General Structure Information
| PDB ID | 1cjy |
| HGNC Gene Label(s) | PLA2G4A |
| Structure Name | human cytosolic phospholipase a2 |
| Resolution | 2.5Å |
| Reference | AUTH A.DESSEN,J.TANG,H.SCHMIDT,M.STAHL,J.D.CLARK,AUTH 2 J.SEEHRA,W.S.SOMERSTITL CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC PHOSPHOLIPASETITL 2 A2 REVEALS A NOVEL TOPOLOGY AND CATALYTICTITL 3 MECHANISM.REF CELL(CAMBRIDGE,MASS.) V. 97 349 1999REFN ISSN 0092-8674PMID 10319815DOI 10.1016/S0092-8674(00)80744-8 |
Variant Set Distributions
ExAC Variants
| Number Of Residues | 614 |
| Number Of SNVs | 105 |
| Number Of Permutations | 30950 |
| Optimal Distance Threshold | 21.0 |
| K Statistic | 0.176 |
| p-value | 0.065 |
COSMIC
| Number Of Residues | 614 |
| Number Of SNVs | 9 |
| Number Of Permutations | 11097 |
| Optimal Distance Threshold | 19.0 |
| K Statistic | 0.333 |
| p-value | 0.205 |
Ripley’s K Analysis Plots
ExACCOSMIC
Variant Set Comparisons
Cosmic vs. ExAC
| Number Of ExAC SNVs | 105 |
| Number Of COSMIC SNVs | 7 |
| Optimal Distance Threshold | 19.0 |
| K Statistic | 0.142 |
| p-value | 0.451 |
Mapped Variants
[+] ExAC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 1:186839585 | H>Y | B:1018 | (172.08, 77.80, 135.92) | |
| 1:186839586 | H>L | B:1018 | (172.08, 77.80, 135.92) | |
| 1:186839589 | K>R | B:1019 | (169.93, 81.29, 130.49) | |
| 1:186839606 | COSM1601420 | L>V | B:1025 | (180.41, 79.38, 115.68) |
| 1:186839610 | rs143369014 | R>H | B:1026 | (183.72, 78.31, 113.29) |
| 1:186839619 | K>R | B:1029 | (187.99, 69.47, 108.08) | |
| 1:186839648 | L>I | B:1039 | (181.22, 57.52, 98.24) | |
| 1:186862179 | rs534671847 | S>C | B:1051 | (169.96, 64.29, 129.94) |
| 1:186862217 | N>D | B:1064 | (174.52, 70.44, 100.79) | |
| 1:186862259 | I>V | B:1078 | (166.82, 76.05, 131.54) | |
| 1:186863230 | I>V | B:1089 | (178.53, 67.98, 121.03) | |
| 1:186863234 | T>M | B:1090 | (176.75, 65.26, 117.45) | |
| 1:186863250 | rs528562431 | N>K | B:1095 | (172.39, 60.89, 104.86) |
| 1:186863257 | rs546723218 COSM1287183 |
M>V | B:1098 | (170.82, 56.43, 108.54) |
| 1:186863287 | rs140645786 | T>S | B:1108 | (180.98, 69.62, 131.71) |
| 1:186863320 | rs145818677 | E>K | B:1119 | (185.22, 80.62, 121.70) |
| 1:186863326 | P>S | B:1121 | (188.01, 73.93, 121.20) | |
| 1:186863341 | Q>K | B:1126 | (192.21, 64.29, 114.31) | |
| 1:186876098 | V>D | B:1127 | (191.48, 66.44, 111.10) | |
| 1:186876106 | rs201239760 | M>V | B:1130 | (183.44, 72.03, 116.20) |
| 1:186876110 | V>D | B:1131 | (184.25, 76.40, 117.39) | |
| 1:186876116 | E>G | B:1133 | (180.07, 79.59, 122.39) | |
| 1:186876118 | M>L | B:1134 | (179.89, 77.93, 125.74) | |
| 1:186880384 | C>R | B:1141 | (163.16, 85.97, 137.55) | |
| 1:186880421 | Q>L | B:1153 | (146.73, 93.35, 134.88) | |
| 1:186880436 | R>K | B:1158 | (138.82, 94.66, 141.92) | |
| 1:186880438 | rs150296760 | Q>K | B:1159 | (139.84, 100.39, 140.71) |
| 1:186880470 | M>I | B:1169 | (124.52, 99.87, 142.67) | |
| 1:186880483 | G>R | B:1174 | (118.41, 104.51, 144.60) | |
| 1:186880507 | H>N | B:1182 | (126.14, 108.16, 148.84) | |
| 1:186880516 | rs374028240 | R>C | B:1185 | (134.94, 102.34, 151.30) |
| 1:186880517 | R>H | B:1185 | (134.94, 102.34, 151.30) | |
| 1:186901911 | I>T | B:1192 | (127.34, 86.95, 136.64) | |
| 1:186901938 | A>D | B:1201 | (123.95, 77.05, 127.96) | |
| 1:186901942 | M>I | B:1202 | (125.37, 79.17, 124.13) | |
| 1:186901943 | V>L | B:1203 | (121.09, 79.98, 124.03) | |
| 1:186901949 | rs149460749 | F>I | B:1205 | (124.69, 83.23, 129.93) |
| 1:186901962 | rs202061195 | M>T | B:1209 | (124.11, 88.58, 129.41) |
| 1:186901963 | M>I | B:1209 | (124.11, 88.58, 129.41) | |
| 1:186901973 | rs200264649 | Y>H | B:1213 | (123.52, 95.76, 128.23) |
| 1:186901976 | COSM257742 | E>K | B:1214 | (118.38, 95.50, 128.62) |
| 1:186901977 | E>G | B:1214 | (118.38, 95.50, 128.62) | |
| 1:186902006 | rs12720588 | V>I | B:1224 | (131.31, 87.11, 134.03) |
| 1:186902009 | A>S | B:1225 | (131.68, 83.25, 135.30) | |
| 1:186908147 | rs201251994 | S>T | B:1235 | (133.94, 83.80, 123.84) |
| 1:186908168 | D>H | B:1242 | (130.96, 95.97, 117.71) | |
| 1:186908177 | E>Q | B:1245 | (129.01, 99.38, 122.28) | |
| 1:186908180 | rs538038130 COSM1134787 |
K>Q | B:1246 | (127.40, 96.57, 121.17) |
| 1:186908190 | E>G | B:1249 | (119.93, 93.50, 120.42) | |
| 1:186908192 | rs199669044 | E>K | B:1250 | (122.71, 93.58, 117.66) |
| 1:186908212 | COSM424847 | M>I | B:1256 | (119.62, 83.06, 115.67) |
| 1:186908213 | K>E | B:1257 | (122.13, 82.31, 112.52) | |
| 1:186908219 | rs201483757 COSM1500242 |
V>I | B:1259 | (122.95, 77.83, 115.71) |
| 1:186908253 | Q>R | B:1270 | (137.43, 69.92, 102.21) | |
| 1:186908258 | V>F | B:1272 | (138.72, 67.18, 108.60) | |
| 1:186908262 | K>R | B:1273 | (141.98, 67.12, 104.75) | |
| 1:186908279 | L>I | B:1279 | (146.05, 71.56, 113.88) | |
| 1:186908339 | rs567313389 | I>V | B:1299 | (132.99, 75.38, 118.45) |
| 1:186908355 | I>T | B:1304 | (134.39, 82.68, 116.17) | |
| 1:186909151 | N>D | B:1320 | (141.36, 98.82, 128.70) | |
| 1:186909155 | T>I | B:1321 | (138.77, 101.12, 130.52) | |
| 1:186909158 | A>G | B:1322 | (136.53, 98.72, 132.94) | |
| 1:186909161 | COSM531531 | Q>R | B:1323 | (134.98, 98.72, 129.33) |
| 1:186909217 | rs368374181 | M>V | B:1342 | (135.18, 66.63, 144.03) |
| 1:186915825 | A>T | B:1364 | (150.44, 84.69, 131.02) | |
| 1:186915837 | F>L | B:1368 | (147.91, 77.50, 128.38) | |
| 1:186915859 | G>A | B:1375 | (159.46, 78.57, 135.93) | |
| 1:186915864 | V>I | B:1377 | (160.15, 79.84, 129.39) | |
| 1:186915867 | COSM1127210 | V>I | B:1378 | (162.21, 76.28, 127.52) |
| 1:186915872 | K>N | B:1379 | (159.54, 77.19, 124.80) | |
| 1:186915886 | N>S | B:1384 | (146.71, 78.51, 121.91) | |
| 1:186915894 | H>N | B:1387 | (139.80, 77.80, 118.42) | |
| 1:186916087 | rs188911054 | E>Q | B:1420 | (126.72, 58.63, 128.40) |
| 1:186919798 | T>I | B:1425 | (136.56, 56.36, 133.53) | |
| 1:186925293 | rs578200626 | H>N | B:1466 | (134.33, 59.11, 115.28) |
| 1:186925294 | H>R | B:1466 | (134.33, 59.11, 115.28) | |
| 1:186925297 | R>H | B:1467 | (135.82, 54.01, 113.08) | |
| 1:186925299 | M>V | B:1468 | (136.30, 57.47, 108.37) | |
| 1:186925305 | rs548763115 | M>V | B:1470 | (139.59, 59.40, 114.13) |
| 1:186925318 | S>T | B:1474 | (145.71, 58.61, 112.15) | |
| 1:186925321 | D>G | B:1475 | (146.33, 58.40, 108.12) | |
| 1:186925334 | rs146620407 | F>L | B:1479 | (145.64, 62.85, 117.00) |
| 1:186925336 | N>S | B:1480 | (147.00, 58.05, 118.82) | |
| 1:186934580 | V>A | B:1540 | (156.47, 68.40, 139.57) | |
| 1:186934631 | P>L | B:1557 | (131.54, 78.20, 138.08) | |
| 1:186934637 | P>L | B:1559 | (135.55, 77.63, 142.12) | |
| 1:186934673 | I>R | B:1571 | (126.99, 84.79, 143.80) | |
| 1:186934724 | K>R | B:1588 | (122.63, 67.44, 141.49) | |
| 1:186946783 | D>A | B:1608 | (117.12, 74.23, 152.32) | |
| 1:186946801 | R>Q | B:1614 | (109.57, 75.39, 151.61) | |
| 1:186946818 | C>R | B:1620 | (114.66, 82.54, 141.49) | |
| 1:186946824 | V>I | B:1622 | (117.61, 83.53, 147.77) | |
| 1:186946860 | rs200799672 | C>G | B:1634 | (129.21, 84.34, 153.51) |
| 1:186946869 | rs28395831 | I>V | B:1637 | (123.70, 82.33, 146.36) |
| 1:186946887 | COSM342931 | A>T | B:1643 | (112.02, 77.41, 133.90) |
| 1:186946906 | rs559559061 | K>M | B:1649 | (100.67, 83.22, 131.87) |
| 1:186946909 | Y>C | B:1650 | (102.99, 87.63, 131.94) | |
| 1:186946914 | A>S | B:1652 | (106.75, 90.83, 129.67) | |
| 1:186948452 | P>S | B:1656 | (99.91, 90.32, 130.12) | |
| 1:186948458 | E>K | B:1658 | (96.80, 89.58, 124.63) | |
| 1:186948482 | A>S | B:1666 | (105.28, 79.97, 125.54) | |
| 1:186948506 | P>S | B:1674 | (109.73, 64.19, 123.09) | |
| 1:186948509 | E>K | B:1675 | (113.84, 64.87, 121.72) | |
| 1:186948516 | rs373844786 | P>Q | B:1677 | (115.48, 70.99, 121.24) |
| 1:186948531 | N>S | B:1682 | (121.31, 69.36, 120.10) | |
| 1:186948532 | N>K | B:1682 | (121.31, 69.36, 120.10) | |
| 1:186948579 | H>R | B:1698 | (115.08, 88.58, 128.48) | |
| 1:186948600 | I>N | B:1705 | (115.39, 93.06, 138.53) | |
| 1:186948603 | rs376891790 | D>V | B:1706 | (112.87, 92.08, 142.10) |
| 1:186957518 | rs138692400 | E>K | B:1710 | (116.39, 92.38, 148.65) |
| 1:186957528 | rs377637574 | V>D | B:1713 | (120.19, 96.60, 149.72) |
[+] COSMIC Missense Variants
| Position | Variant | AA Change | PDB Chain Position | Structure Coordinates |
|---|---|---|---|---|
| 1:186839609 | COSM241153 | R>C | B:1026 | (183.72, 78.31, 113.29) |
| 1:186880397 | COSM4026195 | R>Q | B:1145 | (151.89, 85.57, 140.08) |
| 1:186915773 | COSM3705343 | W>C | B:1346 | (137.92, 73.82, 139.43) |
| 1:186915794 | COSM3734174 | E>D | B:1353 | (146.87, 85.58, 135.22) |
| 1:186915834 | COSM1601421 | L>I | B:1367 | (153.02, 81.62, 128.54) |
| 1:186915853 | COSM901227 | F>C | B:1373 | (162.98, 73.08, 134.00) |
| 1:186934661 | COSM1668299 | G>E | B:1567 | (135.53, 89.30, 147.59) |
| 1:186934687 | COSM1668300 | F>I | B:1576 | (121.63, 77.16, 131.98) |
| 1:186946900 | COSM3705344 | F>Y | B:1647 | (107.77, 83.16, 128.86) |