HEADER HYDROLASE 10-JAN-19 6J4P TITLE STRUCTURAL BASIS OF TUBULIN DETYROSINATION BY VASOHIBINS-SVBP ENZYME TITLE 2 COMPLEX AND FUNCTIONAL IMPLICATIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUBULINYL-TYR CARBOXYPEPTIDASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: VASOHIBIN-2,VASOHIBIN-LIKE PROTEIN; COMPND 5 EC: 3.4.17.17; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: SMALL VASOHIBIN-BINDING PROTEIN; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: COILED COIL DOMAIN-CONTAINING PROTEIN 23; COMPND 11 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: VASH2, VASHL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: RSFDUET; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: SVBP, CCDC23; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS CARBOXYPEPTIDASE, TUBULIN, MICROTUBULE, INHIBITOR, EPOY, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR N.WANG,H.BAO,H.HUANG REVDAT 3 22-NOV-23 6J4P 1 REMARK REVDAT 2 13-NOV-19 6J4P 1 JRNL REVDAT 1 01-MAY-19 6J4P 0 JRNL AUTH N.WANG,C.BOSC,S.RYUL CHOI,B.BOULAN,L.PERIS,N.OLIERIC,H.BAO, JRNL AUTH 2 F.KRICHEN,L.CHEN,A.ANDRIEUX,V.OLIERIC,M.J.MOUTIN, JRNL AUTH 3 M.O.STEINMETZ,H.HUANG JRNL TITL STRUCTURAL BASIS OF TUBULIN DETYROSINATION BY THE JRNL TITL 2 VASOHIBIN-SVBP ENZYME COMPLEX. JRNL REF NAT.STRUCT.MOL.BIOL. V. 26 571 2019 JRNL REFN ESSN 1545-9985 JRNL PMID 31235911 JRNL DOI 10.1038/S41594-019-0241-Y REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.12_2829: ???) 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.22 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 47942 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 2417 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 37.2331 - 4.1100 1.00 2869 173 0.1693 0.1891 REMARK 3 2 4.1100 - 3.2629 1.00 2767 138 0.1495 0.1791 REMARK 3 3 3.2629 - 2.8506 1.00 2738 129 0.1699 0.1925 REMARK 3 4 2.8506 - 2.5900 1.00 2711 128 0.1783 0.2069 REMARK 3 5 2.5900 - 2.4044 1.00 2649 156 0.1748 0.2100 REMARK 3 6 2.4044 - 2.2627 1.00 2665 153 0.1683 0.1820 REMARK 3 7 2.2627 - 2.1494 1.00 2664 146 0.1618 0.2025 REMARK 3 8 2.1494 - 2.0558 1.00 2625 141 0.1591 0.1902 REMARK 3 9 2.0558 - 1.9767 1.00 2675 149 0.1565 0.1413 REMARK 3 10 1.9767 - 1.9085 1.00 2679 135 0.1608 0.1730 REMARK 3 11 1.9085 - 1.8488 1.00 2652 133 0.1578 0.2097 REMARK 3 12 1.8488 - 1.7960 1.00 2648 134 0.1637 0.1814 REMARK 3 13 1.7960 - 1.7487 1.00 2651 133 0.1618 0.1799 REMARK 3 14 1.7487 - 1.7060 1.00 2638 140 0.1635 0.1742 REMARK 3 15 1.7060 - 1.6672 1.00 2656 126 0.1663 0.1793 REMARK 3 16 1.6672 - 1.6317 1.00 2616 137 0.1645 0.2032 REMARK 3 17 1.6317 - 1.5991 1.00 2622 166 0.1675 0.1907 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.85 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 : 0.006 2472 REMARK 3 ANGLE : 0.970 3325 REMARK 3 CHIRALITY : 0.063 350 REMARK 3 PLANARITY : 0.005 422 REMARK 3 DIHEDRAL : 13.858 1506 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 48 THROUGH 73 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.4983 -6.3851 -37.4225 REMARK 3 T TENSOR REMARK 3 T11: 0.1755 T22: 0.2098 REMARK 3 T33: 0.1090 T12: 0.0103 REMARK 3 T13: -0.0539 T23: -0.0269 REMARK 3 L TENSOR REMARK 3 L11: 2.3915 L22: 3.4141 REMARK 3 L33: 2.9121 L12: -0.4637 REMARK 3 L13: 0.1944 L23: -1.9995 REMARK 3 S TENSOR REMARK 3 S11: 0.0533 S12: 0.4412 S13: -0.2125 REMARK 3 S21: -0.3598 S22: 0.0192 S23: 0.3842 REMARK 3 S31: 0.3002 S32: -0.7882 S33: -0.1104 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 74 THROUGH 121 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.7781 -0.3275 -23.9068 REMARK 3 T TENSOR REMARK 3 T11: 0.0832 T22: 0.1319 REMARK 3 T33: 0.0607 T12: -0.0049 REMARK 3 T13: 0.0007 T23: 0.0252 REMARK 3 L TENSOR REMARK 3 L11: 0.5245 L22: 0.2234 REMARK 3 L33: 1.4687 L12: 0.0267 REMARK 3 L13: 0.2496 L23: 0.7236 REMARK 3 S TENSOR REMARK 3 S11: -0.0382 S12: 0.1950 S13: 0.0362 REMARK 3 S21: -0.0966 S22: -0.0426 S23: -0.0324 REMARK 3 S31: -0.2204 S32: 0.1315 S33: 0.0700 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 122 THROUGH 138 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.1176 -8.2150 -25.2959 REMARK 3 T TENSOR REMARK 3 T11: 0.0539 T22: 0.0688 REMARK 3 T33: 0.0979 T12: 0.0210 REMARK 3 T13: -0.0169 T23: -0.0090 REMARK 3 L TENSOR REMARK 3 L11: 0.8626 L22: 3.1265 REMARK 3 L33: 3.7687 L12: 0.1236 REMARK 3 L13: -0.0856 L23: -1.9061 REMARK 3 S TENSOR REMARK 3 S11: 0.0079 S12: 0.1032 S13: -0.1634 REMARK 3 S21: -0.0974 S22: 0.1910 S23: 0.2509 REMARK 3 S31: 0.1862 S32: -0.2540 S33: -0.1639 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 139 THROUGH 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.9756 -15.3846 -21.7598 REMARK 3 T TENSOR REMARK 3 T11: 0.1346 T22: 0.0637 REMARK 3 T33: 0.1620 T12: 0.0352 REMARK 3 T13: 0.0218 T23: -0.0075 REMARK 3 L TENSOR REMARK 3 L11: 2.6874 L22: 2.9905 REMARK 3 L33: 2.2934 L12: 1.9988 REMARK 3 L13: -1.8776 L23: -1.5182 REMARK 3 S TENSOR REMARK 3 S11: -0.1333 S12: -0.0856 S13: -0.3472 REMARK 3 S21: -0.0806 S22: -0.0585 S23: -0.3486 REMARK 3 S31: 0.4164 S32: 0.2281 S33: 0.1318 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 153 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.9721 -3.0149 -13.4895 REMARK 3 T TENSOR REMARK 3 T11: 0.0405 T22: 0.0540 REMARK 3 T33: 0.0669 T12: 0.0142 REMARK 3 T13: -0.0074 T23: 0.0076 REMARK 3 L TENSOR REMARK 3 L11: 1.0199 L22: 0.9152 REMARK 3 L33: 0.7357 L12: -0.2643 REMARK 3 L13: -0.2125 L23: -0.0317 REMARK 3 S TENSOR REMARK 3 S11: 0.0048 S12: -0.0078 S13: -0.0091 REMARK 3 S21: -0.0258 S22: 0.0157 S23: 0.0016 REMARK 3 S31: -0.0301 S32: -0.0594 S33: -0.0129 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 216 THROUGH 238 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.3692 5.0419 -5.3410 REMARK 3 T TENSOR REMARK 3 T11: 0.0934 T22: 0.1017 REMARK 3 T33: 0.0860 T12: 0.0388 REMARK 3 T13: -0.0178 T23: -0.0345 REMARK 3 L TENSOR REMARK 3 L11: 2.2356 L22: 2.6101 REMARK 3 L33: 3.2504 L12: -0.4098 REMARK 3 L13: 0.2340 L23: -1.1091 REMARK 3 S TENSOR REMARK 3 S11: -0.2067 S12: -0.2465 S13: 0.1434 REMARK 3 S21: 0.2942 S22: 0.1157 S23: 0.0226 REMARK 3 S31: -0.4062 S32: -0.0890 S33: 0.0838 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 239 THROUGH 258 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.3833 -6.7493 -10.3021 REMARK 3 T TENSOR REMARK 3 T11: 0.0556 T22: 0.0850 REMARK 3 T33: 0.0769 T12: -0.0004 REMARK 3 T13: -0.0036 T23: -0.0078 REMARK 3 L TENSOR REMARK 3 L11: 1.6425 L22: 1.8363 REMARK 3 L33: 1.7146 L12: -0.0711 REMARK 3 L13: 0.5422 L23: -0.8936 REMARK 3 S TENSOR REMARK 3 S11: -0.0374 S12: -0.1228 S13: -0.2589 REMARK 3 S21: -0.1634 S22: 0.1739 S23: 0.1482 REMARK 3 S31: 0.1671 S32: -0.1477 S33: -0.0607 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 259 THROUGH 275 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.7289 -8.4893 -8.4446 REMARK 3 T TENSOR REMARK 3 T11: 0.0545 T22: 0.2407 REMARK 3 T33: 0.1971 T12: -0.0034 REMARK 3 T13: 0.0132 T23: 0.0543 REMARK 3 L TENSOR REMARK 3 L11: 3.5413 L22: 4.2474 REMARK 3 L33: 2.6472 L12: -3.0553 REMARK 3 L13: -1.3714 L23: 1.4739 REMARK 3 S TENSOR REMARK 3 S11: -0.1579 S12: -0.2580 S13: -0.6339 REMARK 3 S21: 0.0976 S22: 0.0713 S23: 0.7070 REMARK 3 S31: 0.1693 S32: -0.5853 S33: 0.1036 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 276 THROUGH 293 ) REMARK 3 ORIGIN FOR THE GROUP (A): -30.4266 -4.7553 3.1299 REMARK 3 T TENSOR REMARK 3 T11: 0.1885 T22: 0.4091 REMARK 3 T33: 0.1165 T12: 0.0435 REMARK 3 T13: 0.0931 T23: 0.0724 REMARK 3 L TENSOR REMARK 3 L11: 4.2485 L22: 1.3528 REMARK 3 L33: 2.5018 L12: 0.3358 REMARK 3 L13: -0.9863 L23: 1.6265 REMARK 3 S TENSOR REMARK 3 S11: 0.0516 S12: -0.8439 S13: -0.6262 REMARK 3 S21: 0.5678 S22: -0.0257 S23: 0.2929 REMARK 3 S31: 0.1663 S32: -0.8452 S33: 0.1032 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 18 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.3965 -12.7776 -39.6568 REMARK 3 T TENSOR REMARK 3 T11: 0.4220 T22: 0.2738 REMARK 3 T33: 0.2339 T12: 0.1149 REMARK 3 T13: 0.0864 T23: 0.0871 REMARK 3 L TENSOR REMARK 3 L11: 5.2651 L22: 7.0791 REMARK 3 L33: 7.6901 L12: 5.4787 REMARK 3 L13: 2.5453 L23: -0.3367 REMARK 3 S TENSOR REMARK 3 S11: -0.1591 S12: -1.0960 S13: -0.8787 REMARK 3 S21: 0.9686 S22: 0.0419 S23: -0.1960 REMARK 3 S31: 0.4998 S32: 0.4649 S33: 0.0924 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 27 THROUGH 61 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.1684 5.0506 -32.1027 REMARK 3 T TENSOR REMARK 3 T11: 0.2394 T22: 0.0897 REMARK 3 T33: 0.0629 T12: -0.0062 REMARK 3 T13: -0.0105 T23: 0.0361 REMARK 3 L TENSOR REMARK 3 L11: 4.7894 L22: 5.2866 REMARK 3 L33: 4.1540 L12: -2.2068 REMARK 3 L13: -1.8853 L23: 1.2933 REMARK 3 S TENSOR REMARK 3 S11: -0.0061 S12: 0.1463 S13: 0.3307 REMARK 3 S21: 0.1322 S22: 0.0054 S23: 0.0152 REMARK 3 S31: -0.7016 S32: -0.0380 S33: 0.0068 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 6J4P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1300010464. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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) : 0.9789 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48003 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.599 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.20 REMARK 200 R MERGE FOR SHELL (I) : 0.22800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 6J4O REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: V2C-SVBP WAS MIXED WITH THE INHIBITOR REMARK 280 EPOY AT A MOLE RATIO OF 1:5 AND INCUBATED ON ICE FOR 30 MIN. REMARK 280 THEN, THE RESULTING CO-COMPLEX OF V2C-SVBP-EPOY WAS CRYSTALLIZED REMARK 280 IN 1.0 M LITHIUM CHLORIDE, 0.1 M HEPES, PH 7.0, 20% PEG 6000., REMARK 280 EVAPORATION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 100.83733 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.41867 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 50.41867 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 100.83733 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: 2640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 46 REMARK 465 VAL A 47 REMARK 465 ILE A 294 REMARK 465 LEU A 295 REMARK 465 LYS A 296 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 PRO B 3 REMARK 465 PRO B 4 REMARK 465 ALA B 5 REMARK 465 ARG B 6 REMARK 465 LYS B 7 REMARK 465 GLU B 8 REMARK 465 LYS B 9 REMARK 465 THR B 10 REMARK 465 LYS B 11 REMARK 465 VAL B 12 REMARK 465 LYS B 13 REMARK 465 GLU B 14 REMARK 465 SER B 15 REMARK 465 VAL B 16 REMARK 465 SER B 17 REMARK 465 GLN B 62 REMARK 465 PRO B 63 REMARK 465 PRO B 64 REMARK 465 GLY B 65 REMARK 465 GLU B 66 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 ARG B 18 CG CD NE CZ NH1 NH2 REMARK 470 MET B 61 CG SD CE REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 1073 O HOH A 1170 2.05 REMARK 500 O GLN B 24 O HOH B 101 2.06 REMARK 500 OG SER A 258 O HOH A 1001 2.13 REMARK 500 O HOH A 1138 O HOH A 1144 2.14 REMARK 500 O HOH A 1173 O HOH A 1266 2.16 REMARK 500 O HOH B 102 O HOH B 168 2.17 REMARK 500 OE2 GLU B 48 O HOH B 102 2.17 REMARK 500 OE2 GLU B 56 O HOH B 103 2.18 REMARK 500 O HOH A 1263 O HOH A 1268 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1047 O HOH A 1239 6554 2.15 REMARK 500 NH2 ARG A 223 O HOH B 101 3555 2.15 REMARK 500 REMARK 500 REMARK: NULL 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 GLN A 122 145.51 86.79 REMARK 500 LYS A 157 -164.36 -112.52 REMARK 500 MET A 216 -100.93 -140.63 REMARK 500 LYS A 265 55.46 -147.52 REMARK 500 GLN B 60 48.46 -89.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1387 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH A1388 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH A1389 DISTANCE = 7.84 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BJL A 900 DBREF 6J4P A 46 296 UNP Q86V25 VASH2_HUMAN 46 296 DBREF 6J4P B 1 66 UNP Q8N300 SVBP_HUMAN 1 66 SEQRES 1 A 251 GLY VAL LEU PHE HIS VAL ASN LYS SER GLY PHE PRO ILE SEQRES 2 A 251 ASP SER HIS THR TRP GLU ARG MET TRP MET HIS VAL ALA SEQRES 3 A 251 LYS VAL HIS PRO LYS GLY GLY GLU MET VAL GLY ALA ILE SEQRES 4 A 251 ARG ASN ALA ALA PHE LEU ALA LYS PRO SER ILE PRO GLN SEQRES 5 A 251 VAL PRO ASN TYR ARG LEU SER MET THR ILE PRO ASP TRP SEQRES 6 A 251 LEU GLN ALA ILE GLN ASN TYR MET LYS THR LEU GLN TYR SEQRES 7 A 251 ASN HIS THR GLY THR GLN PHE PHE GLU ILE ARG LYS MET SEQRES 8 A 251 ARG PRO LEU SER GLY LEU MET GLU THR ALA LYS GLU MET SEQRES 9 A 251 THR ARG GLU SER LEU PRO ILE LYS CYS LEU GLU ALA VAL SEQRES 10 A 251 ILE LEU GLY ILE TYR LEU THR ASN GLY GLN PRO SER ILE SEQRES 11 A 251 GLU ARG PHE PRO ILE SER PHE LYS THR TYR PHE SER GLY SEQRES 12 A 251 ASN TYR PHE HIS HIS VAL VAL LEU GLY ILE TYR CYS ASN SEQRES 13 A 251 GLY ARG TYR GLY SER LEU GLY MET SER ARG ARG ALA GLU SEQRES 14 A 251 LEU MET ASP LYS PRO LEU THR PHE ARG THR LEU SER ASP SEQRES 15 A 251 LEU ILE PHE ASP PHE GLU ASP SER TYR LYS LYS TYR LEU SEQRES 16 A 251 HIS THR VAL LYS LYS VAL LYS ILE GLY LEU TYR VAL PRO SEQRES 17 A 251 HIS GLU PRO HIS SER PHE GLN PRO ILE GLU TRP LYS GLN SEQRES 18 A 251 LEU VAL LEU ASN VAL SER LYS MET LEU ARG ALA ASP ILE SEQRES 19 A 251 ARG LYS GLU LEU GLU LYS TYR ALA ARG ASP MET ARG MET SEQRES 20 A 251 LYS ILE LEU LYS SEQRES 1 B 66 MET ASP PRO PRO ALA ARG LYS GLU LYS THR LYS VAL LYS SEQRES 2 B 66 GLU SER VAL SER ARG VAL GLU LYS ALA LYS GLN LYS SER SEQRES 3 B 66 ALA GLN GLN GLU LEU LYS GLN ARG GLN ARG ALA GLU ILE SEQRES 4 B 66 TYR ALA LEU ASN ARG VAL MET THR GLU LEU GLU GLN GLN SEQRES 5 B 66 GLN PHE ASP GLU PHE CYS LYS GLN MET GLN PRO PRO GLY SEQRES 6 B 66 GLU HET BJL A 900 23 HETNAM BJL N-[(3R)-4-ETHOXY-3-HYDROXY-4-OXOBUTANOYL]-L-TYROSINE FORMUL 3 BJL C15 H19 N O7 FORMUL 4 HOH *478(H2 O) HELIX 1 AA1 ASP A 59 HIS A 74 1 16 HELIX 2 AA2 LYS A 76 ASN A 86 1 11 HELIX 3 AA3 THR A 106 GLN A 122 1 17 HELIX 4 AA4 PRO A 138 SER A 153 1 16 HELIX 5 AA5 LYS A 157 ASN A 170 1 14 HELIX 6 AA6 ARG A 212 MET A 216 5 5 HELIX 7 AA7 THR A 224 TYR A 239 1 16 HELIX 8 AA8 LEU A 275 LYS A 293 1 19 HELIX 9 AA9 VAL B 19 GLN B 24 1 6 HELIX 10 AB1 SER B 26 GLN B 60 1 35 SHEET 1 AA1 2 HIS A 50 VAL A 51 0 SHEET 2 AA1 2 THR A 128 GLN A 129 1 O GLN A 129 N HIS A 50 SHEET 1 AA2 6 LYS A 218 PHE A 222 0 SHEET 2 AA2 6 ARG A 203 LEU A 207 -1 N TYR A 204 O PHE A 222 SHEET 3 AA2 6 ASN A 189 CYS A 200 -1 N LEU A 196 O LEU A 207 SHEET 4 AA2 6 GLU A 176 PHE A 186 -1 N PHE A 182 O HIS A 193 SHEET 5 AA2 6 THR A 242 ILE A 248 -1 O LYS A 244 N LYS A 183 SHEET 6 AA2 6 LEU A 267 ASN A 270 -1 O LEU A 269 N VAL A 246 LINK SG CYS A 158 C15 BJL A 900 1555 1555 1.78 CISPEP 1 PHE A 56 PRO A 57 0 -1.34 SITE 1 AC1 15 PHE A 49 TYR A 123 LYS A 157 CYS A 158 SITE 2 AC1 15 LEU A 159 PHE A 191 HIS A 192 HIS A 193 SITE 3 AC1 15 SER A 210 ARG A 211 HIS A 241 HOH A1016 SITE 4 AC1 15 HOH A1036 HOH A1064 HOH A1145 CRYST1 63.724 63.724 151.256 90.00 90.00 120.00 P 32 2 1 6 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 0.015693 0.009060 0.000000 0.00000 SCALE2 0.000000 0.018120 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006611 0.00000