HEADER HYDROLASE 05-SEP-08 3EEU TITLE STRUCTURE OF THE RNA PYROPHOSPHOHYDROLASE BDRPPH IN COMPLEX WITH TITLE 2 HOLMIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE PYROPHOSPHOHYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.6.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BDELLOVIBRIO BACTERIOVORUS; SOURCE 3 ORGANISM_TAXID: 959; SOURCE 4 STRAIN: HD100; SOURCE 5 GENE: MUTT, BD0714; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET24A KEYWDS NUDIX, RNA PYROPHOSPHOHYDROLASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.A.MESSING,S.B.GABELLI,L.M.AMZEL REVDAT 5 21-FEB-24 3EEU 1 REMARK REVDAT 4 04-APR-18 3EEU 1 REMARK REVDAT 3 25-OCT-17 3EEU 1 REMARK REVDAT 2 13-JUL-11 3EEU 1 VERSN REVDAT 1 24-MAR-09 3EEU 0 JRNL AUTH S.A.MESSING,S.B.GABELLI,Q.LIU,H.CELESNIK,J.G.BELASCO, JRNL AUTH 2 S.A.PINEIRO,L.M.AMZEL JRNL TITL STRUCTURE AND BIOLOGICAL FUNCTION OF THE RNA JRNL TITL 2 PYROPHOSPHOHYDROLASE BDRPPH FROM BDELLOVIBRIO BACTERIOVORUS. JRNL REF STRUCTURE V. 17 472 2009 JRNL REFN ISSN 0969-2126 JRNL PMID 19278661 JRNL DOI 10.1016/J.STR.2008.12.022 REMARK 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 19758 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 999 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1342 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.3140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2127 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 115 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.40000 REMARK 3 B22 (A**2) : -0.40000 REMARK 3 B33 (A**2) : 0.60000 REMARK 3 B12 (A**2) : -0.20000 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): 0.212 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.181 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.135 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.530 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2192 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2952 ; 1.361 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 259 ; 6.009 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 105 ;33.965 ;24.190 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 396 ;16.128 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;14.236 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 301 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1664 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 856 ; 0.188 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1383 ; 0.302 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 127 ; 0.145 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.002 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 50 ; 0.162 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.257 ; 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): 1362 ; 0.621 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2068 ; 0.966 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 987 ; 1.654 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 884 ; 2.407 ; 4.500 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 : 5 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 18 A 20 REMARK 3 RESIDUE RANGE : A 40 A 49 REMARK 3 ORIGIN FOR THE GROUP (A): 41.4288 47.0329 67.6265 REMARK 3 T TENSOR REMARK 3 T11: -0.0225 T22: 0.0497 REMARK 3 T33: 0.1510 T12: -0.0402 REMARK 3 T13: 0.1586 T23: -0.0332 REMARK 3 L TENSOR REMARK 3 L11: 2.9324 L22: 26.6181 REMARK 3 L33: 2.5485 L12: -7.7896 REMARK 3 L13: -0.8514 L23: 1.6182 REMARK 3 S TENSOR REMARK 3 S11: -0.0879 S12: 0.0007 S13: 0.1465 REMARK 3 S21: -0.4990 S22: 0.4155 S23: -0.8183 REMARK 3 S31: -0.1284 S32: 0.4488 S33: -0.3276 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 21 A 39 REMARK 3 RESIDUE RANGE : A 50 A 109 REMARK 3 ORIGIN FOR THE GROUP (A): 29.0916 42.4143 75.2528 REMARK 3 T TENSOR REMARK 3 T11: -0.2241 T22: -0.1864 REMARK 3 T33: -0.1601 T12: -0.0057 REMARK 3 T13: 0.0006 T23: 0.0211 REMARK 3 L TENSOR REMARK 3 L11: 2.5160 L22: 3.3949 REMARK 3 L33: 3.1682 L12: -0.0892 REMARK 3 L13: -1.0509 L23: 1.0713 REMARK 3 S TENSOR REMARK 3 S11: 0.0873 S12: -0.1194 S13: 0.1685 REMARK 3 S21: -0.0235 S22: -0.0262 S23: -0.0237 REMARK 3 S31: -0.0735 S32: 0.0947 S33: -0.0612 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 110 A 150 REMARK 3 ORIGIN FOR THE GROUP (A): 26.3728 51.2716 67.5344 REMARK 3 T TENSOR REMARK 3 T11: 0.0646 T22: -0.1657 REMARK 3 T33: 0.0518 T12: 0.0183 REMARK 3 T13: -0.0291 T23: 0.0572 REMARK 3 L TENSOR REMARK 3 L11: 2.5596 L22: 6.6405 REMARK 3 L33: 6.5869 L12: -0.3639 REMARK 3 L13: 0.7069 L23: 0.2943 REMARK 3 S TENSOR REMARK 3 S11: 0.1908 S12: 0.2528 S13: 0.2028 REMARK 3 S21: -1.0813 S22: -0.0026 S23: 0.3795 REMARK 3 S31: -0.2511 S32: -0.0336 S33: -0.1882 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 18 B 21 REMARK 3 RESIDUE RANGE : B 40 B 42 REMARK 3 RESIDUE RANGE : B 48 B 49 REMARK 3 RESIDUE RANGE : B 91 B 95 REMARK 3 RESIDUE RANGE : B 109 B 118 REMARK 3 RESIDUE RANGE : B 149 B 151 REMARK 3 ORIGIN FOR THE GROUP (A): 27.6075 16.3559 70.2877 REMARK 3 T TENSOR REMARK 3 T11: 0.0898 T22: 0.0845 REMARK 3 T33: 0.1838 T12: 0.0938 REMARK 3 T13: -0.0558 T23: -0.0390 REMARK 3 L TENSOR REMARK 3 L11: 4.6166 L22: 3.3241 REMARK 3 L33: 1.5159 L12: 1.0049 REMARK 3 L13: 1.6861 L23: 0.2209 REMARK 3 S TENSOR REMARK 3 S11: -0.0729 S12: 0.1148 S13: -0.4130 REMARK 3 S21: 0.2487 S22: 0.0793 S23: -0.6344 REMARK 3 S31: 0.1822 S32: 0.3856 S33: -0.0064 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 22 B 39 REMARK 3 RESIDUE RANGE : B 50 B 90 REMARK 3 RESIDUE RANGE : B 96 B 108 REMARK 3 RESIDUE RANGE : B 119 B 148 REMARK 3 ORIGIN FOR THE GROUP (A): 21.0800 20.9493 69.1147 REMARK 3 T TENSOR REMARK 3 T11: -0.1176 T22: -0.1577 REMARK 3 T33: -0.1698 T12: 0.0199 REMARK 3 T13: -0.0135 T23: -0.0222 REMARK 3 L TENSOR REMARK 3 L11: 3.2597 L22: 3.4590 REMARK 3 L33: 1.6619 L12: 0.5824 REMARK 3 L13: -0.0514 L23: -0.4010 REMARK 3 S TENSOR REMARK 3 S11: 0.0651 S12: 0.0352 S13: -0.2553 REMARK 3 S21: -0.0078 S22: -0.0733 S23: -0.0908 REMARK 3 S31: 0.1190 S32: 0.0393 S33: 0.0082 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: NULL REMARK 4 REMARK 4 3EEU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000049234. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAY-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : OTHER REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19802 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : 0.03900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 43.4380 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 0.77500 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: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, NA ACETATE, HANGING DROP, REMARK 280 TEMPERATURE 298K, PH 4 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 66.61000 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 33.30500 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 33.30500 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 66.61000 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 300 REMARK: GEL FILTRATION WAS USED TO DETERMINE THE BIOLOGICAL REMARK 300 ASSEMBLY. 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 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 MET A 1 REMARK 465 THR A 2 REMARK 465 ASP A 3 REMARK 465 ASP A 4 REMARK 465 SER A 5 REMARK 465 ALA A 6 REMARK 465 VAL A 7 REMARK 465 GLU A 8 REMARK 465 SER A 9 REMARK 465 LYS A 10 REMARK 465 GLN A 11 REMARK 465 LYS A 12 REMARK 465 LYS A 13 REMARK 465 SER A 14 REMARK 465 LYS A 15 REMARK 465 ILE A 16 REMARK 465 ARG A 17 REMARK 465 TRP A 151 REMARK 465 ARG A 152 REMARK 465 LYS A 153 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 ASP B 3 REMARK 465 ASP B 4 REMARK 465 SER B 5 REMARK 465 ALA B 6 REMARK 465 VAL B 7 REMARK 465 GLU B 8 REMARK 465 SER B 9 REMARK 465 LYS B 10 REMARK 465 GLN B 11 REMARK 465 LYS B 12 REMARK 465 LYS B 13 REMARK 465 SER B 14 REMARK 465 LYS B 15 REMARK 465 ILE B 16 REMARK 465 ARG B 17 REMARK 465 ASN B 43 REMARK 465 ASN B 44 REMARK 465 SER B 45 REMARK 465 LEU B 46 REMARK 465 ALA B 47 REMARK 465 ARG B 152 REMARK 465 LYS B 153 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 OE1 GLU A 70 HO HO A 154 2.17 REMARK 500 OE1 GLU B 70 HO HO B 155 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 29 CA - CB - CG ANGL. DEV. = 15.9 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 ASN A 131 90.46 -69.30 REMARK 500 TYR B 92 56.26 -106.79 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 HO A 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HO B 155 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3EES RELATED DB: PDB DBREF 3EEU A 1 153 UNP Q6MPX4 Q6MPX4_BDEBA 1 153 DBREF 3EEU B 1 153 UNP Q6MPX4 Q6MPX4_BDEBA 1 153 SEQRES 1 A 153 MET THR ASP ASP SER ALA VAL GLU SER LYS GLN LYS LYS SEQRES 2 A 153 SER LYS ILE ARG LYS GLY HIS TRP ILE PRO VAL VAL ALA SEQRES 3 A 153 GLY PHE LEU ARG LYS ASP GLY LYS ILE LEU VAL GLY GLN SEQRES 4 A 153 ARG PRO GLU ASN ASN SER LEU ALA GLY GLN TRP GLU PHE SEQRES 5 A 153 PRO GLY GLY LYS ILE GLU ASN GLY GLU THR PRO GLU GLU SEQRES 6 A 153 ALA LEU ALA ARG GLU LEU ASN GLU GLU LEU GLY ILE GLU SEQRES 7 A 153 ALA GLU VAL GLY GLU LEU LYS LEU ALA CYS THR HIS SER SEQRES 8 A 153 TYR GLY ASP VAL GLY ILE LEU ILE LEU PHE TYR GLU ILE SEQRES 9 A 153 LEU TYR TRP LYS GLY GLU PRO ARG ALA LYS HIS HIS MET SEQRES 10 A 153 MET LEU GLU TRP ILE HIS PRO GLU GLU LEU LYS HIS ARG SEQRES 11 A 153 ASN ILE PRO GLU ALA ASN ARG LYS ILE LEU HIS LYS ILE SEQRES 12 A 153 TYR LYS ALA LEU GLY LEU GLU TRP ARG LYS SEQRES 1 B 153 MET THR ASP ASP SER ALA VAL GLU SER LYS GLN LYS LYS SEQRES 2 B 153 SER LYS ILE ARG LYS GLY HIS TRP ILE PRO VAL VAL ALA SEQRES 3 B 153 GLY PHE LEU ARG LYS ASP GLY LYS ILE LEU VAL GLY GLN SEQRES 4 B 153 ARG PRO GLU ASN ASN SER LEU ALA GLY GLN TRP GLU PHE SEQRES 5 B 153 PRO GLY GLY LYS ILE GLU ASN GLY GLU THR PRO GLU GLU SEQRES 6 B 153 ALA LEU ALA ARG GLU LEU ASN GLU GLU LEU GLY ILE GLU SEQRES 7 B 153 ALA GLU VAL GLY GLU LEU LYS LEU ALA CYS THR HIS SER SEQRES 8 B 153 TYR GLY ASP VAL GLY ILE LEU ILE LEU PHE TYR GLU ILE SEQRES 9 B 153 LEU TYR TRP LYS GLY GLU PRO ARG ALA LYS HIS HIS MET SEQRES 10 B 153 MET LEU GLU TRP ILE HIS PRO GLU GLU LEU LYS HIS ARG SEQRES 11 B 153 ASN ILE PRO GLU ALA ASN ARG LYS ILE LEU HIS LYS ILE SEQRES 12 B 153 TYR LYS ALA LEU GLY LEU GLU TRP ARG LYS HET HO A 154 1 HET ACT A1307 4 HET ACT A1308 4 HET CL B 154 1 HET HO B 155 1 HETNAM HO HOLMIUM ATOM HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION FORMUL 3 HO 2(HO) FORMUL 4 ACT 2(C2 H3 O2 1-) FORMUL 6 CL CL 1- FORMUL 8 HOH *115(H2 O) HELIX 1 1 THR A 62 GLY A 76 1 15 HELIX 2 2 HIS A 123 ARG A 130 5 8 HELIX 3 3 PRO A 133 ILE A 139 1 7 HELIX 4 4 ILE A 139 GLY A 148 1 10 HELIX 5 5 THR B 62 GLY B 76 1 15 HELIX 6 6 HIS B 123 ARG B 130 5 8 HELIX 7 7 PRO B 133 LYS B 138 1 6 HELIX 8 8 ILE B 139 ALA B 146 1 8 SHEET 1 A 5 TRP A 50 GLU A 51 0 SHEET 2 A 5 LYS A 34 GLN A 39 -1 N GLY A 38 O GLU A 51 SHEET 3 A 5 HIS A 20 LYS A 31 -1 N LYS A 31 O LYS A 34 SHEET 4 A 5 VAL A 95 ILE A 104 1 O GLY A 96 N HIS A 20 SHEET 5 A 5 LEU A 84 TYR A 92 -1 N TYR A 92 O VAL A 95 SHEET 1 B 4 GLY A 54 LYS A 56 0 SHEET 2 B 4 HIS A 20 LYS A 31 -1 N VAL A 25 O GLY A 55 SHEET 3 B 4 LYS A 34 GLN A 39 -1 O LYS A 34 N LYS A 31 SHEET 4 B 4 MET A 118 ILE A 122 -1 O ILE A 122 N ILE A 35 SHEET 1 C 2 GLU A 78 GLU A 80 0 SHEET 2 C 2 TYR A 106 LYS A 108 -1 O TYR A 106 N GLU A 80 SHEET 1 D 5 TRP B 50 GLU B 51 0 SHEET 2 D 5 LYS B 34 GLN B 39 -1 N GLY B 38 O GLU B 51 SHEET 3 D 5 TRP B 21 LYS B 31 -1 N LYS B 31 O LYS B 34 SHEET 4 D 5 VAL B 95 ILE B 104 1 O LEU B 98 N VAL B 24 SHEET 5 D 5 LEU B 84 TYR B 92 -1 N HIS B 90 O ILE B 97 SHEET 1 E 4 GLY B 54 LYS B 56 0 SHEET 2 E 4 TRP B 21 LYS B 31 -1 N VAL B 25 O GLY B 55 SHEET 3 E 4 LYS B 34 GLN B 39 -1 O LYS B 34 N LYS B 31 SHEET 4 E 4 MET B 118 ILE B 122 -1 O MET B 118 N GLN B 39 SHEET 1 F 2 GLU B 78 GLU B 80 0 SHEET 2 F 2 TYR B 106 LYS B 108 -1 O LYS B 108 N GLU B 78 SITE 1 AC1 3 GLU A 70 GLU A 73 HOH A1309 SITE 1 AC2 6 LYS A 31 LYS A 34 TRP A 121 HIS A 129 SITE 2 AC2 6 HOH A 170 HOH A1333 SITE 1 AC3 6 ARG A 30 ASP A 32 HOH A 213 HOH A1318 SITE 2 AC3 6 HOH A1329 LYS B 128 SITE 1 AC4 3 GLU B 51 PHE B 52 ASN B 136 SITE 1 AC5 5 GLU B 70 GLU B 73 HOH B 156 HOH B 157 SITE 2 AC5 5 HOH B 158 CRYST1 70.212 70.212 99.915 90.00 90.00 120.00 P 32 2 1 12 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 0.014243 0.008223 0.000000 0.00000 SCALE2 0.000000 0.016446 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010009 0.00000