HEADER TRANSFERASE/DNA 23-JUN-14 4UQG TITLE A NEW BIO-ISOSTERIC BASE PAIR BASED ON REVERSIBLE BONDING COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: POLYMERASE DOMAIN, RESIDUES 2-580; COMPND 5 SYNONYM: DNA POLYMERASE I FRAGMENT; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-D(*GP*AP*CP*C T0TP*TP*CP*CP*CP*TP)-3'; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: POLYDEOXYRIBONUCLEOTIDE B; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: LINK TO CHAIN C VIA RESIDUE SAY; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: 5'-D(*AP*GP*GP*GP*A SAYP*GP*GP*TP*CP)-3'; COMPND 16 CHAIN: C; COMPND 17 SYNONYM: POLYDEOXYRIBONUCLEOTIDE C; COMPND 18 ENGINEERED: YES; COMPND 19 OTHER_DETAILS: LINK TO CHAIN B VIA RESIDUE T0T SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS STEAROTHERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1422; SOURCE 4 STRAIN: DSM 22; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 OTHER_DETAILS: GERMAN COLLECTION OF MICROORGANISMS (DSM); SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 16 ORGANISM_TAXID: 32630 KEYWDS TRANSFERASE-DNA COMPLEX, UNNATURAL BASE PAIR EXPDTA X-RAY DIFFRACTION AUTHOR M.TOMAS-GAMASA,S.SERDJUKOV,M.SU,M.MUELLER,T.CARELL REVDAT 7 10-JAN-24 4UQG 1 HETSYN REVDAT 6 29-JUL-20 4UQG 1 COMPND REMARK HET HETNAM REVDAT 6 2 1 HETSYN FORMUL LINK SITE REVDAT 6 3 1 ATOM REVDAT 5 20-FEB-19 4UQG 1 SOURCE JRNL LINK REVDAT 4 23-AUG-17 4UQG 1 REMARK REVDAT 3 28-JAN-15 4UQG 1 JRNL REVDAT 2 10-DEC-14 4UQG 1 JRNL REMARK REVDAT 1 03-DEC-14 4UQG 0 JRNL AUTH M.TOMAS-GAMASA,S.SERDJUKOW,M.SU,M.MULLER,T.CARELL JRNL TITL "POST-IT" TYPE CONNECTED DNA CREATED WITH A REVERSIBLE JRNL TITL 2 COVALENT CROSS-LINK. JRNL REF ANGEW. CHEM. INT. ED. ENGL. V. 54 796 2015 JRNL REFN ESSN 1521-3773 JRNL PMID 25446281 JRNL DOI 10.1002/ANIE.201407854 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 70.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 56624 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2937 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3928 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.07 REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 222 REMARK 3 BIN FREE R VALUE : 0.3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4538 REMARK 3 NUCLEIC ACID ATOMS : 411 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.10000 REMARK 3 B22 (A**2) : -2.23000 REMARK 3 B33 (A**2) : -1.87000 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): 0.138 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.130 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.106 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.904 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5127 ; 0.018 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4729 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7035 ; 1.663 ; 1.910 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10857 ; 1.138 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 580 ; 5.824 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 214 ;35.070 ;24.159 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 811 ;13.491 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;18.478 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 792 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5486 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1146 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2317 ; 2.900 ; 3.212 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2316 ; 2.888 ; 3.211 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2895 ; 3.547 ; 4.797 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2810 ; 4.362 ; 3.826 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4UQG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1290061019. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59562 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 70.160 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.0500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : 8.80 REMARK 200 R MERGE FOR SHELL (I) : 0.92000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.590 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: PDB ENTRY 2XY5 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 46-49% AMMONIUM SULFATE, 2-3% MPD, REMARK 280 100MM MES PH5.8 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 43.72100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.70800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.99800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.70800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.72100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.99800 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.7 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 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 298 CG CD CE NZ REMARK 470 GLU A 309 CG CD OE1 OE2 REMARK 470 GLU A 325 OE1 OE2 REMARK 470 GLU A 349 CG CD OE1 OE2 REMARK 470 GLU A 364 CG CD OE1 OE2 REMARK 470 LYS A 431 CG CD CE NZ REMARK 470 LYS A 434 CG CD CE NZ REMARK 470 ARG A 466 NH1 NH2 REMARK 470 GLU A 505 CD OE1 OE2 REMARK 470 ARG A 512 NE CZ NH1 NH2 REMARK 470 GLU A 525 CG CD OE1 OE2 REMARK 470 LYS A 532 CG CD CE NZ REMARK 470 LYS A 548 CG CD CE NZ REMARK 470 LYS A 551 CG CD CE NZ REMARK 470 LYS A 593 CE NZ REMARK 470 LYS A 600 CD CE NZ REMARK 470 GLU A 632 CG CD OE1 OE2 REMARK 470 ILE A 716 CG1 CG2 CD1 REMARK 470 TYR A 719 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 723 CG CD OE1 NE2 REMARK 470 ARG A 729 CZ NH1 NH2 REMARK 470 LYS A 730 CG CD CE NZ REMARK 470 GLU A 734 CG CD OE1 OE2 REMARK 470 GLU A 737 CG CD OE1 OE2 REMARK 470 ARG A 738 NE CZ NH1 NH2 REMARK 470 GLU A 741 CG CD OE1 OE2 REMARK 470 ARG A 748 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 755 CG CD OE1 NE2 REMARK 470 LYS A 758 CE NZ REMARK 470 LYS A 876 CG CD CE NZ 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 637 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 843 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 843 NE - CZ - NH2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 859 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 859 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 DC B 27 O5' - P - OP2 ANGL. DEV. = -8.6 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 ASP A 402 98.89 -162.49 REMARK 500 ALA A 421 44.05 -86.66 REMARK 500 LEU A 610 -56.97 -122.21 REMARK 500 ILE A 628 -26.35 -148.41 REMARK 500 ILE A 716 82.36 46.41 REMARK 500 HIS A 768 16.89 85.63 REMARK 500 HIS A 829 -54.53 73.08 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 A2104 DISTANCE = 6.07 ANGSTROMS REMARK 999 REMARK 999 SEQUENCE REMARK 999 SYNTHETIC CONSTRUCT DBREF 4UQG A 298 876 UNP E1C9K5 E1C9K5_GEOSE 2 580 DBREF 4UQG B 20 29 PDB 4UQG 4UQG 20 29 DBREF 4UQG C 4 13 PDB 4UQG 4UQG 4 13 SEQRES 1 A 579 LYS MET ALA PHE THR LEU ALA ASP ARG VAL THR GLU GLU SEQRES 2 A 579 MET LEU ALA ASP LYS ALA ALA LEU VAL VAL GLU VAL VAL SEQRES 3 A 579 GLU GLU ASN TYR HIS ASP ALA PRO ILE VAL GLY ILE ALA SEQRES 4 A 579 VAL VAL ASN GLU HIS GLY ARG PHE PHE LEU ARG PRO GLU SEQRES 5 A 579 THR ALA LEU ALA ASP PRO GLN PHE VAL ALA TRP LEU GLY SEQRES 6 A 579 ASP GLU THR LYS LYS LYS SER MET PHE ASP SER LYS ARG SEQRES 7 A 579 ALA ALA VAL ALA LEU LYS TRP LYS GLY ILE GLU LEU CYS SEQRES 8 A 579 GLY VAL SER PHE ASP LEU LEU LEU ALA ALA TYR LEU LEU SEQRES 9 A 579 ASP PRO ALA GLN GLY VAL ASP ASP VAL ALA ALA ALA ALA SEQRES 10 A 579 LYS MET LYS GLN TYR GLU ALA VAL ARG PRO ASP GLU ALA SEQRES 11 A 579 VAL TYR GLY LYS GLY ALA LYS ARG ALA VAL PRO ASP GLU SEQRES 12 A 579 PRO VAL LEU ALA GLU HIS LEU VAL ARG LYS ALA ALA ALA SEQRES 13 A 579 ILE TRP ALA LEU GLU ARG PRO PHE LEU ASP GLU LEU ARG SEQRES 14 A 579 ARG ASN GLU GLN ASP ARG LEU LEU VAL GLU LEU GLU GLN SEQRES 15 A 579 PRO LEU SER SER ILE LEU ALA GLU MET GLU PHE ALA GLY SEQRES 16 A 579 VAL LYS VAL ASP THR LYS ARG LEU GLU GLN MET GLY GLU SEQRES 17 A 579 GLU LEU ALA GLU GLN LEU ARG THR VAL GLU GLN ARG ILE SEQRES 18 A 579 TYR GLU LEU ALA GLY GLN GLU PHE ASN ILE ASN SER PRO SEQRES 19 A 579 LYS GLN LEU GLY VAL ILE LEU PHE GLU LYS LEU GLN LEU SEQRES 20 A 579 PRO VAL LEU LYS LYS SER LYS THR GLY TYR SER THR SER SEQRES 21 A 579 ALA ASP VAL LEU GLU LYS LEU ALA PRO TYR HIS GLU ILE SEQRES 22 A 579 VAL GLU ASN ILE LEU HIS TYR ARG GLN LEU GLY LYS LEU SEQRES 23 A 579 GLN SER THR TYR ILE GLU GLY LEU LEU LYS VAL VAL ARG SEQRES 24 A 579 PRO ASP THR LYS LYS VAL HIS THR ILE PHE ASN GLN ALA SEQRES 25 A 579 LEU THR GLN THR GLY ARG LEU SER SER THR GLU PRO ASN SEQRES 26 A 579 LEU GLN ASN ILE PRO ILE ARG LEU GLU GLU GLY ARG LYS SEQRES 27 A 579 ILE ARG GLN ALA PHE VAL PRO SER GLU SER ASP TRP LEU SEQRES 28 A 579 ILE PHE ALA ALA ASP TYR SER GLN ILE GLU LEU ARG VAL SEQRES 29 A 579 LEU ALA HIS ILE ALA GLU ASP ASP ASN LEU MET GLU ALA SEQRES 30 A 579 PHE ARG ARG ASP LEU ASP ILE HIS THR LYS THR ALA MET SEQRES 31 A 579 ASP ILE PHE GLN VAL SER GLU ASP GLU VAL THR PRO ASN SEQRES 32 A 579 MET ARG ARG GLN ALA LYS ALA VAL ASN PHE GLY ILE VAL SEQRES 33 A 579 TYR GLY ILE SER ASP TYR GLY LEU ALA GLN ASN LEU ASN SEQRES 34 A 579 ILE SER ARG LYS GLU ALA ALA GLU PHE ILE GLU ARG TYR SEQRES 35 A 579 PHE GLU SER PHE PRO GLY VAL LYS ARG TYR MET GLU ASN SEQRES 36 A 579 ILE VAL GLN GLU ALA LYS GLN LYS GLY TYR VAL THR THR SEQRES 37 A 579 LEU LEU HIS ARG ARG ARG TYR LEU PRO ASP ILE THR SER SEQRES 38 A 579 ARG ASN PHE ASN VAL ARG SER PHE ALA GLU ARG MET ALA SEQRES 39 A 579 MET ASN THR PRO ILE GLN GLY SER ALA ALA ASP ILE ILE SEQRES 40 A 579 LYS LYS ALA MET ILE ASP LEU ASN ALA ARG LEU LYS GLU SEQRES 41 A 579 GLU ARG LEU GLN ALA ARG LEU LEU LEU GLN VAL HIS ASP SEQRES 42 A 579 GLU LEU ILE LEU GLU ALA PRO LYS GLU GLU MET GLU ARG SEQRES 43 A 579 LEU CYS ARG LEU VAL PRO GLU VAL MET GLU GLN ALA VAL SEQRES 44 A 579 THR LEU ARG VAL PRO LEU LYS VAL ASP TYR HIS TYR GLY SEQRES 45 A 579 SER THR TRP TYR ASP ALA LYS SEQRES 1 B 10 DG DA DC DC T0T DT DC DC DC DT SEQRES 1 C 10 DA DG DG DG DA SAY DG DG DT DC HET T0T B 24 26 HET SAY C 9 19 HET GLC D 1 11 HET FRU D 2 12 HET SO4 A 878 5 HET SO4 A 879 5 HET SO4 A 880 5 HET SO4 A 881 5 HETNAM T0T (1R)-1-{4-[(E)-2-(2-AMINOPHENYL)ETHENYL]PHENYL}-1,4- HETNAM 2 T0T ANHYDRO-2-DEOXY-5-O-PHOSPHONATO-D-ERYTHRO-PENTITOL HETNAM SAY [(2R,3S,5R)-3-HYDROXY-5-(3-HYDROXY-4-METHANOYL-PHENYL) HETNAM 2 SAY OXOLAN-2-YL]METHYL DIHYDROGEN PHOSPHATE HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM FRU BETA-D-FRUCTOFURANOSE HETNAM SO4 SULFATE ION HETSYN SAY 2'-DEOXY-1'-(3-HYDROXY-4-FORMYLPHENYL)RIBOSE-5'- HETSYN 2 SAY MONOPHOSPHATE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN FRU BETA-D-FRUCTOSE; D-FRUCTOSE; FRUCTOSE FORMUL 2 T0T C19 H22 N O6 P FORMUL 3 SAY C12 H15 O8 P FORMUL 4 GLC C6 H12 O6 FORMUL 4 FRU C6 H12 O6 FORMUL 5 SO4 4(O4 S 2-) FORMUL 9 HOH *210(H2 O) HELIX 1 1 THR A 308 ALA A 313 5 6 HELIX 2 2 ARG A 347 LEU A 352 1 6 HELIX 3 3 ASP A 354 GLY A 362 1 9 HELIX 4 4 ASP A 372 TRP A 382 1 11 HELIX 5 5 LEU A 394 ASP A 402 1 9 HELIX 6 6 PRO A 403 GLY A 406 5 4 HELIX 7 7 ASP A 409 MET A 416 1 8 HELIX 8 8 PRO A 424 GLY A 430 1 7 HELIX 9 9 LYS A 431 ARG A 435 5 5 HELIX 10 10 ASP A 439 ASN A 468 1 30 HELIX 11 11 GLN A 470 LEU A 477 1 8 HELIX 12 12 LEU A 477 GLY A 492 1 16 HELIX 13 13 ASP A 496 GLY A 523 1 28 HELIX 14 14 SER A 530 GLU A 540 1 11 HELIX 15 15 SER A 557 ALA A 565 1 9 HELIX 16 16 PRO A 566 HIS A 568 5 3 HELIX 17 17 GLU A 569 TYR A 587 1 19 HELIX 18 18 TYR A 587 VAL A 595 1 9 HELIX 19 19 LEU A 630 LYS A 635 1 6 HELIX 20 20 ILE A 636 GLN A 638 5 3 HELIX 21 21 GLN A 656 GLU A 667 1 12 HELIX 22 22 ASP A 668 ARG A 677 1 10 HELIX 23 23 ASP A 680 GLN A 691 1 12 HELIX 24 24 SER A 693 VAL A 697 5 5 HELIX 25 25 THR A 698 TYR A 714 1 17 HELIX 26 26 SER A 717 ASN A 726 1 10 HELIX 27 27 SER A 728 PHE A 743 1 16 HELIX 28 28 PHE A 743 GLY A 761 1 19 HELIX 29 29 PRO A 774 SER A 778 5 5 HELIX 30 30 ASN A 780 GLU A 818 1 39 HELIX 31 31 GLU A 840 GLN A 854 1 15 HELIX 32 32 THR A 871 ALA A 875 5 5 SHEET 1 AA 6 THR A 302 LEU A 303 0 SHEET 2 AA 6 GLY A 342 LEU A 346 1 O ARG A 343 N THR A 302 SHEET 3 AA 6 GLY A 334 ASN A 339 -1 O ILE A 335 N LEU A 346 SHEET 4 AA 6 LYS A 315 GLU A 321 -1 O ALA A 317 N VAL A 338 SHEET 5 AA 6 LYS A 367 MET A 370 1 O LYS A 367 N ALA A 316 SHEET 6 AA 6 VAL A 390 ASP A 393 1 N SER A 391 O LYS A 368 SHEET 1 AB 3 LYS A 601 VAL A 602 0 SHEET 2 AB 3 VAL A 493 VAL A 495 -1 O VAL A 493 N VAL A 602 SHEET 3 AB 3 PHE A 640 VAL A 641 -1 O VAL A 641 N LYS A 494 SHEET 1 AC 2 LYS A 549 SER A 550 0 SHEET 2 AC 2 GLY A 553 TYR A 554 -1 O GLY A 553 N SER A 550 SHEET 1 AD 2 ILE A 605 ASN A 607 0 SHEET 2 AD 2 SER A 617 THR A 619 -1 O SER A 617 N ASN A 607 SHEET 1 AE 4 ARG A 823 GLN A 827 0 SHEET 2 AE 4 GLU A 831 PRO A 837 -1 O ILE A 833 N LEU A 825 SHEET 3 AE 4 TRP A 647 TYR A 654 -1 O LEU A 648 N ALA A 836 SHEET 4 AE 4 VAL A 864 GLY A 869 -1 O ASP A 865 N ASP A 653 SHEET 1 AF 2 TYR A 762 THR A 764 0 SHEET 2 AF 2 ARG A 770 TYR A 772 -1 O ARG A 771 N VAL A 763 LINK O3' DC B 23 P T0T B 24 1555 1555 1.60 LINK O3' T0T B 24 P DT B 25 1555 1555 1.59 LINK N15 T0T B 24 CAG SAY C 9 1555 1555 1.25 LINK O3' DA C 8 P SAY C 9 1555 1555 1.58 LINK O3' SAY C 9 P DG C 10 1555 1555 1.59 LINK C1 GLC D 1 O2 FRU D 2 1555 1555 1.46 CISPEP 1 GLU A 620 PRO A 621 0 4.17 CRYST1 87.442 93.996 105.416 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 0.011436 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010639 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009486 0.00000