HEADER SIGNALING PROTEIN 01-MAR-15 4YIA TITLE STRUCTURAL MECHANISM OF HORMONE RELEASE IN THYROXINE BINDING GLOBULIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYROXINE-BINDING GLOBULIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-382; COMPND 5 SYNONYM: SERPIN A7,T4-BINDING GLOBULIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: THYROXINE-BINDING GLOBULIN; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 382-415; COMPND 11 SYNONYM: SERPIN A7,T4-BINDING GLOBULIN; COMPND 12 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: SERPINA7, TBG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: SERPINA7, TBG; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS THYROXINE BINDING GLOBULIN; THYROXINE; SERPIN, HORMONE RELEASE, KEYWDS 2 CATION PI INTERACTION, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.ZHENG REVDAT 2 20-MAR-24 4YIA 1 REMARK LINK REVDAT 1 02-MAR-16 4YIA 0 JRNL AUTH Y.ZHENG JRNL TITL STRUCTURAL MECHANISM OF HORMONE RELEASE IN THYROXINE BINDING JRNL TITL 2 GLOBULIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.57 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 52812 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) : 0.205 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2820 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) : 1.58 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.63 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3834 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.11 REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 198 REMARK 3 BIN FREE R VALUE : 0.2810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2922 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 197 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.04000 REMARK 3 B22 (A**2) : -1.16000 REMARK 3 B33 (A**2) : -1.88000 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): 0.093 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.091 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.053 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.969 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3019 ; 0.023 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2921 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4089 ; 2.199 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6739 ; 0.978 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 372 ; 6.301 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;36.366 ;25.276 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 544 ;12.570 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;10.143 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 468 ; 0.150 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3367 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 674 ; 0.001 ; 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): 1483 ; 1.303 ; 0.937 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1481 ; 1.298 ; 0.936 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1850 ; 1.980 ; 1.402 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1851 ; 1.981 ; 1.403 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1536 ; 2.200 ; 1.238 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1537 ; 2.200 ; 1.238 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2238 ; 3.387 ; 1.745 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3400 ; 5.213 ; 8.737 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3399 ; 5.210 ; 8.719 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 19 A 355 REMARK 3 ORIGIN FOR THE GROUP (A): -12.2712 -22.6106 24.5267 REMARK 3 T TENSOR REMARK 3 T11: 0.0080 T22: 0.0566 REMARK 3 T33: 0.0612 T12: 0.0001 REMARK 3 T13: -0.0040 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 0.1057 L22: 0.2932 REMARK 3 L33: 0.2192 L12: 0.0065 REMARK 3 L13: -0.0751 L23: 0.1778 REMARK 3 S TENSOR REMARK 3 S11: 0.0148 S12: 0.0292 S13: 0.0206 REMARK 3 S21: 0.0398 S22: -0.0160 S23: -0.0100 REMARK 3 S31: 0.0083 S32: -0.0081 S33: 0.0012 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 362 B 394 REMARK 3 ORIGIN FOR THE GROUP (A): -10.2209 -34.0768 15.8002 REMARK 3 T TENSOR REMARK 3 T11: 0.0064 T22: 0.0761 REMARK 3 T33: 0.0613 T12: -0.0020 REMARK 3 T13: 0.0047 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.0481 L22: 0.5907 REMARK 3 L33: 0.4725 L12: -0.0360 REMARK 3 L13: 0.1119 L23: 0.0490 REMARK 3 S TENSOR REMARK 3 S11: -0.0068 S12: 0.0460 S13: 0.0012 REMARK 3 S21: 0.0573 S22: -0.0305 S23: -0.0023 REMARK 3 S31: -0.0051 S32: 0.0364 S33: 0.0373 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 4YIA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000205602. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : PH6-8 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52812 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 26.570 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.5000 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, EVAPORATION, TEMPERATURE REMARK 280 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 2 21 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,-Z+1/2 REMARK 290 4555 -X+1/2,-Y,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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 20.99000 REMARK 290 SMTRY2 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 86.68000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 20.99000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 86.68000 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: 6520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -105.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -19 REMARK 465 SER A -18 REMARK 465 PRO A -17 REMARK 465 PHE A -16 REMARK 465 LEU A -15 REMARK 465 TYR A -14 REMARK 465 LEU A -13 REMARK 465 VAL A -12 REMARK 465 LEU A -11 REMARK 465 LEU A -10 REMARK 465 VAL A -9 REMARK 465 LEU A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 HIS A -5 REMARK 465 ALA A -4 REMARK 465 THR A -3 REMARK 465 ILE A -2 REMARK 465 HIS A -1 REMARK 465 CYS A 0 REMARK 465 ALA A 1 REMARK 465 SER A 2 REMARK 465 PRO A 3 REMARK 465 GLU A 4 REMARK 465 GLY A 5 REMARK 465 LYS A 6 REMARK 465 VAL A 7 REMARK 465 THR A 8 REMARK 465 ALA A 9 REMARK 465 CYS A 10 REMARK 465 HIS A 11 REMARK 465 SER A 12 REMARK 465 SER A 13 REMARK 465 GLN A 14 REMARK 465 PRO A 15 REMARK 465 ASN A 16 REMARK 465 ALA A 17 REMARK 465 THR A 18 REMARK 465 ALA B 395 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 PHE A 194 CG PHE A 194 CD2 -0.099 REMARK 500 SER A 242 CB SER A 242 OG -0.084 REMARK 500 SER A 316 CB SER A 316 OG -0.107 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 GLU A 222 OE1 - CD - OE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 MET A 239 CG - SD - CE ANGL. DEV. = -9.7 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 CYS A 66 -139.18 51.29 REMARK 500 TYR A 134 30.83 -144.69 REMARK 500 ASN A 145 77.72 -110.74 REMARK 500 PHE A 315 42.01 -109.29 REMARK 500 ASN A 322 57.87 38.73 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 A 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 140 O REMARK 620 2 HOH A 515 O 78.7 REMARK 620 3 HOH A 678 O 73.1 151.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 192 OD1 REMARK 620 2 GLN A 220 OE1 97.2 REMARK 620 3 GLU A 222 OE1 76.2 95.4 REMARK 620 4 GLU A 222 OE1 76.2 95.4 0.0 REMARK 620 5 HOH A 511 O 149.0 100.1 127.0 127.0 REMARK 620 6 HOH A 513 O 154.9 75.3 80.7 80.7 55.6 REMARK 620 7 HOH A 523 O 74.3 77.9 148.6 148.6 84.4 125.6 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 403 REMARK 999 REMARK 999 SEQUENCE REMARK 999 REACTIVE LOOP (366-382) MUTATED TO GAMFLEAIPR DBREF 4YIA A -19 355 UNP P05543 THBG_HUMAN 1 382 DBREF 4YIA B 362 395 UNP P05543 THBG_HUMAN 382 415 SEQADV 4YIA GLY A 346 UNP P05543 ALA 366 SEE SEQUENCE DETAILS SEQADV 4YIA ALA A 347 UNP P05543 VAL 367 SEE SEQUENCE DETAILS SEQADV 4YIA MET A 348 UNP P05543 PRO 368 SEE SEQUENCE DETAILS SEQADV 4YIA PHE A 349 UNP P05543 GLU 369 SEE SEQUENCE DETAILS SEQADV 4YIA LEU A 350 UNP P05543 VAL 370 SEE SEQUENCE DETAILS SEQADV 4YIA ALA A 352 UNP P05543 LEU 372 SEE SEQUENCE DETAILS SEQADV 4YIA ILE A 353 UNP P05543 SER 373 SEE SEQUENCE DETAILS SEQADV 4YIA PRO A 354 UNP P05543 ASP 374 SEE SEQUENCE DETAILS SEQADV 4YIA ARG A 355 UNP P05543 GLN 375 SEE SEQUENCE DETAILS SEQRES 1 A 375 MET SER PRO PHE LEU TYR LEU VAL LEU LEU VAL LEU GLY SEQRES 2 A 375 LEU HIS ALA THR ILE HIS CYS ALA SER PRO GLU GLY LYS SEQRES 3 A 375 VAL THR ALA CYS HIS SER SER GLN PRO ASN ALA THR LEU SEQRES 4 A 375 TYR LYS MET SER SER ILE ASN ALA ASP PHE ALA PHE ASN SEQRES 5 A 375 LEU TYR ARG ARG PHE THR VAL GLU THR PRO ASP LYS ASN SEQRES 6 A 375 ILE PHE PHE SER PRO VAL SER ILE SER ALA ALA LEU VAL SEQRES 7 A 375 MET LEU SER PHE GLY ALA CYS CYS SER THR GLN THR GLU SEQRES 8 A 375 ILE VAL GLU THR LEU GLY PHE ASN LEU THR ASP THR PRO SEQRES 9 A 375 MET VAL GLU ILE GLN HIS GLY PHE GLN HIS LEU ILE CYS SEQRES 10 A 375 SER LEU ASN PHE PRO LYS LYS GLU LEU GLU LEU GLN ILE SEQRES 11 A 375 GLY ASN ALA LEU PHE ILE GLY LYS HIS LEU LYS PRO LEU SEQRES 12 A 375 ALA LYS PHE LEU ASN ASP VAL LYS THR LEU TYR GLU THR SEQRES 13 A 375 GLU VAL PHE SER THR ASP PHE SER ASN ILE SER ALA ALA SEQRES 14 A 375 LYS GLN GLU ILE ASN SER HIS VAL GLU MET GLN THR LYS SEQRES 15 A 375 GLY LYS VAL VAL GLY LEU ILE GLN ASP LEU LYS PRO ASN SEQRES 16 A 375 THR ILE MET VAL LEU VAL ASN TYR ILE HIS PHE LYS ALA SEQRES 17 A 375 GLN TRP ALA ASN PRO PHE ASP PRO SER LYS THR GLU ASP SEQRES 18 A 375 SER SER SER PHE LEU ILE ASP LYS THR THR THR VAL GLN SEQRES 19 A 375 VAL PRO MET MET HIS GLN MET GLU GLN TYR TYR HIS LEU SEQRES 20 A 375 VAL ASP MET GLU LEU ASN CYS THR VAL LEU GLN MET ASP SEQRES 21 A 375 TYR SER LYS ASN ALA LEU ALA LEU PHE VAL LEU PRO LYS SEQRES 22 A 375 GLU GLY GLN MET GLU SER VAL GLU ALA ALA MET SER SER SEQRES 23 A 375 LYS THR LEU LYS LYS TRP ASN ARG LEU LEU GLN LYS GLY SEQRES 24 A 375 TRP VAL ASP LEU PHE VAL PRO LYS PHE SER ILE SER ALA SEQRES 25 A 375 THR TYR ASP LEU GLY ALA THR LEU LEU LYS MET GLY ILE SEQRES 26 A 375 GLN HIS ALA TYR SER GLU ASN ALA ASP PHE SER GLY LEU SEQRES 27 A 375 THR GLU ASP ASN GLY LEU LYS LEU SER ASN ALA ALA HIS SEQRES 28 A 375 LYS ALA VAL LEU HIS ILE GLY GLU LYS GLY THR GLU ALA SEQRES 29 A 375 ALA GLY ALA MET PHE LEU GLU ALA ILE PRO ARG SEQRES 1 B 34 HIS PRO ILE ILE GLN ILE ASP ARG SER PHE MET LEU LEU SEQRES 2 B 34 ILE LEU GLU ARG SER THR ARG SER ILE LEU PHE LEU GLY SEQRES 3 B 34 LYS VAL VAL ASN PRO THR GLU ALA HET CA A 401 1 HET NA A 402 1 HET NA A 403 1 HET CL A 404 1 HET IMN B 401 25 HET CA B 402 1 HET CL B 403 1 HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM IMN INDOMETHACIN FORMUL 3 CA 2(CA 2+) FORMUL 4 NA 2(NA 1+) FORMUL 6 CL 2(CL 1-) FORMUL 7 IMN C19 H16 CL N O4 FORMUL 10 HOH *197(H2 O) HELIX 1 AA1 LEU A 19 THR A 41 1 23 HELIX 2 AA2 SER A 49 GLY A 63 1 15 HELIX 3 AA3 CYS A 65 LEU A 76 1 12 HELIX 4 AA4 PRO A 84 PHE A 101 1 18 HELIX 5 AA5 LEU A 123 TYR A 134 1 12 HELIX 6 AA6 ASN A 145 THR A 161 1 17 HELIX 7 AA7 ASP A 195 THR A 199 5 5 HELIX 8 AA8 GLN A 256 MET A 264 1 9 HELIX 9 AA9 SER A 265 LEU A 276 1 12 HELIX 10 AB1 LEU A 296 GLY A 304 1 9 HELIX 11 AB2 GLN A 306 SER A 310 5 5 SHEET 1 AA1 7 ILE A 46 PHE A 48 0 SHEET 2 AA1 7 SER B 382 VAL B 389 -1 O LEU B 386 N PHE A 48 SHEET 3 AA1 7 PHE B 371 GLU B 377 -1 N PHE B 371 O VAL B 389 SHEET 4 AA1 7 ALA A 245 PRO A 252 -1 N VAL A 250 O MET B 372 SHEET 5 AA1 7 CYS A 234 ASP A 240 -1 N LEU A 237 O PHE A 249 SHEET 6 AA1 7 THR A 211 ASP A 229 -1 N ASP A 229 O CYS A 234 SHEET 7 AA1 7 GLU A 200 ASP A 208 -1 N SER A 203 O VAL A 215 SHEET 1 AA2 8 ILE A 46 PHE A 48 0 SHEET 2 AA2 8 SER B 382 VAL B 389 -1 O LEU B 386 N PHE A 48 SHEET 3 AA2 8 PHE B 371 GLU B 377 -1 N PHE B 371 O VAL B 389 SHEET 4 AA2 8 ALA A 245 PRO A 252 -1 N VAL A 250 O MET B 372 SHEET 5 AA2 8 CYS A 234 ASP A 240 -1 N LEU A 237 O PHE A 249 SHEET 6 AA2 8 THR A 211 ASP A 229 -1 N ASP A 229 O CYS A 234 SHEET 7 AA2 8 GLN A 277 PRO A 286 -1 O VAL A 285 N MET A 218 SHEET 8 AA2 8 ILE B 364 GLN B 366 1 O ILE B 365 N ASP A 282 SHEET 1 AA3 6 THR A 136 THR A 141 0 SHEET 2 AA3 6 LEU A 106 GLY A 117 1 N LEU A 114 O PHE A 139 SHEET 3 AA3 6 MET A 178 GLN A 189 -1 O VAL A 179 N PHE A 115 SHEET 4 AA3 6 GLY A 341 PRO A 354 -1 O ALA A 344 N PHE A 186 SHEET 5 AA3 6 LEU A 324 ILE A 337 -1 N SER A 327 O GLU A 351 SHEET 6 AA3 6 PHE A 288 ASP A 295 -1 N PHE A 288 O ILE A 337 LINK O SER A 140 NA NA A 403 1555 1555 2.21 LINK OD1 ASN A 192 CA CA A 401 1555 1555 2.93 LINK OE1 GLN A 220 CA CA A 401 1555 1555 2.39 LINK OE1 GLU A 222 CA CA A 401 1555 1555 2.63 LINK OE1 GLU A 222 CA CA A 401 1555 2455 2.20 LINK OD2 ASP A 321 NA NA A 402 1555 1555 2.86 LINK CA CA A 401 O HOH A 511 1555 2455 2.99 LINK CA CA A 401 O HOH A 513 1555 1555 3.11 LINK CA CA A 401 O HOH A 523 1555 1555 2.37 LINK NA NA A 403 O HOH A 515 1555 1555 2.39 LINK NA NA A 403 O HOH A 678 1555 1555 2.46 LINK CA CA B 402 O HOH B 512 1555 1555 3.05 SITE 1 AC1 5 ASN A 192 GLN A 220 GLU A 222 HOH A 511 SITE 2 AC1 5 HOH A 523 SITE 1 AC2 2 LYS A 121 ASP A 321 SITE 1 AC3 3 SER A 140 HOH A 515 HOH A 678 SITE 1 AC4 6 SER A 23 ALA A 27 ARG B 381 ILE B 383 SITE 2 AC4 6 IMN B 401 CA B 402 SITE 1 AC5 13 SER A 23 GLN A 238 LEU A 246 SER A 266 SITE 2 AC5 13 LEU A 269 TRP A 272 ASN A 273 CL A 404 SITE 3 AC5 13 LEU B 376 ARG B 378 ARG B 381 HOH B 501 SITE 4 AC5 13 HOH B 503 SITE 1 AC6 6 ASN A 26 CL A 404 SER B 382 ILE B 383 SITE 2 AC6 6 CL B 403 HOH B 512 SITE 1 AC7 3 HOH A 646 ILE B 383 CA B 402 CRYST1 41.980 56.070 173.360 90.00 90.00 90.00 P 21 2 21 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 0.023821 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017835 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005768 0.00000