HEADER TRANSFERASE 13-APR-22 7XIH TITLE CRYSTAL STRUCTURE OF THE AMINOPROPYLTRANSFERASE, SPEE FROM TITLE 2 HYPERTHERMOPHILIC CRENARCHAEON, PYROBACULUM CALIDIFONTIS IN COMPLEX TITLE 3 WITH 5'-METHYLTHIOADENOSINE (MTA) AND SPERMIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYAMINE AMINOPROPYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PUTRESCINE AMINOPROPYLTRANSFERASE,PAPT,SPERMIDINE SYNTHASE, COMPND 5 SPDS,SPDSY; COMPND 6 EC: 2.5.1.16; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROBACULUM CALIDIFONTIS JCM 11548; SOURCE 3 ORGANISM_TAXID: 410359; SOURCE 4 STRAIN: DSM 21063 / JCM 11548 / VA1; SOURCE 5 GENE: SPEE, PCAL_0772; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PET28A KEYWDS POLYAMINE BIOSYNTHESIS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.MIZOHATA,Y.YASUDA REVDAT 2 29-NOV-23 7XIH 1 REMARK REVDAT 1 15-JUN-22 7XIH 0 JRNL AUTH W.FUKUDA,M.OSAKI,Y.YASUDA,R.HIDESE,T.HIGUCHI,N.UMEZAWA, JRNL AUTH 2 S.FUJIWARA,E.MIZOHATA JRNL TITL SUBSTRATE SPECIFICITY OF AN AMINOPROPYLTRANSFERASE AND THE JRNL TITL 2 BIOSYNTHESIS PATHWAY OF POLYAMINES IN THE HYPERTHERMOPHILIC JRNL TITL 3 CRENARCHAEON PYROBACULUM CALIDIFONTIS. JRNL REF CATALYSTS V. 12 2022 JRNL REFN ESSN 2073-4344 JRNL DOI 10.3390/CATAL12050567 REMARK 2 REMARK 2 RESOLUTION. 1.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 1.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 158009 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) : 0.121 REMARK 3 R VALUE (WORKING SET) : 0.119 REMARK 3 FREE R VALUE : 0.154 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 8178 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) : 1.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.23 REMARK 3 REFLECTION IN BIN (WORKING SET) : 11724 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.2610 REMARK 3 BIN FREE R VALUE SET COUNT : 582 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4581 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 554 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.33000 REMARK 3 B22 (A**2) : -0.67000 REMARK 3 B33 (A**2) : 0.87000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.29000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.032 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.034 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.030 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.627 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.987 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.981 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4856 ; 0.017 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4592 ; 0.002 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6609 ; 2.045 ; 1.661 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10613 ; 1.595 ; 1.586 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 597 ; 6.568 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 268 ;32.121 ;21.119 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 814 ;13.378 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 41 ;17.911 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 630 ; 0.114 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5445 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1060 ; 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): 2340 ; 2.113 ; 1.879 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2339 ; 2.114 ; 1.879 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2935 ; 2.381 ; 2.830 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2936 ; 2.381 ; 2.831 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2516 ; 4.611 ; 2.304 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2517 ; 4.610 ; 2.304 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3669 ; 4.919 ; 3.293 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5358 ; 4.778 ;23.674 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5245 ; 4.515 ;22.987 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 9448 ; 5.169 ; 3.000 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 : BABINET MODEL WITH 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 7XIH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-APR-22. REMARK 100 THE DEPOSITION ID IS D_1300028848. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-19 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 : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 166200 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.200 REMARK 200 RESOLUTION RANGE LOW (A) : 43.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.22 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 <I/SIGMA(I)> 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: NULL REMARK 200 STARTING MODEL: 7XIF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM ACETATE, PEG 2000MME, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 88.28350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.62800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 88.28350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.62800 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 36930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -8.05340 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 53.88653 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ARG B 2 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 CE MET B 127 O HOH B 598 1.85 REMARK 500 OD2 ASP B 42 O HOH B 401 1.86 REMARK 500 O HOH A 442 O HOH A 624 2.07 REMARK 500 OH TYR B 247 O HOH B 402 2.17 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 MET A 127 CG MET A 127 SD -0.176 REMARK 500 GLU A 215 CD GLU A 215 OE2 0.088 REMARK 500 MET B 127 CG MET B 127 SD -0.200 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 82 NE - CZ - NH1 ANGL. DEV. = -5.5 DEGREES REMARK 500 MET A 109 CG - SD - CE ANGL. DEV. = -13.7 DEGREES REMARK 500 MET B 109 CG - SD - CE ANGL. DEV. = -14.5 DEGREES REMARK 500 MET B 127 CG - SD - CE ANGL. DEV. = -19.2 DEGREES REMARK 500 PHE B 234 CB - CG - CD1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG B 264 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 274 NE - CZ - NH2 ANGL. DEV. = -4.8 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 PRO A 5 154.89 -49.42 REMARK 500 LEU A 14 -78.58 -139.22 REMARK 500 LEU A 14 -72.40 -117.07 REMARK 500 ASP A 54 -10.79 86.89 REMARK 500 ASN A 80 70.26 -160.05 REMARK 500 ARG A 246 -51.54 -137.72 REMARK 500 ARG A 246 -55.61 -145.84 REMARK 500 PHE A 270 -62.36 -133.41 REMARK 500 LEU B 14 -79.94 -132.92 REMARK 500 ASP B 54 -9.00 86.82 REMARK 500 ASN B 80 68.95 -161.56 REMARK 500 ARG B 246 -54.93 -137.72 REMARK 500 PHE B 270 -59.94 -133.29 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 697 DISTANCE = 6.65 ANGSTROMS REMARK 525 HOH B 657 DISTANCE = 6.05 ANGSTROMS DBREF 7XIH A 1 289 UNP A3MU81 SPEE_PYRCJ 1 289 DBREF 7XIH B 1 289 UNP A3MU81 SPEE_PYRCJ 1 289 SEQADV 7XIH MET A -19 UNP A3MU81 INITIATING METHIONINE SEQADV 7XIH GLY A -18 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER A -17 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER A -16 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS A -15 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS A -14 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS A -13 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS A -12 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS A -11 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS A -10 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER A -9 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER A -8 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH GLY A -7 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH LEU A -6 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH VAL A -5 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH PRO A -4 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH ARG A -3 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH GLY A -2 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER A -1 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS A 0 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH MET B -19 UNP A3MU81 INITIATING METHIONINE SEQADV 7XIH GLY B -18 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER B -17 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER B -16 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS B -15 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS B -14 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS B -13 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS B -12 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS B -11 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS B -10 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER B -9 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER B -8 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH GLY B -7 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH LEU B -6 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH VAL B -5 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH PRO B -4 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH ARG B -3 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH GLY B -2 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH SER B -1 UNP A3MU81 EXPRESSION TAG SEQADV 7XIH HIS B 0 UNP A3MU81 EXPRESSION TAG SEQRES 1 A 309 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 309 LEU VAL PRO ARG GLY SER HIS MET ARG LYS VAL PRO GLY SEQRES 3 A 309 PRO ILE THR LEU ILE GLU PRO LEU SER GLY ASN THR SER SEQRES 4 A 309 LEU LEU ILE LYS ILE ASN ALA ILE HIS SER VAL LYS LYS SEQRES 5 A 309 SER PRO TYR GLN GLU ILE ILE ILE ALA ASP THR GLU ASP SEQRES 6 A 309 TYR GLY ARG VAL LEU ILE LEU ASP ASP TYR ILE GLN SER SEQRES 7 A 309 SER TYR VAL ASP GLU GLN TYR TYR HIS GLU SER LEU VAL SEQRES 8 A 309 HIS PRO ALA MET ALA THR HIS PRO ASN PRO ARG ASP VAL SEQRES 9 A 309 LEU ILE LEU GLY GLY GLY GLU GLY ALA THR LEU ARG GLU SEQRES 10 A 309 ALA LEU LYS HIS GLY THR VAL LYS ARG ALA VAL MET VAL SEQRES 11 A 309 ASP ILE ASP ARG ASP VAL VAL GLU LEU SER ARG ALA TYR SEQRES 12 A 309 LEU PRO GLN MET HIS GLN GLY ALA PHE ASP ASP PRO ARG SEQRES 13 A 309 ALA LYS VAL VAL ILE GLN ASP GLY PHE VAL TYR VAL GLU SEQRES 14 A 309 GLU ALA ILE LYS ALA GLY ASP LYS TYR ASP VAL ILE ILE SEQRES 15 A 309 MET ASP LEU THR ASP PRO TYR SER SER ASP ILE ALA LYS SEQRES 16 A 309 GLN LEU TYR THR ARG GLU PHE PHE ALA LYS ILE ARG ARG SEQRES 17 A 309 ILE LEU ASN ASP ASP GLY VAL VAL VAL THR GLN ALA GLY SEQRES 18 A 309 ASN SER PHE TYR PHE PRO ALA GLU TYR ASP MET VAL LEU SEQRES 19 A 309 GLU GLY VAL LYS ALA ASN PHE PRO ILE VAL ALA GLU TYR SEQRES 20 A 309 GLU VAL TRP ILE PRO SER PHE GLY TYR ALA VAL ASN PHE SEQRES 21 A 309 ILE LEU GLY SER LEU ARG TYR ASP PRO HIS ALA LEU THR SEQRES 22 A 309 PRO SER GLU VAL ASP GLU ARG LEU ARG ALA ARG GLY VAL SEQRES 23 A 309 LYS THR ALA PHE TYR THR GLY ARG VAL HIS LEU ALA LEU SEQRES 24 A 309 MET ASN MET PRO ILE HIS ARG LYS LEU ARG SEQRES 1 B 309 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 309 LEU VAL PRO ARG GLY SER HIS MET ARG LYS VAL PRO GLY SEQRES 3 B 309 PRO ILE THR LEU ILE GLU PRO LEU SER GLY ASN THR SER SEQRES 4 B 309 LEU LEU ILE LYS ILE ASN ALA ILE HIS SER VAL LYS LYS SEQRES 5 B 309 SER PRO TYR GLN GLU ILE ILE ILE ALA ASP THR GLU ASP SEQRES 6 B 309 TYR GLY ARG VAL LEU ILE LEU ASP ASP TYR ILE GLN SER SEQRES 7 B 309 SER TYR VAL ASP GLU GLN TYR TYR HIS GLU SER LEU VAL SEQRES 8 B 309 HIS PRO ALA MET ALA THR HIS PRO ASN PRO ARG ASP VAL SEQRES 9 B 309 LEU ILE LEU GLY GLY GLY GLU GLY ALA THR LEU ARG GLU SEQRES 10 B 309 ALA LEU LYS HIS GLY THR VAL LYS ARG ALA VAL MET VAL SEQRES 11 B 309 ASP ILE ASP ARG ASP VAL VAL GLU LEU SER ARG ALA TYR SEQRES 12 B 309 LEU PRO GLN MET HIS GLN GLY ALA PHE ASP ASP PRO ARG SEQRES 13 B 309 ALA LYS VAL VAL ILE GLN ASP GLY PHE VAL TYR VAL GLU SEQRES 14 B 309 GLU ALA ILE LYS ALA GLY ASP LYS TYR ASP VAL ILE ILE SEQRES 15 B 309 MET ASP LEU THR ASP PRO TYR SER SER ASP ILE ALA LYS SEQRES 16 B 309 GLN LEU TYR THR ARG GLU PHE PHE ALA LYS ILE ARG ARG SEQRES 17 B 309 ILE LEU ASN ASP ASP GLY VAL VAL VAL THR GLN ALA GLY SEQRES 18 B 309 ASN SER PHE TYR PHE PRO ALA GLU TYR ASP MET VAL LEU SEQRES 19 B 309 GLU GLY VAL LYS ALA ASN PHE PRO ILE VAL ALA GLU TYR SEQRES 20 B 309 GLU VAL TRP ILE PRO SER PHE GLY TYR ALA VAL ASN PHE SEQRES 21 B 309 ILE LEU GLY SER LEU ARG TYR ASP PRO HIS ALA LEU THR SEQRES 22 B 309 PRO SER GLU VAL ASP GLU ARG LEU ARG ALA ARG GLY VAL SEQRES 23 B 309 LYS THR ALA PHE TYR THR GLY ARG VAL HIS LEU ALA LEU SEQRES 24 B 309 MET ASN MET PRO ILE HIS ARG LYS LEU ARG HET MTA A 301 20 HET SPD A 302 10 HET MTA B 301 20 HET SPD B 302 10 HETNAM MTA 5'-DEOXY-5'-METHYLTHIOADENOSINE HETNAM SPD SPERMIDINE HETSYN SPD N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE; PA(34) FORMUL 3 MTA 2(C11 H15 N5 O3 S) FORMUL 4 SPD 2(C7 H19 N3) FORMUL 7 HOH *554(H2 O) HELIX 1 AA1 ASP A 62 HIS A 78 1 17 HELIX 2 AA2 GLY A 92 LYS A 100 1 9 HELIX 3 AA3 ASP A 113 LEU A 124 1 12 HELIX 4 AA4 LEU A 124 GLN A 129 1 6 HELIX 5 AA5 GLY A 130 ASP A 134 5 5 HELIX 6 AA6 ASP A 143 GLY A 155 1 13 HELIX 7 AA7 ALA A 174 TYR A 178 5 5 HELIX 8 AA8 THR A 179 ILE A 189 1 11 HELIX 9 AA9 PHE A 206 ALA A 219 1 14 HELIX 10 AB1 PRO A 232 GLY A 235 5 4 HELIX 11 AB2 ASP A 248 LEU A 252 5 5 HELIX 12 AB3 THR A 253 ARG A 264 1 12 HELIX 13 AB4 THR A 272 MET A 282 1 11 HELIX 14 AB5 ASP B 62 HIS B 78 1 17 HELIX 15 AB6 GLY B 92 LYS B 100 1 9 HELIX 16 AB7 ASP B 113 LEU B 124 1 12 HELIX 17 AB8 LEU B 124 GLN B 129 1 6 HELIX 18 AB9 GLY B 130 ASP B 134 5 5 HELIX 19 AC1 ASP B 143 GLY B 155 1 13 HELIX 20 AC2 SER B 171 TYR B 178 5 8 HELIX 21 AC3 THR B 179 ILE B 189 1 11 HELIX 22 AC4 PHE B 206 ALA B 219 1 14 HELIX 23 AC5 PRO B 232 GLY B 235 5 4 HELIX 24 AC6 ASP B 248 LEU B 252 5 5 HELIX 25 AC7 THR B 253 ARG B 264 1 12 HELIX 26 AC8 THR B 272 MET B 280 1 9 SHEET 1 AA1 4 THR A 9 PRO A 13 0 SHEET 2 AA1 4 THR A 18 LYS A 32 -1 O ILE A 22 N LEU A 10 SHEET 3 AA1 4 THR B 18 LYS B 32 -1 O SER B 19 N LEU A 21 SHEET 4 AA1 4 THR B 9 PRO B 13 -1 N LEU B 10 O ILE B 22 SHEET 1 AA2 8 TYR A 55 SER A 59 0 SHEET 2 AA2 8 GLY A 47 LEU A 52 -1 N LEU A 50 O GLN A 57 SHEET 3 AA2 8 GLU A 37 THR A 43 -1 N ALA A 41 O VAL A 49 SHEET 4 AA2 8 THR A 18 LYS A 32 -1 N LYS A 31 O ILE A 38 SHEET 5 AA2 8 THR B 18 LYS B 32 -1 O SER B 19 N LEU A 21 SHEET 6 AA2 8 GLU B 37 THR B 43 -1 O ILE B 38 N LYS B 31 SHEET 7 AA2 8 GLY B 47 LEU B 52 -1 O VAL B 49 N ALA B 41 SHEET 8 AA2 8 TYR B 55 SER B 59 -1 O GLN B 57 N LEU B 50 SHEET 1 AA3 7 ALA A 137 ILE A 141 0 SHEET 2 AA3 7 ARG A 106 ASP A 111 1 N MET A 109 O VAL A 140 SHEET 3 AA3 7 ASP A 83 GLY A 88 1 N GLY A 88 O VAL A 110 SHEET 4 AA3 7 TYR A 158 ASP A 164 1 O ASP A 164 N LEU A 87 SHEET 5 AA3 7 LEU A 190 GLN A 199 1 O VAL A 197 N MET A 163 SHEET 6 AA3 7 ALA A 237 SER A 244 -1 O GLY A 243 N VAL A 196 SHEET 7 AA3 7 ILE A 223 TRP A 230 -1 N TYR A 227 O PHE A 240 SHEET 1 AA4 7 ALA B 137 ILE B 141 0 SHEET 2 AA4 7 ARG B 106 ASP B 111 1 N MET B 109 O VAL B 140 SHEET 3 AA4 7 ASP B 83 GLY B 88 1 N GLY B 88 O VAL B 110 SHEET 4 AA4 7 TYR B 158 ASP B 164 1 O ASP B 164 N LEU B 87 SHEET 5 AA4 7 LEU B 190 GLN B 199 1 O VAL B 197 N MET B 163 SHEET 6 AA4 7 ALA B 237 SER B 244 -1 O GLY B 243 N VAL B 196 SHEET 7 AA4 7 ILE B 223 TRP B 230 -1 N TYR B 227 O PHE B 240 CISPEP 1 GLY A 6 PRO A 7 0 6.60 CISPEP 2 GLY B 6 PRO B 7 0 6.85 CRYST1 176.567 57.256 54.485 90.00 98.50 90.00 C 1 2 1 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 0.005664 0.000000 0.000846 0.00000 SCALE2 0.000000 0.017465 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018557 0.00000