B:113	(88.92, -70.41, 15.06)
9:80919800		E>A	B:114	(84.83, -68.62, 18.93)
9:80919826	rs116577685	I>V	B:123	(90.40, -80.39, 13.45)
9:80919827		I>T	B:123	(90.40, -80.39, 13.45)
9:80919829	rs140897665	V>I	B:124	(89.06, -85.15, 14.00)
9:80919841		L>F	B:128	(88.54, -80.61, 3.69)
9:80919845	rs368015309	G>E	B:129	(90.32, -78.52, 0.19)
9:80921236		P>L	B:135	(85.31, -86.46, 6.49)
9:80921272		S>Y	B:147	(85.04, -82.56, 26.79)
9:80921277	rs142975997	V>M	B:149	(82.61, -84.28, 19.70)
9:80921281	rs371706852	Y>C	B:150	(80.80, -78.80, 16.98)
9:80921295	rs369153467	E>Q	B:155	(77.76, -76.52, 6.25)
9:80921299	rs369944396	T>M	B:156	(74.12, -73.34, 4.61)
9:80921310		V>M	B:160	(77.67, -80.64, 3.30)
9:80921326		I>T	B:165	(74.12, -89.96, 14.28)
9:80921331	COSM1110357	D>N	B:167	(80.65, -93.58, 16.50)
9:80921343	rs115263053	A>P	B:171	(81.19, -88.84, 23.41)
9:80921346		V>L	B:172	(79.61, -85.39, 24.63)
9:80921361		M>V	B:177	(70.82, -79.01, 13.89)
9:80921363		M>I	B:177	(70.82, -79.01, 13.89)
9:80921398		S>C	B:189	(69.37, -89.93, 22.70)
9:80921401	rs140623746	K>M	B:190	(72.46, -90.82, 20.06)
9:80923351		A>S	B:198	(65.26, -69.93, 14.19)
9:80923364		V>A	B:202	(62.04, -72.75, 12.85)
9:80923375	rs150920467	G>R	B:206	(66.52, -63.96, 18.01)
9:80923396		R>C	B:213	(72.75, -85.19, 28.35)
9:80923397		R>H	B:213	(72.75, -85.19, 28.35)
9:80923409		L>P	B:217	(73.65, -78.71, 33.45)
9:80923412		G>E	B:218	(77.50, -77.41, 35.70)
9:80923414	rs200130440	F>L	B:219	(80.20, -79.49, 34.18)
9:80923421		L>P	B:221	(83.79, -71.91, 32.34)
9:80923424	rs114496656	R>Q	B:222	(84.72, -67.30, 37.35)
9:80923448	rs146702503	Y>C	B:230	(73.56, -74.21, 28.35)
9:80923454		V>E	B:232	(71.02, -70.05, 34.75)
9:80923456		Q>K	B:233	(68.38, -69.70, 31.02)
9:80923459	rs145496413	A>S	B:234	(67.02, -74.07, 32.84)
9:80923465	rs138085071	N>H	B:236	(65.16, -69.62, 35.43)
9:80923468		S>G	B:237	(62.23, -71.39, 32.21)
9:80923484	rs149101687	T>M	B:242	(64.06, -60.29, 28.88)
9:80932597		Y>C	B:249	(54.04, -65.20, 18.47)
9:80932599	rs368071286	V>I	B:250	(57.14, -66.46, 15.46)
9:80932600	rs572302367	V>A	B:250	(57.14, -66.46, 15.46)
9:80932644		A>T	B:265	(57.98, -86.81, 8.92)
9:80932645	rs376602543	A>V	B:265	(57.98, -86.81, 8.92)
9:80932648		A>V	B:266	(56.55, -84.47, 6.62)
9:80932652		M>I	B:267	(58.74, -81.67, 7.02)
9:80932657	rs143194678	K>M	B:269	(57.34, -86.63, 2.03)
9:80932659		L>F	B:270	(58.22, -82.05, 1.96)
9:80932665		S>T	B:272	(62.97, -85.63, -0.30)
9:80932666		S>C	B:272	(62.97, -85.63, -0.30)
9:80932677		Q>E	B:276	(64.82, -86.26, -4.93)
9:80932680		T>A	B:277	(63.28, -82.23, -8.24)
9:80932696		I>T	B:282	(71.91, -81.64, -11.40)
9:80932702		N>S	B:284	(70.00, -86.41, -15.80)
9:80932714	rs553281141	F>C	B:288	(74.24, -77.25, -18.42)
9:80932719	rs200049723	V>I	B:290	(77.91, -79.40, -11.79)
9:80942975		V>A	B:293	(78.60, -82.23, -3.01)
9:80942981	rs148080212	P>R	B:295	(76.46, -87.82, -3.93)
9:80943013	rs113824905	R>C	B:306	(79.08, -73.49, -10.77)
9:80943023		N>S	B:309	(82.00, -75.65, -16.28)
9:80943030		K>N	B:311	(84.45, -74.10, -12.77)
9:80943034		D>H	B:313	(79.82, -70.42, -17.94)
9:80943080		N>S	B:328	(59.61, -62.96, -10.36)
9:80943101		H>R	B:335	(78.19, -67.29, -0.22)
9:80943914		R>Q	B:342	(72.54, -71.14, -2.29)
9:80943916		A>S	B:343	(68.89, -73.70, -3.93)
9:80943920	rs370557155	S>C	B:344	(67.44, -72.56, -0.64)
9:80943926		Y>C	B:346	(65.42, -73.45, 4.00)
9:80943928		N>H	B:347	(60.20, -76.35, 5.92)
9:80943940		I>V	B:351	(56.46, -79.01, -3.78)
9:80943949		V>I	B:354	(60.82, -76.50, -6.44)
9:80943970		M>L	B:361	(66.82, -75.87, -14.21)
9:80943983		L>W	B:365	(69.47, -77.69, -20.34)
9:80943986	rs539796298	E>G	B:366	(65.78, -77.40, -23.72)
9:80943992		H>R	B:368	(71.26, -71.73, -23.24)
9:80943995		Q>R	B:369	(72.84, -78.36, -23.76)

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
9:80916919	COSM173754	E>D	B:57	(59.28, -76.43, 25.86)
9:80919698	COSM196979	C>Y	B:80	(77.46, -67.57, 16.72)
9:80919712	COSM314510	A>P	B:85	(78.08, -71.46, 24.70)

3E77.B | PSAT1.

3E77.B | PSAT1

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