General Structure Information
| PDB ID | 3a6p |
| HGNC Gene Label(s) | XPO5 |
| Structure Name | crystal structure of exportin-5:rangtp:pre-mirna complex |
| Resolution | 2.92Å |
| Reference | AUTH C.OKADA,E.YAMASHITA,S.J.LEE,S.SHIBATA,J.KATAHIRA,A.NAKAGAWA,AUTH 2 Y.YONEDA,T.TSUKIHARATITL A HIGH-RESOLUTION STRUCTURE OF THE PRE-MICRORNA NUCLEARTITL 2 EXPORT MACHINERYREF SCIENCE V. 326 1275 2009REFN ISSN 0036-8075PMID 19965479DOI 10.1126/SCIENCE.1178705 |
Variant Set Distributions
ExAC Variants
| Number Of Residues | 1072 |
| Number Of SNVs | 197 |
| Number Of Permutations | 44856 |
| Optimal Distance Threshold | 6.0 |
| K Statistic | 0.005 |
| p-value | 0.555 |
COSMIC
| Number Of Residues | 1072 |
| Number Of SNVs | 6 |
| Number Of Permutations | 2206 |
| Optimal Distance Threshold | 10.0 |
| K Statistic | 0.067 |
| p-value | 0.987 |
Ripley’s K Analysis Plots
ExACCOSMIC
Variant Set Comparisons
Cosmic vs. ExAC
| Number Of ExAC SNVs | 197 |
| Number Of COSMIC SNVs | 5 |
| Optimal Distance Threshold | 10.0 |
| K Statistic | 0.083 |
| p-value | 0.937 |
Pathogenic Proximity Analysis
COSMIC PathProx Analysis
Mapped Variants
[+] ExAC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 6:43543513 | R>Q | A:30 | (18.20, 145.61, 20.06) | |
| 6:43543499 | rs376796788 | K>E | A:35 | (13.26, 150.98, 11.04) |
| 6:43541329 | E>K | A:39 | (15.03, 153.05, 5.83) | |
| 6:43541304 | C>Y | A:47 | (26.19, 155.89, 2.27) | |
| 6:43541305 | C>S | A:47 | (26.19, 155.89, 2.27) | |
| 6:43541302 | V>F | A:48 | (30.20, 156.17, 0.57) | |
| 6:43541298 | P>L | A:49 | (30.39, 159.29, 2.67) | |
| 6:43541292 | G>V | A:51 | (31.57, 154.61, 5.71) | |
| 6:43541286 | rs373359039 | R>K | A:53 | (33.38, 160.20, 8.44) |
| 6:43541276 | E>D | A:56 | (38.30, 155.94, 9.14) | |
| 6:43541257 | rs370390582 | V>I | A:63 | (32.27, 151.39, 14.67) |
| 6:43541237 | Q>H | A:69 | (28.49, 145.95, 7.23) | |
| 6:43541227 | H>Y | A:73 | (24.28, 147.18, 1.41) | |
| 6:43540310 | R>Q | A:78 | (22.44, 151.56, -3.10) | |
| 6:43540302 | rs61762966 | G>S | A:81 | (22.34, 153.26, -8.63) |
| 6:43540263 | V>I | A:94 | (38.47, 150.37, -0.61) | |
| 6:43540257 | E>K | A:96 | (43.90, 154.32, -0.19) | |
| 6:43538730 | G>A | A:101 | (43.50, 152.09, 6.64) | |
| 6:43538691 | D>G | A:114 | (36.11, 139.84, 6.83) | |
| 6:43538688 | rs370633103 | A>V | A:115 | (35.16, 143.58, 6.10) |
| 6:43538621 | I>M | A:137 | (48.26, 144.48, -11.72) | |
| 6:43538596 | G>R | A:146 | (53.38, 144.37, 2.81) | |
| 6:43538393 | rs377741530 | I>T | A:156 | (40.41, 139.18, -1.27) |
| 6:43538390 | L>H | A:157 | (42.48, 135.66, -3.63) | |
| 6:43538364 | T>A | A:166 | (32.47, 126.29, -3.30) | |
| 6:43538351 | L>P | A:170 | (26.98, 134.69, -8.39) | |
| 6:43538309 | rs377472859 | Q>R | A:184 | (41.78, 132.48, -18.44) |
| 6:43538302 | M>I | A:186 | (45.30, 129.76, -11.77) | |
| 6:43538301 | E>K | A:187 | (50.32, 130.16, -14.53) | |
| 6:43538295 | rs373327142 | I>L | A:189 | (46.39, 133.41, -9.13) |
| 6:43538289 | S>G | A:191 | (52.69, 131.99, -8.77) | |
| 6:43538286 | F>V | A:192 | (50.71, 135.85, -5.39) | |
| 6:43536471 | rs201099159 | T>S | A:209 | (65.60, 131.90, 16.90) |
| 6:43536465 | T>A | A:211 | (65.76, 137.86, 20.70) | |
| 6:43536461 | rs201591158 | S>F | A:212 | (65.93, 141.54, 18.89) |
| 6:43535090 | A>V | A:217 | (58.47, 136.62, 12.94) | |
| 6:43535085 | rs375060795 | A>T | A:219 | (54.44, 138.58, 10.58) |
| 6:43535082 | N>D | A:220 | (56.82, 136.95, 7.93) | |
| 6:43535079 | rs553233595 | C>R | A:221 | (54.04, 133.53, 10.22) |
| 6:43535075 | R>Q | A:222 | (49.09, 135.76, 10.84) | |
| 6:43535067 | rs200090185 | V>I | A:225 | (48.96, 130.91, 7.92) |
| 6:43535052 | rs567783691 | T>A | A:230 | (44.40, 130.93, 0.30) |
| 6:43535049 | L>V | A:231 | (46.74, 127.62, -1.29) | |
| 6:43535024 | S>F | A:239 | (44.57, 122.31, -12.79) | |
| 6:43535025 | S>P | A:239 | (44.57, 122.31, -12.79) | |
| 6:43535020 | M>I | A:240 | (47.12, 118.75, -11.12) | |
| 6:43535022 | M>V | A:240 | (47.12, 118.75, -11.12) | |
| 6:43535018 | rs34324334 | S>N | A:241 | (49.05, 121.98, -13.91) |
| 6:43534986 | E>K | A:252 | (58.57, 119.51, -2.19) | |
| 6:43534983 | rs570153052 | I>L | A:253 | (57.07, 123.97, 0.24) |
| 6:43534958 | Q>R | A:261 | (55.94, 123.54, 15.14) | |
| 6:43534943 | G>V | A:266 | (48.18, 123.94, 6.95) | |
| 6:43534931 | C>Y | A:270 | (46.96, 121.70, 1.74) | |
| 6:43534916 | V>A | A:275 | (45.54, 113.66, -1.67) | |
| 6:43533439 | L>S | A:290 | (53.92, 112.94, -2.16) | |
| 6:43533418 | H>R | A:297 | (63.06, 113.43, 4.98) | |
| 6:43533401 | A>T | A:303 | (55.65, 110.70, 11.72) | |
| 6:43530050 | H>Q | A:315 | (51.34, 116.81, 18.11) | |
| 6:43530022 | rs540772244 | V>L | A:325 | (47.48, 112.89, 4.42) |
| 6:43530012 | rs373915842 | A>V | A:328 | (44.72, 109.24, 0.95) |
| 6:43530003 | N>S | A:331 | (43.53, 105.08, -0.83) | |
| 6:43529991 | A>G | A:335 | (44.23, 103.42, -7.39) | |
| 6:43529989 | L>V | A:336 | (47.16, 105.12, -9.30) | |
| 6:43528732 | COSM3777696 | D>N | A:342 | (52.25, 104.36, -16.37) |
| 6:43528724 | rs200225049 | E>D | A:344 | (55.62, 100.98, -11.61) |
| 6:43528707 | rs529074766 | G>E | A:350 | (58.85, 101.95, 3.16) |
| 6:43528704 | K>I | A:351 | (60.33, 106.08, 3.75) | |
| 6:43528674 | T>N | A:361 | (51.50, 101.88, 17.07) | |
| 6:43528675 | T>A | A:361 | (51.50, 101.88, 17.07) | |
| 6:43528033 | COSM484119 | R>H | A:368 | (44.56, 102.47, 17.36) |
| 6:43528020 | Q>H | A:372 | (42.42, 99.58, 9.80) | |
| 6:43528015 | T>I | A:374 | (44.56, 102.00, 3.93) | |
| 6:43527979 | rs61762965 | R>H | A:386 | (52.19, 89.16, -5.01) |
| 6:43527980 | R>C | A:386 | (52.19, 89.16, -5.01) | |
| 6:43527959 | I>V | A:393 | (55.21, 95.53, 7.75) | |
| 6:43527955 | I>T | A:394 | (52.58, 91.56, 8.26) | |
| 6:43527948 | K>N | A:396 | (56.19, 95.73, 12.86) | |
| 6:43527937 | A>V | A:400 | (49.20, 95.99, 16.75) | |
| 6:43527932 | rs370562231 | M>V | A:402 | (47.76, 91.47, 19.53) |
| 6:43526304 | S>R | A:416 | (45.54, 102.97, 29.33) | |
| 6:43526280 | F>V | A:424 | (40.66, 115.48, 22.57) | |
| 6:43526252 | rs201473380 | N>S | A:433 | (31.64, 100.91, 23.35) |
| 6:43523654 | D>N | A:454 | (52.57, 85.64, 7.33) | |
| 6:43523634 | rs368000134 | Q>H | A:460 | (54.93, 81.74, 16.06) |
| 6:43523633 | rs377017230 | M>V | A:461 | (52.19, 85.99, 17.18) |
| 6:43523629 | A>G | A:462 | (48.58, 83.02, 18.54) | |
| 6:43523630 | rs372441079 | A>S | A:462 | (48.58, 83.02, 18.54) |
| 6:43523626 | rs200605932 | G>A | A:463 | (50.39, 80.90, 20.41) |
| 6:43523602 | rs575516907 | S>L | A:471 | (50.39, 81.32, 32.90) |
| 6:43523599 | T>S | A:472 | (48.74, 84.84, 34.22) | |
| 6:43521177 | rs370740144 | Q>P | A:502 | (44.03, 90.20, 27.84) |
| 6:43521165 | M>R | A:506 | (43.68, 85.14, 23.09) | |
| 6:43521141 | I>T | A:514 | (43.50, 78.70, 13.27) | |
| 6:43521142 | I>V | A:514 | (43.50, 78.70, 13.27) | |
| 6:43521126 | COSM1079630 | R>Q | A:519 | (40.28, 79.32, 4.63) |
| 6:43521120 | L>P | A:521 | (48.86, 76.71, 5.01) | |
| 6:43521117 | rs553230160 | N>S | A:522 | (48.86, 73.49, 1.56) |
| 6:43521110 | E>D | A:524 | (50.88, 68.89, 3.74) | |
| 6:43519177 | N>S | A:529 | (53.45, 68.92, 16.28) | |
| 6:43519174 | rs61739889 | D>G | A:530 | (52.92, 73.42, 17.49) |
| 6:43519171 | G>A | A:531 | (48.56, 72.33, 17.83) | |
| 6:43519168 | I>T | A:532 | (48.67, 68.87, 19.47) | |
| 6:43519163 | rs199686881 | L>V | A:534 | (48.21, 74.90, 21.74) |
| 6:43519159 | L>S | A:535 | (44.38, 71.01, 21.81) | |
| 6:43519139 | D>N | A:542 | (40.30, 73.98, 35.29) | |
| 6:43519127 | P>S | A:546 | (31.67, 81.10, 33.63) | |
| 6:43519112 | C>G | A:551 | (37.12, 81.39, 26.03) | |
| 6:43519108 | rs186877420 | V>A | A:552 | (38.20, 77.35, 26.88) |
| 6:43519102 | T>S | A:554 | (36.24, 79.20, 21.52) | |
| 6:43519099 | N>T | A:555 | (40.27, 78.37, 22.36) | |
| 6:43519097 | V>I | A:556 | (38.63, 73.71, 21.62) | |
| 6:43519082 | P>S | A:561 | (41.12, 71.23, 13.23) | |
| 6:43519052 | P>A | A:571 | (37.95, 61.56, 23.85) | |
| 6:43517661 | S>C | A:580 | (30.05, 72.40, 29.66) | |
| 6:43517641 | E>K | A:587 | (24.37, 77.03, 43.34) | |
| 6:43517302 | rs368843561 | R>Q | A:595 | (23.22, 86.38, 30.45) |
| 6:43517303 | R>W | A:595 | (23.22, 86.38, 30.45) | |
| 6:43517266 | S>F | A:607 | (30.62, 73.30, 19.81) | |
| 6:43517255 | rs530175692 | M>V | A:611 | (32.13, 68.45, 16.36) |
| 6:43517248 | R>H | A:613 | (28.50, 71.75, 10.67) | |
| 6:43517240 | P>A | A:616 | (31.74, 63.88, 10.17) | |
| 6:43516185 | M>V | A:625 | (30.24, 57.18, 23.11) | |
| 6:43516151 | rs563408450 | N>S | A:636 | (16.00, 64.06, 34.03) |
| 6:43516142 | L>P | A:639 | (18.99, 67.97, 33.62) | |
| 6:43516130 | M>T | A:643 | (17.53, 75.23, 23.27) | |
| 6:43516118 | A>V | A:647 | (21.45, 70.43, 20.10) | |
| 6:43516119 | A>S | A:647 | (21.45, 70.43, 20.10) | |
| 6:43516113 | M>V | A:649 | (18.67, 65.42, 19.20) | |
| 6:43516107 | rs200950847 | A>S | A:651 | (24.35, 66.26, 16.43) |
| 6:43516101 | V>I | A:653 | (21.03, 63.95, 12.98) | |
| 6:43516071 | COSM3874371 | E>K | A:663 | (16.48, 51.62, 5.70) |
| 6:43516067 | R>H | A:664 | (22.55, 52.38, 9.20) | |
| 6:43516068 | R>C | A:664 | (22.55, 52.38, 9.20) | |
| 6:43516061 | K>R | A:666 | (14.01, 55.09, 8.14) | |
| 6:43516059 | V>M | A:667 | (16.12, 52.72, 11.79) | |
| 6:43516016 | L>H | A:681 | (0.83, 61.10, 17.66) | |
| 6:43516011 | COSM1312242 | Q>E | A:683 | (-6.31, 60.41, 22.69) |
| 6:43515419 | I>V | A:696 | (-6.18, 78.44, 26.46) | |
| 6:43515415 | rs202182348 | A>V | A:697 | (-5.58, 74.93, 29.20) |
| 6:43515412 | rs377740264 | Y>S | A:698 | (-1.12, 71.74, 27.95) |
| 6:43515406 | G>A | A:700 | (-2.42, 79.35, 31.19) | |
| 6:43515400 | D>V | A:702 | (-7.20, 79.51, 31.82) | |
| 6:43515382 | P>R | A:708 | (-1.34, 84.86, 41.82) | |
| 6:43515367 | P>L | A:713 | (1.52, 73.31, 36.02) | |
| 6:43514449 | R>Q | A:734 | (20.92, 69.93, 10.79) | |
| 6:43514435 | T>P | A:739 | (26.91, 65.51, -1.43) | |
| 6:43514403 | F>L | A:749 | (19.79, 58.09, -0.30) | |
| 6:43514402 | rs375413374 | V>M | A:750 | (18.36, 57.32, -6.10) |
| 6:43514390 | T>A | A:754 | (14.72, 64.80, -14.04) | |
| 6:43514374 | P>L | A:759 | (19.16, 63.40, -9.33) | |
| 6:43514372 | I>V | A:760 | (14.78, 62.38, -7.80) | |
| 6:43514365 | R>H | A:762 | (14.58, 57.77, -0.67) | |
| 6:43514354 | T>A | A:766 | (9.87, 61.46, 4.91) | |
| 6:43514350 | rs372504431 | E>G | A:767 | (7.74, 57.15, 7.10) |
| 6:43514324 | L>M | A:776 | (2.15, 71.06, 12.66) | |
| 6:43514317 | rs375364641 | A>G | A:778 | (-3.50, 71.74, 14.01) |
| 6:43514318 | A>T | A:778 | (-3.50, 71.74, 14.01) | |
| 6:43514312 | I>V | A:780 | (-0.41, 76.21, 12.73) | |
| 6:43501740 | rs367681038 | H>Y | A:783 | (-1.05, 80.06, 17.53) |
| 6:43501734 | T>P | A:785 | (-7.87, 81.00, 16.06) | |
| 6:43501712 | L>R | A:792 | (-7.44, 87.47, 22.85) | |
| 6:43501674 | rs373758989 | M>V | A:805 | (6.13, 92.35, 20.49) |
| 6:43501664 | rs35794454 | A>V | A:808 | (12.83, 93.07, 23.61) |
| 6:43501665 | A>T | A:808 | (12.83, 93.07, 23.61) | |
| 6:43501652 | A>G | A:812 | (14.67, 96.38, 18.74) | |
| 6:43501648 | I>M | A:813 | (12.10, 97.10, 15.64) | |
| 6:43499292 | E>A | A:822 | (27.12, 91.25, 34.76) | |
| 6:43499290 | L>F | A:823 | (26.98, 87.66, 32.47) | |
| 6:43499286 | rs201138656 | N>S | A:824 | (28.15, 87.45, 37.25) |
| 6:43499284 | D>N | A:825 | (23.30, 89.34, 37.90) | |
| 6:43499265 | T>N | A:831 | (7.72, 87.16, 34.31) | |
| 6:43499266 | T>A | A:831 | (7.72, 87.16, 34.31) | |
| 6:43499263 | rs377196219 | V>I | A:832 | (4.19, 84.47, 34.21) |
| 6:43499256 | E>G | A:834 | (7.93, 88.22, 29.61) | |
| 6:43498561 | F>L | A:848 | (4.85, 78.86, 10.12) | |
| 6:43498530 | M>T | A:858 | (10.60, 65.99, 2.44) | |
| 6:43498512 | T>S | A:864 | (3.02, 64.85, -3.79) | |
| 6:43498504 | D>N | A:867 | (-5.59, 67.86, -0.79) | |
| 6:43498486 | L>F | A:873 | (-5.25, 77.69, 2.40) | |
| 6:43498467 | rs566775169 | N>S | A:879 | (-7.11, 84.32, 11.45) |
| 6:43498455 | I>T | A:883 | (-2.51, 87.36, 12.14) | |
| 6:43498447 | Y>H | A:886 | (3.87, 90.89, 15.75) | |
| 6:43496630 | P>L | A:904 | (9.00, 71.13, -7.91) | |
| 6:43496618 | rs373330630 | Y>C | A:908 | (5.38, 75.81, -9.97) |
| 6:43496606 | V>A | A:912 | (2.35, 77.35, -5.89) | |
| 6:43496607 | V>I | A:912 | (2.35, 77.35, -5.89) | |
| 6:43496596 | I>M | A:915 | (-1.20, 78.98, -1.95) | |
| 6:43496592 | rs370480839 | G>R | A:917 | (-3.39, 84.12, -4.98) |
| 6:43495925 | Q>K | A:932 | (-5.41, 104.21, 3.41) | |
| 6:43495426 | M>V | A:956 | (6.34, 105.32, 16.10) | |
| 6:43495392 | R>Q | A:967 | (11.14, 97.13, 3.11) | |
| 6:43495382 | M>I | A:970 | (7.17, 93.80, -2.32) | |
| 6:43493605 | D>V | A:1013 | (9.23, 79.02, -15.14) | |
| 6:43493583 | K>N | A:1020 | (-0.08, 81.41, -18.09) | |
| 6:43493580 | H>Q | A:1021 | (-3.42, 81.38, -13.41) | |
| 6:43492943 | T>A | A:1026 | (-4.99, 90.61, -11.12) | |
| 6:43492939 | rs527438448 | A>V | A:1027 | (-2.57, 90.40, -7.81) |
| 6:43492934 | L>I | A:1029 | (-0.30, 93.67, -12.11) | |
| 6:43492918 | N>S | A:1034 | (-0.84, 100.00, -5.36) | |
| 6:43492909 | A>G | A:1037 | (1.62, 104.87, -3.46) | |
| 6:43492706 | V>M | A:1059 | (-0.13, 91.44, -20.27) | |
| 6:43492694 | T>S | A:1063 | (-7.34, 91.23, -22.58) | |
| 6:43492680 | D>E | A:1067 | (-10.84, 100.24, -16.06) | |
| 6:43492681 | D>G | A:1067 | (-10.84, 100.24, -16.06) | |
| 6:43492678 | A>V | A:1068 | (-6.92, 98.79, -16.54) | |
| 6:43492672 | T>M | A:1070 | (-6.97, 104.04, -17.04) | |
| 6:43492648 | K>T | A:1078 | (-1.13, 107.93, -7.67) | |
| 6:43492619 | G>R | A:1088 | (15.20, 108.10, -7.61) | |
| 6:43492616 | C>R | A:1089 | (11.87, 107.71, -7.38) | |
| 6:43492573 | A>G | A:1103 | (3.44, 100.14, -25.49) | |
| 6:43492353 | rs112085617 | I>M | A:1111 | (-3.52, 106.52, -22.46) |
| 6:43492346 | V>I | A:1114 | (-4.97, 110.35, -17.94) |
[+] COSMIC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 6:43540271 | COSM1634815 | K>M | A:91 | (38.21, 151.46, -6.90) |
| 6:43540256 | COSM1634814 | E>A | A:96 | (43.90, 154.32, -0.19) |
| 6:43535018 | COSM50776 | S>N | A:241 | (49.05, 121.98, -13.91) |
| 6:43523660 | COSM3627723 | R>C | A:452 | (45.67, 85.78, 2.06) |
| 6:43499223 | COSM307595 | E>V | A:845 | (9.01, 82.03, 14.75) |
| 6:43495386 | COSM4153426 | V>D | A:969 | (5.51, 91.52, 0.42) |