HEADER HYDROLASE 12-MAY-13 4BMX TITLE NATIVE STRUCTURE OF FUTALOSINE HYDROLASE OF HELICOBACTER PYLORI STRAIN TITLE 2 26695 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MTA/SAH NUCLEOSIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 5-METHYLTHIOADENOSINE NUCLEOSIDASE, S-ADENOSYLHOMOCYSTEINE COMPND 5 NUCLEOSIDASE, FUTALOSINE HYDROLASE; COMPND 6 EC: 3.2.2.9; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 85962; SOURCE 4 STRAIN: 26695; SOURCE 5 ATCC: 700392; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR R.Q.KIM,W.A.OFFEN,K.A.STUBBS,G.J.DAVIES REVDAT 4 20-DEC-23 4BMX 1 REMARK SHEET REVDAT 3 22-JAN-14 4BMX 1 JRNL REVDAT 2 15-JAN-14 4BMX 1 JRNL REMARK REVDAT 1 11-SEP-13 4BMX 0 JRNL AUTH R.Q.KIM,W.A.OFFEN,G.J.DAVIES,K.A.STUBBS JRNL TITL STRUCTURAL ENZYMOLOGY OF HELICOBACTER PYLORI JRNL TITL 2 METHYLTHIOADENOSINE NUCLEOSIDASE IN THE FUTALOSINE PATHWAY JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 177 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 24419390 JRNL DOI 10.1107/S1399004713026655 REMARK 2 REMARK 2 RESOLUTION. 1.76 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.25 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 57357 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 2855 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) : 1.76 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.81 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3955 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE SET COUNT : 219 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3471 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 363 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16400 REMARK 3 B22 (A**2) : -0.00500 REMARK 3 B33 (A**2) : -0.15900 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): 0.096 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.102 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.791 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3607 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4883 ; 1.986 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 473 ; 6.005 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;33.860 ;25.315 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 638 ;12.925 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;17.573 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 580 ; 0.162 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2636 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2091 ; 0.238 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2528 ; 0.316 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 163 ; 0.136 ; 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1849 ; 1.471 ; 1.366 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2308 ; 2.015 ; 2.032 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1758 ; 2.890 ; 1.707 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2566 ; 4.294 ; 2.431 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 : 2 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 0 A 231 REMARK 3 ORIGIN FOR THE GROUP (A): 5.7900 12.9590 27.1060 REMARK 3 T TENSOR REMARK 3 T11: 0.0677 T22: 0.0234 REMARK 3 T33: 0.0134 T12: 0.0097 REMARK 3 T13: 0.0063 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.2011 L22: 0.6263 REMARK 3 L33: 0.3786 L12: -0.2369 REMARK 3 L13: -0.1167 L23: 0.0609 REMARK 3 S TENSOR REMARK 3 S11: -0.0233 S12: -0.0185 S13: -0.0015 REMARK 3 S21: 0.1092 S22: -0.0300 S23: 0.0141 REMARK 3 S31: -0.0032 S32: -0.0011 S33: 0.0534 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 : B -1 B 231 REMARK 3 ORIGIN FOR THE GROUP (A): 2.0560 11.8980 -1.6110 REMARK 3 T TENSOR REMARK 3 T11: 0.0809 T22: 0.0177 REMARK 3 T33: 0.0348 T12: 0.0159 REMARK 3 T13: -0.0216 T23: -0.0024 REMARK 3 L TENSOR REMARK 3 L11: 0.2724 L22: 0.7693 REMARK 3 L33: 0.0774 L12: -0.1376 REMARK 3 L13: -0.0309 L23: -0.1869 REMARK 3 S TENSOR REMARK 3 S11: 0.0283 S12: 0.0396 S13: 0.0129 REMARK 3 S21: -0.1524 S22: -0.0192 S23: 0.0861 REMARK 3 S31: 0.0493 S32: -0.0028 S33: -0.0091 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4BMX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1290056752. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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 : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57414 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760 REMARK 200 RESOLUTION RANGE LOW (A) : 54.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 6.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.93000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3NM4 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN WAS CRYSTALLIZED IN 4.0 M NA/K REMARK 280 PHOSPHATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 29.65700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.19050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.28650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.19050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.65700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.28650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 ALA A 201 REMARK 465 ASP A 202 REMARK 465 GLU A 203 REMARK 465 GLU A 204 REMARK 465 ALA A 205 REMARK 465 ASN A 206 REMARK 465 MET A 207 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 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 LYS A 85 CD CE NZ REMARK 470 GLU A 126 CD OE1 OE2 REMARK 470 GLU A 138 CG CD OE1 OE2 REMARK 470 LYS A 169 CE NZ REMARK 470 ASN A 200 CG OD1 ND2 REMARK 470 GLU A 214 CD OE1 OE2 REMARK 470 LYS B 85 CD CE NZ REMARK 470 LYS B 88 CE NZ REMARK 470 LYS B 133 CE NZ REMARK 470 GLU B 134 CD OE1 OE2 REMARK 470 ASN B 137 OD1 ND2 REMARK 470 GLU B 138 CD OE1 OE2 REMARK 470 HIS B 140 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 158 CE NZ REMARK 470 LYS B 169 CE NZ REMARK 470 LYS B 215 CD CE NZ REMARK 470 LYS B 222 CE NZ 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 NE2 GLN B 185 O HOH B 2121 1.72 REMARK 500 O HOH B 2107 O HOH B 2109 2.00 REMARK 500 OE2 GLU A 145 O HOH A 2153 2.13 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 NH2 ARG B 12 O HOH B 2075 4555 2.18 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 LYS A 52 177.01 69.63 REMARK 500 LYS A 52 177.68 67.70 REMARK 500 ASN A 90 -5.17 77.61 REMARK 500 SER A 118 -151.60 -140.83 REMARK 500 ASP A 152 36.38 -89.99 REMARK 500 HIS A 156 -18.62 -140.94 REMARK 500 LYS B 52 159.29 78.39 REMARK 500 ASN B 90 -12.80 80.56 REMARK 500 SER B 118 -147.43 -129.64 REMARK 500 ASP B 152 34.81 -99.54 REMARK 500 HIS B 156 47.63 -152.70 REMARK 500 GLU B 176 -23.24 -140.74 REMARK 500 ASP B 202 -166.11 -118.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADE B 1232 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS B 1233 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 1232 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4BMY RELATED DB: PDB REMARK 900 STRUCTURE OF FUTALOSINE HYDROLASE MUTANT OF HELICOBACTER PYLORI REMARK 900 STRAIN 26695 REMARK 900 RELATED ID: 4BMZ RELATED DB: PDB REMARK 900 STRUCTURE OF FUTALOSINE HYDROLASE MUTANT OF HELICOBACTER PYLORI REMARK 900 STRAIN 26695 REMARK 900 RELATED ID: 4BN0 RELATED DB: PDB REMARK 900 STRUCTURE OF FUTALOSINE HYDROLASE MUTANT OF HELICOBACTER PYLORI REMARK 900 STRAIN 26695 DBREF 4BMX A 1 231 UNP O24915 MTNN_HELPY 1 231 DBREF 4BMX B 1 231 UNP O24915 MTNN_HELPY 1 231 SEQADV 4BMX MET A -19 UNP O24915 EXPRESSION TAG SEQADV 4BMX GLY A -18 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER A -17 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER A -16 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS A -15 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS A -14 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS A -13 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS A -12 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS A -11 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS A -10 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER A -9 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER A -8 UNP O24915 EXPRESSION TAG SEQADV 4BMX GLY A -7 UNP O24915 EXPRESSION TAG SEQADV 4BMX LEU A -6 UNP O24915 EXPRESSION TAG SEQADV 4BMX VAL A -5 UNP O24915 EXPRESSION TAG SEQADV 4BMX PRO A -4 UNP O24915 EXPRESSION TAG SEQADV 4BMX ARG A -3 UNP O24915 EXPRESSION TAG SEQADV 4BMX GLY A -2 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER A -1 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS A 0 UNP O24915 EXPRESSION TAG SEQADV 4BMX MET B -19 UNP O24915 EXPRESSION TAG SEQADV 4BMX GLY B -18 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER B -17 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER B -16 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS B -15 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS B -14 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS B -13 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS B -12 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS B -11 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS B -10 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER B -9 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER B -8 UNP O24915 EXPRESSION TAG SEQADV 4BMX GLY B -7 UNP O24915 EXPRESSION TAG SEQADV 4BMX LEU B -6 UNP O24915 EXPRESSION TAG SEQADV 4BMX VAL B -5 UNP O24915 EXPRESSION TAG SEQADV 4BMX PRO B -4 UNP O24915 EXPRESSION TAG SEQADV 4BMX ARG B -3 UNP O24915 EXPRESSION TAG SEQADV 4BMX GLY B -2 UNP O24915 EXPRESSION TAG SEQADV 4BMX SER B -1 UNP O24915 EXPRESSION TAG SEQADV 4BMX HIS B 0 UNP O24915 EXPRESSION TAG SEQRES 1 A 251 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 251 LEU VAL PRO ARG GLY SER HIS MET VAL GLN LYS ILE GLY SEQRES 3 A 251 ILE LEU GLY ALA MET ARG GLU GLU ILE THR PRO ILE LEU SEQRES 4 A 251 GLU LEU PHE GLY VAL ASP PHE GLU GLU ILE PRO LEU GLY SEQRES 5 A 251 GLY ASN VAL PHE HIS LYS GLY VAL TYR HIS ASN LYS GLU SEQRES 6 A 251 ILE ILE VAL ALA TYR SER LYS ILE GLY LYS VAL HIS SER SEQRES 7 A 251 THR LEU THR THR THR SER MET ILE LEU ALA PHE GLY VAL SEQRES 8 A 251 GLN LYS VAL LEU PHE SER GLY VAL ALA GLY SER LEU VAL SEQRES 9 A 251 LYS ASP LEU LYS ILE ASN ASP LEU LEU VAL ALA ILE GLN SEQRES 10 A 251 LEU VAL GLN HIS ASP VAL ASP LEU SER ALA PHE ASP HIS SEQRES 11 A 251 PRO LEU GLY PHE ILE PRO GLU SER ALA ILE PHE ILE GLU SEQRES 12 A 251 THR SER GLU SER LEU ASN ALA LEU ALA LYS GLU VAL ALA SEQRES 13 A 251 ASN GLU GLN HIS ILE VAL LEU LYS GLU GLY VAL ILE ALA SEQRES 14 A 251 SER GLY ASP GLN PHE VAL HIS SER LYS GLU ARG LYS GLU SEQRES 15 A 251 PHE LEU VAL SER GLU PHE LYS ALA SER ALA VAL GLU MET SEQRES 16 A 251 GLU GLY ALA SER VAL ALA PHE VAL CYS GLN LYS PHE GLY SEQRES 17 A 251 VAL PRO CYS CYS VAL LEU ARG SER ILE SER ASP ASN ALA SEQRES 18 A 251 ASP GLU GLU ALA ASN MET SER PHE ASP ALA PHE LEU GLU SEQRES 19 A 251 LYS SER ALA GLN THR SER ALA LYS PHE LEU LYS SER MET SEQRES 20 A 251 VAL ASP GLU LEU SEQRES 1 B 251 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 251 LEU VAL PRO ARG GLY SER HIS MET VAL GLN LYS ILE GLY SEQRES 3 B 251 ILE LEU GLY ALA MET ARG GLU GLU ILE THR PRO ILE LEU SEQRES 4 B 251 GLU LEU PHE GLY VAL ASP PHE GLU GLU ILE PRO LEU GLY SEQRES 5 B 251 GLY ASN VAL PHE HIS LYS GLY VAL TYR HIS ASN LYS GLU SEQRES 6 B 251 ILE ILE VAL ALA TYR SER LYS ILE GLY LYS VAL HIS SER SEQRES 7 B 251 THR LEU THR THR THR SER MET ILE LEU ALA PHE GLY VAL SEQRES 8 B 251 GLN LYS VAL LEU PHE SER GLY VAL ALA GLY SER LEU VAL SEQRES 9 B 251 LYS ASP LEU LYS ILE ASN ASP LEU LEU VAL ALA ILE GLN SEQRES 10 B 251 LEU VAL GLN HIS ASP VAL ASP LEU SER ALA PHE ASP HIS SEQRES 11 B 251 PRO LEU GLY PHE ILE PRO GLU SER ALA ILE PHE ILE GLU SEQRES 12 B 251 THR SER GLU SER LEU ASN ALA LEU ALA LYS GLU VAL ALA SEQRES 13 B 251 ASN GLU GLN HIS ILE VAL LEU LYS GLU GLY VAL ILE ALA SEQRES 14 B 251 SER GLY ASP GLN PHE VAL HIS SER LYS GLU ARG LYS GLU SEQRES 15 B 251 PHE LEU VAL SER GLU PHE LYS ALA SER ALA VAL GLU MET SEQRES 16 B 251 GLU GLY ALA SER VAL ALA PHE VAL CYS GLN LYS PHE GLY SEQRES 17 B 251 VAL PRO CYS CYS VAL LEU ARG SER ILE SER ASP ASN ALA SEQRES 18 B 251 ASP GLU GLU ALA ASN MET SER PHE ASP ALA PHE LEU GLU SEQRES 19 B 251 LYS SER ALA GLN THR SER ALA LYS PHE LEU LYS SER MET SEQRES 20 B 251 VAL ASP GLU LEU HET TRS A1232 8 HET ADE B1232 10 HET TRS B1233 8 HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM ADE ADENINE HETSYN TRS TRIS BUFFER FORMUL 3 TRS 2(C4 H12 N O3 1+) FORMUL 4 ADE C5 H5 N5 FORMUL 6 HOH *363(H2 O) HELIX 1 1 MET A 11 GLU A 13 5 3 HELIX 2 2 GLU A 14 GLY A 23 1 10 HELIX 3 3 GLY A 54 GLY A 70 1 17 HELIX 4 4 LEU A 105 ASP A 109 5 5 HELIX 5 5 SER A 125 GLN A 139 1 15 HELIX 6 6 SER A 157 LYS A 169 1 13 HELIX 7 7 GLU A 176 PHE A 187 1 12 HELIX 8 8 SER A 208 LEU A 231 1 24 HELIX 9 9 MET B 11 GLY B 23 1 13 HELIX 10 10 GLY B 54 ALA B 68 1 15 HELIX 11 11 LEU B 105 ASP B 109 5 5 HELIX 12 12 SER B 125 GLU B 138 1 14 HELIX 13 13 SER B 157 LYS B 169 1 13 HELIX 14 14 GLU B 176 PHE B 187 1 12 HELIX 15 15 GLU B 204 ASP B 229 1 26 SHEET 1 AA 7 GLU A 27 LEU A 31 0 SHEET 2 AA 7 ASN A 34 TYR A 41 -1 O ASN A 34 N LEU A 31 SHEET 3 AA 7 LYS A 44 TYR A 50 -1 O LYS A 44 N TYR A 41 SHEET 4 AA 7 LYS A 4 GLY A 9 1 O ILE A 5 N ILE A 47 SHEET 5 AA 7 LYS A 73 SER A 82 1 O LYS A 73 N GLY A 6 SHEET 6 AA 7 CYS A 191 ASP A 199 1 O CYS A 192 N PHE A 76 SHEET 7 AA 7 LEU A 92 GLN A 100 -1 O LEU A 93 N ARG A 195 SHEET 1 AB 2 GLU A 27 LEU A 31 0 SHEET 2 AB 2 LYS A 73 SER A 82 1 O LYS A 73 N GLY A 6 SHEET 1 BA 7 GLU B 27 LEU B 31 0 SHEET 2 BA 7 ASN B 34 TYR B 41 -1 O ASN B 34 N LEU B 31 SHEET 3 BA 7 LYS B 44 TYR B 50 -1 O LYS B 44 N TYR B 41 SHEET 4 BA 7 LYS B 4 GLY B 9 1 O ILE B 5 N ILE B 47 SHEET 5 BA 7 LYS B 73 SER B 82 1 O LYS B 73 N GLY B 6 SHEET 6 BA 7 CYS B 191 ASP B 199 1 O CYS B 192 N PHE B 76 SHEET 7 BA 7 LEU B 92 GLN B 100 -1 O LEU B 93 N ARG B 195 SHEET 1 BB 2 GLU B 27 LEU B 31 0 SHEET 2 BB 2 LYS B 73 SER B 82 1 O LYS B 73 N GLY B 6 SITE 1 AC1 11 ALA B 80 GLY B 81 PHE B 154 VAL B 155 SITE 2 AC1 11 VAL B 173 GLU B 174 MET B 175 SER B 198 SITE 3 AC1 11 ASP B 199 ALA B 201 TRS B1233 SITE 1 AC2 11 MET B 1 ALA B 10 MET B 11 GLU B 14 SITE 2 AC2 11 VAL B 79 GLU B 174 MET B 175 GLU B 176 SITE 3 AC2 11 ARG B 195 PHE B 209 ADE B1232 SITE 1 AC3 3 SER A 125 GLU A 126 SER A 127 CRYST1 59.314 90.573 108.381 90.00 90.00 90.00 P 21 21 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 0.016859 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011041 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009227 0.00000