HEADER HYDROLASE 25-NOV-23 8V31 TITLE STRUCTURE OF ALISTIPES SP. 3-KETO-2-HYDROXY-GLUCAL-HYDRATASE AL2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSYL HYDROLASE; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: 3-KETO-2-HYDROXY-GLUCAL-HYDRATASE AL2; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ALISTIPES; SOURCE 3 ORGANISM_TAXID: 239759; SOURCE 4 GENE: A3BBH6_04590; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDRATASE, GH16-LIKE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.C.LAZARSKI,L.J.WORRALL,N.C.J.STRYNADKA REVDAT 1 19-JUN-24 8V31 0 JRNL AUTH S.A.NASSERI,A.C.LAZARSKI,I.L.LEMMER,C.Y.ZHANG,E.BRENCHER, JRNL AUTH 2 H.CHEN,L.SIM,D.PANWAR,L.BETSCHART,L.J.WORRALL,H.BRUMER, JRNL AUTH 3 N.C.J.STRYNADKA,S.G.WITHERS JRNL TITL AN ALTERNATIVE BROAD-SPECIFICITY PATHWAY FOR GLYCAN JRNL TITL 2 BREAKDOWN IN BACTERIA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.54 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 24670 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.982 REMARK 3 FREE R VALUE TEST SET COUNT : 1229 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1663 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.4390 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.4810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3938 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 40 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.78000 REMARK 3 B22 (A**2) : 0.78000 REMARK 3 B33 (A**2) : -2.53000 REMARK 3 B12 (A**2) : 0.39000 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): 0.387 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.272 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.225 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.308 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4051 ; 0.015 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 3643 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5494 ; 2.654 ; 1.808 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8410 ; 0.878 ; 1.778 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 491 ; 8.891 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 12 ;20.262 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 645 ;20.301 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 549 ; 0.116 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4879 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 973 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 646 ; 0.212 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 23 ; 0.173 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1936 ; 0.198 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 86 ; 0.154 ; 0.200 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): 1973 ; 8.552 ; 5.884 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1973 ; 8.503 ; 5.885 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2461 ;10.367 ;10.567 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2462 ;10.365 ;10.571 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2078 ;10.531 ; 6.315 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2077 ;10.497 ; 6.313 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3033 ;13.220 ;11.325 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3034 ;13.217 ;11.327 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 BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8V31 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-NOV-23. REMARK 100 THE DEPOSITION ID IS D_1000279429. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUL-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08B1-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.18085 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24911 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 47.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 18.90 REMARK 200 R MERGE (I) : 0.14200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 8.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 47.54 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 16.80 REMARK 200 R MERGE FOR SHELL (I) : 0.02400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM CHLORIDE, 25% PEG REMARK 280 3350, 0.1 M BIS-TRIS METHANE PH 5.5, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.18067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 106.36133 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 106.36133 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 53.18067 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 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 APPLY THE FOLLOWING TO CHAINS: C 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 21 REMARK 465 GLY A 22 REMARK 465 PRO A 23 REMARK 465 GLY A 24 REMARK 465 ALA A 25 REMARK 465 LYS A 26 REMARK 465 GLY A 27 REMARK 465 LYS A 28 REMARK 465 ALA A 29 REMARK 465 ALA A 30 REMARK 465 ALA A 31 REMARK 465 ASP A 32 REMARK 465 THR A 33 REMARK 465 ALA A 34 REMARK 465 ALA A 35 REMARK 465 ALA A 36 REMARK 465 GLU A 37 REMARK 465 THR A 38 REMARK 465 LYS A 39 REMARK 465 ALA A 40 REMARK 465 GLY A 101 REMARK 465 GLY A 102 REMARK 465 GLY A 103 REMARK 465 GLU A 104 REMARK 465 ALA A 105 REMARK 465 GLN A 106 REMARK 465 ASP A 107 REMARK 465 HIS A 291 REMARK 465 HIS A 292 REMARK 465 HIS A 293 REMARK 465 HIS A 294 REMARK 465 HIS A 295 REMARK 465 HIS A 296 REMARK 465 MET C 20 REMARK 465 GLY C 21 REMARK 465 GLY C 22 REMARK 465 PRO C 23 REMARK 465 GLY C 24 REMARK 465 ALA C 25 REMARK 465 LYS C 26 REMARK 465 GLY C 27 REMARK 465 LYS C 28 REMARK 465 ALA C 29 REMARK 465 ALA C 30 REMARK 465 ALA C 31 REMARK 465 ASP C 32 REMARK 465 THR C 33 REMARK 465 ALA C 34 REMARK 465 ALA C 35 REMARK 465 ALA C 36 REMARK 465 GLU C 37 REMARK 465 THR C 38 REMARK 465 LYS C 39 REMARK 465 HIS C 291 REMARK 465 HIS C 292 REMARK 465 HIS C 293 REMARK 465 HIS C 294 REMARK 465 HIS C 295 REMARK 465 HIS C 296 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 43 CG CD OE1 OE2 REMARK 470 LYS A 149 CG CD CE NZ REMARK 470 LYS A 152 CG CD CE NZ REMARK 470 LYS C 149 CG CD CE NZ REMARK 470 LYS C 152 CG CD CE NZ 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 GLU A 156 CD GLU A 156 OE2 -0.070 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 GLU A 43 CB - CA - C ANGL. DEV. = -12.8 DEGREES REMARK 500 THR A 45 CA - CB - OG1 ANGL. DEV. = -13.0 DEGREES REMARK 500 ASP A 53 CB - CA - C ANGL. DEV. = -12.4 DEGREES REMARK 500 ASP A 60 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 GLU A 156 CG - CD - OE1 ANGL. DEV. = 15.1 DEGREES REMARK 500 GLY A 179 C - N - CA ANGL. DEV. = -14.6 DEGREES REMARK 500 ASN A 260 CB - CA - C ANGL. DEV. = 13.2 DEGREES REMARK 500 ARG A 282 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 285 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG C 154 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 GLU C 156 OE1 - CD - OE2 ANGL. DEV. = -7.3 DEGREES REMARK 500 GLY C 179 C - N - CA ANGL. DEV. = -14.2 DEGREES REMARK 500 ARG C 184 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 GLN C 236 CB - CA - C ANGL. DEV. = 12.5 DEGREES REMARK 500 ARG C 285 CG - CD - NE ANGL. DEV. = -14.7 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 THR A 116 49.41 -90.22 REMARK 500 LYS A 120 -76.01 -127.42 REMARK 500 SER A 136 -155.19 -148.48 REMARK 500 ALA A 187 -4.81 79.02 REMARK 500 TYR A 203 160.48 -46.18 REMARK 500 ASN A 223 55.74 36.37 REMARK 500 TRP A 251 83.75 -163.66 REMARK 500 ASN A 260 42.54 -109.43 REMARK 500 ASN A 283 58.87 39.50 REMARK 500 THR C 116 49.08 -83.30 REMARK 500 LYS C 120 -60.94 -106.30 REMARK 500 SER C 136 -152.50 -154.03 REMARK 500 ALA C 187 -13.70 82.51 REMARK 500 MET C 192 -50.19 -128.77 REMARK 500 LEU C 228 156.97 176.58 REMARK 500 TRP C 251 85.08 -162.89 REMARK 500 ASN C 260 52.27 -103.34 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 LYS A 177 LEU A 178 -146.90 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 77 0.10 SIDE CHAIN REMARK 500 ARG A 154 0.22 SIDE CHAIN REMARK 500 ARG A 285 0.12 SIDE CHAIN REMARK 500 ARG C 154 0.13 SIDE CHAIN REMARK 500 ARG C 282 0.09 SIDE CHAIN REMARK 500 ARG C 285 0.09 SIDE CHAIN 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 MG A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 135 OD1 REMARK 620 2 SER A 136 O 77.2 REMARK 620 3 GLU A 164 OE1 164.3 87.9 REMARK 620 4 GLN A 166 OE1 81.9 74.5 89.5 REMARK 620 5 GLN A 273 OE1 96.6 81.5 85.8 155.7 REMARK 620 6 HOH A 417 O 99.4 176.0 95.3 103.0 101.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN C 135 OD1 REMARK 620 2 SER C 136 O 83.9 REMARK 620 3 GLU C 164 OE1 172.7 89.8 REMARK 620 4 GLN C 166 OE1 91.3 78.9 83.9 REMARK 620 5 GLN C 273 OE1 101.6 85.0 81.4 158.2 REMARK 620 6 HOH C 408 O 120.6 155.4 65.8 100.2 88.3 REMARK 620 7 HOH C 412 O 78.7 154.5 106.0 82.9 116.7 46.2 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8TCD RELATED DB: PDB REMARK 900 LYASE PROTEIN IN PATHWAY REMARK 900 RELATED ID: 8TCR RELATED DB: PDB REMARK 900 LYASE PROTEIN IN PATHWAY BOUND TO GLUCOSE REMARK 900 RELATED ID: 8TCS RELATED DB: PDB REMARK 900 LYASE PROTEIN IN PATHWAY BOUND TO TREHALOSE REMARK 900 RELATED ID: 8TCT RELATED DB: PDB REMARK 900 LYASE PROTEIN IN HOMOLOGOUS PATHWAY BOUND TO 3K-GLCH REMARK 900 RELATED ID: 8TDA RELATED DB: PDB REMARK 900 HYDRATASE PROTEIN IN HOMOLOGOUS PATHWAY REMARK 900 RELATED ID: 8TDE RELATED DB: PDB REMARK 900 HYDRATASE PROTEIN IN HOMOLOGOUS PATHWAY BOUND TO GLUCOSE LIKE REMARK 900 MOLECULE REMARK 900 RELATED ID: 8TDF RELATED DB: PDB REMARK 900 DEHYDROGENASE PROTEIN IN PATHWAY REMARK 900 RELATED ID: 8TDH RELATED DB: PDB REMARK 900 DEHYDROGENASE PROTEIN IN PATHWAY BOUND TO TREHALOSE REMARK 900 RELATED ID: 8TDI RELATED DB: PDB REMARK 900 DEHYDROGENASE PROTEIN IN HOMOLOGOUS PATHWAY DBREF1 8V31 A 21 290 UNP A0A4Y1WGD9_9BACT DBREF2 8V31 A A0A4Y1WGD9 21 290 DBREF1 8V31 C 21 290 UNP A0A4Y1WGD9_9BACT DBREF2 8V31 C A0A4Y1WGD9 21 290 SEQADV 8V31 MET A 20 UNP A0A4Y1WGD INITIATING METHIONINE SEQADV 8V31 HIS A 291 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS A 292 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS A 293 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS A 294 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS A 295 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS A 296 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 MET C 20 UNP A0A4Y1WGD INITIATING METHIONINE SEQADV 8V31 HIS C 291 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS C 292 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS C 293 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS C 294 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS C 295 UNP A0A4Y1WGD EXPRESSION TAG SEQADV 8V31 HIS C 296 UNP A0A4Y1WGD EXPRESSION TAG SEQRES 1 A 277 MET GLY GLY PRO GLY ALA LYS GLY LYS ALA ALA ALA ASP SEQRES 2 A 277 THR ALA ALA ALA GLU THR LYS ALA VAL PRO GLU TYR THR SEQRES 3 A 277 VAL ILE ASN ASN ALA THR VAL ASP LEU ALA GLY PHE PRO SEQRES 4 A 277 GLN ASP LYS ASP GLY TYR TYR VAL ILE PHE ASP GLY LYS SEQRES 5 A 277 THR PHE ASN GLY TRP ARG GLY TYR GLY LYS ASP HIS VAL SEQRES 6 A 277 PRO SER LYS TRP THR ILE ASP ASN GLY ALA ILE LYS PHE SEQRES 7 A 277 ASN GLY SER GLY GLY GLY GLU ALA GLN ASP GLY ASP GLY SEQRES 8 A 277 GLY ASP LEU ILE PHE THR HIS LYS PHE LYS ASN PHE GLU SEQRES 9 A 277 LEU GLU VAL GLU TRP LYS VAL ALA LYS GLY SER ASN SER SEQRES 10 A 277 GLY ILE PHE TYR LEU GLY GLN GLU VAL ALA THR THR LYS SEQRES 11 A 277 ASP GLY LYS GLN ARG MET GLU PRO ILE TYR ILE SER CYS SEQRES 12 A 277 PRO GLU TYR GLN VAL LEU ASP ASN GLU ASN HIS PRO ASP SEQRES 13 A 277 ALA LYS LEU GLY VAL ASP GLY ASN ARG LYS SER ALA SER SEQRES 14 A 277 LEU TYR ASP MET ILE PRO ALA VAL PRO GLN ASN ALA LYS SEQRES 15 A 277 PRO TYR GLY GLU TRP ASN LYS ALA LYS ILE MET VAL TYR SEQRES 16 A 277 LYS GLY THR VAL VAL HIS GLY GLN ASN ASP GLN ASN VAL SEQRES 17 A 277 LEU GLU TYR HIS LEU TRP THR PRO GLN TRP THR GLU MET SEQRES 18 A 277 LEU GLU LYS SER LYS PHE SER PRO GLU LYS TRP PRO LEU SEQRES 19 A 277 ALA PHE GLU LEU LEU ASN ASN CYS GLY GLY ALA GLN ARG SEQRES 20 A 277 GLU GLY TYR ILE GLY PHE GLN ASP HIS GLY ASP ASP VAL SEQRES 21 A 277 TRP PHE ARG ASN ILE ARG ILE LYS VAL LEU ASP HIS HIS SEQRES 22 A 277 HIS HIS HIS HIS SEQRES 1 C 277 MET GLY GLY PRO GLY ALA LYS GLY LYS ALA ALA ALA ASP SEQRES 2 C 277 THR ALA ALA ALA GLU THR LYS ALA VAL PRO GLU TYR THR SEQRES 3 C 277 VAL ILE ASN ASN ALA THR VAL ASP LEU ALA GLY PHE PRO SEQRES 4 C 277 GLN ASP LYS ASP GLY TYR TYR VAL ILE PHE ASP GLY LYS SEQRES 5 C 277 THR PHE ASN GLY TRP ARG GLY TYR GLY LYS ASP HIS VAL SEQRES 6 C 277 PRO SER LYS TRP THR ILE ASP ASN GLY ALA ILE LYS PHE SEQRES 7 C 277 ASN GLY SER GLY GLY GLY GLU ALA GLN ASP GLY ASP GLY SEQRES 8 C 277 GLY ASP LEU ILE PHE THR HIS LYS PHE LYS ASN PHE GLU SEQRES 9 C 277 LEU GLU VAL GLU TRP LYS VAL ALA LYS GLY SER ASN SER SEQRES 10 C 277 GLY ILE PHE TYR LEU GLY GLN GLU VAL ALA THR THR LYS SEQRES 11 C 277 ASP GLY LYS GLN ARG MET GLU PRO ILE TYR ILE SER CYS SEQRES 12 C 277 PRO GLU TYR GLN VAL LEU ASP ASN GLU ASN HIS PRO ASP SEQRES 13 C 277 ALA LYS LEU GLY VAL ASP GLY ASN ARG LYS SER ALA SER SEQRES 14 C 277 LEU TYR ASP MET ILE PRO ALA VAL PRO GLN ASN ALA LYS SEQRES 15 C 277 PRO TYR GLY GLU TRP ASN LYS ALA LYS ILE MET VAL TYR SEQRES 16 C 277 LYS GLY THR VAL VAL HIS GLY GLN ASN ASP GLN ASN VAL SEQRES 17 C 277 LEU GLU TYR HIS LEU TRP THR PRO GLN TRP THR GLU MET SEQRES 18 C 277 LEU GLU LYS SER LYS PHE SER PRO GLU LYS TRP PRO LEU SEQRES 19 C 277 ALA PHE GLU LEU LEU ASN ASN CYS GLY GLY ALA GLN ARG SEQRES 20 C 277 GLU GLY TYR ILE GLY PHE GLN ASP HIS GLY ASP ASP VAL SEQRES 21 C 277 TRP PHE ARG ASN ILE ARG ILE LYS VAL LEU ASP HIS HIS SEQRES 22 C 277 HIS HIS HIS HIS HET MG A 301 1 HET MG C 301 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *40(H2 O) HELIX 1 AA1 ASP A 53 PHE A 57 5 5 HELIX 2 AA2 PRO A 157 SER A 161 5 5 HELIX 3 AA3 PRO A 174 GLY A 179 1 6 HELIX 4 AA4 THR A 234 LYS A 243 1 10 HELIX 5 AA5 TRP A 251 ASN A 260 1 10 HELIX 6 AA6 GLY C 102 GLN C 106 5 5 HELIX 7 AA7 PRO C 157 SER C 161 5 5 HELIX 8 AA8 HIS C 173 LEU C 178 5 6 HELIX 9 AA9 THR C 234 SER C 244 1 11 HELIX 10 AB1 TRP C 251 ASN C 260 1 10 SHEET 1 AA1 3 TYR A 44 VAL A 46 0 SHEET 2 AA1 3 VAL A 145 LYS A 149 -1 O ALA A 146 N THR A 45 SHEET 3 AA1 3 LYS A 152 MET A 155 -1 O ARG A 154 N THR A 147 SHEET 1 AA2 4 TYR A 65 VAL A 66 0 SHEET 2 AA2 4 VAL A 279 VAL A 288 -1 O ILE A 286 N TYR A 65 SHEET 3 AA2 4 ALA A 94 PHE A 97 -1 N ILE A 95 O PHE A 281 SHEET 4 AA2 4 TRP A 88 ASP A 91 -1 N THR A 89 O LYS A 96 SHEET 1 AA3 6 TYR A 65 VAL A 66 0 SHEET 2 AA3 6 VAL A 279 VAL A 288 -1 O ILE A 286 N TYR A 65 SHEET 3 AA3 6 PHE A 122 VAL A 130 -1 N GLU A 125 O ARG A 285 SHEET 4 AA3 6 ASN A 207 TYR A 214 -1 O ALA A 209 N VAL A 126 SHEET 5 AA3 6 THR A 217 GLN A 222 -1 O GLY A 221 N LYS A 210 SHEET 6 AA3 6 GLN A 225 HIS A 231 -1 O GLN A 225 N GLN A 222 SHEET 1 AA4 5 TRP A 76 GLY A 78 0 SHEET 2 AA4 5 LEU A 113 PHE A 115 -1 O ILE A 114 N ARG A 77 SHEET 3 AA4 5 TYR A 269 PHE A 272 -1 O PHE A 272 N LEU A 113 SHEET 4 AA4 5 ASN A 135 GLY A 142 -1 N GLY A 142 O TYR A 269 SHEET 5 AA4 5 GLU A 164 LEU A 168 -1 O TYR A 165 N ILE A 138 SHEET 1 AA5 3 THR C 45 ILE C 47 0 SHEET 2 AA5 3 GLU C 144 LYS C 149 -1 O ALA C 146 N THR C 45 SHEET 3 AA5 3 LYS C 152 MET C 155 -1 O ARG C 154 N THR C 147 SHEET 1 AA6 4 TYR C 65 VAL C 66 0 SHEET 2 AA6 4 VAL C 279 VAL C 288 -1 O ILE C 286 N TYR C 65 SHEET 3 AA6 4 ALA C 94 PHE C 97 -1 N ILE C 95 O PHE C 281 SHEET 4 AA6 4 TRP C 88 ASP C 91 -1 N THR C 89 O LYS C 96 SHEET 1 AA7 6 TYR C 65 VAL C 66 0 SHEET 2 AA7 6 VAL C 279 VAL C 288 -1 O ILE C 286 N TYR C 65 SHEET 3 AA7 6 PHE C 122 VAL C 130 -1 N GLU C 127 O ARG C 282 SHEET 4 AA7 6 ASN C 207 TYR C 214 -1 O ILE C 211 N LEU C 124 SHEET 5 AA7 6 THR C 217 GLN C 222 -1 O GLY C 221 N LYS C 210 SHEET 6 AA7 6 GLN C 225 HIS C 231 -1 O VAL C 227 N HIS C 220 SHEET 1 AA8 5 TRP C 76 GLY C 78 0 SHEET 2 AA8 5 LEU C 113 PHE C 115 -1 O ILE C 114 N ARG C 77 SHEET 3 AA8 5 TYR C 269 PHE C 272 -1 O PHE C 272 N LEU C 113 SHEET 4 AA8 5 ASN C 135 GLY C 142 -1 N GLY C 142 O TYR C 269 SHEET 5 AA8 5 GLU C 164 LEU C 168 -1 O TYR C 165 N ILE C 138 LINK OD1 ASN A 135 MG MG A 301 1555 1555 2.55 LINK O SER A 136 MG MG A 301 1555 1555 2.70 LINK OE1 GLU A 164 MG MG A 301 1555 1555 2.34 LINK OE1 GLN A 166 MG MG A 301 1555 1555 2.10 LINK OE1 GLN A 273 MG MG A 301 1555 1555 2.36 LINK MG MG A 301 O HOH A 417 1555 1555 2.66 LINK OD1 ASN C 135 MG MG C 301 1555 1555 2.25 LINK O SER C 136 MG MG C 301 1555 1555 2.47 LINK OE1 GLU C 164 MG MG C 301 1555 1555 2.40 LINK OE1 GLN C 166 MG MG C 301 1555 1555 2.16 LINK OE1 GLN C 273 MG MG C 301 1555 1555 2.17 LINK MG MG C 301 O HOH C 408 1555 1555 2.85 LINK MG MG C 301 O HOH C 412 1555 1555 2.77 CISPEP 1 VAL A 196 PRO A 197 0 -9.86 CISPEP 2 VAL C 196 PRO C 197 0 -2.47 CRYST1 95.088 95.088 159.542 90.00 90.00 120.00 P 31 2 1 12 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 0.010517 0.006072 0.000000 0.00000 SCALE2 0.000000 0.012143 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006268 0.00000