HEADER HYDROLASE 02-JUL-15 5CCE TITLE JOINT X-RAY/NEUTRON STRUCTURE OF WILD TYPE MTAN COMPLEXED WITH SRH AND TITLE 2 ADENINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-METHYLTHIOADENOSINE NUCLEOSIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AMINOFUTALOSINE NUCLEOSIDASE, AMINODEOXYFUTALOSINE COMPND 5 NUCLEOSIDASE, 5'-METHYLTHIOADENOSINE/S-ADENOSYLHOMOCYSTEINE COMPND 6 NUCLEOSIDASE, MTAN, 6-AMINO-6-DEOXYFUTALOSINE N-RIBOSYLHYDROLASE; COMPND 7 EC: 3.2.2.30, 3.2.2.9; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 210; SOURCE 4 GENE: MTNN, MTN, JHP_0082; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HELICOBACTER PYLORI, BINDING SITES, S-ADENOSYLHOMOCYSTEINE, N- KEYWDS 2 GLYCOSYL NEUTRON, DEUTERIUM, NUCLEOSIDASE, HYDROLASE EXPDTA NEUTRON DIFFRACTION; X-RAY DIFFRACTION AUTHOR M.T.BANCO,A.Y.KOVALEVSKY,D.R.RONNING REVDAT 5 27-SEP-23 5CCE 1 HETSYN REVDAT 4 29-JUL-20 5CCE 1 COMPND REMARK HETNAM SITE REVDAT 4 2 1 ATOM REVDAT 3 01-JAN-20 5CCE 1 REMARK REVDAT 2 21-DEC-16 5CCE 1 JRNL REVDAT 1 16-NOV-16 5CCE 0 JRNL AUTH M.T.BANCO,V.MISHRA,A.OSTERMANN,T.E.SCHRADER,G.B.EVANS, JRNL AUTH 2 A.KOVALEVSKY,D.R.RONNING JRNL TITL NEUTRON STRUCTURES OF THE HELICOBACTER PYLORI JRNL TITL 2 5'-METHYLTHIOADENOSINE NUCLEOSIDASE HIGHLIGHT PROTON SHARING JRNL TITL 3 AND PROTONATION STATES. JRNL REF PROC. NATL. ACAD. SCI. V. 113 13756 2016 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 27856757 JRNL DOI 10.1073/PNAS.1609718113 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 NEUTRON DATA. REMARK 3 REMARK 3 REFINEMENT TARGET : JOINT X-RAY/NEUTRON ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 81.4 REMARK 3 NUMBER OF REFLECTIONS : 7859 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.343 REMARK 3 FREE R VALUE : 0.376 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.500 REMARK 3 FREE R VALUE TEST SET COUNT : 356 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.020 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.61 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 58.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 659 REMARK 3 BIN R VALUE (WORKING SET) : 0.3280 REMARK 3 BIN FREE R VALUE : 0.3890 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 33 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.068 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1755 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 70 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.49 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.40 REMARK 3 ESD FROM SIGMAA (A) : 0.34 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.48 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.46 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.129 REMARK 3 BOND ANGLES (DEGREES) : 4.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : CNS BULK SOLVENT MODEL USED REMARK 3 KSOL : 0.66 REMARK 3 BSOL : 29.96 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 3 X-RAY DATA. REMARK 3 REMARK 3 REFINEMENT TARGET : JOINT X-RAY/NEUTRON ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 82.5 REMARK 3 NUMBER OF REFLECTIONS : 20253 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.253 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 997 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.82 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 40.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1179 REMARK 3 BIN R VALUE (WORKING SET) : 0.3260 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 61 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.042 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1755 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 70 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.49 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.29 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.30 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.129 REMARK 3 BOND ANGLES (DEGREES) : 4.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : CNS BULK SOLVENT MODEL USED REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 37.09 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5CCE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211302. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JAN-13 REMARK 200 TEMPERATURE (KELVIN) : 296 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU 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 RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23011 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.820 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 (%) : 94.0 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.02600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 43.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.82 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.49600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 3NM5 REMARK 200 REMARK 200 REMARK: NULL REMARK 230 REMARK 230 EXPERIMENTAL DETAILS REMARK 230 EXPERIMENT TYPE : NEUTRON DIFFRACTION REMARK 230 DATE OF DATA COLLECTION : 15-JAN-13 REMARK 230 TEMPERATURE (KELVIN) : 296.0 REMARK 230 PH : 7.00 REMARK 230 NUMBER OF CRYSTALS USED : NULL REMARK 230 REMARK 230 NEUTRON SOURCE : NUCLEAR REACTOR REMARK 230 BEAMLINE : NULL REMARK 230 WAVELENGTH OR RANGE (A) : 2.66 REMARK 230 MONOCHROMATOR : NULL REMARK 230 OPTICS : NULL REMARK 230 REMARK 230 DETECTOR TYPE : IMAGE PLATE REMARK 230 DETECTOR MANUFACTURER : CUSTOM-MADE REMARK 230 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 230 DATA SCALING SOFTWARE : SCALEPACK REMARK 230 REMARK 230 NUMBER OF UNIQUE REFLECTIONS : 9393 REMARK 230 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 230 RESOLUTION RANGE LOW (A) : 50.000 REMARK 230 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 230 REMARK 230 OVERALL. REMARK 230 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 230 DATA REDUNDANCY : 3.900 REMARK 230 R MERGE (I) : 0.10000 REMARK 230 R SYM (I) : NULL REMARK 230 FOR THE DATA SET : 11.5000 REMARK 230 REMARK 230 IN THE HIGHEST RESOLUTION SHELL. REMARK 230 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 230 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 230 COMPLETENESS FOR SHELL (%) : 94.9 REMARK 230 DATA REDUNDANCY IN SHELL : 3.20 REMARK 230 R MERGE FOR SHELL (I) : 0.68100 REMARK 230 R SYM FOR SHELL (I) : NULL REMARK 230 FOR SHELL : 1.700 REMARK 230 REMARK 230 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 230 SOFTWARE USED : NULL REMARK 230 STARTING MODEL: PDB ENTRY 3NM5 REMARK 230 REMARK 230 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG550 MME, 50 MM MAGNESIUM CHLORIDE REMARK 280 HEXAHYDRATE, 100 MM HEPES, PH 7, PH 7.0, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 296K 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 45.08867 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 22.54433 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 22.54433 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 45.08867 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: 3450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 45.08867 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 O DOD A 470 LIES ON A SPECIAL POSITION. 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 166 D2 DOD A 401 1.20 REMARK 500 OE1 GLU A 12 D1 DOD A 402 1.39 REMARK 500 DD1 HIS A 109 O DOD A 404 1.49 REMARK 500 HD1 HIS A 109 O DOD A 404 1.49 REMARK 500 O TYR A 49 D1 DOD A 405 1.51 REMARK 500 D2 DOD A 439 O DOD A 460 1.51 REMARK 500 OD1 ASN A 199 D2 DOD A 406 1.54 REMARK 500 O PHE A 120 D2 DOD A 408 1.58 REMARK 500 O LEU A 86 D1 DOD A 406 1.60 REMARK 500 OE1 GLU A 166 O DOD A 401 1.95 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 D1 DOD A 428 D2 DOD A 428 6555 0.36 REMARK 500 D2 DOD A 428 D2 DOD A 428 6555 1.36 REMARK 500 D1 DOD A 410 O DOD A 446 6555 1.47 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 51 158.92 100.43 REMARK 500 ASN A 89 -13.10 81.56 REMARK 500 SER A 117 -159.87 -135.73 REMARK 500 HIS A 155 59.32 -144.67 REMARK 500 GLU A 175 -18.04 -141.28 REMARK 500 ASP A 201 -165.17 -107.84 REMARK 500 REMARK 500 REMARK: NULL DBREF 5CCE A 2 230 UNP Q9ZMY2 MQMTN_HELPJ 2 230 SEQADV 5CCE GLY A 1 UNP Q9ZMY2 EXPRESSION TAG SEQRES 1 A 230 GLY GLN LYS ILE GLY ILE LEU GLY ALA MET ARG GLU GLU SEQRES 2 A 230 ILE THR PRO ILE LEU GLU LEU PHE GLY VAL ASP PHE GLU SEQRES 3 A 230 GLU ILE PRO LEU GLY GLY ASN VAL PHE HIS LYS GLY VAL SEQRES 4 A 230 TYR HIS ASN LYS GLU ILE ILE VAL ALA TYR SER LYS ILE SEQRES 5 A 230 GLY LYS VAL HIS SER THR LEU THR THR THR SER MET ILE SEQRES 6 A 230 LEU ALA PHE GLY VAL GLN LYS VAL LEU PHE SER GLY VAL SEQRES 7 A 230 ALA GLY SER LEU VAL LYS ASP LEU LYS ILE ASN ASP LEU SEQRES 8 A 230 LEU VAL ALA THR GLN LEU VAL GLN HIS ASP VAL ASP LEU SEQRES 9 A 230 SER ALA PHE ASP HIS PRO LEU GLY PHE ILE PRO GLU SER SEQRES 10 A 230 ALA ILE PHE ILE GLU THR SER GLY SER LEU ASN ALA LEU SEQRES 11 A 230 ALA LYS LYS ILE ALA ASN GLU GLN HIS ILE ALA LEU LYS SEQRES 12 A 230 GLU GLY VAL ILE ALA SER GLY ASP GLN PHE VAL HIS SER SEQRES 13 A 230 LYS GLU ARG LYS GLU PHE LEU VAL SER GLU PHE LYS ALA SEQRES 14 A 230 SER ALA VAL GLU MET GLU GLY ALA SER VAL ALA PHE VAL SEQRES 15 A 230 CYS GLN LYS PHE GLY VAL PRO CYS CYS VAL LEU ARG SER SEQRES 16 A 230 ILE SER ASP ASN ALA ASP GLU LYS ALA GLY MET SER PHE SEQRES 17 A 230 ASP GLU PHE LEU GLU LYS SER ALA HIS THR SER ALA LYS SEQRES 18 A 230 PHE LEU LYS SER MET VAL ASP GLU LEU HET 2WP A 301 34 HET ADE A 302 15 HET D8U A 303 1 HETNAM 2WP S-RIBOSYLHOMOCYSTEINE HETNAM ADE ADENINE HETNAM D8U DEUTERIUM(1+) HETSYN 2WP (2S)-2-AMINO-4-({[(2S,3S,4R,5S)-3,4,5- HETSYN 2 2WP TRIHYDROXYTETRAHYDROFURAN-2-YL]METHYL}SULFANYL) HETSYN 3 2WP BUTANOIC ACID FORMUL 2 2WP C9 H17 N O6 S FORMUL 3 ADE C5 H5 N5 FORMUL 4 D8U D 1+ FORMUL 5 DOD *70(D2 O) HELIX 1 AA1 MET A 10 GLY A 22 1 13 HELIX 2 AA2 GLY A 53 GLY A 69 1 17 HELIX 3 AA3 LEU A 104 ASP A 108 5 5 HELIX 4 AA4 SER A 124 GLN A 138 1 15 HELIX 5 AA5 SER A 156 LYS A 168 1 13 HELIX 6 AA6 GLU A 175 GLY A 187 1 13 HELIX 7 AA7 LYS A 203 LEU A 230 1 28 SHEET 1 AA1 9 GLU A 26 LEU A 30 0 SHEET 2 AA1 9 ASN A 33 TYR A 40 -1 O PHE A 35 N ILE A 28 SHEET 3 AA1 9 LYS A 43 TYR A 49 -1 O VAL A 47 N HIS A 36 SHEET 4 AA1 9 LYS A 3 GLY A 8 1 N ILE A 6 O ILE A 46 SHEET 5 AA1 9 LYS A 72 SER A 81 1 O LYS A 72 N GLY A 5 SHEET 6 AA1 9 ALA A 171 GLU A 173 -1 O VAL A 172 N GLY A 80 SHEET 7 AA1 9 LYS A 143 SER A 149 1 N ALA A 148 O ALA A 171 SHEET 8 AA1 9 LEU A 91 GLN A 99 1 N VAL A 98 O SER A 149 SHEET 9 AA1 9 ILE A 121 GLU A 122 -1 O ILE A 121 N LEU A 97 SHEET 1 AA2 8 GLU A 26 LEU A 30 0 SHEET 2 AA2 8 ASN A 33 TYR A 40 -1 O PHE A 35 N ILE A 28 SHEET 3 AA2 8 LYS A 43 TYR A 49 -1 O VAL A 47 N HIS A 36 SHEET 4 AA2 8 LYS A 3 GLY A 8 1 N ILE A 6 O ILE A 46 SHEET 5 AA2 8 LYS A 72 SER A 81 1 O LYS A 72 N GLY A 5 SHEET 6 AA2 8 CYS A 190 ASP A 198 1 O CYS A 191 N PHE A 75 SHEET 7 AA2 8 LEU A 91 GLN A 99 -1 N LEU A 92 O ARG A 194 SHEET 8 AA2 8 ILE A 121 GLU A 122 -1 O ILE A 121 N LEU A 97 CRYST1 83.189 83.189 67.633 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 0.012021 0.006940 0.000000 0.00000 SCALE2 0.000000 0.013880 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014786 0.00000