PDB Short entry for 1C5Z HEADER BLOOD CLOTTING 22-DEC-99 1C5Z TITLE STRUCTURAL BASIS FOR SELECTIVITY OF A SMALL MOLECULE, S1-BINDING, SUB- TITLE 2 MICROMOLAR INHIBITOR OF UROKINASE TYPE PLASMINOGEN ACTIVATOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (UROKINASE-TYPE PLASMINOGEN ACTIVATOR); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SHORT CHAIN; COMPND 5 EC: 3.4.21.73; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PROTEIN (UROKINASE-TYPE PLASMINOGEN ACTIVATOR); COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: CATALYTIC DOMAIN; 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: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HISTIDINE DEFICIENT GS115; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPIC9; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: HISTIDINE DEFICIENT GS115; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PPIC9 KEYWDS SELECTIVE, S1 SITE INHIBITOR, STRUCTURE-BASED DRUG DESIGN, UROKINASE, KEYWDS 2 TRYPSIN, THROMBIN, BLOOD CLOTTING EXPDTA X-RAY DIFFRACTION AUTHOR B.A.KATZ,R.MACKMAN,C.LUONG,K.RADIKA,A.MARTELLI,P.A.SPRENGELER,J.WANG, AUTHOR 2 H.CHAN,L.WONG REVDAT 5 04-AUG-21 1C5Z 1 COMPND REMARK SEQADV HET REVDAT 5 2 1 FORMUL ATOM REVDAT 4 04-OCT-17 1C5Z 1 REMARK REVDAT 3 24-FEB-09 1C5Z 1 VERSN REVDAT 2 26-SEP-01 1C5Z 3 ATOM REVDAT 1 22-DEC-00 1C5Z 0 JRNL AUTH B.A.KATZ,R.MACKMAN,C.LUONG,K.RADIKA,A.MARTELLI, JRNL AUTH 2 P.A.SPRENGELER,J.WANG,H.CHAN,L.WONG JRNL TITL STRUCTURAL BASIS FOR SELECTIVITY OF A SMALL MOLECULE, JRNL TITL 2 S1-BINDING, SUBMICROMOLAR INHIBITOR OF UROKINASE-TYPE JRNL TITL 3 PLASMINOGEN ACTIVATOR. JRNL REF CHEM.BIOL. V. 7 299 2000 JRNL REFN ISSN 1074-5521 JRNL PMID 10779411 JRNL DOI 10.1016/S1074-5521(00)00104-6 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.900 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 63.7 REMARK 3 NUMBER OF REFLECTIONS : 13200 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : X-PLOR REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1343 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 : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 31.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 705 REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE : 0.3300 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 88 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 : 2002 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 384 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) : 0.018 REMARK 3 BOND ANGLES (DEGREES) : 4.000 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.410 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 : UPABNZ_PARMALLH3X.PRO REMARK 3 PARAMETER FILE 2 : UPABNZ_PARAM11_UCSF.WAT REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : UPABNZ_TOPALLH6X.PRO REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 BULK SOLVENT TERMS INCLUDED IN FOB FILE CREATED WITH STANDARD X- REMARK 3 PLOR SCRIPT. REMARK 3 ONLY LEU A9 TO THR_A17 ARE INVLUDED FOR THE A-CHAIN. REMARK 3 RESIDUES PRIOR AND AFTER THESE RESIDUES ARE NOT VISIBLE REMARK 3 (DISORDERED). REMARK 3 RESIDUES AFTER THR_B242 ARE NOT VISIBLE (DISORDERED). REMARK 3 REMARK 3 RESIDUES SIMULTANEOUSLY REFINED IN TWO OR MORE CONFORMATIONS ARE: REMARK 3 ILE_B17, MET_B47, MET_B81, GLU_B86, GLU_B10B, LEU_B123, THR_B139, REMARK 3 ARG_B166, SER_B232, LEU_B235 REMARK 3 REMARK 3 NO ENERGY TERMS BETWEEN CITRATE 1 AND 2 ARE INCLUDED BECAUSE THEY REMARK 3 APPEAR REMARK 3 TO BE HYDROGEN-BONDED TO ONE ANOTHER VIA AN UNUSUALLY SHORT REMARK 3 HYDROGEN BOND REMARK 3 BETWEEN CARBOXYLATE GROUPS. REMARK 3 REMARK 3 DISORDERED WATERS ARE: REMARK 3 HOH4 WHICH IS CLOSE TO REMARK 3 HOH28; HOH26 WHICH IS CLOSE TO HOH68; HOH47 WHICH IS REMARK 3 CLOSE TO A SYMMETRY-RELATED EQUIVALENT OF ITSELF; HOH138 REMARK 3 WHICH IS CLOSE TO HOH144; HOH156 WHICH IS CLOSE TO A REMARK 3 SYMMETRY-RELATED EQUIVALENT OF HOH157; HOH148 WHICH IS REMARK 3 CLOSE TO CONFORMATION 1 OF ARG_B166; HOH199 WHICH IS REMARK 3 CLOSE TO HOH202; HOH283 WHICH IS CLOSE TO REMARK 3 HOH285; HOH290 WHICH IS CLOSE TO A SYMMETRY-RELATED REMARK 3 EQUIVALENT OF HOH309; HOH291 WHICH IS CLOSE TO HOH298; REMARK 3 HOH306 WHICH IS CLOSE TO HOH914; HOH369 WHICH IS CLOSE REMARK 3 TO A SYMMETRY-RELATED EQUIVALENT OF HOH804; HOH432 REMARK 3 WHICH IS CLOSE TO A SYMMETRY-RELATED EQUIVALENT OF REMARK 3 HOH433; HOH153 WHICH IS CLOSE TO A SYMMETRY-RELATED REMARK 3 EQUIVALENT OF HOH894; HOH82 WHICH IS CLOSE TO A SYMMETRY- REMARK 3 EQUIVALENT OF HOH147; HOH319 WHICH IS CLOSE TO A REMARK 3 SYMMETRY-RELATED EQUIVALENT OF HOH376; HOH373 WHICH IS REMARK 3 CLOSE TO HOH374; HOH400 WHICH IS CLOSE TO HOH412; HOH450 REMARK 3 WHICH IS CLOSE TO HOH846; HOH456 WHICH IS CLOSE TO HOH847; REMARK 3 HOH715 WHICH IS CLOSE TO HOH720; HOH580 WHICH IS CLOSE TO REMARK 3 A SYMMETRY-RELATED EQUIVALENT OF ITSELF; HOH832 WHICH IS REMARK 3 CLOSE TO A SYMMETRY-RELATED EQUIVALENT OF LYS_B187; REMARK 3 HOH917 WHICH IS CLOSE TO A SYMMETRY-RELATED EQUIVALENT REMARK 3 OF ITSELF; HOH920 WHICH IS CLOSE TO A SYMMETRY-RELATED REMARK 3 EQUIVALENT OF ITSELF; HOH930 WHICH IS CLOSE TO A REMARK 3 SYMMETRY-RELATED EQUIVALENT OF ITSELF. REMARK 4 REMARK 4 1C5Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JAN-00. REMARK 100 THE DEPOSITION ID IS D_1000001379. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-99 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MSC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : BIOTEX (MSC) REMARK 200 DATA SCALING SOFTWARE : BIOTEX REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 1.480 REMARK 200 RESOLUTION RANGE LOW (A) : 38.250 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 64.0 REMARK 200 DATA REDUNDANCY : 1.800 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 4.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 31.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.21000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIFFERENCE FOURIER PLUS REMARK 200 REFINEMENT REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: PDB1LMW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 25.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LMW HUMAN UPA/A145 WAS CONCENTRATED TO REMARK 280 10 MG/ML AND INCUBATED IN 50 MM HEPES, 5.0 MM NACL. PH 7.0, 5.0 REMARK 280 MM BENZAMIDNE FOR 15 MIN ON ICE. THE COMPLEX WAS CRYSTALLIZED BY REMARK 280 VAPOR DIFFUSION IN HANGING DROPS CONTAINING EQUAL VOLUMES OF REMARK 280 PROTEIN-INHIBITOR SOLUTION (0.28 MM UPA/A145, 1.4 MM INHIBITOR) REMARK 280 AND WELL SOLUTION (20 % 2-PROPANOL, 20 % PEG 4K, 100 MM SODIUM REMARK 280 CITRATE, PH 6.5) SEALED OVER THE WELL. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Z REMARK 290 4555 -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 41.39000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.52500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 41.39000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.52500 REMARK 290 SMTRY3 4 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11730 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 B 280 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 613 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 615 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 620 LIES ON A SPECIAL POSITION. 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 1 REMARK 465 PRO A 2 REMARK 465 SER A 3 REMARK 465 SER A 4 REMARK 465 PRO A 5 REMARK 465 PRO A 6 REMARK 465 GLU A 7 REMARK 465 GLU A 8 REMARK 465 LEU A 18 REMARK 465 ARG A 19 REMARK 465 PRO A 20 REMARK 465 ARG A 21 REMARK 465 PHE A 22 REMARK 465 LYS A 23 REMARK 465 LYS B 243 REMARK 465 GLU B 244 REMARK 465 GLU B 245 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 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG B 37A NE CZ NH1 NH2 REMARK 480 GLN B 78 CD OE1 NE2 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 H2 HOH B 301 O HOH B 521 1.30 REMARK 500 O HOH B 309 H1 HOH B 311 1.33 REMARK 500 O HOH B 370 H2 HOH B 536 1.33 REMARK 500 O HOH B 559 H1 HOH B 605 1.40 REMARK 500 H2 HOH B 437 O HOH B 440 1.44 REMARK 500 H2 HOH B 449 O HOH B 452 1.48 REMARK 500 O HOH B 270 H2 HOH B 373 1.50 REMARK 500 O HOH B 284 H1 HOH B 289 1.50 REMARK 500 O HOH B 412 H1 HOH B 419 1.51 REMARK 500 O HOH B 419 H1 HOH B 420 1.52 REMARK 500 O HOH B 257 H2 HOH B 526 1.53 REMARK 500 O ALA B 96 H1 HOH B 277 1.53 REMARK 500 OG1 THR B 177 H2 HOH B 261 1.54 REMARK 500 OG SER B 37D H2 HOH B 377 1.54 REMARK 500 OG1 THR B 210 H1 HOH B 543 1.54 REMARK 500 OG1 THR B 229 H1 HOH B 301 1.55 REMARK 500 OG1 THR B 77 H2 HOH B 534 1.56 REMARK 500 O HOH B 284 H1 HOH B 303 1.56 REMARK 500 H2 HOH B 338 O HOH B 444 1.56 REMARK 500 O SER B 135 H1 HOH B 411 1.57 REMARK 500 OG2 FLC B 1 H2 HOH B 554 1.58 REMARK 500 O SER B 75 H1 HOH B 534 1.58 REMARK 500 O ALA B 183 H1 HOH B 400 1.59 REMARK 500 O HOH B 311 H2 HOH B 508 1.59 REMARK 500 O HOH B 420 H2 HOH B 601 1.60 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 H2 HOH B 496 H2 HOH B 616 4556 1.09 REMARK 500 H1 HOH B 416 H2 HOH B 539 4556 1.23 REMARK 500 HG2 PRO B 170A H2 HOH B 295 3445 1.28 REMARK 500 O HOH B 457 H1 HOH B 458 4556 1.44 REMARK 500 O HOH B 441 H1 HOH B 621 4546 1.49 REMARK 500 H1 HOH B 416 O HOH B 539 4556 1.52 REMARK 500 O ALA B 221 H1 HOH B 468 4546 1.54 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 HIS B 57 NE2 HIS B 57 CD2 -0.073 REMARK 500 HIS B 91 CG HIS B 91 CD2 0.056 REMARK 500 HIS B 100 CG HIS B 100 CD2 0.056 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 CYS A 13 CA - CB - SG ANGL. DEV. = 7.2 DEGREES REMARK 500 TRP B 29 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 TRP B 29 CD1 - NE1 - CE2 ANGL. DEV. = 8.6 DEGREES REMARK 500 TRP B 29 NE1 - CE2 - CZ2 ANGL. DEV. = 8.5 DEGREES REMARK 500 TRP B 29 NE1 - CE2 - CD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG B 35 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 36 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 TRP B 51 CG - CD1 - NE1 ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP B 51 CD1 - NE1 - CE2 ANGL. DEV. = 7.8 DEGREES REMARK 500 TRP B 51 NE1 - CE2 - CZ2 ANGL. DEV. = 9.4 DEGREES REMARK 500 TRP B 51 NE1 - CE2 - CD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG B 72 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 LYS B 92 N - CA - C ANGL. DEV. = -16.6 DEGREES REMARK 500 ARG B 109 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG B 116 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 TYR B 149 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 LEU B 150 CB - CA - C ANGL. DEV. = -11.9 DEGREES REMARK 500 ARG B 166 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 166 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 TRP B 186 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 TRP B 186 CD1 - NE1 - CE2 ANGL. DEV. = 7.9 DEGREES REMARK 500 TRP B 186 NE1 - CE2 - CZ2 ANGL. DEV. = 8.1 DEGREES REMARK 500 LEU B 199 N - CA - C ANGL. DEV. = -18.2 DEGREES REMARK 500 CYS B 201 CA - CB - SG ANGL. DEV. = 6.7 DEGREES REMARK 500 TRP B 215 CG - CD1 - NE1 ANGL. DEV. = -7.1 DEGREES REMARK 500 TRP B 215 CD1 - NE1 - CE2 ANGL. DEV. = 8.3 DEGREES REMARK 500 TRP B 215 NE1 - CE2 - CZ2 ANGL. DEV. = 9.4 DEGREES REMARK 500 TRP B 215 NE1 - CE2 - CD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 CYS B 220 CA - CB - SG ANGL. DEV. = 6.7 DEGREES REMARK 500 TRP B 237 CG - CD1 - NE1 ANGL. DEV. = -7.5 DEGREES REMARK 500 TRP B 237 CD1 - NE1 - CE2 ANGL. DEV. = 8.9 DEGREES REMARK 500 TRP B 237 NE1 - CE2 - CZ2 ANGL. DEV. = 7.6 DEGREES REMARK 500 TRP B 237 NE1 - CE2 - CD2 ANGL. DEV. = -6.3 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 GLN B 27 55.22 -150.72 REMARK 500 VAL B 41 -73.45 -113.22 REMARK 500 SER B 54 -155.60 -155.91 REMARK 500 ASP B 93 12.50 105.11 REMARK 500 ASP B 97 -158.75 -131.06 REMARK 500 LEU B 97B -70.63 147.71 REMARK 500 MET B 126 117.22 -34.27 REMARK 500 TYR B 171 -105.29 -115.91 REMARK 500 TRP B 186 51.89 35.74 REMARK 500 SER B 195 152.48 -41.72 REMARK 500 SER B 214 -65.17 -123.16 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 FLC B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FLC B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FLC B 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEN B 251 DBREF 1C5Z A 1 23 UNP P00749 UROK_HUMAN 156 178 DBREF 1C5Z B 16 250 UNP P00749 UROK_HUMAN 179 431 SEQADV 1C5Z ALA B 145 UNP P00749 ASN 322 CONFLICT 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 ALA 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 HET FLC B 1 18 HET FLC B 2 18 HET FLC B 3 18 HET BEN B 251 18 HETNAM FLC CITRATE ANION HETNAM BEN BENZAMIDINE FORMUL 3 FLC 3(C6 H5 O7 3-) FORMUL 6 BEN C7 H8 N2 FORMUL 7 HOH *384(H2 O) HELIX 1 1 THR B 23 GLN B 27 5 5 HELIX 2 2 ALA B 55 PHE B 59 5 5 HELIX 3 4 SER B 164 GLN B 169 1 6 HELIX 4 5 TYR B 172 VAL B 176 5 5 HELIX 5 6 PHE B 234 THR B 242 1 9 SHEET 1 A 7 PHE B 30 ARG B 36 0 SHEET 2 A 7 VAL B 38 SER B 48 -1 O THR B 39 N ARG B 35 SHEET 3 A 7 TRP B 51 SER B 54 -1 O TRP B 51 N MET B 47 SHEET 4 A 7 ALA B 104 ARG B 109 -1 N ALA B 104 O SER B 54 SHEET 5 A 7 MET B 81 ILE B 89 -1 N GLU B 84 O ARG B 109 SHEET 6 A 7 TYR B 64 LEU B 68 -1 O TYR B 64 N VAL B 85 SHEET 7 A 7 PHE B 30 ARG B 36 -1 O ALA B 32 N TYR B 67 SHEET 1 B 2 SER B 95 ALA B 96 0 SHEET 2 B 2 HIS B 99 HIS B 100 -1 N HIS B 100 O SER B 95 SSBOND 1 CYS A 13 CYS B 122 1555 1555 2.03 SSBOND 2 CYS B 42 CYS B 58 1555 1555 2.00 SSBOND 3 CYS B 50 CYS B 111 1555 1555 2.01 SSBOND 4 CYS B 136 CYS B 201 1555 1555 2.03 SSBOND 5 CYS B 168 CYS B 182 1555 1555 2.02 SSBOND 6 CYS B 191 CYS B 220 1555 1555 2.01 SITE 1 AC1 10 FLC B 2 TYR B 67 LYS B 82 SER B 164 SITE 2 AC1 10 HIS B 165 ARG B 166 HOH B 272 HOH B 408 SITE 3 AC1 10 HOH B 409 HOH B 554 SITE 1 AC2 9 FLC B 1 ARG B 36 LYS B 82 LYS B 110A SITE 2 AC2 9 HIS B 165 THR B 178 ARG B 230 HOH B 524 SITE 3 AC2 9 HOH B 588 SITE 1 AC3 12 HIS B 57 HIS B 99 GLN B 185B GLN B 192 SITE 2 AC3 12 GLY B 193 ASP B 194 SER B 195 HOH B 417 SITE 3 AC3 12 HOH B 510 HOH B 514 HOH B 592 HOH B 593 SITE 1 AC4 6 ASP B 189 SER B 190 TRP B 215 GLY B 219 SITE 2 AC4 6 GLY B 226 HOH B 512 CRYST1 82.780 49.050 66.850 90.00 113.68 90.00 C 1 2 1 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 0.012080 0.000000 0.005298 0.00000 SCALE2 0.000000 0.020387 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016334 0.00000