HEADER ISOMERASE 20-MAR-20 6YDM TITLE BETA-PHOSPHOGLUCOMUTASE FROM LACTOCOCCUS LACTIS WITH CITRATE, TRIS AND TITLE 2 ACETATE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-PHOSPHOGLUCOMUTASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-PGM; COMPND 5 EC: 5.4.2.6; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS SUBSP. LACTIS (STRAIN SOURCE 3 IL1403); SOURCE 4 ORGANISM_TAXID: 272623; SOURCE 5 GENE: PGMB, LL0429, L0001; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS CIS-TRANS PROLINE ISOMERIZATION, ALLOMORPHY, PHOSPHORYL TRANSFER, KEYWDS 2 CITRATE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.P.WOOD,F.A.CRUZ-NAVARRETE,N.J.BAXTER,C.R.TREVITT,A.J.ROBERTSON, AUTHOR 2 S.R.DIX,A.M.HOUNSLOW,M.J.CLIFF,J.P.WALTHO REVDAT 3 24-JAN-24 6YDM 1 REMARK REVDAT 2 18-NOV-20 6YDM 1 JRNL REVDAT 1 28-OCT-20 6YDM 0 JRNL AUTH H.P.WOOD,F.A.CRUZ-NAVARRETE,N.J.BAXTER,C.R.TREVITT, JRNL AUTH 2 A.J.ROBERTSON,S.R.DIX,A.M.HOUNSLOW,M.J.CLIFF,J.P.WALTHO JRNL TITL ALLOMORPHY AS A MECHANISM OF POST-TRANSLATIONAL CONTROL OF JRNL TITL 2 ENZYME ACTIVITY. JRNL REF NAT COMMUN V. 11 5538 2020 JRNL REFN ESSN 2041-1723 JRNL PMID 33139716 JRNL DOI 10.1038/S41467-020-19215-9 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0257 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.61 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 27947 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.827 REMARK 3 FREE R VALUE TEST SET COUNT : 1349 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1767 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.18 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 88 REMARK 3 BIN FREE R VALUE : 0.3690 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3374 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 186 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.24200 REMARK 3 B22 (A**2) : 2.26900 REMARK 3 B33 (A**2) : -2.02700 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.270 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.230 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.160 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.717 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.900 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3472 ; 0.009 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3319 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4695 ; 1.482 ; 1.631 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7717 ; 1.302 ; 1.585 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 438 ; 6.628 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 167 ;39.019 ;24.371 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 607 ;15.722 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;14.703 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 455 ; 0.068 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3869 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 653 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 669 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 55 ; 0.145 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1681 ; 0.159 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 157 ; 0.190 ; 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): 1755 ; 2.148 ; 2.054 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1751 ; 2.064 ; 2.049 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2187 ; 2.795 ; 3.068 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2188 ; 2.795 ; 3.069 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1717 ; 2.830 ; 2.385 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1718 ; 2.830 ; 2.386 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2507 ; 4.090 ; 3.450 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2508 ; 4.089 ; 3.451 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : Chains A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 0 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A* 1 A* 219 REMARK 3 ORIGIN FOR THE GROUP (A): 5.0895 -22.1546 -12.8184 REMARK 3 T TENSOR REMARK 3 T11: 0.0369 T22: 0.0479 REMARK 3 T33: 0.0454 T12: 0.0141 REMARK 3 T13: -0.0143 T23: -0.0161 REMARK 3 L TENSOR REMARK 3 L11: 2.1314 L22: 1.2005 REMARK 3 L33: 1.9857 L12: -0.4390 REMARK 3 L13: -0.4471 L23: 0.0240 REMARK 3 S TENSOR REMARK 3 S11: 0.1086 S12: 0.3099 S13: -0.1607 REMARK 3 S21: -0.1429 S22: -0.0671 S23: -0.0621 REMARK 3 S31: 0.1480 S32: -0.0495 S33: -0.0414 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B* 1 B* 219 REMARK 3 ORIGIN FOR THE GROUP (A): 1.0178 -22.3217 -45.6037 REMARK 3 T TENSOR REMARK 3 T11: 0.0373 T22: 0.0535 REMARK 3 T33: 0.0296 T12: -0.0153 REMARK 3 T13: -0.0181 T23: 0.0053 REMARK 3 L TENSOR REMARK 3 L11: 2.5006 L22: 1.2323 REMARK 3 L33: 1.3109 L12: 0.6871 REMARK 3 L13: -0.6425 L23: -0.2488 REMARK 3 S TENSOR REMARK 3 S11: 0.1264 S12: -0.3404 S13: -0.0716 REMARK 3 S21: 0.1612 S22: -0.0907 S23: 0.0236 REMARK 3 S31: 0.0220 S32: 0.0148 S33: -0.0358 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 6YDM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1292107439. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-APR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97179 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27995 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 117.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.7000 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) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : 0.53600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.700 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: 2WHE REMARK 200 REMARK 200 REMARK: ROD SHAPED. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 87.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 9.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, SODIUM ACETATE (200 MM), REMARK 280 TRIS (100 MM), HEPES (50 MM), MAGNESIUM CHLORIDE (5 MM), EDTA (1 REMARK 280 MM), SODIUM AZIDE (2 MM), TRISODIUM CITRATE (50 MM), BETA- REMARK 280 PHOSPHOGLUCOMUTASE (0.6 MM), PH 7.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 26.56500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.63000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.32000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.63000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.56500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.32000 REMARK 290 SMTRY3 4 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 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: 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 GLN A 220 REMARK 465 LYS A 221 REMARK 465 GLN B 220 REMARK 465 LYS B 221 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 LYS A 70 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O5 CIT A 301 O HOH A 401 2.11 REMARK 500 OH TYR A 93 O HOH A 402 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O ALA A 90 HE22 GLN B 54 3554 1.54 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 VAL A 12 -61.92 -120.03 REMARK 500 VAL B 12 -61.64 -120.10 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 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD2 REMARK 620 2 ASP A 10 O 88.8 REMARK 620 3 GLU A 169 OE1 80.7 143.7 REMARK 620 4 ASP A 170 OD1 166.7 98.0 87.1 REMARK 620 5 HOH A 476 O 90.3 110.5 104.2 97.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 8 OD2 REMARK 620 2 ASP B 10 O 91.2 REMARK 620 3 GLU B 169 OE1 85.6 151.1 REMARK 620 4 ASP B 170 OD1 173.6 94.1 88.0 REMARK 620 5 HOH B 477 O 91.6 97.0 111.7 91.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CIT A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 304 DBREF 6YDM A 1 221 UNP P71447 PGMB_LACLA 1 221 DBREF 6YDM B 1 221 UNP P71447 PGMB_LACLA 1 221 SEQADV 6YDM ARG A 125 UNP P71447 LYS 125 ENGINEERED MUTATION SEQADV 6YDM HIS A 206 UNP P71447 TYR 206 ENGINEERED MUTATION SEQADV 6YDM ARG B 125 UNP P71447 LYS 125 ENGINEERED MUTATION SEQADV 6YDM HIS B 206 UNP P71447 TYR 206 ENGINEERED MUTATION SEQRES 1 A 221 MET PHE LYS ALA VAL LEU PHE ASP LEU ASP GLY VAL ILE SEQRES 2 A 221 THR ASP THR ALA GLU TYR HIS PHE ARG ALA TRP LYS ALA SEQRES 3 A 221 LEU ALA GLU GLU ILE GLY ILE ASN GLY VAL ASP ARG GLN SEQRES 4 A 221 PHE ASN GLU GLN LEU LYS GLY VAL SER ARG GLU ASP SER SEQRES 5 A 221 LEU GLN LYS ILE LEU ASP LEU ALA ASP LYS LYS VAL SER SEQRES 6 A 221 ALA GLU GLU PHE LYS GLU LEU ALA LYS ARG LYS ASN ASP SEQRES 7 A 221 ASN TYR VAL LYS MET ILE GLN ASP VAL SER PRO ALA ASP SEQRES 8 A 221 VAL TYR PRO GLY ILE LEU GLN LEU LEU LYS ASP LEU ARG SEQRES 9 A 221 SER ASN LYS ILE LYS ILE ALA LEU ALA SER ALA SER LYS SEQRES 10 A 221 ASN GLY PRO PHE LEU LEU GLU ARG MET ASN LEU THR GLY SEQRES 11 A 221 TYR PHE ASP ALA ILE ALA ASP PRO ALA GLU VAL ALA ALA SEQRES 12 A 221 SER LYS PRO ALA PRO ASP ILE PHE ILE ALA ALA ALA HIS SEQRES 13 A 221 ALA VAL GLY VAL ALA PRO SER GLU SER ILE GLY LEU GLU SEQRES 14 A 221 ASP SER GLN ALA GLY ILE GLN ALA ILE LYS ASP SER GLY SEQRES 15 A 221 ALA LEU PRO ILE GLY VAL GLY ARG PRO GLU ASP LEU GLY SEQRES 16 A 221 ASP ASP ILE VAL ILE VAL PRO ASP THR SER HIS TYR THR SEQRES 17 A 221 LEU GLU PHE LEU LYS GLU VAL TRP LEU GLN LYS GLN LYS SEQRES 1 B 221 MET PHE LYS ALA VAL LEU PHE ASP LEU ASP GLY VAL ILE SEQRES 2 B 221 THR ASP THR ALA GLU TYR HIS PHE ARG ALA TRP LYS ALA SEQRES 3 B 221 LEU ALA GLU GLU ILE GLY ILE ASN GLY VAL ASP ARG GLN SEQRES 4 B 221 PHE ASN GLU GLN LEU LYS GLY VAL SER ARG GLU ASP SER SEQRES 5 B 221 LEU GLN LYS ILE LEU ASP LEU ALA ASP LYS LYS VAL SER SEQRES 6 B 221 ALA GLU GLU PHE LYS GLU LEU ALA LYS ARG LYS ASN ASP SEQRES 7 B 221 ASN TYR VAL LYS MET ILE GLN ASP VAL SER PRO ALA ASP SEQRES 8 B 221 VAL TYR PRO GLY ILE LEU GLN LEU LEU LYS ASP LEU ARG SEQRES 9 B 221 SER ASN LYS ILE LYS ILE ALA LEU ALA SER ALA SER LYS SEQRES 10 B 221 ASN GLY PRO PHE LEU LEU GLU ARG MET ASN LEU THR GLY SEQRES 11 B 221 TYR PHE ASP ALA ILE ALA ASP PRO ALA GLU VAL ALA ALA SEQRES 12 B 221 SER LYS PRO ALA PRO ASP ILE PHE ILE ALA ALA ALA HIS SEQRES 13 B 221 ALA VAL GLY VAL ALA PRO SER GLU SER ILE GLY LEU GLU SEQRES 14 B 221 ASP SER GLN ALA GLY ILE GLN ALA ILE LYS ASP SER GLY SEQRES 15 B 221 ALA LEU PRO ILE GLY VAL GLY ARG PRO GLU ASP LEU GLY SEQRES 16 B 221 ASP ASP ILE VAL ILE VAL PRO ASP THR SER HIS TYR THR SEQRES 17 B 221 LEU GLU PHE LEU LYS GLU VAL TRP LEU GLN LYS GLN LYS HET CIT A 301 18 HET MG A 302 1 HET ACT A 303 7 HET PDO A 304 13 HET MG B 301 1 HET ACT B 302 7 HET TRS B 303 20 HET EDO B 304 10 HETNAM CIT CITRIC ACID HETNAM MG MAGNESIUM ION HETNAM ACT ACETATE ION HETNAM PDO 1,3-PROPANDIOL HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM EDO 1,2-ETHANEDIOL HETSYN TRS TRIS BUFFER HETSYN EDO ETHYLENE GLYCOL FORMUL 3 CIT C6 H8 O7 FORMUL 4 MG 2(MG 2+) FORMUL 5 ACT 2(C2 H3 O2 1-) FORMUL 6 PDO C3 H8 O2 FORMUL 9 TRS C4 H12 N O3 1+ FORMUL 10 EDO C2 H6 O2 FORMUL 11 HOH *186(H2 O) HELIX 1 AA1 THR A 16 ILE A 31 1 16 HELIX 2 AA2 ASP A 37 GLU A 42 1 6 HELIX 3 AA3 SER A 48 ALA A 60 1 13 HELIX 4 AA4 SER A 65 ILE A 84 1 20 HELIX 5 AA5 GLN A 85 VAL A 87 5 3 HELIX 6 AA6 SER A 88 VAL A 92 5 5 HELIX 7 AA7 GLY A 95 ASN A 106 1 12 HELIX 8 AA8 ASN A 118 MET A 126 1 9 HELIX 9 AA9 LEU A 128 PHE A 132 5 5 HELIX 10 AB1 ASP A 137 VAL A 141 5 5 HELIX 11 AB2 PRO A 148 VAL A 158 1 11 HELIX 12 AB3 ALA A 161 SER A 163 5 3 HELIX 13 AB4 SER A 171 GLY A 182 1 12 HELIX 14 AB5 ARG A 190 GLY A 195 1 6 HELIX 15 AB6 ASP A 203 TYR A 207 5 5 HELIX 16 AB7 THR A 208 LYS A 219 1 12 HELIX 17 AB8 THR B 16 ILE B 31 1 16 HELIX 18 AB9 ASP B 37 GLU B 42 1 6 HELIX 19 AC1 SER B 48 ALA B 60 1 13 HELIX 20 AC2 SER B 65 ILE B 84 1 20 HELIX 21 AC3 GLN B 85 VAL B 87 5 3 HELIX 22 AC4 SER B 88 VAL B 92 5 5 HELIX 23 AC5 GLY B 95 ASN B 106 1 12 HELIX 24 AC6 ASN B 118 MET B 126 1 9 HELIX 25 AC7 LEU B 128 PHE B 132 5 5 HELIX 26 AC8 ASP B 137 VAL B 141 5 5 HELIX 27 AC9 PRO B 148 VAL B 158 1 11 HELIX 28 AD1 ALA B 161 SER B 163 5 3 HELIX 29 AD2 SER B 171 GLY B 182 1 12 HELIX 30 AD3 ARG B 190 GLY B 195 1 6 HELIX 31 AD4 ASP B 203 TYR B 207 5 5 HELIX 32 AD5 THR B 208 LYS B 219 1 12 SHEET 1 AA1 6 ALA A 134 ILE A 135 0 SHEET 2 AA1 6 LYS A 109 LEU A 112 1 N LEU A 112 O ALA A 134 SHEET 3 AA1 6 ALA A 4 PHE A 7 1 N PHE A 7 O ALA A 111 SHEET 4 AA1 6 SER A 165 GLU A 169 1 O ILE A 166 N LEU A 6 SHEET 5 AA1 6 LEU A 184 VAL A 188 1 O LEU A 184 N GLY A 167 SHEET 6 AA1 6 VAL A 199 VAL A 201 1 O VAL A 201 N GLY A 187 SHEET 1 AA2 6 ALA B 134 ILE B 135 0 SHEET 2 AA2 6 LYS B 109 LEU B 112 1 N LEU B 112 O ALA B 134 SHEET 3 AA2 6 ALA B 4 PHE B 7 1 N PHE B 7 O ALA B 111 SHEET 4 AA2 6 SER B 165 GLU B 169 1 O ILE B 166 N LEU B 6 SHEET 5 AA2 6 LEU B 184 VAL B 188 1 O ILE B 186 N GLY B 167 SHEET 6 AA2 6 VAL B 199 VAL B 201 1 O VAL B 199 N GLY B 187 LINK OD2 ASP A 8 MG MG A 302 1555 1555 2.29 LINK O ASP A 10 MG MG A 302 1555 1555 2.29 LINK OE1 GLU A 169 MG MG A 302 1555 1555 2.52 LINK OD1 ASP A 170 MG MG A 302 1555 1555 2.12 LINK MG MG A 302 O HOH A 476 1555 1555 2.13 LINK OD2 ASP B 8 MG MG B 301 1555 1555 2.12 LINK O ASP B 10 MG MG B 301 1555 1555 2.32 LINK OE1 GLU B 169 MG MG B 301 1555 1555 2.44 LINK OD1 ASP B 170 MG MG B 301 1555 1555 2.18 LINK MG MG B 301 O HOH B 477 1555 1555 2.29 CISPEP 1 LYS A 145 PRO A 146 0 13.44 CISPEP 2 LYS B 145 PRO B 146 0 13.24 SITE 1 AC1 10 VAL A 47 SER A 48 ARG A 49 LYS A 117 SITE 2 AC1 10 ACT A 303 HOH A 401 HOH A 404 HOH A 408 SITE 3 AC1 10 HOH A 435 HOH A 448 SITE 1 AC2 5 ASP A 8 ASP A 10 GLU A 169 ASP A 170 SITE 2 AC2 5 HOH A 476 SITE 1 AC3 4 THR A 16 HIS A 20 SER A 116 CIT A 301 SITE 1 AC4 2 GLN A 54 VAL A 64 SITE 1 AC5 5 ASP B 8 ASP B 10 GLU B 169 ASP B 170 SITE 2 AC5 5 HOH B 477 SITE 1 AC6 4 THR B 16 HIS B 20 HOH B 417 HOH B 466 SITE 1 AC7 3 ALA B 115 SER B 144 HOH B 432 SITE 1 AC8 1 SER B 163 CRYST1 53.130 76.640 117.260 90.00 90.00 90.00 P 21 21 21 8 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 0.018822 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013048 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008528 0.00000