HEADER ISOMERASE 22-MAY-15 5BMR OBSLTE 13-JUL-16 5BMR 5KL0 TITLE CRYSTAL STRUCTURE OF PHOSPHOGLUCOMUTASE FROM XANTHOMONAS CITRI CITRI TITLE 2 COMPLEXED WITH GLUCOSE-1,6-BIPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOGLUCOMUTASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XANTHOMONAS AXONOPODIS PV. CITRI (STRAIN 306); SOURCE 3 ORGANISM_TAXID: 190486; SOURCE 4 STRAIN: 306; SOURCE 5 GENE: XANA, XAC3579; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS PHOSPHOGLUCOMUTASE CITRUS CANKER, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR L.S.GOTO,H.M.PEREIRA,M.T.M.NOVO MANSUR REVDAT 2 13-JUL-16 5BMR 1 OBSLTE REVDAT 1 01-JUN-16 5BMR 0 JRNL AUTH L.S.GOTO,A.V.ALEXANDRINO,C.M.PEREIRA,C.S.MARTINS, JRNL AUTH 2 J.BRANDAO-NETO,H.M.PEREIRA,M.T.M.NOVO MANSUR JRNL TITL CRYSTAL STRUCTURE OF PHOSPHOGLUCOMUTASE FROM XANTHOMONAS JRNL TITL 2 CITRI CITRI COMPLEXED WITH GLUCOSE-1,6-BIPHOSPHATE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 35633 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1782 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.6144 - 4.3425 0.98 2814 149 0.1597 0.1770 REMARK 3 2 4.3425 - 3.4529 0.99 2693 141 0.1347 0.1596 REMARK 3 3 3.4529 - 3.0182 0.99 2690 142 0.1608 0.2014 REMARK 3 4 3.0182 - 2.7431 0.99 2645 139 0.1644 0.2187 REMARK 3 5 2.7431 - 2.5469 0.99 2668 141 0.1606 0.1924 REMARK 3 6 2.5469 - 2.3970 1.00 2649 139 0.1543 0.1916 REMARK 3 7 2.3970 - 2.2772 0.99 2612 137 0.1513 0.2178 REMARK 3 8 2.2772 - 2.1782 0.99 2610 138 0.1460 0.1848 REMARK 3 9 2.1782 - 2.0944 0.99 2584 136 0.1367 0.1823 REMARK 3 10 2.0944 - 2.0222 0.99 2617 138 0.1443 0.1768 REMARK 3 11 2.0222 - 1.9591 0.99 2594 136 0.1451 0.1888 REMARK 3 12 1.9591 - 1.9031 0.94 2464 130 0.1522 0.2187 REMARK 3 13 1.9031 - 1.8530 0.84 2211 116 0.1582 0.1837 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.570 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.95 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3533 REMARK 3 ANGLE : 1.108 4796 REMARK 3 CHIRALITY : 0.050 529 REMARK 3 PLANARITY : 0.006 634 REMARK 3 DIHEDRAL : 13.325 1287 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 23 THROUGH 42 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.8860 -18.4590 9.1010 REMARK 3 T TENSOR REMARK 3 T11: 0.1453 T22: 0.2051 REMARK 3 T33: 0.1943 T12: 0.0088 REMARK 3 T13: 0.0149 T23: -0.0796 REMARK 3 L TENSOR REMARK 3 L11: 1.9928 L22: 2.7412 REMARK 3 L33: 2.6272 L12: 0.2146 REMARK 3 L13: 0.2066 L23: -1.5288 REMARK 3 S TENSOR REMARK 3 S11: -0.0025 S12: 0.1724 S13: 0.0032 REMARK 3 S21: -0.0329 S22: -0.1240 S23: 0.4686 REMARK 3 S31: 0.1176 S32: -0.3935 S33: 0.1405 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 43 THROUGH 61 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.5554 -19.0947 10.7532 REMARK 3 T TENSOR REMARK 3 T11: 0.1365 T22: 0.1615 REMARK 3 T33: 0.1079 T12: 0.0447 REMARK 3 T13: 0.0154 T23: -0.0659 REMARK 3 L TENSOR REMARK 3 L11: 2.2444 L22: 2.4694 REMARK 3 L33: 2.7379 L12: 0.7248 REMARK 3 L13: 0.3921 L23: 0.5689 REMARK 3 S TENSOR REMARK 3 S11: -0.1681 S12: 0.1287 S13: -0.1826 REMARK 3 S21: -0.2894 S22: 0.1444 S23: -0.1342 REMARK 3 S31: 0.0583 S32: 0.2811 S33: 0.0193 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 62 THROUGH 86 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.2301 -22.4596 20.2102 REMARK 3 T TENSOR REMARK 3 T11: 0.1753 T22: 0.1296 REMARK 3 T33: 0.1222 T12: 0.0526 REMARK 3 T13: 0.0087 T23: -0.0471 REMARK 3 L TENSOR REMARK 3 L11: 0.9520 L22: 1.1889 REMARK 3 L33: 1.0764 L12: -0.3132 REMARK 3 L13: -0.9382 L23: 0.3439 REMARK 3 S TENSOR REMARK 3 S11: -0.1265 S12: 0.1420 S13: -0.2679 REMARK 3 S21: 0.0576 S22: 0.0081 S23: 0.1006 REMARK 3 S31: 0.2484 S32: 0.0130 S33: 0.1519 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 87 THROUGH 118 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.3717 -12.8295 23.6738 REMARK 3 T TENSOR REMARK 3 T11: 0.0826 T22: 0.1204 REMARK 3 T33: 0.0907 T12: 0.0155 REMARK 3 T13: 0.0078 T23: -0.0420 REMARK 3 L TENSOR REMARK 3 L11: 0.5696 L22: 1.3642 REMARK 3 L33: 1.5370 L12: 0.0024 REMARK 3 L13: -0.2724 L23: 0.2725 REMARK 3 S TENSOR REMARK 3 S11: -0.0294 S12: 0.0157 S13: -0.0679 REMARK 3 S21: 0.0291 S22: 0.0305 S23: -0.0758 REMARK 3 S31: 0.1209 S32: 0.0953 S33: 0.0054 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 120 THROUGH 163 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7806 -16.0050 11.0274 REMARK 3 T TENSOR REMARK 3 T11: 0.1300 T22: 0.1316 REMARK 3 T33: 0.1058 T12: 0.0092 REMARK 3 T13: 0.0017 T23: -0.0377 REMARK 3 L TENSOR REMARK 3 L11: 1.0466 L22: 1.5342 REMARK 3 L33: 1.4858 L12: 0.1783 REMARK 3 L13: 0.2905 L23: 0.2728 REMARK 3 S TENSOR REMARK 3 S11: -0.0115 S12: 0.0404 S13: -0.1079 REMARK 3 S21: -0.1209 S22: 0.0280 S23: 0.1329 REMARK 3 S31: 0.0823 S32: 0.0241 S33: -0.0201 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 164 THROUGH 386 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.1577 -0.0272 31.6518 REMARK 3 T TENSOR REMARK 3 T11: 0.0404 T22: 0.0750 REMARK 3 T33: 0.0667 T12: -0.0025 REMARK 3 T13: 0.0018 T23: -0.0191 REMARK 3 L TENSOR REMARK 3 L11: 0.5521 L22: 0.8853 REMARK 3 L33: 0.9981 L12: -0.1995 REMARK 3 L13: -0.0919 L23: -0.1231 REMARK 3 S TENSOR REMARK 3 S11: -0.0023 S12: 0.0233 S13: -0.0057 REMARK 3 S21: -0.0033 S22: 0.0012 S23: -0.0208 REMARK 3 S31: -0.0118 S32: 0.0359 S33: -0.0082 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 387 THROUGH 470 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.7391 8.1058 10.8527 REMARK 3 T TENSOR REMARK 3 T11: 0.1039 T22: 0.0966 REMARK 3 T33: 0.1030 T12: 0.0021 REMARK 3 T13: -0.0148 T23: -0.0205 REMARK 3 L TENSOR REMARK 3 L11: 1.0706 L22: 1.2762 REMARK 3 L33: 1.8888 L12: 0.0823 REMARK 3 L13: -0.1685 L23: 0.3588 REMARK 3 S TENSOR REMARK 3 S11: -0.0066 S12: 0.1798 S13: -0.0623 REMARK 3 S21: -0.1557 S22: 0.0909 S23: -0.0254 REMARK 3 S31: 0.0536 S32: 0.0300 S33: -0.0588 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5BMR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000210063. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-OCT-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35635 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.710 REMARK 200 R MERGE (I) : 0.02000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 45.0600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.04100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 22.89 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 (%): 39.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12.5 % PEG 1000, 12.5 % PEG 3350, 12.5 REMARK 280 % MPD, 30 MM MGCL2, 30 MM CACL2, 100 MM MES?IMIDAZOL PH 6.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 21.99000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 86.74750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.39400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 86.74750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.99000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 27.39400 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: 690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 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 3 REMARK 465 GLY A 4 REMARK 465 SER A 5 REMARK 465 SER A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 SER A 13 REMARK 465 SER A 14 REMARK 465 GLY A 15 REMARK 465 LEU A 16 REMARK 465 VAL A 17 REMARK 465 PRO A 18 REMARK 465 ARG A 19 REMARK 465 GLY A 20 REMARK 465 SER A 21 REMARK 465 HIS A 22 REMARK 465 SEP A 119 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 SER A 438 REMARK 475 ASN A 439 REMARK 475 THR A 440 REMARK 475 GLU A 441 REMARK 475 PRO A 442 REMARK 475 LEU A 443 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 624 O HOH A 874 2.16 REMARK 500 O HOH A 824 O HOH A 1059 2.18 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 HOH A 662 O HOH A 914 3455 2.13 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 280 CA - CB - CG ANGL. DEV. = -17.1 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 PRO A 122 170.98 -53.83 REMARK 500 ARG A 132 -148.36 -106.58 REMARK 500 ASN A 233 86.50 -161.93 REMARK 500 PHE A 262 37.08 36.68 REMARK 500 THR A 304 -42.55 -135.36 REMARK 500 ALA A 345 36.49 72.59 REMARK 500 PHE A 352 48.50 -92.66 REMARK 500 ASP A 422 90.63 -160.63 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 A1104 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A1105 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A1106 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A1107 DISTANCE = 6.74 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 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 259 OD2 REMARK 620 2 ASP A 261 OD1 97.3 REMARK 620 3 ASP A 261 OD2 145.2 48.0 REMARK 620 4 ASP A 263 OD1 97.1 96.8 87.1 REMARK 620 5 HOH A 616 O 126.1 133.6 87.8 93.5 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 G16 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5BMN RELATED DB: PDB REMARK 900 APO FORM REMARK 900 RELATED ID: 5BMP RELATED DB: PDB REMARK 900 COMPLEX WITH GLUCOSE-1-PHOSPHATE DBREF 5BMR A 23 470 UNP Q8PGN7 Q8PGN7_XANAC 3 450 SEQADV 5BMR MET A 3 UNP Q8PGN7 INITIATING METHIONINE SEQADV 5BMR GLY A 4 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR SER A 5 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR SER A 6 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR HIS A 7 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR HIS A 8 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR HIS A 9 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR HIS A 10 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR HIS A 11 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR HIS A 12 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR SER A 13 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR SER A 14 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR GLY A 15 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR LEU A 16 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR VAL A 17 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR PRO A 18 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR ARG A 19 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR GLY A 20 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR SER A 21 UNP Q8PGN7 EXPRESSION TAG SEQADV 5BMR HIS A 22 UNP Q8PGN7 EXPRESSION TAG SEQRES 1 A 468 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 468 LEU VAL PRO ARG GLY SER HIS MET THR LEU PRO ALA PHE SEQRES 3 A 468 LYS ALA TYR ASP ILE ARG GLY ARG VAL PRO ASP GLU LEU SEQRES 4 A 468 ASN GLU ASP LEU ALA ARG ARG ILE GLY VAL ALA LEU ALA SEQRES 5 A 468 ALA GLN LEU ASP GLN GLY PRO VAL VAL LEU GLY HIS ASP SEQRES 6 A 468 VAL ARG LEU ALA SER PRO ALA LEU GLN GLU ALA LEU SER SEQRES 7 A 468 ALA GLY LEU ARG ALA SER GLY ARG ASP VAL ILE ASP ILE SEQRES 8 A 468 GLY LEU CYS GLY THR GLU GLU VAL TYR PHE GLN THR ASP SEQRES 9 A 468 TYR LEU LYS ALA ALA GLY GLY VAL MET VAL THR ALA SEP SEQRES 10 A 468 HIS ASN PRO MET ASP TYR ASN GLY MET LYS LEU VAL ARG SEQRES 11 A 468 GLU GLN ALA ARG PRO ILE SER SER ASP THR GLY LEU PHE SEQRES 12 A 468 ALA ILE ARG ASP THR VAL ALA ALA ASP THR ALA ALA PRO SEQRES 13 A 468 GLY GLU PRO THR ALA SER GLU GLN SER ARG THR ASP LYS SEQRES 14 A 468 THR ALA TYR LEU GLU HIS LEU LEU SER TYR VAL ASP ARG SEQRES 15 A 468 SER THR LEU LYS PRO LEU LYS LEU VAL VAL ASN ALA GLY SEQRES 16 A 468 ASN GLY GLY ALA GLY LEU ILE VAL ASP LEU LEU ALA PRO SEQRES 17 A 468 HIS LEU PRO PHE GLU PHE VAL ARG VAL PHE HIS GLU PRO SEQRES 18 A 468 ASP GLY ASN PHE PRO ASN GLY ILE PRO ASN PRO LEU LEU SEQRES 19 A 468 PRO GLU ASN ARG ASP ALA THR ALA LYS ALA VAL LYS ASP SEQRES 20 A 468 ASN GLY ALA ASP PHE GLY ILE ALA TRP ASP GLY ASP PHE SEQRES 21 A 468 ASP ARG CYS PHE PHE PHE ASP HIS THR GLY ARG PHE ILE SEQRES 22 A 468 GLU GLY TYR TYR LEU VAL GLY LEU LEU ALA GLN ALA ILE SEQRES 23 A 468 LEU ALA LYS GLN PRO GLY GLY LYS VAL VAL HIS ASP PRO SEQRES 24 A 468 ARG LEU THR TRP ASN THR VAL GLU GLN VAL GLU GLU ALA SEQRES 25 A 468 GLY GLY ILE PRO VAL LEU CYS LYS SER GLY HIS ALA PHE SEQRES 26 A 468 ILE LYS GLU LYS MET ARG SER GLU ASN ALA VAL TYR GLY SEQRES 27 A 468 GLY GLU MET SER ALA HIS HIS TYR PHE ARG GLU PHE ALA SEQRES 28 A 468 TYR ALA ASP SER GLY MET ILE PRO TRP LEU LEU ILE ALA SEQRES 29 A 468 GLU LEU VAL SER GLN SER GLY ARG SER LEU ALA ASP LEU SEQRES 30 A 468 VAL GLU ALA ARG MET GLN LYS PHE PRO CYS SER GLY GLU SEQRES 31 A 468 ILE ASN PHE LYS VAL ALA ASP ALA LYS ALA SER VAL ALA SEQRES 32 A 468 ARG VAL MET GLU HIS TYR ALA SER LEU SER PRO GLU LEU SEQRES 33 A 468 ASP TYR THR ASP GLY ILE SER ALA ASP PHE GLY GLN TRP SEQRES 34 A 468 ARG PHE ASN LEU ARG SER SER ASN THR GLU PRO LEU LEU SEQRES 35 A 468 ARG LEU ASN VAL GLU THR ARG GLY ASP ALA ALA LEU LEU SEQRES 36 A 468 GLU THR ARG THR GLN GLU ILE SER ASN LEU LEU ARG GLY HET G16 A 501 20 HET MG A 502 1 HETNAM G16 ALPHA-D-GLUCOSE 1,6-BISPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 2 G16 C6 H13 O12 P2 1- FORMUL 3 MG MG 2+ FORMUL 4 HOH *507(H2 O) HELIX 1 AA1 ASN A 42 LEU A 57 1 16 HELIX 2 AA2 ALA A 71 SER A 86 1 16 HELIX 3 AA3 GLY A 97 LEU A 108 1 12 HELIX 4 AA4 ARG A 132 ARG A 136 5 5 HELIX 5 AA5 GLY A 143 ASP A 154 1 12 HELIX 6 AA6 LYS A 171 SER A 180 1 10 HELIX 7 AA7 TYR A 181 VAL A 182 5 2 HELIX 8 AA8 ASP A 183 LEU A 187 5 5 HELIX 9 AA9 GLY A 200 ALA A 209 1 10 HELIX 10 AB1 PRO A 210 LEU A 212 5 3 HELIX 11 AB2 LEU A 236 GLY A 251 1 16 HELIX 12 AB3 GLU A 276 ALA A 290 1 15 HELIX 13 AB4 THR A 304 ALA A 314 1 11 HELIX 14 AB5 GLY A 324 ASN A 336 1 13 HELIX 15 AB6 MET A 359 GLY A 373 1 15 HELIX 16 AB7 SER A 375 PHE A 387 1 13 HELIX 17 AB8 ASP A 399 ALA A 412 1 14 HELIX 18 AB9 SER A 413 SER A 415 5 3 HELIX 19 AC1 ASP A 453 GLY A 470 1 18 SHEET 1 AA1 6 ILE A 33 ARG A 36 0 SHEET 2 AA1 6 TYR A 125 VAL A 131 -1 O MET A 128 N ILE A 33 SHEET 3 AA1 6 GLY A 112 VAL A 116 -1 N GLY A 113 O VAL A 131 SHEET 4 AA1 6 VAL A 62 HIS A 66 1 N GLY A 65 O VAL A 116 SHEET 5 AA1 6 VAL A 90 LEU A 95 1 O ILE A 91 N LEU A 64 SHEET 6 AA1 6 GLU A 165 SER A 167 1 O GLN A 166 N ASP A 92 SHEET 1 AA2 4 GLU A 215 VAL A 219 0 SHEET 2 AA2 4 LYS A 191 ASN A 195 1 N VAL A 194 O VAL A 219 SHEET 3 AA2 4 PHE A 254 TRP A 258 1 O ILE A 256 N VAL A 193 SHEET 4 AA2 4 CYS A 265 PHE A 268 -1 O PHE A 268 N GLY A 255 SHEET 1 AA3 4 ILE A 317 LEU A 320 0 SHEET 2 AA3 4 LYS A 296 HIS A 299 1 N VAL A 297 O ILE A 317 SHEET 3 AA3 4 TYR A 339 GLU A 342 1 O TYR A 339 N VAL A 298 SHEET 4 AA3 4 HIS A 346 PHE A 349 -1 O TYR A 348 N GLY A 340 SHEET 1 AA4 5 ILE A 393 PHE A 395 0 SHEET 2 AA4 5 LEU A 444 THR A 450 -1 O LEU A 446 N ILE A 393 SHEET 3 AA4 5 TRP A 431 SER A 437 -1 N ARG A 436 O ARG A 445 SHEET 4 AA4 5 ILE A 424 ASP A 427 -1 N ALA A 426 O PHE A 433 SHEET 5 AA4 5 GLU A 417 ASP A 419 -1 N GLU A 417 O ASP A 427 LINK OD2 ASP A 259 MG MG A 502 1555 1555 2.15 LINK OD1 ASP A 261 MG MG A 502 1555 1555 2.10 LINK OD2 ASP A 261 MG MG A 502 1555 1555 2.91 LINK OD1 ASP A 263 MG MG A 502 1555 1555 2.13 LINK MG MG A 502 O HOH A 616 1555 1555 2.40 CISPEP 1 VAL A 37 PRO A 38 0 8.51 SITE 1 AC1 13 ARG A 302 GLY A 324 HIS A 325 GLU A 342 SITE 2 AC1 13 SER A 344 HIS A 346 TYR A 348 ARG A 436 SITE 3 AC1 13 ARG A 445 HOH A 658 HOH A 701 HOH A 860 SITE 4 AC1 13 HOH A 922 SITE 1 AC2 4 ASP A 259 ASP A 261 ASP A 263 HOH A 616 CRYST1 43.980 54.788 173.495 90.00 90.00 90.00 P 21 21 21 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 0.022738 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018252 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005764 0.00000