General Structure Information
| PDB ID | 4bpb |
| HGNC Gene Label(s) | DDX58 |
| Structure Name | structural insights into rna recognition by rig-i |
| Resolution | 2.58Å |
| Reference | AUTH D.LUO,S.C.DING,A.VELA,A.KOHLWAY,B.D.LINDENBACH,A.M.PYLETITL STRUCTURAL INSIGHTS INTO RNA RECOGNITION BY RIG-I.REF CELL(CAMBRIDGE,MASS.) V. 147 409 2011REFN ISSN 0092-8674PMID 22000018DOI 10.1016/J.CELL.2011.09.023 |
Variant Set Distributions
ExAC Variants
| Number Of Residues | 634 |
| Number Of SNVs | 163 |
| Number Of Permutations | 69477 |
| Optimal Distance Threshold | 6.0 |
| K Statistic | 0.008 |
| p-value | 0.457 |
COSMIC
| Number Of Residues | 634 |
| Number Of SNVs | 9 |
| Number Of Permutations | 7074 |
| Optimal Distance Threshold | 5.0 |
| K Statistic | 0.028 |
| p-value | 0.698 |
Ripley’s K Analysis Plots
ExACCOSMIC
Variant Set Comparisons
Cosmic vs. ExAC
| Number Of ExAC SNVs | 163 |
| Number Of COSMIC SNVs | 10 |
| Optimal Distance Threshold | 10.0 |
| K Statistic | 0.088 |
| p-value | 0.815 |
Mapped Variants
[+] ExAC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 9:32489431 | L>W | A:237 | (19.43, 0.93, 16.52) | |
| 9:32489422 | P>L | A:240 | (27.95, 2.11, 11.95) | |
| 9:32489413 | P>R | A:243 | (21.89, 5.27, 4.71) | |
| 9:32489410 | rs143106649 | R>I | A:244 | (18.83, 0.66, 2.80) |
| 9:32489407 | rs141808660 | N>S | A:245 | (18.16, 5.32, -1.08) |
| 9:32489408 | N>H | A:245 | (18.16, 5.32, -1.08) | |
| 9:32489390 | A>T | A:251 | (14.36, 12.83, 5.41) | |
| 9:32489362 | T>I | A:260 | (6.54, 15.80, 8.37) | |
| 9:32489360 | rs574265075 | I>V | A:261 | (3.26, 12.75, 9.13) |
| 9:32489355 | rs376053763 | I>M | A:262 | (7.57, 10.07, 8.72) |
| 9:32488879 | G>E | A:269 | (14.09, 2.99, 10.03) | |
| 9:32488838 | K>Q | A:283 | (24.55, 20.80, 10.94) | |
| 9:32488822 | G>V | A:288 | (25.66, 31.11, 18.22) | |
| 9:32488818 | Q>H | A:289 | (22.28, 30.31, 16.39) | |
| 9:32488810 | K>R | A:292 | (16.39, 22.54, 22.58) | |
| 9:32488802 | F>L | A:295 | (11.73, 11.35, 20.75) | |
| 9:32488795 | A>V | A:297 | (7.76, 8.29, 24.41) | |
| 9:32488788 | Q>H | A:299 | (5.71, 3.00, 25.56) | |
| 9:32488784 | P>S | A:301 | (10.51, 0.52, 27.02) | |
| 9:32488780 | V>A | A:302 | (10.57, 3.33, 23.69) | |
| 9:32488771 | Q>R | A:305 | (15.30, 2.04, 22.44) | |
| 9:32488745 | F>L | A:314 | (23.70, 12.82, 18.47) | |
| 9:32488732 | G>A | A:318 | (28.46, 17.11, 22.11) | |
| 9:32488199 | rs146951627 | Y>C | A:319 | (25.01, 17.76, 20.14) |
| 9:32488190 | rs531295122 | T>I | A:322 | (18.58, 13.92, 28.93) |
| 9:32488187 | G>D | A:323 | (15.85, 12.31, 30.37) | |
| 9:32488184 | I>T | A:324 | (12.44, 13.41, 31.91) | |
| 9:32488181 | rs367932258 | S>F | A:325 | (10.63, 9.57, 33.51) |
| 9:32488122 | I>V | A:345 | (14.13, 11.64, 25.56) | |
| 9:32488094 | N>S | A:354 | (5.68, 20.77, 33.43) | |
| 9:32488087 | K>N | A:356 | (0.01, 23.06, 33.57) | |
| 9:32488082 | rs145457417 | G>E | A:358 | (4.21, 26.59, 34.28) |
| 9:32488079 | COSM1461977 | T>M | A:359 | (7.19, 24.89, 34.83) |
| 9:32488053 | L>V | A:368 | (12.45, 19.60, 16.61) | |
| 9:32488028 | N>S | A:376 | (-1.62, 8.11, 19.55) | |
| 9:32488026 | rs560904752 | T>S | A:377 | (-2.04, 12.95, 17.88) |
| 9:32488011 | P>A | A:382 | (-1.09, 13.10, 25.90) | |
| 9:32488005 | rs61756273 | N>D | A:384 | (-3.98, 16.19, 21.11) |
| 9:32487996 | rs564730194 | M>L | A:387 | (-0.17, 19.85, 19.55) |
| 9:32487991 | F>L | A:388 | (-4.87, 20.68, 22.27) | |
| 9:32487978 | Q>K | A:393 | (1.72, 29.60, 20.78) | |
| 9:32487631 | V>I | A:405 | (6.16, 19.12, 14.25) | |
| 9:32487627 | rs951618 | I>T | A:406 | (8.42, 15.48, 13.07) |
| 9:32487612 | rs267602206 COSM1674449 |
S>L | A:411 | (-0.73, 3.62, 10.48) |
| 9:32487613 | S>P | A:411 | (-0.73, 3.62, 10.48) | |
| 9:32487581 | D>E | A:421 | (-13.98, 10.72, 2.26) | |
| 9:32487582 | D>A | A:421 | (-13.98, 10.72, 2.26) | |
| 9:32487576 | rs144962975 | A>G | A:423 | (-10.61, 8.86, 5.36) |
| 9:32487571 | rs144361980 | D>N | A:425 | (-12.04, 13.94, 6.12) |
| 9:32487567 | rs201032144 | Y>C | A:426 | (-8.89, 10.20, 10.94) |
| 9:32487537 | rs139635230 | A>V | A:436 | (1.06, 18.84, 9.04) |
| 9:32487534 | S>L | A:437 | (2.35, 20.04, 5.40) | |
| 9:32487522 | T>I | A:441 | (5.46, 8.13, 1.68) | |
| 9:32487515 | rs201907575 | K>N | A:443 | (6.53, 7.74, -3.68) |
| 9:32487514 | rs199992038 | H>N | A:444 | (10.87, 8.12, -5.79) |
| 9:32487507 | L>P | A:446 | (8.40, 1.12, -3.24) | |
| 9:32487500 | E>D | A:448 | (14.99, -0.14, -1.52) | |
| 9:32487496 | rs140044460 | E>Q | A:450 | (8.16, -3.88, -1.71) |
| 9:32487483 | Y>F | A:454 | (6.40, -10.49, 6.97) | |
| 9:32487477 | rs369552113 | P>L | A:456 | (2.17, -11.66, 4.37) |
| 9:32485256 | R>Q | A:466 | (-17.77, -30.73, 16.92) | |
| 9:32485257 | COSM70423 | R>W | A:466 | (-17.77, -30.73, 16.92) |
| 9:32485251 | rs144232121 | S>R | A:468 | (-23.28, -33.10, 18.11) |
| 9:32485248 | rs368484093 | D>N | A:469 | (-20.87, -31.33, 21.76) |
| 9:32485242 | rs200852601 | F>I | A:471 | (-17.27, -33.42, 26.19) |
| 9:32485227 | A>T | A:476 | (-21.95, -28.09, 31.72) | |
| 9:32485214 | R>K | A:480 | (-24.98, -26.50, 35.10) | |
| 9:32485215 | R>G | A:480 | (-24.98, -26.50, 35.10) | |
| 9:32485208 | T>I | A:482 | (-19.30, -27.00, 40.73) | |
| 9:32485188 | I>V | A:489 | (-19.60, -22.00, 50.96) | |
| 9:32485176 | rs149324503 | L>F | A:493 | (-20.91, -16.33, 43.83) |
| 9:32485173 | rs371210069 | E>K | A:494 | (-23.90, -14.39, 40.57) |
| 9:32481487 | S>P | A:497 | (-17.78, -10.47, 39.97) | |
| 9:32481472 | R>G | A:502 | (-21.07, -16.62, 34.38) | |
| 9:32481465 | F>S | A:504 | (-20.18, -22.70, 31.07) | |
| 9:32481435 | V>A | A:514 | (-9.37, -14.40, 38.07) | |
| 9:32481432 | rs139600630 | T>I | A:515 | (-12.37, -11.86, 39.52) |
| 9:32481381 | S>T | A:532 | (-9.72, -18.39, 55.12) | |
| 9:32481374 | I>M | A:534 | (-15.11, -20.02, 53.29) | |
| 9:32481364 | L>M | A:538 | (-14.58, -20.67, 46.65) | |
| 9:32481355 | Y>H | A:541 | (-15.91, -25.82, 45.04) | |
| 9:32481339 | rs61752945 | R>Q | A:546 | (-9.20, -21.99, 35.92) |
| 9:32481340 | rs377702259 COSM280344 |
R>W | A:546 | (-9.20, -21.99, 35.92) |
| 9:32480345 | N>I | A:549 | (-13.28, -23.39, 30.79) | |
| 9:32480324 | E>G | A:556 | (-14.27, -25.16, 20.79) | |
| 9:32480325 | E>K | A:556 | (-14.27, -25.16, 20.79) | |
| 9:32480287 | K>N | A:568 | (-8.30, -38.42, 32.66) | |
| 9:32480273 | N>S | A:573 | (-2.33, -34.39, 40.37) | |
| 9:32480265 | rs367656115 | A>T | A:576 | (-2.42, -37.71, 44.68) |
| 9:32480251 | rs17217280 | D>E | A:580 | (-10.19, -33.67, 50.57) |
| 9:32480253 | D>N | A:580 | (-10.19, -33.67, 50.57) | |
| 9:32480246 | COSM487360 | I>T | A:582 | (-14.35, -30.37, 48.87) |
| 9:32480243 | rs371685816 | E>G | A:583 | (-10.26, -32.23, 46.40) |
| 9:32480240 | Q>R | A:584 | (-11.86, -37.05, 47.06) | |
| 9:32480227 | Q>H | A:588 | (-17.55, -38.78, 43.88) | |
| 9:32480222 | rs143007332 | F>C | A:590 | (-14.96, -36.64, 36.53) |
| 9:32480223 | F>L | A:590 | (-14.96, -36.64, 36.53) | |
| 9:32480220 | E>K | A:591 | (-15.08, -40.77, 38.97) | |
| 9:32477112 | rs149221979 | E>Q | A:598 | (-14.40, -42.34, 27.54) |
| 9:32477109 | S>R | A:599 | (-18.57, -42.93, 24.92) | |
| 9:32477102 | rs200797004 | S>F | A:601 | (-14.74, -39.40, 22.89) |
| 9:32477094 | P>S | A:604 | (-16.76, -41.60, 15.23) | |
| 9:32477085 | rs190936151 | E>K | A:607 | (-14.35, -37.19, 14.58) |
| 9:32477072 | L>H | A:611 | (-8.31, -30.92, 13.09) | |
| 9:32477054 | rs145391400 | I>T | A:617 | (-3.56, -26.17, 5.10) |
| 9:32477048 | rs528724822 | Q>R | A:619 | (-1.28, -32.45, 3.48) |
| 9:32477045 | rs368614061 | E>G | A:620 | (-1.56, -29.01, -0.14) |
| 9:32477040 | rs140681302 | Y>H | A:622 | (5.19, -28.78, 4.75) |
| 9:32477027 | P>R | A:626 | (9.52, -29.49, 1.74) | |
| 9:32477025 | COSM3656814 | E>Q | A:627 | (11.77, -26.72, 3.78) |
| 9:32477022 | T>A | A:628 | (8.35, -25.36, 5.28) | |
| 9:32477019 | I>V | A:629 | (9.81, -23.00, 8.81) | |
| 9:32477015 | rs146844137 | T>I | A:630 | (5.42, -23.73, 10.37) |
| 9:32477013 | rs373568823 | I>V | A:631 | (4.48, -20.29, 13.57) |
| 9:32476997 | T>S | A:636 | (-4.74, -22.16, 25.05) | |
| 9:32476994 | COSM3780734 | R>T | A:637 | (0.09, -22.22, 28.77) |
| 9:32476995 | R>G | A:637 | (0.09, -22.22, 28.77) | |
| 9:32476986 | V>M | A:640 | (-0.06, -26.23, 22.50) | |
| 9:32473047 | I>T | A:647 | (0.56, -33.25, 14.84) | |
| 9:32473042 | G>R | A:649 | (-1.00, -38.96, 15.47) | |
| 9:32467870 | N>S | A:692 | (14.92, -31.44, 14.39) | |
| 9:32467816 | COSM1249923 | N>S | A:710 | (7.86, -19.93, 5.50) |
| 9:32467792 | V>E | A:718 | (-6.40, -13.60, 18.73) | |
| 9:32467773 | M>I | A:724 | (6.35, -7.48, 13.93) | |
| 9:32466386 | V>I | A:747 | (-12.80, -12.95, 12.54) | |
| 9:32466371 | rs570533013 | Q>K | A:752 | (-12.47, -9.01, 4.75) |
| 9:32466367 | I>T | A:753 | (-13.28, -4.41, 7.76) | |
| 9:32466361 | rs142767943 | M>T | A:755 | (-7.87, -5.69, 4.13) |
| 9:32466362 | M>L | A:755 | (-7.87, -5.69, 4.13) | |
| 9:32466345 | COSM1108163 | M>I | A:760 | (-9.83, 3.67, 2.58) |
| 9:32466343 | M>R | A:761 | (-4.65, 4.58, 4.55) | |
| 9:32466339 | rs148502654 | N>K | A:762 | (-2.76, 3.74, 1.20) |
| 9:32466334 | S>C | A:764 | (-6.28, 8.98, 0.86) | |
| 9:32466332 | I>L | A:765 | (-1.92, 9.07, 1.71) | |
| 9:32466327 | L>F | A:766 | (-1.51, 8.79, -3.16) | |
| 9:32466325 | rs368263807 | R>H | A:767 | (-6.86, 12.10, -4.17) |
| 9:32466326 | rs372515643 | R>C | A:767 | (-6.86, 12.10, -4.17) |
| 9:32466308 | rs144181118 | E>K | A:773 | (2.57, 22.73, 0.87) |
| 9:32466288 | K>N | A:779 | (-7.93, 21.74, 4.37) | |
| 9:32459512 | I>L | A:780 | (-4.93, 22.13, 7.80) | |
| 9:32459505 | rs143722155 | H>R | A:782 | (-9.56, 27.77, 8.26) |
| 9:32459482 | I>F | A:790 | (-15.25, 23.02, 19.19) | |
| 9:32459448 | P>L | A:801 | (-21.76, 21.69, 44.64) | |
| 9:32459413 | C>G | A:813 | (-20.97, -4.98, 53.36) | |
| 9:32459403 | L>W | A:816 | (-20.57, 3.56, 57.69) | |
| 9:32459397 | C>Y | A:818 | (-17.41, 7.52, 55.64) | |
| 9:32459392 | rs538144932 | T>A | A:820 | (-18.84, 13.37, 52.46) |
| 9:32459383 | COSM1108161 | V>I | A:823 | (-13.62, 13.76, 52.15) |
| 9:32459372 | rs532179758 | I>M | A:826 | (-5.05, 15.06, 47.51) |
| 9:32459373 | rs552492081 | I>T | A:826 | (-5.05, 15.06, 47.51) |
| 9:32459369 | rs373489163 | E>D | A:827 | (-2.62, 16.98, 44.06) |
| 9:32457415 | E>A | A:828 | (-7.53, 17.57, 42.28) | |
| 9:32457404 | rs567033543 | T>A | A:832 | (-8.46, 11.53, 51.85) |
| 9:32457382 | K>T | A:839 | (-7.35, 5.37, 60.28) | |
| 9:32457367 | S>N | A:844 | (-3.38, -2.91, 55.44) | |
| 9:32457358 | H>R | A:847 | (1.62, -3.30, 46.74) | |
| 9:32457359 | H>Y | A:847 | (1.62, -3.30, 46.74) | |
| 9:32457338 | rs201726738 | S>P | A:854 | (4.31, 12.75, 40.57) |
| 9:32457334 | S>N | A:855 | (2.42, 12.69, 43.83) | |
| 9:32457323 | rs147393239 | R>G | A:859 | (4.44, 1.57, 50.80) |
| 9:32457320 | A>P | A:860 | (-0.52, -0.29, 50.33) | |
| 9:32457311 | F>L | A:863 | (-8.44, -4.44, 51.73) | |
| 9:32457308 | C>R | A:864 | (-13.31, -3.95, 54.66) | |
| 9:32457301 | COSM185653 | R>Q | A:866 | (-16.58, -6.30, 59.16) |
| 9:32457299 | rs377457419 | Q>K | A:867 | (-13.69, -10.21, 60.15) |
| 9:32457260 | K>E | A:880 | (4.19, 15.44, 50.74) | |
| 9:32457245 | rs138425677 | P>S | A:885 | (-5.83, 7.02, 53.21) |
| 9:32457242 | V>F | A:886 | (-6.23, 6.90, 48.58) | |
| 9:32457239 | I>L | A:887 | (-10.77, 6.38, 48.70) | |
| 9:32457229 | rs372684517 | E>G | A:890 | (-15.87, 1.35, 41.79) |
| 9:32457217 | rs368765122 | V>G | A:894 | (-23.70, 7.40, 48.01) |
| 9:32457205 | A>V | A:898 | (-32.69, 11.34, 55.54) | |
| 9:32457203 | T>P | A:899 | (-33.29, 9.16, 52.82) | |
| 9:32457194 | Q>E | A:902 | (-28.40, 3.58, 48.03) | |
| 9:32457168 | D>E | A:910 | (-19.10, 11.84, 37.64) | |
| 9:32457170 | rs377348789 | D>Y | A:910 | (-19.10, 11.84, 37.64) |
| 9:32457163 | H>P | A:912 | (-20.97, 16.41, 40.91) | |
| 9:32457151 | rs77788008 | I>T | A:916 | (-13.07, 19.95, 51.10) |
[+] COSMIC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 9:32489410 | COSM1108175 | R>I | A:244 | (18.83, 0.66, 2.80) |
| 9:32487612 | COSM1674449 | S>L | A:411 | (-0.73, 3.62, 10.48) |
| 9:32487509 | COSM1161926 | N>K | A:445 | (13.10, 4.16, -3.21) |
| 9:32485206 | COSM4818578 | E>K | A:483 | (-21.33, -22.63, 39.58) |
| 9:32485196 | COSM1624902 | A>V | A:486 | (-20.17, -22.77, 45.58) |
| 9:32485192 | COSM1756119 | K>N | A:487 | (-24.01, -20.29, 44.96) |
| 9:32467874 | COSM1756118 | H>Y | A:691 | (16.49, -27.24, 13.74) |
| 9:32466353 | COSM145307 | E>K | A:758 | (-4.43, -0.84, 4.31) |
| 9:32459383 | COSM1108161 | V>I | A:823 | (-13.62, 13.76, 52.15) |
| 9:32457233 | COSM1674448 | I>L | A:889 | (-16.42, 6.24, 44.58) |