HEADER LIPID BINDING PROTEIN 30-JUL-19 6KLR TITLE CRYSTAL STRUCTURE OF HUMAN WIPI3 IN COMPLEX WITH THE WIR-PEPTIDE FROM TITLE 2 ATG2A COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHIMERA ATG2A AND WIPI3; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: WIPI-3,WD REPEAT-CONTAINING PROTEIN 45-LIKE,WDR45-LIKE COMPND 5 PROTEIN,WD REPEAT-CONTAINING PROTEIN 45B,WIPI49-LIKE PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: THE SEQUENCE PROVIDED HERE IS CHIMERIC. WE FUSED ATG2A COMPND 9 (1374-1404) TO THE N-TERMINAL OF WIPI3. AND WE ALSO DELETED TWO LOOPS COMPND 10 IN WIPI3 (LOOP1: 75-80; LOOP2: 264-281). THE FIRST FOUR RESIDUES COMPND 11 (GPGS) IS THE EXPRESSION TAG. RESIDUES FORM 5 TO 35 COMPND 12 (PRDGEPVVTQLHPGPIVVRDGYFSRPIGSTD) IS THE FUSED ATG2A SEQUENCE (FROM COMPND 13 1374 TO 1404). RESIDUES FROM 36 TO 37 (GS) IS THE LINKER. THE REST COMPND 14 PART IS FORM WIPI3. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ATG2A, KIAA0404, WDR45B, WDR45L, WIPI3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET32A KEYWDS MEMBRANE BOUND PROTEIN, LIPID BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.Q.REN,R.B.LIANG,W.FENG REVDAT 3 22-NOV-23 6KLR 1 REMARK REVDAT 2 17-JUN-20 6KLR 1 JRNL REVDAT 1 29-APR-20 6KLR 0 JRNL AUTH J.REN,R.LIANG,W.WANG,D.ZHANG,L.YU,W.FENG JRNL TITL MULTI-SITE-MEDIATED ENTWINING OF THE LINEAR WIR-MOTIF AROUND JRNL TITL 2 WIPI BETA-PROPELLERS FOR AUTOPHAGY. JRNL REF NAT COMMUN V. 11 2702 2020 JRNL REFN ESSN 2041-1723 JRNL PMID 32483132 JRNL DOI 10.1038/S41467-020-16523-Y REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 17638 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 864 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 24.5200 - 4.0100 0.98 2958 159 0.1780 0.2152 REMARK 3 2 4.0100 - 3.1900 1.00 2859 134 0.2168 0.2601 REMARK 3 3 3.1900 - 2.7800 1.00 2826 135 0.2447 0.3020 REMARK 3 4 2.7800 - 2.5300 0.99 2788 132 0.2496 0.3023 REMARK 3 5 2.5300 - 2.3500 0.99 2737 152 0.2945 0.3459 REMARK 3 6 2.3500 - 2.2100 0.95 2606 152 0.3598 0.4289 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 36.270 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 53.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 9 THROUGH 311) REMARK 3 ORIGIN FOR THE GROUP (A): 90.9591 137.0178 46.2440 REMARK 3 T TENSOR REMARK 3 T11: 0.5061 T22: 0.4957 REMARK 3 T33: 0.4869 T12: -0.0364 REMARK 3 T13: -0.1049 T23: 0.0176 REMARK 3 L TENSOR REMARK 3 L11: 5.9192 L22: 3.7347 REMARK 3 L33: 1.6430 L12: 0.7010 REMARK 3 L13: -1.3323 L23: 0.2605 REMARK 3 S TENSOR REMARK 3 S11: -0.2269 S12: 0.1718 S13: 0.8958 REMARK 3 S21: -0.1897 S22: 0.2615 S23: 0.4665 REMARK 3 S31: 0.1877 S32: -0.0879 S33: -0.0030 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 1378 THROUGH 1399) REMARK 3 ORIGIN FOR THE GROUP (A): 111.1411 141.9973 46.1801 REMARK 3 T TENSOR REMARK 3 T11: 0.6202 T22: 0.9183 REMARK 3 T33: 1.1166 T12: 0.0089 REMARK 3 T13: 0.0706 T23: -0.2009 REMARK 3 L TENSOR REMARK 3 L11: 1.3229 L22: 2.1093 REMARK 3 L33: 1.2880 L12: -1.3322 REMARK 3 L13: -0.5222 L23: 0.1625 REMARK 3 S TENSOR REMARK 3 S11: -0.1205 S12: -0.3120 S13: 0.9828 REMARK 3 S21: -0.1393 S22: -0.1951 S23: -1.1152 REMARK 3 S31: 0.1175 S32: 0.3004 S33: -0.3450 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6KLR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1300013235. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JAN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97855 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17842 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 11.60 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : 7.90 REMARK 200 R MERGE FOR SHELL (I) : 0.42300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6IYY REMARK 200 REMARK 200 REMARK: AUTHORS STATE THAT SFCHECK GIVES THE MATTHEWS COEFFICIENT REMARK 200 ABOUT 2.44, PHENIX.XTRIAGE GIVES 2.18. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TIRS-HCL, PH 8.5, 20% (V/V) REMARK 280 ETHANOL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 37.56200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 60.53150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.56200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 60.53150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -32 REMARK 465 PRO A -31 REMARK 465 GLY A -30 REMARK 465 SER A -29 REMARK 465 PRO A -28 REMARK 465 ARG A -27 REMARK 465 ASP A -26 REMARK 465 GLY A -25 REMARK 465 GLU A -24 REMARK 465 PRO A -23 REMARK 465 VAL A -22 REMARK 465 VAL A -21 REMARK 465 THR A -20 REMARK 465 GLN A -19 REMARK 465 LEU A -18 REMARK 465 HIS A -17 REMARK 465 PRO A -16 REMARK 465 GLY A -15 REMARK 465 PRO A -14 REMARK 465 ILE A -13 REMARK 465 VAL A -12 REMARK 465 VAL A -11 REMARK 465 ARG A -10 REMARK 465 ASP A -9 REMARK 465 GLY A -8 REMARK 465 TYR A -7 REMARK 465 PHE A -6 REMARK 465 SER A -5 REMARK 465 ARG A -4 REMARK 465 PRO A -3 REMARK 465 ILE A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 THR A 1 REMARK 465 ASP A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 PRO A 5 REMARK 465 HIS A 6 REMARK 465 GLY A 7 REMARK 465 ASN A 8 REMARK 465 VAL A 264 REMARK 465 PRO A 265 REMARK 465 SER A 266 REMARK 465 GLY A 267 REMARK 465 SER A 268 REMARK 465 PRO A 269 REMARK 465 MET A 312 REMARK 465 THR A 313 REMARK 465 ASP A 314 REMARK 465 ASP A 315 REMARK 465 LYS A 316 REMARK 465 LEU A 317 REMARK 465 GLY B 1370 REMARK 465 PRO B 1371 REMARK 465 GLY B 1372 REMARK 465 SER B 1373 REMARK 465 PRO B 1374 REMARK 465 ARG B 1375 REMARK 465 ASP B 1376 REMARK 465 GLY B 1377 REMARK 465 ILE B 1400 REMARK 465 GLY B 1401 REMARK 465 SER B 1402 REMARK 465 THR B 1403 REMARK 465 ASP B 1404 REMARK 465 GLY B 1405 REMARK 465 SER B 1406 REMARK 465 PRO B 1407 REMARK 465 HIS B 1408 REMARK 465 GLY B 1409 REMARK 465 ASN B 1410 REMARK 465 GLY B 1411 REMARK 465 LEU B 1412 REMARK 465 LEU B 1413 REMARK 465 TYR B 1414 REMARK 465 ALA B 1415 REMARK 465 GLY B 1416 REMARK 465 PHE B 1417 REMARK 465 ASN B 1418 REMARK 465 GLN B 1419 REMARK 465 ASP B 1420 REMARK 465 HIS B 1421 REMARK 465 GLY B 1422 REMARK 465 CYS B 1423 REMARK 465 PHE B 1424 REMARK 465 ALA B 1425 REMARK 465 CYS B 1426 REMARK 465 GLY B 1427 REMARK 465 MET B 1428 REMARK 465 GLU B 1429 REMARK 465 ASN B 1430 REMARK 465 GLY B 1431 REMARK 465 PHE B 1432 REMARK 465 ARG B 1433 REMARK 465 VAL B 1434 REMARK 465 TYR B 1435 REMARK 465 ASN B 1436 REMARK 465 THR B 1437 REMARK 465 ASP B 1438 REMARK 465 PRO B 1439 REMARK 465 LEU B 1440 REMARK 465 LYS B 1441 REMARK 465 GLU B 1442 REMARK 465 LYS B 1443 REMARK 465 GLU B 1444 REMARK 465 LYS B 1445 REMARK 465 GLN B 1446 REMARK 465 GLU B 1447 REMARK 465 PHE B 1448 REMARK 465 LEU B 1449 REMARK 465 GLU B 1450 REMARK 465 GLY B 1451 REMARK 465 GLY B 1452 REMARK 465 VAL B 1453 REMARK 465 GLY B 1454 REMARK 465 HIS B 1455 REMARK 465 VAL B 1456 REMARK 465 GLU B 1457 REMARK 465 MET B 1458 REMARK 465 LEU B 1459 REMARK 465 PHE B 1460 REMARK 465 ARG B 1461 REMARK 465 CYS B 1462 REMARK 465 ASN B 1463 REMARK 465 TYR B 1464 REMARK 465 LEU B 1465 REMARK 465 ALA B 1466 REMARK 465 LEU B 1467 REMARK 465 VAL B 1468 REMARK 465 GLY B 1469 REMARK 465 GLY B 1470 REMARK 465 GLY B 1471 REMARK 465 LYS B 1472 REMARK 465 LYS B 1473 REMARK 465 LYS B 1474 REMARK 465 VAL B 1475 REMARK 465 MET B 1476 REMARK 465 ILE B 1477 REMARK 465 TRP B 1478 REMARK 465 ASP B 1479 REMARK 465 ASP B 1480 REMARK 465 LEU B 1481 REMARK 465 LYS B 1482 REMARK 465 LYS B 1483 REMARK 465 LYS B 1484 REMARK 465 THR B 1485 REMARK 465 VAL B 1486 REMARK 465 ILE B 1487 REMARK 465 GLU B 1488 REMARK 465 ILE B 1489 REMARK 465 GLU B 1490 REMARK 465 PHE B 1491 REMARK 465 SER B 1492 REMARK 465 THR B 1493 REMARK 465 GLU B 1494 REMARK 465 VAL B 1495 REMARK 465 LYS B 1496 REMARK 465 ALA B 1497 REMARK 465 VAL B 1498 REMARK 465 LYS B 1499 REMARK 465 LEU B 1500 REMARK 465 ARG B 1501 REMARK 465 ARG B 1502 REMARK 465 ASP B 1503 REMARK 465 ARG B 1504 REMARK 465 ILE B 1505 REMARK 465 VAL B 1506 REMARK 465 VAL B 1507 REMARK 465 VAL B 1508 REMARK 465 LEU B 1509 REMARK 465 ASP B 1510 REMARK 465 SER B 1511 REMARK 465 MET B 1512 REMARK 465 ILE B 1513 REMARK 465 LYS B 1514 REMARK 465 VAL B 1515 REMARK 465 PHE B 1516 REMARK 465 THR B 1517 REMARK 465 PHE B 1518 REMARK 465 THR B 1519 REMARK 465 HIS B 1520 REMARK 465 ASN B 1521 REMARK 465 PRO B 1522 REMARK 465 HIS B 1523 REMARK 465 GLN B 1524 REMARK 465 LEU B 1525 REMARK 465 HIS B 1526 REMARK 465 VAL B 1527 REMARK 465 PHE B 1528 REMARK 465 GLU B 1529 REMARK 465 THR B 1530 REMARK 465 CYS B 1531 REMARK 465 TYR B 1532 REMARK 465 ASN B 1533 REMARK 465 PRO B 1534 REMARK 465 LYS B 1535 REMARK 465 GLY B 1536 REMARK 465 LEU B 1537 REMARK 465 CYS B 1538 REMARK 465 VAL B 1539 REMARK 465 LEU B 1540 REMARK 465 CYS B 1541 REMARK 465 PRO B 1542 REMARK 465 ASN B 1543 REMARK 465 SER B 1544 REMARK 465 ASN B 1545 REMARK 465 ASN B 1546 REMARK 465 SER B 1547 REMARK 465 LEU B 1548 REMARK 465 LEU B 1549 REMARK 465 ALA B 1550 REMARK 465 PHE B 1551 REMARK 465 PRO B 1552 REMARK 465 GLY B 1553 REMARK 465 THR B 1554 REMARK 465 HIS B 1555 REMARK 465 THR B 1556 REMARK 465 GLY B 1557 REMARK 465 HIS B 1558 REMARK 465 VAL B 1559 REMARK 465 GLN B 1560 REMARK 465 LEU B 1561 REMARK 465 VAL B 1562 REMARK 465 ASP B 1563 REMARK 465 LEU B 1564 REMARK 465 ALA B 1565 REMARK 465 SER B 1566 REMARK 465 THR B 1567 REMARK 465 GLU B 1568 REMARK 465 LYS B 1569 REMARK 465 PRO B 1570 REMARK 465 PRO B 1571 REMARK 465 VAL B 1572 REMARK 465 ASP B 1573 REMARK 465 ILE B 1574 REMARK 465 PRO B 1575 REMARK 465 ALA B 1576 REMARK 465 HIS B 1577 REMARK 465 GLU B 1578 REMARK 465 GLY B 1579 REMARK 465 VAL B 1580 REMARK 465 LEU B 1581 REMARK 465 SER B 1582 REMARK 465 CYS B 1583 REMARK 465 ILE B 1584 REMARK 465 ALA B 1585 REMARK 465 LEU B 1586 REMARK 465 ASN B 1587 REMARK 465 LEU B 1588 REMARK 465 GLN B 1589 REMARK 465 GLY B 1590 REMARK 465 THR B 1591 REMARK 465 ARG B 1592 REMARK 465 ILE B 1593 REMARK 465 ALA B 1594 REMARK 465 THR B 1595 REMARK 465 ALA B 1596 REMARK 465 SER B 1597 REMARK 465 GLU B 1598 REMARK 465 LYS B 1599 REMARK 465 GLY B 1600 REMARK 465 THR B 1601 REMARK 465 LEU B 1602 REMARK 465 ILE B 1603 REMARK 465 ARG B 1604 REMARK 465 ILE B 1605 REMARK 465 PHE B 1606 REMARK 465 ASP B 1607 REMARK 465 THR B 1608 REMARK 465 SER B 1609 REMARK 465 SER B 1610 REMARK 465 GLY B 1611 REMARK 465 HIS B 1612 REMARK 465 LEU B 1613 REMARK 465 ILE B 1614 REMARK 465 GLN B 1615 REMARK 465 GLU B 1616 REMARK 465 LEU B 1617 REMARK 465 ARG B 1618 REMARK 465 ARG B 1619 REMARK 465 GLY B 1620 REMARK 465 SER B 1621 REMARK 465 GLN B 1622 REMARK 465 ALA B 1623 REMARK 465 ALA B 1624 REMARK 465 ASN B 1625 REMARK 465 ILE B 1626 REMARK 465 TYR B 1627 REMARK 465 CYS B 1628 REMARK 465 ILE B 1629 REMARK 465 ASN B 1630 REMARK 465 PHE B 1631 REMARK 465 ASN B 1632 REMARK 465 GLN B 1633 REMARK 465 ASP B 1634 REMARK 465 ALA B 1635 REMARK 465 SER B 1636 REMARK 465 LEU B 1637 REMARK 465 ILE B 1638 REMARK 465 CYS B 1639 REMARK 465 VAL B 1640 REMARK 465 SER B 1641 REMARK 465 SER B 1642 REMARK 465 ASP B 1643 REMARK 465 HIS B 1644 REMARK 465 GLY B 1645 REMARK 465 THR B 1646 REMARK 465 VAL B 1647 REMARK 465 HIS B 1648 REMARK 465 ILE B 1649 REMARK 465 PHE B 1650 REMARK 465 ALA B 1651 REMARK 465 ALA B 1652 REMARK 465 GLU B 1653 REMARK 465 ASP B 1654 REMARK 465 PRO B 1655 REMARK 465 LYS B 1656 REMARK 465 SER B 1657 REMARK 465 LYS B 1658 REMARK 465 TRP B 1659 REMARK 465 SER B 1660 REMARK 465 PHE B 1661 REMARK 465 SER B 1662 REMARK 465 LYS B 1663 REMARK 465 PHE B 1664 REMARK 465 GLN B 1665 REMARK 465 VAL B 1666 REMARK 465 PRO B 1667 REMARK 465 SER B 1668 REMARK 465 GLY B 1669 REMARK 465 SER B 1670 REMARK 465 PRO B 1671 REMARK 465 CYS B 1672 REMARK 465 ILE B 1673 REMARK 465 CYS B 1674 REMARK 465 ALA B 1675 REMARK 465 PHE B 1676 REMARK 465 GLY B 1677 REMARK 465 THR B 1678 REMARK 465 GLU B 1679 REMARK 465 PRO B 1680 REMARK 465 ASN B 1681 REMARK 465 ALA B 1682 REMARK 465 VAL B 1683 REMARK 465 ILE B 1684 REMARK 465 ALA B 1685 REMARK 465 ILE B 1686 REMARK 465 CYS B 1687 REMARK 465 ALA B 1688 REMARK 465 ASP B 1689 REMARK 465 GLY B 1690 REMARK 465 SER B 1691 REMARK 465 TYR B 1692 REMARK 465 TYR B 1693 REMARK 465 LYS B 1694 REMARK 465 PHE B 1695 REMARK 465 LEU B 1696 REMARK 465 PHE B 1697 REMARK 465 ASN B 1698 REMARK 465 PRO B 1699 REMARK 465 LYS B 1700 REMARK 465 GLY B 1701 REMARK 465 GLU B 1702 REMARK 465 CYS B 1703 REMARK 465 ILE B 1704 REMARK 465 ARG B 1705 REMARK 465 ASP B 1706 REMARK 465 VAL B 1707 REMARK 465 TYR B 1708 REMARK 465 ALA B 1709 REMARK 465 GLN B 1710 REMARK 465 PHE B 1711 REMARK 465 LEU B 1712 REMARK 465 GLU B 1713 REMARK 465 MET B 1714 REMARK 465 THR B 1715 REMARK 465 ASP B 1716 REMARK 465 ASP B 1717 REMARK 465 LYS B 1718 REMARK 465 LEU B 1719 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 PHE A 46 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 72 CG CD CE NZ REMARK 470 GLU A 166 CG CD OE1 OE2 REMARK 470 ARG A 217 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 254 CG CD CE NZ REMARK 470 PHE A 262 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B1378 CG CD OE1 OE2 REMARK 470 ARG B1398 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 HIS A 19 14.68 57.52 REMARK 500 LEU A 38 104.19 -54.30 REMARK 500 PHE A 58 -127.42 43.12 REMARK 500 PHE A 116 68.08 -113.62 REMARK 500 CYS A 136 141.91 -175.44 REMARK 500 REMARK 500 REMARK: NULL DBREF 6KLR A -28 2 UNP Q2TAZ0 ATG2A_HUMAN 1374 1404 DBREF 6KLR A 5 317 UNP Q5MNZ6 WIPI3_HUMAN 8 344 DBREF 6KLR B 1374 1404 UNP Q2TAZ0 ATG2A_HUMAN 1374 1404 DBREF 6KLR B 1407 1719 UNP Q5MNZ6 WIPI3_HUMAN 8 344 SEQADV 6KLR GLY A -32 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR PRO A -31 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR GLY A -30 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR SER A -29 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR GLY A 3 UNP Q2TAZ0 LINKER SEQADV 6KLR SER A 4 UNP Q2TAZ0 LINKER SEQADV 6KLR A UNP Q5MNZ6 PRO 75 DELETION SEQADV 6KLR A UNP Q5MNZ6 LYS 76 DELETION SEQADV 6KLR A UNP Q5MNZ6 TYR 77 DELETION SEQADV 6KLR A UNP Q5MNZ6 PRO 78 DELETION SEQADV 6KLR A UNP Q5MNZ6 PRO 79 DELETION SEQADV 6KLR A UNP Q5MNZ6 ASN 80 DELETION SEQADV 6KLR A UNP Q5MNZ6 ARG 264 DELETION SEQADV 6KLR A UNP Q5MNZ6 ASN 265 DELETION SEQADV 6KLR A UNP Q5MNZ6 LYS 266 DELETION SEQADV 6KLR A UNP Q5MNZ6 GLN 267 DELETION SEQADV 6KLR A UNP Q5MNZ6 SER 268 DELETION SEQADV 6KLR A UNP Q5MNZ6 SER 269 DELETION SEQADV 6KLR A UNP Q5MNZ6 LEU 270 DELETION SEQADV 6KLR A UNP Q5MNZ6 ALA 271 DELETION SEQADV 6KLR A UNP Q5MNZ6 SER 272 DELETION SEQADV 6KLR A UNP Q5MNZ6 ALA 273 DELETION SEQADV 6KLR A UNP Q5MNZ6 SER 274 DELETION SEQADV 6KLR A UNP Q5MNZ6 PHE 275 DELETION SEQADV 6KLR A UNP Q5MNZ6 LEU 276 DELETION SEQADV 6KLR A UNP Q5MNZ6 PRO 277 DELETION SEQADV 6KLR A UNP Q5MNZ6 LYS 278 DELETION SEQADV 6KLR A UNP Q5MNZ6 TYR 279 DELETION SEQADV 6KLR A UNP Q5MNZ6 PHE 280 DELETION SEQADV 6KLR A UNP Q5MNZ6 SER 281 DELETION SEQADV 6KLR GLY B 1370 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR PRO B 1371 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR GLY B 1372 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR SER B 1373 UNP Q2TAZ0 EXPRESSION TAG SEQADV 6KLR GLY B 1405 UNP Q2TAZ0 LINKER SEQADV 6KLR SER B 1406 UNP Q2TAZ0 LINKER SEQADV 6KLR B UNP Q5MNZ6 PRO 75 DELETION SEQADV 6KLR B UNP Q5MNZ6 LYS 76 DELETION SEQADV 6KLR B UNP Q5MNZ6 TYR 77 DELETION SEQADV 6KLR B UNP Q5MNZ6 PRO 78 DELETION SEQADV 6KLR B UNP Q5MNZ6 PRO 79 DELETION SEQADV 6KLR B UNP Q5MNZ6 ASN 80 DELETION SEQADV 6KLR B UNP Q5MNZ6 ARG 264 DELETION SEQADV 6KLR B UNP Q5MNZ6 ASN 265 DELETION SEQADV 6KLR B UNP Q5MNZ6 LYS 266 DELETION SEQADV 6KLR B UNP Q5MNZ6 GLN 267 DELETION SEQADV 6KLR B UNP Q5MNZ6 SER 268 DELETION SEQADV 6KLR B UNP Q5MNZ6 SER 269 DELETION SEQADV 6KLR B UNP Q5MNZ6 LEU 270 DELETION SEQADV 6KLR B UNP Q5MNZ6 ALA 271 DELETION SEQADV 6KLR B UNP Q5MNZ6 SER 272 DELETION SEQADV 6KLR B UNP Q5MNZ6 ALA 273 DELETION SEQADV 6KLR B UNP Q5MNZ6 SER 274 DELETION SEQADV 6KLR B UNP Q5MNZ6 PHE 275 DELETION SEQADV 6KLR B UNP Q5MNZ6 LEU 276 DELETION SEQADV 6KLR B UNP Q5MNZ6 PRO 277 DELETION SEQADV 6KLR B UNP Q5MNZ6 LYS 278 DELETION SEQADV 6KLR B UNP Q5MNZ6 TYR 279 DELETION SEQADV 6KLR B UNP Q5MNZ6 PHE 280 DELETION SEQADV 6KLR B UNP Q5MNZ6 SER 281 DELETION SEQRES 1 A 350 GLY PRO GLY SER PRO ARG ASP GLY GLU PRO VAL VAL THR SEQRES 2 A 350 GLN LEU HIS PRO GLY PRO ILE VAL VAL ARG ASP GLY TYR SEQRES 3 A 350 PHE SER ARG PRO ILE GLY SER THR ASP GLY SER PRO HIS SEQRES 4 A 350 GLY ASN GLY LEU LEU TYR ALA GLY PHE ASN GLN ASP HIS SEQRES 5 A 350 GLY CYS PHE ALA CYS GLY MET GLU ASN GLY PHE ARG VAL SEQRES 6 A 350 TYR ASN THR ASP PRO LEU LYS GLU LYS GLU LYS GLN GLU SEQRES 7 A 350 PHE LEU GLU GLY GLY VAL GLY HIS VAL GLU MET LEU PHE SEQRES 8 A 350 ARG CYS ASN TYR LEU ALA LEU VAL GLY GLY GLY LYS LYS SEQRES 9 A 350 LYS VAL MET ILE TRP ASP ASP LEU LYS LYS LYS THR VAL SEQRES 10 A 350 ILE GLU ILE GLU PHE SER THR GLU VAL LYS ALA VAL LYS SEQRES 11 A 350 LEU ARG ARG ASP ARG ILE VAL VAL VAL LEU ASP SER MET SEQRES 12 A 350 ILE LYS VAL PHE THR PHE THR HIS ASN PRO HIS GLN LEU SEQRES 13 A 350 HIS VAL PHE GLU THR CYS TYR ASN PRO LYS GLY LEU CYS SEQRES 14 A 350 VAL LEU CYS PRO ASN SER ASN ASN SER LEU LEU ALA PHE SEQRES 15 A 350 PRO GLY THR HIS THR GLY HIS VAL GLN LEU VAL ASP LEU SEQRES 16 A 350 ALA SER THR GLU LYS PRO PRO VAL ASP ILE PRO ALA HIS SEQRES 17 A 350 GLU GLY VAL LEU SER CYS ILE ALA LEU ASN LEU GLN GLY SEQRES 18 A 350 THR ARG ILE ALA THR ALA SER GLU LYS GLY THR LEU ILE SEQRES 19 A 350 ARG ILE PHE ASP THR SER SER GLY HIS LEU ILE GLN GLU SEQRES 20 A 350 LEU ARG ARG GLY SER GLN ALA ALA ASN ILE TYR CYS ILE SEQRES 21 A 350 ASN PHE ASN GLN ASP ALA SER LEU ILE CYS VAL SER SER SEQRES 22 A 350 ASP HIS GLY THR VAL HIS ILE PHE ALA ALA GLU ASP PRO SEQRES 23 A 350 LYS SER LYS TRP SER PHE SER LYS PHE GLN VAL PRO SER SEQRES 24 A 350 GLY SER PRO CYS ILE CYS ALA PHE GLY THR GLU PRO ASN SEQRES 25 A 350 ALA VAL ILE ALA ILE CYS ALA ASP GLY SER TYR TYR LYS SEQRES 26 A 350 PHE LEU PHE ASN PRO LYS GLY GLU CYS ILE ARG ASP VAL SEQRES 27 A 350 TYR ALA GLN PHE LEU GLU MET THR ASP ASP LYS LEU SEQRES 1 B 350 GLY PRO GLY SER PRO ARG ASP GLY GLU PRO VAL VAL THR SEQRES 2 B 350 GLN LEU HIS PRO GLY PRO ILE VAL VAL ARG ASP GLY TYR SEQRES 3 B 350 PHE SER ARG PRO ILE GLY SER THR ASP GLY SER PRO HIS SEQRES 4 B 350 GLY ASN GLY LEU LEU TYR ALA GLY PHE ASN GLN ASP HIS SEQRES 5 B 350 GLY CYS PHE ALA CYS GLY MET GLU ASN GLY PHE ARG VAL SEQRES 6 B 350 TYR ASN THR ASP PRO LEU LYS GLU LYS GLU LYS GLN GLU SEQRES 7 B 350 PHE LEU GLU GLY GLY VAL GLY HIS VAL GLU MET LEU PHE SEQRES 8 B 350 ARG CYS ASN TYR LEU ALA LEU VAL GLY GLY GLY LYS LYS SEQRES 9 B 350 LYS VAL MET ILE TRP ASP ASP LEU LYS LYS LYS THR VAL SEQRES 10 B 350 ILE GLU ILE GLU PHE SER THR GLU VAL LYS ALA VAL LYS SEQRES 11 B 350 LEU ARG ARG ASP ARG ILE VAL VAL VAL LEU ASP SER MET SEQRES 12 B 350 ILE LYS VAL PHE THR PHE THR HIS ASN PRO HIS GLN LEU SEQRES 13 B 350 HIS VAL PHE GLU THR CYS TYR ASN PRO LYS GLY LEU CYS SEQRES 14 B 350 VAL LEU CYS PRO ASN SER ASN ASN SER LEU LEU ALA PHE SEQRES 15 B 350 PRO GLY THR HIS THR GLY HIS VAL GLN LEU VAL ASP LEU SEQRES 16 B 350 ALA SER THR GLU LYS PRO PRO VAL ASP ILE PRO ALA HIS SEQRES 17 B 350 GLU GLY VAL LEU SER CYS ILE ALA LEU ASN LEU GLN GLY SEQRES 18 B 350 THR ARG ILE ALA THR ALA SER GLU LYS GLY THR LEU ILE SEQRES 19 B 350 ARG ILE PHE ASP THR SER SER GLY HIS LEU ILE GLN GLU SEQRES 20 B 350 LEU ARG ARG GLY SER GLN ALA ALA ASN ILE TYR CYS ILE SEQRES 21 B 350 ASN PHE ASN GLN ASP ALA SER LEU ILE CYS VAL SER SER SEQRES 22 B 350 ASP HIS GLY THR VAL HIS ILE PHE ALA ALA GLU ASP PRO SEQRES 23 B 350 LYS SER LYS TRP SER PHE SER LYS PHE GLN VAL PRO SER SEQRES 24 B 350 GLY SER PRO CYS ILE CYS ALA PHE GLY THR GLU PRO ASN SEQRES 25 B 350 ALA VAL ILE ALA ILE CYS ALA ASP GLY SER TYR TYR LYS SEQRES 26 B 350 PHE LEU PHE ASN PRO LYS GLY GLU CYS ILE ARG ASP VAL SEQRES 27 B 350 TYR ALA GLN PHE LEU GLU MET THR ASP ASP LYS LEU FORMUL 3 HOH *18(H2 O) SHEET 1 AA1 4 LEU A 10 PHE A 15 0 SHEET 2 AA1 4 CYS A 21 MET A 26 -1 O GLY A 25 N LEU A 11 SHEET 3 AA1 4 GLY A 29 ASN A 34 -1 O GLY A 29 N MET A 26 SHEET 4 AA1 4 LYS A 39 GLN A 44 -1 O LYS A 39 N ASN A 34 SHEET 1 AA2 5 HIS A 53 GLU A 55 0 SHEET 2 AA2 5 TYR A 62 VAL A 66 -1 O ALA A 64 N GLU A 55 SHEET 3 AA2 5 LYS A 72 ASP A 77 -1 O TRP A 76 N LEU A 63 SHEET 4 AA2 5 LYS A 82 GLU A 88 -1 O ILE A 87 N VAL A 73 SHEET 5 AA2 5 VAL B1380 GLN B1383 -1 O THR B1382 N GLU A 86 SHEET 1 AA3 4 VAL A 93 ARG A 99 0 SHEET 2 AA3 4 ARG A 102 LEU A 107 -1 O VAL A 104 N LYS A 97 SHEET 3 AA3 4 MET A 110 THR A 115 -1 O MET A 110 N LEU A 107 SHEET 4 AA3 4 GLN A 122 GLU A 127 -1 O LEU A 123 N VAL A 113 SHEET 1 AA4 4 VAL A 137 LEU A 138 0 SHEET 2 AA4 4 LEU A 146 PRO A 150 -1 O ALA A 148 N VAL A 137 SHEET 3 AA4 4 VAL A 157 ASP A 161 -1 O VAL A 160 N LEU A 147 SHEET 4 AA4 4 VAL A 170 ILE A 172 -1 O VAL A 170 N LEU A 159 SHEET 1 AA5 4 LEU A 179 LEU A 184 0 SHEET 2 AA5 4 ARG A 190 SER A 195 -1 O ALA A 194 N SER A 180 SHEET 3 AA5 4 LEU A 200 ASP A 205 -1 O PHE A 204 N ILE A 191 SHEET 4 AA5 4 LEU A 211 ARG A 216 -1 O ILE A 212 N ILE A 203 SHEET 1 AA6 4 ILE A 224 PHE A 229 0 SHEET 2 AA6 4 LEU A 235 SER A 240 -1 O SER A 239 N TYR A 225 SHEET 3 AA6 4 THR A 244 ALA A 249 -1 O THR A 244 N SER A 240 SHEET 4 AA6 4 SER A 260 PHE A 262 -1 O PHE A 262 N VAL A 245 SHEET 1 AA7 4 ILE A 271 PHE A 274 0 SHEET 2 AA7 4 ALA A 280 ILE A 284 -1 O ILE A 282 N ALA A 273 SHEET 3 AA7 4 SER A 289 PHE A 295 -1 O TYR A 291 N ALA A 283 SHEET 4 AA7 4 CYS A 301 GLN A 308 -1 O ILE A 302 N LEU A 294 CISPEP 1 ASP A 36 PRO A 37 0 7.32 CRYST1 75.124 121.063 37.768 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.013311 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008260 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026477 0.00000