HEADER PERIPLASMIC PEPTIDE BINDING PROTEIN 31-MAR-19 6OFQ TITLE ABC TRANSPORTER-ASSOCIATED PERIPLASMIC BINDING PROTEIN DPPA FROM TITLE 2 HELICOBACTER PYLORI IN COMPLEX WITH PEPTIDE STSA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HEME-BINDING PROTEIN A / AI-2 BINDING PROTEIN A; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: SER-THR-SER-ALA; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI SS1; SOURCE 3 ORGANISM_TAXID: 102617; SOURCE 4 GENE: HBPA, HPYLSS1_00287; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET151/D-TOPO; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 11 ORGANISM_TAXID: 562 KEYWDS DPPA, TYPE II, PERIPLASMIC BINDING PROTEIN, PERIPLASMIC PEPTIDE KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.M.RAHMAN,M.A.MACHUCA,M.F.KHAN,C.K.BARLOW,R.B.SCHITTENHELM, AUTHOR 2 A.ROUJEINIKOVA REVDAT 3 11-OCT-23 6OFQ 1 REMARK REVDAT 2 02-OCT-19 6OFQ 1 JRNL REVDAT 1 21-AUG-19 6OFQ 0 JRNL AUTH M.M.RAHMAN,M.A.MACHUCA,M.F.KHAN,C.K.BARLOW,R.B.SCHITTENHELM, JRNL AUTH 2 A.ROUJEINIKOVA JRNL TITL MOLECULAR BASIS OF UNEXPECTED SPECIFICITY OF ABC JRNL TITL 2 TRANSPORTER-ASSOCIATED SUBSTRATE-BINDING PROTEIN DPPA FROM JRNL TITL 3 HELICOBACTER PYLORI. JRNL REF J.BACTERIOL. V. 201 2019 JRNL REFN ESSN 1098-5530 JRNL PMID 31358613 JRNL DOI 10.1128/JB.00400-19 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 85.6 REMARK 3 NUMBER OF REFLECTIONS : 90711 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) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.175 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 4656 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6650 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 349 REMARK 3 BIN FREE R VALUE : 0.2520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4146 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 875 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.061 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.064 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.102 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4332 ; 0.012 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4136 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5878 ; 2.192 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9557 ; 1.116 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 532 ; 6.417 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 190 ;38.529 ;24.316 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 759 ;12.462 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;17.765 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 629 ; 0.138 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4881 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1001 ; 0.002 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6OFQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-APR-19. REMARK 100 THE DEPOSITION ID IS D_1000240488. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-APR-18 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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 95404 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 38.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.1 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.47 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.39300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 5F1Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG 3350, 0.25 M TRI-AMMONIUM REMARK 280 CITRATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.15K 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 32.06000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.18500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.88500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.18500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.06000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.88500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: AS PER THE AUTHORS THE BIOLOGICAL ASSEMBLY IS A MONOMER REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 GLY A 17 REMARK 465 ILE A 18 REMARK 465 ASP A 19 REMARK 465 PRO A 20 REMARK 465 PHE A 21 REMARK 465 THR A 22 REMARK 465 SER A 23 REMARK 465 GLU A 24 REMARK 465 ASN A 25 REMARK 465 PRO A 26 REMARK 465 ASN A 27 REMARK 465 ALA A 28 REMARK 465 THR A 29 REMARK 465 LEU A 30 REMARK 465 ASN A 31 REMARK 465 PRO A 32 REMARK 465 SER A 33 REMARK 465 LYS A 34 REMARK 465 GLU A 35 REMARK 465 ASN A 36 REMARK 465 ILE A 37 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 939 O HOH A 965 1.31 REMARK 500 O HOH A 1263 O HOH A 1424 1.44 REMARK 500 O HOH A 1245 O HOH A 1354 1.47 REMARK 500 O HOH A 1108 O HOH A 1484 1.48 REMARK 500 O HOH A 880 O HOH A 1434 1.52 REMARK 500 O HOH A 983 O HOH A 1388 1.52 REMARK 500 O HOH A 1000 O HOH A 1283 1.55 REMARK 500 O HOH A 1442 O HOH A 1635 1.57 REMARK 500 O HOH A 874 O HOH A 1147 1.57 REMARK 500 O HOH A 812 O HOH A 870 1.59 REMARK 500 O HOH A 809 O HOH A 894 1.68 REMARK 500 O HOH A 820 O HOH A 1329 1.68 REMARK 500 O HOH A 868 O HOH A 1106 1.68 REMARK 500 O HOH A 1076 O HOH A 1450 1.73 REMARK 500 O HOH A 1379 O HOH A 1474 1.77 REMARK 500 O HOH A 847 O HOH A 1337 1.78 REMARK 500 O HOH A 833 O HOH A 1194 1.80 REMARK 500 SD MET A 439 O HOH A 1657 1.81 REMARK 500 O HOH A 1429 O HOH A 1438 1.87 REMARK 500 O HOH A 801 O HOH A 1023 1.93 REMARK 500 O HOH A 1262 O HOH A 1416 1.94 REMARK 500 OE2 GLU A 161 O HOH A 801 1.97 REMARK 500 O HOH A 852 O HOH A 861 2.02 REMARK 500 O HOH A 1337 O HOH A 1573 2.05 REMARK 500 O HOH A 1131 O HOH A 1423 2.05 REMARK 500 O HOH A 1462 O HOH A 1571 2.05 REMARK 500 O HOH A 881 O HOH A 1260 2.08 REMARK 500 O HOH A 890 O HOH A 1583 2.09 REMARK 500 O HOH A 1137 O HOH A 1593 2.10 REMARK 500 OE1 GLN A 213 O HOH A 802 2.11 REMARK 500 O HOH A 1424 O HOH A 1645 2.11 REMARK 500 O HOH A 1354 O HOH A 1437 2.13 REMARK 500 O HOH A 861 O HOH A 964 2.13 REMARK 500 O HOH A 1353 O HOH A 1504 2.14 REMARK 500 O HOH A 1131 O HOH A 1208 2.14 REMARK 500 O HOH A 801 O HOH A 1058 2.14 REMARK 500 OE2 GLU A 212 O HOH A 803 2.15 REMARK 500 O HOH A 1186 O HOH A 1525 2.16 REMARK 500 O HOH A 1333 O HOH A 1429 2.17 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 816 O HOH A 1211 3444 1.90 REMARK 500 O HOH A 1460 O HOH A 1573 4555 1.93 REMARK 500 O HOH A 1474 O HOH A 1559 3454 1.97 REMARK 500 O HOH A 816 O HOH A 1094 3444 2.01 REMARK 500 O HOH A 894 O HOH A 945 4455 2.05 REMARK 500 O HOH A 1049 O HOH A 1547 3444 2.11 REMARK 500 O HOH A 1439 O HOH A 1460 4455 2.16 REMARK 500 O HOH A 1283 O HOH A 1364 3454 2.18 REMARK 500 O HOH A 1505 O HOH A 1602 3444 2.18 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 113 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP A 134 CB - CG - OD1 ANGL. DEV. = -8.1 DEGREES REMARK 500 ARG A 181 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP A 209 CB - CG - OD2 ANGL. DEV. = -8.3 DEGREES REMARK 500 ARG A 270 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 270 NE - CZ - NH2 ANGL. DEV. = -5.7 DEGREES REMARK 500 GLU A 278 OE1 - CD - OE2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG A 327 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 327 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP A 372 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ASP A 478 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG A 489 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 496 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 496 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 LYS A 509 CD - CE - NZ ANGL. DEV. = 14.1 DEGREES REMARK 500 PHE A 543 CB - CG - CD2 ANGL. DEV. = -4.9 DEGREES REMARK 500 PHE A 543 CB - CG - CD1 ANGL. DEV. = 6.0 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 ALA A 94 -115.43 -139.31 REMARK 500 TYR A 149 -64.49 81.78 REMARK 500 GLU A 239 -68.98 -128.30 REMARK 500 TYR A 320 -57.23 81.88 REMARK 500 VAL A 352 -61.08 -121.63 REMARK 500 ASP A 372 92.13 -163.59 REMARK 500 GLU A 438 -62.44 -101.01 REMARK 500 PHE A 454 -61.48 -100.45 REMARK 500 PRO A 512 23.87 -76.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 270 0.08 SIDE CHAIN 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 A1664 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A1665 DISTANCE = 6.43 ANGSTROMS REMARK 525 HOH A1666 DISTANCE = 7.04 ANGSTROMS REMARK 525 HOH A1667 DISTANCE = 7.07 ANGSTROMS DBREF1 6OFQ A 23 549 UNP A0A1U9ISL1_HELPX DBREF2 6OFQ A A0A1U9ISL1 10 536 DBREF 6OFQ B 1 4 PDB 6OFQ 6OFQ 1 4 SEQADV 6OFQ GLY A 17 UNP A0A1U9ISL EXPRESSION TAG SEQADV 6OFQ ILE A 18 UNP A0A1U9ISL EXPRESSION TAG SEQADV 6OFQ ASP A 19 UNP A0A1U9ISL EXPRESSION TAG SEQADV 6OFQ PRO A 20 UNP A0A1U9ISL EXPRESSION TAG SEQADV 6OFQ PHE A 21 UNP A0A1U9ISL EXPRESSION TAG SEQADV 6OFQ THR A 22 UNP A0A1U9ISL EXPRESSION TAG SEQRES 1 A 533 GLY ILE ASP PRO PHE THR SER GLU ASN PRO ASN ALA THR SEQRES 2 A 533 LEU ASN PRO SER LYS GLU ASN ILE SER VAL LYS GLU GLN SEQRES 3 A 533 LYS ARG PHE GLY GLY VAL LEU VAL PHE ALA ARG GLY ALA SEQRES 4 A 533 ASP GLY SER SER MET ASP PRO ALA LEU VAL THR ASP GLY SEQRES 5 A 533 GLU SER TYR VAL ALA THR GLY ASN ILE TYR ASP THR LEU SEQRES 6 A 533 VAL GLN PHE LYS TYR GLY THR THR GLU ILE GLU PRO ALA SEQRES 7 A 533 LEU ALA THR SER TRP ASP ILE SER PRO ASP GLY LEU VAL SEQRES 8 A 533 TYR THR PHE HIS LEU ARG LYS GLY VAL TYR PHE HIS GLN SEQRES 9 A 533 THR LYS TYR TRP ASN LYS LYS VAL GLU PHE SER ALA LYS SEQRES 10 A 533 ASP VAL LEU PHE SER PHE GLU ARG GLN MET ASP LYS ALA SEQRES 11 A 533 LYS ARG TYR TYR SER PRO GLY ALA LYS SER TYR LYS TYR SEQRES 12 A 533 TRP GLU GLY MET GLY MET SER HIS ILE ILE LYS SER ILE SEQRES 13 A 533 GLU ALA LEU ASP ASP TYR THR ILE ARG PHE THR LEU ASN SEQRES 14 A 533 GLY PRO GLU ALA PRO PHE LEU ALA ASN LEU GLY MET ASP SEQRES 15 A 533 PHE LEU SER ILE LEU SER LYS ASP TYR ALA ASP TYR LEU SEQRES 16 A 533 GLU GLN ASN ASN LYS LYS ASP GLU LEU ALA LYS LYS PRO SEQRES 17 A 533 VAL GLY THR GLY PRO PHE LYS PHE PHE LEU TRP ASN LYS SEQRES 18 A 533 ASP GLU LYS ILE ILE LEU LEU LYS ASN GLN ASP TYR TRP SEQRES 19 A 533 GLY PRO LYS ALA TYR LEU ASP LYS VAL VAL VAL ARG THR SEQRES 20 A 533 ILE PRO ASN SER SER THR ARG ALA LEU ALA LEU ARG THR SEQRES 21 A 533 GLY GLU ILE MET LEU MET THR GLY PRO ASN LEU ASN GLU SEQRES 22 A 533 VAL GLU GLN LEU GLU LYS LEU PRO ASN ILE VAL VAL ASP SEQRES 23 A 533 LYS SER ALA GLY LEU LEU ALA SER TRP LEU SER LEU ASN SEQRES 24 A 533 THR GLN LYS LYS TYR PHE ASN ASN PRO LEU VAL ARG LEU SEQRES 25 A 533 ALA ILE ASN HIS ALA ILE ASN VAL ASP ASP TYR ILE LYS SEQRES 26 A 533 VAL ILE TYR GLU GLY PHE ALA GLN LYS MET VAL ASN PRO SEQRES 27 A 533 PHE PRO PRO THR ILE TRP GLY TYR ASN TYR ASN ILE LYS SEQRES 28 A 533 PRO TYR GLU TYR ASP LEU LYS LYS ALA LYS GLU LEU LEU SEQRES 29 A 533 LYS GLN ALA GLY TYR PRO ASN GLY PHE LYS THR THR ILE SEQRES 30 A 533 PHE THR THR SER THR ARG ASN PRO LYS GLY ALA VAL PHE SEQRES 31 A 533 ILE GLN ALA SER LEU ALA LYS ILE GLY ILE ASP VAL LYS SEQRES 32 A 533 ILE GLU VAL TYR GLU TRP GLY ALA TYR LEU LYS ARG THR SEQRES 33 A 533 GLY LEU GLY GLU HIS GLU MET ALA PHE ALA GLY TRP MET SEQRES 34 A 533 ALA ASP ILE ALA ASP PRO ASP ASN PHE LEU TYR THR LEU SEQRES 35 A 533 TRP SER LYS GLN ALA ALA SER ALA ILE PRO THR GLN ASN SEQRES 36 A 533 GLY SER PHE TYR LYS SER ASP ALA PHE SER ASP LEU LEU SEQRES 37 A 533 ILE LYS ALA LYS ARG VAL SER ASP GLN LYS GLU ARG GLU SEQRES 38 A 533 ALA LEU TYR LEU LYS ALA GLN GLU ILE ILE HIS LYS ASP SEQRES 39 A 533 ALA PRO TYR VAL PRO LEU ALA TYR PRO TYR SER VAL VAL SEQRES 40 A 533 PRO HIS LEU SER LYS VAL LYS GLY TYR LYS THR THR GLY SEQRES 41 A 533 VAL SER VAL ASN ARG PHE PHE LYS VAL TYR LEU GLU LYS SEQRES 1 B 4 SER THR SER ALA FORMUL 3 HOH *875(H2 O) HELIX 1 AA1 SER A 38 LYS A 43 1 6 HELIX 2 AA2 ASP A 61 VAL A 65 5 5 HELIX 3 AA3 ASP A 67 TYR A 78 1 12 HELIX 4 AA4 SER A 131 ASP A 144 1 14 HELIX 5 AA5 LYS A 145 ARG A 148 5 4 HELIX 6 AA6 TYR A 157 GLY A 164 1 8 HELIX 7 AA7 GLY A 164 ILE A 168 1 5 HELIX 8 AA8 PRO A 190 LEU A 195 1 6 HELIX 9 AA9 GLY A 196 SER A 201 5 6 HELIX 10 AB1 SER A 204 ASN A 214 1 11 HELIX 11 AB2 LYS A 216 LYS A 222 5 7 HELIX 12 AB3 ASN A 266 THR A 276 1 11 HELIX 13 AB4 ASN A 286 ASN A 288 5 3 HELIX 14 AB5 GLU A 289 LYS A 295 1 7 HELIX 15 AB6 ASN A 323 ILE A 334 1 12 HELIX 16 AB7 ASN A 335 GLU A 345 1 11 HELIX 17 AB8 ASP A 372 ALA A 383 1 12 HELIX 18 AB9 PRO A 401 LYS A 413 1 13 HELIX 19 AC1 GLU A 424 LEU A 434 1 11 HELIX 20 AC2 PRO A 451 SER A 460 1 10 HELIX 21 AC3 SER A 460 ALA A 466 1 7 HELIX 22 AC4 SER A 477 VAL A 490 1 14 HELIX 23 AC5 ASP A 492 ALA A 511 1 20 SHEET 1 AA1 5 PHE A 230 ASN A 236 0 SHEET 2 AA1 5 LYS A 240 LYS A 245 -1 O LYS A 240 N ASN A 236 SHEET 3 AA1 5 LYS A 258 THR A 263 -1 O VAL A 261 N ILE A 241 SHEET 4 AA1 5 VAL A 48 ARG A 53 1 N PHE A 51 O ARG A 262 SHEET 5 AA1 5 LEU A 281 MET A 282 1 O LEU A 281 N ALA A 52 SHEET 1 AA2 2 VAL A 82 PHE A 84 0 SHEET 2 AA2 2 ILE A 91 PRO A 93 -1 O GLU A 92 N GLN A 83 SHEET 1 AA3 4 ALA A 96 ILE A 101 0 SHEET 2 AA3 4 VAL A 107 LEU A 112 -1 O THR A 109 N ASP A 100 SHEET 3 AA3 4 THR A 179 LEU A 184 -1 O ILE A 180 N PHE A 110 SHEET 4 AA3 4 ILE A 169 ASP A 176 -1 N GLU A 173 O ARG A 181 SHEET 1 AA4 2 ILE A 299 SER A 304 0 SHEET 2 AA4 2 SER A 521 LEU A 526 -1 O HIS A 525 N VAL A 300 SHEET 1 AA5 6 ALA A 348 LYS A 350 0 SHEET 2 AA5 6 TYR A 513 PRO A 519 -1 O TYR A 518 N GLN A 349 SHEET 3 AA5 6 LEU A 308 LEU A 314 -1 N SER A 310 O ALA A 517 SHEET 4 AA5 6 MET A 439 MET A 445 -1 O ALA A 440 N SER A 313 SHEET 5 AA5 6 PHE A 389 THR A 396 1 N PHE A 394 O MET A 439 SHEET 6 AA5 6 ILE A 416 TYR A 423 1 O LYS A 419 N ILE A 393 SHEET 1 AA6 2 VAL A 529 LYS A 530 0 SHEET 2 AA6 2 TYR A 546 LEU A 547 -1 O TYR A 546 N LYS A 530 CISPEP 1 ILE A 467 PRO A 468 0 -2.13 CRYST1 64.120 75.770 128.370 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 0.015596 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013198 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007790 0.00000