3KGP - Header Asymmetric Unit

HEADER HYDROLASE 29-OCT-09 3KGP

TITLE CRYSTAL STRUCTURES OF UROKINASE-TYPE PLASMINOGEN ACTIVATOR TITLE 2 IN COMPLEX WITH 4-(AMINOMETHYL) BENZOIC ACID AND 4- TITLE 3 (AMINOMETHYL-PHENYL)-METHANOL

COMPND MOL_ID: 1; COMPND 2 MOLECULE: UROKINASE-TYPE PLASMINOGEN ACTIVATOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN, UNP RESIDUES 179-431; COMPND 5 SYNONYM: U-PLASMINOGEN ACTIVATOR, UPA, UROKINASE-TYPE COMPND 6 PLASMINOGEN ACTIVATOR CHAIN B; COMPND 7 EC: 3.4.21.73; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PLAU; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: X-33; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPICZALPHA A

KEYWDS PROTEIN-LIGAND COMPLEX, DISULFIDE BOND, FIBRINOLYSIS, KEYWDS 2 HYDROLASE, PLASMINOGEN ACTIVATION, SERINE PROTEASE

EXPDTA X-RAY DIFFRACTION

AUTHOR L.-G.JIANG,G.-X.ZHAO,X.-B.BIAN,C.YUAN,Z.-X.HUANG,M.-D.HUANG

REVDAT 1 01-DEC-09 3KGP 0

JRNL AUTH L.-G.JIANG,G.-X.ZHAO,X.-B.BIAN,C.YUAN,Z.-X.HUANG, JRNL AUTH 2 M.-D.HUANG JRNL TITL CRYSTAL STRUCTURES OF UROKINASE-TYPE PLASMINOGEN JRNL TITL 2 ACTIVATOR IN COMPLEX WITH 4-(AMINOMETHYL) BENZOIC JRNL TITL 3 ACID AND 4-(AMINOMETHYL-PHENYL)-METHANOL JRNL REF CHIN.J.STRUCT.CHEM. V. 28 253 2009 JRNL REFN ISSN 0254-5861

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1812539.860 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 9326 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 SET) : 0.199 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.400 REMARK 3 FREE R VALUE TEST SET COUNT : 972 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.50 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1196 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 131 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.027 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1893 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 239 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.66000 REMARK 3 B22 (A**2) : -2.66000 REMARK 3 B33 (A**2) : 5.33000 REMARK 3 B12 (A**2) : 0.59000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.24 REMARK 3 ESD FROM SIGMAA (A) : 0.19 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.30 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.40 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.80 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.39 REMARK 3 BSOL : 57.75 REMARK 3 REMARK 3 NCS MODEL : CONSTR 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : AMA_PARAM.TXT REMARK 3 PARAMETER FILE 3 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : ION.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 3KGP COMPLIES WITH FORMAT V. 3.20, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-NOV-09. REMARK 100 THE RCSB ID CODE IS RCSB055970.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.60 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 : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER SMART 6000 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PROTEUM PLUS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9341 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 60.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 4.390 REMARK 200 R MERGE (I) : 0.19710 REMARK 200 R SYM (I) : 0.06720 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.6500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.74 REMARK 200 R MERGE FOR SHELL (I) : 0.15090 REMARK 200 R SYM FOR SHELL (I) : 0.06490 REMARK 200 <I/SIGMA(I)> FOR SHELL : 10.160 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 2NWN REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05M SODIUM CITRATE, 1.95M (NH4) REMARK 280 2SO4, 0.05% NAN3, 5% PEG 400, PH 4.60, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298K

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 60.41700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.88177 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 14.16267 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 60.41700 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 34.88177 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 14.16267 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 60.41700 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 34.88177 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 14.16267 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 69.76354 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 28.32533 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 69.76354 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 28.32533 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 69.76354 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 28.32533 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 ARG A 37A REMARK 465 GLY A 37B REMARK 465 GLY A 37C REMARK 465 SER A 37D REMARK 465 THR A 97A REMARK 465 LEU A 97B REMARK 465 LYS A 243 REMARK 465 GLU A 244 REMARK 465 GLU A 245 REMARK 465 ASN A 246 REMARK 465 GLY A 247 REMARK 465 LEU A 248 REMARK 465 ALA A 249 REMARK 465 LEU A 250

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 NE ARG A 36 O HOH A 428 1.95 REMARK 500 NE2 GLN A 131 O HOH A 472 1.54 REMARK 500 OE1 GLN A 145 O HOH A 415 1.55 REMARK 500 O 4AZ A 4069 O3 SO4 A 402 2.06 REMARK 500 O1 SO4 A 402 O HOH A 10 2.13 REMARK 500 O HOH A 281 O HOH A 473 0.28 REMARK 500 O HOH A 304 O HOH A 435 0.64 REMARK 500 O HOH A 337 O HOH A 407 0.33 REMARK 500 O HOH A 349 O HOH A 453 0.19 REMARK 500 O HOH A 350 O HOH A 354 0.78 REMARK 500 O HOH A 368 O HOH A 373 0.25 REMARK 500 O HOH A 371 O HOH A 438 0.44 REMARK 500 O HOH A 376 O HOH A 393 0.40 REMARK 500 O HOH A 421 O HOH A 463 0.20 REMARK 500 O HOH A 445 O HOH A 451 0.50 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 NH1 ARG A 110D O HOH A 333 8665 2.10 REMARK 500 CG GLN A 145 O HOH A 409 6464 1.86 REMARK 500 CD GLN A 145 O HOH A 409 6464 0.63 REMARK 500 OE1 GLN A 145 O HOH A 409 6464 1.68 REMARK 500 O HOH A 409 NE2 GLN A 145 8665 0.71 REMARK 500 O HOH A 363 O HOH A 287 5565 0.31 REMARK 500 O HOH A 441 O HOH A 321 8665 0.64 REMARK 500 O HOH A 370 O HOH A 454 9454 0.63 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 A 27 55.53 -163.78 REMARK 500 PRO A 28 -9.56 -53.85 REMARK 500 VAL A 41 -66.33 -109.45 REMARK 500 CYS A 111 -148.48 -86.84 REMARK 500 TYR A 127 28.52 48.82 REMARK 500 GLN A 170 152.07 -48.04 REMARK 500 TYR A 171 -117.32 -108.19 REMARK 500 SER A 214 -59.16 -121.00 REMARK 500 ASP A 223A 16.91 56.33 REMARK 500 REMARK 500 REMARK: NULL

REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 293 DISTANCE = 5.17 ANGSTROMS REMARK 525 HOH A 360 DISTANCE = 5.80 ANGSTROMS REMARK 525 HOH A 364 DISTANCE = 6.47 ANGSTROMS REMARK 525 HOH A 378 DISTANCE = 6.05 ANGSTROMS REMARK 525 HOH A 430 DISTANCE = 5.05 ANGSTROMS REMARK 525 HOH A 443 DISTANCE = 5.20 ANGSTROMS REMARK 525 HOH A 444 DISTANCE = 5.73 ANGSTROMS REMARK 525 HOH A 449 DISTANCE = 7.77 ANGSTROMS REMARK 525 HOH A 456 DISTANCE = 5.23 ANGSTROMS REMARK 525 HOH A 461 DISTANCE = 5.04 ANGSTROMS REMARK 525 HOH A 465 DISTANCE = 5.80 ANGSTROMS REMARK 525 HOH A 474 DISTANCE = 6.81 ANGSTROMS

REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE WATER MOLECULE S171 DESCRIBED IN THE ASSOCIATED ARTICLE IS REMARK 600 CALLED AS A 406 IN THIS ENTRY.

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4AZ A 4069 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 402

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2NWN RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH UPAIN-1 REMARK 900 RELATED ID: 3KHV RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH 4-(AMINOMETHYL-PHENYL)- REMARK 900 METHANOL REMARK 900 RELATED ID: 3KID RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH ETHYL 2-AMINO-1,3- REMARK 900 BENZOTHIAZOLE-6-CARBOXYLATE

REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PDB IS NUMBERED BY CHYMOTRYPSINOGEN NUMBERING OF SERINE REMARK 999 PROTEINASES AND THUS INCLUDES INSERTION CODES.

DBREF 3KGP A 16 250 UNP P00749 UROK_HUMAN 179 431

SEQADV 3KGP ALA A 122 UNP P00749 CYS 299 ENGINEERED SEQADV 3KGP GLN A 145 UNP P00749 ASN 322 ENGINEERED

SEQRES 1 A 253 ILE ILE GLY GLY GLU PHE THR THR ILE GLU ASN GLN PRO SEQRES 2 A 253 TRP PHE ALA ALA ILE TYR ARG ARG HIS ARG GLY GLY SER SEQRES 3 A 253 VAL THR TYR VAL CYS GLY GLY SER LEU ILE SER PRO CYS SEQRES 4 A 253 TRP VAL ILE SER ALA THR HIS CYS PHE ILE ASP TYR PRO SEQRES 5 A 253 LYS LYS GLU ASP TYR ILE VAL TYR LEU GLY ARG SER ARG SEQRES 6 A 253 LEU ASN SER ASN THR GLN GLY GLU MET LYS PHE GLU VAL SEQRES 7 A 253 GLU ASN LEU ILE LEU HIS LYS ASP TYR SER ALA ASP THR SEQRES 8 A 253 LEU ALA HIS HIS ASN ASP ILE ALA LEU LEU LYS ILE ARG SEQRES 9 A 253 SER LYS GLU GLY ARG CYS ALA GLN PRO SER ARG THR ILE SEQRES 10 A 253 GLN THR ILE ALA LEU PRO SER MET TYR ASN ASP PRO GLN SEQRES 11 A 253 PHE GLY THR SER CYS GLU ILE THR GLY PHE GLY LYS GLU SEQRES 12 A 253 GLN SER THR ASP TYR LEU TYR PRO GLU GLN LEU LYS MET SEQRES 13 A 253 THR VAL VAL LYS LEU ILE SER HIS ARG GLU CYS GLN GLN SEQRES 14 A 253 PRO HIS TYR TYR GLY SER GLU VAL THR THR LYS MET LEU SEQRES 15 A 253 CYS ALA ALA ASP PRO GLN TRP LYS THR ASP SER CYS GLN SEQRES 16 A 253 GLY ASP SER GLY GLY PRO LEU VAL CYS SER LEU GLN GLY SEQRES 17 A 253 ARG MET THR LEU THR GLY ILE VAL SER TRP GLY ARG GLY SEQRES 18 A 253 CYS ALA LEU LYS ASP LYS PRO GLY VAL TYR THR ARG VAL SEQRES 19 A 253 SER HIS PHE LEU PRO TRP ILE ARG SER HIS THR LYS GLU SEQRES 20 A 253 GLU ASN GLY LEU ALA LEU

HET 4AZ A4069 11 HET SO4 A 402 5

HETNAM 4AZ 4-(AMINOMETHYL)BENZOIC ACID HETNAM SO4 SULFATE ION

FORMUL 2 4AZ C8 H9 N O2 FORMUL 3 SO4 O4 S 2- FORMUL 4 HOH *239(H2 O)

HELIX 1 1 THR A 23 GLN A 27 5 5 HELIX 2 2 ALA A 55 PHE A 59 5 5 HELIX 3 3 LYS A 61 GLU A 62A 5 3 HELIX 4 4 SER A 164 GLN A 170 1 7 HELIX 5 5 PHE A 234 THR A 242 1 9

SHEET 1 A 8 GLU A 20 PHE A 21 0 SHEET 2 A 8 LYS A 156 ILE A 163 -1 O MET A 157 N GLU A 20 SHEET 3 A 8 MET A 180 ALA A 184 -1 O CYS A 182 N ILE A 163 SHEET 4 A 8 LYS A 224 ARG A 230 -1 O TYR A 228 N LEU A 181 SHEET 5 A 8 MET A 207 LEU A 222 -1 N TRP A 215 O VAL A 227 SHEET 6 A 8 PRO A 198 SER A 202 -1 N LEU A 199 O GLY A 211 SHEET 7 A 8 SER A 135 GLY A 140 -1 N GLU A 137 O VAL A 200 SHEET 8 A 8 LYS A 156 ILE A 163 -1 O VAL A 160 N CYS A 136 SHEET 1 B 7 PHE A 30 ARG A 35 0 SHEET 2 B 7 THR A 39 SER A 48 -1 O VAL A 41 N ILE A 33 SHEET 3 B 7 TRP A 51 SER A 54 -1 O ILE A 53 N SER A 45 SHEET 4 B 7 ALA A 104 ARG A 109 -1 O ALA A 104 N SER A 54 SHEET 5 B 7 MET A 81 LEU A 90 -1 N ILE A 89 O LEU A 105 SHEET 6 B 7 TYR A 64 LEU A 68 -1 N VAL A 66 O PHE A 83 SHEET 7 B 7 PHE A 30 ARG A 35 -1 N TYR A 34 O ILE A 65

SSBOND 1 CYS A 42 CYS A 58 1555 1555 2.03 SSBOND 2 CYS A 50 CYS A 111 1555 1555 2.02 SSBOND 3 CYS A 136 CYS A 201 1555 1555 2.03 SSBOND 4 CYS A 168 CYS A 182 1555 1555 2.03 SSBOND 5 CYS A 191 CYS A 220 1555 1555 2.03

SITE 1 AC1 9 SER A 190 CYS A 191 GLN A 192 SER A 195 SITE 2 AC1 9 VAL A 213 TRP A 215 GLY A 226 HOH A 390 SITE 3 AC1 9 SO4 A 402 SITE 1 AC2 7 HOH A 10 HIS A 57 GLN A 192 GLY A 193 SITE 2 AC2 7 SER A 195 HOH A 372 4AZ A4069

CRYST1 120.834 120.834 42.488 90.00 90.00 120.00 H 3 9

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 0.008276 0.004778 0.000000 0.00000

SCALE2 0.000000 0.009556 0.000000 0.00000

SCALE3 0.000000 0.000000 0.023536 0.00000