1N52.A | NCBP1

General Structure Information

PDB ID	1n52
HGNC Gene Label(s)	NCBP1
Structure Name	cap binding complex
Resolution	2.11Å
Reference	AUTH G.CALERO,K.WILSON,T.LY,J.RIOS-STEINER,J.CLARDY,R.CERIONETITL STRUCTURAL BASIS OF M7GPPPG BINDING TO THE NUCLEARTITL 2 CAP-BINDING PROTEIN COMPLEX.REF NAT.STRUCT.BIOL. V. 9 912 2002REFN ISSN 1072-8368PMID 12434151DOI 10.1038/NSB874

Variant Set Distributions

ExAC Variants

Number Of Residues	732
Number Of SNVs	117
Number Of Permutations	68991
Optimal Distance Threshold	8.0
K Statistic	0.012
p-value	0.777

COSMIC

Number Of Residues	732
Number Of SNVs	3
Number Of Permutations	268
Optimal Distance Threshold	4.0
K Statistic	0.333
p-value	0.056

Ripley’s K Analysis Plots

ExACCOSMIC

Variant Set Comparisons

Cosmic vs. ExAC

Number Of ExAC SNVs	117
Number Of COSMIC SNVs	3
Optimal Distance Threshold	4.0
K Statistic	0.333
p-value	0.65

Pathogenic Proximity Analysis

COSMIC PathProx Analysis

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
9:100403119		E>D	A:26	(-6.68, 72.79, -6.76)
9:100403153		V>L	A:38	(-5.34, 77.59, 12.05)
9:100403853		S>P	A:45	(2.44, 82.58, 16.09)
9:100403904		P>S	A:62	(-14.93, 87.49, -4.15)
9:100403905	rs199768033	P>R	A:62	(-14.93, 87.49, -4.15)
9:100403909		N>K	A:63	(-14.74, 84.08, -6.59)
9:100403911	COSM3902437	Y>F	A:64	(-13.55, 80.84, -3.93)
9:100403930		R>S	A:70	(-20.25, 75.99, 2.53)
9:100405488		A>G	A:76	(-18.30, 75.17, 14.41)
9:100405491	rs368904475	R>H	A:77	(-21.04, 70.89, 12.85)
9:100405523	rs561132889	T>A	A:88	(-10.77, 84.90, 16.28)
9:100405530	rs200044823	V>A	A:90	(-15.42, 85.00, 12.36)
9:100405557	rs375702222	N>S	A:99	(-21.86, 92.58, 4.74)
9:100405560		F>C	A:100	(-18.33, 87.15, 5.84)
9:100405579		E>D	A:106	(-28.03, 84.84, 8.67)
9:100405589		R>C	A:110	(-29.72, 78.90, 8.07)
9:100405590		R>H	A:110	(-29.72, 78.90, 8.07)
9:100405623	rs201055450	Y>C	A:121	(-30.95, 68.88, 20.88)
9:100405634	rs143745791	V>M	A:125	(-24.16, 73.09, 22.53)
9:100407402		R>C	A:129	(-20.42, 76.34, 23.70)
9:100407444		P>S	A:143	(-26.89, 92.83, 24.01)
9:100407445	COSM403880	P>L	A:143	(-26.89, 92.83, 24.01)
9:100407450		M>V	A:145	(-26.54, 86.15, 23.12)
9:100407452		M>I	A:145	(-26.54, 86.15, 23.12)
9:100407459		M>V	A:148	(-31.05, 83.46, 22.40)
9:100407460	rs570584263	M>T	A:148	(-31.05, 83.46, 22.40)
9:100407477	rs148430361	S>G	A:154	(-38.20, 80.47, 28.79)
9:100407480	rs199742053	V>I	A:155	(-38.10, 76.23, 28.07)
9:100407494	rs367832805	E>D	A:159	(-46.64, 73.99, 30.72)
9:100407501		P>S	A:162	(-40.00, 66.86, 28.49)
9:100407502		P>L	A:162	(-40.00, 66.86, 28.49)
9:100407897		R>Q	A:165	(-37.42, 70.93, 25.81)
9:100407900		R>Q	A:166	(-38.37, 71.95, 31.06)
9:100407911		V>L	A:170	(-30.15, 75.38, 31.30)
9:100407924		L>R	A:174	(-25.10, 77.29, 32.38)
9:100407970	rs369507099	D>E	A:189	(-27.44, 93.21, 35.35)
9:100407983	rs144152800	R>C	A:194	(-36.05, 87.96, 34.93)
9:100407984	COSM307501	R>H	A:194	(-36.05, 87.96, 34.93)
9:100407999		T>I	A:199	(-32.14, 78.90, 36.75)
9:100408004		S>G	A:201	(-36.24, 77.98, 40.49)
9:100408014		K>R	A:204	(-34.39, 74.81, 43.85)
9:100409790		H>Y	A:210	(-31.67, 60.88, 37.21)
9:100409794		V>G	A:211	(-28.71, 60.04, 40.27)
9:100409799		M>V	A:213	(-29.72, 54.30, 37.05)
9:100409812		W>L	A:217	(-17.61, 55.36, 42.11)
9:100409817	rs146305083	A>S	A:219	(-19.96, 56.87, 47.62)
9:100409827		P>L	A:222	(-13.67, 60.19, 48.15)
9:100410342	rs547285420	Q>R	A:245	(-12.00, 86.69, 36.66)
9:100410422		T>S	A:272	(-38.58, 80.91, 18.91)
9:100410458	rs377142866	M>V	A:284	(-29.81, 60.71, 28.47)
9:100412821		F>L	A:312	(-17.01, 72.12, 31.92)
9:100412827		I>V	A:314	(-9.86, 70.70, 31.03)
9:100412832		E>D	A:315	(-13.14, 67.17, 31.78)
9:100412843		H>R	A:319	(-14.73, 64.20, 26.83)
9:100412851		I>V	A:322	(-11.68, 61.36, 22.33)
9:100412860		H>Y	A:325	(-9.12, 62.56, 16.49)
9:100412866		K>E	A:327	(-12.02, 56.76, 13.45)
9:100413630		I>S	A:345	(-2.79, 71.40, 33.62)
9:100413650	rs146487190	V>I	A:352	(-6.71, 58.92, 32.98)
9:100416113		P>T	A:365	(-19.94, 54.18, 26.44)
9:100416123		I>T	A:368	(-16.01, 50.47, 20.97)
9:100416140		T>A	A:374	(-5.86, 50.74, 22.49)
9:100416162		K>R	A:381	(3.69, 53.55, 22.92)
9:100417189	rs201715578	M>L	A:400	(-9.22, 50.53, 47.35)
9:100417192	COSM1464328	R>G	A:401	(-12.21, 54.59, 45.10)
9:100417193	rs191669699	R>H	A:401	(-12.21, 54.59, 45.10)
9:100417198		D>N	A:403	(-16.74, 48.17, 48.19)
9:100417201	rs377011060	T>A	A:404	(-19.55, 51.59, 46.05)
9:100417988	rs562093927	I>V	A:414	(-13.11, 43.05, 34.88)
9:100418028	rs529407443	R>H	A:427	(4.67, 41.94, 35.08)
9:100418301		C>F	A:436	(-8.81, 40.14, 48.99)
9:100418313		D>G	A:440	(-16.90, 37.11, 51.57)
9:100418321		S>G	A:443	(-16.63, 40.79, 48.49)
9:100418330		P>S	A:446	(-12.56, 39.36, 46.14)
9:100418331	rs77602722	P>L	A:446	(-12.56, 39.36, 46.14)
9:100418348		V>I	A:452	(-9.49, 39.72, 36.31)
9:100418361		C>F	A:456	(-6.45, 36.49, 31.95)
9:100420932		H>Y	A:462	(-5.02, 27.11, 34.22)
9:100420936		Q>L	A:463	(-0.25, 26.94, 34.38)
9:100420939	COSM1103043	R>H	A:464	(0.99, 32.79, 31.77)
9:100420957		P>L	A:470	(0.94, 35.37, 44.20)
9:100420992	rs543815167	T>A	A:482	(-12.12, 20.32, 32.42)
9:100421011	rs565223329	G>A	A:488	(-17.83, 8.12, 31.31)
9:100423231		S>F	A:494	(-26.41, 3.38, 37.89)
9:100423251		A>T	A:501	(-24.17, 6.50, 25.35)
9:100423254		L>V	A:502	(-21.79, 3.56, 25.71)
9:100423294		D>G	A:515	(-31.11, 8.47, 10.33)
9:100423317		D>N	A:523	(-33.21, 1.88, 22.27)
9:100424344		P>T	A:541	(-35.74, 13.81, 29.08)
9:100424345		P>L	A:541	(-35.74, 13.81, 29.08)
9:100424354	rs141653335	I>T	A:544	(-31.79, 15.51, 25.53)
9:100424381		H>R	A:553	(-16.59, 13.56, 25.56)
9:100424393		K>T	A:557	(-9.29, 19.00, 21.01)
9:100425239		F>L	A:569	(-24.99, 14.92, 14.39)
9:100425246		V>I	A:572	(-30.91, 15.25, 16.28)
9:100425269	rs576031865	S>R	A:579	(-39.72, 21.64, 23.16)
9:100425271		D>G	A:580	(-39.83, 25.33, 25.07)
9:100425300		M>V	A:590	(-24.38, 22.85, 27.90)
9:100425301		M>T	A:590	(-24.38, 22.85, 27.90)
9:100425320	rs200307901	N>K	A:596	(-15.50, 23.87, 34.63)
9:100426647		M>T	A:608	(-27.21, 26.61, 20.36)
9:100426649		I>V	A:609	(-29.46, 31.30, 19.34)
9:100426652		R>C	A:610	(-26.26, 33.17, 15.49)
9:100426653	rs189780807	R>H	A:610	(-26.26, 33.17, 15.49)
9:100426664		V>I	A:614	(-32.03, 27.30, 21.31)
9:100426674		A>V	A:617	(-36.63, 32.38, 25.88)
9:100426686		N>S	A:621	(-36.17, 30.74, 31.24)
9:100426690		W>C	A:622	(-29.35, 28.49, 31.15)
9:100426712	rs199656608	R>C	A:630	(-24.09, 27.26, 43.49)
9:100426713	rs76139042	R>L	A:630	(-24.09, 27.26, 43.49)
9:100429046	rs563025088	L>V	A:635	(-19.14, 38.34, 34.53)
9:100429053		V>A	A:637	(-24.48, 34.60, 33.29)
9:100429073	rs530473497	T>S	A:644	(-29.22, 36.61, 23.63)
9:100429080	rs372649867	R>H	A:646	(-26.19, 42.08, 21.71)
9:100429106		I>F	A:655	(-36.39, 41.86, 9.31)
9:100429112	rs35694910	K>Q	A:657	(-33.01, 46.40, 6.20)
9:100431186		I>T	A:692	(-43.71, 43.69, 1.13)
9:100431187	rs564435323	I>M	A:692	(-43.71, 43.69, 1.13)
9:100431203	rs369608673	K>E	A:698	(-39.76, 37.95, 9.36)
9:100431213		S>Y	A:701	(-42.83, 37.67, 14.63)
9:100431887		I>V	A:720	(-35.61, 36.75, 42.00)
9:100431908	rs201932796	R>G	A:727	(-36.36, 35.14, 52.01)
9:100431944	rs148698789	W>R	A:739	(-28.76, 37.72, 45.19)
9:100431952		K>N	A:741	(-24.79, 45.03, 44.53)
9:100431954		N>S	A:742	(-25.68, 41.23, 41.01)
9:100431960		I>T	A:744	(-30.87, 45.49, 41.94)
9:100433390		Y>F	A:761	(-41.92, 47.13, 25.20)
9:100433434	rs142212526	P>T	A:776	(-40.29, 49.88, 46.83)
9:100433449	rs377264051	V>M	A:781	(-35.26, 50.27, 38.86)
9:100433465		C>S	A:786	(-38.80, 56.68, 33.34)
9:100433477		A>G	A:790	(-38.45, 63.23, 31.61)

1N52.A | NCBP1.

1N52.A | NCBP1

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

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
9:100423288	COSM1286519	T>S	A:513	(-25.86, 8.87, 10.21)
9:100423298	COSM3432686	E>D	A:516	(-26.97, 5.59, 11.97)
9:100431908	COSM4368986	R>G	A:727	(-36.36, 35.14, 52.01)