HEADER HYDROLASE/HYDROLASE INHIBITOR 26-JUL-95 1LMW TITLE LMW U-PA STRUCTURE COMPLEXED WITH EGRCMK (GLU-GLY-ARG CHLOROMETHYL TITLE 2 KETONE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: UROKINASE-TYPE PLASMINOGEN ACTIVATOR; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: LMW U-PA; COMPND 5 EC: 3.4.21.73; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: UROKINASE-TYPE PLASMINOGEN ACTIVATOR; COMPND 9 CHAIN: B, D; COMPND 10 SYNONYM: LMW U-PA; COMPND 11 EC: 3.4.21.73; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FIBRINOLYSIS, TRYPSIN-LIKE SERINE PROTEASE, SERINE PROTEASE, KEYWDS 2 HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.S.SPRAGGON,C.PHILLIPS,U.K.NOWAK,C.P.PONTING,D.SAUNDERS,C.M.DOBSON, AUTHOR 2 D.I.STUART,E.Y.JONES REVDAT 4 13-JUL-11 1LMW 1 VERSN REVDAT 3 24-FEB-09 1LMW 1 VERSN REVDAT 2 01-APR-03 1LMW 1 JRNL REVDAT 1 29-JAN-96 1LMW 0 JRNL AUTH G.SPRAGGON,C.PHILLIPS,U.K.NOWAK,C.P.PONTING,D.SAUNDERS, JRNL AUTH 2 C.M.DOBSON,D.I.STUART,E.Y.JONES JRNL TITL THE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF HUMAN JRNL TITL 2 UROKINASE-TYPE PLASMINOGEN ACTIVATOR. JRNL REF STRUCTURE V. 3 681 1995 JRNL REFN ISSN 0969-2126 JRNL PMID 8591045 JRNL DOI 10.1016/S0969-2126(01)00203-9 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 15684 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.224 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4043 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE 23 RESIDUES OF THE SHORT A CHAIN IN EACH SUBUNIT ARE REMARK 3 HIGHLY MOBILE. RESIDUES 147 - 152 (1 - 6 AS CHYMOTRYPSIN REMARK 3 EQUIVALENTS) ARE MODELED IN DENSITY, 153 AND 154 FITTED REMARK 3 TENTATIVELY IN WEAK DENSITY WHILE THE REMAINDER ARE ABSENT. REMARK 4 REMARK 4 1LMW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 1994 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : FUJI REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15684 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 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 (%) : 70.0 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 88.35000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 51.00890 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 18.13333 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 88.35000 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 51.00890 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 18.13333 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 88.35000 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 51.00890 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 18.13333 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 102.01779 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 36.26667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 102.01779 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 36.26667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 102.01779 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 36.26667 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12080 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 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: 980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 400 REMARK 400 COMPOUND REMARK 400 THE STRUCTURE IS THAT OF THE ACTIVE, TWO CHAIN FORM OF REMARK 400 THE ENZYME. 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 -11 REMARK 465 PRO A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 PRO A -7 REMARK 465 PRO A -6 REMARK 465 GLU A -5 REMARK 465 GLU A -4 REMARK 465 LEU A -3 REMARK 465 LYS A -2 REMARK 465 PHE A -1 REMARK 465 GLN A 0 REMARK 465 PHE A 10 REMARK 465 LYS A 11 REMARK 465 ASN B 246 REMARK 465 GLY B 247 REMARK 465 LEU B 248 REMARK 465 ALA B 249 REMARK 465 LEU B 250 REMARK 465 LYS C -11 REMARK 465 PRO C -10 REMARK 465 SER C -9 REMARK 465 SER C -8 REMARK 465 PRO C -7 REMARK 465 PRO C -6 REMARK 465 GLU C -5 REMARK 465 GLU C -4 REMARK 465 LEU C -3 REMARK 465 LYS C -2 REMARK 465 PHE C -1 REMARK 465 GLN C 0 REMARK 465 ARG C 9 REMARK 465 PHE C 10 REMARK 465 LYS C 11 REMARK 465 ASN D 246 REMARK 465 GLY D 247 REMARK 465 LEU D 248 REMARK 465 ALA D 249 REMARK 465 LEU D 250 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 9 CA C O CB CG CD NE REMARK 470 ARG A 9 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 OG SER B 195 O2 0GJ B 1 1.95 REMARK 500 OG SER D 195 O2 0GJ D 1 2.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH2 ARG D 206 OE2 GLU D 110B 9664 1.72 REMARK 500 NE ARG D 166 O TYR B 127 8754 1.76 REMARK 500 CB TYR B 127 NH2 ARG D 166 6675 1.96 REMARK 500 CZ ARG D 166 CB TYR B 127 8754 1.97 REMARK 500 NH2 ARG D 166 CA TYR B 127 8754 1.98 REMARK 500 CB TYR B 127 NE ARG D 166 6675 1.98 REMARK 500 CD ARG D 166 O TYR B 127 8754 2.11 REMARK 500 CD2 HIS B 37 NH2 ARG B 116 3675 2.17 REMARK 500 NE ARG D 166 C TYR B 127 8754 2.18 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 GLY B 37C N - CA - C ANGL. DEV. = 15.5 DEGREES REMARK 500 PRO B 60C C - N - CA ANGL. DEV. = 10.4 DEGREES REMARK 500 LEU B 150 CA - CB - CG ANGL. DEV. = 14.0 DEGREES REMARK 500 PRO B 198 N - CA - C ANGL. DEV. = 16.3 DEGREES REMARK 500 PRO B 198 C - N - CA ANGL. DEV. = 18.4 DEGREES REMARK 500 PRO B 198 C - N - CD ANGL. DEV. = -16.0 DEGREES REMARK 500 LEU B 199 N - CA - C ANGL. DEV. = -20.2 DEGREES REMARK 500 PRO D 60C C - N - CA ANGL. DEV. = 12.0 DEGREES REMARK 500 LEU D 199 N - CA - C ANGL. DEV. = -18.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 THR A 5 159.91 -46.29 REMARK 500 GLU B 20 76.55 -177.39 REMARK 500 THR B 22 -156.87 -132.40 REMARK 500 ILE B 24 16.40 -66.38 REMARK 500 PRO B 28 -12.05 -45.02 REMARK 500 SER B 37D -167.30 -64.81 REMARK 500 VAL B 41 -82.42 -83.99 REMARK 500 MET B 47 -50.90 -124.98 REMARK 500 SER B 54 -137.79 -115.69 REMARK 500 HIS B 57 4.65 -63.05 REMARK 500 ILE B 60 -86.33 -57.12 REMARK 500 PRO B 60C 23.77 -71.90 REMARK 500 ASP B 63 34.85 -91.34 REMARK 500 LEU B 73 -82.97 -57.17 REMARK 500 ASN B 74 47.96 -91.65 REMARK 500 ASN B 87 109.02 -172.38 REMARK 500 LEU B 90 -168.62 -105.34 REMARK 500 LYS B 92 11.97 -56.91 REMARK 500 ASP B 97 -156.22 -112.59 REMARK 500 THR B 97A 20.31 -72.58 REMARK 500 LEU B 97B -59.29 -165.27 REMARK 500 ASP B 102 92.37 -67.14 REMARK 500 GLN B 113 58.32 -113.71 REMARK 500 PRO B 114 117.49 -23.73 REMARK 500 ARG B 116 -53.38 -21.68 REMARK 500 ILE B 118 91.96 -68.63 REMARK 500 SER B 125 -159.44 -76.52 REMARK 500 TYR B 127 39.96 19.12 REMARK 500 PRO B 130 177.91 -52.11 REMARK 500 PHE B 141 30.33 -80.77 REMARK 500 ASN B 145 132.32 -172.74 REMARK 500 ASP B 148 164.14 -49.55 REMARK 500 TYR B 149 -3.19 -140.12 REMARK 500 PRO B 152 144.79 -30.55 REMARK 500 LEU B 155 142.37 -37.53 REMARK 500 MET B 157 149.96 -170.43 REMARK 500 TYR B 171 -126.92 -104.79 REMARK 500 PRO B 185A -54.68 -25.80 REMARK 500 GLN B 185B 123.34 177.78 REMARK 500 TRP B 186 7.03 58.78 REMARK 500 ASP B 189 176.90 179.39 REMARK 500 SER B 190 -156.74 -99.21 REMARK 500 CYS B 191 -172.90 178.58 REMARK 500 SER B 195 152.55 -41.05 REMARK 500 PRO B 198 118.83 -24.36 REMARK 500 GLN B 204 14.67 56.93 REMARK 500 SER B 214 -47.89 -136.47 REMARK 500 ALA B 221 95.39 53.00 REMARK 500 PRO B 225 -169.18 -61.11 REMARK 500 LYS B 243 -65.42 -91.39 REMARK 500 REMARK 500 THIS ENTRY HAS 91 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 HIS D 57 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 MET D 126 24.8 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE UNBOUND FORM OF THE INHIBITOR IS GLU-GLY-ARG- REMARK 600 CHLOROMETHYLKETONE. UPON REACTION WITH PROTEIN IT FORMS TWO REMARK 600 COVALENT BONDS: 1) A COVALENT BOND TO OG SER 195 FORMING A REMARK 600 HEMIKETAL AR7 AND 2) A COVALENT BOND TO NE2 OF HIS 57 REMARK 630 REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: L-ALPHA-GLUTAMYL-N-{(1S)-4-{[AMINO(IMINIO)METHYL] REMARK 630 AMINO}-1-[(1S)-2-CHLORO-1-HYDROXYETHYL]BUTYL}GLYCINAMIDE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 0GJ B 1 REMARK 630 0GJ D 1 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: GLU GLY AR7 0QE REMARK 630 DETAILS: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0GJ B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0GJ D 1 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE RESIDUES IN THE STRUCTURE ARE NUMBERED, AS IS REMARK 999 CONVENTIONAL WITH SERINE PROTEASES, AS TOPOLOGICAL REMARK 999 EQUIVALENTS TO CHYMOTRYPSIN. DBREF 1LMW A -11 11 UNP P00749 UROK_HUMAN 156 178 DBREF 1LMW B 16 250 UNP P00749 UROK_HUMAN 179 431 DBREF 1LMW C -11 11 UNP P00749 UROK_HUMAN 156 178 DBREF 1LMW D 16 250 UNP P00749 UROK_HUMAN 179 431 SEQRES 1 A 23 LYS PRO SER SER PRO PRO GLU GLU LEU LYS PHE GLN CYS SEQRES 2 A 23 GLY GLN LYS THR LEU ARG PRO ARG PHE LYS SEQRES 1 B 253 ILE ILE GLY GLY GLU PHE THR THR ILE GLU ASN GLN PRO SEQRES 2 B 253 TRP PHE ALA ALA ILE TYR ARG ARG HIS ARG GLY GLY SER SEQRES 3 B 253 VAL THR TYR VAL CYS GLY GLY SER LEU MET SER PRO CYS SEQRES 4 B 253 TRP VAL ILE SER ALA THR HIS CYS PHE ILE ASP TYR PRO SEQRES 5 B 253 LYS LYS GLU ASP TYR ILE VAL TYR LEU GLY ARG SER ARG SEQRES 6 B 253 LEU ASN SER ASN THR GLN GLY GLU MET LYS PHE GLU VAL SEQRES 7 B 253 GLU ASN LEU ILE LEU HIS LYS ASP TYR SER ALA ASP THR SEQRES 8 B 253 LEU ALA HIS HIS ASN ASP ILE ALA LEU LEU LYS ILE ARG SEQRES 9 B 253 SER LYS GLU GLY ARG CYS ALA GLN PRO SER ARG THR ILE SEQRES 10 B 253 GLN THR ILE CYS LEU PRO SER MET TYR ASN ASP PRO GLN SEQRES 11 B 253 PHE GLY THR SER CYS GLU ILE THR GLY PHE GLY LYS GLU SEQRES 12 B 253 ASN SER THR ASP TYR LEU TYR PRO GLU GLN LEU LYS MET SEQRES 13 B 253 THR VAL VAL LYS LEU ILE SER HIS ARG GLU CYS GLN GLN SEQRES 14 B 253 PRO HIS TYR TYR GLY SER GLU VAL THR THR LYS MET LEU SEQRES 15 B 253 CYS ALA ALA ASP PRO GLN TRP LYS THR ASP SER CYS GLN SEQRES 16 B 253 GLY ASP SER GLY GLY PRO LEU VAL CYS SER LEU GLN GLY SEQRES 17 B 253 ARG MET THR LEU THR GLY ILE VAL SER TRP GLY ARG GLY SEQRES 18 B 253 CYS ALA LEU LYS ASP LYS PRO GLY VAL TYR THR ARG VAL SEQRES 19 B 253 SER HIS PHE LEU PRO TRP ILE ARG SER HIS THR LYS GLU SEQRES 20 B 253 GLU ASN GLY LEU ALA LEU SEQRES 1 C 23 LYS PRO SER SER PRO PRO GLU GLU LEU LYS PHE GLN CYS SEQRES 2 C 23 GLY GLN LYS THR LEU ARG PRO ARG PHE LYS SEQRES 1 D 253 ILE ILE GLY GLY GLU PHE THR THR ILE GLU ASN GLN PRO SEQRES 2 D 253 TRP PHE ALA ALA ILE TYR ARG ARG HIS ARG GLY GLY SER SEQRES 3 D 253 VAL THR TYR VAL CYS GLY GLY SER LEU MET SER PRO CYS SEQRES 4 D 253 TRP VAL ILE SER ALA THR HIS CYS PHE ILE ASP TYR PRO SEQRES 5 D 253 LYS LYS GLU ASP TYR ILE VAL TYR LEU GLY ARG SER ARG SEQRES 6 D 253 LEU ASN SER ASN THR GLN GLY GLU MET LYS PHE GLU VAL SEQRES 7 D 253 GLU ASN LEU ILE LEU HIS LYS ASP TYR SER ALA ASP THR SEQRES 8 D 253 LEU ALA HIS HIS ASN ASP ILE ALA LEU LEU LYS ILE ARG SEQRES 9 D 253 SER LYS GLU GLY ARG CYS ALA GLN PRO SER ARG THR ILE SEQRES 10 D 253 GLN THR ILE CYS LEU PRO SER MET TYR ASN ASP PRO GLN SEQRES 11 D 253 PHE GLY THR SER CYS GLU ILE THR GLY PHE GLY LYS GLU SEQRES 12 D 253 ASN SER THR ASP TYR LEU TYR PRO GLU GLN LEU LYS MET SEQRES 13 D 253 THR VAL VAL LYS LEU ILE SER HIS ARG GLU CYS GLN GLN SEQRES 14 D 253 PRO HIS TYR TYR GLY SER GLU VAL THR THR LYS MET LEU SEQRES 15 D 253 CYS ALA ALA ASP PRO GLN TRP LYS THR ASP SER CYS GLN SEQRES 16 D 253 GLY ASP SER GLY GLY PRO LEU VAL CYS SER LEU GLN GLY SEQRES 17 D 253 ARG MET THR LEU THR GLY ILE VAL SER TRP GLY ARG GLY SEQRES 18 D 253 CYS ALA LEU LYS ASP LYS PRO GLY VAL TYR THR ARG VAL SEQRES 19 D 253 SER HIS PHE LEU PRO TRP ILE ARG SER HIS THR LYS GLU SEQRES 20 D 253 GLU ASN GLY LEU ALA LEU HET 0GJ B 1 25 HET 0GJ D 1 25 HETNAM 0GJ L-ALPHA-GLUTAMYL-N-{(1S)-4-{[AMINO(IMINIO) HETNAM 2 0GJ METHYL]AMINO}-1-[(1S)-2-CHLORO-1- HETNAM 3 0GJ HYDROXYETHYL]BUTYL}GLYCINAMIDE FORMUL 5 0GJ 2(C14 H28 CL N6 O5 1+) HELIX 1 1 THR B 56 CYS B 58 5 3 HELIX 2 2 HIS B 165 CYS B 168 1 4 HELIX 3 3 GLY B 173 GLU B 175 5 3 HELIX 4 4 VAL B 231 THR B 242 5 12 HELIX 5 6 VAL B 231 HIS B 241 1 11 SHEET 1 A 6 TRP B 51 SER B 54 0 SHEET 2 A 6 ALA B 104 SER B 110 -1 N LEU B 106 O VAL B 52 SHEET 3 A 6 MET B 81 ILE B 89 -1 N ILE B 89 O LEU B 105 SHEET 4 A 6 TYR B 64 LEU B 68 -1 N LEU B 68 O MET B 81 SHEET 5 A 6 ALA B 31 ARG B 36 -1 N TYR B 34 O ILE B 65 SHEET 6 A 6 VAL B 38 CYS B 42 -1 N CYS B 42 O ILE B 33 SHEET 1 B 4 SER B 135 GLY B 140 0 SHEET 2 B 4 LYS B 156 ILE B 163 -1 N VAL B 160 O CYS B 136 SHEET 3 B 4 MET B 180 ALA B 184 -1 N ALA B 184 O LYS B 161 SHEET 4 B 4 GLY B 226 THR B 229 -1 N TYR B 228 O LEU B 181 SHEET 1 C 6 VAL D 38 TYR D 40 0 SHEET 2 C 6 ALA D 31 ARG D 36 -1 N ARG D 35 O THR D 39 SHEET 3 C 6 TYR D 64 LEU D 68 -1 N TYR D 67 O ALA D 32 SHEET 4 C 6 MET D 81 LEU D 88 -1 N PHE D 83 O VAL D 66 SHEET 5 C 6 ALA D 104 SER D 110 -1 N ARG D 109 O GLU D 84 SHEET 6 C 6 TRP D 51 SER D 54 -1 N SER D 54 O ALA D 104 SHEET 1 D 6 SER D 135 GLY D 140 0 SHEET 2 D 6 LYS D 156 ILE D 163 -1 N VAL D 160 O CYS D 136 SHEET 3 D 6 MET D 180 ALA D 184 -1 N ALA D 184 O LYS D 161 SHEET 4 D 6 GLY D 226 ARG D 230 -1 N TYR D 228 O LEU D 181 SHEET 5 D 6 ARG D 206 TRP D 215 -1 N TRP D 215 O VAL D 227 SHEET 6 D 6 PRO D 198 LEU D 203 -1 N LEU D 203 O ARG D 206 SHEET 1 E 2 PRO B 198 LEU B 203 0 SHEET 2 E 2 ARG B 206 ILE B 212 -1 N GLY B 211 O LEU B 199 SSBOND 1 CYS A 1 CYS B 122 1555 1555 2.05 SSBOND 2 CYS B 42 CYS B 58 1555 1555 2.04 SSBOND 3 CYS B 50 CYS B 111 1555 1555 2.03 SSBOND 4 CYS B 136 CYS B 201 1555 1555 2.03 SSBOND 5 CYS B 168 CYS B 182 1555 1555 2.03 SSBOND 6 CYS B 191 CYS B 220 1555 1555 2.02 SSBOND 7 CYS C 1 CYS D 122 1555 1555 2.05 SSBOND 8 CYS D 42 CYS D 58 1555 1555 2.03 SSBOND 9 CYS D 50 CYS D 111 1555 1555 2.03 SSBOND 10 CYS D 136 CYS D 201 1555 1555 2.05 SSBOND 11 CYS D 168 CYS D 182 1555 1555 2.04 SSBOND 12 CYS D 191 CYS D 220 1555 1555 2.03 LINK OG SER D 195 C2 0GJ D 1 1555 1555 1.44 LINK OG SER B 195 C2 0GJ B 1 1555 1555 1.47 LINK NE2 HIS B 57 C3 0GJ B 1 1555 1555 1.48 LINK NE2 HIS D 57 C3 0GJ D 1 1555 1555 1.57 SITE 1 AC1 14 HIS B 57 LEU B 97B HIS B 99 ASP B 189 SITE 2 AC1 14 SER B 190 GLN B 192 GLY B 193 SER B 195 SITE 3 AC1 14 SER B 214 TRP B 215 GLY B 216 ARG B 217 SITE 4 AC1 14 GLY B 218 CYS B 220 SITE 1 AC2 15 HIS D 57 LEU D 97B HIS D 99 ASP D 189 SITE 2 AC2 15 CYS D 191 GLN D 192 GLY D 193 SER D 195 SITE 3 AC2 15 SER D 214 TRP D 215 GLY D 216 ARG D 217 SITE 4 AC2 15 GLY D 218 CYS D 220 GLY D 226 CRYST1 176.700 176.700 54.400 90.00 90.00 120.00 H 3 18 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 0.005659 0.003267 0.000000 0.00000 SCALE2 0.000000 0.006535 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018382 0.00000