HEADER TRANSFERASE 05-MAY-18 5ZTX TITLE CO-FACTOR FREE TRANSAMINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSAMINASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO FLUVIALIS; SOURCE 3 ORGANISM_TAXID: 676; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSAMINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.H.PARK,Y.C.SHIN REVDAT 3 27-MAR-24 5ZTX 1 REMARK REVDAT 2 05-DEC-18 5ZTX 1 COMPND SOURCE DBREF SEQADV REVDAT 2 2 1 ATOM REVDAT 1 29-AUG-18 5ZTX 0 JRNL AUTH Y.C.SHIN,H.YUN,H.H.PARK JRNL TITL STRUCTURAL DYNAMICS OF THE TRANSAMINASE ACTIVE SITE REVEALED JRNL TITL 2 BY THE CRYSTAL STRUCTURE OF A CO-FACTOR FREE JRNL TITL 3 OMEGA-TRANSAMINASE FROM VIBRIO FLUVIALIS JS17 JRNL REF SCI REP V. 8 11454 2018 JRNL REFN ESSN 2045-2322 JRNL PMID 30061559 JRNL DOI 10.1038/S41598-018-29846-0 REMARK 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 59798 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) : 0.177 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3193 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) : 4278 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.1810 REMARK 3 BIN FREE R VALUE SET COUNT : 218 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6688 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 612 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.01 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): 0.176 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.163 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.106 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.707 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6860 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6455 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9294 ; 1.896 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14853 ; 1.099 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 854 ; 6.692 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 312 ;34.927 ;23.462 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1101 ;15.161 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;18.339 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1000 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7790 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1608 ; 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): 3431 ; 2.103 ; 2.130 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3430 ; 2.103 ; 2.129 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4280 ; 3.005 ; 3.174 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4281 ; 3.005 ; 3.175 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3429 ; 3.170 ; 2.533 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3429 ; 3.168 ; 2.533 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5015 ; 4.768 ; 3.662 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 8380 ; 6.550 ;18.727 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 8381 ; 6.554 ;18.730 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 : 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 REMARK 4 REMARK 4 5ZTX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1300007657. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 130 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59798 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 41.6000 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) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% PEG 3350, 0.4M MAGNESIUM FORMATE, REMARK 280 0.1M SODIUM CITRATE PH 6.2, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K 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 39.13950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.51350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.65250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.51350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.13950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.65250 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: 8040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 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 MET A -13 REMARK 465 ALA A -12 REMARK 465 SER A -11 REMARK 465 MET A -10 REMARK 465 THR A -9 REMARK 465 GLY A -8 REMARK 465 GLY A -7 REMARK 465 GLN A -6 REMARK 465 GLN A -5 REMARK 465 MET A -4 REMARK 465 GLY A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ASN A 2 REMARK 465 LYS A 3 REMARK 465 PRO A 4 REMARK 465 GLN A 5 REMARK 465 SER A 6 REMARK 465 TRP A 7 REMARK 465 GLU A 8 REMARK 465 ALA A 9 REMARK 465 ARG A 10 REMARK 465 ALA A 11 REMARK 465 GLU A 12 REMARK 465 THR A 13 REMARK 465 TYR A 14 REMARK 465 SER A 15 REMARK 465 LEU A 16 REMARK 465 TYR A 17 REMARK 465 GLY A 18 REMARK 465 PHE A 19 REMARK 465 THR A 20 REMARK 465 ASP A 21 REMARK 465 MET A 22 REMARK 465 PRO A 23 REMARK 465 SER A 24 REMARK 465 LEU A 25 REMARK 465 HIS A 26 REMARK 465 GLN A 27 REMARK 465 ARG A 28 REMARK 465 GLY A 29 REMARK 465 GLU A 312 REMARK 465 ALA A 455 REMARK 465 MET B -13 REMARK 465 ALA B -12 REMARK 465 SER B -11 REMARK 465 MET B -10 REMARK 465 THR B -9 REMARK 465 GLY B -8 REMARK 465 GLY B -7 REMARK 465 GLN B -6 REMARK 465 GLN B -5 REMARK 465 MET B -4 REMARK 465 GLY B -3 REMARK 465 ARG B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 LYS B 3 REMARK 465 MET B 22 REMARK 465 PRO B 23 REMARK 465 SER B 24 REMARK 465 LEU B 25 REMARK 465 HIS B 151 REMARK 465 GLY B 152 REMARK 465 VAL B 153 REMARK 465 THR B 154 REMARK 465 ALA B 155 REMARK 465 VAL B 156 REMARK 465 SER B 157 REMARK 465 ALA B 158 REMARK 465 SER B 159 REMARK 465 MET B 160 REMARK 465 THR B 161 REMARK 465 GLY B 162 REMARK 465 LYS B 163 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 ILE A 369 CD1 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 OE1 GLU A 189 O HOH A 601 2.07 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 ASP B 250 CB ASP B 250 CG 0.131 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 ASP A 43 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP A 43 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 110 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 110 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 203 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 359 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 47 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP B 122 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG B 200 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG B 200 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ASP B 250 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG B 264 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 LEU B 287 CA - CB - CG ANGL. DEV. = 15.6 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 HIS A 35 -177.35 -172.07 REMARK 500 ASN A 58 -15.23 -140.81 REMARK 500 ASP A 64 29.76 -146.02 REMARK 500 PHE A 79 96.14 -164.15 REMARK 500 ASN A 148 -0.01 69.26 REMARK 500 PRO A 182 44.96 -79.51 REMARK 500 VAL A 231 81.37 54.28 REMARK 500 SER A 284 -158.43 -167.07 REMARK 500 LYS A 285 -95.16 52.54 REMARK 500 TRP B 57 -28.14 83.25 REMARK 500 ASP B 64 35.69 -145.71 REMARK 500 PHE B 85 -5.06 -147.20 REMARK 500 PRO B 172 172.16 -59.97 REMARK 500 VAL B 231 84.40 47.13 REMARK 500 PHE B 262 40.84 70.20 REMARK 500 LYS B 285 -62.28 5.72 REMARK 500 ALA B 313 -73.06 -173.22 REMARK 500 GLU B 315 79.20 62.16 REMARK 500 GLU B 316 -32.56 -131.46 REMARK 500 PHE B 317 116.76 56.04 REMARK 500 ILE B 375 146.22 -174.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER B 284 LYS B 285 144.79 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 867 DISTANCE = 6.00 ANGSTROMS REMARK 525 HOH B 845 DISTANCE = 6.44 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 501 DBREF 5ZTX A 1 453 UNP F2XBU9 F2XBU9_VIBFL 1 453 DBREF 5ZTX B 1 453 UNP F2XBU9 F2XBU9_VIBFL 1 453 SEQADV 5ZTX MET A -13 UNP F2XBU9 INITIATING METHIONINE SEQADV 5ZTX ALA A -12 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX SER A -11 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX MET A -10 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX THR A -9 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY A -8 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY A -7 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLN A -6 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLN A -5 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX MET A -4 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY A -3 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX ARG A -2 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY A -1 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX SER A 0 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX ALA A 454 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX ALA A 455 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX MET B -13 UNP F2XBU9 INITIATING METHIONINE SEQADV 5ZTX ALA B -12 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX SER B -11 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX MET B -10 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX THR B -9 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY B -8 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY B -7 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLN B -6 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLN B -5 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX MET B -4 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY B -3 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX ARG B -2 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX GLY B -1 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX SER B 0 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX ALA B 454 UNP F2XBU9 EXPRESSION TAG SEQADV 5ZTX ALA B 455 UNP F2XBU9 EXPRESSION TAG SEQRES 1 A 469 MET ALA SER MET THR GLY GLY GLN GLN MET GLY ARG GLY SEQRES 2 A 469 SER MET ASN LYS PRO GLN SER TRP GLU ALA ARG ALA GLU SEQRES 3 A 469 THR TYR SER LEU TYR GLY PHE THR ASP MET PRO SER LEU SEQRES 4 A 469 HIS GLN ARG GLY THR VAL VAL VAL THR HIS GLY GLU GLY SEQRES 5 A 469 PRO TYR ILE VAL ASP VAL ASN GLY ARG ARG TYR LEU ASP SEQRES 6 A 469 ALA ASN SER GLY LEU TRP ASN MET VAL ALA GLY PHE ASP SEQRES 7 A 469 HIS LYS GLY LEU ILE ASP ALA ALA LYS ALA GLN TYR GLU SEQRES 8 A 469 ARG PHE PRO GLY TYR HIS ALA PHE PHE GLY ARG MET SER SEQRES 9 A 469 ASP GLN THR VAL MET LEU SER GLU LYS LEU VAL GLU VAL SEQRES 10 A 469 SER PRO PHE ASP SER GLY ARG VAL PHE TYR THR ASN SER SEQRES 11 A 469 GLY SER GLU ALA ASN ASP THR MET VAL LYS MET LEU TRP SEQRES 12 A 469 PHE LEU HIS ALA ALA GLU GLY LYS PRO GLN LYS ARG LYS SEQRES 13 A 469 ILE LEU THR ARG TRP ASN ALA TYR HIS GLY VAL THR ALA SEQRES 14 A 469 VAL SER ALA SER MET THR GLY LYS PRO TYR ASN SER VAL SEQRES 15 A 469 PHE GLY LEU PRO LEU PRO GLY PHE VAL HIS LEU THR CYS SEQRES 16 A 469 PRO HIS TYR TRP ARG TYR GLY GLU GLU GLY GLU THR GLU SEQRES 17 A 469 GLU GLN PHE VAL ALA ARG LEU ALA ARG GLU LEU GLU GLU SEQRES 18 A 469 THR ILE GLN ARG GLU GLY ALA ASP THR ILE ALA GLY PHE SEQRES 19 A 469 PHE ALA GLU PRO VAL MET GLY ALA GLY GLY VAL ILE PRO SEQRES 20 A 469 PRO ALA LYS GLY TYR PHE GLN ALA ILE LEU PRO ILE LEU SEQRES 21 A 469 ARG LYS TYR ASP ILE PRO VAL ILE SER ASP GLU VAL ILE SEQRES 22 A 469 CYS GLY PHE GLY ARG THR GLY ASN THR TRP GLY CYS VAL SEQRES 23 A 469 THR TYR ASP PHE THR PRO ASP ALA ILE ILE SER SER LYS SEQRES 24 A 469 ASN LEU THR ALA GLY PHE PHE PRO MET GLY ALA VAL ILE SEQRES 25 A 469 LEU GLY PRO GLU LEU SER LYS ARG LEU GLU THR ALA ILE SEQRES 26 A 469 GLU ALA ILE GLU GLU PHE PRO HIS GLY PHE THR ALA SER SEQRES 27 A 469 GLY HIS PRO VAL GLY CYS ALA ILE ALA LEU LYS ALA ILE SEQRES 28 A 469 ASP VAL VAL MET ASN GLU GLY LEU ALA GLU ASN VAL ARG SEQRES 29 A 469 ARG LEU ALA PRO ARG PHE GLU GLU ARG LEU LYS HIS ILE SEQRES 30 A 469 ALA GLU ARG PRO ASN ILE GLY GLU TYR ARG GLY ILE GLY SEQRES 31 A 469 PHE MET TRP ALA LEU GLU ALA VAL LYS ASP LYS ALA SER SEQRES 32 A 469 LYS THR PRO PHE ASP GLY ASN LEU SER VAL SER GLU ARG SEQRES 33 A 469 ILE ALA ASN THR CYS THR ASP LEU GLY LEU ILE CYS ARG SEQRES 34 A 469 PRO LEU GLY GLN SER VAL VAL LEU CYS PRO PRO PHE ILE SEQRES 35 A 469 LEU THR GLU ALA GLN MET ASP GLU MET PHE ASP LYS LEU SEQRES 36 A 469 GLU LYS ALA LEU ASP LYS VAL PHE ALA GLU VAL ALA ALA SEQRES 37 A 469 ALA SEQRES 1 B 469 MET ALA SER MET THR GLY GLY GLN GLN MET GLY ARG GLY SEQRES 2 B 469 SER MET ASN LYS PRO GLN SER TRP GLU ALA ARG ALA GLU SEQRES 3 B 469 THR TYR SER LEU TYR GLY PHE THR ASP MET PRO SER LEU SEQRES 4 B 469 HIS GLN ARG GLY THR VAL VAL VAL THR HIS GLY GLU GLY SEQRES 5 B 469 PRO TYR ILE VAL ASP VAL ASN GLY ARG ARG TYR LEU ASP SEQRES 6 B 469 ALA ASN SER GLY LEU TRP ASN MET VAL ALA GLY PHE ASP SEQRES 7 B 469 HIS LYS GLY LEU ILE ASP ALA ALA LYS ALA GLN TYR GLU SEQRES 8 B 469 ARG PHE PRO GLY TYR HIS ALA PHE PHE GLY ARG MET SER SEQRES 9 B 469 ASP GLN THR VAL MET LEU SER GLU LYS LEU VAL GLU VAL SEQRES 10 B 469 SER PRO PHE ASP SER GLY ARG VAL PHE TYR THR ASN SER SEQRES 11 B 469 GLY SER GLU ALA ASN ASP THR MET VAL LYS MET LEU TRP SEQRES 12 B 469 PHE LEU HIS ALA ALA GLU GLY LYS PRO GLN LYS ARG LYS SEQRES 13 B 469 ILE LEU THR ARG TRP ASN ALA TYR HIS GLY VAL THR ALA SEQRES 14 B 469 VAL SER ALA SER MET THR GLY LYS PRO TYR ASN SER VAL SEQRES 15 B 469 PHE GLY LEU PRO LEU PRO GLY PHE VAL HIS LEU THR CYS SEQRES 16 B 469 PRO HIS TYR TRP ARG TYR GLY GLU GLU GLY GLU THR GLU SEQRES 17 B 469 GLU GLN PHE VAL ALA ARG LEU ALA ARG GLU LEU GLU GLU SEQRES 18 B 469 THR ILE GLN ARG GLU GLY ALA ASP THR ILE ALA GLY PHE SEQRES 19 B 469 PHE ALA GLU PRO VAL MET GLY ALA GLY GLY VAL ILE PRO SEQRES 20 B 469 PRO ALA LYS GLY TYR PHE GLN ALA ILE LEU PRO ILE LEU SEQRES 21 B 469 ARG LYS TYR ASP ILE PRO VAL ILE SER ASP GLU VAL ILE SEQRES 22 B 469 CYS GLY PHE GLY ARG THR GLY ASN THR TRP GLY CYS VAL SEQRES 23 B 469 THR TYR ASP PHE THR PRO ASP ALA ILE ILE SER SER LYS SEQRES 24 B 469 ASN LEU THR ALA GLY PHE PHE PRO MET GLY ALA VAL ILE SEQRES 25 B 469 LEU GLY PRO GLU LEU SER LYS ARG LEU GLU THR ALA ILE SEQRES 26 B 469 GLU ALA ILE GLU GLU PHE PRO HIS GLY PHE THR ALA SER SEQRES 27 B 469 GLY HIS PRO VAL GLY CYS ALA ILE ALA LEU LYS ALA ILE SEQRES 28 B 469 ASP VAL VAL MET ASN GLU GLY LEU ALA GLU ASN VAL ARG SEQRES 29 B 469 ARG LEU ALA PRO ARG PHE GLU GLU ARG LEU LYS HIS ILE SEQRES 30 B 469 ALA GLU ARG PRO ASN ILE GLY GLU TYR ARG GLY ILE GLY SEQRES 31 B 469 PHE MET TRP ALA LEU GLU ALA VAL LYS ASP LYS ALA SER SEQRES 32 B 469 LYS THR PRO PHE ASP GLY ASN LEU SER VAL SER GLU ARG SEQRES 33 B 469 ILE ALA ASN THR CYS THR ASP LEU GLY LEU ILE CYS ARG SEQRES 34 B 469 PRO LEU GLY GLN SER VAL VAL LEU CYS PRO PRO PHE ILE SEQRES 35 B 469 LEU THR GLU ALA GLN MET ASP GLU MET PHE ASP LYS LEU SEQRES 36 B 469 GLU LYS ALA LEU ASP LYS VAL PHE ALA GLU VAL ALA ALA SEQRES 37 B 469 ALA HET EDO A 501 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO C2 H6 O2 FORMUL 4 HOH *612(H2 O) HELIX 1 AA1 ASN A 53 ASN A 58 1 6 HELIX 2 AA2 HIS A 65 PHE A 79 1 15 HELIX 3 AA3 ASP A 91 SER A 104 1 14 HELIX 4 AA4 SER A 116 GLU A 135 1 20 HELIX 5 AA5 THR A 154 THR A 161 1 8 HELIX 6 AA6 LYS A 163 GLY A 170 5 8 HELIX 7 AA7 HIS A 183 GLY A 188 1 6 HELIX 8 AA8 THR A 193 GLY A 213 1 21 HELIX 9 AA9 GLY A 237 TYR A 249 1 13 HELIX 10 AB1 TRP A 269 TYR A 274 1 6 HELIX 11 AB2 SER A 284 ALA A 289 5 6 HELIX 12 AB3 GLY A 300 ILE A 311 1 12 HELIX 13 AB4 ALA A 313 GLU A 315 5 3 HELIX 14 AB5 HIS A 326 GLU A 343 1 18 HELIX 15 AB6 GLY A 344 ALA A 364 1 21 HELIX 16 AB7 ASP A 394 LEU A 397 5 4 HELIX 17 AB8 SER A 398 LEU A 410 1 13 HELIX 18 AB9 THR A 430 ALA A 454 1 25 HELIX 19 AC1 SER B 6 SER B 15 1 10 HELIX 20 AC2 LEU B 16 PHE B 19 5 4 HELIX 21 AC3 HIS B 65 ARG B 78 1 14 HELIX 22 AC4 SER B 90 SER B 104 1 15 HELIX 23 AC5 SER B 116 GLU B 135 1 20 HELIX 24 AC6 PRO B 164 VAL B 168 5 5 HELIX 25 AC7 HIS B 183 GLY B 188 1 6 HELIX 26 AC8 THR B 193 GLY B 213 1 21 HELIX 27 AC9 GLY B 237 LYS B 248 1 12 HELIX 28 AD1 TRP B 269 TYR B 274 1 6 HELIX 29 AD2 SER B 284 ALA B 289 5 6 HELIX 30 AD3 GLY B 300 GLU B 312 1 13 HELIX 31 AD4 HIS B 326 GLU B 343 1 18 HELIX 32 AD5 GLY B 344 ALA B 364 1 21 HELIX 33 AD6 ASP B 394 LEU B 397 5 4 HELIX 34 AD7 SER B 398 LEU B 410 1 13 HELIX 35 AD8 THR B 430 ALA B 455 1 26 SHEET 1 AA1 4 VAL A 33 GLU A 37 0 SHEET 2 AA1 4 TYR A 40 ASP A 43 -1 O TYR A 40 N GLU A 37 SHEET 3 AA1 4 ARG A 48 ASP A 51 -1 O TYR A 49 N ILE A 41 SHEET 4 AA1 4 LEU A 412 ILE A 413 1 O ILE A 413 N LEU A 50 SHEET 1 AA2 5 ARG A 88 SER A 90 0 SHEET 2 AA2 5 VAL B 31 GLU B 37 1 O VAL B 33 N MET A 89 SHEET 3 AA2 5 TYR B 40 ASP B 43 -1 O VAL B 42 N HIS B 35 SHEET 4 AA2 5 ARG B 48 ASP B 51 -1 O TYR B 49 N ILE B 41 SHEET 5 AA2 5 LEU B 412 ILE B 413 1 O ILE B 413 N LEU B 50 SHEET 1 AA3 7 ARG A 110 THR A 114 0 SHEET 2 AA3 7 GLY A 295 LEU A 299 -1 O LEU A 299 N ARG A 110 SHEET 3 AA3 7 ALA A 280 SER A 283 -1 N SER A 283 O ALA A 296 SHEET 4 AA3 7 VAL A 253 ASP A 256 1 N SER A 255 O ILE A 282 SHEET 5 AA3 7 ILE A 217 ALA A 222 1 N PHE A 220 O ILE A 254 SHEET 6 AA3 7 LYS A 142 ARG A 146 1 N LEU A 144 O GLY A 219 SHEET 7 AA3 7 PHE A 176 LEU A 179 1 O LEU A 179 N THR A 145 SHEET 1 AA4 4 ILE A 369 ILE A 375 0 SHEET 2 AA4 4 MET A 378 ALA A 383 -1 O ALA A 380 N ARG A 373 SHEET 3 AA4 4 SER A 420 LEU A 423 -1 O LEU A 423 N TRP A 379 SHEET 4 AA4 4 ARG A 415 LEU A 417 -1 N LEU A 417 O SER A 420 SHEET 1 AA5 7 ARG B 110 THR B 114 0 SHEET 2 AA5 7 GLY B 295 LEU B 299 -1 O VAL B 297 N PHE B 112 SHEET 3 AA5 7 ALA B 280 SER B 283 -1 N ILE B 281 O ILE B 298 SHEET 4 AA5 7 VAL B 253 ASP B 256 1 N SER B 255 O ALA B 280 SHEET 5 AA5 7 ILE B 217 ALA B 222 1 N PHE B 220 O ILE B 254 SHEET 6 AA5 7 LYS B 142 THR B 145 1 N LEU B 144 O GLY B 219 SHEET 7 AA5 7 PHE B 176 HIS B 178 1 O VAL B 177 N THR B 145 SHEET 1 AA6 4 ILE B 369 ILE B 375 0 SHEET 2 AA6 4 MET B 378 ALA B 383 -1 O ALA B 380 N ARG B 373 SHEET 3 AA6 4 SER B 420 LEU B 423 -1 O LEU B 423 N TRP B 379 SHEET 4 AA6 4 ARG B 415 LEU B 417 -1 N LEU B 417 O SER B 420 CISPEP 1 LEU A 171 PRO A 172 0 7.32 SITE 1 AC1 5 TYR A 165 ALA A 228 ARG A 415 HOH A 784 SITE 2 AC1 5 HIS B 319 CRYST1 78.279 95.305 123.027 90.00 90.00 90.00 P 21 21 21 8 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 0.012775 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010493 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008128 0.00000