10 20 30 40 50 60 70 80 4YNB - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE/INHIBITOR 09-MAR-15 4YNB
TITLE CRYSTAL STRUCTURE OF HELICOBACTER PYLORI 5'-METHYLTHIOADENOSINE/S- TITLE 2 ADENOSYL HOMOCYSTEINE NUCLEOSIDASE (MTAN) COMPLEXED WITH TITLE 3 PYRAZINYLTHIO-DADME-IMMUCILLIN-A
COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINODEOXYFUTALOSINE NUCLEOSIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AMINOFUTALOSINE NUCLEOSIDASE,5'-METHYLTHIOADENOSINE/S- COMPND 5 ADENOSYLHOMOCYSTEINE NUCLEOSIDASE,MTAN,6-AMINO-6-DEOXYFUTALOSINE N- COMPND 6 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: 85963; SOURCE 4 STRAIN: J99 / ATCC 700824; SOURCE 5 GENE: MTNN, MTN, JHP_0082; 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_PLASMID: PET32A
KEYWDS HYDROLASE-INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR S.A.CAMERON,S.WANG,S.C.ALMO,V.L.SCHRAMM
REVDAT 2 02-DEC-15 4YNB 1 JRNL REVDAT 1 25-NOV-15 4YNB 0
JRNL AUTH S.WANG,S.A.CAMERON,K.CLINCH,G.B.EVANS,Z.WU,V.L.SCHRAMM, JRNL AUTH 2 P.C.TYLER JRNL TITL NEW ANTIBIOTIC CANDIDATES AGAINST HELICOBACTER PYLORI. JRNL REF J.AM.CHEM.SOC. V. 137 14275 2015 JRNL REFN ESSN 1520-5126 JRNL PMID 26494017 JRNL DOI 10.1021/JACS.5B06110
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH S.WANG,A.M.HAAPALAINEN,F.YAN,Q.DU,P.C.TYLER,G.B.EVANS, REMARK 1 AUTH 2 A.RINALDO-MATTHIS,R.L.BROWN,G.E.NORRIS,S.C.ALMO,V.L.SCHRAMM REMARK 1 TITL A PICOMOLAR TRANSITION STATE ANALOGUE INHIBITOR OF MTAN AS A REMARK 1 TITL 2 SPECIFIC ANTIBIOTIC FOR HELICOBACTER PYLORI. REMARK 1 REF BIOCHEMISTRY V. 51 6892 2012 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 22891633 REMARK 1 DOI 10.1021/BI3009664
REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON 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) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 21421 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1076 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) : 1557 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.2310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1753 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 194 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.139 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.122 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.086 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.135 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1847 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1803 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2489 ; 1.452 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4169 ; 0.780 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 235 ; 5.901 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;36.737 ;25.733 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 327 ;13.783 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 3 ;15.851 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 289 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2058 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 399 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): 925 ; 1.312 ; 2.217 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 924 ; 1.285 ; 2.214 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1156 ; 1.948 ; 3.316 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 U VALUES : REFINED INDIVIDUALLY
REMARK 4 REMARK 4 4YNB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000207747.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-AUG-14 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 : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : DOUBLE SILICON(111) CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26571 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 31.70 REMARK 200 R MERGE (I) : 0.14600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 23.10 REMARK 200 R MERGE FOR SHELL (I) : 0.71900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 4FFS REMARK 200 REMARK 200 REMARK: CUBES
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN (10 MG/ML); RESERVOIR (0.2 M REMARK 280 DI-SODIUM PHOSPHATE AND 2.2 M AMMONIUM SULFATE); CRYOPROTECTION REMARK 280 (20% (V/V) GLYCEROL), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 295K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z,-X,-Y REMARK 290 7555 -Z,-X,Y REMARK 290 8555 -Z,X,-Y REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z,-X REMARK 290 11555 Y,-Z,-X REMARK 290 12555 -Y,-Z,X REMARK 290 13555 Y,X,-Z REMARK 290 14555 -Y,-X,-Z REMARK 290 15555 Y,-X,Z REMARK 290 16555 -Y,X,Z REMARK 290 17555 X,Z,-Y REMARK 290 18555 -X,Z,Y REMARK 290 19555 -X,-Z,-Y REMARK 290 20555 X,-Z,Y REMARK 290 21555 Z,Y,-X REMARK 290 22555 Z,-Y,X REMARK 290 23555 -Z,Y,X REMARK 290 24555 -Z,-Y,-X REMARK 290 25555 X+1/2,Y+1/2,Z+1/2 REMARK 290 26555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 27555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 28555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 29555 Z+1/2,X+1/2,Y+1/2 REMARK 290 30555 Z+1/2,-X+1/2,-Y+1/2 REMARK 290 31555 -Z+1/2,-X+1/2,Y+1/2 REMARK 290 32555 -Z+1/2,X+1/2,-Y+1/2 REMARK 290 33555 Y+1/2,Z+1/2,X+1/2 REMARK 290 34555 -Y+1/2,Z+1/2,-X+1/2 REMARK 290 35555 Y+1/2,-Z+1/2,-X+1/2 REMARK 290 36555 -Y+1/2,-Z+1/2,X+1/2 REMARK 290 37555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 38555 -Y+1/2,-X+1/2,-Z+1/2 REMARK 290 39555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 40555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 41555 X+1/2,Z+1/2,-Y+1/2 REMARK 290 42555 -X+1/2,Z+1/2,Y+1/2 REMARK 290 43555 -X+1/2,-Z+1/2,-Y+1/2 REMARK 290 44555 X+1/2,-Z+1/2,Y+1/2 REMARK 290 45555 Z+1/2,Y+1/2,-X+1/2 REMARK 290 46555 Z+1/2,-Y+1/2,X+1/2 REMARK 290 47555 -Z+1/2,Y+1/2,X+1/2 REMARK 290 48555 -Z+1/2,-Y+1/2,-X+1/2 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 0.00000 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 0.00000 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 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 25 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 25 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY3 25 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY1 26 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 26 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY3 26 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY1 27 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 27 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY3 27 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY1 28 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 28 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY3 28 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY1 29 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY2 29 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 29 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY1 30 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY2 30 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 30 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY1 31 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY2 31 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 31 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY1 32 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY2 32 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 32 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY1 33 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY2 33 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY3 33 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY1 34 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY2 34 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY3 34 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY1 35 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY2 35 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY3 35 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY1 36 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY2 36 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY3 36 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY1 37 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY2 37 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 37 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY1 38 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY2 38 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 38 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY1 39 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY2 39 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 39 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY1 40 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY2 40 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY3 40 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY1 41 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 41 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY3 41 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY1 42 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 42 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY3 42 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY1 43 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 43 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY3 43 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY1 44 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY2 44 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY3 44 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY1 45 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY2 45 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY3 45 -1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY1 46 0.000000 0.000000 1.000000 78.75600 REMARK 290 SMTRY2 46 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY3 46 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY1 47 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY2 47 0.000000 1.000000 0.000000 78.75600 REMARK 290 SMTRY3 47 1.000000 0.000000 0.000000 78.75600 REMARK 290 SMTRY1 48 0.000000 0.000000 -1.000000 78.75600 REMARK 290 SMTRY2 48 0.000000 -1.000000 0.000000 78.75600 REMARK 290 SMTRY3 48 -1.000000 0.000000 0.000000 78.75600 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: 4760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 -1.000000 0.000000 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 O2 PEG A 304 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 433 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 460 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 MET A -13 REMARK 465 GLY A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 GLU A -5 REMARK 465 ASN A -4 REMARK 465 LEU A -3 REMARK 465 TYR A -2 REMARK 465 PHE A -1 REMARK 465 GLN A 0 REMARK 465 GLY A 1
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 VAL A 2 CG1 CG2 REMARK 470 LYS A 85 CD 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 A 185 O HOH A 495 2.00 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 52 160.18 86.12 REMARK 500 ASN A 90 -15.19 77.23 REMARK 500 SER A 118 -151.03 -139.48 REMARK 500 HIS A 156 53.13 -152.35 REMARK 500 ASP A 202 -167.49 -120.85 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 4EH A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 304
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4WKN RELATED DB: PDB REMARK 900 4WKN CONTAINS THE SAME PROTEIN COMPLEXED WITH METHYLTHIO-DADME- REMARK 900 IMMUCILLIN-A REMARK 900 RELATED ID: 4WKO RELATED DB: PDB REMARK 900 4WKO CONTAINS THE SAME PROTEIN COMPLEXED WITH HYDROXYBUTYLTHIO- REMARK 900 DADME-IMMUCILLIN-A REMARK 900 RELATED ID: 4WKP RELATED DB: PDB REMARK 900 4WKP CONTAINS THE SAME PROTEIN COMPLEXED WITH 2-(2-HYDROXYETHOXY) REMARK 900 ETHYLTHIOMETHYL-DADME-IMMUCILLIN-A REMARK 900 RELATED ID: 4FFS RELATED DB: PDB REMARK 900 4FFS CONTAINS THE SAME PROTEIN COMPLEXED WITH BUTYLTHIO-DADME- REMARK 900 IMMUCILLIN-A
DBREF 4YNB A 3 231 UNP Q9ZMY2 MQMTN_HELPJ 2 230
SEQADV 4YNB MET A -13 UNP Q9ZMY2 INITIATING METHIONINE SEQADV 4YNB GLY A -12 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB HIS A -11 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB HIS A -10 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB HIS A -9 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB HIS A -8 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB HIS A -7 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB HIS A -6 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB GLU A -5 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB ASN A -4 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB LEU A -3 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB TYR A -2 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB PHE A -1 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB GLN A 0 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB GLY A 1 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YNB VAL A 2 UNP Q9ZMY2 EXPRESSION TAG
SEQRES 1 A 245 MET GLY HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE SEQRES 2 A 245 GLN GLY VAL GLN LYS ILE GLY ILE LEU GLY ALA MET ARG SEQRES 3 A 245 GLU GLU ILE THR PRO ILE LEU GLU LEU PHE GLY VAL ASP SEQRES 4 A 245 PHE GLU GLU ILE PRO LEU GLY GLY ASN VAL PHE HIS LYS SEQRES 5 A 245 GLY VAL TYR HIS ASN LYS GLU ILE ILE VAL ALA TYR SER SEQRES 6 A 245 LYS ILE GLY LYS VAL HIS SER THR LEU THR THR THR SER SEQRES 7 A 245 MET ILE LEU ALA PHE GLY VAL GLN LYS VAL LEU PHE SER SEQRES 8 A 245 GLY VAL ALA GLY SER LEU VAL LYS ASP LEU LYS ILE ASN SEQRES 9 A 245 ASP LEU LEU VAL ALA THR GLN LEU VAL GLN HIS ASP VAL SEQRES 10 A 245 ASP LEU SER ALA PHE ASP HIS PRO LEU GLY PHE ILE PRO SEQRES 11 A 245 GLU SER ALA ILE PHE ILE GLU THR SER GLY SER LEU ASN SEQRES 12 A 245 ALA LEU ALA LYS LYS ILE ALA ASN GLU GLN HIS ILE ALA SEQRES 13 A 245 LEU LYS GLU GLY VAL ILE ALA SER GLY ASP GLN PHE VAL SEQRES 14 A 245 HIS SER LYS GLU ARG LYS GLU PHE LEU VAL SER GLU PHE SEQRES 15 A 245 LYS ALA SER ALA VAL GLU MET GLU GLY ALA SER VAL ALA SEQRES 16 A 245 PHE VAL CYS GLN LYS PHE GLY VAL PRO CYS CYS VAL LEU SEQRES 17 A 245 ARG SER ILE SER ASP ASN ALA ASP GLU LYS ALA GLY MET SEQRES 18 A 245 SER PHE ASP GLU PHE LEU GLU LYS SER ALA HIS THR SER SEQRES 19 A 245 ALA LYS PHE LEU LYS SER MET VAL ASP GLU LEU
HET 4EH A 301 25 HET GOL A 302 6 HET GOL A 303 6 HET PEG A 304 7
HETNAM 4EH (3R,4S)-1-[(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL) HETNAM 2 4EH METHYL]-4-[(PYRAZIN-2-YLSULFANYL)METHYL]PYRROLIDIN-3- HETNAM 3 4EH OL HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER
HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL
FORMUL 2 4EH C16 H19 N7 O S FORMUL 3 GOL 2(C3 H8 O3) FORMUL 5 PEG C4 H10 O3 FORMUL 6 HOH *194(H2 O)
HELIX 1 AA1 MET A 11 GLY A 23 1 13 HELIX 2 AA2 GLY A 54 ALA A 68 1 15 HELIX 3 AA3 LEU A 105 ASP A 109 5 5 HELIX 4 AA4 SER A 125 GLN A 139 1 15 HELIX 5 AA5 SER A 157 LYS A 169 1 13 HELIX 6 AA6 GLU A 176 PHE A 187 1 12 HELIX 7 AA7 LYS A 204 ASP A 229 1 26
SHEET 1 AA1 9 GLU A 27 LEU A 31 0 SHEET 2 AA1 9 ASN A 34 TYR A 41 -1 O PHE A 36 N ILE A 29 SHEET 3 AA1 9 LYS A 44 TYR A 50 -1 O VAL A 48 N HIS A 37 SHEET 4 AA1 9 LYS A 4 GLY A 9 1 N ILE A 7 O ILE A 47 SHEET 5 AA1 9 LYS A 73 SER A 82 1 O SER A 77 N LEU A 8 SHEET 6 AA1 9 ALA A 170 GLU A 174 -1 O VAL A 173 N GLY A 81 SHEET 7 AA1 9 LYS A 144 SER A 150 1 N VAL A 147 O SER A 171 SHEET 8 AA1 9 LEU A 92 GLN A 100 1 N VAL A 99 O SER A 150 SHEET 9 AA1 9 PHE A 121 GLU A 123 -1 O ILE A 122 N LEU A 98 SHEET 1 AA2 8 GLU A 27 LEU A 31 0 SHEET 2 AA2 8 ASN A 34 TYR A 41 -1 O PHE A 36 N ILE A 29 SHEET 3 AA2 8 LYS A 44 TYR A 50 -1 O VAL A 48 N HIS A 37 SHEET 4 AA2 8 LYS A 4 GLY A 9 1 N ILE A 7 O ILE A 47 SHEET 5 AA2 8 LYS A 73 SER A 82 1 O SER A 77 N LEU A 8 SHEET 6 AA2 8 CYS A 191 ASP A 199 1 O CYS A 192 N PHE A 76 SHEET 7 AA2 8 LEU A 92 GLN A 100 -1 N LEU A 93 O ARG A 195 SHEET 8 AA2 8 PHE A 121 GLU A 123 -1 O ILE A 122 N LEU A 98
SITE 1 AC1 19 ALA A 10 ILE A 53 VAL A 79 ALA A 80 SITE 2 AC1 19 GLY A 81 LEU A 105 HIS A 110 PHE A 154 SITE 3 AC1 19 VAL A 155 VAL A 173 GLU A 174 MET A 175 SITE 4 AC1 19 GLU A 176 SER A 198 ASP A 199 ALA A 201 SITE 5 AC1 19 PHE A 209 HOH A 464 HOH A 576 SITE 1 AC2 6 PHE A 114 ALA A 119 ILE A 120 PHE A 121 SITE 2 AC2 6 HOH A 549 HOH A 558 SITE 1 AC3 5 HIS A 42 ASN A 43 LYS A 44 LYS A 73 SITE 2 AC3 5 HOH A 589 SITE 1 AC4 3 GLN A 153 HOH A 429 HOH A 437
CRYST1 157.512 157.512 157.512 90.00 90.00 90.00 I 4 3 2 48
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 0.006349 0.000000 0.000000 0.00000
SCALE2 0.000000 0.006349 0.000000 0.00000
SCALE3 0.000000 0.000000 0.006349 0.00000