HEADER TRANSFERASE 22-MAY-17 5XNH TITLE CRYSTAL STRUCTURE OF THE BRANCHED-CHAIN POLYAMINE SYNTHASE (BPSA) IN TITLE 2 COMPLEX WITH SPERMIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: N(4)-BIS(AMINOPROPYL)SPERMIDINE SYNTHASE; COMPND 3 CHAIN: A, H; COMPND 4 SYNONYM: BRANCHED-CHAIN POLYAMINE SYNTHASE A; COMPND 5 EC: 2.5.1.128; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS (STRAIN ATCC BAA-918 SOURCE 3 / JCM 12380 / KOD1); SOURCE 4 ORGANISM_TAXID: 69014; SOURCE 5 STRAIN: ATCC BAA-918 / JCM 12380 / KOD1; SOURCE 6 GENE: BPSA, TK1691; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL-21CODONPLUS(DE3)RIL; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS TRANSFERASE, POLYAMINE BIOSYNTHESIS, N(4)-BIS(AMINOPROPYL)SPERMIDINE KEYWDS 2 SYNTHASE EXPDTA X-RAY DIFFRACTION AUTHOR E.MIZOHATA,K.M.TSE,J.FUJITA,T.INOUE REVDAT 3 27-MAR-24 5XNH 1 LINK REVDAT 2 06-DEC-17 5XNH 1 JRNL REVDAT 1 04-OCT-17 5XNH 0 JRNL AUTH R.HIDESE,K.M.TSE,S.KIMURA,E.MIZOHATA,J.FUJITA,Y.HORAI, JRNL AUTH 2 N.UMEZAWA,T.HIGUCHI,M.NIITSU,T.OSHIMA,T.IMANAKA,T.INOUE, JRNL AUTH 3 S.FUJIWARA JRNL TITL ACTIVE SITE GEOMETRY OF A NOVEL AMINOPROPYLTRANSFERASE FOR JRNL TITL 2 BIOSYNTHESIS OF HYPERTHERMOPHILE-SPECIFIC BRANCHED-CHAIN JRNL TITL 3 POLYAMINE. JRNL REF FEBS J. V. 284 3684 2017 JRNL REFN ISSN 1742-4658 JRNL PMID 28881427 JRNL DOI 10.1111/FEBS.14262 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0151 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 84.8 REMARK 3 NUMBER OF REFLECTIONS : 38437 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1964 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1530 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 46.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.2020 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.2340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5478 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 164 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.41000 REMARK 3 B22 (A**2) : -0.53000 REMARK 3 B33 (A**2) : -0.87000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.24000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.215 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.181 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.126 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.439 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5615 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5379 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7600 ; 1.804 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12372 ; 1.094 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 674 ; 6.675 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 275 ;37.012 ;23.636 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 980 ;16.467 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;18.583 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 850 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6258 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1286 ; 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): 2708 ; 2.031 ; 2.292 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2707 ; 2.029 ; 2.292 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3375 ; 2.998 ; 3.419 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3376 ; 2.998 ; 3.420 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2907 ; 2.962 ; 2.754 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2908 ; 2.961 ; 2.754 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4225 ; 4.776 ; 3.977 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 23823 ; 7.203 ;44.033 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 23728 ; 7.198 ;44.041 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 5XNH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1300003846. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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) : 0.90 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47518 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: NULL REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CHLORIDE, 0.1M TRIS PH REMARK 280 8.5, 12 % W/V PEG 4000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 39.39150 REMARK 290 SMTRY3 2 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: 5960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H 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 -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 LYS A 209 REMARK 465 PRO A 210 REMARK 465 LEU A 211 REMARK 465 ASP A 336 REMARK 465 GLU A 337 REMARK 465 ILE A 338 REMARK 465 THR A 339 REMARK 465 VAL A 340 REMARK 465 GLY A 341 REMARK 465 GLN A 342 REMARK 465 GLU A 343 REMARK 465 LEU A 344 REMARK 465 TYR A 345 REMARK 465 MET H -19 REMARK 465 GLY H -18 REMARK 465 SER H -17 REMARK 465 SER H -16 REMARK 465 HIS H -15 REMARK 465 HIS H -14 REMARK 465 HIS H -13 REMARK 465 HIS H -12 REMARK 465 HIS H -11 REMARK 465 HIS H -10 REMARK 465 SER H -9 REMARK 465 SER H -8 REMARK 465 GLY H -7 REMARK 465 LEU H -6 REMARK 465 VAL H -5 REMARK 465 PRO H -4 REMARK 465 ARG H -3 REMARK 465 GLY H -2 REMARK 465 PHE H 205 REMARK 465 ASP H 206 REMARK 465 LEU H 207 REMARK 465 GLU H 336 REMARK 465 ASP H 337 REMARK 465 GLU H 338 REMARK 465 ILE H 339 REMARK 465 THR H 340 REMARK 465 VAL H 341 REMARK 465 GLY H 342 REMARK 465 GLN H 343 REMARK 465 GLU H 344 REMARK 465 LEU H 345 REMARK 465 TYR H 346 REMARK 465 ASP H 347 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 THR H 354 OG1 CG2 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 NH2 ARG A 118 O HOH A 501 2.12 REMARK 500 OG1 THR H 13 OE2 GLU H 349 2.15 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 THR A 256 CB THR A 256 CG2 -0.229 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 174 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ILE A 180 CB - CA - C ANGL. DEV. = -12.5 DEGREES REMARK 500 ARG A 183 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 285 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 MET A 320 CG - SD - CE ANGL. DEV. = 14.9 DEGREES REMARK 500 ARG H 72 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG H 118 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG H 174 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG H 174 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 PRO H 210 C - N - CA ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG H 257 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG H 285 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG H 285 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG H 300 NE - CZ - NH2 ANGL. DEV. = -3.3 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 THR A 98 -13.90 75.83 REMARK 500 ASP A 158 52.47 -152.41 REMARK 500 ASN A 199 56.86 -94.97 REMARK 500 ASP A 206 -102.19 -70.86 REMARK 500 SER A 351 -17.89 -156.61 REMARK 500 THR H 98 -13.18 79.69 REMARK 500 ASP H 158 45.98 -145.81 REMARK 500 PRO H 210 100.63 -23.31 REMARK 500 LEU H 211 140.05 -39.75 REMARK 500 SER H 352 -16.00 -153.03 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 ASP A 126 GLN A 127 -148.34 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 FE A 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 91 SG REMARK 620 2 CYS A 94 SG 113.9 REMARK 620 3 CYS H 91 SG 115.1 109.8 REMARK 620 4 CYS H 94 SG 111.1 97.9 107.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SPD A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SPD H 401 REMARK 999 REMARK 999 SEQUENCE REMARK 999 IN CHAIN A, RESIDUE NUMBERS 344, 345 ARE SIMPLY SKIPPED. REMARK 999 IN CHAIN H, RESIDUE NUMBERS 345-347 ARE SIMPLY SKIPPED. DBREF 5XNH A 1 353 UNP Q5JIZ3 BPSA_THEKO 1 351 DBREF 5XNH H 1 354 UNP Q5JIZ3 BPSA_THEKO 1 351 SEQADV 5XNH MET A -19 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH GLY A -18 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER A -17 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER A -16 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS A -15 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS A -14 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS A -13 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS A -12 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS A -11 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS A -10 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER A -9 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER A -8 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH GLY A -7 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH LEU A -6 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH VAL A -5 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH PRO A -4 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH ARG A -3 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH GLY A -2 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER A -1 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS A 0 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH MET H -19 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH GLY H -18 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER H -17 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER H -16 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS H -15 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS H -14 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS H -13 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS H -12 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS H -11 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS H -10 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER H -9 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER H -8 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH GLY H -7 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH LEU H -6 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH VAL H -5 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH PRO H -4 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH ARG H -3 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH GLY H -2 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH SER H -1 UNP Q5JIZ3 EXPRESSION TAG SEQADV 5XNH HIS H 0 UNP Q5JIZ3 EXPRESSION TAG SEQRES 1 A 371 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 371 LEU VAL PRO ARG GLY SER HIS MET ARG GLU ILE ILE GLU SEQRES 3 A 371 ARG VAL LYS GLU LYS THR THR ILE PRO VAL TYR GLU ARG SEQRES 4 A 371 THR ILE GLU ASN VAL LEU SER ALA ILE GLN ALA SER GLY SEQRES 5 A 371 ASP VAL TRP ARG ILE VAL ASP LEU SER GLU GLU PRO LEU SEQRES 6 A 371 PRO LEU VAL VAL ALA VAL VAL THR ALA LEU TYR GLU LEU SEQRES 7 A 371 GLY TYR VAL ALA PHE GLU ASN ASN GLN VAL ILE LEU THR SEQRES 8 A 371 ARG LYS GLY LYS GLU LEU VAL GLU LYS TYR GLY ILE GLY SEQRES 9 A 371 PRO ARG ALA ASP TYR THR CYS SER HIS CYS GLN GLY ARG SEQRES 10 A 371 THR VAL GLU ILE ASP ALA PHE SER GLU LEU LEU GLU GLN SEQRES 11 A 371 PHE LYS GLU ILE THR ARG ASP ARG PRO GLU PRO ALA HIS SEQRES 12 A 371 GLN PHE ASP GLN ALA TYR VAL THR PRO GLU THR THR VAL SEQRES 13 A 371 ALA ARG VAL ALA LEU MET HIS SER ARG GLY ASP LEU GLU SEQRES 14 A 371 ASN LYS GLU VAL PHE VAL LEU GLY ASP ASP ASP LEU THR SEQRES 15 A 371 SER VAL ALA LEU MET LEU SER GLY LEU PRO LYS ARG ILE SEQRES 16 A 371 ALA VAL LEU ASP ILE ASP GLU ARG LEU THR LYS PHE ILE SEQRES 17 A 371 GLU LYS ALA ALA ASP GLU ILE GLY TYR GLU ASN ILE GLU SEQRES 18 A 371 ILE PHE THR PHE ASP LEU ARG LYS PRO LEU PRO ASP TYR SEQRES 19 A 371 ALA LEU HIS LYS PHE ASP THR PHE ILE THR ASP PRO PRO SEQRES 20 A 371 GLU THR VAL GLU ALA ILE ARG ALA PHE VAL GLY ARG GLY SEQRES 21 A 371 ILE ALA THR LEU LYS GLY PRO GLY CYS ALA GLY TYR PHE SEQRES 22 A 371 GLY ILE THR ARG ARG GLU SER SER LEU ASP LYS TRP ARG SEQRES 23 A 371 GLU ILE GLN ARG VAL LEU LEU ASN GLU PHE GLY VAL VAL SEQRES 24 A 371 ILE THR ASP ILE ILE ARG ASN PHE ASN GLU TYR VAL ASN SEQRES 25 A 371 TRP GLY TYR VAL GLU GLU THR ARG ALA TRP ARG LEU LEU SEQRES 26 A 371 PRO ILE LYS VAL LYS PRO SER TYR ASN TRP TYR LYS SER SEQRES 27 A 371 TYR MET PHE ARG ILE GLN THR LEU GLU GLY SER LYS GLY SEQRES 28 A 371 PHE GLU ASP GLU ILE THR VAL GLY GLN GLU LEU TYR ASP SEQRES 29 A 371 ASP GLU GLU SER SER THR THR SEQRES 1 H 371 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 H 371 LEU VAL PRO ARG GLY SER HIS MET ARG GLU ILE ILE GLU SEQRES 3 H 371 ARG VAL LYS GLU LYS THR THR ILE PRO VAL TYR GLU ARG SEQRES 4 H 371 THR ILE GLU ASN VAL LEU SER ALA ILE GLN ALA SER GLY SEQRES 5 H 371 ASP VAL TRP ARG ILE VAL ASP LEU SER GLU GLU PRO LEU SEQRES 6 H 371 PRO LEU VAL VAL ALA VAL VAL THR ALA LEU TYR GLU LEU SEQRES 7 H 371 GLY TYR VAL ALA PHE GLU ASN ASN GLN VAL ILE LEU THR SEQRES 8 H 371 ARG LYS GLY LYS GLU LEU VAL GLU LYS TYR GLY ILE GLY SEQRES 9 H 371 PRO ARG ALA ASP TYR THR CYS SER HIS CYS GLN GLY ARG SEQRES 10 H 371 THR VAL GLU ILE ASP ALA PHE SER GLU LEU LEU GLU GLN SEQRES 11 H 371 PHE LYS GLU ILE THR ARG ASP ARG PRO GLU PRO ALA HIS SEQRES 12 H 371 GLN PHE ASP GLN ALA TYR VAL THR PRO GLU THR THR VAL SEQRES 13 H 371 ALA ARG VAL ALA LEU MET HIS SER ARG GLY ASP LEU GLU SEQRES 14 H 371 ASN LYS GLU VAL PHE VAL LEU GLY ASP ASP ASP LEU THR SEQRES 15 H 371 SER VAL ALA LEU MET LEU SER GLY LEU PRO LYS ARG ILE SEQRES 16 H 371 ALA VAL LEU ASP ILE ASP GLU ARG LEU THR LYS PHE ILE SEQRES 17 H 371 GLU LYS ALA ALA ASP GLU ILE GLY TYR GLU ASN ILE GLU SEQRES 18 H 371 ILE PHE THR PHE ASP LEU ARG LYS PRO LEU PRO ASP TYR SEQRES 19 H 371 ALA LEU HIS LYS PHE ASP THR PHE ILE THR ASP PRO PRO SEQRES 20 H 371 GLU THR VAL GLU ALA ILE ARG ALA PHE VAL GLY ARG GLY SEQRES 21 H 371 ILE ALA THR LEU LYS GLY PRO GLY CYS ALA GLY TYR PHE SEQRES 22 H 371 GLY ILE THR ARG ARG GLU SER SER LEU ASP LYS TRP ARG SEQRES 23 H 371 GLU ILE GLN ARG VAL LEU LEU ASN GLU PHE GLY VAL VAL SEQRES 24 H 371 ILE THR ASP ILE ILE ARG ASN PHE ASN GLU TYR VAL ASN SEQRES 25 H 371 TRP GLY TYR VAL GLU GLU THR ARG ALA TRP ARG LEU LEU SEQRES 26 H 371 PRO ILE LYS VAL LYS PRO SER TYR ASN TRP TYR LYS SER SEQRES 27 H 371 TYR MET PHE ARG ILE GLN THR LEU GLU GLY SER LYS GLY SEQRES 28 H 371 PHE GLU ASP GLU ILE THR VAL GLY GLN GLU LEU TYR ASP SEQRES 29 H 371 ASP GLU GLU SER SER THR THR HET FE A 401 1 HET SPD A 402 10 HET SPD H 401 10 HETNAM FE FE (III) ION HETNAM SPD SPERMIDINE HETSYN SPD N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE; PA(34) FORMUL 3 FE FE 3+ FORMUL 4 SPD 2(C7 H19 N3) FORMUL 6 HOH *164(H2 O) HELIX 1 AA1 SER A -1 GLU A 10 1 12 HELIX 2 AA2 TYR A 17 SER A 31 1 15 HELIX 3 AA3 ASP A 33 GLU A 42 1 10 HELIX 4 AA4 PRO A 44 LEU A 58 1 15 HELIX 5 AA5 THR A 71 GLY A 82 1 12 HELIX 6 AA6 ILE A 101 ALA A 103 5 3 HELIX 7 AA7 PHE A 104 ARG A 116 1 13 HELIX 8 AA8 THR A 131 ARG A 145 1 15 HELIX 9 AA9 LEU A 161 GLY A 170 1 10 HELIX 10 AB1 ASP A 181 GLY A 196 1 16 HELIX 11 AB2 THR A 229 LEU A 244 1 16 HELIX 12 AB3 SER A 261 GLU A 275 1 15 HELIX 13 AB4 TYR A 295 GLU A 298 5 4 HELIX 14 AB5 THR A 299 LEU A 305 1 7 HELIX 15 AB6 HIS H 0 GLU H 10 1 11 HELIX 16 AB7 TYR H 17 SER H 31 1 15 HELIX 17 AB8 ASP H 33 GLU H 42 1 10 HELIX 18 AB9 PRO H 44 LEU H 58 1 15 HELIX 19 AC1 THR H 71 GLY H 82 1 12 HELIX 20 AC2 ILE H 101 ALA H 103 5 3 HELIX 21 AC3 PHE H 104 THR H 115 1 12 HELIX 22 AC4 ALA H 122 ASP H 126 5 5 HELIX 23 AC5 THR H 131 ARG H 145 1 15 HELIX 24 AC6 LEU H 161 GLY H 170 1 10 HELIX 25 AC7 ASP H 181 GLY H 196 1 16 HELIX 26 AC8 THR H 229 LEU H 244 1 16 HELIX 27 AC9 SER H 261 GLU H 275 1 15 HELIX 28 AD1 TYR H 295 GLU H 298 5 4 HELIX 29 AD2 THR H 299 LEU H 305 1 7 SHEET 1 AA1 2 VAL A 61 GLU A 64 0 SHEET 2 AA1 2 GLN A 67 LEU A 70 -1 O ILE A 69 N ALA A 62 SHEET 1 AA2 7 ILE A 200 THR A 204 0 SHEET 2 AA2 7 ARG A 174 ASP A 179 1 N VAL A 177 O GLU A 201 SHEET 3 AA2 7 GLU A 152 LEU A 156 1 N VAL A 155 O ALA A 176 SHEET 4 AA2 7 THR A 221 THR A 224 1 O ILE A 223 N LEU A 156 SHEET 5 AA2 7 ALA A 250 ILE A 255 1 O TYR A 252 N THR A 224 SHEET 6 AA2 7 LYS A 317 GLN A 324 -1 O TYR A 319 N ILE A 255 SHEET 7 AA2 7 VAL A 279 GLU A 289 -1 N ILE A 284 O MET A 320 SHEET 1 AA3 2 VAL H 61 GLU H 64 0 SHEET 2 AA3 2 GLN H 67 LEU H 70 -1 O ILE H 69 N ALA H 62 SHEET 1 AA4 7 ILE H 200 PHE H 203 0 SHEET 2 AA4 7 ARG H 174 LEU H 178 1 N VAL H 177 O GLU H 201 SHEET 3 AA4 7 GLU H 152 LEU H 156 1 N VAL H 155 O ALA H 176 SHEET 4 AA4 7 THR H 221 THR H 224 1 O ILE H 223 N LEU H 156 SHEET 5 AA4 7 ALA H 250 ILE H 255 1 O TYR H 252 N THR H 224 SHEET 6 AA4 7 LYS H 317 GLN H 324 -1 O PHE H 321 N PHE H 253 SHEET 7 AA4 7 VAL H 279 GLU H 289 -1 N ILE H 284 O MET H 320 LINK SG CYS A 91 FE FE A 401 1555 1555 2.37 LINK SG CYS A 94 FE FE A 401 1555 1555 2.38 LINK FE FE A 401 SG CYS H 91 1555 1555 2.31 LINK FE FE A 401 SG CYS H 94 1555 1555 2.45 SITE 1 AC1 4 CYS A 91 CYS A 94 CYS H 91 CYS H 94 SITE 1 AC2 9 ASP A 126 ASP A 225 PRO A 226 GLU A 228 SITE 2 AC2 9 GLY A 254 TYR A 290 TYR A 295 TYR A 316 SITE 3 AC2 9 THR A 352 SITE 1 AC3 10 ASP H 126 ASP H 225 PRO H 226 GLU H 228 SITE 2 AC3 10 GLY H 254 THR H 256 TYR H 290 TYR H 295 SITE 3 AC3 10 TYR H 316 THR H 353 CRYST1 52.869 78.783 79.407 90.00 90.16 90.00 P 1 21 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 0.018915 0.000000 0.000052 0.00000 SCALE2 0.000000 0.012693 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012593 0.00000