HEADER HYDROLASE/HYDROLASE INHIBITOR 13-SEP-13 4MPU TITLE HUMAN BETA-TRYPTASE CO-CRYSTAL STRUCTURE WITH (6S,8R)-N,N'-BIS[3-({4- TITLE 2 [3-(AMINOMETHYL)PHENYL]PIPERIDIN-1-YL}CARBONYL)PHENYL]-8-HYDROXY-6- TITLE 3 (1-HYDROXYCYCLOBUTYL)-5,7-DIOXASPIRO[3.4]OCTANE-6,8-DICARBOXAMIDE CAVEAT 4MPU CONFORMATIONS C AND D OF LIGAND X2A HAVE INCORRECT CAVEAT 2 4MPU STEREOCHEMISTRY AT THEIR C AND C22 CHIRAL CENTERS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRYPTASE ALPHA/BETA-1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 31-275; COMPND 5 SYNONYM: TRYPTASE-1, TRYPTASE I, TRYPTASE ALPHA-1; COMPND 6 EC: 3.4.21.59; COMPND 7 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: TPS1, TPS2, TPSAB1, TPSB1; SOURCE 6 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: PICHIA PASTORIS; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS COFERON, ALPHA-HYDROXYKETONE, SMALL MOLECULE INHIBITOR, DRUG KEYWDS 2 DISCOVERY, SELF-ASSEMBLY, CRYSTAL CATALYSIS, HYDROLASE-HYDROLASE KEYWDS 3 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.WHITE,A.J.STEIN,R.K.SUTO REVDAT 2 25-SEP-19 4MPU 1 JRNL REVDAT 1 18-MAR-15 4MPU 0 JRNL AUTH S.F.GIARDINA,D.S.WERNER,M.PINGLE,K.W.FOREMAN,D.E.BERGSTROM, JRNL AUTH 2 L.D.ARNOLD,F.BARANY JRNL TITL TARGET-DIRECTED SELF-ASSEMBLY OF HOMODIMERIC DRUGS AGAINST JRNL TITL 2 BETA-TRYPTASE. JRNL REF ACS MED.CHEM.LETT. V. 9 827 2018 JRNL REFN ISSN 1948-5875 JRNL PMID 30128075 JRNL DOI 10.1021/ACSMEDCHEMLETT.8B00204 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 67095 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3575 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4911 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2620 REMARK 3 BIN FREE R VALUE SET COUNT : 243 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3832 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 134 REMARK 3 SOLVENT ATOMS : 515 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 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): 0.095 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.097 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4458 ; 0.024 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4090 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6161 ; 2.900 ; 2.026 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9420 ; 3.646 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 514 ; 6.799 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 187 ;31.130 ;23.316 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 617 ;14.060 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;13.332 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 627 ; 0.149 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4982 ; 0.016 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1071 ; 0.046 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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: NULL REMARK 4 REMARK 4 4MPU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000082215. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70669 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.649 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0000 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG1500, 0.1 M SODIUM ACETATE, PH REMARK 280 4.6, 0.2 M AMMONIUM SULFATE, INDIVIDUAL MONOCRYSTALS REMARK 280 EQUILIBRATED WITH 30% PEG1500, 0.1 M MES, PH 5.5, 0.2 M AMMONIUM REMARK 280 SULFATE AND SOAKED 20 HOURS IN SAME SOLUTION SUPPLEMENTED WITH REMARK 280 COMPOUND 2A, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.01300 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 110.02600 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 110.02600 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 55.01300 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 11990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38110 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -127.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 55.01300 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: 5080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 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 LYS A 274 REMARK 465 PRO A 275 REMARK 465 LYS B 274 REMARK 465 PRO B 275 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 LYS B 132 CG CD CE NZ REMARK 470 LYS B 273 CG CD CE NZ 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 NZ LYS B 81 O HOH B 516 2.02 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 PHE A 58 CB - CG - CD1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 87 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG A 87 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP A 162 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ARG A 253 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ASP B 82 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ASP B 162 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TRP A 42 54.95 71.01 REMARK 500 ARG A 91 119.38 -39.79 REMARK 500 TYR A 96 -21.36 80.93 REMARK 500 TYR A 114 -48.81 -130.89 REMARK 500 PHE A 149 70.50 54.07 REMARK 500 SER A 243 -59.20 -122.60 REMARK 500 TYR B 96 -15.85 75.73 REMARK 500 TYR B 114 -44.86 -133.76 REMARK 500 SER B 243 -60.65 -124.38 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 PRO A 272 LYS A 273 146.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE X2A B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 B 306 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4MPV RELATED DB: PDB REMARK 900 RELATED ID: 4MPW RELATED DB: PDB REMARK 900 RELATED ID: 4MPX RELATED DB: PDB REMARK 900 RELATED ID: 4MQA RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 N132K IS A NATURAL VARIANT. DBREF 4MPU A 31 275 UNP Q15661 TRYB1_HUMAN 31 275 DBREF 4MPU B 31 275 UNP Q15661 TRYB1_HUMAN 31 275 SEQADV 4MPU LYS A 132 UNP Q15661 ASN 132 SEE REMARK 999 SEQADV 4MPU LYS B 132 UNP Q15661 ASN 132 SEE REMARK 999 SEQRES 1 A 245 ILE VAL GLY GLY GLN GLU ALA PRO ARG SER LYS TRP PRO SEQRES 2 A 245 TRP GLN VAL SER LEU ARG VAL HIS GLY PRO TYR TRP MET SEQRES 3 A 245 HIS PHE CYS GLY GLY SER LEU ILE HIS PRO GLN TRP VAL SEQRES 4 A 245 LEU THR ALA ALA HIS CYS VAL GLY PRO ASP VAL LYS ASP SEQRES 5 A 245 LEU ALA ALA LEU ARG VAL GLN LEU ARG GLU GLN HIS LEU SEQRES 6 A 245 TYR TYR GLN ASP GLN LEU LEU PRO VAL SER ARG ILE ILE SEQRES 7 A 245 VAL HIS PRO GLN PHE TYR THR ALA GLN ILE GLY ALA ASP SEQRES 8 A 245 ILE ALA LEU LEU GLU LEU GLU GLU PRO VAL LYS VAL SER SEQRES 9 A 245 SER HIS VAL HIS THR VAL THR LEU PRO PRO ALA SER GLU SEQRES 10 A 245 THR PHE PRO PRO GLY MET PRO CYS TRP VAL THR GLY TRP SEQRES 11 A 245 GLY ASP VAL ASP ASN ASP GLU ARG LEU PRO PRO PRO PHE SEQRES 12 A 245 PRO LEU LYS GLN VAL LYS VAL PRO ILE MET GLU ASN HIS SEQRES 13 A 245 ILE CYS ASP ALA LYS TYR HIS LEU GLY ALA TYR THR GLY SEQRES 14 A 245 ASP ASP VAL ARG ILE VAL ARG ASP ASP MET LEU CYS ALA SEQRES 15 A 245 GLY ASN THR ARG ARG ASP SER CYS GLN GLY ASP SER GLY SEQRES 16 A 245 GLY PRO LEU VAL CYS LYS VAL ASN GLY THR TRP LEU GLN SEQRES 17 A 245 ALA GLY VAL VAL SER TRP GLY GLU GLY CYS ALA GLN PRO SEQRES 18 A 245 ASN ARG PRO GLY ILE TYR THR ARG VAL THR TYR TYR LEU SEQRES 19 A 245 ASP TRP ILE HIS HIS TYR VAL PRO LYS LYS PRO SEQRES 1 B 245 ILE VAL GLY GLY GLN GLU ALA PRO ARG SER LYS TRP PRO SEQRES 2 B 245 TRP GLN VAL SER LEU ARG VAL HIS GLY PRO TYR TRP MET SEQRES 3 B 245 HIS PHE CYS GLY GLY SER LEU ILE HIS PRO GLN TRP VAL SEQRES 4 B 245 LEU THR ALA ALA HIS CYS VAL GLY PRO ASP VAL LYS ASP SEQRES 5 B 245 LEU ALA ALA LEU ARG VAL GLN LEU ARG GLU GLN HIS LEU SEQRES 6 B 245 TYR TYR GLN ASP GLN LEU LEU PRO VAL SER ARG ILE ILE SEQRES 7 B 245 VAL HIS PRO GLN PHE TYR THR ALA GLN ILE GLY ALA ASP SEQRES 8 B 245 ILE ALA LEU LEU GLU LEU GLU GLU PRO VAL LYS VAL SER SEQRES 9 B 245 SER HIS VAL HIS THR VAL THR LEU PRO PRO ALA SER GLU SEQRES 10 B 245 THR PHE PRO PRO GLY MET PRO CYS TRP VAL THR GLY TRP SEQRES 11 B 245 GLY ASP VAL ASP ASN ASP GLU ARG LEU PRO PRO PRO PHE SEQRES 12 B 245 PRO LEU LYS GLN VAL LYS VAL PRO ILE MET GLU ASN HIS SEQRES 13 B 245 ILE CYS ASP ALA LYS TYR HIS LEU GLY ALA TYR THR GLY SEQRES 14 B 245 ASP ASP VAL ARG ILE VAL ARG ASP ASP MET LEU CYS ALA SEQRES 15 B 245 GLY ASN THR ARG ARG ASP SER CYS GLN GLY ASP SER GLY SEQRES 16 B 245 GLY PRO LEU VAL CYS LYS VAL ASN GLY THR TRP LEU GLN SEQRES 17 B 245 ALA GLY VAL VAL SER TRP GLY GLU GLY CYS ALA GLN PRO SEQRES 18 B 245 ASN ARG PRO GLY ILE TYR THR ARG VAL THR TYR TYR LEU SEQRES 19 B 245 ASP TRP ILE HIS HIS TYR VAL PRO LYS LYS PRO HET MES A 301 12 HET SO4 A 302 5 HET PG4 A 303 13 HET X2A B 301 256 HET MES B 302 12 HET SO4 B 303 5 HET SO4 B 304 5 HET SO4 B 305 5 HET PG4 B 306 13 HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM SO4 SULFATE ION HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM X2A (6S,8R)-N,N'-BIS[3-({4-[3-(AMINOMETHYL) HETNAM 2 X2A PHENYL]PIPERIDIN-1-YL}CARBONYL)PHENYL]-8-HYDROXY-6-(1- HETNAM 3 X2A HYDROXYCYCLOBUTYL)-5,7-DIOXASPIRO[3.4]OCTANE-6,8- HETNAM 4 X2A DICARBOXAMIDE FORMUL 3 MES 2(C6 H13 N O4 S) FORMUL 4 SO4 4(O4 S 2-) FORMUL 5 PG4 2(C8 H18 O5) FORMUL 6 X2A C50 H58 N6 O8 FORMUL 12 HOH *515(H2 O) HELIX 1 1 ALA A 72 GLY A 77 1 6 HELIX 2 2 ASP A 82 ALA A 84 5 3 HELIX 3 3 GLU A 184 LEU A 194 1 11 HELIX 4 4 TYR A 263 HIS A 269 1 7 HELIX 5 5 ALA B 72 GLY B 77 1 6 HELIX 6 6 ASP B 82 ALA B 84 5 3 HELIX 7 7 GLU B 184 LEU B 194 1 11 HELIX 8 8 TYR B 263 HIS B 269 1 7 SHEET 1 A 8 GLN A 35 GLU A 36 0 SHEET 2 A 8 LYS A 176 LYS A 179 -1 O GLN A 177 N GLN A 35 SHEET 3 A 8 CYS A 155 GLY A 159 -1 N VAL A 157 O VAL A 178 SHEET 4 A 8 PRO A 227 VAL A 232 -1 O VAL A 229 N TRP A 156 SHEET 5 A 8 THR A 235 TRP A 244 -1 O LEU A 237 N CYS A 230 SHEET 6 A 8 GLY A 255 ARG A 259 -1 O ILE A 256 N TRP A 244 SHEET 7 A 8 MET A 209 ALA A 212 -1 N LEU A 210 O TYR A 257 SHEET 8 A 8 ILE A 182 MET A 183 -1 N MET A 183 O CYS A 211 SHEET 1 B 7 GLN A 45 VAL A 50 0 SHEET 2 B 7 MET A 56 HIS A 65 -1 O CYS A 59 N LEU A 48 SHEET 3 B 7 TRP A 68 THR A 71 -1 O LEU A 70 N SER A 62 SHEET 4 B 7 ALA A 123 LEU A 127 -1 O LEU A 125 N VAL A 69 SHEET 5 B 7 LEU A 102 VAL A 109 -1 N ILE A 108 O LEU A 124 SHEET 6 B 7 LEU A 86 GLN A 89 -1 N VAL A 88 O LEU A 102 SHEET 7 B 7 GLN A 45 VAL A 50 -1 N ARG A 49 O ARG A 87 SHEET 1 C 8 GLN B 35 GLU B 36 0 SHEET 2 C 8 LYS B 176 MET B 183 -1 O GLN B 177 N GLN B 35 SHEET 3 C 8 MET B 209 ALA B 212 -1 O CYS B 211 N MET B 183 SHEET 4 C 8 GLY B 255 ARG B 259 -1 O TYR B 257 N LEU B 210 SHEET 5 C 8 THR B 235 TRP B 244 -1 N TRP B 244 O ILE B 256 SHEET 6 C 8 PRO B 227 VAL B 232 -1 N CYS B 230 O LEU B 237 SHEET 7 C 8 PRO B 154 GLY B 159 -1 N TRP B 156 O VAL B 229 SHEET 8 C 8 LYS B 176 MET B 183 -1 O VAL B 178 N VAL B 157 SHEET 1 D 7 GLN B 45 VAL B 50 0 SHEET 2 D 7 MET B 56 HIS B 65 -1 O CYS B 59 N LEU B 48 SHEET 3 D 7 TRP B 68 THR B 71 -1 O LEU B 70 N SER B 62 SHEET 4 D 7 ALA B 123 LEU B 127 -1 O LEU B 125 N VAL B 69 SHEET 5 D 7 LEU B 102 VAL B 109 -1 N SER B 105 O GLU B 126 SHEET 6 D 7 LEU B 86 GLN B 89 -1 N VAL B 88 O LEU B 102 SHEET 7 D 7 GLN B 45 VAL B 50 -1 N ARG B 49 O ARG B 87 SSBOND 1 CYS A 59 CYS A 75 1555 1555 2.08 SSBOND 2 CYS A 155 CYS A 230 1555 1555 2.01 SSBOND 3 CYS A 188 CYS A 211 1555 1555 2.06 SSBOND 4 CYS A 220 CYS A 248 1555 1555 2.15 SSBOND 5 CYS B 59 CYS B 75 1555 1555 2.12 SSBOND 6 CYS B 155 CYS B 230 1555 1555 2.00 SSBOND 7 CYS B 188 CYS B 211 1555 1555 2.05 SSBOND 8 CYS B 220 CYS B 248 1555 1555 2.07 CISPEP 1 GLY A 77 PRO A 78 0 1.14 CISPEP 2 PRO A 171 PRO A 172 0 8.76 CISPEP 3 GLY B 77 PRO B 78 0 9.72 CISPEP 4 PRO B 171 PRO B 172 0 5.73 SITE 1 AC1 15 PRO A 103 GLN A 112 ILE A 118 GLY A 119 SITE 2 AC1 15 ASP A 207 ASP A 208 TYR A 262 TYR A 263 SITE 3 AC1 15 HOH A 430 HOH A 431 HOH A 471 HOH A 507 SITE 4 AC1 15 HOH A 521 HOH A 637 HOH A 646 SITE 1 AC2 4 HIS A 74 GLN A 221 GLY A 222 SER A 224 SITE 1 AC3 8 VAL A 50 PHE A 58 VAL A 80 LYS A 81 SITE 2 AC3 8 ASP A 82 ALA A 85 HOH A 517 HOH A 525 SITE 1 AC4 24 THR A 115 GLN A 117 ASP A 218 SER A 219 SITE 2 AC4 24 CYS A 220 GLN A 221 SER A 224 TRP A 244 SITE 3 AC4 24 GLY A 245 GLU A 246 GLY A 247 HOH A 424 SITE 4 AC4 24 HOH A 532 GLN B 117 ASP B 218 SER B 219 SITE 5 AC4 24 CYS B 220 SER B 224 TRP B 244 GLY B 245 SITE 6 AC4 24 GLU B 246 GLY B 247 HOH B 432 HOH B 513 SITE 1 AC5 9 LYS A 132 SER A 134 HIS A 136 HOH A 417 SITE 2 AC5 9 ARG B 203 ARG B 206 ASP B 207 SO4 B 305 SITE 3 AC5 9 HOH B 474 SITE 1 AC6 5 ASN B 214 THR B 215 ARG B 216 HOH B 556 SITE 2 AC6 5 HOH B 624 SITE 1 AC7 6 HIS B 74 GLN B 221 GLY B 222 SER B 224 SITE 2 AC7 6 HOH B 555 HOH B 604 SITE 1 AC8 6 HIS A 136 HIS B 186 ARG B 203 MES B 302 SITE 2 AC8 6 HOH B 426 HOH B 537 SITE 1 AC9 6 VAL B 50 LYS B 81 ASP B 82 ALA B 85 SITE 2 AC9 6 HOH B 484 HOH B 572 CRYST1 78.157 78.157 165.039 90.00 90.00 120.00 P 31 2 1 12 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 0.012795 0.007387 0.000000 0.00000 SCALE2 0.000000 0.014774 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006059 0.00000