HEADER HYDROLASE/HYDROLASE INHIBITOR 11-MAR-15 4YO8 TITLE CRYSTAL STRUCTURE OF HELICOBACTER PYLORI 5'-METHYLTHIOADENOSINE/S- TITLE 2 ADENOSYL HOMOCYSTEINE NUCLEOSIDASE (MTAN) COMPLEXED WITH (((4-AMINO- TITLE 3 5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL)METHYL)(HEXYL)AMINO)METHANOL COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINODEOXYFUTALOSINE NUCLEOSIDASE; COMPND 3 CHAIN: A, B; 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, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.A.CAMERON,S.WANG,S.C.ALMO,V.L.SCHRAMM REVDAT 5 27-SEP-23 4YO8 1 LINK REVDAT 4 25-DEC-19 4YO8 1 REMARK REVDAT 3 20-SEP-17 4YO8 1 REMARK REVDAT 2 02-DEC-15 4YO8 1 JRNL REVDAT 1 25-NOV-15 4YO8 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 6892 2012 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 22891633 REMARK 1 DOI 10.1021/BI3009664 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 29762 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) : 0.189 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1578 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2090 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 143 REMARK 3 BIN FREE R VALUE : 0.3470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3636 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 100 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.12000 REMARK 3 B22 (A**2) : 4.75000 REMARK 3 B33 (A**2) : -0.62000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.27000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.204 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.171 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.151 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.102 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3747 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3596 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5059 ; 1.413 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8282 ; 0.768 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 478 ; 6.004 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;35.585 ;25.260 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 632 ;15.070 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;19.369 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 584 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4230 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 836 ; 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): 1918 ; 1.958 ; 3.654 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1917 ; 1.959 ; 3.653 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2394 ; 2.893 ; 5.472 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 4YO8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000207829. 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 : 31369 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.58800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.320 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, HKL-3000 REMARK 200 STARTING MODEL: 4FFS REMARK 200 REMARK 200 REMARK: NEEDLES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN (10 MG/ML); RESERVOIR (0.2 M REMARK 280 SODIUM MALONATE PH 7.0 AND 20 % (W/V) PEG 3350); 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: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 34.72300 REMARK 290 SMTRY3 2 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: 3430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 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 -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 MET B -13 REMARK 465 GLY B -12 REMARK 465 HIS B -11 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 GLU A -5 CG CD OE1 OE2 REMARK 470 LEU A -3 CG CD1 CD2 REMARK 470 TYR A -2 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 0 CG CD OE1 NE2 REMARK 470 LYS A 85 CD CE NZ REMARK 470 LYS A 204 CG CD CE NZ REMARK 470 MET A 207 CG SD CE REMARK 470 ASN B -4 OD1 ND2 REMARK 470 VAL B 2 CG1 CG2 REMARK 470 ASN B 43 CG OD1 ND2 REMARK 470 LYS B 85 CG CD CE NZ REMARK 470 LYS B 88 CG CD CE NZ REMARK 470 LYS B 133 CG CD CE NZ REMARK 470 LYS B 134 CG CD CE NZ REMARK 470 LYS B 144 CG CD CE NZ REMARK 470 LYS B 158 CG CD CE NZ REMARK 470 GLN B 185 CD OE1 NE2 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 52 163.02 83.71 REMARK 500 ASN A 90 -16.29 85.51 REMARK 500 SER A 118 -153.68 -145.77 REMARK 500 HIS A 156 49.00 -152.84 REMARK 500 GLU A 174 -158.93 -157.04 REMARK 500 ASP A 202 -169.24 -120.02 REMARK 500 HIS B 42 -127.81 60.77 REMARK 500 LYS B 52 162.49 87.19 REMARK 500 ASN B 90 -13.78 72.61 REMARK 500 ASP B 152 32.68 -95.82 REMARK 500 HIS B 156 52.18 -155.62 REMARK 500 ASP B 202 -165.42 -116.74 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 42 NE2 REMARK 620 2 GLU A 211 OE2 89.2 REMARK 620 3 HIS B -9 NE2 30.4 83.3 REMARK 620 4 HIS B -7 ND1 31.3 85.8 2.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4EZ A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4EZ B 301 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: 4YNB RELATED DB: PDB REMARK 900 4YNB CONTAINS THE SAME PROTEIN COMPLEXED WITH PYRAZINYLTHIO-DADME- REMARK 900 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 4YO8 A 3 231 UNP Q9ZMY2 MQMTN_HELPJ 2 230 DBREF 4YO8 B 3 231 UNP Q9ZMY2 MQMTN_HELPJ 2 230 SEQADV 4YO8 MET A -13 UNP Q9ZMY2 INITIATING METHIONINE SEQADV 4YO8 GLY A -12 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS A -11 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS A -10 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS A -9 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS A -8 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS A -7 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS A -6 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 GLU A -5 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 ASN A -4 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 LEU A -3 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 TYR A -2 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 PHE A -1 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 GLN A 0 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 GLY A 1 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 VAL A 2 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 MET B -13 UNP Q9ZMY2 INITIATING METHIONINE SEQADV 4YO8 GLY B -12 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS B -11 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS B -10 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS B -9 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS B -8 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS B -7 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 HIS B -6 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 GLU B -5 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 ASN B -4 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 LEU B -3 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 TYR B -2 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 PHE B -1 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 GLN B 0 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 GLY B 1 UNP Q9ZMY2 EXPRESSION TAG SEQADV 4YO8 VAL B 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 SEQRES 1 B 245 MET GLY HIS HIS HIS HIS HIS HIS GLU ASN LEU TYR PHE SEQRES 2 B 245 GLN GLY VAL GLN LYS ILE GLY ILE LEU GLY ALA MET ARG SEQRES 3 B 245 GLU GLU ILE THR PRO ILE LEU GLU LEU PHE GLY VAL ASP SEQRES 4 B 245 PHE GLU GLU ILE PRO LEU GLY GLY ASN VAL PHE HIS LYS SEQRES 5 B 245 GLY VAL TYR HIS ASN LYS GLU ILE ILE VAL ALA TYR SER SEQRES 6 B 245 LYS ILE GLY LYS VAL HIS SER THR LEU THR THR THR SER SEQRES 7 B 245 MET ILE LEU ALA PHE GLY VAL GLN LYS VAL LEU PHE SER SEQRES 8 B 245 GLY VAL ALA GLY SER LEU VAL LYS ASP LEU LYS ILE ASN SEQRES 9 B 245 ASP LEU LEU VAL ALA THR GLN LEU VAL GLN HIS ASP VAL SEQRES 10 B 245 ASP LEU SER ALA PHE ASP HIS PRO LEU GLY PHE ILE PRO SEQRES 11 B 245 GLU SER ALA ILE PHE ILE GLU THR SER GLY SER LEU ASN SEQRES 12 B 245 ALA LEU ALA LYS LYS ILE ALA ASN GLU GLN HIS ILE ALA SEQRES 13 B 245 LEU LYS GLU GLY VAL ILE ALA SER GLY ASP GLN PHE VAL SEQRES 14 B 245 HIS SER LYS GLU ARG LYS GLU PHE LEU VAL SER GLU PHE SEQRES 15 B 245 LYS ALA SER ALA VAL GLU MET GLU GLY ALA SER VAL ALA SEQRES 16 B 245 PHE VAL CYS GLN LYS PHE GLY VAL PRO CYS CYS VAL LEU SEQRES 17 B 245 ARG SER ILE SER ASP ASN ALA ASP GLU LYS ALA GLY MET SEQRES 18 B 245 SER PHE ASP GLU PHE LEU GLU LYS SER ALA HIS THR SER SEQRES 19 B 245 ALA LYS PHE LEU LYS SER MET VAL ASP GLU LEU HET 4EZ A 301 20 HET ZN A 302 1 HET 4EZ B 301 20 HETNAM 4EZ {[(4-AMINO-5H-PYRROLO[3,2-D]PYRIMIDIN-7-YL) HETNAM 2 4EZ METHYL](HEXYL)AMINO}METHANOL HETNAM ZN ZINC ION FORMUL 3 4EZ 2(C14 H23 N5 O) FORMUL 4 ZN ZN 2+ FORMUL 6 HOH *100(H2 O) HELIX 1 AA1 HIS A -6 TYR A -2 5 5 HELIX 2 AA2 MET A 11 GLY A 23 1 13 HELIX 3 AA3 GLY A 54 GLY A 70 1 17 HELIX 4 AA4 LEU A 105 ASP A 109 5 5 HELIX 5 AA5 SER A 125 GLN A 139 1 15 HELIX 6 AA6 SER A 157 LYS A 169 1 13 HELIX 7 AA7 GLU A 176 PHE A 187 1 12 HELIX 8 AA8 LYS A 204 GLU A 230 1 27 HELIX 9 AA9 HIS B -6 TYR B -2 5 5 HELIX 10 AB1 MET B 11 GLY B 23 1 13 HELIX 11 AB2 GLY B 54 GLY B 70 1 17 HELIX 12 AB3 LEU B 105 ASP B 109 5 5 HELIX 13 AB4 SER B 125 HIS B 140 1 16 HELIX 14 AB5 SER B 157 LYS B 169 1 13 HELIX 15 AB6 GLU B 176 PHE B 187 1 12 HELIX 16 AB7 LYS B 204 GLU B 230 1 27 SHEET 1 AA1 9 GLU A 27 LEU A 31 0 SHEET 2 AA1 9 ASN A 34 TYR A 41 -1 O LYS A 38 N GLU A 27 SHEET 3 AA1 9 LYS A 44 TYR A 50 -1 O VAL A 48 N HIS A 37 SHEET 4 AA1 9 GLN A 3 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 172 GLU A 174 -1 O VAL A 173 N GLY A 81 SHEET 7 AA1 9 LYS A 144 SER A 150 1 N ALA A 149 O ALA A 172 SHEET 8 AA1 9 LEU A 92 GLN A 100 1 N VAL A 99 O SER A 150 SHEET 9 AA1 9 ILE A 122 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 LYS A 38 N GLU A 27 SHEET 3 AA2 8 LYS A 44 TYR A 50 -1 O VAL A 48 N HIS A 37 SHEET 4 AA2 8 GLN A 3 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 ILE A 122 GLU A 123 -1 O ILE A 122 N LEU A 98 SHEET 1 AA3 9 GLU B 27 LEU B 31 0 SHEET 2 AA3 9 ASN B 34 TYR B 41 -1 O PHE B 36 N ILE B 29 SHEET 3 AA3 9 LYS B 44 TYR B 50 -1 O VAL B 48 N HIS B 37 SHEET 4 AA3 9 GLN B 3 GLY B 9 1 N ILE B 7 O ILE B 47 SHEET 5 AA3 9 LYS B 73 SER B 82 1 O LYS B 73 N GLY B 6 SHEET 6 AA3 9 ALA B 170 GLU B 174 -1 O VAL B 173 N GLY B 81 SHEET 7 AA3 9 LYS B 144 SER B 150 1 N VAL B 147 O SER B 171 SHEET 8 AA3 9 LEU B 92 GLN B 100 1 N VAL B 99 O SER B 150 SHEET 9 AA3 9 ILE B 122 GLU B 123 -1 O ILE B 122 N LEU B 98 SHEET 1 AA4 8 GLU B 27 LEU B 31 0 SHEET 2 AA4 8 ASN B 34 TYR B 41 -1 O PHE B 36 N ILE B 29 SHEET 3 AA4 8 LYS B 44 TYR B 50 -1 O VAL B 48 N HIS B 37 SHEET 4 AA4 8 GLN B 3 GLY B 9 1 N ILE B 7 O ILE B 47 SHEET 5 AA4 8 LYS B 73 SER B 82 1 O LYS B 73 N GLY B 6 SHEET 6 AA4 8 CYS B 191 ASP B 199 1 O SER B 198 N ALA B 80 SHEET 7 AA4 8 LEU B 92 GLN B 100 -1 N ALA B 95 O VAL B 193 SHEET 8 AA4 8 ILE B 122 GLU B 123 -1 O ILE B 122 N LEU B 98 LINK NE2 HIS A 42 ZN ZN A 302 1555 2444 2.15 LINK OE2 GLU A 211 ZN ZN A 302 1555 1555 1.92 LINK NE2 HIS B -9 ZN ZN A 302 1555 2545 2.16 LINK ND1 HIS B -7 ZN ZN A 302 1555 2545 2.25 SITE 1 AC1 13 VAL A 79 ALA A 80 GLY A 81 PHE A 154 SITE 2 AC1 13 VAL A 155 VAL A 173 GLU A 174 MET A 175 SITE 3 AC1 13 GLU A 176 SER A 198 ASP A 199 HOH A 410 SITE 4 AC1 13 PHE B 108 SITE 1 AC2 1 GLU A 211 SITE 1 AC3 13 PHE A 108 VAL B 79 ALA B 80 GLY B 81 SITE 2 AC3 13 PHE B 154 VAL B 155 GLU B 174 MET B 175 SITE 3 AC3 13 GLU B 176 SER B 198 ASP B 199 PHE B 209 SITE 4 AC3 13 HOH B 416 CRYST1 65.091 69.446 65.566 90.00 113.08 90.00 P 1 21 1 4 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 0.015363 0.000000 0.006546 0.00000 SCALE2 0.000000 0.014400 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016579 0.00000