3N2Z.B | PRCP – ASTRID

3N2Z.B | PRCP

General Structure Information

PDB ID	3n2z
HGNC Gene Label(s)	PRCP
Structure Name	the structure of human prolylcarboxypeptidase at 2.80 angstroms resolution
Resolution	2.79Å
Reference	AUTH S.M.SOISSON,S.B.PATEL,P.D.ABEYWICKREMA,N.J.BRYNE,R.E.DIEHL,AUTH 2 D.L.HALL,R.E.FORD,J.C.REID,K.W.RICKERT,J.M.SHIPMAN,S.SHARMA,AUTH 3 K.J.LUMBTITL STRUCTURAL DEFINITION AND SUBSTRATE SPECIFICITY OF THE S28TITL 2 PROTEASE FAMILY: THE CRYSTAL STRUCTURE OF HUMANTITL 3 PROLYLCARBOXYPEPTIDASE.REF BMC STRUCT.BIOL. V. 10 16 2010REFN ESSN 1472-6807PMID 20540760DOI 10.1186/1472-6807-10-16

Variant Set Distributions

ExAC Variants

Number Of Residues	442
Number Of SNVs	139
Number Of Permutations	27175
Optimal Distance Threshold	11.0
K Statistic	0.051
p-value	0.78

COSMIC

Number Of Residues	442
Number Of SNVs	4
Number Of Permutations	1019
Optimal Distance Threshold	56.0
K Statistic	0.667
p-value	0.028

Ripley’s K Analysis Plots

ExACCOSMIC

Variant Set Comparisons

Cosmic vs. ExAC

Number Of ExAC SNVs	139
Number Of COSMIC SNVs	3
Optimal Distance Threshold	32.0
K Statistic	-0.584
p-value	0.094

Mapped Variants

[+] ExAC Missense Variants

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
11:82611305	rs150424357	N>I	B:47	(54.06, 21.11, 95.64)
11:82611302		Y>C	B:48	(50.92, 23.96, 92.79)
11:82611300		S>A	B:49	(50.12, 27.15, 96.46)
11:82611290		Y>C	B:52	(42.45, 32.69, 94.34)
11:82611284		Q>R	B:54	(40.41, 41.79, 95.30)
11:82611277		K>N	B:56	(41.13, 47.52, 90.85)
11:82571138	rs140677570	T>A	B:64	(34.52, 50.92, 87.12)
11:82571128		T>I	B:67	(36.55, 43.76, 92.09)
11:82571121		N>K	B:69	(39.40, 37.10, 92.67)
11:82571116	rs201092188	R>Q	B:71	(44.03, 31.01, 89.15)
11:82571117		R>W	B:71	(44.03, 31.01, 89.15)
11:82571104		A>V	B:75	(56.72, 27.89, 94.76)
11:82571089		K>R	B:80	(67.04, 30.69, 100.92)
11:82571081		G>C	B:83	(69.05, 36.40, 99.13)
11:82571070	rs141994635	I>M	B:86	(60.74, 36.44, 92.82)
11:82571065		F>S	B:88	(55.84, 36.98, 87.75)
11:82571060		T>A	B:90	(53.91, 36.75, 82.48)
11:82571042		I>V	B:96	(48.29, 29.46, 85.20)
11:82571026		N>S	B:101	(51.91, 21.46, 84.45)
11:82571020	COSM3967870 COSM3967869	T>M	B:103	(57.36, 26.07, 82.49)
11:82564317	rs202003232	F>I	B:105	(64.12, 27.03, 82.73)
11:82564309		W>C	B:107	(58.88, 23.90, 89.03)
11:82564308		D>N	B:108	(64.78, 22.59, 86.13)
11:82564302		A>T	B:110	(64.95, 27.17, 91.52)
11:82564296		E>K	B:112	(71.50, 27.48, 90.88)
11:82564289		K>T	B:114	(68.74, 31.25, 95.82)
11:82564278		V>M	B:118	(55.04, 33.35, 90.85)
11:82564262	COSM1357352 COSM1357351	R>Q	B:123	(42.45, 40.62, 83.06)
11:82564259		Y>C	B:124	(38.75, 38.45, 80.60)
11:82564256		Y>C	B:125	(42.52, 33.98, 79.46)
11:82564249		E>D	B:127	(39.62, 30.10, 88.22)
11:82564244	COSM3398171 COSM3398170	L>P	B:129	(36.87, 35.20, 84.84)
11:82564245	rs142072494	L>F	B:129	(36.87, 35.20, 84.84)
11:82561544		S>T	B:139	(31.86, 44.89, 73.90)
11:82561538	rs368115231	H>N	B:141	(30.76, 42.50, 80.09)
11:82561517		E>Q	B:148	(47.69, 47.55, 78.41)
11:82561502		D>H	B:153	(46.79, 42.72, 86.87)
11:82561499		F>I	B:154	(51.01, 40.70, 85.81)
11:82561487		I>V	B:158	(54.79, 42.01, 92.20)
11:82561480		H>R	B:160	(49.89, 41.15, 97.71)
11:82561462		P>Q	B:166	(57.79, 37.39, 104.95)
11:82561456	rs551742382	A>V	B:168	(60.11, 39.79, 99.54)
11:82561439		I>F	B:174	(63.19, 37.52, 86.99)
11:82561435		A>G	B:175	(60.14, 37.97, 83.94)
11:82561432		I>T	B:176	(59.72, 34.08, 82.99)
11:82561433		I>V	B:176	(59.72, 34.08, 82.99)
11:82561429		G>E	B:177	(57.96, 33.77, 79.00)
11:82561414		G>D	B:182	(56.91, 36.90, 76.37)
11:82561403	rs144961863	A>T	B:186	(59.24, 42.07, 77.61)
11:82561375		M>T	B:195	(57.91, 45.83, 89.54)
11:82561376		M>V	B:195	(57.91, 45.83, 89.54)
11:82561112		A>P	B:199	(63.35, 39.30, 81.02)
11:82561103	rs201967985	A>T	B:202	(60.36, 32.75, 75.04)
11:82561099		S>F	B:203	(59.37, 32.35, 71.56)
11:82561097		A>S	B:204	(58.62, 36.49, 71.57)
11:82561083	rs145127979	Q>H	B:208	(54.66, 39.08, 63.92)
11:82561066		P>L	B:214	(57.87, 39.88, 56.22)
11:82561043	COSM4037071 COSM4037070	V>I	B:222	(56.54, 26.10, 58.06)
11:82561039	rs188670714	T>S	B:223	(58.29, 25.50, 54.07)
11:82561036	rs147407642	T>I	B:224	(62.32, 25.55, 55.67)
11:82561037	rs199603473	T>A	B:224	(62.32, 25.55, 55.67)
11:82561026		R>S	B:227	(63.11, 22.89, 52.36)
11:82561019	rs140634119	G>S	B:230	(63.29, 15.89, 53.40)
11:82561012	rs561357575	H>R	B:232	(61.32, 15.14, 46.98)
11:82561000		S>N	B:236	(54.71, 16.73, 48.04)
11:82561001		S>G	B:236	(54.71, 16.73, 48.04)
11:82560984	rs539892452	W>C	B:241	(47.52, 22.47, 48.93)
11:82560979		A>V	B:243	(44.99, 17.53, 43.73)
11:82560970		R>P	B:246	(42.52, 18.06, 39.67)
11:82560968		L>F	B:247	(39.52, 15.05, 43.37)
11:82560964	rs377237533 COSM1298687 COSM1298686	S>L	B:248	(36.60, 19.25, 44.11)
11:82560248		Q>R	B:255	(32.59, 9.48, 47.34)
11:82560239		T>I	B:258	(35.93, 11.40, 52.13)
11:82560234	rs558200467	A>T	B:260	(41.49, 8.79, 51.52)
11:82560225		L>V	B:263	(37.10, 12.26, 56.51)
11:82560221	COSM932503 COSM1152406	C>Y	B:264	(33.87, 11.71, 59.87)
11:82560198		I>V	B:272	(37.26, 21.75, 49.71)
11:82560191		H>R	B:274	(37.48, 23.83, 56.92)
11:82560189		L>M	B:275	(40.03, 20.03, 53.81)
11:82560178		W>C	B:278	(42.38, 19.43, 59.03)
11:82560162	rs373494621	V>L	B:284	(51.57, 25.11, 61.30)
11:82560132	rs143734237	A>P	B:294	(58.55, 12.45, 72.65)
11:82560126		N>Y	B:296	(50.96, 14.24, 75.01)
11:82560115	rs182131594	Q>H	B:299	(47.96, 15.24, 69.54)
11:82560117		Q>K	B:299	(47.96, 15.24, 69.54)
11:82560114		P>T	B:300	(49.97, 11.82, 70.78)
11:82560105		A>T	B:303	(60.68, 12.10, 67.53)
11:82560099		P>S	B:305	(57.46, 15.03, 64.24)
11:82560094		I>M	B:306	(58.36, 17.12, 60.47)
11:82560096	rs372663948	I>V	B:306	(58.36, 17.12, 60.47)
11:82550466	rs142029185	V>A	B:308	(57.95, 10.70, 60.94)
11:82550467		V>I	B:308	(57.95, 10.70, 60.94)
11:82550445		N>T	B:315	(58.07, 9.06, 45.89)
11:82550439		N>S	B:317	(58.27, 9.45, 40.88)
11:82550433	rs374737494	S>C	B:319	(49.75, 9.68, 41.62)
11:82550421		L>P	B:323	(50.12, 12.80, 46.63)
11:82550414		Q>H	B:325	(46.78, 7.41, 49.38)
11:82550415	rs544139495	Q>R	B:325	(46.78, 7.41, 49.38)
11:82550401		A>P	B:330	(50.89, 12.38, 57.60)
11:82550398	rs199651564 COSM1193559 COSM1193558	L>V	B:331	(47.25, 13.96, 58.35)
11:82550370	rs151083527	Q>R	B:340	(44.41, 8.98, 69.05)
11:82550356		N>H	B:345	(36.39, 16.00, 62.88)
11:82550325	rs577429681	G>E	B:355	(40.73, 30.69, 75.09)
11:82550323		T>P	B:356	(39.76, 30.36, 71.73)
11:82550316		G>D	B:358	(40.04, 35.66, 73.96)
11:82549616		A>T	B:363	(43.19, 39.35, 67.53)
11:82549610	COSM932501 COSM1586043	T>A	B:365	(41.77, 44.27, 69.46)
11:82549597	rs577370200	M>K	B:369	(49.69, 39.06, 64.16)
11:82549598		M>V	B:369	(49.69, 39.06, 64.16)
11:82549595		P>T	B:370	(50.54, 40.64, 59.77)
11:82549580		G>R	B:375	(53.91, 29.86, 46.61)
11:82549577	rs375747888	V>I	B:376	(57.10, 31.36, 45.67)
11:82549574	rs138336049	D>N	B:377	(58.95, 32.20, 49.31)
11:82549562		E>Q	B:381	(46.97, 27.59, 47.87)
11:82549555		H>R	B:383	(45.87, 32.75, 50.73)
11:82549535		L>I	B:390	(40.38, 40.98, 59.95)
11:82549528	rs375543587	D>G	B:392	(34.42, 43.73, 58.40)
11:82549525		D>G	B:393	(35.15, 39.28, 60.10)
11:82549516	rs199524248	Q>P	B:396	(29.64, 40.90, 62.47)
11:82549507		G>D	B:399	(31.99, 44.99, 67.96)
11:82549499		P>T	B:402	(40.94, 46.22, 64.30)
11:82549489		S>F	B:405	(49.19, 50.88, 65.14)
11:82549480		T>I	B:408	(53.90, 49.99, 67.39)
11:82549478		T>A	B:409	(52.31, 53.36, 69.58)
11:82549474		M>T	B:410	(52.30, 51.16, 74.20)
11:82549475		M>V	B:410	(52.30, 51.16, 74.20)
11:82549460	rs140748781	N>D	B:415	(62.35, 51.75, 68.04)
11:82549453	rs536616254	S>N	B:417	(67.70, 50.61, 72.34)
11:82549444		T>R	B:420	(67.84, 47.03, 80.12)
11:82549435		V>G	B:423	(66.90, 37.08, 77.23)
11:82536149		D>E	B:430	(59.47, 28.76, 65.88)
11:82536147	rs375451546	P>L	B:431	(57.29, 29.53, 63.00)
11:82536139		G>R	B:434	(60.11, 35.93, 62.42)
11:82536135	rs200329943	G>D	B:435	(58.93, 38.05, 64.85)
11:82536121		D>Y	B:440	(72.39, 41.02, 70.11)
11:82536114		T>I	B:442	(72.20, 45.80, 73.40)
11:82536108	rs2228312	T>S	B:444	(71.37, 44.27, 78.00)
11:82536109		T>A	B:444	(71.37, 44.27, 78.00)
11:82536106	COSM3453899 COSM3453898	L>V	B:445	(68.64, 44.20, 74.75)
11:82536093		T>I	B:449	(69.65, 31.11, 68.49)
11:82536094		T>A	B:449	(69.65, 31.11, 68.49)
11:82536085		E>Q	B:452	(68.27, 21.22, 66.57)
11:82536079	rs202237309	A>T	B:454	(61.00, 24.77, 68.27)
11:82536075		H>R	B:455	(57.19, 27.55, 70.43)
11:82536060		R>H	B:460	(59.65, 23.00, 77.87)
11:82536061	rs372175092 COSM1357348 COSM1357347	R>C	B:460	(59.65, 23.00, 77.87)
11:82536048	COSM429961 COSM1475930	A>G	B:464	(68.49, 13.59, 77.18)
11:82536043		D>Y	B:466	(68.02, 18.01, 75.37)
11:82536035		M>I	B:468	(74.65, 20.90, 73.63)
11:82536037	rs561250792	M>V	B:468	(74.65, 20.90, 73.63)
11:82536018		R>H	B:474	(67.89, 25.29, 78.89)
11:82536019	rs543072215 COSM3453897 COSM3453896	R>C	B:474	(67.89, 25.29, 78.89)
11:82536015	rs141233621	S>F	B:475	(73.33, 28.44, 80.48)
11:82535999		H>Q	B:480	(72.33, 37.08, 81.11)
11:82536000		H>R	B:480	(72.33, 37.08, 81.11)
11:82535996		M>I	B:481	(68.64, 35.07, 85.23)
11:82535998		M>V	B:481	(68.64, 35.07, 85.23)
11:82535973		Y>C	B:489	(70.59, 41.48, 96.31)

Position	Variant	AA Change	PDB Chain Position	Structure Coordinates
11:82611280	COSM1605288	Q>H	B:55	(43.07, 42.82, 90.80)
11:82550443	COSM227085	P>S	B:316	(58.80, 12.06, 43.52)
11:82550376	COSM3967867	S>L	B:338	(48.00, 6.34, 69.85)
11:82535982	COSM1746608	R>T	B:486	(75.49, 38.71, 90.69)

3N2Z.B | PRCP.

3N2Z.B | PRCP

General Structure Information

Variant Set Distributions

Ripley’s K Analysis Plots

Variant Set Comparisons

Mapped Variants

[+] ExAC Missense Variants

[+] COSMIC Missense Variants