HEADER TRANSFERASE/TRANSFERASE RECEPTOR 31-MAY-13 4L0P TITLE STRUCTURE OF THE HUMAN EPHA3 RECEPTOR LIGAND BINDING DOMAIN COMPLEXED TITLE 2 WITH EPHRIN-A5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: EPHRIN TYPE-A RECEPTOR 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIGAND BINDING DOMAIN (UNP RESIDUES 29-201); COMPND 5 SYNONYM: EPH-LIKE KINASE 4, EK4, HEK4, HEK, HUMAN EMBRYO KINASE, COMPND 6 TYROSINE-PROTEIN KINASE TYRO4, TYROSINE-PROTEIN KINASE RECEPTOR ETK1, COMPND 7 EPH-LIKE TYROSINE KINASE 1; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: EPHRIN-A5; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: RECEPTOR BINDING DOMAIN (UNP RESIDUES 27-166); COMPND 13 SYNONYM: AL-1, EPH-RELATED RECEPTOR TYROSINE KINASE LIGAND 7, LERK-7; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: EPHA3, EPHA3_HUMAN, ETK, ETK1, HEK, TYRO4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET32B; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: EFNA5, EFNA5_HUMAN, EPLG7, LERK7; SOURCE 15 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: BACMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PFASTBAC KEYWDS BETA-SANDWICH, RECEPTOR TYROSINE KINASE, EPHRIN BINDING, TRANSFERASE- KEYWDS 2 TRANSFERASE RECEPTOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.J.FORSE,A.R.KOLATKAR,P.KUHN REVDAT 6 20-SEP-23 4L0P 1 HETSYN REVDAT 5 29-JUL-20 4L0P 1 COMPND REMARK SEQADV HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 15-NOV-17 4L0P 1 REMARK REVDAT 3 01-JUL-15 4L0P 1 JRNL REVDAT 2 01-APR-15 4L0P 1 DBREF SEQADV HELIX SHEET REVDAT 2 2 1 LINK SITE REMARK REVDAT 1 11-JUN-14 4L0P 0 JRNL AUTH G.J.FORSE,M.L.USON,F.NASERTORABI,A.KOLATKAR,I.LAMBERTO, JRNL AUTH 2 E.B.PASQUALE,P.KUHN JRNL TITL DISTINCTIVE STRUCTURE OF THE EPHA3/EPHRIN-A5 COMPLEX REVEALS JRNL TITL 2 A DUAL MODE OF EPH RECEPTOR INTERACTION FOR EPHRIN-A5. JRNL REF PLOS ONE V. 10 27081 2015 JRNL REFN ESSN 1932-6203 JRNL PMID 25993310 JRNL DOI 10.1371/JOURNAL.PONE.0127081 REMARK 2 REMARK 2 RESOLUTION. 2.26 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.26 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 15050 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170 REMARK 3 FREE R VALUE TEST SET COUNT : 778 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 38.5239 - 4.0995 0.98 2421 135 0.1588 0.1648 REMARK 3 2 4.0995 - 3.2544 0.99 2380 127 0.1531 0.1814 REMARK 3 3 3.2544 - 2.8432 0.99 2421 114 0.1912 0.2127 REMARK 3 4 2.8432 - 2.5833 0.99 2381 140 0.2147 0.2579 REMARK 3 5 2.5833 - 2.3981 0.98 2366 125 0.2421 0.2875 REMARK 3 6 2.3981 - 2.2600 0.95 2303 137 0.2800 0.2987 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.570 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.87 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 : 0.004 2703 REMARK 3 ANGLE : 0.785 3656 REMARK 3 CHIRALITY : 0.052 378 REMARK 3 PLANARITY : 0.003 469 REMARK 3 DIHEDRAL : 13.367 985 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 27:46) REMARK 3 ORIGIN FOR THE GROUP (A): 85.0875 40.4087 9.7767 REMARK 3 T TENSOR REMARK 3 T11: 0.2421 T22: 0.2113 REMARK 3 T33: 0.2766 T12: 0.0006 REMARK 3 T13: -0.0205 T23: -0.0135 REMARK 3 L TENSOR REMARK 3 L11: 1.6825 L22: 1.5104 REMARK 3 L33: 5.0147 L12: -1.7381 REMARK 3 L13: 0.2950 L23: -0.1623 REMARK 3 S TENSOR REMARK 3 S11: -0.1687 S12: -0.1294 S13: -0.0277 REMARK 3 S21: 0.0893 S22: 0.1245 S23: -0.1979 REMARK 3 S31: -0.1417 S32: 0.2335 S33: 0.0044 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 47:70) REMARK 3 ORIGIN FOR THE GROUP (A): 79.4820 51.5182 5.8128 REMARK 3 T TENSOR REMARK 3 T11: 0.2089 T22: 0.2198 REMARK 3 T33: 0.1888 T12: -0.0135 REMARK 3 T13: -0.0595 T23: 0.0239 REMARK 3 L TENSOR REMARK 3 L11: 1.6823 L22: 1.6472 REMARK 3 L33: 5.0776 L12: -0.5164 REMARK 3 L13: -1.6422 L23: 1.0582 REMARK 3 S TENSOR REMARK 3 S11: 0.1005 S12: -0.3736 S13: -0.0397 REMARK 3 S21: -0.0894 S22: -0.0593 S23: -0.1448 REMARK 3 S31: -0.0832 S32: 0.5712 S33: -0.0199 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 71:93) REMARK 3 ORIGIN FOR THE GROUP (A): 85.9891 44.7529 -3.1579 REMARK 3 T TENSOR REMARK 3 T11: 0.2489 T22: 0.2177 REMARK 3 T33: 0.2307 T12: -0.0377 REMARK 3 T13: 0.0386 T23: -0.0332 REMARK 3 L TENSOR REMARK 3 L11: 4.1170 L22: 0.7916 REMARK 3 L33: 2.7377 L12: 0.1866 REMARK 3 L13: 0.2055 L23: 0.6895 REMARK 3 S TENSOR REMARK 3 S11: 0.3259 S12: 0.0921 S13: -0.1295 REMARK 3 S21: -0.4982 S22: -0.2380 S23: -0.1236 REMARK 3 S31: 0.0959 S32: 0.3157 S33: -0.0320 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 94:117) REMARK 3 ORIGIN FOR THE GROUP (A): 72.4568 48.3225 -4.7786 REMARK 3 T TENSOR REMARK 3 T11: 0.3150 T22: 0.2403 REMARK 3 T33: 0.2383 T12: -0.0546 REMARK 3 T13: -0.0326 T23: -0.0138 REMARK 3 L TENSOR REMARK 3 L11: 2.3744 L22: 6.2811 REMARK 3 L33: 0.5653 L12: -3.0819 REMARK 3 L13: 0.5505 L23: -1.3659 REMARK 3 S TENSOR REMARK 3 S11: 0.0763 S12: 0.3619 S13: -0.1858 REMARK 3 S21: -0.4462 S22: -0.0628 S23: 0.3633 REMARK 3 S31: 0.1061 S32: 0.0831 S33: 0.0301 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 118:147) REMARK 3 ORIGIN FOR THE GROUP (A): 88.6184 40.2833 -6.3279 REMARK 3 T TENSOR REMARK 3 T11: 0.2549 T22: 0.3473 REMARK 3 T33: 0.2392 T12: -0.0081 REMARK 3 T13: 0.0314 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 3.0759 L22: 2.7334 REMARK 3 L33: 2.3836 L12: -1.1810 REMARK 3 L13: 0.3821 L23: 0.0025 REMARK 3 S TENSOR REMARK 3 S11: 0.1231 S12: 0.0581 S13: 0.1821 REMARK 3 S21: -0.1998 S22: -0.0359 S23: -0.3848 REMARK 3 S31: -0.0725 S32: 0.4647 S33: -0.0587 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 148:161) REMARK 3 ORIGIN FOR THE GROUP (A): 62.8063 52.7216 1.1720 REMARK 3 T TENSOR REMARK 3 T11: 0.2379 T22: 0.2748 REMARK 3 T33: 0.3054 T12: -0.0157 REMARK 3 T13: 0.0083 T23: 0.0648 REMARK 3 L TENSOR REMARK 3 L11: 5.1634 L22: 5.3004 REMARK 3 L33: 8.1292 L12: -2.8916 REMARK 3 L13: -2.6329 L23: 5.6849 REMARK 3 S TENSOR REMARK 3 S11: 0.0986 S12: 0.0325 S13: 0.0346 REMARK 3 S21: -0.1954 S22: -0.0114 S23: 0.6237 REMARK 3 S31: -0.2254 S32: -0.3474 S33: 0.0295 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 162:201) REMARK 3 ORIGIN FOR THE GROUP (A): 80.6287 38.1451 0.4138 REMARK 3 T TENSOR REMARK 3 T11: 0.2212 T22: 0.2134 REMARK 3 T33: 0.2507 T12: -0.0410 REMARK 3 T13: 0.0022 T23: -0.0285 REMARK 3 L TENSOR REMARK 3 L11: 1.3382 L22: 2.3925 REMARK 3 L33: 1.2975 L12: -0.6418 REMARK 3 L13: -0.3644 L23: 0.2060 REMARK 3 S TENSOR REMARK 3 S11: -0.0819 S12: 0.1482 S13: -0.2476 REMARK 3 S21: 0.0567 S22: 0.0578 S23: 0.0967 REMARK 3 S31: 0.0578 S32: 0.0644 S33: 0.0344 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN B AND RESID 27:65) REMARK 3 ORIGIN FOR THE GROUP (A): 84.7470 67.2711 15.4073 REMARK 3 T TENSOR REMARK 3 T11: 0.2954 T22: 0.2181 REMARK 3 T33: 0.2687 T12: -0.0927 REMARK 3 T13: -0.0322 T23: 0.0192 REMARK 3 L TENSOR REMARK 3 L11: 2.4088 L22: 2.7451 REMARK 3 L33: 2.9340 L12: -0.6023 REMARK 3 L13: 1.8334 L23: -2.2290 REMARK 3 S TENSOR REMARK 3 S11: 0.0283 S12: -0.0277 S13: 0.2277 REMARK 3 S21: 0.3227 S22: -0.1458 S23: -0.3014 REMARK 3 S31: -0.4645 S32: 0.3773 S33: 0.0704 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN B AND RESID 66:72) REMARK 3 ORIGIN FOR THE GROUP (A): 88.3181 52.1966 34.2575 REMARK 3 T TENSOR REMARK 3 T11: 0.6216 T22: 0.4941 REMARK 3 T33: 0.3727 T12: -0.0422 REMARK 3 T13: -0.0722 T23: 0.0870 REMARK 3 L TENSOR REMARK 3 L11: 2.0213 L22: 8.2966 REMARK 3 L33: 2.0296 L12: -9.2994 REMARK 3 L13: -2.7773 L23: 4.3917 REMARK 3 S TENSOR REMARK 3 S11: -0.7394 S12: -0.4648 S13: -0.4898 REMARK 3 S21: 1.1462 S22: 0.4066 S23: 0.0387 REMARK 3 S31: -0.1005 S32: -0.3334 S33: 0.3104 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN B AND RESID 73:93) REMARK 3 ORIGIN FOR THE GROUP (A): 72.1447 64.7840 22.5036 REMARK 3 T TENSOR REMARK 3 T11: 0.4867 T22: 0.3253 REMARK 3 T33: 0.2948 T12: 0.0344 REMARK 3 T13: 0.0902 T23: 0.0432 REMARK 3 L TENSOR REMARK 3 L11: 0.9085 L22: 4.5686 REMARK 3 L33: 3.3577 L12: -1.5568 REMARK 3 L13: -0.1884 L23: -1.7458 REMARK 3 S TENSOR REMARK 3 S11: -0.2270 S12: -0.2730 S13: 0.0216 REMARK 3 S21: 0.8228 S22: 0.5412 S23: 0.2513 REMARK 3 S31: -1.1280 S32: -0.5793 S33: -0.2548 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN B AND RESID 94:133) REMARK 3 ORIGIN FOR THE GROUP (A): 76.5059 58.3054 11.9153 REMARK 3 T TENSOR REMARK 3 T11: 0.1942 T22: 0.2022 REMARK 3 T33: 0.2308 T12: 0.0248 REMARK 3 T13: -0.0108 T23: -0.0119 REMARK 3 L TENSOR REMARK 3 L11: 0.3957 L22: 1.3783 REMARK 3 L33: 3.6426 L12: 0.1912 REMARK 3 L13: 0.2364 L23: -1.4177 REMARK 3 S TENSOR REMARK 3 S11: -0.0013 S12: 0.0189 S13: 0.0490 REMARK 3 S21: 0.1239 S22: -0.0341 S23: -0.0199 REMARK 3 S31: -0.1084 S32: 0.0166 S33: 0.0160 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN B AND RESID 134:145) REMARK 3 ORIGIN FOR THE GROUP (A): 72.9468 65.9505 18.6815 REMARK 3 T TENSOR REMARK 3 T11: 0.2389 T22: 0.2473 REMARK 3 T33: 0.2109 T12: -0.0319 REMARK 3 T13: 0.0093 T23: -0.0239 REMARK 3 L TENSOR REMARK 3 L11: 3.2393 L22: 9.0153 REMARK 3 L33: 2.2604 L12: -2.9874 REMARK 3 L13: 4.0105 L23: -8.2362 REMARK 3 S TENSOR REMARK 3 S11: 0.0778 S12: -0.3547 S13: -0.1680 REMARK 3 S21: 0.7343 S22: 0.1759 S23: 0.4103 REMARK 3 S31: -0.9242 S32: -0.4991 S33: -0.0877 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN B AND RESID 146:151) REMARK 3 ORIGIN FOR THE GROUP (A): 72.0884 68.1758 31.1127 REMARK 3 T TENSOR REMARK 3 T11: 0.7032 T22: 0.6305 REMARK 3 T33: 0.8443 T12: 0.2327 REMARK 3 T13: 0.1127 T23: 0.0552 REMARK 3 L TENSOR REMARK 3 L11: 0.7697 L22: 0.0856 REMARK 3 L33: 4.3937 L12: 0.2672 REMARK 3 L13: -1.8400 L23: -0.6255 REMARK 3 S TENSOR REMARK 3 S11: 0.1027 S12: -0.9544 S13: 0.1038 REMARK 3 S21: 1.1354 S22: 0.8976 S23: 1.5689 REMARK 3 S31: -0.8741 S32: -0.7590 S33: -0.8262 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN B AND RESID 152:165) REMARK 3 ORIGIN FOR THE GROUP (A): 79.1440 74.1193 6.1906 REMARK 3 T TENSOR REMARK 3 T11: 0.2790 T22: 0.2275 REMARK 3 T33: 0.3210 T12: -0.0248 REMARK 3 T13: -0.0395 T23: -0.0208 REMARK 3 L TENSOR REMARK 3 L11: 2.0458 L22: 5.5739 REMARK 3 L33: 2.0889 L12: 0.1176 REMARK 3 L13: -1.1116 L23: -5.0649 REMARK 3 S TENSOR REMARK 3 S11: 0.3636 S12: -0.0089 S13: 0.3936 REMARK 3 S21: 0.0640 S22: -0.0868 S23: -0.0370 REMARK 3 S31: -0.3786 S32: 0.8192 S33: -0.0514 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 4L0P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000080033. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03320 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15094 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.260 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 (%) : 98.7 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.19000 REMARK 200 R SYM (I) : 0.19000 REMARK 200 FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.26 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.83900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AUTOSOL REMARK 200 STARTING MODEL: THE EPHRIN-A5 SUBUNIT FROM PDB ENTRY 1SHW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.05M AMMONIUM SULPHATE, 0.1M TRIS, REMARK 280 5MM CALCIUM CHLORIDE, PH 8.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 45.78700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 68.68050 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 22.89350 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: 4150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -73.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 26 REMARK 465 GLY B 24 REMARK 465 SER B 25 REMARK 465 GLY B 26 REMARK 465 LYS B 166 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 CYS A 71 70.45 -153.13 REMARK 500 ASN A 72 48.04 -100.19 REMARK 500 ASN A 90 -133.35 52.82 REMARK 500 LYS B 95 33.65 -147.98 REMARK 500 CYS B 102 75.03 -103.60 REMARK 500 SER B 150 52.18 -102.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 203 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 51 OD2 REMARK 620 2 HOH B 337 O 95.3 REMARK 620 N 1 DBREF 4L0P A 29 201 UNP P29320 EPHA3_HUMAN 29 201 DBREF 4L0P B 27 166 UNP P52803 EFNA5_HUMAN 27 166 SEQADV 4L0P GLY A 26 UNP P29320 EXPRESSION TAG SEQADV 4L0P SER A 27 UNP P29320 EXPRESSION TAG SEQADV 4L0P GLY A 28 UNP P29320 EXPRESSION TAG SEQADV 4L0P GLY B 24 UNP P52803 EXPRESSION TAG SEQADV 4L0P SER B 25 UNP P52803 EXPRESSION TAG SEQADV 4L0P GLY B 26 UNP P52803 EXPRESSION TAG SEQRES 1 A 176 GLY SER GLY GLU VAL ASN LEU LEU ASP SER LYS THR ILE SEQRES 2 A 176 GLN GLY GLU LEU GLY TRP ILE SER TYR PRO SER HIS GLY SEQRES 3 A 176 TRP GLU GLU ILE SER GLY VAL ASP GLU HIS TYR THR PRO SEQRES 4 A 176 ILE ARG THR TYR GLN VAL CYS ASN VAL MET ASP HIS SER SEQRES 5 A 176 GLN ASN ASN TRP LEU ARG THR ASN TRP VAL PRO ARG ASN SEQRES 6 A 176 SER ALA GLN LYS ILE TYR VAL GLU LEU LYS PHE THR LEU SEQRES 7 A 176 ARG ASP CYS ASN SER ILE PRO LEU VAL LEU GLY THR CYS SEQRES 8 A 176 LYS GLU THR PHE ASN LEU TYR TYR MET GLU SER ASP ASP SEQRES 9 A 176 ASP HIS GLY VAL LYS PHE ARG GLU HIS GLN PHE THR LYS SEQRES 10 A 176 ILE ASP THR ILE ALA ALA ASP GLU SER PHE THR GLN MET SEQRES 11 A 176 ASP LEU GLY ASP ARG ILE LEU LYS LEU ASN THR GLU ILE SEQRES 12 A 176 ARG GLU VAL GLY PRO VAL ASN LYS LYS GLY PHE TYR LEU SEQRES 13 A 176 ALA PHE GLN ASP VAL GLY ALA CYS VAL ALA LEU VAL SER SEQRES 14 A 176 VAL ARG VAL TYR PHE LYS LYS SEQRES 1 B 143 GLY SER GLY ALA VAL ALA ASP ARG TYR ALA VAL TYR TRP SEQRES 2 B 143 ASN SER SER ASN PRO ARG PHE GLN ARG GLY ASP TYR HIS SEQRES 3 B 143 ILE ASP VAL CYS ILE ASN ASP TYR LEU ASP VAL PHE CYS SEQRES 4 B 143 PRO HIS TYR GLU ASP SER VAL PRO GLU ASP LYS THR GLU SEQRES 5 B 143 ARG TYR VAL LEU TYR MET VAL ASN PHE ASP GLY TYR SER SEQRES 6 B 143 ALA CYS ASP HIS THR SER LYS GLY PHE LYS ARG TRP GLU SEQRES 7 B 143 CYS ASN ARG PRO HIS SER PRO ASN GLY PRO LEU LYS PHE SEQRES 8 B 143 SER GLU LYS PHE GLN LEU PHE THR PRO PHE SER LEU GLY SEQRES 9 B 143 PHE GLU PHE ARG PRO GLY ARG GLU TYR PHE TYR ILE SER SEQRES 10 B 143 SER ALA ILE PRO ASP ASN GLY ARG ARG SER CYS LEU LYS SEQRES 11 B 143 LEU LYS VAL PHE VAL ARG PRO THR ASN SER CYS MET LYS MODRES 4L0P ASN B 37 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET SO4 A 301 5 HET SO4 A 302 5 HET CA B 203 1 HET SO4 B 204 5 HET SO4 B 205 5 HET SO4 B 206 5 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM SO4 SULFATE ION HETNAM CA CALCIUM ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 3 NAG 2(C8 H15 N O6) FORMUL 4 SO4 5(O4 S 2-) FORMUL 6 CA CA 2+ FORMUL 10 HOH *107(H2 O) HELIX 1 1 ASP A 105 ILE A 109 5 5 HELIX 2 2 ARG A 136 PHE A 140 5 5 HELIX 3 3 THR A 153 ARG A 160 1 8 SHEET 1 A 4 GLU A 29 ASP A 34 0 SHEET 2 A 4 CYS A 189 LYS A 200 -1 O VAL A 197 N LEU A 32 SHEET 3 A 4 PRO A 64 CYS A 71 -1 N TYR A 68 O LEU A 192 SHEET 4 A 4 GLU A 53 VAL A 58 -1 N GLU A 53 O GLN A 69 SHEET 1 B 4 GLU A 29 ASP A 34 0 SHEET 2 B 4 CYS A 189 LYS A 200 -1 O VAL A 197 N LEU A 32 SHEET 3 B 4 TYR A 96 LEU A 103 -1 N GLU A 98 O ARG A 196 SHEET 4 B 4 ASN A 165 GLU A 170 -1 O ARG A 169 N VAL A 97 SHEET 1 C 4 ILE A 45 TYR A 47 0 SHEET 2 C 4 ASN A 80 ARG A 83 -1 O TRP A 81 N TYR A 47 SHEET 3 C 4 GLY A 178 ASP A 185 -1 O ASP A 185 N ASN A 80 SHEET 4 C 4 VAL A 87 PRO A 88 -1 N VAL A 87 O PHE A 179 SHEET 1 D 5 ILE A 45 TYR A 47 0 SHEET 2 D 5 ASN A 80 ARG A 83 -1 O TRP A 81 N TYR A 47 SHEET 3 D 5 GLY A 178 ASP A 185 -1 O ASP A 185 N ASN A 80 SHEET 4 D 5 THR A 119 SER A 127 -1 N TYR A 123 O ALA A 182 SHEET 5 D 5 THR A 141 ALA A 147 -1 O ILE A 146 N PHE A 120 SSBOND 1 CYS A 71 CYS A 189 1555 1555 2.04 SSBOND 2 CYS A 106 CYS A 116 1555 1555 2.04 SSBOND 3 CYS B 53 CYS B 164 1555 1555 2.03 SSBOND 4 CYS B 62 CYS B 102 1555 1555 2.03 SSBOND 5 CYS B 90 CYS B 151 1555 1555 2.03 LINK ND2 ASN B 37 C1 NAG C 1 1555 1555 1.45 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.45 LINK OD2 ASP B 51 CA CA B 203 1555 1555 2.30 LINK CA CA B 203 O HOH B 337 1555 1555 3.00 CISPEP 1 TYR A 47 PRO A 48 0 -2.08 CISPEP 2 ILE B 143 PRO B 144 0 1.39 CRYST1 60.043 60.043 91.574 90.00 90.00 90.00 P 43 4 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 0.016655 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016655 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010920 0.00000