PDB Short entry for 4R0I HEADER HYDROLASE 31-JUL-14 4R0I TITLE CRYSTAL STRUCTURE OF MATRIPTASE IN COMPLEX WITH INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUPPRESSOR OF TUMORIGENICITY 14 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 615-855; COMPND 5 SYNONYM: MATRIPTASE, MEMBRANE-TYPE SERINE PROTEASE 1, MT-SP1, COMPND 6 PROSTAMIN, SERINE PROTEASE 14, SERINE PROTEASE TADG-15, TUMOR- COMPND 7 ASSOCIATED DIFFERENTIALLY-EXPRESSED GENE 15 PROTEIN; COMPND 8 EC: 3.4.21.109; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: SERINE PROTEASE, MATRIPTASE, MEMBRANE-TYPE SERINE PROTEASE COMPND 12 1, MT-SP1; COMPND 13 CHAIN: B; COMPND 14 FRAGMENT: UNP RESIDUES 604-607; COMPND 15 SYNONYM: MATRIPTASE, MEMBRANE-TYPE SERINE PROTEASE 1, MT-SP1, COMPND 16 PROSTAMIN, SERINE PROTEASE 14, SERINE PROTEASE TADG-15, TUMOR- COMPND 17 ASSOCIATED DIFFERENTIALLY-EXPRESSED GENE 15 PROTEIN; COMPND 18 EC: 3.4.21.109; COMPND 19 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: ST14, PRSS14, SNC19, TADG15; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET28A; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: ST14, PRSS14, SNC19, TADG15; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PET28A KEYWDS HYDROLASE, MATRIPTASE, COMPLEX STRUCTURE, TRYPSIN-LIKE SERINE KEYWDS 2 PROTEINASE FOLD, PROTEASE, SMALL MOLECULE INHIBITOR EXPDTA X-RAY DIFFRACTION AUTHOR K.N.RAO,K.N.ASHOK,G.CHAKSHUSMATHI,G.RAJEEV,H.SUBRAMANYA REVDAT 2 08-NOV-23 4R0I 1 REMARK REVDAT 1 11-FEB-15 4R0I 0 JRNL AUTH R.GOSWAMI,G.WOHLFAHRT,S.MUKHERJEE,C.GHADIYARAM,J.NAGARAJ, JRNL AUTH 2 L.K.SATYAM,K.SUBBARAO,S.GOPINATH,N.R.KRISHNAMURTHY, JRNL AUTH 3 H.S.SUBRAMANYA,M.RAMACHANDRA JRNL TITL DISCOVERY OF O-(3-CARBAMIMIDOYLPHENYL)-L-SERINE AMIDES AS JRNL TITL 2 MATRIPTASE INHIBITORS USING A FRAGMENT-LINKING APPROACH JRNL REF BIOORG.MED.CHEM.LETT. V. 25 616 2015 JRNL REFN ISSN 0960-894X JRNL PMID 25556099 JRNL DOI 10.1016/J.BMCL.2014.12.008 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 17840 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 960 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1221 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.2210 REMARK 3 BIN FREE R VALUE SET COUNT : 75 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1886 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 83 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.01000 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): 0.216 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.200 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.141 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.705 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.916 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.871 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1952 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 12 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2630 ; 1.864 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): 26 ; 0.750 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 227 ; 7.312 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 83 ;34.275 ;23.614 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 290 ;14.592 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;18.100 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 280 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1459 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 8 ; 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): 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4R0I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-AUG-14. REMARK 100 THE DEPOSITION ID IS D_1000086745. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.3 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 RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18801 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 2.500 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : 0.05700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.23900 REMARK 200 R SYM FOR SHELL (I) : 0.23900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1EAX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS PH 8.3 0.2M MGCL2, 20% REMARK 280 PEG8000 , VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z REMARK 290 7555 -X+1/2,Y+1/2,-Z REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 33.42100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 70.22400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.42100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 70.22400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.42100 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 70.22400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.42100 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 70.22400 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1018 LIES ON A SPECIAL POSITION. 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 A 60C 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 LEU A 155 O HOH A 1063 1.92 REMARK 500 O PRO A 78 O HOH A 1056 1.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ASP A 60B C ARG A 60C N 0.195 REMARK 500 GLY A 60D C PHE A 60E N 0.227 REMARK 500 PHE A 60E C ARG A 60F N 0.238 REMARK 500 ARG A 60F C TYR A 60G N 0.156 REMARK 500 TYR A 60G C SER A 60H N 0.235 REMARK 500 SER A 77 C ALA A 77A N 0.218 REMARK 500 GLN A 145 CD GLN A 145 NE2 -0.170 REMARK 500 GLY A 184 C PHE A 184A N 0.224 REMARK 500 SER A 186 C GLY A 186A N 0.172 REMARK 500 ALA A 204 C ASP A 204A N 0.245 REMARK 500 ALA A 221 C GLN A 221A N 0.185 REMARK 500 GLU A 240 CB GLU A 240 CG -0.122 REMARK 500 GLU A 240 CG GLU A 240 CD -0.134 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 24 CB - CG - CD ANGL. DEV. = 24.2 DEGREES REMARK 500 GLU A 24 CG - CD - OE1 ANGL. DEV. = 19.6 DEGREES REMARK 500 GLU A 24 CG - CD - OE2 ANGL. DEV. = -19.0 DEGREES REMARK 500 LEU A 36 CB - CG - CD2 ANGL. DEV. = 16.9 DEGREES REMARK 500 ASP A 60B C - N - CA ANGL. DEV. = -15.1 DEGREES REMARK 500 TYR A 60G CA - C - N ANGL. DEV. = 15.5 DEGREES REMARK 500 TYR A 60G O - C - N ANGL. DEV. = -17.5 DEGREES REMARK 500 SER A 77 O - C - N ANGL. DEV. = -11.8 DEGREES REMARK 500 PRO A 92 C - N - CA ANGL. DEV. = -12.2 DEGREES REMARK 500 PRO A 92 C - N - CD ANGL. DEV. = 15.2 DEGREES REMARK 500 ILE A 136 CG1 - CB - CG2 ANGL. DEV. = -13.8 DEGREES REMARK 500 GLN A 174 OE1 - CD - NE2 ANGL. DEV. = -22.3 DEGREES REMARK 500 GLN A 174 CG - CD - NE2 ANGL. DEV. = 23.4 DEGREES REMARK 500 ALA A 204 O - C - N ANGL. DEV. = -13.8 DEGREES REMARK 500 ARG A 206 NE - CZ - NH2 ANGL. DEV. = -3.1 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 PHE A 60E 127.05 -171.57 REMARK 500 GLU A 203 -169.31 -105.76 REMARK 500 SER A 214 -70.41 -121.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 60D -10.34 REMARK 500 ALA A 204 13.95 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 3KM A 900 DBREF 4R0I A 16 244 UNP Q9Y5Y6 ST14_HUMAN 615 855 DBREF 4R0I B 5 8 UNP Q9Y5Y6 ST14_HUMAN 604 607 SEQRES 1 A 241 VAL VAL GLY GLY THR ASP ALA ASP GLU GLY GLU TRP PRO SEQRES 2 A 241 TRP GLN VAL SER LEU HIS ALA LEU GLY GLN GLY HIS ILE SEQRES 3 A 241 CYS GLY ALA SER LEU ILE SER PRO ASN TRP LEU VAL SER SEQRES 4 A 241 ALA ALA HIS CYS TYR ILE ASP ASP ARG GLY PHE ARG TYR SEQRES 5 A 241 SER ASP PRO THR GLN TRP THR ALA PHE LEU GLY LEU HIS SEQRES 6 A 241 ASP GLN SER GLN ARG SER ALA PRO GLY VAL GLN GLU ARG SEQRES 7 A 241 ARG LEU LYS ARG ILE ILE SER HIS PRO PHE PHE ASN ASP SEQRES 8 A 241 PHE THR PHE ASP TYR ASP ILE ALA LEU LEU GLU LEU GLU SEQRES 9 A 241 LYS PRO ALA GLU TYR SER SER MET VAL ARG PRO ILE CYS SEQRES 10 A 241 LEU PRO ASP ALA SER HIS VAL PHE PRO ALA GLY LYS ALA SEQRES 11 A 241 ILE TRP VAL THR GLY TRP GLY HIS THR GLN TYR GLY GLY SEQRES 12 A 241 THR GLY ALA LEU ILE LEU GLN LYS GLY GLU ILE ARG VAL SEQRES 13 A 241 ILE ASN GLN THR THR CYS GLU ASN LEU LEU PRO GLN GLN SEQRES 14 A 241 ILE THR PRO ARG MET MET CYS VAL GLY PHE LEU SER GLY SEQRES 15 A 241 GLY VAL ASP SER CYS GLN GLY ASP SER GLY GLY PRO LEU SEQRES 16 A 241 SER SER VAL GLU ALA ASP GLY ARG ILE PHE GLN ALA GLY SEQRES 17 A 241 VAL VAL SER TRP GLY ASP GLY CYS ALA GLN ARG ASN LYS SEQRES 18 A 241 PRO GLY VAL TYR THR ARG LEU PRO LEU PHE ARG ASP TRP SEQRES 19 A 241 ILE LYS GLU ASN THR GLY VAL SEQRES 1 B 4 CYS GLY LEU ARG HET 3KM A 900 37 HETNAM 3KM 3-({(2S)-3-[4-(2-AMINOETHYL)PIPERIDIN-1-YL]-2- HETNAM 2 3KM [(NAPHTHALEN-2-YLSULFONYL)AMINO]-3-OXOPROPYL}OXY) HETNAM 3 3KM BENZENECARBOXIMIDAMIDE FORMUL 3 3KM C27 H33 N5 O4 S FORMUL 4 HOH *83(H2 O) HELIX 1 1 ALA A 55 ILE A 60 5 6 HELIX 2 2 ASP A 60I THR A 62 5 3 HELIX 3 3 ASN A 164 LEU A 172 1 9 HELIX 4 4 LEU A 231 LEU A 233 5 3 HELIX 5 5 PHE A 234 GLY A 243 1 10 SHEET 1 A 8 THR A 20 ASP A 21 0 SHEET 2 A 8 GLN A 156 VAL A 162 -1 O LYS A 157 N THR A 20 SHEET 3 A 8 MET A 180 GLY A 184 -1 O GLY A 184 N ARG A 161 SHEET 4 A 8 GLY A 226 THR A 229 -1 O TYR A 228 N MET A 181 SHEET 5 A 8 ILE A 207 TRP A 215 -1 N TRP A 215 O VAL A 227 SHEET 6 A 8 PRO A 198 VAL A 202 -1 N SER A 201 O PHE A 208 SHEET 7 A 8 ALA A 135 GLY A 140 -1 N TRP A 137 O SER A 200 SHEET 8 A 8 GLN A 156 VAL A 162 -1 O ILE A 160 N ILE A 136 SHEET 1 B 7 GLN A 30 ALA A 35 0 SHEET 2 B 7 GLY A 39 LEU A 46 -1 O CYS A 42 N LEU A 33 SHEET 3 B 7 TRP A 51 SER A 54 -1 O VAL A 53 N SER A 45 SHEET 4 B 7 ALA A 104 LEU A 108 -1 O LEU A 106 N LEU A 52 SHEET 5 B 7 GLN A 81 SER A 90 -1 N ILE A 89 O LEU A 105 SHEET 6 B 7 TRP A 64 LEU A 68 -1 N ALA A 66 O ARG A 83 SHEET 7 B 7 GLN A 30 ALA A 35 -1 N HIS A 34 O THR A 65 SSBOND 1 CYS A 42 CYS A 58 1555 1555 2.05 SSBOND 2 CYS A 122 CYS B 5 1555 1555 2.00 SSBOND 3 CYS A 168 CYS A 182 1555 1555 2.03 SSBOND 4 CYS A 191 CYS A 220 1555 1555 2.06 SITE 1 AC1 14 PHE A 99 ASP A 189 SER A 190 CYS A 191 SITE 2 AC1 14 GLN A 192 SER A 195 SER A 214 TRP A 215 SITE 3 AC1 14 GLY A 216 ASP A 217 GLY A 219 CYS A 220 SITE 4 AC1 14 GLY A 226 HOH A1074 CRYST1 66.842 140.448 51.899 90.00 90.00 90.00 C 2 2 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 0.014961 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007120 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019268 0.00000