HEADER TRANSFERASE 27-MAY-16 5B6H TITLE CRYSTAL STRUCTURE OF AN APRT FROM YERSINIA PSEUDOTUBERCULOSIS IN TITLE 2 COMPLEX WITH AMP. COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENINE PHOSPHORIBOSYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 7-187; COMPND 5 SYNONYM: APRT; COMPND 6 EC: 2.4.2.7; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: AMP COMPLEX SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA PSEUDOTUBERCULOSIS SEROTYPE I (STRAIN SOURCE 3 IP32953); SOURCE 4 ORGANISM_TAXID: 273123; SOURCE 5 STRAIN: IP32953; SOURCE 6 GENE: APT, YPTB0991; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_PLASMID: LIC-PET30A KEYWDS ADENINE PHOSPHORIBOSYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR G.C.PAVITHRA,U.A.RAMAGOPAL REVDAT 2 08-NOV-23 5B6H 1 REMARK LINK REVDAT 1 31-MAY-17 5B6H 0 JRNL AUTH G.C.PAVITHRA,U.A.RAMAGOPAL JRNL TITL CRYSTAL STRUCTURE OF AN APRT FROM YERSINIA JRNL TITL 2 PSEUDOTUBERCULOSIS IN COMPLEX WITH AMP. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.3 REMARK 3 NUMBER OF REFLECTIONS : 15497 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 834 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 759 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 60.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2130 REMARK 3 BIN FREE R VALUE SET COUNT : 47 REMARK 3 BIN FREE R VALUE : 0.3180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1355 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 37 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.21000 REMARK 3 B22 (A**2) : -1.62000 REMARK 3 B33 (A**2) : 1.71000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.26000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.143 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.129 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.718 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1433 ; 0.023 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1382 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1956 ; 2.306 ; 2.007 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3195 ; 0.915 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 186 ; 6.586 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 54 ;33.090 ;24.259 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 238 ;14.922 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;18.748 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 232 ; 0.137 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1599 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 299 ; 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): 729 ; 1.073 ; 0.996 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 728 ; 1.071 ; 0.992 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 914 ; 1.852 ; 1.480 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 7 A 504 REMARK 3 ORIGIN FOR THE GROUP (A): 21.7073 -0.7340 7.1657 REMARK 3 T TENSOR REMARK 3 T11: 0.2455 T22: 0.1810 REMARK 3 T33: 0.0441 T12: -0.0443 REMARK 3 T13: 0.0313 T23: -0.0168 REMARK 3 L TENSOR REMARK 3 L11: 1.0448 L22: 0.4966 REMARK 3 L33: 1.2629 L12: -0.1460 REMARK 3 L13: -0.5316 L23: -0.2788 REMARK 3 S TENSOR REMARK 3 S11: 0.3103 S12: -0.0624 S13: 0.0333 REMARK 3 S21: 0.1131 S22: -0.1209 S23: 0.1241 REMARK 3 S31: -0.1190 S32: -0.1097 S33: -0.1895 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 : WITH TLS ADDED REMARK 4 REMARK 4 5B6H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1300000622. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.072 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17719 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 48.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : 0.05400 REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.81200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.210 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 4MB6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.4M SODIUM MALONATE PH 7.0 THESE REMARK 280 CRYSTALS WERE MOVED CONDITION CONTAINING 25% PEG3350, 0.1M TRIS- REMARK 280 HCL PH 8.5, 0.2M SODIUM ACETATE AND SOAKED WITH 5MM AMP, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 30.43750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.27700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 30.43750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.27700 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -86.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 60.87500 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 186 REMARK 465 HIS A 187 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 7 CG CD CE NZ REMARK 470 GLU A 50 CG CD OE1 OE2 REMARK 470 GLU A 54 CG CD OE1 OE2 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 605 O HOH A 635 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 ARG A 70 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP A 111 CB - CG - OD2 ANGL. DEV. = -7.0 DEGREES REMARK 500 ASP A 130 CB - CG - OD1 ANGL. DEV. = 9.8 DEGREES REMARK 500 ASP A 130 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 147 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 97 -168.50 -101.58 REMARK 500 ALA A 134 -92.74 -114.36 REMARK 500 REMARK 500 REMARK: NULL 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 NA A 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 117 O REMARK 620 2 ILE A 120 O 102.6 REMARK 620 3 HOH A 606 O 137.1 87.1 REMARK 620 4 HOH A 636 O 102.5 91.1 119.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 130 OD1 REMARK 620 2 ASP A 130 OD2 47.7 REMARK 620 3 ASP A 131 OD1 88.3 88.8 REMARK 620 4 AMP A 501 O3' 119.6 71.9 91.6 REMARK 620 5 HOH A 605 O 73.7 46.9 132.8 63.2 REMARK 620 6 HOH A 628 O 72.5 118.0 106.4 159.2 108.8 REMARK 620 7 HOH A 631 O 136.6 164.5 105.5 101.3 117.6 64.2 REMARK 620 8 HOH A 635 O 88.9 86.5 175.3 86.6 42.6 76.3 79.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AMP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 504 DBREF 5B6H A 7 187 UNP Q66DQ2 APT_YERPS 7 187 SEQRES 1 A 181 LYS THR ALA GLN GLN LEU LYS TYR ILE LYS ASP SER ILE SEQRES 2 A 181 LYS THR ILE PRO ASP TYR PRO LYS ALA GLY ILE LEU PHE SEQRES 3 A 181 ARG ASP VAL THR SER LEU LEU GLU ASN PRO LYS ALA TYR SEQRES 4 A 181 SER ALA SER ILE GLU LEU LEU SER GLU HIS TYR SER GLU SEQRES 5 A 181 SER GLY VAL THR LYS VAL VAL GLY THR GLU ALA ARG GLY SEQRES 6 A 181 PHE LEU PHE GLY ALA PRO VAL ALA LEU ALA LEU GLY VAL SEQRES 7 A 181 GLY PHE VAL PRO VAL ARG LYS PRO GLY LYS LEU PRO ARG SEQRES 8 A 181 GLU THR ILE SER GLU SER TYR GLU LEU GLU TYR GLY THR SEQRES 9 A 181 ASP THR LEU GLU ILE HIS THR ASP SER ILE GLN PRO GLY SEQRES 10 A 181 ASP LYS VAL LEU VAL VAL ASP ASP LEU LEU ALA THR GLY SEQRES 11 A 181 GLY THR ILE GLU ALA THR VAL LYS LEU ILE ARG ARG LEU SEQRES 12 A 181 GLY GLY GLU VAL VAL HIS ALA ALA PHE ILE ILE ASN LEU SEQRES 13 A 181 PRO GLU LEU GLY GLY GLU ALA ARG LEU THR GLN GLN GLY SEQRES 14 A 181 ILE HIS CYS TYR SER LEU VAL SER PHE ASP GLY HIS HET AMP A 501 23 HET NA A 502 1 HET NA A 503 1 HET CL A 504 1 HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 NA 2(NA 1+) FORMUL 5 CL CL 1- FORMUL 6 HOH *37(H2 O) HELIX 1 AA1 LYS A 7 ILE A 19 1 13 HELIX 2 AA2 VAL A 35 GLU A 40 1 6 HELIX 3 AA3 ASN A 41 TYR A 56 1 16 HELIX 4 AA4 GLY A 71 GLY A 83 1 13 HELIX 5 AA5 ASP A 118 ILE A 120 5 3 HELIX 6 AA6 GLY A 136 LEU A 149 1 14 HELIX 7 AA7 PRO A 163 LEU A 165 5 3 HELIX 8 AA8 GLY A 166 GLN A 173 1 8 SHEET 1 AA1 2 LYS A 20 PRO A 23 0 SHEET 2 AA1 2 LEU A 31 ASP A 34 -1 O ASP A 34 N LYS A 20 SHEET 1 AA2 5 GLY A 85 VAL A 89 0 SHEET 2 AA2 5 LYS A 63 THR A 67 1 N VAL A 64 O GLY A 85 SHEET 3 AA2 5 LYS A 125 LEU A 133 1 O VAL A 129 N VAL A 65 SHEET 4 AA2 5 GLU A 152 ASN A 161 1 O GLU A 152 N VAL A 126 SHEET 5 AA2 5 HIS A 177 SER A 183 1 O HIS A 177 N VAL A 154 SHEET 1 AA3 2 THR A 99 GLU A 105 0 SHEET 2 AA3 2 THR A 110 HIS A 116 -1 O LEU A 113 N GLU A 102 LINK O THR A 117 NA NA A 503 1555 1555 2.23 LINK O ILE A 120 NA NA A 503 1555 1555 2.13 LINK OD1 ASP A 130 NA NA A 502 1555 1555 2.71 LINK OD2 ASP A 130 NA NA A 502 1555 1555 2.72 LINK OD1 ASP A 131 NA NA A 502 1555 1555 2.28 LINK O3' AMP A 501 NA NA A 502 1555 1555 2.20 LINK NA NA A 502 O HOH A 605 1555 1555 3.19 LINK NA NA A 502 O HOH A 628 1555 1555 2.43 LINK NA NA A 502 O HOH A 631 1555 1555 2.61 LINK NA NA A 502 O HOH A 635 1555 1555 2.56 LINK NA NA A 503 O HOH A 606 1555 1555 2.46 LINK NA NA A 503 O HOH A 636 1555 1555 2.36 CISPEP 1 TYR A 25 PRO A 26 0 -1.52 CISPEP 2 GLU A 68 ALA A 69 0 -12.74 SITE 1 AC1 18 LEU A 31 PHE A 32 ARG A 33 ARG A 70 SITE 2 AC1 18 ASP A 130 ASP A 131 LEU A 132 ALA A 134 SITE 3 AC1 18 THR A 135 GLY A 136 GLY A 137 THR A 138 SITE 4 AC1 18 LEU A 162 NA A 502 HOH A 603 HOH A 605 SITE 5 AC1 18 HOH A 618 HOH A 631 SITE 1 AC2 6 ASP A 130 ASP A 131 AMP A 501 HOH A 628 SITE 2 AC2 6 HOH A 631 HOH A 635 SITE 1 AC3 4 THR A 117 ILE A 120 HOH A 606 HOH A 636 SITE 1 AC4 3 ILE A 100 SER A 101 ARG A 148 CRYST1 60.875 78.554 53.885 90.00 116.56 90.00 C 1 2 1 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 0.016427 0.000000 0.008211 0.00000 SCALE2 0.000000 0.012730 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020747 0.00000