HEADER ISOMERASE 09-SEP-13 4C4R TITLE STRUCTURE OF BETA-PHOSPHOGLUCOMUTASE IN COMPLEX WITH A PHOSPHONATE TITLE 2 ANALOGUE OF BETA-GLUCOSE-1-PHOSPHATE AND MAGNESIUM TRIFLUORIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-PHOSPHOGLUCOMUTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BETA-PGM, BETAPHOSPHOGLUCOMUTASE; COMPND 5 EC: 5.4.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS; SOURCE 3 ORGANISM_TAXID: 1358; SOURCE 4 ATCC: 19435; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET20A KEYWDS PHOSPHORYL TRANSFER, TRANSITION STATE, METAL FLUORIDE, MUTASE, KEYWDS 2 ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.PELLEGRINI,M.W.BOWLER REVDAT 5 20-DEC-23 4C4R 1 HETSYN REVDAT 4 29-JUL-20 4C4R 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 10-SEP-14 4C4R 1 JRNL REVDAT 2 20-AUG-14 4C4R 1 JRNL REVDAT 1 16-JUL-14 4C4R 0 JRNL AUTH Y.JIN,D.BHATTASALI,E.PELLEGRINI,S.M.FORGET,N.J.BAXTER, JRNL AUTH 2 M.J.CLIFF,M.W.BOWLER,D.L.JAKEMAN,G.M.BLACKBURN,J.P.WALTHO JRNL TITL ALPHA-FLUOROPHOSPHONATES REVEAL HOW A PHOSPHOMUTASE JRNL TITL 2 CONSERVES TRANSITION STATE CONFORMATION OVER HEXOSE JRNL TITL 3 RECOGNITION IN ITS TWO-STEP REACTION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 111 12384 2014 JRNL REFN ISSN 0027-8424 JRNL PMID 25104750 JRNL DOI 10.1073/PNAS.1402850111 REMARK 2 REMARK 2 RESOLUTION. 1.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 1.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.65 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 82621 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.173 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4136 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 19.6507 - 3.4122 0.97 2949 172 0.1768 0.2089 REMARK 3 2 3.4122 - 2.7106 0.98 2870 141 0.1571 0.1531 REMARK 3 3 2.7106 - 2.3686 0.98 2807 162 0.1669 0.1947 REMARK 3 4 2.3686 - 2.1524 0.95 2746 129 0.1487 0.1460 REMARK 3 5 2.1524 - 1.9983 0.97 2771 145 0.1542 0.1717 REMARK 3 6 1.9983 - 1.8805 0.96 2727 146 0.1444 0.1616 REMARK 3 7 1.8805 - 1.7864 0.96 2705 175 0.1506 0.1619 REMARK 3 8 1.7864 - 1.7087 0.96 2734 139 0.1449 0.1786 REMARK 3 9 1.7087 - 1.6430 0.95 2668 132 0.1392 0.1550 REMARK 3 10 1.6430 - 1.5863 0.96 2718 149 0.1288 0.1766 REMARK 3 11 1.5863 - 1.5367 0.95 2677 150 0.1330 0.1605 REMARK 3 12 1.5367 - 1.4928 0.95 2707 139 0.1294 0.1696 REMARK 3 13 1.4928 - 1.4535 0.94 2615 152 0.1347 0.1857 REMARK 3 14 1.4535 - 1.4181 0.95 2657 155 0.1262 0.1412 REMARK 3 15 1.4181 - 1.3858 0.94 2637 140 0.1292 0.1693 REMARK 3 16 1.3858 - 1.3564 0.94 2590 157 0.1324 0.1648 REMARK 3 17 1.3564 - 1.3292 0.93 2629 140 0.1298 0.1765 REMARK 3 18 1.3292 - 1.3042 0.94 2618 135 0.1311 0.1558 REMARK 3 19 1.3042 - 1.2809 0.92 2586 136 0.1353 0.1600 REMARK 3 20 1.2809 - 1.2592 0.92 2562 132 0.1240 0.1557 REMARK 3 21 1.2592 - 1.2388 0.92 2581 124 0.1241 0.1467 REMARK 3 22 1.2388 - 1.2198 0.90 2513 129 0.1355 0.1726 REMARK 3 23 1.2198 - 1.2019 0.88 2433 127 0.1476 0.1700 REMARK 3 24 1.2019 - 1.1849 0.89 2508 113 0.1481 0.1721 REMARK 3 25 1.1849 - 1.1689 0.89 2511 128 0.1440 0.1877 REMARK 3 26 1.1689 - 1.1537 0.88 2423 113 0.1452 0.1679 REMARK 3 27 1.1537 - 1.1393 0.86 2439 130 0.1547 0.1617 REMARK 3 28 1.1393 - 1.1256 0.86 2409 115 0.1687 0.2233 REMARK 3 29 1.1256 - 1.1125 0.85 2386 119 0.1869 0.1964 REMARK 3 30 1.1125 - 1.1000 0.83 2309 112 0.2129 0.2257 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.47 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 37.38 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.100 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 14.060 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 5.37 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 6.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.67940 REMARK 3 B22 (A**2) : -2.41070 REMARK 3 B33 (A**2) : 3.09020 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 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 : 0.011 1769 REMARK 3 ANGLE : 1.362 2412 REMARK 3 CHIRALITY : 0.070 271 REMARK 3 PLANARITY : 0.008 312 REMARK 3 DIHEDRAL : 12.144 655 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4C4R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1290058275. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JAN-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 REMARK 200 MONOCHROMATOR : SI111 REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82900 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 52.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.900 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: PDB ENTRY 2WF5 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27-32% PEG 4000, 50-75 MM MAGNESIUM REMARK 280 ACETATE, PH 7.2 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 19.00600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.70350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.10050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.70350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.00600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 27.10050 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 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 LYS A 219 REMARK 465 GLN A 220 REMARK 465 LYS A 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 ALA A 142 CB REMARK 470 SER A 144 CB OG 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 CA SER A 144 O HOH A 2459 1.16 REMARK 500 O HOH A 2213 O HOH A 2214 1.56 REMARK 500 O HOH A 2053 O HOH A 2054 1.62 REMARK 500 O HOH A 2214 O HOH A 2220 1.64 REMARK 500 O HOH A 2344 O HOH A 2345 1.65 REMARK 500 O HOH A 2366 O HOH A 2543 1.67 REMARK 500 O HOH A 2016 O HOH A 2364 1.71 REMARK 500 OE1 GLU A 50 O HOH A 2212 1.71 REMARK 500 O HOH A 2308 O HOH A 2314 1.74 REMARK 500 O HOH A 2285 O HOH A 2287 1.74 REMARK 500 O HOH A 2006 O HOH A 2008 1.74 REMARK 500 O HOH A 2450 O HOH A 2452 1.76 REMARK 500 O HOH A 2178 O HOH A 2511 1.76 REMARK 500 O HOH A 2063 O HOH A 2204 1.78 REMARK 500 NH2 ARG A 125 O HOH A 2346 1.80 REMARK 500 O HOH A 2526 O HOH A 2532 1.80 REMARK 500 O HOH A 2107 O HOH A 2108 1.81 REMARK 500 O HOH A 2539 O HOH A 2540 1.83 REMARK 500 O HOH A 2532 O HOH A 2534 1.84 REMARK 500 O HOH A 2064 O HOH A 2271 1.84 REMARK 500 O HOH A 2008 O HOH A 2553 1.84 REMARK 500 O HOH A 2456 O HOH A 2458 1.85 REMARK 500 O HOH A 2427 O HOH A 2431 1.86 REMARK 500 O HOH A 2014 O HOH A 2018 1.87 REMARK 500 O HOH A 2311 O HOH A 2313 1.87 REMARK 500 O HOH A 2378 O HOH A 2389 1.88 REMARK 500 O HOH A 2452 O HOH A 2453 1.91 REMARK 500 O HOH A 2323 O HOH A 2332 1.92 REMARK 500 O HOH A 2494 O HOH A 2495 1.93 REMARK 500 O HOH A 2277 O HOH A 2519 1.93 REMARK 500 O HOH A 2203 O HOH A 2204 1.93 REMARK 500 O HOH A 2210 O HOH A 2459 1.94 REMARK 500 N SER A 144 O HOH A 2459 1.95 REMARK 500 O HOH A 2066 O HOH A 2177 1.95 REMARK 500 O HOH A 2100 O HOH A 2113 1.97 REMARK 500 ND2 ASN A 106 O HOH A 2377 1.97 REMARK 500 O GLN A 85 O HOH A 2345 1.99 REMARK 500 O HOH A 2154 O HOH A 2155 2.00 REMARK 500 O HOH A 2017 O HOH A 2018 2.03 REMARK 500 O HOH A 2229 O HOH A 2230 2.03 REMARK 500 O HOH A 2154 O HOH A 2379 2.05 REMARK 500 O HOH A 2551 O HOH A 2555 2.05 REMARK 500 OD2 ASP A 61 O HOH A 2267 2.06 REMARK 500 O HOH A 2154 O HOH A 2374 2.08 REMARK 500 OD1 ASN A 34 O HOH A 2148 2.09 REMARK 500 O HOH A 2065 O HOH A 2458 2.10 REMARK 500 O HOH A 2554 O HOH A 2555 2.11 REMARK 500 OE1 GLU A 71 O HOH A 2305 2.11 REMARK 500 O HOH A 2154 O HOH A 2372 2.11 REMARK 500 O HOH A 2448 O HOH A 2452 2.12 REMARK 500 REMARK 500 THIS ENTRY HAS 68 CLOSE CONTACTS 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 2044 O HOH A 2308 1545 1.66 REMARK 500 O HOH A 2082 O HOH A 2348 4545 1.78 REMARK 500 O HOH A 2128 O HOH A 2395 1545 1.79 REMARK 500 O HOH A 2115 O HOH A 2424 4545 1.80 REMARK 500 O HOH A 2286 O HOH A 2450 3444 1.90 REMARK 500 NH1 ARG A 125 O HOH A 2113 4445 2.00 REMARK 500 O HOH A 2111 O HOH A 2554 1545 2.01 REMARK 500 O HOH A 2009 O HOH A 2423 4555 2.01 REMARK 500 O HOH A 2154 O HOH A 2426 4555 2.05 REMARK 500 O HOH A 2147 O HOH A 2553 1545 2.11 REMARK 500 O HOH A 2009 O HOH A 2110 1565 2.12 REMARK 500 O HOH A 2154 O HOH A 2425 4555 2.13 REMARK 500 O HOH A 2018 O HOH A 2340 4545 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 49 C GLU A 50 N -0.158 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 ARG A 49 O - C - N ANGL. DEV. = -10.2 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 LEU A 9 -65.64 -103.35 REMARK 500 ASP A 15 32.65 -85.23 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 A2029 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH A2044 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A2070 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A2121 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A2125 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A2126 DISTANCE = 7.16 ANGSTROMS REMARK 525 HOH A2140 DISTANCE = 7.07 ANGSTROMS REMARK 525 HOH A2160 DISTANCE = 6.54 ANGSTROMS REMARK 525 HOH A2173 DISTANCE = 6.64 ANGSTROMS REMARK 525 HOH A2195 DISTANCE = 5.99 ANGSTROMS REMARK 525 HOH A2274 DISTANCE = 6.10 ANGSTROMS REMARK 525 HOH A2275 DISTANCE = 7.06 ANGSTROMS REMARK 525 HOH A2304 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH A2319 DISTANCE = 6.14 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 A1219 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD2 REMARK 620 2 ASP A 10 O 90.2 REMARK 620 3 ASP A 170 OD1 88.2 91.4 REMARK 620 4 MGF A1221 F1 93.8 97.5 170.9 REMARK 620 5 HOH A2021 O 86.2 176.4 88.0 83.2 REMARK 620 6 HOH A2031 O 174.7 87.9 87.0 91.3 95.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MGF A1221 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD1 REMARK 620 2 MGF A1221 F1 95.4 REMARK 620 3 MGF A1221 F2 88.2 114.8 REMARK 620 4 MGF A1221 F3 88.2 120.3 125.0 REMARK 620 5 YO5 A1220 O6 176.3 88.3 90.3 89.9 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4C4S RELATED DB: PDB REMARK 900 STRUCTURE OF BETA-PHOSPHOGLUCOMUTASE IN COMPLEX WITH AN ALPHA- REMARK 900 FLUOROPHOSPHONATE ANALOGUE OF BETA-GLUCOSE-1- PHOSPHATE AND REMARK 900 MAGNESIUM TRIFLUORIDE REMARK 900 RELATED ID: 4C4T RELATED DB: PDB REMARK 900 STRUCTURE OF BETA-PHOSPHOGLUCOMUTASE IN COMPLEX WITH A PHOSPHONATE REMARK 900 ANALOGUE OF BETA-GLUCOSE-1-PHOSPHATE AND ALUMINIUM TETRAFLUORIDE DBREF 4C4R A 1 221 UNP P71447 PGMB_LACLA 1 221 SEQADV 4C4R ARG A 125 UNP P71447 LYS 125 CONFLICT SEQADV 4C4R HIS A 206 UNP P71447 TYR 206 CONFLICT 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 HET MG A1219 1 HET YO5 A1220 16 HET MGF A1221 4 HETNAM MG MAGNESIUM ION HETNAM YO5 (1R)-1,5-ANHYDRO-1-(PHOSPHONOMETHYL)-D-GLUCITOL HETNAM MGF TRIFLUOROMAGNESATE HETSYN YO5 BETA-1 PHOSPHONOMETHYLENE-D-GLUCOPYRANOSE FORMUL 2 MG MG 2+ FORMUL 3 YO5 C7 H15 O8 P FORMUL 4 MGF F3 MG 1- FORMUL 5 HOH *566(H2 O) HELIX 1 1 ASP A 15 ILE A 31 1 17 HELIX 2 2 ASP A 37 GLU A 42 1 6 HELIX 3 3 SER A 48 ALA A 60 1 13 HELIX 4 4 SER A 65 ILE A 84 1 20 HELIX 5 5 SER A 88 VAL A 92 5 5 HELIX 6 6 GLY A 95 ASN A 106 1 12 HELIX 7 7 ASN A 118 MET A 126 1 9 HELIX 8 8 LEU A 128 PHE A 132 5 5 HELIX 9 9 ASP A 137 VAL A 141 5 5 HELIX 10 10 PRO A 148 VAL A 158 1 11 HELIX 11 11 ALA A 161 SER A 163 5 3 HELIX 12 12 SER A 171 GLY A 182 1 12 HELIX 13 13 ARG A 190 GLY A 195 1 6 HELIX 14 14 ASP A 203 TYR A 207 5 5 HELIX 15 15 THR A 208 GLN A 218 1 11 SHEET 1 AA 6 ALA A 134 ILE A 135 0 SHEET 2 AA 6 LYS A 109 LEU A 112 1 N LEU A 112 O ALA A 134 SHEET 3 AA 6 ALA A 4 PHE A 7 1 O VAL A 5 N ALA A 111 SHEET 4 AA 6 SER A 165 GLU A 169 1 O ILE A 166 N LEU A 6 SHEET 5 AA 6 LEU A 184 VAL A 188 1 O LEU A 184 N GLY A 167 SHEET 6 AA 6 VAL A 199 VAL A 201 1 O VAL A 199 N GLY A 187 LINK OD2 ASP A 8 MG MG A1219 1555 1555 2.05 LINK OD1 ASP A 8 MG MGF A1221 1555 1555 2.07 LINK O ASP A 10 MG MG A1219 1555 1555 2.09 LINK OD1 ASP A 170 MG MG A1219 1555 1555 2.04 LINK MG MG A1219 F1 MGF A1221 1555 1555 1.96 LINK MG MG A1219 O HOH A2021 1555 1555 2.10 LINK MG MG A1219 O HOH A2031 1555 1555 2.10 LINK O6 YO5 A1220 MG MGF A1221 1555 1555 2.11 CISPEP 1 LYS A 145 PRO A 146 0 12.76 CRYST1 38.012 54.201 105.407 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 0.026307 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018450 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009487 0.00000