HEADER GENE REGULATION 25-SEP-16 5LY7 TITLE CRYSTAL STRUCTURE OF NAGZ H174A MUTANT FROM PSEUDOMONAS AERUGINOSA IN TITLE 2 COMPLEX WITH THE INHIBITOR 2-ACETAMIDO-1,2-DIDEOXYNOJIRIMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-HEXOSAMINIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-N-ACETYLHEXOSAMINIDASE,N-ACETYL-BETA-GLUCOSAMINIDASE; COMPND 5 EC: 3.2.1.52; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: THERE IS A SINGLE-POINT MUTATION AT HIS174, H174A SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 STRAIN: ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 SOURCE 5 / 1C / PRS 101 / PAO1; SOURCE 6 GENE: NAGZ, PA3005; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CELL-WALL RECYCLING BETA-HEXOSAMINIDASE PSEUDOMONAS AERUGINOSA KEYWDS 2 INHIBITOR, GENE REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR I.ACEBRON,C.ARTOLA-RECOLONS,K.MAHASENAN,S.MOBASHERY,J.A.HERMOSO REVDAT 4 01-MAY-24 5LY7 1 REMARK REVDAT 3 31-MAY-17 5LY7 1 JRNL REVDAT 2 24-MAY-17 5LY7 1 JRNL REVDAT 1 17-MAY-17 5LY7 0 JRNL AUTH I.ACEBRON,K.V.MAHASENAN,S.DE BENEDETTI,M.LEE, JRNL AUTH 2 C.ARTOLA-RECOLONS,D.HESEK,H.WANG,J.A.HERMOSO,S.MOBASHERY JRNL TITL CATALYTIC CYCLE OF THE N-ACETYLGLUCOSAMINIDASE NAGZ FROM JRNL TITL 2 PSEUDOMONAS AERUGINOSA. JRNL REF J. AM. CHEM. SOC. V. 139 6795 2017 JRNL REFN ESSN 1520-5126 JRNL PMID 28482153 JRNL DOI 10.1021/JACS.7B01626 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0151 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 73.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 10175 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) : 0.221 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.291 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 565 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) : 3.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 731 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.99 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 35 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5082 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 15 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.14 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.29000 REMARK 3 B22 (A**2) : -2.99000 REMARK 3 B33 (A**2) : -1.69000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.53000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.670 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.542 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 31.324 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.896 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.819 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5227 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5092 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7073 ; 1.509 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11627 ; 1.963 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 664 ; 6.051 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 247 ;37.473 ;22.632 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 845 ;16.196 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 63 ;10.978 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 779 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6008 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1235 ; 0.006 ; 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): 2662 ;22.072 ; 1.046 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2661 ;21.995 ; 1.043 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3321 ;21.026 ; 1.681 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3322 ;21.059 ; 1.683 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2565 ;32.705 ; 1.863 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2565 ;32.692 ; 1.864 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3752 ;29.748 ; 2.395 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5704 ;28.006 ;14.963 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5705 ;28.006 ;14.966 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A -1 332 B -1 332 21880 0.02 0.05 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 REMARK 4 REMARK 4 5LY7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001560. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97925 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL.CUT 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 : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10753 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 73.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : 0.18200 REMARK 200 R SYM (I) : 0.14600 REMARK 200 FOR THE DATA SET : 4.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.40500 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: PHASER REMARK 200 STARTING MODEL: CRYSTALLOGRAPHIC STRUCTURE OF NAGZ FROM REMARK 200 PSEUDOMONAS AERUGINOSA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 8000, 100 MM SODIUM CACODYLATE REMARK 280 PH 6.0, 200 MM SODIUM ACETATE PH 6.0, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 291K 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 33.46500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 SER A -17 REMARK 465 HIS 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 SER A -10 REMARK 465 SER A -9 REMARK 465 GLY A -8 REMARK 465 LEU A -7 REMARK 465 VAL A -6 REMARK 465 PRO A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 MET B -20 REMARK 465 GLY B -19 REMARK 465 SER B -18 REMARK 465 SER B -17 REMARK 465 HIS 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 SER B -10 REMARK 465 SER B -9 REMARK 465 GLY B -8 REMARK 465 LEU B -7 REMARK 465 VAL B -6 REMARK 465 PRO B -5 REMARK 465 ARG B -4 REMARK 465 GLY B -3 REMARK 465 SER B -2 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 OD2 ASP A 62 O6 NOK A 402 2.12 REMARK 500 NH2 ARG A 77 O2 PEG B 401 2.14 REMARK 500 O TRP B 99 OG1 THR B 103 2.16 REMARK 500 O TRP A 99 OG1 THR A 103 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A -1 C MET A 1 N 0.197 REMARK 500 ARG A 77 C LEU A 78 N -0.162 REMARK 500 HIS B -1 C MET B 1 N 0.197 REMARK 500 ARG B 77 C LEU B 78 N -0.163 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 71 CA - CB - CG ANGL. DEV. = 14.5 DEGREES REMARK 500 LEU B 71 CA - CB - CG ANGL. DEV. = 14.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE A 33 -164.84 -118.10 REMARK 500 ASN A 89 71.17 -108.07 REMARK 500 ARG A 124 -55.51 -129.78 REMARK 500 ALA A 176 -169.69 -106.13 REMARK 500 SER A 190 -88.44 -103.04 REMARK 500 GLU A 234 -63.19 -95.19 REMARK 500 LYS A 236 32.75 71.51 REMARK 500 ASN A 276 -17.00 84.61 REMARK 500 GLN A 329 48.34 70.87 REMARK 500 SER B 4 -179.98 -174.22 REMARK 500 PHE B 33 -164.70 -118.13 REMARK 500 ASN B 89 71.14 -108.34 REMARK 500 ARG B 124 -55.73 -129.94 REMARK 500 ALA B 176 -169.46 -105.84 REMARK 500 SER B 190 -88.30 -103.00 REMARK 500 GLU B 234 -63.23 -95.31 REMARK 500 ASN B 276 -17.13 84.76 REMARK 500 GLN B 329 48.92 70.55 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 PEG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NOK A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NOK B 402 DBREF 5LY7 A 1 332 UNP Q9HZK0 NAGZ_PSEAE 1 332 DBREF 5LY7 B 1 332 UNP Q9HZK0 NAGZ_PSEAE 1 332 SEQADV 5LY7 MET A -20 UNP Q9HZK0 INITIATING METHIONINE SEQADV 5LY7 GLY A -19 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER A -18 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER A -17 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS A -16 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS A -15 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS A -14 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS A -13 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS A -12 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS A -11 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER A -10 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER A -9 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 GLY A -8 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 LEU A -7 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 VAL A -6 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 PRO A -5 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 ARG A -4 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 GLY A -3 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER A -2 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS A -1 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 ALA A 174 UNP Q9HZK0 HIS 174 ENGINEERED MUTATION SEQADV 5LY7 MET B -20 UNP Q9HZK0 INITIATING METHIONINE SEQADV 5LY7 GLY B -19 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER B -18 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER B -17 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS B -16 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS B -15 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS B -14 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS B -13 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS B -12 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS B -11 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER B -10 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER B -9 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 GLY B -8 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 LEU B -7 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 VAL B -6 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 PRO B -5 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 ARG B -4 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 GLY B -3 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 SER B -2 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 HIS B -1 UNP Q9HZK0 EXPRESSION TAG SEQADV 5LY7 ALA B 174 UNP Q9HZK0 HIS 174 ENGINEERED MUTATION SEQRES 1 A 352 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 352 LEU VAL PRO ARG GLY SER HIS MET GLN GLY SER LEU MET SEQRES 3 A 352 LEU ASP ILE GLY GLY THR TRP LEU THR ALA GLU ASP ARG SEQRES 4 A 352 GLN ILE LEU ARG HIS PRO GLU VAL GLY GLY LEU ILE ILE SEQRES 5 A 352 PHE ALA ARG ASN ILE GLU HIS PRO ALA GLN VAL ARG GLU SEQRES 6 A 352 LEU CYS ALA ALA ILE ARG ALA ILE ARG PRO ASP LEU LEU SEQRES 7 A 352 LEU ALA VAL ASP GLN GLU GLY GLY ARG VAL GLN ARG LEU SEQRES 8 A 352 ARG GLN GLY PHE VAL ARG LEU PRO ALA MET ARG ALA ILE SEQRES 9 A 352 ALA ASP ASN PRO ASN ALA GLU GLU LEU ALA GLU HIS CYS SEQRES 10 A 352 GLY TRP LEU MET ALA THR GLU VAL GLN ALA VAL GLY LEU SEQRES 11 A 352 ASP LEU SER PHE ALA PRO VAL LEU ASP LEU ASP HIS GLN SEQRES 12 A 352 ARG SER ALA VAL VAL GLY SER ARG ALA PHE GLU GLY ASP SEQRES 13 A 352 PRO GLU ARG ALA ALA LEU LEU ALA GLY ALA PHE ILE ARG SEQRES 14 A 352 GLY MET HIS ALA ALA GLY MET ALA ALA THR GLY LYS HIS SEQRES 15 A 352 PHE PRO GLY HIS GLY TRP ALA GLU ALA ASP SER ALA VAL SEQRES 16 A 352 ALA ILE PRO GLU ASP ALA ARG SER LEU GLU GLU ILE ARG SEQRES 17 A 352 ARG SER ASP LEU VAL PRO PHE ALA ARG LEU ALA GLY GLN SEQRES 18 A 352 LEU ASP ALA LEU MET PRO ALA HIS VAL ILE TYR PRO GLN SEQRES 19 A 352 VAL ASP PRO GLN PRO ALA GLY PHE SER ARG ARG TRP LEU SEQRES 20 A 352 GLN GLU ILE LEU ARG GLY GLU LEU LYS PHE ASP GLY VAL SEQRES 21 A 352 ILE PHE SER ASP ASP LEU SER MET ALA GLY ALA HIS VAL SEQRES 22 A 352 VAL GLY ASP ALA ALA SER ARG ILE GLU ALA ALA LEU ALA SEQRES 23 A 352 ALA GLY CYS ASP MET GLY LEU VAL CYS ASN ASP ARG ALA SEQRES 24 A 352 SER ALA GLU LEU ALA LEU ALA ALA LEU GLN ARG LEU LYS SEQRES 25 A 352 VAL THR PRO PRO SER ARG LEU GLN ARG MET ARG GLY LYS SEQRES 26 A 352 GLY TYR ALA ASN THR ASP TYR ARG GLN GLN PRO ARG TRP SEQRES 27 A 352 LEU GLU ALA LEU SER ALA LEU ARG ALA ALA GLN LEU ILE SEQRES 28 A 352 ASP SEQRES 1 B 352 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 352 LEU VAL PRO ARG GLY SER HIS MET GLN GLY SER LEU MET SEQRES 3 B 352 LEU ASP ILE GLY GLY THR TRP LEU THR ALA GLU ASP ARG SEQRES 4 B 352 GLN ILE LEU ARG HIS PRO GLU VAL GLY GLY LEU ILE ILE SEQRES 5 B 352 PHE ALA ARG ASN ILE GLU HIS PRO ALA GLN VAL ARG GLU SEQRES 6 B 352 LEU CYS ALA ALA ILE ARG ALA ILE ARG PRO ASP LEU LEU SEQRES 7 B 352 LEU ALA VAL ASP GLN GLU GLY GLY ARG VAL GLN ARG LEU SEQRES 8 B 352 ARG GLN GLY PHE VAL ARG LEU PRO ALA MET ARG ALA ILE SEQRES 9 B 352 ALA ASP ASN PRO ASN ALA GLU GLU LEU ALA GLU HIS CYS SEQRES 10 B 352 GLY TRP LEU MET ALA THR GLU VAL GLN ALA VAL GLY LEU SEQRES 11 B 352 ASP LEU SER PHE ALA PRO VAL LEU ASP LEU ASP HIS GLN SEQRES 12 B 352 ARG SER ALA VAL VAL GLY SER ARG ALA PHE GLU GLY ASP SEQRES 13 B 352 PRO GLU ARG ALA ALA LEU LEU ALA GLY ALA PHE ILE ARG SEQRES 14 B 352 GLY MET HIS ALA ALA GLY MET ALA ALA THR GLY LYS HIS SEQRES 15 B 352 PHE PRO GLY HIS GLY TRP ALA GLU ALA ASP SER ALA VAL SEQRES 16 B 352 ALA ILE PRO GLU ASP ALA ARG SER LEU GLU GLU ILE ARG SEQRES 17 B 352 ARG SER ASP LEU VAL PRO PHE ALA ARG LEU ALA GLY GLN SEQRES 18 B 352 LEU ASP ALA LEU MET PRO ALA HIS VAL ILE TYR PRO GLN SEQRES 19 B 352 VAL ASP PRO GLN PRO ALA GLY PHE SER ARG ARG TRP LEU SEQRES 20 B 352 GLN GLU ILE LEU ARG GLY GLU LEU LYS PHE ASP GLY VAL SEQRES 21 B 352 ILE PHE SER ASP ASP LEU SER MET ALA GLY ALA HIS VAL SEQRES 22 B 352 VAL GLY ASP ALA ALA SER ARG ILE GLU ALA ALA LEU ALA SEQRES 23 B 352 ALA GLY CYS ASP MET GLY LEU VAL CYS ASN ASP ARG ALA SEQRES 24 B 352 SER ALA GLU LEU ALA LEU ALA ALA LEU GLN ARG LEU LYS SEQRES 25 B 352 VAL THR PRO PRO SER ARG LEU GLN ARG MET ARG GLY LYS SEQRES 26 B 352 GLY TYR ALA ASN THR ASP TYR ARG GLN GLN PRO ARG TRP SEQRES 27 B 352 LEU GLU ALA LEU SER ALA LEU ARG ALA ALA GLN LEU ILE SEQRES 28 B 352 ASP HET PEG A 401 7 HET NOK A 402 14 HET PEG B 401 7 HET NOK B 402 14 HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM NOK 2-ACETAMIDO-1,2-DIDEOXYNOJIRMYCIN FORMUL 3 PEG 2(C4 H10 O3) FORMUL 4 NOK 2(C8 H16 N2 O4) FORMUL 7 HOH *15(H2 O) HELIX 1 AA1 THR A 15 ARG A 23 1 9 HELIX 2 AA2 PHE A 33 ILE A 37 5 5 HELIX 3 AA3 HIS A 39 ARG A 54 1 16 HELIX 4 AA4 ALA A 80 ASP A 86 1 7 HELIX 5 AA5 ASN A 89 VAL A 108 1 20 HELIX 6 AA6 VAL A 128 ALA A 132 5 5 HELIX 7 AA7 ASP A 136 ALA A 154 1 19 HELIX 8 AA8 SER A 183 SER A 190 1 8 HELIX 9 AA9 LEU A 192 GLY A 200 1 9 HELIX 10 AB1 SER A 223 GLN A 228 1 6 HELIX 11 AB2 MET A 248 HIS A 252 5 5 HELIX 12 AB3 ASP A 256 GLY A 268 1 13 HELIX 13 AB4 ASP A 277 LYS A 292 1 16 HELIX 14 AB5 PRO A 296 ARG A 303 5 8 HELIX 15 AB6 THR A 310 GLN A 314 5 5 HELIX 16 AB7 GLN A 315 ALA A 328 1 14 HELIX 17 AB8 THR B 15 ARG B 23 1 9 HELIX 18 AB9 PHE B 33 ILE B 37 5 5 HELIX 19 AC1 HIS B 39 ARG B 54 1 16 HELIX 20 AC2 ALA B 80 ASP B 86 1 7 HELIX 21 AC3 ASN B 89 VAL B 108 1 20 HELIX 22 AC4 VAL B 128 ALA B 132 5 5 HELIX 23 AC5 ASP B 136 ALA B 154 1 19 HELIX 24 AC6 SER B 183 SER B 190 1 8 HELIX 25 AC7 LEU B 192 GLY B 200 1 9 HELIX 26 AC8 SER B 223 GLN B 228 1 6 HELIX 27 AC9 MET B 248 HIS B 252 5 5 HELIX 28 AD1 ASP B 256 ALA B 267 1 12 HELIX 29 AD2 ASP B 277 LYS B 292 1 16 HELIX 30 AD3 PRO B 296 ARG B 303 5 8 HELIX 31 AD4 THR B 310 GLN B 314 5 5 HELIX 32 AD5 GLN B 315 ALA B 328 1 14 SHEET 1 AA1 8 LEU A 112 SER A 113 0 SHEET 2 AA1 8 LEU A 58 VAL A 61 1 O LEU A 59 N LEU A 112 SHEET 3 AA1 8 GLY A 29 ILE A 32 1 N LEU A 30 O LEU A 58 SHEET 4 AA1 8 LEU A 5 ASP A 8 1 N LEU A 7 O ILE A 31 SHEET 5 AA1 8 MET A 271 LEU A 273 1 O GLY A 272 N MET A 6 SHEET 6 AA1 8 VAL A 240 ASP A 245 1 N SER A 243 O MET A 271 SHEET 7 AA1 8 ALA A 204 PRO A 207 1 N LEU A 205 O VAL A 240 SHEET 8 AA1 8 THR A 159 PHE A 163 1 N GLY A 160 O ALA A 204 SHEET 1 AA2 2 GLN A 63 GLY A 65 0 SHEET 2 AA2 2 VAL A 68 GLN A 69 -1 O VAL A 68 N GLU A 64 SHEET 1 AA3 2 ILE A 211 TYR A 212 0 SHEET 2 AA3 2 ASP A 216 PRO A 219 -1 N ASP A 216 O TYR A 212 SHEET 1 AA4 8 LEU B 112 SER B 113 0 SHEET 2 AA4 8 LEU B 58 VAL B 61 1 O LEU B 59 N LEU B 112 SHEET 3 AA4 8 GLY B 29 ILE B 32 1 N LEU B 30 O LEU B 58 SHEET 4 AA4 8 LEU B 5 ASP B 8 1 N LEU B 7 O ILE B 31 SHEET 5 AA4 8 MET B 271 LEU B 273 1 O GLY B 272 N MET B 6 SHEET 6 AA4 8 VAL B 240 ASP B 245 1 N SER B 243 O MET B 271 SHEET 7 AA4 8 ALA B 204 PRO B 207 1 N LEU B 205 O VAL B 240 SHEET 8 AA4 8 THR B 159 PHE B 163 1 N GLY B 160 O ALA B 204 SHEET 1 AA5 2 GLN B 63 GLY B 65 0 SHEET 2 AA5 2 VAL B 68 GLN B 69 -1 O VAL B 68 N GLU B 64 SHEET 1 AA6 2 ILE B 211 TYR B 212 0 SHEET 2 AA6 2 ASP B 216 PRO B 219 -1 N ASP B 216 O TYR B 212 CISPEP 1 ALA A 115 PRO A 116 0 -5.04 CISPEP 2 LYS A 161 HIS A 162 0 -0.33 CISPEP 3 PHE A 163 PRO A 164 0 -2.02 CISPEP 4 ALA B 115 PRO B 116 0 -4.93 CISPEP 5 LYS B 161 HIS B 162 0 -0.38 CISPEP 6 PHE B 163 PRO B 164 0 -2.08 SITE 1 AC1 3 GLN A 289 ARG A 290 ARG B 290 SITE 1 AC2 7 PHE A 33 ASP A 62 ARG A 131 LYS A 161 SITE 2 AC2 7 HIS A 162 ASP A 244 MET A 248 SITE 1 AC3 6 GLN A 73 ARG A 77 ARG B 77 LEU B 330 SITE 2 AC3 6 ILE B 331 ASP B 332 SITE 1 AC4 8 PHE B 33 ASP B 62 ARG B 131 LYS B 161 SITE 2 AC4 8 HIS B 162 HIS B 166 ASP B 244 MET B 248 CRYST1 65.140 66.930 74.060 90.00 98.57 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 0.015352 0.000000 0.002313 0.00000 SCALE2 0.000000 0.014941 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013655 0.00000