HEADER HYDROLASE 27-NOV-16 5MI6 TITLE BTGH84 MUTANT WITH COVALENT MODIFICATION BY MA3 IN COMPLEX WITH TITLE 2 THIAMET G COMPND MOL_ID: 1; COMPND 2 MOLECULE: O-GLCNACASE BT_4395; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BETA-N-ACETYLGLUCOSAMINIDASE,BETA-N-ACETYLHEXOSAMINIDASE, COMPND 5 BETA-HEXOSAMINIDASE,HEXOSAMINIDASE B,N-ACETYL-BETA-GLUCOSAMINIDASE; COMPND 6 EC: 3.2.1.169,3.2.1.52; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON VPI-5482; SOURCE 3 ORGANISM_TAXID: 226186; SOURCE 4 GENE: BT_4395; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: YSBLLICPET28 KEYWDS HYDROLASE, ACTIVATOR EXPDTA X-RAY DIFFRACTION AUTHOR J.F.DARBY,G.J.DAVIES,R.E.HUBBARD REVDAT 3 17-JAN-24 5MI6 1 REMARK REVDAT 2 06-DEC-17 5MI6 1 JRNL REVDAT 1 01-NOV-17 5MI6 0 JRNL AUTH J.F.DARBY,M.ATOBE,J.D.FIRTH,P.BOND,G.J.DAVIES,P.O'BRIEN, JRNL AUTH 2 R.E.HUBBARD JRNL TITL INCREASE OF ENZYME ACTIVITY THROUGH SPECIFIC COVALENT JRNL TITL 2 MODIFICATION WITH FRAGMENTS. JRNL REF CHEM SCI V. 8 7772 2017 JRNL REFN ISSN 2041-6520 JRNL PMID 29163914 JRNL DOI 10.1039/C7SC01966A REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 66476 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3517 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) : 4875 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.46 REMARK 3 BIN R VALUE (WORKING SET) : 0.3270 REMARK 3 BIN FREE R VALUE SET COUNT : 258 REMARK 3 BIN FREE R VALUE : 0.3390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5569 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 325 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.78000 REMARK 3 B22 (A**2) : -0.68000 REMARK 3 B33 (A**2) : 1.31000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.37000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.152 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.147 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.689 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5785 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5489 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7832 ; 1.567 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12665 ; 0.958 ; 2.996 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 693 ; 6.503 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 281 ;37.114 ;25.018 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1018 ;15.512 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;15.072 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 835 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6511 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1328 ; 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): 2757 ; 2.328 ; 3.455 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2756 ; 2.327 ; 3.453 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3440 ; 3.654 ; 5.159 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3441 ; 3.653 ; 5.160 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3028 ; 2.869 ; 3.758 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3028 ; 2.869 ; 3.758 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4388 ; 4.572 ; 5.480 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6601 ; 6.648 ;38.996 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6532 ; 6.546 ;38.858 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 : NULL 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 5MI6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002120. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-FEB-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70077 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 49.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.11200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.75000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2CHO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4% PEG 8K, 125MM IMIDAZOLE, 3% TMAO, REMARK 280 15% ETHYLENE GLYCOL, PH 8.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 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 98.01150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.83100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 98.01150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.83100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 1.0 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 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 -10 REMARK 465 GLY A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 GLN A 0 REMARK 465 TRP A 1 REMARK 465 ASN A 2 REMARK 465 VAL A 3 REMARK 465 GLU A 600 REMARK 465 GLN A 601 REMARK 465 ILE A 602 REMARK 465 GLY A 649 REMARK 465 LYS A 650 REMARK 465 ASP A 651 REMARK 465 ALA A 652 REMARK 465 PRO A 653 REMARK 465 SER A 654 REMARK 465 THR A 655 REMARK 465 TRP A 656 REMARK 465 GLY A 657 REMARK 465 ARG A 658 REMARK 465 LEU A 659 REMARK 465 SER A 678 REMARK 465 ASP A 699 REMARK 465 GLU A 700 REMARK 465 GLU A 701 REMARK 465 GLN A 702 REMARK 465 GLN A 703 REMARK 465 VAL A 704 REMARK 465 TYR A 705 REMARK 465 LEU A 706 REMARK 465 ARG A 707 REMARK 465 LYS A 716 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 O HOH A 987 O HOH A 1107 1.79 REMARK 500 O HOH A 987 O HOH A 1198 2.14 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 ASP A 427 CB - CG - OD1 ANGL. DEV. = 5.5 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 TYR A 124 159.30 177.74 REMARK 500 SER A 172 -160.06 -122.88 REMARK 500 PHE A 265 -61.15 -138.09 REMARK 500 ASP A 271 35.54 -154.72 REMARK 500 ASN A 273 -84.66 -102.29 REMARK 500 VAL A 346 56.96 -148.03 REMARK 500 ALA A 414 46.83 -152.12 REMARK 500 SER A 426 -38.42 -130.93 REMARK 500 ARG A 519 -80.40 -53.70 REMARK 500 ASN A 520 -169.66 -122.22 REMARK 500 VAL A 560 -51.72 -120.50 REMARK 500 ALA A 611 -124.16 47.38 REMARK 500 ASN A 620 -72.81 -125.54 REMARK 500 GLU A 621 101.45 -41.10 REMARK 500 GLU A 642 -60.23 -92.40 REMARK 500 ASN A 696 118.01 -10.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN A 16 LYS A 17 149.39 REMARK 500 VAL A 622 VAL A 623 -147.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1224 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH A1225 DISTANCE = 6.21 ANGSTROMS 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 CA A 806 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 32 O REMARK 620 2 GLU A 61 OE1 95.7 REMARK 620 3 ASP A 64 OD1 96.3 119.7 REMARK 620 4 ASP A 64 OD2 71.9 81.1 48.1 REMARK 620 5 HOH A1046 O 85.9 72.1 167.5 143.2 REMARK 620 6 HOH A1148 O 81.5 161.3 79.0 115.0 89.2 REMARK 620 7 HOH A1174 O 168.0 88.9 91.1 119.9 84.9 90.7 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NHT A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 7NQ A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 806 DBREF 5MI6 A 2 716 UNP Q89ZI2 OGA_BACTN 23 737 SEQADV 5MI6 MET A -10 UNP Q89ZI2 INITIATING METHIONINE SEQADV 5MI6 GLY A -9 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 SER A -8 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 SER A -7 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 HIS A -6 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 HIS A -5 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 HIS A -4 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 HIS A -3 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 HIS A -2 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 HIS A -1 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 GLN A 0 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 TRP A 1 UNP Q89ZI2 EXPRESSION TAG SEQADV 5MI6 SER A 420 UNP Q89ZI2 CYS 441 ENGINEERED MUTATION SEQADV 5MI6 CYS A 550 UNP Q89ZI2 TYR 571 ENGINEERED MUTATION SEQADV 5MI6 SER A 654 UNP Q89ZI2 CYS 675 ENGINEERED MUTATION SEQRES 1 A 727 MET GLY SER SER HIS HIS HIS HIS HIS HIS GLN TRP ASN SEQRES 2 A 727 VAL SER LEU GLN PRO PRO PRO GLN GLN LEU ILE VAL GLN SEQRES 3 A 727 ASN LYS THR ILE ASP LEU PRO ALA VAL TYR GLN LEU ASN SEQRES 4 A 727 GLY GLY GLU GLU ALA ASN PRO HIS ALA VAL LYS VAL LEU SEQRES 5 A 727 LYS GLU LEU LEU SER GLY LYS GLN SER SER LYS LYS GLY SEQRES 6 A 727 MET LEU ILE SER ILE GLY GLU LYS GLY ASP LYS SER VAL SEQRES 7 A 727 ARG LYS TYR SER ARG GLN ILE PRO ASP HIS LYS GLU GLY SEQRES 8 A 727 TYR TYR LEU SER VAL ASN GLU LYS GLU ILE VAL LEU ALA SEQRES 9 A 727 GLY ASN ASP GLU ARG GLY THR TYR TYR ALA LEU GLN THR SEQRES 10 A 727 PHE ALA GLN LEU LEU LYS ASP GLY LYS LEU PRO GLU VAL SEQRES 11 A 727 GLU ILE LYS ASP TYR PRO SER VAL ARG TYR ARG GLY VAL SEQRES 12 A 727 VAL GLU GLY PHE TYR GLY THR PRO TRP SER HIS GLN ALA SEQRES 13 A 727 ARG LEU SER GLN LEU LYS PHE TYR GLY LYS ASN LYS MET SEQRES 14 A 727 ASN THR TYR ILE TYR GLY PRO LYS ASP ASP PRO TYR HIS SEQRES 15 A 727 SER ALA PRO ASN TRP ARG LEU PRO TYR PRO ASP LYS GLU SEQRES 16 A 727 ALA ALA GLN LEU GLN GLU LEU VAL ALA VAL ALA ASN GLU SEQRES 17 A 727 ASN GLU VAL ASP PHE VAL TRP ALA ILE HIS PRO GLY GLN SEQRES 18 A 727 ASP ILE LYS TRP ASN LYS GLU ASP ARG ASP LEU LEU LEU SEQRES 19 A 727 ALA LYS PHE GLU LYS MET TYR GLN LEU GLY VAL ARG SER SEQRES 20 A 727 PHE ALA VAL PHE PHE ASP ASP ILE SER GLY GLU GLY THR SEQRES 21 A 727 ASN PRO GLN LYS GLN ALA GLU LEU LEU ASN TYR ILE ASP SEQRES 22 A 727 GLU LYS PHE ALA GLN VAL LYS PRO ASP ILE ASN GLN LEU SEQRES 23 A 727 VAL MET CYS PRO THR GLU TYR ASN LYS SER TRP SER ASN SEQRES 24 A 727 PRO ASN GLY ASN TYR LEU THR THR LEU GLY ASP LYS LEU SEQRES 25 A 727 ASN PRO SER ILE GLN ILE MET TRP THR GLY ASP ARG VAL SEQRES 26 A 727 ILE SER ASP ILE THR ARG ASP GLY ILE SER TRP ILE ASN SEQRES 27 A 727 GLU ARG ILE LYS ARG PRO ALA TYR ILE TRP TRP ASN PHE SEQRES 28 A 727 PRO VAL SER ASP TYR VAL ARG ASP HIS LEU LEU LEU GLY SEQRES 29 A 727 PRO VAL TYR GLY ASN ASP THR THR ILE ALA LYS GLU MET SEQRES 30 A 727 SER GLY PHE VAL THR ASN PRO MET GLU HIS ALA GLU SER SEQRES 31 A 727 SER LYS ILE ALA ILE TYR SER VAL ALA SER TYR ALA TRP SEQRES 32 A 727 ASN PRO ALA LYS TYR ASP THR TRP GLN THR TRP LYS ASP SEQRES 33 A 727 ALA ILE ARG THR ILE LEU PRO SER ALA ALA GLU GLU LEU SEQRES 34 A 727 GLU SER PHE ALA MET HIS ASN SER ASP LEU GLY PRO ASN SEQRES 35 A 727 GLY HIS GLY TYR ARG ARG GLU GLU SER MET ASP ILE GLN SEQRES 36 A 727 PRO ALA ALA GLU ARG PHE LEU LYS ALA PHE LYS GLU GLY SEQRES 37 A 727 LYS ASN TYR ASP LYS ALA ASP PHE GLU THR LEU GLN TYR SEQRES 38 A 727 THR PHE GLU ARG MET LYS GLU SER ALA ASP ILE LEU LEU SEQRES 39 A 727 MET ASN THR GLU ASN LYS PRO LEU ILE VAL GLU ILE THR SEQRES 40 A 727 PRO TRP VAL HIS GLN PHE LYS LEU THR ALA GLU MET GLY SEQRES 41 A 727 GLU GLU VAL LEU LYS MET VAL GLU GLY ARG ASN GLU SER SEQRES 42 A 727 TYR PHE LEU ARG LYS TYR ASN HIS VAL LYS ALA LEU GLN SEQRES 43 A 727 GLN GLN MET PHE TYR ILE ASP GLN THR SER ASN GLN ASN SEQRES 44 A 727 PRO CYS GLN PRO GLY VAL LYS THR ALA THR ARG VAL ILE SEQRES 45 A 727 LYS PRO LEU ILE ASP ARG THR PHE ALA THR VAL VAL LYS SEQRES 46 A 727 PHE PHE ASN GLN LYS PHE ASN ALA HIS LEU ASP ALA THR SEQRES 47 A 727 THR ASP TYR MET PRO HIS LYS MET ILE SER ASN VAL GLU SEQRES 48 A 727 GLN ILE LYS ASN LEU PRO LEU GLN VAL LYS ALA ASN ARG SEQRES 49 A 727 VAL LEU ILE SER PRO ALA ASN GLU VAL VAL LYS TRP ALA SEQRES 50 A 727 ALA GLY ASN SER VAL GLU ILE GLU LEU ASP ALA ILE TYR SEQRES 51 A 727 PRO GLY GLU ASN ILE GLN ILE ASN PHE GLY LYS ASP ALA SEQRES 52 A 727 PRO SER THR TRP GLY ARG LEU GLU ILE SER THR ASP GLY SEQRES 53 A 727 LYS GLU TRP LYS THR VAL ASP LEU LYS GLN LYS GLU SER SEQRES 54 A 727 ARG LEU SER ALA GLY LEU GLN LYS ALA PRO VAL LYS PHE SEQRES 55 A 727 VAL ARG PHE THR ASN VAL SER ASP GLU GLU GLN GLN VAL SEQRES 56 A 727 TYR LEU ARG GLN PHE VAL LEU THR ILE GLU LYS LYS HET NHT A 801 16 HET 7NQ A 802 18 HET EDO A 803 4 HET EDO A 804 4 HET EDO A 805 4 HET CA A 806 1 HETNAM NHT (3AR,5R,6S,7R,7AR)-2-(ETHYLAMINO)-5-(HYDROXYMETHYL)-5, HETNAM 2 NHT 6,7,7A-TETRAHYDRO-3AH-PYRANO[3,2-D][1,3]THIAZOLE-6,7- HETNAM 3 NHT DIOL HETNAM 7NQ ~{N}-(4-ETHOXYQUINAZOLIN-2-YL)PROPANAMIDE HETNAM EDO 1,2-ETHANEDIOL HETNAM CA CALCIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NHT C9 H16 N2 O4 S FORMUL 3 7NQ C13 H15 N3 O2 FORMUL 4 EDO 3(C2 H6 O2) FORMUL 7 CA CA 2+ FORMUL 8 HOH *325(H2 O) HELIX 1 AA1 ASN A 34 SER A 46 1 13 HELIX 2 AA2 ASP A 64 ILE A 74 5 11 HELIX 3 AA3 ASP A 96 LEU A 111 1 16 HELIX 4 AA4 SER A 142 ASN A 156 1 15 HELIX 5 AA5 PRO A 181 ASN A 198 1 18 HELIX 6 AA6 ASN A 215 LEU A 232 1 18 HELIX 7 AA7 GLY A 246 THR A 249 5 4 HELIX 8 AA8 ASN A 250 PHE A 265 1 16 HELIX 9 AA9 ASN A 283 SER A 287 5 5 HELIX 10 AB1 ASN A 292 LEU A 301 1 10 HELIX 11 AB2 THR A 319 LYS A 331 1 13 HELIX 12 AB3 ILE A 362 LYS A 364 5 3 HELIX 13 AB4 SER A 380 ASN A 393 1 14 HELIX 14 AB5 PRO A 394 TYR A 397 5 4 HELIX 15 AB6 ASP A 398 LEU A 411 1 14 HELIX 16 AB7 ALA A 414 MET A 423 1 10 HELIX 17 AB8 ILE A 443 GLY A 457 1 15 HELIX 18 AB9 ASP A 461 MET A 484 1 24 HELIX 19 AC1 ASN A 488 GLY A 518 1 31 HELIX 20 AC2 ASN A 520 SER A 545 1 26 HELIX 21 AC3 VAL A 560 ASN A 581 1 22 SHEET 1 AA1 7 GLN A 11 ASP A 20 0 SHEET 2 AA1 7 LYS A 115 ASP A 123 -1 O LEU A 116 N ILE A 19 SHEET 3 AA1 7 TYR A 81 VAL A 85 -1 N LEU A 83 O ILE A 121 SHEET 4 AA1 7 GLU A 89 GLY A 94 -1 O ALA A 93 N TYR A 82 SHEET 5 AA1 7 MET A 55 GLU A 61 1 N SER A 58 O LEU A 92 SHEET 6 AA1 7 VAL A 24 ASN A 28 1 N GLN A 26 O MET A 55 SHEET 7 AA1 7 GLN A 49 SER A 50 1 O GLN A 49 N TYR A 25 SHEET 1 AA2 9 TYR A 129 GLU A 134 0 SHEET 2 AA2 9 THR A 160 TYR A 163 1 O ILE A 162 N VAL A 132 SHEET 3 AA2 9 ASP A 201 ILE A 206 1 O VAL A 203 N TYR A 163 SHEET 4 AA2 9 SER A 236 PHE A 240 1 O PHE A 240 N ILE A 206 SHEET 5 AA2 9 LEU A 275 CYS A 278 1 O CYS A 278 N VAL A 239 SHEET 6 AA2 9 GLN A 306 TRP A 309 1 O GLN A 306 N MET A 277 SHEET 7 AA2 9 ALA A 334 TRP A 338 1 O TRP A 337 N TRP A 309 SHEET 8 AA2 9 MET A 366 THR A 371 1 O VAL A 370 N TRP A 338 SHEET 9 AA2 9 TYR A 129 GLU A 134 1 N TYR A 129 O PHE A 369 SHEET 1 AA3 4 LYS A 594 SER A 597 0 SHEET 2 AA3 4 SER A 630 ILE A 646 -1 O GLU A 634 N LYS A 594 SHEET 3 AA3 4 PRO A 688 THR A 695 -1 O LYS A 690 N LEU A 635 SHEET 4 AA3 4 ILE A 661 SER A 662 -1 N SER A 662 O PHE A 691 SHEET 1 AA4 5 LEU A 607 LYS A 610 0 SHEET 2 AA4 5 ARG A 613 ILE A 616 -1 O ARG A 613 N LYS A 610 SHEET 3 AA4 5 PHE A 709 ILE A 713 -1 O LEU A 711 N VAL A 614 SHEET 4 AA4 5 SER A 630 ILE A 646 -1 N ASN A 643 O THR A 712 SHEET 5 AA4 5 LEU A 680 GLY A 683 -1 O LEU A 680 N ILE A 646 LINK SG CYS A 550 C7 7NQ A 802 1555 1555 1.63 LINK O GLU A 32 CA CA A 806 1555 1555 2.34 LINK OE1 GLU A 61 CA CA A 806 1555 1555 2.39 LINK OD1 ASP A 64 CA CA A 806 1555 1555 2.57 LINK OD2 ASP A 64 CA CA A 806 1555 1555 2.77 LINK CA CA A 806 O HOH A1046 1555 1555 2.31 LINK CA CA A 806 O HOH A1148 1555 1555 2.34 LINK CA CA A 806 O HOH A1174 1555 1555 2.32 CISPEP 1 GLN A 6 PRO A 7 0 -14.64 CISPEP 2 ALA A 173 PRO A 174 0 -6.97 CISPEP 3 PHE A 340 PRO A 341 0 10.19 SITE 1 AC1 15 GLY A 135 PHE A 136 TYR A 137 LYS A 166 SITE 2 AC1 15 ASP A 242 ASP A 243 TYR A 282 THR A 310 SITE 3 AC1 15 VAL A 314 TRP A 337 ASN A 339 ASP A 344 SITE 4 AC1 15 ASN A 372 7NQ A 802 EDO A 804 SITE 1 AC2 6 TYR A 137 ASP A 344 ARG A 347 CYS A 550 SITE 2 AC2 6 NHT A 801 EDO A 804 SITE 1 AC3 2 GLY A 518 ASN A 520 SITE 1 AC4 4 ASP A 243 HIS A 433 NHT A 801 7NQ A 802 SITE 1 AC5 4 TYR A 163 GLU A 184 GLN A 187 HOH A 923 SITE 1 AC6 6 GLU A 32 GLU A 61 ASP A 64 HOH A1046 SITE 2 AC6 6 HOH A1148 HOH A1174 CRYST1 196.023 51.662 112.258 90.00 113.34 90.00 C 1 2 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 0.005101 0.000000 0.002201 0.00000 SCALE2 0.000000 0.019357 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009702 0.00000