General Structure Information
| PDB ID | 2WTK |
| HGNC Gene Label(s) | STRADA,CAB39,STK11 |
| Structure Name | structure of the heterotrimeric lkb1-stradalpha-mo25alpha complex |
| Resolution | 2.65Å |
| Reference | AUTH E.ZEQIRAJ,B.M.FILIPPI,M.DEAK,D.R.ALESSI,D.M.F.VAN AALTENTITL STRUCTURE OF THE LKB1-STRAD-MO25 COMPLEX REVEALS ANTITL 2 ALLOSTERIC MECHANISM OF KINASE ACTIVATION.REF SCIENCE V. 326 1707 2009REFN ISSN 0036-8075PMID 19892943DOI 10.1126/SCIENCE.1178377 |
Variant Set Distributions
ExAC Variants
| Number Of Residues | 321 |
| Number Of SNVs | 48 |
| Number Of Permutations | 13314 |
| Optimal Distance Threshold | 18.0 |
| K Statistic | 0.257978723404 |
| p-value | 0.12098 |
| Number Of Residues | 285 |
| Number Of SNVs | 38 |
| Number Of Permutations | 6764 |
| Optimal Distance Threshold | 15.0 |
| K Statistic | 0.115220483642 |
| p-value | 0.00236 |
ClinVar
| Number Of Residues | 285 |
| Number Of SNVs | 14 |
| Number Of Permutations | 2301 |
| Optimal Distance Threshold | 7.0 |
| K Statistic | 0.0989010989011 |
| p-value | 0.003 |
COSMIC
| Number Of Residues | 321 |
| Number Of SNVs | 26 |
| Number Of Permutations | 9875 |
| Optimal Distance Threshold | 16.0 |
| K Statistic | 0.132307692308 |
| p-value | 0.94616 |
| Number Of Residues | 285 |
| Number Of SNVs | 69 |
| Number Of Permutations | 20101 |
| Optimal Distance Threshold | 13.0 |
| K Statistic | 0.171355498721 |
| p-value | 0.0001 |
ClinVar vs. ExAC
Cosmic vs. ExAC
Ripley’s K Analysis Plots
ExACClinVarCOSMIC
[+]ExAC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 3:57994379 | L>V | A:30 | (15.88, -12.01, 22.56) | |
| 3:57994383 | K>R | A:31 | (15.48, -13.71, 29.75) | |
| 3:57994418 | COSM1617961 COSM1617960 |
D>N | A:43 | (23.70, -14.36, 16.34) |
| 3:57994454 | E>Q | A:55 | (8.05, -9.18, 17.53) | |
| 3:57994464 | S>I | A:58 | (7.05, -3.29, 19.19) | |
| 3:57994473 | R>L | A:61 | (4.06, -11.67, 16.81) | |
| 3:57994475 | rs566615110 | M>L | A:62 | (6.96, -9.15, 12.36) |
| 3:57994488 | Y>C | A:66 | (9.11, -14.56, 9.51) | |
| 3:57994496 | rs369273712 | R>W | A:69 | (13.27, -24.89, 9.47) |
| 3:57994524 | E>G | A:78 | (14.40, -12.67, 1.69) | |
| 3:57994559 | E>K | A:90 | (7.34, 1.24, 13.56) | |
| 3:57994563 | rs555125243 | S>T | A:91 | (8.73, 5.91, 12.17) |
| 3:57994565 | rs62622011 | I>V | A:92 | (12.41, 3.01, 14.61) |
| 3:58062775 | rs201852092 | S>G | A:99 | (19.83, -6.14, 3.98) |
| 3:58062790 | D>Y | A:104 | (27.29, -9.64, 5.51) | |
| 3:58062797 | N>S | A:106 | (28.94, -4.26, 8.99) | |
| 3:58062798 | N>K | A:106 | (28.94, -4.26, 8.99) | |
| 3:58062809 | I>T | A:110 | (25.21, -5.23, 13.59) | |
| 3:58062820 | V>L | A:114 | (21.52, -2.68, 19.00) | |
| 3:58062827 | rs201165196 COSM1207231 COSM1207230 |
T>M | A:116 | (18.57, 2.96, 16.73) |
| 3:58062842 | rs147846832 | Y>F | A:121 | (11.65, 0.68, 21.43) |
| 3:58062892 | K>Q | A:138 | (13.27, 21.47, 22.44) | |
| 3:58062899 | T>M | A:140 | (18.20, 15.48, 23.95) | |
| 3:58062919 | rs370470693 | G>W | A:147 | (18.08, 14.63, 34.71) |
| 3:58062941 | P>R | A:154 | (20.44, 14.76, 45.56) | |
| 3:58062956 | T>I | A:159 | (27.57, 16.48, 34.90) | |
| 3:58062964 | N>Y | A:162 | (31.93, 8.99, 31.43) | |
| 3:58063008 | rs202241565 | D>E | A:176 | (20.12, 3.96, 48.63) |
| 3:58064465 | rs141109540 | S>C | A:188 | (30.81, 5.83, 54.07) |
| 3:58064479 | rs181769752 | K>Q | A:193 | (38.04, -0.71, 48.48) |
| 3:58064488 | D>N | A:196 | (34.31, -3.74, 45.61) | |
| 3:58064530 | G>R | A:210 | (15.13, -5.77, 39.06) | |
| 3:58067359 | rs367648404 | I>V | A:215 | (27.48, -2.37, 32.23) |
| 3:58067363 | T>I | A:216 | (29.94, -6.07, 33.89) | |
| 3:58067384 | rs574643677 | P>L | A:223 | (39.27, 3.70, 32.11) |
| 3:58067399 | H>L | A:228 | (26.18, 5.32, 23.65) | |
| 3:58067446 | P>A | A:244 | (8.05, -7.99, 47.57) | |
| 3:58067459 | L>P | A:248 | (14.75, -1.89, 52.66) | |
| 3:58067492 | rs376619286 | A>V | A:259 | (11.13, 6.18, 74.61) |
| 3:58067495 | Y>C | A:260 | (14.08, 4.34, 78.12) | |
| 3:58080571 | P>S | A:266 | (0.79, 4.62, 81.30) | |
| 3:58080581 | N>T | A:269 | (3.72, 10.65, 85.82) | |
| 3:58080583 | rs145036794 | M>V | A:270 | (2.97, 13.14, 91.45) |
| 3:58080594 | COSM4119584 COSM4119585 COSM4119583 |
Q>H | A:273 | (6.22, 16.45, 91.17) |
| 3:58080619 | I>V | A:282 | (22.71, 3.84, 69.66) | |
| 3:58080622 | S>G | A:283 | (20.02, 2.35, 66.21) | |
| 3:58080623 | S>N | A:283 | (20.02, 2.35, 66.21) | |
| 3:58080640 | V>M | A:289 | (15.54, 14.12, 70.20) | |
| 3:58080646 | COSM1178973 COSM1178972 |
V>M | A:291 | (9.95, 15.99, 73.26) |
| 3:58080647 | V>A | A:291 | (9.95, 15.99, 73.26) | |
| 3:58080656 | E>G | A:294 | (-1.19, 17.95, 73.97) | |
| 3:58081872 | rs147591946 | Q>R | A:304 | (14.80, 20.78, 79.12) |
| 3:58081907 | S>A | A:316 | (17.78, 13.36, 79.29) | |
| 3:58081934 | G>R | A:325 | (-5.25, 14.34, 83.18) | |
| 3:58081940 | H>Y | A:327 | (-0.96, 15.19, 80.10) | |
| 3:58083552 | L>H | A:332 | (9.13, 14.46, 66.82) | |
| 3:58083557 | A>S | A:334 | (14.52, 13.69, 62.29) | |
| 3:57994379 | L>V | B:30 | (-7.49, -2.72, 46.78) | |
| 3:57994383 | K>R | B:31 | (-6.50, -4.56, 39.84) | |
| 3:57994418 | COSM1617961 COSM1617960 |
D>N | B:43 | (-15.89, -4.47, 52.54) |
| 3:57994454 | E>Q | B:55 | (0.00, 0.00, 52.38) | |
| 3:57994464 | S>I | B:58 | (1.40, 5.58, 50.39) | |
| 3:57994473 | R>L | B:61 | (4.04, -2.24, 52.93) | |
| 3:57994475 | rs566615110 | M>L | B:62 | (0.79, 0.16, 57.58) |
| 3:57994488 | Y>C | B:66 | (-1.92, -4.93, 60.81) | |
| 3:57994496 | rs369273712 | R>W | B:69 | (-6.95, -13.75, 61.58) |
| 3:57994524 | E>G | B:78 | (-7.95, -1.87, 67.83) | |
| 3:57994559 | E>K | B:90 | (0.77, 10.47, 54.76) | |
| 3:57994563 | rs555125243 | S>T | B:91 | (0.26, 15.35, 55.08) |
| 3:57994565 | rs62622011 | I>V | B:92 | (-4.11, 13.91, 53.20) |
| 3:58062775 | rs201852092 | S>G | B:99 | (-12.52, 4.55, 64.09) |
| 3:58062790 | D>Y | B:104 | (-20.21, 1.29, 62.76) | |
| 3:58062797 | N>S | B:106 | (-21.20, 6.33, 58.77) | |
| 3:58062798 | N>K | B:106 | (-21.20, 6.33, 58.77) | |
| 3:58062809 | I>T | B:110 | (-17.15, 4.93, 54.53) | |
| 3:58062820 | V>L | B:114 | (-12.90, 7.07, 49.39) | |
| 3:58062827 | rs201165196 COSM1207231 COSM1207230 |
T>M | B:116 | (-9.96, 12.92, 51.21) |
| 3:58062842 | rs147846832 | Y>F | B:121 | (-2.94, 9.72, 47.19) |
| 3:58062892 | K>Q | B:138 | (-3.83, 31.93, 45.51) | |
| 3:58062899 | T>M | B:140 | (-8.76, 24.63, 43.71) | |
| 3:58062919 | rs370470693 | G>W | B:147 | (-7.68, 23.35, 33.05) |
| 3:58062941 | P>R | B:154 | (-9.56, 24.08, 22.71) | |
| 3:58062956 | T>I | B:159 | (-17.12, 25.56, 32.67) | |
| 3:58062964 | N>Y | B:162 | (-22.30, 18.33, 36.09) | |
| 3:58063008 | rs202241565 | D>E | B:176 | (-10.48, 12.07, 19.52) |
| 3:58064465 | rs141109540 | S>C | B:188 | (-21.33, 13.88, 14.07) |
| 3:58064479 | rs181769752 | K>Q | B:193 | (-28.60, 8.32, 19.79) |
| 3:58064488 | D>N | B:196 | (-24.93, 5.23, 22.62) | |
| 3:58064530 | G>R | B:210 | (-5.90, 2.55, 29.49) | |
| 3:58067359 | rs367648404 | I>V | B:215 | (-18.14, 6.65, 35.99) |
| 3:58067363 | T>I | B:216 | (-20.65, 2.85, 34.41) | |
| 3:58067384 | rs574643677 | P>L | B:223 | (-30.03, 12.75, 34.85) |
| 3:58067399 | H>L | B:228 | (-17.14, 14.99, 44.01) | |
| 3:58067446 | P>A | B:244 | (1.23, -0.42, 21.58) | |
| 3:58067459 | L>P | B:248 | (-5.31, 5.67, 15.81) | |
| 3:58067492 | rs376619286 | A>V | B:259 | (5.17, 22.58, 11.10) |
| 3:58067495 | Y>C | B:260 | (8.67, 20.04, 13.39) | |
| 3:58080571 | P>S | B:266 | (10.99, 33.56, 13.24) | |
| 3:58080581 | N>T | B:269 | (16.33, 31.01, 7.66) | |
| 3:58080583 | rs145036794 | M>V | B:270 | (21.81, 32.55, 6.29) |
| 3:58080594 | COSM4119584 COSM4119585 COSM4119583 |
Q>H | B:273 | (22.06, 28.19, 4.24) |
| 3:58080619 | I>V | B:282 | (1.13, 11.41, 12.93) | |
| 3:58080622 | S>G | B:283 | (-3.16, 13.35, 14.09) | |
| 3:58080623 | S>N | B:283 | (-3.16, 13.35, 14.09) | |
| 3:58080640 | V>M | B:289 | (1.77, 18.03, 2.24) | |
| 3:58080646 | COSM1178973 COSM1178972 |
V>M | B:291 | (4.98, 23.52, 0.87) |
| 3:58080647 | V>A | B:291 | (4.98, 23.52, 0.87) | |
| 3:58080656 | E>G | B:294 | (5.23, 34.46, -1.06) | |
| 3:58081872 | rs147591946 | Q>R | B:304 | (11.84, 18.97, -2.25) |
| 3:58081907 | S>A | B:316 | (11.10, 15.88, 4.63) | |
| 3:58081934 | G>R | B:325 | (13.84, 39.39, 3.51) | |
| 3:58081940 | H>Y | B:327 | (10.94, 35.04, 2.38) | |
| 3:58083552 | L>H | B:332 | (-1.72, 24.44, 1.61) | |
| 3:58083557 | A>S | B:334 | (-6.16, 18.79, 1.88) |
[+]ClinVar Missense Variants
| 19:1207057 | rs137853080 | Y>D | C:49 | (-69.02, 30.26, 33.42) |
| 19:1207112 | rs137853077 | L>P | C:67 | (-71.17, 27.91, 38.79) |
| 19:1219351 | rs137853081 | G>R | C:135 | (-72.52, 46.42, 48.65) |
| 19:1220394 | rs730881972 | G>R | C:163 | (-56.31, 50.69, 46.57) |
| 19:1220395 | rs137853078 | G>D | C:163 | (-56.31, 50.69, 46.57) |
| 19:1220433 | rs730881979 | D>N | C:176 | (-67.22, 56.71, 40.65) |
| 19:1220450 | rs730881973 | N>K | C:181 | (-68.88, 51.66, 43.13) |
| 19:1220452 | rs730881974 | L>P | C:182 | (-67.01, 50.04, 47.49) |
| 19:1220487 | rs121913315 | D>N | C:194 | (-66.59, 50.60, 38.72) |
| 19:1220489 | rs786202134 | D>E | C:194 | (-66.59, 50.60, 38.72) |
| 19:1220698 | rs730881975 | W>S | C:239 | (-64.00, 66.15, 47.95) |
| 19:1220699 | rs137853082 | W>C | C:239 | (-64.00, 66.15, 47.95) |
| 19:1220701 | rs730881976 | S>W | C:240 | (-64.53, 60.90, 46.87) |
| 19:1221229 | rs730881977 | G>D | C:251 | (-75.44, 59.30, 57.37) |
| 19:1221974 | rs730881978 | R>G | C:297 | (-57.82, 68.32, 48.86) |
| 19:1221976 | rs730881984 | R>S | C:297 | (-57.82, 68.32, 48.86) |
| 19:1221993 | rs727504171 | I>S | C:303 | (-54.94, 59.82, 55.03) |
| 19:1221995 | rs786201090 | R>W | C:304 | (-51.53, 55.29, 55.00) |
| 19:1207057 | rs137853080 | Y>D | F:49 | (-67.50, -21.42, 28.04) |
| 19:1207112 | rs137853077 | L>P | F:67 | (-68.96, -19.23, 21.97) |
| 19:1219351 | rs137853081 | G>R | F:135 | (-67.52, -37.80, 12.75) |
| 19:1220394 | rs730881972 | G>R | F:163 | (-52.31, -41.61, 18.04) |
| 19:1220395 | rs137853078 | G>D | F:163 | (-52.31, -41.61, 18.04) |
| 19:1220433 | rs730881979 | D>N | F:176 | (-63.90, -48.01, 22.01) |
| 19:1220450 | rs730881973 | N>K | F:181 | (-64.82, -42.92, 19.16) |
| 19:1220452 | rs730881974 | L>P | F:182 | (-62.39, -41.42, 15.22) |
| 19:1220487 | rs121913315 | D>N | F:194 | (-63.57, -41.53, 23.93) |
| 19:1220489 | rs786202134 | D>E | F:194 | (-63.57, -41.53, 23.93) |
| 19:1220698 | rs730881975 | W>S | F:239 | (-59.52, -57.44, 15.93) |
| 19:1220699 | rs137853082 | W>C | F:239 | (-59.52, -57.44, 15.93) |
| 19:1220701 | rs730881976 | S>W | F:240 | (-59.87, -52.14, 16.80) |
| 19:1221229 | rs730881977 | G>D | F:251 | (-68.97, -50.79, 4.78) |
| 19:1221974 | rs730881978 | R>G | F:297 | (-52.71, -59.53, 16.17) |
| 19:1221976 | rs730881984 | R>S | F:297 | (-52.71, -59.53, 16.17) |
| 19:1221993 | rs727504171 | I>S | F:303 | (-49.01, -51.06, 10.37) |
| 19:1221995 | rs786201090 | R>W | F:304 | (-45.85, -46.46, 10.74) |
[+]COSMIC Missense Variants
| 19:1207078 | COSM48784 | G>W | C:56 | (-77.91, 43.51, 39.69) |
| 19:1207108 | COSM21384 | V>M | C:66 | (-72.04, 32.34, 37.62) |
| 19:1207118 | COSM1390405 | S>L | C:69 | (-68.54, 23.64, 35.33) |
| 19:1207144 | COSM48785 | K>E | C:78 | (-71.26, 43.06, 33.44) |
| 19:1219403 | COSM1390424 | Q>R | C:152 | (-67.78, 48.24, 60.04) |
| 19:1220416 | COSM1390426 | Q>R | C:170 | (-50.33, 51.29, 38.30) |
| 19:1220418 | COSM21354 | G>S | C:171 | (-52.33, 55.76, 36.89) |
| 19:1220487 | COSM20944 | D>Y | C:194 | (-66.59, 50.60, 38.72) |
| 19:1220494 | COSM48786 | G>V | C:196 | (-65.80, 53.44, 33.73) |
| 19:1220502 | COSM27280 | E>Q | C:199 | (-58.23, 59.42, 33.57) |
| 19:1220504 | COSM3734673 | E>D | C:199 | (-58.23, 59.42, 33.57) |
| 19:1220629 | COSM25844 | S>F | C:216 | (-70.96, 60.72, 41.40) |
| 19:1220691 | COSM5002420 | D>Y | C:237 | (-59.98, 59.69, 43.96) |
| 19:1220699 | COSM333593 | W>C | C:239 | (-64.00, 66.15, 47.95) |
| 19:1221995 | COSM48789 | R>G | C:304 | (-51.53, 55.29, 55.00) |
| 19:1223004 | COSM21353 | P>H | C:314 | (-62.50, 49.60, 69.99) |
| 19:1223034 | COSM21380 | P>L | C:324 | (-80.81, 38.70, 54.07) |
| 19:1207049 | COSM2815064 | I>T | F:46 | (-71.51, -22.04, 31.23) |
| 19:1207078 | COSM48784 | G>W | F:56 | (-74.87, -35.01, 19.93) |
| 19:1207108 | COSM21384 | V>M | F:66 | (-69.85, -23.67, 23.11) |
| 19:1207118 | COSM1390405 | S>L | F:69 | (-67.38, -14.90, 25.79) |
| 19:1207144 | COSM48785 | K>E | F:78 | (-69.39, -34.33, 27.54) |
| 19:1219403 | COSM1390424 | Q>R | F:152 | (-61.10, -39.94, 2.53) |
| 19:1220416 | COSM1390426 | Q>R | F:170 | (-47.98, -41.79, 27.07) |
| 19:1220418 | COSM21354 | G>S | F:171 | (-49.94, -46.21, 28.26) |
| 19:1220487 | COSM20944 | D>Y | F:194 | (-63.57, -41.53, 23.93) |
| 19:1220494 | COSM48786 | G>V | F:196 | (-63.58, -43.91, 28.94) |
| 19:1220502 | COSM27280 | E>Q | F:199 | (-56.06, -49.92, 31.11) |
| 19:1220504 | COSM3734673 | E>D | F:199 | (-56.06, -49.92, 31.11) |
| 19:1220629 | COSM25844 | S>F | F:216 | (-67.41, -51.56, 21.33) |
| 19:1220691 | COSM5002420 | D>Y | F:237 | (-56.01, -50.83, 20.39) |
| 19:1220699 | COSM333593 | W>C | F:239 | (-59.52, -57.44, 15.93) |
| 19:1221995 | COSM48789 | R>G | F:304 | (-45.85, -46.46, 10.74) |
| 19:1223004 | COSM21353 | P>H | F:314 | (-53.93, -41.91, -6.40) |
| 19:1223034 | COSM21380 | P>L | F:324 | (-74.73, -30.85, 5.32) |
| 17:61788193 | COSM3731209 | E>K | B:118 | (-45.53, 23.12, 49.03) |
| 17:61781029 | COSM247640 | Q>R | B:409 | (-37.51, -0.39, 34.13) |
| 17:61788193 | COSM3731209 | E>K | E:118 | (-42.31, -13.45, 16.94) |
| 17:61781029 | COSM247640 | Q>R | E:409 | (-37.35, 10.41, 32.75) |
| 2:231655632 | COSM1017675 | L>M | A:54 | (-49.83, 36.94, 73.29) |
| 2:231657940 | COSM4668253 | V>M | A:98 | (-40.05, 33.10, 69.18) |
| 2:231663604 | COSM1194868 | T>A | A:187 | (-37.85, 40.29, 52.23) |
| 2:231683381 | COSM1614499 | I>V | A:330 | (-39.44, 51.60, 15.63) |
| 2:231655632 | COSM1017675 | L>M | D:54 | (-41.99, -27.61, -6.85) |
| 2:231657940 | COSM4668253 | V>M | D:98 | (-32.87, -23.38, -1.36) |
| 2:231663604 | COSM1194868 | T>A | D:187 | (-33.87, -30.33, 15.61) |
| 2:231683381 | COSM1614499 | I>V | D:330 | (-42.33, -41.11, 50.83) |