General Structure Information
| PDB ID | 3uyj |
| HGNC Gene Label(s) | KDM8 |
| Structure Name | crystal structure of jmjd5 catalytic core domain in complex with nickle and alpha-kg |
| Resolution | 2.35Å |
| Reference | AUTH X.SU,H.LITITL CRYSTAL STRUCTURE OF JMJD5 CATALYTIC CORE DOMAIN IN COMPLEXTITL 2 WITH NICKLE AND ALPHA-KGREF TO BE PUBLISHEDREFN |
Variant Set Distributions
ExAC Variants
| Number Of Residues | 230 |
| Number Of SNVs | 72 |
| Number Of Permutations | 6910 |
| Optimal Distance Threshold | 16.0 |
| K Statistic | 0.212 |
| p-value | 0.093 |
Mapped Variants
[+] ExAC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 16:27224952 | rs371109241 | K>R | B:182 | (-0.09, 33.32, 58.73) |
| 16:27224961 | rs374125293 | P>H | B:185 | (-0.29, 26.76, 52.96) |
| 16:27224963 | rs377614901 | R>W | B:186 | (1.24, 28.21, 47.92) |
| 16:27224964 | rs559245630 | R>Q | B:186 | (1.24, 28.21, 47.92) |
| 16:27224973 | rs201825076 | R>H | B:189 | (-0.05, 16.76, 41.93) |
| 16:27224976 | COSM1709001 COSM302448 COSM1709000 COSM302449 |
P>L | B:190 | (-0.98, 16.88, 47.40) |
| 16:27224997 | E>G | B:197 | (-4.63, 12.57, 57.33) | |
| 16:27225006 | L>S | B:200 | (-10.53, 17.41, 54.86) | |
| 16:27225020 | P>S | B:205 | (-6.45, 26.15, 55.11) | |
| 16:27225023 | V>M | B:206 | (-4.40, 24.44, 51.20) | |
| 16:27225030 | L>P | B:208 | (-3.85, 22.72, 45.76) | |
| 16:27225038 | rs111675269 | V>M | B:211 | (-4.00, 20.21, 40.20) |
| 16:27225039 | V>G | B:211 | (-4.00, 20.21, 40.20) | |
| 16:27225041 | A>S | B:212 | (-5.47, 23.13, 37.52) | |
| 16:27225044 | D>H | B:213 | (-1.86, 24.14, 36.03) | |
| 16:27225054 | rs112553191 | P>L | B:216 | (-8.51, 23.53, 29.31) |
| 16:27225056 | C>S | B:217 | (-9.36, 27.09, 31.40) | |
| 16:27225057 | C>Y | B:217 | (-9.36, 27.09, 31.40) | |
| 16:27225068 | W>R | B:221 | (-11.89, 30.17, 30.49) | |
| 16:27225072 | S>N | B:222 | (-10.54, 35.23, 27.03) | |
| 16:27226199 | L>W | B:223 | (-12.66, 39.05, 27.43) | |
| 16:27226211 | rs376645570 COSM1290497 COSM1290496 |
Q>R | B:227 | (-17.38, 38.08, 24.11) |
| 16:27226219 | rs201781237 COSM4059615 COSM4059614 |
A>T | B:230 | (-21.28, 33.21, 25.83) |
| 16:27226223 | G>V | B:231 | (-22.40, 36.40, 24.84) | |
| 16:27226241 | V>A | B:237 | (-25.42, 40.76, 37.31) | |
| 16:27226246 | V>L | B:239 | (-25.15, 45.63, 41.82) | |
| 16:27226279 | Q>E | B:250 | (-29.08, 39.66, 40.97) | |
| 16:27226283 | T>N | B:251 | (-29.62, 42.34, 36.61) | |
| 16:27226291 | T>A | B:254 | (-26.04, 39.49, 27.86) | |
| 16:27226298 | N>S | B:256 | (-21.69, 40.55, 25.35) | |
| 16:27226300 | E>K | B:257 | (-25.44, 43.30, 27.87) | |
| 16:27226306 | I>L | B:259 | (-18.13, 42.41, 29.15) | |
| 16:27226321 | rs115878045 | V>M | B:264 | (-14.76, 47.67, 28.77) |
| 16:27227266 | rs369476417 | P>S | B:267 | (-16.40, 50.92, 34.41) |
| 16:27227270 | R>K | B:268 | (-19.98, 55.93, 35.59) | |
| 16:27227275 | COSM1255164 COSM1255163 |
V>I | B:270 | (-19.13, 47.51, 40.63) |
| 16:27227278 | rs370340722 | G>R | B:271 | (-19.99, 44.28, 38.64) |
| 16:27227279 | G>E | B:271 | (-19.99, 44.28, 38.64) | |
| 16:27227298 | rs199528628 | Q>H | B:277 | (-24.95, 26.90, 38.52) |
| 16:27227305 | D>N | B:280 | (-24.99, 23.46, 34.59) | |
| 16:27230288 | E>K | B:284 | (-18.79, 24.90, 24.99) | |
| 16:27230301 | D>G | B:288 | (-12.85, 24.32, 29.40) | |
| 16:27230312 | P>S | B:292 | (-11.38, 18.21, 41.68) | |
| 16:27230319 | Y>C | B:294 | (-7.60, 16.29, 45.89) | |
| 16:27230327 | L>V | B:297 | (-11.72, 12.49, 50.00) | |
| 16:27230333 | rs142021295 | D>N | B:299 | (-19.43, 11.75, 52.12) |
| 16:27230336 | G>R | B:300 | (-20.81, 12.64, 48.10) | |
| 16:27230345 | E>K | B:303 | (-24.99, 14.43, 40.88) | |
| 16:27230348 | E>K | B:304 | (-24.60, 15.70, 44.80) | |
| 16:27230368 | W>C | B:310 | (-17.65, 33.47, 41.98) | |
| 16:27230382 | rs373940732 | G>E | B:315 | (-12.80, 45.12, 42.69) |
| 16:27230388 | rs376804766 | I>S | B:317 | (-15.37, 43.14, 47.28) |
| 16:27230400 | H>L | B:321 | (-18.39, 34.43, 53.23) | |
| 16:27230402 | Q>E | B:322 | (-19.72, 30.96, 57.03) | |
| 16:27230409 | P>H | B:324 | (-22.41, 25.20, 53.83) | |
| 16:27230422 | F>L | B:328 | (-11.56, 22.56, 46.15) | |
| 16:27231718 | M>K | B:333 | (-9.05, 35.27, 34.32) | |
| 16:27231730 | Y>C | B:337 | (-6.46, 39.64, 49.80) | |
| 16:27231735 | rs141947860 | R>W | B:339 | (-7.98, 38.56, 55.34) |
| 16:27231736 | rs539228680 | R>Q | B:339 | (-7.98, 38.56, 55.34) |
| 16:27231748 | P>L | B:343 | (-14.31, 28.63, 62.62) | |
| 16:27231756 | S>P | B:346 | (-16.79, 33.47, 64.83) | |
| 16:27231759 | G>R | B:347 | (-16.64, 36.21, 67.54) | |
| 16:27231799 | T>M | B:360 | (-22.41, 37.49, 57.03) | |
| 16:27231804 | Q>K | B:362 | (-21.43, 43.25, 61.26) | |
| 16:27231888 | V>A | B:363 | (-16.41, 43.48, 59.65) | |
| 16:27231896 | E>K | B:366 | (-9.57, 45.73, 53.27) | |
| 16:27231916 | K>N | B:372 | (-19.36, 49.02, 65.72) | |
| 16:27231920 | P>S | B:374 | (-13.15, 45.74, 69.28) | |
| 16:27231935 | A>S | B:379 | (-7.86, 38.17, 64.84) | |
| 16:27231939 | P>L | B:380 | (-6.30, 35.11, 64.13) | |
| 16:27231953 | I>V | B:385 | (-2.14, 36.75, 46.21) | |
| 16:27231984 | P>Q | B:395 | (-12.34, 24.87, 54.92) | |
| 16:27231990 | K>I | B:397 | (-18.87, 26.34, 58.00) | |
| 16:27232004 | rs141999943 | V>M | B:402 | (-12.59, 37.85, 48.09) |
| 16:27232007 | rs144196668 | R>W | B:403 | (-9.46, 42.93, 46.84) |
| 16:27232047 | COSM969217 COSM969216 |
S>L | B:416 | (-19.42, 16.94, 50.83) |