General Structure Information
| PDB ID | 3gt8 |
| HGNC Gene Label(s) | EGFR |
| Structure Name | crystal structure of the inactive egfr kinase domain in complex with amp-pnp |
| Resolution | 2.96Å |
| Reference | AUTH N.JURA,N.F.ENDRES,K.ENGEL,S.DEINDL,R.DAS,AUTH 2 M.H.LAMERS,D.E.WEMMER,X.ZHANG,J.KURIYANTITL MECHANISM FOR ACTIVATION OF THE EGF RECEPTORTITL 2 CATALYTIC DOMAIN BY THE JUXTAMEMBRANE SEGMENT.REF CELL(CAMBRIDGE,MASS.) V. 137 1293 2009REFN ISSN 0092-8674PMID 19563760DOI 10.1016/J.CELL.2009.04.025 |
Variant Set Distributions
ExAC Variants
| Number Of Residues | 296 |
| Number Of SNVs | 63 |
| Number Of Permutations | 11329 |
| Optimal Distance Threshold | 10.0 |
| K Statistic | 0.039 |
| p-value | 0.001 |
ClinVar
| Number Of Residues | 296 |
| Number Of SNVs | 3 |
| Number Of Permutations | 177 |
| Optimal Distance Threshold | 14.0 |
| K Statistic | 0.667 |
| p-value | 0.268 |
COSMIC
| Number Of Residues | 296 |
| Number Of SNVs | 71 |
| Number Of Permutations | 20326 |
| Optimal Distance Threshold | 14.0 |
| K Statistic | 0.216 |
| p-value | 0.0 |
Ripley’s K Analysis Plots
ExACClinVarCOSMIC
Variant Set Comparisons
ClinVar vs. ExAC
Cosmic vs. ExAC
| Number Of ExAC SNVs | 63 |
| Number Of COSMIC SNVs | 58 |
| Optimal Distance Threshold | 10.0 |
| K Statistic | 0.052 |
| p-value | 0.0 |
Mapped Variants
[+] ExAC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 7:55241653 | COSM329080 | Q>K | C:677 | (1.96, 3.84, -85.67) |
| 7:55241677 | COSM116882 COSM12988 |
E>K | C:685 | (0.07, -16.35, -83.21) |
| 7:55241690 | rs373578289 | K>T | C:689 | (-6.21, -18.38, -77.39) |
| 7:55241711 | COSM12373 COSM1451577 COSM747426 |
S>C | C:696 | (-19.77, -15.50, -90.65) |
| 7:55241717 | COSM53266 | A>V | C:698 | (-18.32, -11.66, -96.63) |
| 7:55241726 | COSM53264 | T>M | C:701 | (-14.90, -15.68, -89.20) |
| 7:55241732 | rs138240620 | Y>C | C:703 | (-13.45, -16.91, -84.48) |
| 7:55242447 | K>N | C:715 | (-8.02, -15.92, -69.27) | |
| 7:55242448 | COSM3734669 | I>V | C:716 | (-9.27, -10.26, -71.28) |
| 7:55242454 | COSM1090888 | V>I | C:718 | (-11.65, -10.58, -77.24) |
| 7:55242457 | COSM26509 | A>T | C:719 | (-13.14, -10.02, -80.91) |
| 7:55242482 | COSM13185 | T>I | C:727 | (-9.83, -11.78, -104.06) |
| 7:55242487 | rs121913231 | P>S | C:729 | (-3.91, -10.37, -101.64) |
| 7:55242488 | rs559717059 COSM1168015 |
P>L | C:729 | (-3.91, -10.37, -101.64) |
| 7:55242500 | rs397517102 COSM133588 COSM94183 |
K>R | C:733 | (3.72, -1.93, -94.55) |
| 7:55242503 | COSM707173 | E>G | C:734 | (-1.58, -0.92, -97.62) |
| 7:55249004 | COSM1451595 | S>G | C:744 | (-8.07, 6.21, -85.81) |
| 7:55249007 | rs147149347 | V>M | C:745 | (-12.04, 5.41, -84.99) |
| 7:55249016 | P>A | C:748 | (-19.26, 7.25, -79.21) | |
| 7:55249058 | COSM27110 | V>M | C:762 | (-5.59, -11.04, -91.31) |
| 7:55249067 | I>L | C:765 | (-8.56, -7.74, -82.13) | |
| 7:55249071 | rs121434569 | T>M | C:766 | (-12.61, -5.85, -81.50) |
| 7:55249088 | COSM20891 CM085969 |
G>S | C:772 | (-24.69, -8.26, -80.56) |
| 7:55249103 | COSM22953 | Y>H | C:777 | (-31.93, -6.46, -79.47) |
| 7:55249104 | COSM87019 | Y>C | C:777 | (-31.93, -6.46, -79.47) |
| 7:55249118 | COSM28609 | K>E | C:782 | (-41.33, -8.82, -83.41) |
| 7:55259433 | rs371228501 COSM24846 |
R>C | C:807 | (-11.90, 10.78, -89.84) |
| 7:55259434 | rs150036236 | R>H | C:807 | (-11.90, 10.78, -89.84) |
| 7:55259436 | COSM28286 | R>C | C:808 | (-11.73, 12.92, -95.33) |
| 7:55259437 | COSM3366978 COSM28514 |
R>H | C:808 | (-11.73, 12.92, -95.33) |
| 7:55259448 | rs374952732 COSM53227 COSM28604 |
R>C | C:812 | (-16.82, 1.23, -99.30) |
| 7:55259449 | rs146121458 | R>H | C:812 | (-16.82, 1.23, -99.30) |
| 7:55259451 | D>N | C:813 | (-20.51, -2.88, -95.15) | |
| 7:55259460 | rs143884981 | A>T | C:816 | (-28.03, -3.76, -89.31) |
| 7:55259465 | COSM3639752 | R>S | C:817 | (-25.23, -6.84, -91.61) |
| 7:55259485 | rs148934350 | P>L | C:824 | (-29.90, -1.63, -74.80) |
| 7:55259518 | COSM85994 | A>V | C:835 | (-13.98, -3.15, -98.30) |
| 7:55260470 | K>N | C:855 | (-30.20, -6.74, -101.21) | |
| 7:55260476 | M>I | C:857 | (-25.12, -1.33, -102.66) | |
| 7:55260484 | COSM1451613 | E>G | C:860 | (-24.00, 5.01, -107.08) |
| 7:55260496 | H>R | C:864 | (-21.16, 2.96, -112.10) | |
| 7:55260497 | H>Q | C:864 | (-21.16, 2.96, -112.10) | |
| 7:55260508 | rs151064287 | T>I | C:868 | (-19.80, 8.27, -101.64) |
| 7:55260515 | Q>H | C:870 | (-24.23, 10.64, -100.02) | |
| 7:55266412 | V>L | C:878 | (-31.54, -0.09, -96.06) | |
| 7:55266418 | rs538497054 | V>I | C:880 | (-33.75, 2.65, -91.01) |
| 7:55266454 | rs376822837 | D>N | C:892 | (-37.86, -11.32, -99.48) |
| 7:55266457 | COSM1235506 | G>R | C:893 | (-36.67, -13.07, -103.35) |
| 7:55266473 | E>V | C:898 | (-32.65, -8.56, -111.38) | |
| 7:55266484 | I>L | C:902 | (-35.79, -3.11, -109.01) | |
| 7:55266485 | I>N | C:902 | (-35.79, -3.11, -109.01) | |
| 7:55266508 | rs575565383 COSM3923814 |
P>S | C:910 | (-41.80, -1.83, -98.46) |
| 7:55266526 | T>A | C:916 | (-45.23, 7.76, -90.44) | |
| 7:55266531 | I>M | C:917 | (-45.33, 10.08, -94.49) | |
| 7:55266541 | M>V | C:921 | (-40.96, 11.57, -96.71) | |
| 7:55266550 | rs542967903 | V>I | C:924 | (-38.81, 6.44, -101.43) |
| 7:55268023 | rs201830126 | A>T | C:931 | (-26.86, 11.46, -104.73) |
| 7:55268045 | rs144496976 | R>H | C:938 | (-24.18, 17.08, -91.12) |
| 7:55268048 | E>G | C:939 | (-29.35, 17.10, -92.70) | |
| 7:55268069 | K>R | C:946 | (-37.54, 17.24, -84.50) | |
| 7:55268072 | M>T | C:947 | (-38.71, 12.29, -85.33) | |
| 7:55268077 | R>G | C:949 | (-37.26, 16.16, -79.79) | |
| 7:55268078 | R>Q | C:949 | (-37.26, 16.16, -79.79) | |
| 7:55268090 | R>H | C:953 | (-46.24, 13.49, -84.30) | |
| 7:55268102 | I>T | C:957 | (-45.70, 0.24, -81.76) | |
| 7:55268105 | Q>L | C:958 | (-49.54, -3.24, -80.72) | |
| 7:55268891 | R>K | C:962 | (-47.91, -0.70, -71.42) | |
| 7:55268902 | P>S | C:966 | (-35.23, 4.10, -71.24) | |
| 7:55268921 | N>S | C:972 | (-27.07, 4.82, -64.59) | |
| 7:55268922 | N>K | C:972 | (-27.07, 4.82, -64.59) | |
| 7:55268930 | rs149248025 | R>H | C:975 | (-22.76, 4.45, -68.78) |
| 7:55268951 | D>A | C:982 | (-16.55, 9.46, -72.62) |
[+] ClinVar Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 7:55241678 | rs397517085 | E>V | C:685 | (0.07, -16.35, -83.21) |
| 7:55241708 | rs121913428 | G>D | C:695 | (-19.83, -15.68, -87.01) |
| 7:55249004 | rs397517108 | S>I | C:744 | (-8.07, 6.21, -85.81) |
| 7:55249005 | rs121913465 | S>I | C:744 | (-8.07, 6.21, -85.81) |
| 7:55249071 | rs121434569 | T>M | C:766 | (-12.61, -5.85, -81.50) |
[+] COSMIC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 7:55241650 | COSM53286 | N>Y | C:676 | (-1.55, 7.13, -82.96) |
| 7:55241656 | COSM28508 | A>S | C:678 | (-0.31, 3.52, -80.71) |
| 7:55241659 | COSM20817 | L>V | C:679 | (-4.35, 3.92, -81.37) |
| 7:55241660 | COSM28511 | L>P | C:679 | (-4.35, 3.92, -81.37) |
| 7:55241674 | COSM53232 | K>E | C:684 | (2.97, -12.11, -80.52) |
| 7:55241675 | COSM53228 | K>R | C:684 | (2.97, -12.11, -80.52) |
| 7:55241678 | COSM13009 | E>G | C:685 | (0.07, -16.35, -83.21) |
| 7:55241686 | COSM41603 | F>L | C:688 | (-4.77, -14.16, -79.88) |
| 7:55241687 | COSM28601 | F>S | C:688 | (-4.77, -14.16, -79.88) |
| 7:55241694 | COSM133183 | K>N | C:690 | (-9.45, -18.95, -81.76) |
| 7:55241704 | COSM1716255 | L>M | C:694 | (-19.81, -15.16, -82.49) |
| 7:55241705 | COSM41904 | L>P | C:694 | (-19.81, -15.16, -82.49) |
| 7:55241707 | COSM6252 | G>S | C:695 | (-19.83, -15.68, -87.01) |
| 7:55241708 | COSM6239 | G>A | C:695 | (-19.83, -15.68, -87.01) |
| 7:55241711 | COSM1451577 | S>Y | C:696 | (-19.77, -15.50, -90.65) |
| 7:55241713 | COSM1451578 | G>C | C:697 | (-19.37, -13.31, -93.59) |
| 7:55241714 | COSM28510 | G>A | C:697 | (-19.37, -13.31, -93.59) |
| 7:55241717 | COSM53266 | A>V | C:698 | (-18.32, -11.66, -96.63) |
| 7:55241722 | COSM13979 | G>S | C:700 | (-15.47, -13.33, -92.24) |
| 7:55241725 | COSM53224 | T>A | C:701 | (-14.90, -15.68, -89.20) |
| 7:55241726 | COSM53264 | T>M | C:701 | (-14.90, -15.68, -89.20) |
| 7:55241732 | COSM12718 | Y>C | C:703 | (-13.45, -16.91, -84.48) |
| 7:55242416 | COSM133185 | G>E | C:705 | (-12.01, -14.25, -77.16) |
| 7:55242418 | COSM13180 | L>F | C:706 | (-9.71, -15.31, -74.41) |
| 7:55242422 | COSM53101 | W>L | C:707 | (-5.08, -9.88, -73.92) |
| 7:55242427 | COSM53194 | P>S | C:709 | (-2.16, -10.75, -70.54) |
| 7:55242428 | COSM13181 | P>L | C:709 | (-2.16, -10.75, -70.54) |
| 7:55242432 | COSM1451582 | E>D | C:710 | (2.62, -11.82, -72.22) |
| 7:55242433 | COSM13182 | G>S | C:711 | (2.15, -12.37, -67.33) |
| 7:55242443 | COSM27041 | V>G | C:714 | (-6.06, -12.60, -66.55) |
| 7:55242452 | COSM17570 | P>L | C:717 | (-12.97, -10.83, -72.91) |
| 7:55242454 | COSM1090888 | V>I | C:718 | (-11.65, -10.58, -77.24) |
| 7:55242455 | COSM13183 | V>A | C:718 | (-11.65, -10.58, -77.24) |
| 7:55242457 | COSM26509 | A>T | C:719 | (-13.14, -10.02, -80.91) |
| 7:55242461 | COSM87245 | I>T | C:720 | (-10.94, -12.73, -83.00) |
| 7:55242467 | COSM1451586 | E>G | C:722 | (-9.76, -15.19, -89.37) |
| 7:55242470 | COSM18442 | LR>FP | C:723 | (-10.00, -11.27, -92.74) |
| 7:55242484 | COSM29274 | S>P | C:728 | (-6.51, -10.48, -104.32) |
| 7:55242487 | COSM6268 | P>S | C:729 | (-3.91, -10.37, -101.64) |
| 7:55242488 | COSM1168015 | P>L | C:729 | (-3.91, -10.37, -101.64) |
| 7:55242490 | COSM85993 | K>E | C:730 | (-3.52, -5.72, -99.73) |
| 7:55242491 | COSM1140059 | K>I | C:730 | (-3.52, -5.72, -99.73) |
| 7:55242497 | COSM26435 | N>S | C:732 | (2.00, -7.01, -94.32) |
| 7:55242511 | COSM13188 | D>N | C:737 | (-1.11, 1.96, -93.50) |
| 7:55242512 | COSM27042 | D>G | C:737 | (-1.11, 1.96, -93.50) |
| 7:55248992 | COSM1568920 | Y>H | C:740 | (-1.58, 1.78, -88.13) |
| 7:55248995 | COSM28603 | V>M | C:741 | (-7.14, 4.39, -90.26) |
| 7:55249005 | COSM6241 | S>I | C:744 | (-8.07, 6.21, -85.81) |
| 7:55249007 | COSM13425 | V>M | C:745 | (-12.04, 5.41, -84.99) |
| 7:55249020 | COSM13005 | H>L | C:749 | (-22.13, 6.18, -81.52) |
| 7:55249023 | COSM1451597 | V>A | C:750 | (-17.56, 4.13, -84.33) |
| 7:55249026 | COSM22954 | C>Y | C:751 | (-16.30, 0.30, -83.53) |
| 7:55249028 | COSM6226 | R>C | C:752 | (-10.54, 1.45, -81.53) |
| 7:55249029 | COSM22940 | R>H | C:752 | (-10.54, 1.45, -81.53) |
| 7:55249032 | COSM1451598 | L>P | C:753 | (-8.91, -1.89, -84.91) |
| 7:55249038 | COSM133202 | G>D | C:755 | (-5.90, -5.14, -82.89) |
| 7:55249050 | COSM14069 | T>I | C:759 | (-0.33, -14.52, -90.01) |
| 7:55249052 | COSM28513 | S>P | C:760 | (-1.48, -16.98, -92.72) |
| 7:55249053 | COSM22950 | S>Y | C:760 | (-1.48, -16.98, -92.72) |
| 7:55249056 | COSM28930 | T>N | C:761 | (-4.28, -15.08, -91.50) |
| 7:55249058 | COSM27110 | V>M | C:762 | (-5.59, -11.04, -91.31) |
| 7:55249070 | COSM1272071 | T>A | C:766 | (-12.61, -5.85, -81.50) |
| 7:55249071 | COSM6240 | T>M | C:766 | (-12.61, -5.85, -81.50) |
| 7:55249077 | COSM13190 | L>P | C:768 | (-16.84, -8.99, -76.85) |
| 7:55249086 | COSM22951 | F>S | C:771 | (-26.34, -7.23, -75.71) |
| 7:55249088 | COSM20891 | G>S | C:772 | (-24.69, -8.26, -80.56) |
| 7:55249089 | COSM133565 | G>D | C:772 | (-24.69, -8.26, -80.56) |
| 7:55249092 | COSM53104 | C>Y | C:773 | (-26.20, -7.66, -83.90) |
| 7:55249095 | COSM1451601 | L>P | C:774 | (-29.22, -3.94, -83.93) |
| 7:55249103 | COSM22953 | Y>H | C:777 | (-31.93, -6.46, -79.47) |
| 7:55249104 | COSM87019 | Y>C | C:777 | (-31.93, -6.46, -79.47) |
| 7:55249106 | COSM28516 | V>F | C:778 | (-34.76, -6.36, -83.57) |
| 7:55249107 | COSM133203 | V>A | C:778 | (-34.76, -6.36, -83.57) |
| 7:55249112 | COSM249780 | E>K | C:780 | (-33.66, -11.38, -80.33) |
| 7:55249113 | COSM20892 | E>G | C:780 | (-33.66, -11.38, -80.33) |
| 7:55249118 | COSM28609 | K>E | C:782 | (-41.33, -8.82, -83.41) |
| 7:55249130 | COSM13192 | G>S | C:786 | (-39.90, 1.15, -78.81) |
| 7:55249131 | COSM3734670 | G>A | C:786 | (-39.90, 1.15, -78.81) |
| 7:55249140 | COSM22952 | Y>C | C:789 | (-35.27, 1.54, -77.03) |
| 7:55249143 | COSM28610 | L>P | C:790 | (-36.54, 2.15, -83.11) |
| 7:55249164 | COSM41663 | I>T | C:797 | (-26.51, 4.66, -86.70) |
| 7:55259427 | COSM53291 | E>K | C:805 | (-19.46, 12.46, -93.42) |
| 7:55259433 | COSM24846 | R>C | C:807 | (-11.90, 10.78, -89.84) |
| 7:55259434 | COSM53105 | R>H | C:807 | (-11.90, 10.78, -89.84) |
| 7:55259436 | COSM28286 | R>C | C:808 | (-11.73, 12.92, -95.33) |
| 7:55259437 | COSM3366978 | R>H | C:808 | (-11.73, 12.92, -95.33) |
| 7:55259439 | COSM13424 | L>V | C:809 | (-13.62, 7.68, -93.42) |
| 7:55259441 | COSM219794 | L>F | C:809 | (-13.62, 7.68, -93.42) |
| 7:55259442 | COSM18423 | V>L | C:810 | (-16.16, 5.44, -97.09) |
| 7:55259443 | COSM41665 | V>A | C:810 | (-16.16, 5.44, -97.09) |
| 7:55259446 | COSM6227 | H>L | C:811 | (-18.56, 1.47, -93.68) |
| 7:55259448 | COSM53227 | R>S | C:812 | (-16.82, 1.23, -99.30) |
| 7:55259449 | COSM133566 | R>H | C:812 | (-16.82, 1.23, -99.30) |
| 7:55259454 | COSM13426 | L>V | C:814 | (-24.04, 0.52, -93.30) |
| 7:55259455 | COSM24971 | L>P | C:814 | (-24.04, 0.52, -93.30) |
| 7:55259457 | COSM13430 | A>T | C:815 | (-25.74, -2.70, -92.04) |
| 7:55259460 | COSM85961 | A>T | C:816 | (-28.03, -3.76, -89.31) |
| 7:55259464 | COSM20893 | R>K | C:817 | (-25.23, -6.84, -91.61) |
| 7:55259466 | COSM26446 | N>D | C:818 | (-22.74, -3.96, -89.51) |
| 7:55259469 | COSM747424 | V>L | C:819 | (-25.10, -1.94, -85.64) |
| 7:55259482 | COSM453249 | T>K | C:823 | (-26.15, -0.97, -74.29) |
| 7:55259485 | COSM1451611 | P>R | C:824 | (-29.90, -1.63, -74.80) |
| 7:55259488 | COSM53201 | Q>R | C:825 | (-29.60, 2.02, -74.05) |
| 7:55259493 | COSM12727 | V>I | C:827 | (-25.39, 1.69, -80.81) |
| 7:55259502 | COSM1235378 | T>S | C:830 | (-18.70, -2.73, -87.06) |
| 7:55259505 | COSM29577 | D>N | C:831 | (-17.32, -4.44, -90.28) |
| 7:55259511 | COSM12764 | G>R | C:833 | (-12.98, -0.66, -94.08) |
| 7:55259512 | COSM250050 | G>E | C:833 | (-12.98, -0.66, -94.08) |
| 7:55259514 | COSM12429 | L>R | C:834 | (-13.32, -4.48, -93.79) |
| 7:55259515 | COSM6224 | L>R | C:834 | (-13.32, -4.48, -93.79) |
| 7:55259517 | COSM12675 | A>T | C:835 | (-13.98, -3.15, -98.30) |
| 7:55259524 | COSM12374 | L>R | C:837 | (-8.52, -4.55, -96.73) |
| 7:55260483 | COSM1451612 | E>Q | C:860 | (-24.00, 5.01, -107.08) |
| 7:55260522 | COSM14071 | V>I | C:873 | (-26.89, 7.77, -96.98) |
| 7:55268064 | COSM39614 | F>L | C:944 | (-34.42, 10.05, -87.32) |
| 7:55268881 | COSM3412205 | G>R | C:959 | (-47.32, -1.07, -76.70) |