General Structure Information
| PDB ID | 4eku |
| HGNC Gene Label(s) | PTK2B |
| Structure Name | crystal structure of ferm domain of proline-rich tyrosine kinase 2 |
| Resolution | 3.25Å |
| Reference | AUTH B.SAVARIMUTHU,R.LI,Y.WANGTITL CRYSTAL STRUCTURE OF THE FERM DOMAIN OF PROLINE-RICHTITL 2 TYROSINE KINASE 2REF TO BE PUBLISHEDREFN |
Variant Set Distributions
ExAC Variants
| Number Of Residues | 346 |
| Number Of SNVs | 98 |
| Number Of Permutations | 28524 |
| Optimal Distance Threshold | 28.0 |
| K Statistic | 0.507 |
| p-value | 0.515 |
COSMIC
| Number Of Residues | 346 |
| Number Of SNVs | 3 |
| Number Of Permutations | 67 |
| Optimal Distance Threshold | 17.0 |
| K Statistic | 0.333 |
| p-value | 0.928 |
Ripley’s K Analysis Plots
ExACCOSMIC
Variant Set Comparisons
Cosmic vs. ExAC
| Number Of ExAC SNVs | 98 |
| Number Of COSMIC SNVs | 3 |
| Optimal Distance Threshold | 23.0 |
| K Statistic | 0.656 |
| p-value | 0.32 |
Mapped Variants
[+] ExAC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 8:27255163 | G>A | A:21 | (61.72, -24.13, -38.55) | |
| 8:27255177 | M>V | A:26 | (48.66, -15.68, -34.91) | |
| 8:27255179 | M>I | A:26 | (48.66, -15.68, -34.91) | |
| 8:27255180 | V>M | A:27 | (47.50, -13.99, -38.81) | |
| 8:27255196 | D>A | A:32 | (42.14, -0.27, -41.19) | |
| 8:27255207 | E>K | A:36 | (34.42, 7.96, -43.55) | |
| 8:27255213 | rs144750616 | V>M | A:38 | (38.59, 10.31, -39.27) |
| 8:27255217 | R>H | A:39 | (35.96, 12.47, -36.96) | |
| 8:27255238 | rs368361431 | Y>C | A:46 | (43.48, 25.92, -18.85) |
| 8:27255247 | rs200987347 | S>N | A:49 | (51.07, 30.75, -21.81) |
| 8:27255253 | N>S | A:51 | (47.69, 32.48, -24.51) | |
| 8:27255276 | V>I | A:59 | (43.01, 15.12, -31.24) | |
| 8:27255282 | rs141851888 | C>S | A:61 | (40.19, 10.26, -33.90) |
| 8:27255286 | T>I | A:62 | (37.79, 7.41, -34.36) | |
| 8:27255297 | E>K | A:66 | (35.16, 5.95, -25.46) | |
| 8:27255300 | rs150603215 | I>V | A:67 | (35.82, 11.12, -24.18) |
| 8:27255302 | rs201752959 | I>M | A:67 | (35.82, 11.12, -24.18) |
| 8:27255304 | rs139777503 | R>Q | A:68 | (37.97, 6.43, -22.12) |
| 8:27277425 | rs547818222 | S>Y | A:73 | (45.71, 10.88, -25.24) |
| 8:27277439 | rs376146343 | G>R | A:78 | (52.90, 15.76, -21.67) |
| 8:27277443 | R>Q | A:79 | (51.61, 20.20, -24.29) | |
| 8:27277451 | P>S | A:82 | (54.72, 15.75, -15.61) | |
| 8:27277460 | rs369608545 | R>W | A:85 | (49.38, 10.30, -8.66) |
| 8:27277461 | rs147218792 | R>Q | A:85 | (49.38, 10.30, -8.66) |
| 8:27277465 | L>F | A:86 | (44.99, 12.80, -9.88) | |
| 8:27277485 | R>M | A:93 | (33.97, 22.67, -20.94) | |
| 8:27277505 | rs140538134 | D>N | A:100 | (27.66, 30.31, -22.89) |
| 8:27277521 | rs371046279 | L>P | A:105 | (31.54, 15.47, -22.98) |
| 8:27277531 | Q>H | A:108 | (31.82, 5.77, -20.85) | |
| 8:27277536 | rs149715605 | T>M | A:110 | (31.32, 8.18, -28.81) |
| 8:27277548 | V>G | A:114 | (29.23, 14.26, -29.25) | |
| 8:27277553 | rs200325494 | D>Y | A:116 | (25.24, 12.86, -33.76) |
| 8:27277565 | C>R | A:120 | (23.33, 19.24, -34.66) | |
| 8:27278191 | R>H | A:134 | (33.12, 18.36, -13.55) | |
| 8:27278194 | Y>C | A:135 | (35.09, 14.63, -12.53) | |
| 8:27278218 | rs554907535 | S>N | A:143 | (45.19, 14.88, -2.95) |
| 8:27278235 | rs148416337 | T>P | A:149 | (50.91, 18.56, -12.91) |
| 8:27278239 | T>M | A:150 | (46.98, 18.30, -11.49) | |
| 8:27278248 | Y>C | A:153 | (45.12, 22.18, -15.80) | |
| 8:27279824 | R>W | A:159 | (44.66, 33.33, -12.13) | |
| 8:27279825 | rs373105458 | R>Q | A:159 | (44.66, 33.33, -12.13) |
| 8:27279827 | N>D | A:160 | (41.09, 31.79, -16.29) | |
| 8:27279843 | R>H | A:165 | (33.57, 34.62, -12.91) | |
| 8:27279848 | rs375270527 | A>S | A:167 | (39.03, 40.59, -10.86) |
| 8:27279852 | S>N | A:168 | (36.85, 43.16, -12.05) | |
| 8:27279857 | V>I | A:170 | (37.65, 42.21, -6.24) | |
| 8:27279863 | E>K | A:172 | (42.40, 48.16, -5.94) | |
| 8:27279894 | E>G | A:182 | (50.98, 34.49, -10.87) | |
| 8:27287621 | K>R | A:188 | (59.96, 29.82, -11.23) | |
| 8:27287623 | D>H | A:189 | (63.84, 31.07, -11.68) | |
| 8:27287626 | M>V | A:190 | (62.52, 36.62, -10.83) | |
| 8:27287898 | D>G | A:211 | (46.39, 43.49, -18.44) | |
| 8:27287917 | COSM605081 COSM605082 |
Q>H | A:217 | (40.07, 47.88, -14.37) |
| 8:27287922 | COSM3951559 COSM3951560 |
Q>R | A:219 | (47.11, 49.63, -16.02) |
| 8:27287926 | rs201588000 | E>D | A:220 | (42.60, 53.14, -17.32) |
| 8:27288438 | A>P | A:239 | (59.42, 37.23, -2.76) | |
| 8:27288441 | S>P | A:240 | (59.90, 34.45, -0.29) | |
| 8:27288442 | rs188634353 | S>L | A:240 | (59.90, 34.45, -0.29) |
| 8:27288462 | COSM3899259 COSM3899260 |
V>I | A:247 | (49.06, 27.81, -5.52) |
| 8:27288469 | K>R | A:249 | (48.22, 32.24, -0.02) | |
| 8:27288478 | N>S | A:252 | (43.56, 29.40, 0.95) | |
| 8:27288487 | A>G | A:255 | (37.80, 30.19, -0.62) | |
| 8:27288495 | rs150448766 | A>T | A:258 | (34.46, 31.29, -4.07) |
| 8:27288499 | rs558405489 | N>S | A:259 | (32.73, 27.22, -3.33) |
| 8:27288501 | rs201457448 | I>V | A:260 | (36.69, 26.01, -5.11) |
| 8:27288504 | D>H | A:261 | (34.70, 21.91, -3.86) | |
| 8:27288508 | Q>R | A:262 | (31.18, 22.70, -3.97) | |
| 8:27288514 | rs61738530 | T>N | A:264 | (25.40, 25.31, -7.58) |
| 8:27288516 | Y>H | A:265 | (23.54, 22.54, -10.39) | |
| 8:27288520 | R>H | A:266 | (17.98, 27.52, -8.00) | |
| 8:27288531 | I>V | A:270 | (9.34, 16.43, -7.89) | |
| 8:27288931 | T>I | A:276 | (12.64, 25.48, -5.30) | |
| 8:27288936 | rs199835327 | D>Y | A:278 | (20.08, 25.89, -4.18) |
| 8:27288954 | K>E | A:284 | (32.11, 16.79, 1.24) | |
| 8:27288963 | R>C | A:287 | (26.37, 19.22, 0.63) | |
| 8:27288964 | rs369828516 COSM1663741 COSM1663743 COSM1663742 |
R>H | A:287 | (26.37, 19.22, 0.63) |
| 8:27288972 | T>A | A:290 | (20.66, 25.93, 3.37) | |
| 8:27288979 | Q>L | A:292 | (22.78, 31.61, 3.68) | |
| 8:27288983 | D>E | A:293 | (24.58, 28.46, 6.23) | |
| 8:27288984 | A>T | A:294 | (27.91, 27.43, 6.42) | |
| 8:27288987 | K>Q | A:295 | (25.49, 24.68, 7.29) | |
| 8:27288989 | rs372782567 | K>N | A:295 | (25.49, 24.68, 7.29) |
| 8:27289784 | C>Y | A:298 | (23.75, 15.60, 3.64) | |
| 8:27289792 | rs200025953 | E>K | A:301 | (26.23, 9.97, 0.59) |
| 8:27289798 | rs367987503 | K>E | A:303 | (28.67, 5.10, -0.06) |
| 8:27289825 | P>S | A:312 | (12.30, 14.77, -21.22) | |
| 8:27289826 | P>L | A:312 | (12.30, 14.77, -21.22) | |
| 8:27289832 | E>G | A:314 | (6.86, 18.49, -22.88) | |
| 8:27289838 | rs564271202 | G>D | A:316 | (12.29, 22.08, -21.84) |
| 8:27289846 | V>I | A:319 | (13.82, 14.91, -14.42) | |
| 8:27289856 | L>Q | A:322 | (18.90, 9.88, -8.28) | |
| 8:27289859 | G>D | A:323 | (18.78, 5.87, -6.82) | |
| 8:27289868 | rs139089526 | G>V | A:326 | (17.17, 2.85, 1.39) |
| 8:27289877 | rs142980389 | Q>R | A:329 | (11.31, 7.31, -1.88) |
| 8:27290959 | S>C | A:332 | (12.95, 13.27, -8.34) | |
| 8:27290961 | I>V | A:333 | (15.99, 16.58, -9.20) | |
| 8:27290974 | rs367810356 COSM3647779 COSM3647780 COSM3647778 |
S>Y | A:337 | (17.60, 21.91, -18.71) |
| 8:27290985 | A>T | A:341 | (20.30, 17.27, -16.17) | |
| 8:27290997 | A>T | A:345 | (24.62, 13.48, -14.23) | |
| 8:27291012 | G>S | A:350 | (31.83, 10.76, -11.27) | |
| 8:27291015 | Y>H | A:351 | (32.37, 13.36, -7.57) | |
| 8:27291022 | rs374576859 | R>Q | A:353 | (33.50, 7.75, -12.51) |
| 8:27291028 | Q>R | A:355 | (34.23, 8.15, -4.30) | |
| 8:27291039 | rs56175011 | Q>E | A:359 | (34.07, -0.98, -13.60) |
| 8:27291042 | G>R | A:360 | (31.02, 2.11, -14.89) | |
| 8:27291051 | I>V | A:363 | (23.87, 6.71, -16.24) |
[+] COSMIC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 8:27277583 | COSM351768 | E>K | A:126 | (29.68, 27.72, -33.79) |
| 8:27278190 | COSM3647764 | R>C | A:134 | (33.12, 18.36, -13.55) |
| 8:27279842 | COSM163822 | R>C | A:165 | (33.57, 34.62, -12.91) |