2V62.A | VRK2 – ASTRID

2V62.A | VRK2

General Structure Information

PDB ID	2v62
HGNC Gene Label(s)	VRK2
Structure Name	structure of vaccinia-related kinase 2
Resolution	1.7Å
Reference	AUTH E.D.SCHEEFF,J.ESWARAN,G.BUNKOCZI,S.KNAPP,G.MANNINGTITL STRUCTURE OF THE PSEUDOKINASE VRK3 REVEALS A DEGRADEDTITL 2 CATALYTIC SITE, A HIGHLY CONSERVED KINASE FOLD, AND ATITL 3 PUTATIVE REGULATORY BINDING SITE.REF STRUCTURE V. 17 128 2009REFN ISSN 0969-2126PMID 19141289DOI 10.1016/J.STR.2008.10.018

Variant Set Distributions

ExAC Variants

Number Of Residues	309
Number Of SNVs	88
Number Of Permutations	37071
Optimal Distance Threshold	8.0
K Statistic	0.037
p-value	0.174

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
2:58276046	rs374589546 COSM3962954	N>S	A:27	(11.48, -7.10, 33.39)
2:58276054		V>L	A:30	(17.32, -8.02, 23.92)
2:58276058		L>Q	A:31	(21.28, -5.58, 23.93)
2:58276065		K>N	A:33	(22.40, -1.80, 18.20)
2:58276070	rs144870539	I>T	A:35	(22.81, 4.38, 19.08)
2:58276093		I>V	A:43	(22.66, 4.25, 23.70)
2:58276095		I>M	A:43	(22.66, 4.25, 23.70)
2:58276096	rs141719281	Y>H	A:44	(23.55, -0.50, 23.48)
2:58276102		A>T	A:46	(15.89, -2.47, 23.31)
2:58311227	rs555993721	F>C	A:47	(14.65, -5.29, 21.23)
2:58311235	rs34130684	N>D	A:50	(7.83, -10.14, 25.71)
2:58311242		P>L	A:52	(7.87, -8.33, 18.70)
2:58311254		A>E	A:56	(11.11, -1.03, 19.03)
2:58311262	rs374084410	V>L	A:59	(16.78, 2.64, 24.70)
2:58311263		V>A	A:59	(16.78, 2.64, 24.70)
2:58311265		V>I	A:60	(19.90, 0.32, 26.97)
2:58311272	rs535808651	V>A	A:62	(25.34, 1.02, 29.62)
2:58312035		P>L	A:69	(26.51, 10.19, 35.65)
2:58312078		K>N	A:83	(3.54, 6.65, 33.57)
2:58312081		D>E	A:84	(-0.09, 6.69, 36.22)
2:58313491	rs140286253	R>C	A:92	(-5.30, 16.26, 36.97)
2:58313492	COSM316485 COSM267751	R>H	A:92	(-5.30, 16.26, 36.97)
2:58313496		K>N	A:93	(-2.58, 20.20, 33.50)
2:58313506		Y>D	A:97	(4.10, 17.02, 24.61)
2:58313513		G>A	A:99	(9.16, 15.91, 27.92)
2:58313519	rs377003543	P>R	A:101	(11.83, 10.59, 28.97)
2:58313528	rs375372500	Y>S	A:104	(10.03, 1.46, 30.03)
2:58313536		G>S	A:107	(20.35, -2.57, 36.55)
2:58313539		L>V	A:108	(23.34, -4.55, 37.71)
2:58313555	rs147530902	G>E	A:113	(34.01, -8.87, 36.40)
2:58315486	rs202150387	M>V	A:119	(18.65, 3.26, 32.25)
2:58315498	rs368977421	R>G	A:123	(14.00, 4.59, 19.79)
2:58315517		Q>R	A:129	(23.62, 20.76, 18.82)
2:58315520		K>T	A:130	(22.18, 18.05, 15.09)
2:58315521		K>N	A:130	(22.18, 18.05, 15.09)
2:58315538	rs201232703	G>V	A:136	(22.33, 27.62, 16.41)
2:58315541		T>N	A:137	(19.70, 29.29, 15.04)
2:58315550		K>R	A:140	(10.62, 34.24, 17.59)
2:58315555	rs141045353	T>A	A:142	(10.65, 27.16, 17.31)
2:58315556		T>S	A:142	(10.65, 27.16, 17.31)
2:58315577		R>Q	A:149	(6.11, 22.08, 24.88)
2:58316768		L>F	A:151	(8.31, 26.09, 31.26)
2:58316769		D>N	A:152	(5.36, 22.11, 30.73)
2:58316779	rs143605636	E>G	A:155	(5.49, 22.77, 36.67)
2:58316786	rs35966666	I>M	A:157	(11.29, 18.30, 37.29)
2:58316806		H>R	A:164	(18.47, 19.27, 33.94)
2:58316809		G>D	A:165	(21.36, 22.00, 34.96)
2:58316814	rs1051061	I>V	A:167	(18.63, 23.29, 29.80)
2:58316820		A>T	A:169	(20.27, 21.61, 22.36)
2:58316823		A>T	A:170	(22.09, 18.55, 23.17)
2:58316826		N>H	A:171	(20.34, 17.84, 26.49)
2:58316850		P>S	A:179	(8.62, 12.54, 15.51)
2:58316854		D>G	A:180	(6.84, 16.27, 16.85)
2:58350257	rs541143340	L>F	A:189	(24.27, 17.69, 35.84)
2:58350260		S>A	A:190	(20.29, 16.06, 38.32)
2:58350285	rs142690362	N>S	A:198	(13.51, 19.58, 53.38)
2:58350297		Y>C	A:202	(22.75, 30.95, 49.31)
2:58350303		E>A	A:204	(28.31, 31.41, 48.13)
2:58350314		K>E	A:208	(31.52, 23.50, 44.38)
2:58350318		G>V	A:209	(32.43, 26.07, 40.92)
2:58350321	rs139475807	H>R	A:210	(32.37, 28.10, 37.95)
2:58350324	rs36081172	N>S	A:211	(29.74, 23.08, 37.99)
2:58350333	rs144394613	I>T	A:214	(30.38, 27.64, 31.14)
2:58350350		D>Y	A:220	(23.26, 30.06, 41.78)
2:58358947		L>F	A:227	(21.25, 23.87, 41.52)
2:58358962		D>E	A:232	(16.39, 25.23, 35.59)
2:58358963	rs144319023	V>I	A:233	(14.17, 29.58, 34.60)
2:58358966	rs201406382 COSM3053685	E>K	A:234	(19.08, 31.76, 34.86)
2:58358969	rs145144904	I>V	A:235	(19.67, 27.62, 32.10)
2:58358975		G>S	A:237	(17.00, 31.96, 28.71)
2:58358990		R>W	A:242	(22.85, 30.71, 21.00)
2:58359005		K>E	A:247	(25.79, 35.87, 19.30)
2:58359006		K>R	A:247	(25.79, 35.87, 19.30)
2:58359008	rs369326737	L>F	A:248	(25.43, 34.47, 24.16)
2:58359011	COSM3910451	P>T	A:249	(27.16, 38.26, 25.18)
2:58359041	rs200483690	A>T	A:259	(33.82, 36.32, 32.74)
2:58359044		V>L	A:260	(30.80, 34.00, 31.94)
2:58359051	rs146957547	T>I	A:262	(30.74, 38.98, 35.24)
2:58362281		L>S	A:268	(20.42, 39.63, 34.72)
2:58362301		V>L	A:275	(17.98, 41.11, 25.99)
2:58362310		W>R	A:278	(22.97, 40.33, 21.65)
2:58362313		A>T	A:279	(18.28, 41.33, 18.78)
2:58362329		S>T	A:284	(11.96, 40.14, 19.06)
2:58366806	rs374086826	I>V	A:288	(13.53, 36.29, 25.84)
2:58366843		Y>C	A:300	(17.94, 29.35, 46.62)
2:58366864		Q>P	A:307	(1.58, 30.46, 34.21)
2:58366865	rs147504112	Q>H	A:307	(1.58, 30.46, 34.21)
2:58366870		L>H	A:309	(7.13, 32.26, 32.64)
2:58366873	rs372766947	K>M	A:310	(3.56, 28.97, 29.72)
2:58366886		N>K	A:314	(2.03, 32.72, 23.76)
2:58366890	rs140015622	H>Y	A:316	(-0.11, 37.48, 21.08)
2:58366905	rs201301792	G>R	A:321	(2.51, 24.01, 16.62)
2:58366908		P>S	A:322	(4.24, 22.62, 14.09)
2:58366911		L>V	A:323	(8.46, 22.11, 16.33)
2:58366927		K>R	A:328	(14.23, 27.92, 3.78)