HEADER CHAPERONE 01-JUN-20 6X84 TITLE SN-GLYCEROL-3-PHOSPHATE BINDING PERIPLASMIC PROTEIN UGPB FROM TITLE 2 ESCHERICHIA COLI - W169S, W172S COMPND MOL_ID: 1; COMPND 2 MOLECULE: SN-GLYCEROL-3-PHOSPHATE-BINDING PERIPLASMIC PROTEIN UGPB; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: UGPB, B3453, JW3418; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS CHAPERONE EXPDTA X-RAY DIFFRACTION AUTHOR K.WU,D.ZYLA,J.C.A.BARDWELL REVDAT 5 18-OCT-23 6X84 1 REMARK REVDAT 4 28-OCT-20 6X84 1 JRNL REVDAT 3 23-SEP-20 6X84 1 JRNL REVDAT 2 16-SEP-20 6X84 1 JRNL REVDAT 1 19-AUG-20 6X84 0 JRNL AUTH C.LEE,P.BETSCHINGER,K.WU,D.S.ZYLA,R.GLOCKSHUBER,J.C.BARDWELL JRNL TITL A METABOLITE BINDING PROTEIN MOONLIGHTS AS A BILE-RESPONSIVE JRNL TITL 2 CHAPERONE. JRNL REF EMBO J. V. 39 04231 2020 JRNL REFN ESSN 1460-2075 JRNL PMID 32882062 JRNL DOI 10.15252/EMBJ.2019104231 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 188544 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 9424 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 46.8000 - 3.8800 0.99 6235 329 0.1464 0.1576 REMARK 3 2 3.8800 - 3.0800 0.98 6166 324 0.1562 0.1761 REMARK 3 3 3.0800 - 2.6900 0.98 6162 324 0.1656 0.1754 REMARK 3 4 2.6900 - 2.4500 0.98 6128 323 0.1541 0.1772 REMARK 3 5 2.4500 - 2.2700 0.97 6190 326 0.1489 0.1892 REMARK 3 6 2.2700 - 2.1400 0.97 6098 321 0.1440 0.1812 REMARK 3 7 2.1400 - 2.0300 0.97 6094 320 0.1393 0.1682 REMARK 3 8 2.0300 - 1.9400 0.97 6086 320 0.1450 0.1829 REMARK 3 9 1.9400 - 1.8700 0.96 6072 320 0.1465 0.1782 REMARK 3 10 1.8700 - 1.8000 0.96 6065 319 0.1463 0.2027 REMARK 3 11 1.8000 - 1.7500 0.96 6070 319 0.1453 0.2001 REMARK 3 12 1.7500 - 1.7000 0.96 5981 316 0.1436 0.1870 REMARK 3 13 1.7000 - 1.6500 0.95 6075 320 0.1446 0.2078 REMARK 3 14 1.6500 - 1.6100 0.95 5923 309 0.1445 0.1856 REMARK 3 15 1.6100 - 1.5700 0.95 6003 317 0.1443 0.2041 REMARK 3 16 1.5700 - 1.5400 0.94 5962 313 0.1467 0.1889 REMARK 3 17 1.5400 - 1.5100 0.94 5941 312 0.1543 0.1908 REMARK 3 18 1.5100 - 1.4800 0.94 6016 317 0.1663 0.2175 REMARK 3 19 1.4800 - 1.4600 0.94 5860 309 0.1789 0.2359 REMARK 3 20 1.4600 - 1.4300 0.93 5940 313 0.1903 0.2403 REMARK 3 21 1.4300 - 1.4100 0.94 5879 308 0.1964 0.2471 REMARK 3 22 1.4100 - 1.3900 0.93 5894 311 0.2011 0.2409 REMARK 3 23 1.3900 - 1.3700 0.93 5873 309 0.2130 0.2438 REMARK 3 24 1.3700 - 1.3500 0.93 5850 308 0.2217 0.2501 REMARK 3 25 1.3500 - 1.3300 0.92 5837 308 0.2265 0.2837 REMARK 3 26 1.3300 - 1.3100 0.93 5860 308 0.2421 0.2595 REMARK 3 27 1.3100 - 1.2900 0.92 5743 302 0.2515 0.2849 REMARK 3 28 1.2900 - 1.2800 0.93 5857 308 0.2799 0.3347 REMARK 3 29 1.2800 - 1.2600 0.91 5731 302 0.2972 0.3320 REMARK 3 30 1.2600 - 1.2500 0.87 5529 289 0.3038 0.3160 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) : 0.132 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.304 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.09 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.50 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 : 0.010 6456 REMARK 3 ANGLE : 1.122 8783 REMARK 3 CHIRALITY : 0.086 942 REMARK 3 PLANARITY : 0.008 1164 REMARK 3 DIHEDRAL : 15.137 2303 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 6X84 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1000249755. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAY-20 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 : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000015394130 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 370190 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 46.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : 3.598 REMARK 200 R MERGE (I) : 0.03400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.43 REMARK 200 R MERGE FOR SHELL (I) : 1.21200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.980 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: 4AQ4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM CHES (PH7.5) AND 30% PEG400, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 LYS B 414 REMARK 465 SER B 415 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 GLN A 91 CG CD OE1 NE2 REMARK 470 LYS A 109 CG CD CE NZ REMARK 470 GLN A 170 CG CD OE1 NE2 REMARK 470 LYS A 229 CG CD CE NZ REMARK 470 CYS A 241 SG REMARK 470 TYR A 257 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 312 CG CD OE1 OE2 REMARK 470 LYS A 328 CG CD CE NZ REMARK 470 GLU A 336 CG CD OE1 OE2 REMARK 470 LYS A 342 CG CD CE NZ REMARK 470 LYS B 16 CG CD CE NZ REMARK 470 GLU B 43 CG CD OE1 OE2 REMARK 470 LYS B 76 CG CD CE NZ REMARK 470 LYS B 86 CG CD CE NZ REMARK 470 GLN B 91 CG CD OE1 NE2 REMARK 470 LYS B 109 CG CD CE NZ REMARK 470 LYS B 133 CG CD CE NZ REMARK 470 LYS B 134 CG CD CE NZ REMARK 470 GLN B 141 CG CD OE1 NE2 REMARK 470 LYS B 155 CG CD CE NZ REMARK 470 LYS B 157 CG CD CE NZ REMARK 470 SER B 159 OG REMARK 470 LYS B 162 CG CD CE NZ REMARK 470 LEU B 184 CG CD1 CD2 REMARK 470 GLU B 216 CG CD OE1 OE2 REMARK 470 LYS B 219 CG CD CE NZ REMARK 470 TYR B 225 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG B 228 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 229 CG CD CE NZ REMARK 470 ASP B 230 CG OD1 OD2 REMARK 470 GLU B 231 CG CD OE1 OE2 REMARK 470 GLU B 234 CG CD OE1 OE2 REMARK 470 LYS B 235 CG CD CE NZ REMARK 470 ASP B 240 CG OD1 OD2 REMARK 470 GLU B 256 CG CD OE1 OE2 REMARK 470 LYS B 259 CG CD CE NZ REMARK 470 LYS B 274 CG CD CE NZ REMARK 470 LYS B 310 CG CD CE NZ REMARK 470 GLU B 312 CG CD OE1 OE2 REMARK 470 LYS B 328 CG CD CE NZ REMARK 470 LYS B 342 CG CD CE NZ REMARK 470 ARG B 351 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 379 CG CD OE1 OE2 REMARK 470 SER B 383 OG REMARK 470 LYS B 388 CG CD CE NZ REMARK 470 LYS B 389 CG CD CE NZ REMARK 470 GLN B 393 CG CD OE1 NE2 REMARK 470 GLU B 400 CG CD OE1 OE2 REMARK 470 GLN B 404 CG CD OE1 NE2 REMARK 470 ARG B 408 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 411 CG CD CE NZ REMARK 470 THR B 413 OG1 CG2 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 598 O HOH A 853 1.62 REMARK 500 O HOH A 826 O HOH A 853 1.72 REMARK 500 O HOH A 543 O HOH A 826 1.77 REMARK 500 O HOH A 524 O HOH A 609 1.94 REMARK 500 O HOH B 613 O HOH B 805 1.94 REMARK 500 O HOH A 727 O HOH A 808 2.05 REMARK 500 O HOH A 806 O HOH A 820 2.05 REMARK 500 O HOH A 690 O HOH A 715 2.06 REMARK 500 O HOH A 530 O HOH A 703 2.06 REMARK 500 O HOH A 530 O HOH A 894 2.10 REMARK 500 O HOH A 791 O HOH A 809 2.11 REMARK 500 O HOH A 834 O HOH A 860 2.14 REMARK 500 O HOH A 555 O HOH A 602 2.14 REMARK 500 O HOH B 739 O HOH B 813 2.15 REMARK 500 NZ LYS A 388 O HOH A 501 2.15 REMARK 500 O HOH B 768 O HOH B 813 2.16 REMARK 500 O HOH A 522 O HOH A 569 2.16 REMARK 500 O HOH A 840 O HOH A 857 2.19 REMARK 500 O HOH A 808 O HOH A 828 2.19 REMARK 500 O HOH B 739 O HOH B 768 2.19 REMARK 500 O HOH A 631 O HOH A 702 2.19 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 881 O HOH B 823 1556 2.17 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 CYS A 163 CA - CB - SG ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP A 378 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE A 118 -81.35 -116.96 REMARK 500 ASN A 203 38.18 -97.03 REMARK 500 LYS A 259 46.00 -102.71 REMARK 500 GLN A 278 -94.85 -109.92 REMARK 500 ASN B 57 78.40 -150.92 REMARK 500 PHE B 118 -72.89 -124.05 REMARK 500 LEU B 175 -54.17 -128.73 REMARK 500 LYS B 229 -143.31 -106.95 REMARK 500 GLN B 278 -91.68 -102.04 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 A 912 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A 913 DISTANCE = 6.65 ANGSTROMS REMARK 525 HOH A 914 DISTANCE = 6.80 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 501 DBREF 6X84 A 1 415 UNP P0AG80 UGPB_ECOLI 24 438 DBREF 6X84 B 1 415 UNP P0AG80 UGPB_ECOLI 24 438 SEQADV 6X84 SER A 0 UNP P0AG80 EXPRESSION TAG SEQADV 6X84 SER A 169 UNP P0AG80 TRP 192 ENGINEERED MUTATION SEQADV 6X84 SER A 172 UNP P0AG80 TRP 195 ENGINEERED MUTATION SEQADV 6X84 SER B 0 UNP P0AG80 EXPRESSION TAG SEQADV 6X84 SER B 169 UNP P0AG80 TRP 192 ENGINEERED MUTATION SEQADV 6X84 SER B 172 UNP P0AG80 TRP 195 ENGINEERED MUTATION SEQRES 1 A 416 SER VAL THR THR ILE PRO PHE TRP HIS SER MET GLU GLY SEQRES 2 A 416 GLU LEU GLY LYS GLU VAL ASP SER LEU ALA GLN ARG PHE SEQRES 3 A 416 ASN ALA GLU ASN PRO ASP TYR LYS ILE VAL PRO THR TYR SEQRES 4 A 416 LYS GLY ASN TYR GLU GLN ASN LEU SER ALA GLY ILE ALA SEQRES 5 A 416 ALA PHE ARG THR GLY ASN ALA PRO ALA ILE LEU GLN VAL SEQRES 6 A 416 TYR GLU VAL GLY THR ALA THR MET MET ALA SER LYS ALA SEQRES 7 A 416 ILE LYS PRO VAL TYR ASP VAL PHE LYS GLU ALA GLY ILE SEQRES 8 A 416 GLN PHE ASP GLU SER GLN PHE VAL PRO THR VAL SER GLY SEQRES 9 A 416 TYR TYR SER ASP SER LYS THR GLY HIS LEU LEU SER GLN SEQRES 10 A 416 PRO PHE ASN SER SER THR PRO VAL LEU TYR TYR ASN LYS SEQRES 11 A 416 ASP ALA PHE LYS LYS ALA GLY LEU ASP PRO GLU GLN PRO SEQRES 12 A 416 PRO LYS THR TRP GLN ASP LEU ALA ASP TYR ALA ALA LYS SEQRES 13 A 416 LEU LYS ALA SER GLY MET LYS CYS GLY TYR ALA SER GLY SEQRES 14 A 416 SER GLN GLY SER ILE GLN LEU GLU ASN PHE SER ALA TRP SEQRES 15 A 416 ASN GLY LEU PRO PHE ALA SER LYS ASN ASN GLY PHE ASP SEQRES 16 A 416 GLY THR ASP ALA VAL LEU GLU PHE ASN LYS PRO GLU GLN SEQRES 17 A 416 VAL LYS HIS ILE ALA MET LEU GLU GLU MET ASN LYS LYS SEQRES 18 A 416 GLY ASP PHE SER TYR VAL GLY ARG LYS ASP GLU SER THR SEQRES 19 A 416 GLU LYS PHE TYR ASN GLY ASP CYS ALA MET THR THR ALA SEQRES 20 A 416 SER SER GLY SER LEU ALA ASN ILE ARG GLU TYR ALA LYS SEQRES 21 A 416 PHE ASN TYR GLY VAL GLY MET MET PRO TYR ASP ALA ASP SEQRES 22 A 416 ALA LYS ASP ALA PRO GLN ASN ALA ILE ILE GLY GLY ALA SEQRES 23 A 416 SER LEU TRP VAL MET GLN GLY LYS ASP LYS GLU THR TYR SEQRES 24 A 416 THR GLY VAL ALA LYS PHE LEU ASP PHE LEU ALA LYS PRO SEQRES 25 A 416 GLU ASN ALA ALA GLU TRP HIS GLN LYS THR GLY TYR LEU SEQRES 26 A 416 PRO ILE THR LYS ALA ALA TYR ASP LEU THR ARG GLU GLN SEQRES 27 A 416 GLY PHE TYR GLU LYS ASN PRO GLY ALA ASP THR ALA THR SEQRES 28 A 416 ARG GLN MET LEU ASN LYS PRO PRO LEU PRO PHE THR LYS SEQRES 29 A 416 GLY LEU ARG LEU GLY ASN MET PRO GLN ILE ARG VAL ILE SEQRES 30 A 416 VAL ASP GLU GLU LEU GLU SER VAL TRP THR GLY LYS LYS SEQRES 31 A 416 THR PRO GLN GLN ALA LEU ASP THR ALA VAL GLU ARG GLY SEQRES 32 A 416 ASN GLN LEU LEU ARG ARG PHE GLU LYS SER THR LYS SER SEQRES 1 B 416 SER VAL THR THR ILE PRO PHE TRP HIS SER MET GLU GLY SEQRES 2 B 416 GLU LEU GLY LYS GLU VAL ASP SER LEU ALA GLN ARG PHE SEQRES 3 B 416 ASN ALA GLU ASN PRO ASP TYR LYS ILE VAL PRO THR TYR SEQRES 4 B 416 LYS GLY ASN TYR GLU GLN ASN LEU SER ALA GLY ILE ALA SEQRES 5 B 416 ALA PHE ARG THR GLY ASN ALA PRO ALA ILE LEU GLN VAL SEQRES 6 B 416 TYR GLU VAL GLY THR ALA THR MET MET ALA SER LYS ALA SEQRES 7 B 416 ILE LYS PRO VAL TYR ASP VAL PHE LYS GLU ALA GLY ILE SEQRES 8 B 416 GLN PHE ASP GLU SER GLN PHE VAL PRO THR VAL SER GLY SEQRES 9 B 416 TYR TYR SER ASP SER LYS THR GLY HIS LEU LEU SER GLN SEQRES 10 B 416 PRO PHE ASN SER SER THR PRO VAL LEU TYR TYR ASN LYS SEQRES 11 B 416 ASP ALA PHE LYS LYS ALA GLY LEU ASP PRO GLU GLN PRO SEQRES 12 B 416 PRO LYS THR TRP GLN ASP LEU ALA ASP TYR ALA ALA LYS SEQRES 13 B 416 LEU LYS ALA SER GLY MET LYS CYS GLY TYR ALA SER GLY SEQRES 14 B 416 SER GLN GLY SER ILE GLN LEU GLU ASN PHE SER ALA TRP SEQRES 15 B 416 ASN GLY LEU PRO PHE ALA SER LYS ASN ASN GLY PHE ASP SEQRES 16 B 416 GLY THR ASP ALA VAL LEU GLU PHE ASN LYS PRO GLU GLN SEQRES 17 B 416 VAL LYS HIS ILE ALA MET LEU GLU GLU MET ASN LYS LYS SEQRES 18 B 416 GLY ASP PHE SER TYR VAL GLY ARG LYS ASP GLU SER THR SEQRES 19 B 416 GLU LYS PHE TYR ASN GLY ASP CYS ALA MET THR THR ALA SEQRES 20 B 416 SER SER GLY SER LEU ALA ASN ILE ARG GLU TYR ALA LYS SEQRES 21 B 416 PHE ASN TYR GLY VAL GLY MET MET PRO TYR ASP ALA ASP SEQRES 22 B 416 ALA LYS ASP ALA PRO GLN ASN ALA ILE ILE GLY GLY ALA SEQRES 23 B 416 SER LEU TRP VAL MET GLN GLY LYS ASP LYS GLU THR TYR SEQRES 24 B 416 THR GLY VAL ALA LYS PHE LEU ASP PHE LEU ALA LYS PRO SEQRES 25 B 416 GLU ASN ALA ALA GLU TRP HIS GLN LYS THR GLY TYR LEU SEQRES 26 B 416 PRO ILE THR LYS ALA ALA TYR ASP LEU THR ARG GLU GLN SEQRES 27 B 416 GLY PHE TYR GLU LYS ASN PRO GLY ALA ASP THR ALA THR SEQRES 28 B 416 ARG GLN MET LEU ASN LYS PRO PRO LEU PRO PHE THR LYS SEQRES 29 B 416 GLY LEU ARG LEU GLY ASN MET PRO GLN ILE ARG VAL ILE SEQRES 30 B 416 VAL ASP GLU GLU LEU GLU SER VAL TRP THR GLY LYS LYS SEQRES 31 B 416 THR PRO GLN GLN ALA LEU ASP THR ALA VAL GLU ARG GLY SEQRES 32 B 416 ASN GLN LEU LEU ARG ARG PHE GLU LYS SER THR LYS SER HET GOL B 501 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL C3 H8 O3 FORMUL 4 HOH *656(H2 O) HELIX 1 AA1 GLU A 11 ASN A 29 1 19 HELIX 2 AA2 ASN A 41 THR A 55 1 15 HELIX 3 AA3 GLY A 68 SER A 75 1 8 HELIX 4 AA4 PRO A 80 GLY A 89 1 10 HELIX 5 AA5 ASP A 93 PHE A 97 5 5 HELIX 6 AA6 VAL A 98 GLY A 103 1 6 HELIX 7 AA7 TYR A 104 SER A 106 5 3 HELIX 8 AA8 LYS A 129 ALA A 135 1 7 HELIX 9 AA9 THR A 145 SER A 159 1 15 HELIX 10 AB1 GLN A 170 ASN A 182 1 13 HELIX 11 AB2 ALA A 187 GLY A 192 1 6 HELIX 12 AB3 LYS A 204 LYS A 220 1 17 HELIX 13 AB4 ASP A 230 ASN A 238 1 9 HELIX 14 AB5 SER A 250 ALA A 258 1 9 HELIX 15 AB6 ASP A 294 LYS A 310 1 17 HELIX 16 AB7 LYS A 310 GLY A 322 1 13 HELIX 17 AB8 THR A 327 GLN A 337 1 11 HELIX 18 AB9 GLY A 338 ASN A 343 1 6 HELIX 19 AC1 ASP A 347 LEU A 354 1 8 HELIX 20 AC2 ASN A 369 THR A 386 1 18 HELIX 21 AC3 THR A 390 THR A 413 1 24 HELIX 22 AC4 GLU B 11 ASN B 29 1 19 HELIX 23 AC5 ASN B 41 THR B 55 1 15 HELIX 24 AC6 GLY B 68 LYS B 76 1 9 HELIX 25 AC7 PRO B 80 GLY B 89 1 10 HELIX 26 AC8 ASP B 93 PHE B 97 5 5 HELIX 27 AC9 VAL B 98 GLY B 103 1 6 HELIX 28 AD1 TYR B 104 SER B 106 5 3 HELIX 29 AD2 LYS B 129 GLY B 136 1 8 HELIX 30 AD3 THR B 145 SER B 159 1 15 HELIX 31 AD4 SER B 169 LEU B 175 1 7 HELIX 32 AD5 LEU B 175 ASN B 182 1 8 HELIX 33 AD6 ALA B 187 GLY B 192 1 6 HELIX 34 AD7 LYS B 204 LYS B 220 1 17 HELIX 35 AD8 ASP B 230 ASN B 238 1 9 HELIX 36 AD9 SER B 250 ALA B 258 1 9 HELIX 37 AE1 ASP B 294 LYS B 310 1 17 HELIX 38 AE2 LYS B 310 GLY B 322 1 13 HELIX 39 AE3 THR B 327 GLN B 337 1 11 HELIX 40 AE4 GLY B 338 ASN B 343 1 6 HELIX 41 AE5 ASP B 347 LEU B 354 1 8 HELIX 42 AE6 ASN B 369 THR B 386 1 18 HELIX 43 AE7 THR B 390 SER B 412 1 23 SHEET 1 AA1 5 TYR A 32 TYR A 38 0 SHEET 2 AA1 5 THR A 2 HIS A 8 1 N ILE A 4 O LYS A 33 SHEET 3 AA1 5 ILE A 61 TYR A 65 1 O ILE A 61 N TRP A 7 SHEET 4 AA1 5 GLY A 283 MET A 290 -1 O TRP A 288 N LEU A 62 SHEET 5 AA1 5 ILE A 78 LYS A 79 -1 N LYS A 79 O VAL A 289 SHEET 1 AA2 5 TYR A 32 TYR A 38 0 SHEET 2 AA2 5 THR A 2 HIS A 8 1 N ILE A 4 O LYS A 33 SHEET 3 AA2 5 ILE A 61 TYR A 65 1 O ILE A 61 N TRP A 7 SHEET 4 AA2 5 GLY A 283 MET A 290 -1 O TRP A 288 N LEU A 62 SHEET 5 AA2 5 GLN A 116 SER A 121 -1 N GLN A 116 O LEU A 287 SHEET 1 AA3 5 PHE A 223 VAL A 226 0 SHEET 2 AA3 5 CYS A 163 GLY A 168 1 N TYR A 165 O SER A 224 SHEET 3 AA3 5 CYS A 241 SER A 247 1 O MET A 243 N ALA A 166 SHEET 4 AA3 5 PRO A 123 ASN A 128 -1 N TYR A 126 O THR A 244 SHEET 5 AA3 5 TYR A 262 GLY A 265 -1 O GLY A 265 N LEU A 125 SHEET 1 AA4 5 TYR B 32 TYR B 38 0 SHEET 2 AA4 5 THR B 2 HIS B 8 1 N ILE B 4 O LYS B 33 SHEET 3 AA4 5 ILE B 61 TYR B 65 1 O GLN B 63 N TRP B 7 SHEET 4 AA4 5 GLY B 283 MET B 290 -1 O TRP B 288 N LEU B 62 SHEET 5 AA4 5 ILE B 78 LYS B 79 -1 N LYS B 79 O VAL B 289 SHEET 1 AA5 5 TYR B 32 TYR B 38 0 SHEET 2 AA5 5 THR B 2 HIS B 8 1 N ILE B 4 O LYS B 33 SHEET 3 AA5 5 ILE B 61 TYR B 65 1 O GLN B 63 N TRP B 7 SHEET 4 AA5 5 GLY B 283 MET B 290 -1 O TRP B 288 N LEU B 62 SHEET 5 AA5 5 GLN B 116 SER B 121 -1 N GLN B 116 O LEU B 287 SHEET 1 AA6 4 CYS B 163 SER B 167 0 SHEET 2 AA6 4 CYS B 241 SER B 247 1 O ALA B 242 N CYS B 163 SHEET 3 AA6 4 PRO B 123 ASN B 128 -1 N TYR B 126 O THR B 244 SHEET 4 AA6 4 TYR B 262 MET B 266 -1 O GLY B 265 N LEU B 125 CISPEP 1 ALA A 276 PRO A 277 0 -13.06 CISPEP 2 ALA B 276 PRO B 277 0 -1.17 SITE 1 AC1 7 ALA A 271 ASP A 272 ALA A 273 PRO B 5 SITE 2 AC1 7 ASN B 57 LYS B 293 HOH B 660 CRYST1 43.936 46.724 94.792 90.89 98.53 105.13 P 1 2 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 0.022760 0.006156 0.003769 0.00000 SCALE2 0.000000 0.022171 0.001261 0.00000 SCALE3 0.000000 0.000000 0.010685 0.00000