HEADER TRANSFERASE 02-DEC-16 5WRI TITLE CRYSTAL STRUCTURE OF HUMAN TYROSYLPROTEIN SULFOTRANSFERASE-1 COMPLEXED TITLE 2 WITH PAP AND C4 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN-TYROSINE SULFOTRANSFERASE 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 43-341; COMPND 5 SYNONYM: TYROSYLPROTEIN SULFOTRANSFERASE 1,TPST-1; COMPND 6 EC: 2.8.2.20; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: ASP-PHE-GLU-ASP-TYR-GLU-PHE-ASP; COMPND 10 CHAIN: D, E; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TPST1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_COMMON: 32630; SOURCE 12 ORGANISM_TAXID: 32630 KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.TANAKA,T.NISHIYORI,H.KOJO,R.OTSUBO,Y.KAKUTA REVDAT 2 13-NOV-24 5WRI 1 REMARK LINK REVDAT 1 13-SEP-17 5WRI 0 JRNL AUTH S.TANAKA,T.NISHIYORI,H.KOJO,R.OTSUBO,M.TSURUTA,K.KUROGI, JRNL AUTH 2 M.C.LIU,M.SUIKO,Y.SAKAKIBARA,Y.KAKUTA JRNL TITL STRUCTURAL BASIS FOR THE BROAD SUBSTRATE SPECIFICITY OF THE JRNL TITL 2 HUMAN TYROSYLPROTEIN SULFOTRANSFERASE-1. JRNL REF SCI REP V. 7 8776 2017 JRNL REFN ESSN 2045-2322 JRNL PMID 28821720 JRNL DOI 10.1038/S41598-017-07141-8 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0107 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 74483 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) : 0.135 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3941 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4189 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.3420 REMARK 3 BIN FREE R VALUE SET COUNT : 200 REMARK 3 BIN FREE R VALUE : 0.3570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4499 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 571 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.04000 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): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.080 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.059 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.096 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.965 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5166 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5014 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7092 ; 1.516 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11646 ; 1.028 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 678 ; 6.668 ; 5.015 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 215 ;33.810 ;23.256 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 945 ;13.362 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;15.105 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 772 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5808 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1171 ; 0.003 ; 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): 2462 ; 1.645 ; 1.697 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2463 ; 1.645 ; 1.698 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3127 ; 2.101 ; 2.544 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3128 ; 2.101 ; 2.544 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2704 ; 1.790 ; 1.934 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2704 ; 1.790 ; 1.934 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3929 ; 2.084 ; 2.807 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6452 ; 3.244 ;15.055 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6278 ; 2.928 ;14.523 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 10180 ; 4.015 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 143 ;34.734 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 10418 ; 7.760 ; 5.000 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 5WRI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-APR-17. REMARK 100 THE DEPOSITION ID IS D_1300002272. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-OCT-15 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 : BL38B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.3 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78540 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 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 (%) : 98.0 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.1000 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 <I/SIGMA(I)> 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 (%): 38.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M TRIMETHYLAMINE N-OXIDE REMARK 280 DIHYDRATE, 0.1 M TRIS-HCL, PH 8.5, 20% W/V POLYETHYLENE GLYCOL REMARK 280 MONOMETHYL ETHER 2000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 39.28800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 77.98600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.28800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 77.98600 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: 8300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -74.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, E 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 22 REMARK 465 GLY A 23 REMARK 465 SER A 24 REMARK 465 SER A 25 REMARK 465 HIS A 26 REMARK 465 HIS A 27 REMARK 465 HIS A 28 REMARK 465 HIS A 29 REMARK 465 HIS A 30 REMARK 465 HIS A 31 REMARK 465 SER A 32 REMARK 465 SER A 33 REMARK 465 GLY A 34 REMARK 465 LEU A 35 REMARK 465 VAL A 36 REMARK 465 PRO A 37 REMARK 465 ARG A 38 REMARK 465 GLY A 39 REMARK 465 SER A 40 REMARK 465 HIS A 41 REMARK 465 MET A 42 REMARK 465 LYS A 43 REMARK 465 LEU A 44 REMARK 465 GLU A 45 REMARK 465 SER A 46 REMARK 465 THR A 47 REMARK 465 ARG A 48 REMARK 465 THR A 49 REMARK 465 THR A 50 REMARK 465 VAL A 51 REMARK 465 ARG A 52 REMARK 465 THR A 53 REMARK 465 GLY A 54 REMARK 465 LEU A 55 REMARK 465 ASP A 56 REMARK 465 LEU A 57 REMARK 465 LYS A 58 REMARK 465 ALA A 59 REMARK 465 ASN A 60 REMARK 465 LYS A 61 REMARK 465 THR A 62 REMARK 465 PHE A 63 REMARK 465 ALA A 64 REMARK 465 ASP A 339 REMARK 465 PRO A 340 REMARK 465 LYS A 341 REMARK 465 MET B 22 REMARK 465 GLY B 23 REMARK 465 SER B 24 REMARK 465 SER B 25 REMARK 465 HIS B 26 REMARK 465 HIS B 27 REMARK 465 HIS B 28 REMARK 465 HIS B 29 REMARK 465 HIS B 30 REMARK 465 HIS B 31 REMARK 465 SER B 32 REMARK 465 SER B 33 REMARK 465 GLY B 34 REMARK 465 LEU B 35 REMARK 465 VAL B 36 REMARK 465 PRO B 37 REMARK 465 ARG B 38 REMARK 465 GLY B 39 REMARK 465 SER B 40 REMARK 465 HIS B 41 REMARK 465 MET B 42 REMARK 465 LYS B 43 REMARK 465 LEU B 44 REMARK 465 GLU B 45 REMARK 465 SER B 46 REMARK 465 THR B 47 REMARK 465 ARG B 48 REMARK 465 THR B 49 REMARK 465 THR B 50 REMARK 465 VAL B 51 REMARK 465 ARG B 52 REMARK 465 THR B 53 REMARK 465 GLY B 54 REMARK 465 LEU B 55 REMARK 465 ASP B 56 REMARK 465 LEU B 57 REMARK 465 LYS B 58 REMARK 465 ALA B 59 REMARK 465 ASN B 60 REMARK 465 LYS B 61 REMARK 465 THR B 62 REMARK 465 PHE B 63 REMARK 465 LYS B 337 REMARK 465 PRO B 338 REMARK 465 ASP B 339 REMARK 465 PRO B 340 REMARK 465 LYS B 341 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 ASP E1009 C O CB CG OD1 OD2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 116 CG CD NE CZ NH1 NH2 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 GLU D 1007 O HOH D 1101 1.98 REMARK 500 OH TYR B 329 O HOH B 502 2.05 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 B 106 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 79 38.00 70.08 REMARK 500 CYS A 97 -63.26 -100.89 REMARK 500 ARG A 102 -41.74 69.98 REMARK 500 PRO B 78 150.18 -48.67 REMARK 500 ARG B 79 37.46 70.70 REMARK 500 CYS B 97 -60.75 -104.98 REMARK 500 ARG B 102 -42.77 72.64 REMARK 500 SER B 300 37.57 -145.20 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 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 90 O REMARK 620 2 HIS A 92 O 87.9 REMARK 620 3 HIS A 92 O 88.6 1.1 REMARK 620 4 ILE A 95 O 107.4 92.1 91.1 REMARK 620 5 GLY A 276 O 82.2 97.4 98.4 166.8 REMARK 620 6 HOH A 527 O 84.2 168.5 168.3 82.3 89.8 REMARK 620 7 HOH A 577 O 169.7 97.9 97.3 81.1 88.5 91.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 263 NE2 REMARK 620 2 HIS A 267 NE2 102.7 REMARK 620 3 HIS B 267 ND1 49.6 53.1 REMARK 620 4 GLU B 269 OE1 49.5 53.3 2.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 90 O REMARK 620 2 HIS B 92 O 88.3 REMARK 620 3 ILE B 95 O 108.8 90.4 REMARK 620 4 GLY B 276 O 80.5 100.0 166.4 REMARK 620 5 HOH B 533 O 83.9 167.0 82.3 88.9 REMARK 620 6 HOH B 639 O 165.9 97.9 83.9 86.0 92.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue A3P A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue A3P B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3AP1 RELATED DB: PDB REMARK 900 THE ISOFORM PROTEIN REMARK 900 RELATED ID: 5WRJ RELATED DB: PDB DBREF 5WRI A 43 341 UNP O60507 TPST1_HUMAN 43 341 DBREF 5WRI B 43 341 UNP O60507 TPST1_HUMAN 43 341 DBREF 5WRI D 1002 1009 PDB 5WRI 5WRI 1002 1009 DBREF 5WRI E 1002 1009 PDB 5WRI 5WRI 1002 1009 SEQADV 5WRI MET A 22 UNP O60507 EXPRESSION TAG SEQADV 5WRI GLY A 23 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER A 24 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER A 25 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS A 26 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS A 27 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS A 28 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS A 29 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS A 30 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS A 31 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER A 32 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER A 33 UNP O60507 EXPRESSION TAG SEQADV 5WRI GLY A 34 UNP O60507 EXPRESSION TAG SEQADV 5WRI LEU A 35 UNP O60507 EXPRESSION TAG SEQADV 5WRI VAL A 36 UNP O60507 EXPRESSION TAG SEQADV 5WRI PRO A 37 UNP O60507 EXPRESSION TAG SEQADV 5WRI ARG A 38 UNP O60507 EXPRESSION TAG SEQADV 5WRI GLY A 39 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER A 40 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS A 41 UNP O60507 EXPRESSION TAG SEQADV 5WRI MET A 42 UNP O60507 EXPRESSION TAG SEQADV 5WRI MET B 22 UNP O60507 EXPRESSION TAG SEQADV 5WRI GLY B 23 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER B 24 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER B 25 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS B 26 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS B 27 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS B 28 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS B 29 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS B 30 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS B 31 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER B 32 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER B 33 UNP O60507 EXPRESSION TAG SEQADV 5WRI GLY B 34 UNP O60507 EXPRESSION TAG SEQADV 5WRI LEU B 35 UNP O60507 EXPRESSION TAG SEQADV 5WRI VAL B 36 UNP O60507 EXPRESSION TAG SEQADV 5WRI PRO B 37 UNP O60507 EXPRESSION TAG SEQADV 5WRI ARG B 38 UNP O60507 EXPRESSION TAG SEQADV 5WRI GLY B 39 UNP O60507 EXPRESSION TAG SEQADV 5WRI SER B 40 UNP O60507 EXPRESSION TAG SEQADV 5WRI HIS B 41 UNP O60507 EXPRESSION TAG SEQADV 5WRI MET B 42 UNP O60507 EXPRESSION TAG SEQRES 1 A 320 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 320 LEU VAL PRO ARG GLY SER HIS MET LYS LEU GLU SER THR SEQRES 3 A 320 ARG THR THR VAL ARG THR GLY LEU ASP LEU LYS ALA ASN SEQRES 4 A 320 LYS THR PHE ALA TYR HIS LYS ASP MET PRO LEU ILE PHE SEQRES 5 A 320 ILE GLY GLY VAL PRO ARG SER GLY THR THR LEU MET ARG SEQRES 6 A 320 ALA MET LEU ASP ALA HIS PRO ASP ILE ARG CYS GLY GLU SEQRES 7 A 320 GLU THR ARG VAL ILE PRO ARG ILE LEU ALA LEU LYS GLN SEQRES 8 A 320 MET TRP SER ARG SER SER LYS GLU LYS ILE ARG LEU ASP SEQRES 9 A 320 GLU ALA GLY VAL THR ASP GLU VAL LEU ASP SER ALA MET SEQRES 10 A 320 GLN ALA PHE LEU LEU GLU ILE ILE VAL LYS HIS GLY GLU SEQRES 11 A 320 PRO ALA PRO TYR LEU CYS ASN LYS ASP PRO PHE ALA LEU SEQRES 12 A 320 LYS SER LEU THR TYR LEU SER ARG LEU PHE PRO ASN ALA SEQRES 13 A 320 LYS PHE LEU LEU MET VAL ARG ASP GLY ARG ALA SER VAL SEQRES 14 A 320 HIS SER MET ILE SER ARG LYS VAL THR ILE ALA GLY PHE SEQRES 15 A 320 ASP LEU ASN SER TYR ARG ASP CYS LEU THR LYS TRP ASN SEQRES 16 A 320 ARG ALA ILE GLU THR MET TYR ASN GLN CYS MET GLU VAL SEQRES 17 A 320 GLY TYR LYS LYS CYS MET LEU VAL HIS TYR GLU GLN LEU SEQRES 18 A 320 VAL LEU HIS PRO GLU ARG TRP MET ARG THR LEU LEU LYS SEQRES 19 A 320 PHE LEU GLN ILE PRO TRP ASN HIS SER VAL LEU HIS HIS SEQRES 20 A 320 GLU GLU MET ILE GLY LYS ALA GLY GLY VAL SER LEU SER SEQRES 21 A 320 LYS VAL GLU ARG SER THR ASP GLN VAL ILE LYS PRO VAL SEQRES 22 A 320 ASN VAL GLY ALA LEU SER LYS TRP VAL GLY LYS ILE PRO SEQRES 23 A 320 PRO ASP VAL LEU GLN ASP MET ALA VAL ILE ALA PRO MET SEQRES 24 A 320 LEU ALA LYS LEU GLY TYR ASP PRO TYR ALA ASN PRO PRO SEQRES 25 A 320 ASN TYR GLY LYS PRO ASP PRO LYS SEQRES 1 B 320 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 320 LEU VAL PRO ARG GLY SER HIS MET LYS LEU GLU SER THR SEQRES 3 B 320 ARG THR THR VAL ARG THR GLY LEU ASP LEU LYS ALA ASN SEQRES 4 B 320 LYS THR PHE ALA TYR HIS LYS ASP MET PRO LEU ILE PHE SEQRES 5 B 320 ILE GLY GLY VAL PRO ARG SER GLY THR THR LEU MET ARG SEQRES 6 B 320 ALA MET LEU ASP ALA HIS PRO ASP ILE ARG CYS GLY GLU SEQRES 7 B 320 GLU THR ARG VAL ILE PRO ARG ILE LEU ALA LEU LYS GLN SEQRES 8 B 320 MET TRP SER ARG SER SER LYS GLU LYS ILE ARG LEU ASP SEQRES 9 B 320 GLU ALA GLY VAL THR ASP GLU VAL LEU ASP SER ALA MET SEQRES 10 B 320 GLN ALA PHE LEU LEU GLU ILE ILE VAL LYS HIS GLY GLU SEQRES 11 B 320 PRO ALA PRO TYR LEU CYS ASN LYS ASP PRO PHE ALA LEU SEQRES 12 B 320 LYS SER LEU THR TYR LEU SER ARG LEU PHE PRO ASN ALA SEQRES 13 B 320 LYS PHE LEU LEU MET VAL ARG ASP GLY ARG ALA SER VAL SEQRES 14 B 320 HIS SER MET ILE SER ARG LYS VAL THR ILE ALA GLY PHE SEQRES 15 B 320 ASP LEU ASN SER TYR ARG ASP CYS LEU THR LYS TRP ASN SEQRES 16 B 320 ARG ALA ILE GLU THR MET TYR ASN GLN CYS MET GLU VAL SEQRES 17 B 320 GLY TYR LYS LYS CYS MET LEU VAL HIS TYR GLU GLN LEU SEQRES 18 B 320 VAL LEU HIS PRO GLU ARG TRP MET ARG THR LEU LEU LYS SEQRES 19 B 320 PHE LEU GLN ILE PRO TRP ASN HIS SER VAL LEU HIS HIS SEQRES 20 B 320 GLU GLU MET ILE GLY LYS ALA GLY GLY VAL SER LEU SER SEQRES 21 B 320 LYS VAL GLU ARG SER THR ASP GLN VAL ILE LYS PRO VAL SEQRES 22 B 320 ASN VAL GLY ALA LEU SER LYS TRP VAL GLY LYS ILE PRO SEQRES 23 B 320 PRO ASP VAL LEU GLN ASP MET ALA VAL ILE ALA PRO MET SEQRES 24 B 320 LEU ALA LYS LEU GLY TYR ASP PRO TYR ALA ASN PRO PRO SEQRES 25 B 320 ASN TYR GLY LYS PRO ASP PRO LYS SEQRES 1 D 8 ASP PHE GLU ASP TYR GLU PHE ASP SEQRES 1 E 8 ASP PHE GLU ASP TYR GLU PHE ASP HET A3P A 401 27 HET MG A 402 1 HET GOL A 403 6 HET A3P B 401 27 HET MG B 402 1 HET ZN B 403 1 HETNAM A3P ADENOSINE-3'-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETNAM ZN ZINC ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 A3P 2(C10 H15 N5 O10 P2) FORMUL 6 MG 2(MG 2+) FORMUL 7 GOL C3 H8 O3 FORMUL 10 ZN ZN 2+ FORMUL 11 HOH *571(H2 O) HELIX 1 AA1 GLY A 81 ALA A 91 1 11 HELIX 2 AA2 ARG A 102 ARG A 116 1 15 HELIX 3 AA3 SER A 117 ALA A 127 1 11 HELIX 4 AA4 THR A 130 HIS A 149 1 20 HELIX 5 AA5 PRO A 161 LYS A 165 5 5 HELIX 6 AA6 SER A 166 PHE A 174 1 9 HELIX 7 AA7 ASP A 185 LYS A 197 1 13 HELIX 8 AA8 SER A 207 GLY A 230 1 24 HELIX 9 AA9 TYR A 239 HIS A 245 1 7 HELIX 10 AB1 HIS A 245 GLN A 258 1 14 HELIX 11 AB2 ASN A 262 ILE A 272 5 11 HELIX 12 AB3 SER A 286 ILE A 291 1 6 HELIX 13 AB4 PRO A 307 ASP A 313 1 7 HELIX 14 AB5 ASP A 313 ALA A 318 1 6 HELIX 15 AB6 PRO A 319 LEU A 324 1 6 HELIX 16 AB7 GLY B 81 ALA B 91 1 11 HELIX 17 AB8 ARG B 102 SER B 117 1 16 HELIX 18 AB9 SER B 117 ALA B 127 1 11 HELIX 19 AC1 THR B 130 HIS B 149 1 20 HELIX 20 AC2 PRO B 161 LYS B 165 5 5 HELIX 21 AC3 SER B 166 PHE B 174 1 9 HELIX 22 AC4 ASP B 185 LYS B 197 1 13 HELIX 23 AC5 SER B 207 GLY B 230 1 24 HELIX 24 AC6 TYR B 239 HIS B 245 1 7 HELIX 25 AC7 HIS B 245 GLN B 258 1 14 HELIX 26 AC8 ASN B 262 ILE B 272 5 11 HELIX 27 AC9 SER B 286 ILE B 291 1 6 HELIX 28 AD1 PRO B 307 ASP B 313 1 7 HELIX 29 AD2 ASP B 313 ALA B 318 1 6 HELIX 30 AD3 PRO B 319 LEU B 324 1 6 SHEET 1 AA1 5 ILE A 95 ARG A 96 0 SHEET 2 AA1 5 TYR A 155 LYS A 159 1 O TYR A 155 N ARG A 96 SHEET 3 AA1 5 LEU A 71 GLY A 75 1 N ILE A 74 O ASN A 158 SHEET 4 AA1 5 ALA A 177 VAL A 183 1 O MET A 182 N GLY A 75 SHEET 5 AA1 5 CYS A 234 HIS A 238 1 O VAL A 237 N LEU A 181 SHEET 1 AA2 2 ILE A 200 ALA A 201 0 SHEET 2 AA2 2 TYR D1006 GLU D1007 1 O TYR D1006 N ALA A 201 SHEET 1 AA3 5 ILE B 95 ARG B 96 0 SHEET 2 AA3 5 TYR B 155 LYS B 159 1 O CYS B 157 N ARG B 96 SHEET 3 AA3 5 ILE B 72 GLY B 75 1 N ILE B 72 O ASN B 158 SHEET 4 AA3 5 LYS B 178 VAL B 183 1 O MET B 182 N GLY B 75 SHEET 5 AA3 5 CYS B 234 HIS B 238 1 O VAL B 237 N LEU B 181 SHEET 1 AA4 2 ILE B 200 ALA B 201 0 SHEET 2 AA4 2 TYR E1006 GLU E1007 1 O TYR E1006 N ALA B 201 SSBOND 1 CYS A 97 CYS A 157 1555 1555 2.02 SSBOND 2 CYS A 226 CYS A 234 1555 1555 2.13 SSBOND 3 CYS B 97 CYS B 157 1555 1555 2.03 SSBOND 4 CYS B 226 CYS B 234 1555 1555 2.09 LINK O ASP A 90 MG MG A 402 1555 1555 2.37 LINK O AHIS A 92 MG MG A 402 1555 1555 2.34 LINK O BHIS A 92 MG MG A 402 1555 1555 2.37 LINK O ILE A 95 MG MG A 402 1555 1555 2.31 LINK NE2 HIS A 263 ZN ZN B 403 1555 3544 2.07 LINK NE2 HIS A 267 ZN ZN B 403 1555 3544 2.15 LINK O GLY A 276 MG MG A 402 1555 1555 2.34 LINK MG MG A 402 O HOH A 527 1555 1555 2.43 LINK MG MG A 402 O HOH A 577 1555 1555 2.47 LINK O ASP B 90 MG MG B 402 1555 1555 2.37 LINK O HIS B 92 MG MG B 402 1555 1555 2.37 LINK O ILE B 95 MG MG B 402 1555 1555 2.33 LINK ND1 HIS B 267 ZN ZN B 403 1555 1555 2.16 LINK OE1 GLU B 269 ZN ZN B 403 1555 1555 1.92 LINK O GLY B 276 MG MG B 402 1555 1555 2.46 LINK MG MG B 402 O HOH B 533 1555 1555 2.36 LINK MG MG B 402 O HOH B 639 1555 1555 2.40 CISPEP 1 ASN A 331 PRO A 332 0 -2.46 CISPEP 2 ASN B 331 PRO B 332 0 -1.53 SITE 1 AC1 19 ARG A 79 SER A 80 GLY A 81 THR A 82 SITE 2 AC1 19 THR A 83 ARG A 184 SER A 192 ARG A 196 SITE 3 AC1 19 TYR A 239 SER A 286 GLN A 289 VAL A 290 SITE 4 AC1 19 LYS A 292 PRO A 293 ASN A 295 LYS A 301 SITE 5 AC1 19 HOH A 516 HOH A 524 HOH A 561 SITE 1 AC2 6 ASP A 90 HIS A 92 ILE A 95 GLY A 276 SITE 2 AC2 6 HOH A 527 HOH A 577 SITE 1 AC3 8 SER A 115 SER A 118 LYS A 121 MET A 227 SITE 2 AC3 8 GLY A 230 TYR A 231 HOH A 502 HOH A 589 SITE 1 AC4 22 ARG B 79 SER B 80 GLY B 81 THR B 82 SITE 2 AC4 22 THR B 83 ARG B 184 SER B 192 ARG B 196 SITE 3 AC4 22 TYR B 239 SER B 286 GLN B 289 VAL B 290 SITE 4 AC4 22 LYS B 292 PRO B 293 VAL B 294 ASN B 295 SITE 5 AC4 22 ALA B 298 LYS B 301 HOH B 518 HOH B 521 SITE 6 AC4 22 HOH B 563 HOH B 643 SITE 1 AC5 6 ASP B 90 HIS B 92 ILE B 95 GLY B 276 SITE 2 AC5 6 HOH B 533 HOH B 639 SITE 1 AC6 5 HIS A 263 HIS A 267 HIS B 267 GLU B 269 SITE 2 AC6 5 GLU B 270 CRYST1 78.576 155.972 48.892 90.00 90.00 90.00 P 21 21 2 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 0.012727 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006411 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020453 0.00000