PDB Short entry for 3PMA HEADER HYDROLASE/HYDROLASE INHIBITOR 16-NOV-10 3PMA TITLE 2.2 ANGSTROM CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN BOVINE THROMBIN TITLE 2 AND SUCROSE OCTASULFATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN LIGHT CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: BOVINE THROMBIN LIGHT CHAIN RESIDUES 336-364; COMPND 5 EC: 3.4.21.5; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: THROMBIN HEAVY CHAIN; COMPND 8 CHAIN: B, D; COMPND 9 EC: 3.4.21.5 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 7 ORGANISM_COMMON: BOVINE,COW,DOMESTIC CATTLE,DOMESTIC COW; SOURCE 8 ORGANISM_TAXID: 9913 KEYWDS PROTEASE, THROMBOSIS, FIBRINOLYSIS, AGONIST, HYDROLASE-HYDROLASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.T.WRIGHT,J.N.SCARSDALE,B.J.DESAI REVDAT 4 06-SEP-23 3PMA 1 HETSYN REVDAT 3 29-JUL-20 3PMA 1 COMPND REMARK HET HETNAM REVDAT 3 2 1 FORMUL LINK SITE ATOM REVDAT 2 24-AUG-11 3PMA 1 JRNL REVDAT 1 20-JUL-11 3PMA 0 JRNL AUTH B.J.DESAI,R.S.BOOTHELLO,A.Y.MEHTA,J.N.SCARSDALE,H.T.WRIGHT, JRNL AUTH 2 U.R.DESAI JRNL TITL INTERACTION OF THROMBIN WITH SUCROSE OCTASULFATE. JRNL REF BIOCHEMISTRY V. 50 6973 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21736375 JRNL DOI 10.1021/BI2004526 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0088 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 36728 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1938 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2629 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 154 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4393 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 138 REMARK 3 SOLVENT ATOMS : 253 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.15000 REMARK 3 B22 (A**2) : -0.15000 REMARK 3 B33 (A**2) : 0.30000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.198 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.135 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.618 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4658 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6346 ; 1.244 ; 1.994 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 552 ; 5.498 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 203 ;33.213 ;23.350 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 771 ;15.513 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;17.337 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 687 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3453 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2767 ; 0.622 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4438 ; 1.344 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1891 ; 2.342 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1908 ; 3.491 ; 9.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 29 REMARK 3 RESIDUE RANGE : B 16 B 281 REMARK 3 ORIGIN FOR THE GROUP (A): -3.2487 -20.7631 31.5738 REMARK 3 T TENSOR REMARK 3 T11: 0.0067 T22: 0.1072 REMARK 3 T33: 0.0544 T12: 0.0126 REMARK 3 T13: -0.0145 T23: -0.0705 REMARK 3 L TENSOR REMARK 3 L11: 2.9574 L22: 1.9117 REMARK 3 L33: 1.6120 L12: 0.5156 REMARK 3 L13: 0.1632 L23: 0.6845 REMARK 3 S TENSOR REMARK 3 S11: 0.0342 S12: 0.3630 S13: -0.2228 REMARK 3 S21: -0.0251 S22: -0.0348 S23: 0.0826 REMARK 3 S31: 0.0590 S32: -0.1038 S33: 0.0005 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 29 REMARK 3 RESIDUE RANGE : D 16 D 281 REMARK 3 ORIGIN FOR THE GROUP (A): 1.4462 -64.3413 31.0479 REMARK 3 T TENSOR REMARK 3 T11: 0.1087 T22: 0.0670 REMARK 3 T33: 0.0275 T12: 0.0491 REMARK 3 T13: 0.0111 T23: 0.0200 REMARK 3 L TENSOR REMARK 3 L11: 2.6079 L22: 2.6617 REMARK 3 L33: 1.7137 L12: 0.9308 REMARK 3 L13: 0.1987 L23: -0.5636 REMARK 3 S TENSOR REMARK 3 S11: -0.0384 S12: 0.2043 S13: 0.1235 REMARK 3 S21: -0.1527 S22: 0.0137 S23: -0.1221 REMARK 3 S31: -0.1466 S32: 0.0746 S33: 0.0247 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3PMA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-NOV-10. REMARK 100 THE DEPOSITION ID IS D_1000062547. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 104 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : RIGAKU VARIMAX CONFOCAL OPTICS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38745 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 27.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.870 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.03 REMARK 200 R MERGE FOR SHELL (I) : 0.31100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.300 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: PDB ENTRY 1MKX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3 MICROLITERS BOVINE THROMBIN, 7 MG/ML REMARK 280 IN 0.01M TRIS-HCL, PH 8.0, 0.05M NACL, 0.1M SODIUM CITRATE, 20% REMARK 280 W/V, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K, PH 6.2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 95.99500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 43.78100 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 43.78100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 143.99250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 43.78100 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 43.78100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 47.99750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 43.78100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.78100 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 143.99250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 43.78100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.78100 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 47.99750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 95.99500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: 2730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 REMARK 350 BIOMOLECULE: 2 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: 3730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, F 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 49450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -118.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 95.99500 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 HIS B 70A REMARK 465 SER B 70B REMARK 465 ARG B 70C REMARK 465 THR B 70D REMARK 465 ARG B 70E REMARK 465 TYR B 70F REMARK 465 GLU B 70G REMARK 465 ARG B 70H REMARK 465 LYS B 70I REMARK 465 THR B 146A REMARK 465 TRP B 146B REMARK 465 THR B 146C REMARK 465 THR B 146D REMARK 465 SER B 146E REMARK 465 VAL B 146F REMARK 465 ALA B 146G REMARK 465 GLU B 146H REMARK 465 VAL B 146I REMARK 465 LEU B 245 REMARK 465 GLY B 246 REMARK 465 SER B 247 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 ARG B 50 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 70 CG CD CE NZ REMARK 470 VAL B 79 CG1 CG2 REMARK 470 LYS B 87 CG CD CE NZ REMARK 470 GLN B 127 CG CD OE1 NE2 REMARK 470 ARG B 145 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 192 CG CD OE1 OE2 REMARK 470 TYR B 204A CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU C 1C CG CD OE1 OE2 REMARK 470 LYS C 9 CG CD CE NZ REMARK 470 GLN C 11 CG CD OE1 NE2 REMARK 470 ARG D 77A CG CD NE CZ NH1 NH2 REMARK 470 LYS D 78 CG CD CE NZ REMARK 470 LYS D 81 CG CD CE NZ REMARK 470 LYS D 109 CG CD CE NZ REMARK 470 GLU D 113 CG CD OE1 OE2 REMARK 470 LYS D 126 CG CD CE NZ REMARK 470 GLN D 127 CG CD OE1 NE2 REMARK 470 LYS D 129B CG CD CE NZ REMARK 470 ARG D 145 CG CD NE CZ NH1 NH2 REMARK 470 THR D 149 OG1 CG2 REMARK 470 THR D 149A OG1 CG2 REMARK 470 VAL D 149C CG1 CG2 REMARK 470 GLU D 192 CG CD OE1 OE2 REMARK 470 TYR D 204A CG CD1 CD2 CE1 CE2 CZ OH 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 PHE A 7 -86.03 -128.48 REMARK 500 SER B 36A 112.20 -160.97 REMARK 500 TYR B 60A 85.30 -152.32 REMARK 500 GLU B 97A -60.39 -106.57 REMARK 500 SER B 214 -62.39 -109.02 REMARK 500 ASP B 243 -102.07 60.29 REMARK 500 PHE C 7 -87.44 -124.40 REMARK 500 TYR D 60A 89.26 -152.42 REMARK 500 ASN D 60G 74.90 -157.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 1 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG B 221A O REMARK 620 2 LYS B 224 O 87.2 REMARK 620 3 HOH B 260 O 100.1 88.1 REMARK 620 4 HOH B 264 O 80.7 87.2 175.2 REMARK 620 5 HOH B 267 O 152.0 68.8 93.5 83.9 REMARK 620 6 HOH B 297 O 105.2 163.6 100.1 84.2 96.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D 2 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH D 3 O REMARK 620 2 HOH D 7 O 167.7 REMARK 620 3 ARG D 221A O 105.4 86.2 REMARK 620 4 LYS D 224 O 83.6 91.1 95.0 REMARK 620 5 HOH D 255 O 88.6 79.2 159.2 70.9 REMARK 620 6 HOH D 262 O 99.5 81.3 105.3 157.6 87.0 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3PMB RELATED DB: PDB DBREF 3PMA A 1C 14L UNP P00735 THRB_BOVIN 336 364 DBREF 3PMA B 16 247 UNP P00735 THRB_BOVIN 367 625 DBREF 3PMA C 1C 14L UNP P00735 THRB_BOVIN 336 364 DBREF 3PMA D 16 247 UNP P00735 THRB_BOVIN 367 625 SEQRES 1 A 29 GLU ALA ASP CYS GLY LEU ARG PRO LEU PHE GLU LYS LYS SEQRES 2 A 29 GLN VAL GLN ASP GLN THR GLU LYS GLU LEU PHE GLU SER SEQRES 3 A 29 TYR ILE GLU SEQRES 1 B 259 ILE VAL GLU GLY GLN ASP ALA GLU VAL GLY LEU SER PRO SEQRES 2 B 259 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 B 259 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 B 259 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 B 259 ASN PHE THR VAL ASP ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 B 259 HIS SER ARG THR ARG TYR GLU ARG LYS VAL GLU LYS ILE SEQRES 7 B 259 SER MET LEU ASP LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 B 259 TRP LYS GLU ASN LEU ASP ARG ASP ILE ALA LEU LEU LYS SEQRES 9 B 259 LEU LYS ARG PRO ILE GLU LEU SER ASP TYR ILE HIS PRO SEQRES 10 B 259 VAL CYS LEU PRO ASP LYS GLN THR ALA ALA LYS LEU LEU SEQRES 11 B 259 HIS ALA GLY PHE LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 B 259 ARG ARG GLU THR TRP THR THR SER VAL ALA GLU VAL GLN SEQRES 13 B 259 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO LEU VAL GLU SEQRES 14 B 259 ARG PRO VAL CYS LYS ALA SER THR ARG ILE ARG ILE THR SEQRES 15 B 259 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO GLY GLU GLY SEQRES 16 B 259 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 B 259 PHE VAL MET LYS SER PRO TYR ASN ASN ARG TRP TYR GLN SEQRES 18 B 259 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 B 259 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 B 259 LYS TRP ILE GLN LYS VAL ILE ASP ARG LEU GLY SER SEQRES 1 C 29 GLU ALA ASP CYS GLY LEU ARG PRO LEU PHE GLU LYS LYS SEQRES 2 C 29 GLN VAL GLN ASP GLN THR GLU LYS GLU LEU PHE GLU SER SEQRES 3 C 29 TYR ILE GLU SEQRES 1 D 259 ILE VAL GLU GLY GLN ASP ALA GLU VAL GLY LEU SER PRO SEQRES 2 D 259 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 D 259 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 D 259 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 D 259 ASN PHE THR VAL ASP ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 D 259 HIS SER ARG THR ARG TYR GLU ARG LYS VAL GLU LYS ILE SEQRES 7 D 259 SER MET LEU ASP LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 D 259 TRP LYS GLU ASN LEU ASP ARG ASP ILE ALA LEU LEU LYS SEQRES 9 D 259 LEU LYS ARG PRO ILE GLU LEU SER ASP TYR ILE HIS PRO SEQRES 10 D 259 VAL CYS LEU PRO ASP LYS GLN THR ALA ALA LYS LEU LEU SEQRES 11 D 259 HIS ALA GLY PHE LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 D 259 ARG ARG GLU THR TRP THR THR SER VAL ALA GLU VAL GLN SEQRES 13 D 259 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO LEU VAL GLU SEQRES 14 D 259 ARG PRO VAL CYS LYS ALA SER THR ARG ILE ARG ILE THR SEQRES 15 D 259 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO GLY GLU GLY SEQRES 16 D 259 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 D 259 PHE VAL MET LYS SER PRO TYR ASN ASN ARG TRP TYR GLN SEQRES 18 D 259 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 D 259 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 D 259 LYS TRP ILE GLN LYS VAL ILE ASP ARG LEU GLY SER HET GU4 E 1 27 HET YYJ E 2 28 HET GU4 F 1 27 HET YYJ F 2 28 HET NA B 1 1 HET CIT B 3 13 HET NA D 2 1 HET CIT D 4 13 HETNAM GU4 2,3,4,6-TETRA-O-SULFONATO-ALPHA-D-GLUCOPYRANOSE HETNAM YYJ 1,3,4,6-TETRA-O-SULFO-BETA-D-FRUCTOFURANOSE HETNAM NA SODIUM ION HETNAM CIT CITRIC ACID HETSYN GU4 2,3,4,6-TETRA-O-SULFONATO-ALPHA-D-GLUCOSE; 2,3,4,6- HETSYN 2 GU4 TETRA-O-SULFONATO-D-GLUCOSE; 2,3,4,6-TETRA-O- HETSYN 3 GU4 SULFONATO-GLUCOSE FORMUL 5 GU4 2(C6 H12 O18 S4) FORMUL 5 YYJ 2(C6 H12 O18 S4) FORMUL 7 NA 2(NA 1+) FORMUL 8 CIT 2(C6 H8 O7) FORMUL 11 HOH *253(H2 O) HELIX 1 1 PHE A 7 GLN A 11 5 5 HELIX 2 2 THR A 14B ILE A 14K 1 10 HELIX 3 3 ALA B 55 CYS B 58 5 4 HELIX 4 4 PRO B 60B ASP B 60E 5 4 HELIX 5 5 ASP B 125 LEU B 130 1 9 HELIX 6 6 GLU B 164 SER B 171 1 8 HELIX 7 7 LEU B 234 ASP B 243 1 10 HELIX 8 8 PHE C 7 GLN C 11 5 5 HELIX 9 9 THR C 14B ILE C 14K 1 10 HELIX 10 10 ALA D 55 CYS D 58 5 4 HELIX 11 11 PRO D 60B ASP D 60E 5 4 HELIX 12 12 THR D 60I ASP D 62 5 3 HELIX 13 13 ASP D 125 LEU D 130 1 9 HELIX 14 14 SER D 149B GLN D 151 5 6 HELIX 15 15 GLU D 164 SER D 171 1 8 HELIX 16 16 LEU D 234 ASP D 243 1 10 SHEET 1 A 7 GLN B 20 ASP B 21 0 SHEET 2 A 7 GLN B 156 PRO B 161 -1 O VAL B 157 N GLN B 20 SHEET 3 A 7 LYS B 135 GLY B 140 -1 N VAL B 138 O VAL B 158 SHEET 4 A 7 PRO B 198 LYS B 202 -1 O VAL B 200 N ARG B 137 SHEET 5 A 7 TRP B 207 TRP B 215 -1 O TYR B 208 N MET B 201 SHEET 6 A 7 GLY B 226 HIS B 230 -1 O PHE B 227 N TRP B 215 SHEET 7 A 7 MET B 180 ALA B 183 -1 N PHE B 181 O TYR B 228 SHEET 1 B 7 LYS B 81 SER B 83 0 SHEET 2 B 7 LEU B 64 ILE B 68 -1 N ILE B 68 O LYS B 81 SHEET 3 B 7 GLN B 30 ARG B 35 -1 N PHE B 34 O LEU B 65 SHEET 4 B 7 GLU B 39 LEU B 46 -1 O GLU B 39 N ARG B 35 SHEET 5 B 7 TRP B 51 THR B 54 -1 O LEU B 53 N SER B 45 SHEET 6 B 7 ALA B 104 LEU B 108 -1 O LEU B 106 N VAL B 52 SHEET 7 B 7 LEU B 85 ILE B 90 -1 N ASP B 86 O LYS B 107 SHEET 1 C 2 LEU B 60 TYR B 60A 0 SHEET 2 C 2 LYS B 60F ASN B 60G-1 O LYS B 60F N TYR B 60A SHEET 1 D 7 GLN D 20 ASP D 21 0 SHEET 2 D 7 GLN D 156 PRO D 161 -1 O VAL D 157 N GLN D 20 SHEET 3 D 7 LYS D 135 GLY D 140 -1 N GLY D 136 O LEU D 160 SHEET 4 D 7 PRO D 198 LYS D 202 -1 O VAL D 200 N ARG D 137 SHEET 5 D 7 TRP D 207 TRP D 215 -1 O TYR D 208 N MET D 201 SHEET 6 D 7 GLY D 226 HIS D 230 -1 O PHE D 227 N TRP D 215 SHEET 7 D 7 MET D 180 ALA D 183 -1 N PHE D 181 O TYR D 228 SHEET 1 E 7 LYS D 81 SER D 83 0 SHEET 2 E 7 LEU D 64 ILE D 68 -1 N ILE D 68 O LYS D 81 SHEET 3 E 7 GLN D 30 ARG D 35 -1 N PHE D 34 O LEU D 65 SHEET 4 E 7 GLU D 39 LEU D 46 -1 O CYS D 42 N LEU D 33 SHEET 5 E 7 TRP D 51 THR D 54 -1 O LEU D 53 N SER D 45 SHEET 6 E 7 ALA D 104 LEU D 108 -1 O LEU D 106 N VAL D 52 SHEET 7 E 7 LEU D 85 ILE D 90 -1 N ASP D 86 O LYS D 107 SHEET 1 F 2 LEU D 60 TYR D 60A 0 SHEET 2 F 2 LYS D 60F ASN D 60G-1 O LYS D 60F N TYR D 60A SSBOND 1 CYS A 1 CYS B 122 1555 1555 2.04 SSBOND 2 CYS B 42 CYS B 58 1555 1555 2.03 SSBOND 3 CYS B 168 CYS B 182 1555 1555 2.05 SSBOND 4 CYS B 191 CYS B 220 1555 1555 2.06 SSBOND 5 CYS C 1 CYS D 122 1555 1555 2.03 SSBOND 6 CYS D 42 CYS D 58 1555 1555 2.04 SSBOND 7 CYS D 168 CYS D 182 1555 1555 2.03 SSBOND 8 CYS D 191 CYS D 220 1555 1555 2.04 LINK C1 GU4 E 1 O2 YYJ E 2 1555 1555 1.49 LINK C1 GU4 F 1 O2 YYJ F 2 1555 1555 1.47 LINK NA NA B 1 O ARG B 221A 1555 1555 2.47 LINK NA NA B 1 O LYS B 224 1555 1555 2.41 LINK NA NA B 1 O HOH B 260 1555 1555 2.30 LINK NA NA B 1 O HOH B 264 1555 1555 2.91 LINK NA NA B 1 O HOH B 267 1555 1555 2.44 LINK NA NA B 1 O HOH B 297 1555 1555 2.28 LINK NA NA D 2 O HOH D 3 1555 1555 2.40 LINK NA NA D 2 O HOH D 7 1555 1555 2.88 LINK NA NA D 2 O ARG D 221A 1555 1555 2.27 LINK NA NA D 2 O LYS D 224 1555 1555 2.37 LINK NA NA D 2 O HOH D 255 1555 1555 2.52 LINK NA NA D 2 O HOH D 262 1555 1555 2.40 CISPEP 1 SER B 36A PRO B 37 0 1.84 CISPEP 2 SER D 36A PRO D 37 0 -5.12 CRYST1 87.562 87.562 191.990 90.00 90.00 90.00 P 43 21 2 16 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 0.011421 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011421 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005209 0.00000