3ROD.B | NNMT – ASTRID

3ROD.B | NNMT

General Structure Information

PDB ID	3rod
HGNC Gene Label(s)	NNMT
Structure Name	methyltransferase
Resolution	2.72Å
Reference	AUTH Y.PENG,D.SARTINI,V.POZZI,D.WILK,M.EMANUELLI,V.C.YEETITL STRUCTURAL BASIS OF SUBSTRATE RECOGNITION IN HUMANTITL 2 NICOTINAMIDE N-METHYLTRANSFERASE.REF BIOCHEMISTRY V. 50 7800 2011REFN ISSN 0006-2960PMID 21823666DOI 10.1021/BI2007614

Variant Set Distributions

ExAC Variants

Number Of Residues	259
Number Of SNVs	93
Number Of Permutations	25170
Optimal Distance Threshold	16.0
K Statistic	0.254
p-value	0.513

COSMIC

Number Of Residues	259
Number Of SNVs	3
Number Of Permutations	103
Optimal Distance Threshold	31.0
K Statistic	0.333
p-value	0.227

Ripley’s K Analysis Plots

ExACCOSMIC

Variant Set Comparisons

Cosmic vs. ExAC

Number Of ExAC SNVs	93
Number Of COSMIC SNVs	3
Optimal Distance Threshold	24.0
K Statistic	-0.581
p-value	0.047

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
11:114167289		G>V	B:4	(13.76, 1.13, 18.69)
11:114167295		T>N	B:6	(12.69, 2.45, 12.64)
11:114167297		S>A	B:7	(13.33, 6.39, 12.64)
11:114167309	rs371475692	Y>H	B:11	(12.12, 4.03, 6.71)
11:114167320	rs202205364	H>Q	B:14	(19.90, 3.81, 6.57)
11:114167328	rs368899211	P>L	B:17	(15.09, 1.93, -3.11)
11:114167331	rs368443208	R>Q	B:18	(18.59, 0.49, -5.23)
11:114167346		K>I	B:23	(15.76, -8.28, -1.62)
11:114167354	rs144899119	K>E	B:26	(13.16, -10.84, -7.99)
11:114167355	COSM540909	K>M	B:26	(13.16, -10.84, -7.99)
11:114167364	COSM75623	S>F	B:29	(10.23, -19.47, -11.26)
11:114167400		L>R	B:41	(-0.96, -8.90, -2.53)
11:114167423		F>L	B:49	(-9.33, -2.27, -7.29)
11:114168676		G>D	B:53	(-17.13, -1.72, -6.67)
11:114168684		G>R	B:56	(-13.21, 6.39, -9.31)
11:114168697		I>T	B:60	(-4.88, 8.54, -2.28)
11:114168699	COSM3791199	D>N	B:61	(-0.99, 4.91, -2.46)
11:114168700	rs150359341	D>A	B:61	(-0.99, 4.91, -2.46)
11:114168705		G>S	B:63	(3.20, 4.14, 0.85)
11:114168709		S>F	B:64	(3.91, 3.73, -2.47)
11:114168714		P>S	B:66	(9.44, 1.85, -4.32)
11:114168715		P>H	B:66	(9.44, 1.85, -4.32)
11:114168717	rs200017623	T>A	B:67	(6.05, 0.02, -5.25)
11:114168718	rs374843533	T>I	B:67	(6.05, 0.02, -5.25)
11:114168724		Y>S	B:69	(2.37, -4.05, -5.81)
11:114168729	rs56077214	L>F	B:71	(-1.09, 1.13, -8.59)
11:114168736		S>C	B:73	(-5.81, -3.12, -10.79)
11:114168739	rs369210703 COSM1196178	A>G	B:74	(-6.71, 0.63, -9.64)
11:114168746		E>D	B:76	(-8.36, -0.62, -15.18)
11:114168753		K>E	B:79	(-10.22, 9.48, -14.03)
11:114168762		V>F	B:82	(-2.21, 10.33, -5.70)
11:114168765	rs137978367	V>I	B:83	(1.53, 8.12, -5.63)
11:114168768		T>A	B:84	(2.31, 8.78, -1.41)
11:114168789		L>M	B:91	(9.02, 9.53, -4.21)
11:114168793		Q>R	B:92	(13.51, 9.83, -6.54)
11:114168809	rs143577747	W>C	B:97	(7.28, 2.37, -14.25)
11:114168811		L>R	B:98	(6.13, 6.99, -13.76)
11:114168828		A>P	B:104	(14.00, 1.32, -14.32)
11:114168846	rs374092212	V>L	B:110	(4.16, -8.01, -12.30)
11:114168847		V>E	B:110	(4.16, -8.01, -12.30)
11:114168867		L>I	B:117	(-5.44, -11.98, -13.24)
11:114168868	rs560223478	L>P	B:117	(-5.44, -11.98, -13.24)
11:114168870		E>K	B:118	(-7.05, -7.88, -15.67)
11:114168874		G>E	B:119	(-8.10, -11.34, -19.55)
11:114168876		N>D	B:120	(-4.69, -11.15, -21.71)
11:114168877		N>T	B:120	(-4.69, -11.15, -21.71)
11:114182774		G>S	B:124	(1.67, -4.48, -21.03)
11:114182775		G>D	B:124	(1.67, -4.48, -21.03)
11:114182782	rs142472969	E>D	B:126	(-2.41, -1.21, -23.29)
11:114182789	rs140310297	E>K	B:129	(0.63, 4.23, -20.95)
11:114182798		R>G	B:132	(3.52, 5.13, -17.22)
11:114182805	rs201383251	A>V	B:134	(-3.16, 7.72, -13.91)
11:114182808		V>D	B:135	(-0.02, 8.74, -11.90)
11:114182823	rs56329324	K>R	B:140	(6.63, 13.72, 1.52)
11:114182826		C>F	B:141	(3.54, 11.31, 3.21)
11:114182838	rs201257954	Q>R	B:145	(1.51, 14.78, 10.76)
11:114182842		S>R	B:146	(-2.98, 15.60, 11.01)
11:114182850		L>R	B:149	(-0.59, 15.10, 1.99)
11:114182855		A>S	B:151	(-0.86, 21.92, 2.11)
11:114182858		V>I	B:152	(-1.19, 19.43, -0.96)
11:114182862		P>L	B:153	(-4.36, 21.01, -2.37)
11:114182865		L>S	B:154	(-6.16, 16.78, -2.62)
11:114182867	rs367956940	P>S	B:155	(-9.73, 16.33, -4.00)
11:114182870		P>T	B:156	(-12.51, 14.74, -1.50)
11:114182871		P>L	B:156	(-12.51, 14.74, -1.50)
11:114182876		D>H	B:158	(-13.22, 8.22, -4.20)
11:114182879		C>G	B:159	(-9.68, 5.39, -2.36)
11:114182909	rs374377399	A>T	B:169	(5.04, 3.85, 10.35)
11:114182915	rs562426461	P>S	B:171	(5.38, 3.01, 16.57)
11:114182918		D>H	B:172	(2.14, 2.99, 18.79)
11:114182921	rs199632542	L>F	B:173	(-2.15, 0.82, 18.77)
11:114182924		P>A	B:174	(-1.84, 4.96, 19.48)
11:114182925	rs372156533	P>L	B:174	(-1.84, 4.96, 19.48)
11:114182927		T>A	B:175	(0.55, 6.25, 16.16)
11:114182928		T>I	B:175	(0.55, 6.25, 16.16)
11:114182933	rs552025341	C>R	B:177	(-5.18, 4.65, 15.57)
11:114182950	rs200319273	N>K	B:182	(-4.83, 10.97, 10.22)
11:114182957		S>R	B:185	(-8.79, 13.28, 6.23)
11:114182961	rs142397660	L>P	B:186	(-7.63, 12.26, 2.62)
11:114182964		L>Q	B:187	(-11.86, 9.56, 2.28)
11:114182979		F>C	B:192	(-14.22, 2.37, -0.80)
11:114182984		V>M	B:194	(-7.75, -0.67, 0.72)
11:114182985		V>E	B:194	(-7.75, -0.67, 0.72)
11:114182987		I>V	B:195	(-5.30, -1.64, 4.30)
11:114182990		M>V	B:196	(-2.84, -4.99, 1.79)
11:114182996		A>T	B:198	(1.55, -7.67, 8.31)
11:114182997	rs375954126 COSM923294	A>V	B:198	(1.55, -7.67, 8.31)
11:114183008		S>G	B:202	(8.93, -7.22, 14.40)
11:114183017		M>V	B:205	(15.62, -7.56, 6.70)
11:114183019		M>I	B:205	(15.62, -7.56, 6.70)
11:114183021		I>T	B:206	(16.16, -4.15, 3.23)
11:114183026		E>K	B:208	(21.46, -6.85, 7.88)
11:114183037	rs376914323	F>L	B:211	(13.74, -1.34, 8.32)
11:114183056	rs144304317	R>W	B:218	(-8.62, -10.82, 12.75)
11:114183057	rs374692669	R>Q	B:218	(-8.62, -10.82, 12.75)
11:114183063	rs548099314	A>V	B:220	(-6.16, -5.07, 16.74)
11:114183068	rs201804258 COSM466347	E>K	B:222	(-10.82, -5.84, 13.08)
11:114183084		E>G	B:227	(-11.52, 2.75, 17.63)
11:114183086		A>T	B:228	(-11.24, 5.22, 13.12)
11:114183087	rs567700301	A>V	B:228	(-11.24, 5.22, 13.12)
11:114183092		Y>H	B:230	(-12.95, 3.68, 8.93)
11:114183109		F>L	B:235	(-10.30, -8.72, 7.78)
11:114183110		E>Q	B:236	(-8.38, -12.13, 3.59)
11:114183113		V>M	B:237	(-6.53, -13.98, 7.24)
11:114183120	rs141240468	S>L	B:239	(-0.98, -18.19, 6.59)
11:114183144		A>V	B:247	(10.24, -11.65, 7.93)
11:114183152	rs556654096 COSM3443649	E>K	B:250	(2.09, -15.21, 12.06)
11:114183165	rs145609823	S>C	B:254	(-6.82, -7.82, 3.44)
11:114183174	rs576476423	A>V	B:257	(-13.54, -0.11, 4.43)

3ROD.B | NNMT.

3ROD.B | NNMT

General Structure Information

Variant Set Distributions

Ripley’s K Analysis Plots

Variant Set Comparisons

Mapped Variants

[+] ExAC Missense Variants

[+] COSMIC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
11:114168780	COSM3375654	D>N	B:88	(12.01, 12.31, -0.60)
11:114183101	COSM168219	E>K	B:233	(-17.56, -3.85, 3.51)
11:114183152	COSM3443649	E>K	B:250	(2.09, -15.21, 12.06)