PDB Short entry for 2QVN HEADER HYDROLASE 08-AUG-07 2QVN TITLE CRYSTAL STRUCTURE OF ADENOSINE DEAMINASE FROM PLASMODIUM VIVAX IN TITLE 2 COMPLEX WITH GUANOSINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENOSINE DEAMINASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.5.4.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM VIVAX SAI-1; SOURCE 3 ORGANISM_TAXID: 126793; SOURCE 4 STRAIN: SALVADOR I; SOURCE 5 GENE: PV111245, PVX_111245; 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: BG1861 KEYWDS METALLO-DEPENDENT HYDROLASE, TIM BARREL, STRUCTURAL GENOMICS, MEDICAL KEYWDS 2 STRUCTURAL GENOMICS OF PATHOGENIC PROTOZOA CONSORTIUM, MSGPP, KEYWDS 3 PLASMODIUM, MALARIA, PSI, PROTEIN STRUCTURE INITIATIVE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.T.LARSON,E.A.MERRITT,STRUCTURAL GENOMICS OF PATHOGENIC PROTOZOA AUTHOR 2 CONSORTIUM (SGPP) REVDAT 7 15-NOV-23 2QVN 1 REMARK REVDAT 6 30-AUG-23 2QVN 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 2QVN 1 REMARK REVDAT 4 13-JUL-11 2QVN 1 VERSN REVDAT 3 24-FEB-09 2QVN 1 VERSN REVDAT 2 19-AUG-08 2QVN 1 JRNL REVDAT 1 04-SEP-07 2QVN 0 JRNL AUTH E.T.LARSON,W.DENG,B.E.KRUMM,A.NAPULI,N.MUELLER, JRNL AUTH 2 W.C.VAN VOORHIS,F.S.BUCKNER,E.FAN,A.LAURICELLA,G.DETITTA, JRNL AUTH 3 J.LUFT,F.ZUCKER,W.G.HOL,C.L.VERLINDE,E.A.MERRITT JRNL TITL STRUCTURES OF SUBSTRATE- AND INHIBITOR-BOUND ADENOSINE JRNL TITL 2 DEAMINASE FROM A HUMAN MALARIA PARASITE SHOW A DRAMATIC JRNL TITL 3 CONFORMATIONAL CHANGE AND SHED LIGHT ON DRUG SELECTIVITY. JRNL REF J.MOL.BIOL. V. 381 975 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18602399 JRNL DOI 10.1016/J.JMB.2008.06.048 REMARK 2 REMARK 2 RESOLUTION. 2.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 27942 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1404 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1705 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.2540 REMARK 3 BIN FREE R VALUE SET COUNT : 101 REMARK 3 BIN FREE R VALUE : 0.3520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2923 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 129 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 30.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.80000 REMARK 3 B22 (A**2) : -2.19000 REMARK 3 B33 (A**2) : 0.39000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.182 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.178 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.135 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.668 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3074 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2079 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4156 ; 1.043 ; 1.973 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5092 ; 0.825 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 371 ; 5.344 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;32.164 ;25.436 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 570 ;12.769 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;20.210 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 456 ; 0.059 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3388 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 596 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 700 ; 0.190 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2181 ; 0.170 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1557 ; 0.173 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1421 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 126 ; 0.126 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 7 ; 0.085 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 17 ; 0.270 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.094 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2347 ; 2.067 ; 2.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 740 ; 0.368 ; 2.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2969 ; 2.686 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1420 ; 4.349 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1187 ; 5.854 ; 8.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 4 A 15 REMARK 3 ORIGIN FOR THE GROUP (A): 10.6570 5.5500 18.1630 REMARK 3 T TENSOR REMARK 3 T11: 0.0970 T22: 0.0811 REMARK 3 T33: 0.0902 T12: -0.0236 REMARK 3 T13: -0.0107 T23: -0.0447 REMARK 3 L TENSOR REMARK 3 L11: 9.9294 L22: 15.3826 REMARK 3 L33: 1.1763 L12: -12.3489 REMARK 3 L13: -0.0499 L23: -0.1076 REMARK 3 S TENSOR REMARK 3 S11: 0.6902 S12: 0.5294 S13: -0.3019 REMARK 3 S21: -1.1289 S22: -0.6155 S23: 0.6260 REMARK 3 S31: 0.0599 S32: -0.2250 S33: -0.0747 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 16 A 38 REMARK 3 ORIGIN FOR THE GROUP (A): 5.2680 8.6880 29.5260 REMARK 3 T TENSOR REMARK 3 T11: 0.0603 T22: 0.0701 REMARK 3 T33: 0.1349 T12: -0.0092 REMARK 3 T13: 0.0196 T23: -0.0378 REMARK 3 L TENSOR REMARK 3 L11: 4.7051 L22: 2.7543 REMARK 3 L33: 3.9261 L12: 1.0044 REMARK 3 L13: -3.3133 L23: 0.0753 REMARK 3 S TENSOR REMARK 3 S11: -0.2299 S12: 0.2553 S13: -0.3814 REMARK 3 S21: -0.0614 S22: 0.0940 S23: 0.1684 REMARK 3 S31: 0.1186 S32: -0.2226 S33: 0.1359 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 39 A 79 REMARK 3 ORIGIN FOR THE GROUP (A): 30.7680 9.7450 44.1670 REMARK 3 T TENSOR REMARK 3 T11: 0.3151 T22: 0.0518 REMARK 3 T33: -0.0012 T12: -0.0714 REMARK 3 T13: -0.0462 T23: 0.0209 REMARK 3 L TENSOR REMARK 3 L11: 1.9559 L22: 2.5853 REMARK 3 L33: 1.4778 L12: -0.2557 REMARK 3 L13: 0.9522 L23: 0.3784 REMARK 3 S TENSOR REMARK 3 S11: 0.1272 S12: -0.2646 S13: -0.1006 REMARK 3 S21: 0.7880 S22: -0.1063 S23: -0.3009 REMARK 3 S31: 0.4608 S32: 0.0845 S33: -0.0209 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 80 A 99 REMARK 3 ORIGIN FOR THE GROUP (A): 30.8340 20.1020 46.3630 REMARK 3 T TENSOR REMARK 3 T11: 0.2286 T22: 0.1186 REMARK 3 T33: -0.0142 T12: -0.1339 REMARK 3 T13: -0.0163 T23: -0.0236 REMARK 3 L TENSOR REMARK 3 L11: 7.6140 L22: 1.4163 REMARK 3 L33: 0.4771 L12: -2.3391 REMARK 3 L13: -1.3021 L23: 0.2880 REMARK 3 S TENSOR REMARK 3 S11: 0.0689 S12: -0.7421 S13: 0.0570 REMARK 3 S21: 0.6654 S22: 0.0246 S23: -0.1856 REMARK 3 S31: 0.0379 S32: 0.2471 S33: -0.0935 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 100 A 110 REMARK 3 ORIGIN FOR THE GROUP (A): 39.6600 7.5520 33.7280 REMARK 3 T TENSOR REMARK 3 T11: 0.0606 T22: 0.0249 REMARK 3 T33: 0.0872 T12: 0.0271 REMARK 3 T13: -0.0650 T23: 0.0160 REMARK 3 L TENSOR REMARK 3 L11: 30.8852 L22: 6.9125 REMARK 3 L33: 13.4262 L12: 9.2192 REMARK 3 L13: 10.8639 L23: 1.5476 REMARK 3 S TENSOR REMARK 3 S11: 0.3537 S12: -0.3222 S13: -0.9891 REMARK 3 S21: 0.2653 S22: -0.0412 S23: -0.8026 REMARK 3 S31: 0.4405 S32: 0.3599 S33: -0.3125 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 111 A 172 REMARK 3 ORIGIN FOR THE GROUP (A): 33.2600 12.8100 27.6230 REMARK 3 T TENSOR REMARK 3 T11: 0.0522 T22: 0.0956 REMARK 3 T33: 0.0932 T12: -0.0260 REMARK 3 T13: 0.0295 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 1.1625 L22: 1.6090 REMARK 3 L33: 1.1435 L12: 0.2343 REMARK 3 L13: 0.5136 L23: 0.3611 REMARK 3 S TENSOR REMARK 3 S11: 0.0081 S12: 0.0741 S13: -0.0474 REMARK 3 S21: 0.0521 S22: 0.0524 S23: -0.2839 REMARK 3 S31: -0.0040 S32: 0.2017 S33: -0.0606 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 173 A 210 REMARK 3 ORIGIN FOR THE GROUP (A): 37.5600 29.6400 30.4680 REMARK 3 T TENSOR REMARK 3 T11: 0.0615 T22: 0.1013 REMARK 3 T33: 0.0598 T12: -0.1351 REMARK 3 T13: -0.0112 T23: 0.0178 REMARK 3 L TENSOR REMARK 3 L11: 0.8937 L22: 4.0756 REMARK 3 L33: 3.1113 L12: 0.3020 REMARK 3 L13: -0.7156 L23: 2.2199 REMARK 3 S TENSOR REMARK 3 S11: 0.0576 S12: -0.1268 S13: 0.0520 REMARK 3 S21: -0.0249 S22: -0.0530 S23: -0.2073 REMARK 3 S31: -0.2415 S32: 0.2822 S33: -0.0046 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 211 A 270 REMARK 3 ORIGIN FOR THE GROUP (A): 24.7780 36.6340 29.2820 REMARK 3 T TENSOR REMARK 3 T11: 0.1436 T22: 0.0125 REMARK 3 T33: 0.1064 T12: -0.0770 REMARK 3 T13: 0.0010 T23: 0.0178 REMARK 3 L TENSOR REMARK 3 L11: 1.5190 L22: 1.7296 REMARK 3 L33: 1.0888 L12: 1.1395 REMARK 3 L13: -0.0985 L23: 0.0823 REMARK 3 S TENSOR REMARK 3 S11: 0.0006 S12: 0.0455 S13: 0.2827 REMARK 3 S21: -0.1052 S22: -0.0307 S23: 0.1288 REMARK 3 S31: -0.3460 S32: 0.0364 S33: 0.0301 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 271 A 324 REMARK 3 ORIGIN FOR THE GROUP (A): 15.2580 23.5770 35.2540 REMARK 3 T TENSOR REMARK 3 T11: 0.0836 T22: 0.0377 REMARK 3 T33: 0.1001 T12: -0.0421 REMARK 3 T13: 0.0604 T23: -0.0316 REMARK 3 L TENSOR REMARK 3 L11: 1.1753 L22: 2.5512 REMARK 3 L33: 1.1365 L12: 0.4726 REMARK 3 L13: 0.7535 L23: -0.1454 REMARK 3 S TENSOR REMARK 3 S11: 0.1152 S12: -0.0605 S13: 0.1562 REMARK 3 S21: 0.2650 S22: -0.1569 S23: 0.3334 REMARK 3 S31: -0.0932 S32: -0.0257 S33: 0.0417 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 325 A 363 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2700 19.2040 21.5840 REMARK 3 T TENSOR REMARK 3 T11: 0.0593 T22: 0.0935 REMARK 3 T33: 0.0982 T12: -0.0100 REMARK 3 T13: -0.0283 T23: -0.0110 REMARK 3 L TENSOR REMARK 3 L11: 2.7364 L22: 3.3380 REMARK 3 L33: 1.5509 L12: 0.5173 REMARK 3 L13: -1.2922 L23: -0.2479 REMARK 3 S TENSOR REMARK 3 S11: 0.0641 S12: 0.1869 S13: 0.0409 REMARK 3 S21: -0.3231 S22: -0.1119 S23: 0.3271 REMARK 3 S31: -0.1577 S32: -0.0189 S33: 0.0478 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. TLS GROUPS WERE DEFINED USING THE TLSMD SERVER: REMARK 3 J.PAINTER & E.A.MERRITT (2006) ACTA CRYST. D62, 439-450, REMARK 3 J.PAINTER & E.A.MERRITT (2006) J.APPL.CRYST. 39, 109-111. ATOM REMARK 3 RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 4 REMARK 4 2QVN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-AUG-07. REMARK 100 THE DEPOSITION ID IS D_1000044112. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837 REMARK 200 MONOCHROMATOR : SIDE SCATTERING BENT CUBE-ROOT I REMARK 200 -BEAM SINGLE CRYSTAL; ASYMMETRIC REMARK 200 CUT 4.965 DEGS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27968 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.190 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.14600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.67800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.2.0019 REMARK 200 STARTING MODEL: PDB ENTRY 2PGF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27.3% PEG 20000, 0.1 M CHES PH 9.5, REMARK 280 0.1 M SODIUM PHOSPHATE MONOBASIC, 5 MM GUANOSINE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 25.22650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 25.22650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 72.27400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 73.46100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 72.27400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 73.46100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 25.22650 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 72.27400 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 73.46100 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 25.22650 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 72.27400 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 73.46100 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 617 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 644 LIES ON A SPECIAL POSITION. 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 MSE A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MSE A 1 REMARK 465 ASN A 2 REMARK 465 ILE A 3 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 59 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES 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 ALA A 96 -8.00 -58.29 REMARK 500 ASN A 179 104.27 -168.13 REMARK 500 HIS A 253 -88.79 68.34 REMARK 500 ASP A 310 -77.84 75.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GMP A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NHE A 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: PVIV005676AAA RELATED DB: TARGETDB REMARK 900 RELATED ID: 2PGF RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH ADENOSINE REMARK 900 RELATED ID: 2PGR RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH 2'-DEOXYCOFORMYCIN (PENTOSTATIN) REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE OF THIS PROTEIN IA ALSO AVAILABLE REMARK 999 IN PLASMODB UNDER ACCESSION CODE PV111245. DBREF 2QVN A 1 363 UNP A5KE01 A5KE01_PLAVI 1 363 SEQADV 2QVN MSE A -7 UNP A5KE01 EXPRESSION TAG SEQADV 2QVN ALA A -6 UNP A5KE01 EXPRESSION TAG SEQADV 2QVN HIS A -5 UNP A5KE01 EXPRESSION TAG SEQADV 2QVN HIS A -4 UNP A5KE01 EXPRESSION TAG SEQADV 2QVN HIS A -3 UNP A5KE01 EXPRESSION TAG SEQADV 2QVN HIS A -2 UNP A5KE01 EXPRESSION TAG SEQADV 2QVN HIS A -1 UNP A5KE01 EXPRESSION TAG SEQADV 2QVN HIS A 0 UNP A5KE01 EXPRESSION TAG SEQRES 1 A 371 MSE ALA HIS HIS HIS HIS HIS HIS MSE ASN ILE LEU GLN SEQRES 2 A 371 GLU PRO ILE ASP PHE LEU LYS LYS GLU GLU LEU LYS ASN SEQRES 3 A 371 ILE ASP LEU SER GLN MSE SER LYS LYS GLU ARG TYR LYS SEQRES 4 A 371 ILE TRP LYS ARG ILE PRO LYS CYS GLU LEU HIS CYS HIS SEQRES 5 A 371 LEU ASP LEU CYS PHE SER ALA ASP PHE PHE VAL SER CYS SEQRES 6 A 371 ILE ARG LYS TYR ASN LEU GLN PRO ASN LEU SER ASP GLU SEQRES 7 A 371 GLU VAL LEU ASP TYR TYR LEU PHE ALA LYS GLY GLY LYS SEQRES 8 A 371 SER LEU GLY GLU PHE VAL GLU LYS ALA ILE LYS VAL ALA SEQRES 9 A 371 ASP ILE PHE HIS ASP TYR GLU VAL ILE GLU ASP LEU ALA SEQRES 10 A 371 LYS HIS ALA VAL PHE ASN LYS TYR LYS GLU GLY VAL VAL SEQRES 11 A 371 LEU MSE GLU PHE ARG TYR SER PRO THR PHE VAL ALA PHE SEQRES 12 A 371 LYS TYR ASN LEU ASP ILE GLU LEU ILE HIS GLN ALA ILE SEQRES 13 A 371 VAL LYS GLY ILE LYS GLU VAL VAL GLU LEU LEU ASP HIS SEQRES 14 A 371 LYS ILE HIS VAL ALA LEU MSE CYS ILE GLY ASP THR GLY SEQRES 15 A 371 HIS GLU ALA ALA ASN ILE LYS ALA SER ALA ASP PHE CYS SEQRES 16 A 371 LEU LYS HIS LYS ALA ASP PHE VAL GLY PHE ASP HIS GLY SEQRES 17 A 371 GLY HIS GLU VAL ASP LEU LYS GLU TYR LYS GLU ILE PHE SEQRES 18 A 371 ASP TYR VAL ARG GLU SER GLY VAL PRO LEU SER VAL HIS SEQRES 19 A 371 ALA GLY GLU ASP VAL THR LEU PRO ASN LEU ASN THR LEU SEQRES 20 A 371 TYR SER ALA ILE GLN VAL LEU LYS VAL GLU ARG ILE GLY SEQRES 21 A 371 HIS GLY ILE ARG VAL ALA GLU SER GLN GLU LEU ILE ASP SEQRES 22 A 371 MSE VAL LYS GLU LYS ASN ILE LEU LEU GLU VAL CYS PRO SEQRES 23 A 371 ILE SER ASN VAL LEU LEU LYS ASN ALA LYS SER MSE ASP SEQRES 24 A 371 THR HIS PRO ILE ARG GLN LEU TYR ASP ALA GLY VAL LYS SEQRES 25 A 371 VAL SER VAL ASN SER ASP ASP PRO GLY MSE PHE LEU THR SEQRES 26 A 371 ASN ILE ASN ASP ASP TYR GLU GLU LEU TYR THR HIS LEU SEQRES 27 A 371 ASN PHE THR LEU GLU ASP PHE MSE LYS MSE ASN GLU TRP SEQRES 28 A 371 ALA LEU GLU LYS SER PHE MSE ASP SER ASN ILE LYS ASP SEQRES 29 A 371 LYS ILE LYS ASN LEU TYR PHE MODRES 2QVN MSE A 24 MET SELENOMETHIONINE MODRES 2QVN MSE A 124 MET SELENOMETHIONINE MODRES 2QVN MSE A 168 MET SELENOMETHIONINE MODRES 2QVN MSE A 266 MET SELENOMETHIONINE MODRES 2QVN MSE A 290 MET SELENOMETHIONINE MODRES 2QVN MSE A 314 MET SELENOMETHIONINE MODRES 2QVN MSE A 338 MET SELENOMETHIONINE MODRES 2QVN MSE A 340 MET SELENOMETHIONINE MODRES 2QVN MSE A 350 MET SELENOMETHIONINE HET MSE A 24 8 HET MSE A 124 8 HET MSE A 168 8 HET MSE A 266 8 HET MSE A 290 8 HET MSE A 314 8 HET MSE A 338 8 HET MSE A 340 8 HET MSE A 350 16 HET GMP A 500 20 HET NHE A 600 13 HETNAM MSE SELENOMETHIONINE HETNAM GMP GUANOSINE HETNAM NHE 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID HETSYN NHE N-CYCLOHEXYLTAURINE; CHES FORMUL 1 MSE 9(C5 H11 N O2 SE) FORMUL 2 GMP C10 H13 N5 O5 FORMUL 3 NHE C8 H17 N O3 S FORMUL 4 HOH *129(H2 O) HELIX 1 1 GLU A 15 ILE A 19 5 5 HELIX 2 2 ASP A 20 MSE A 24 5 5 HELIX 3 3 SER A 25 ILE A 36 1 12 HELIX 4 4 ASP A 46 CYS A 48 5 3 HELIX 5 5 SER A 50 TYR A 61 1 12 HELIX 6 6 SER A 68 LEU A 77 1 10 HELIX 7 7 SER A 84 ALA A 96 1 13 HELIX 8 8 ASP A 97 PHE A 99 5 3 HELIX 9 9 ASP A 101 GLY A 120 1 20 HELIX 10 10 SER A 129 PHE A 135 1 7 HELIX 11 11 ASP A 140 LEU A 159 1 20 HELIX 12 12 ASN A 179 HIS A 190 1 12 HELIX 13 13 ASP A 205 GLU A 208 5 4 HELIX 14 14 TYR A 209 SER A 219 1 11 HELIX 15 15 LEU A 236 VAL A 245 1 10 HELIX 16 16 ILE A 255 GLU A 259 5 5 HELIX 17 17 SER A 260 LYS A 270 1 11 HELIX 18 18 CYS A 277 LEU A 284 1 8 HELIX 19 19 PRO A 294 ALA A 301 1 8 HELIX 20 20 ASP A 311 LEU A 316 1 6 HELIX 21 21 ASN A 318 ASN A 331 1 14 HELIX 22 22 THR A 333 SER A 348 1 16 HELIX 23 23 ASP A 351 PHE A 363 1 13 SHEET 1 A 4 LYS A 38 HIS A 44 0 SHEET 2 A 4 VAL A 121 TYR A 128 1 O VAL A 122 N LYS A 38 SHEET 3 A 4 HIS A 164 THR A 173 1 O ALA A 166 N MSE A 124 SHEET 4 A 4 PHE A 194 GLY A 201 1 O VAL A 195 N LEU A 167 SHEET 1 B 4 SER A 224 ALA A 227 0 SHEET 2 B 4 ARG A 250 HIS A 253 1 O GLY A 252 N VAL A 225 SHEET 3 B 4 LEU A 273 VAL A 276 1 O GLU A 275 N ILE A 251 SHEET 4 B 4 LYS A 304 VAL A 307 1 O LYS A 304 N LEU A 274 LINK C GLN A 23 N MSE A 24 1555 1555 1.33 LINK C MSE A 24 N SER A 25 1555 1555 1.33 LINK C LEU A 123 N MSE A 124 1555 1555 1.33 LINK C MSE A 124 N GLU A 125 1555 1555 1.33 LINK C LEU A 167 N MSE A 168 1555 1555 1.33 LINK C MSE A 168 N CYS A 169 1555 1555 1.33 LINK C ASP A 265 N MSE A 266 1555 1555 1.33 LINK C MSE A 266 N VAL A 267 1555 1555 1.34 LINK C SER A 289 N MSE A 290 1555 1555 1.33 LINK C MSE A 290 N ASP A 291 1555 1555 1.33 LINK C GLY A 313 N MSE A 314 1555 1555 1.33 LINK C MSE A 314 N PHE A 315 1555 1555 1.33 LINK C PHE A 337 N MSE A 338 1555 1555 1.33 LINK C MSE A 338 N LYS A 339 1555 1555 1.33 LINK C LYS A 339 N MSE A 340 1555 1555 1.33 LINK C MSE A 340 N ASN A 341 1555 1555 1.33 LINK C PHE A 349 N BMSE A 350 1555 1555 1.33 LINK C PHE A 349 N AMSE A 350 1555 1555 1.33 LINK C BMSE A 350 N ASP A 351 1555 1555 1.33 LINK C AMSE A 350 N ASP A 351 1555 1555 1.33 SITE 1 AC1 15 HIS A 44 ASP A 46 LEU A 85 PHE A 88 SITE 2 AC1 15 ILE A 170 ASP A 172 GLY A 201 HIS A 226 SITE 3 AC1 15 GLU A 229 HIS A 253 SER A 280 ASP A 310 SITE 4 AC1 15 ASP A 311 HOH A 601 HOH A 680 SITE 1 AC2 2 HIS A 161 HIS A 164 CRYST1 144.548 146.922 50.453 90.00 90.00 90.00 C 2 2 21 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 0.006918 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006806 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019820 0.00000