HEADER HYDROLASE/HYDROLASE INHIBITOR 22-JUN-11 3SKK TITLE CRYSTAL STRUCTURE OF HUMAN ARGINASE I IN COMPLEX WITH THE INHIBITOR TITLE 2 FABH, RESOLUTION 1.70 A, TWINNED STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ARGINASE-1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: LIVER-TYPE ARGINASE, TYPE I ARGINASE; COMPND 5 EC: 3.5.3.1; COMPND 6 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: ARG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET11D KEYWDS ABH INHIBITOR DERIVATIVE, TWINNING, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.J.THORN,L.DI COSTANZO,D.W.CHRISTIANSON REVDAT 1 20-JUL-11 3SKK 0 JRNL AUTH M.ILIES,L.DI COSTANZO,D.P.DOWLING,K.J.THORN,D.W.CHRISTIANSON JRNL TITL BINDING OF ALPHA,ALPHA-DISUBSTITUTED AMINO ACIDS TO ARGINASE JRNL TITL 2 SUGGESTS NEW AVENUES FOR INHIBITOR DESIGN JRNL REF J.MED.CHEM. 2011 JRNL REFN ISSN 0022-2623 JRNL PMID 21728378 JRNL DOI 10.1021/JM200443B REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.5_2) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : TWIN_LSQ_F REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.78 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.130 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 66860 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.140 REMARK 3 R VALUE (WORKING SET) : 0.136 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.920 REMARK 3 FREE R VALUE TEST SET COUNT : 6632 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 27.1426 - 4.6111 0.91 3141 310 0.0961 0.1494 REMARK 3 2 4.6111 - 3.6628 0.90 3103 346 0.0814 0.1321 REMARK 3 3 3.6628 - 3.2006 0.90 3124 350 0.1012 0.1589 REMARK 3 4 3.2006 - 2.9084 0.90 3065 329 0.1203 0.1812 REMARK 3 5 2.9084 - 2.7001 0.90 3109 346 0.1382 0.1586 REMARK 3 6 2.7001 - 2.5410 0.89 3094 361 0.1414 0.1961 REMARK 3 7 2.5410 - 2.4139 0.89 3063 359 0.1499 0.2002 REMARK 3 8 2.4139 - 2.3088 0.89 3090 323 0.1498 0.1766 REMARK 3 9 2.3088 - 2.2200 0.91 3144 270 0.1488 0.1864 REMARK 3 10 2.2200 - 2.1434 0.90 3099 299 0.1525 0.2095 REMARK 3 11 2.1434 - 2.0764 0.87 3010 389 0.1556 0.2032 REMARK 3 12 2.0764 - 2.0171 0.88 3064 331 0.1575 0.1962 REMARK 3 13 2.0171 - 1.9640 0.87 2989 339 0.1699 0.1862 REMARK 3 14 1.9640 - 1.9161 0.87 3007 334 0.1699 0.2147 REMARK 3 15 1.9161 - 1.8726 0.87 3007 307 0.1748 0.1964 REMARK 3 16 1.8726 - 1.8327 0.85 2974 317 0.1883 0.2034 REMARK 3 17 1.8327 - 1.7961 0.83 2855 355 0.1925 0.2078 REMARK 3 18 1.7961 - 1.7622 0.82 2864 292 0.2003 0.2248 REMARK 3 19 1.7622 - 1.7307 0.82 2808 280 0.2076 0.2603 REMARK 3 20 1.7307 - 1.7014 0.79 2701 292 0.2109 0.2344 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 43.42 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.550 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) : -0.14770 REMARK 3 B22 (A**2) : -0.14770 REMARK 3 B33 (A**2) : 0.29540 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 TWINNING INFORMATION. REMARK 3 FRACTION: 0.5000 REMARK 3 OPERATOR: -H,-K, L REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 4908 REMARK 3 ANGLE : 1.043 6664 REMARK 3 CHIRALITY : 0.065 764 REMARK 3 PLANARITY : 0.005 856 REMARK 3 DIHEDRAL : 17.590 1816 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3SKK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-11. REMARK 100 THE RCSB ID CODE IS RCSB066316. 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 : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66860 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.14800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.57700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2ZAV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3 UL OF PROTEIN SOLUTION [3.5 MG/ML REMARK 280 HAI, 50 MM BICINE (PH 8.5), 2 MM FABH, 100 M MNCL2] AND 3 UL OF REMARK 280 PRECIPITANT SOLUTION [0.1 M HEPES (PH 7.0), 22-28% JEFFAMINE] REMARK 280 WERE EQUILIBRATED AGAINST A 1 ML RESERVOIR OF PRECIPITANT REMARK 280 SOLUTION, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 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 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 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 45.04700 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -78.02369 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 90.09400 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 442 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 720 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 349 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 446 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 485 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 532 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 616 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 692 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 MET A 1 REMARK 465 SER A 2 REMARK 465 ALA A 3 REMARK 465 LYS A 4 REMARK 465 SER A 5 REMARK 465 PRO A 320 REMARK 465 PRO A 321 REMARK 465 LYS A 322 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 ALA B 3 REMARK 465 LYS B 4 REMARK 465 SER B 5 REMARK 465 PRO B 320 REMARK 465 PRO B 321 REMARK 465 LYS B 322 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 GLU A 44 42.13 -68.23 REMARK 500 ASP A 61 68.66 -151.92 REMARK 500 GLN A 65 -111.68 49.48 REMARK 500 ARG A 180 4.44 -157.93 REMARK 500 SER A 271 -32.55 -130.20 REMARK 500 GLU B 44 104.51 -30.33 REMARK 500 GLN B 65 -112.81 52.21 REMARK 500 ASP B 124 148.96 -176.61 REMARK 500 ARG B 180 -3.31 -154.06 REMARK 500 PRO B 314 19.08 -67.48 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 378 DISTANCE = 5.17 ANGSTROMS REMARK 525 HOH A 446 DISTANCE = 5.15 ANGSTROMS REMARK 525 HOH A 485 DISTANCE = 5.87 ANGSTROMS REMARK 525 HOH A 490 DISTANCE = 5.52 ANGSTROMS REMARK 525 HOH A 532 DISTANCE = 5.75 ANGSTROMS REMARK 525 HOH A 552 DISTANCE = 5.35 ANGSTROMS REMARK 525 HOH A 594 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A 602 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A 616 DISTANCE = 5.40 ANGSTROMS REMARK 525 HOH A 618 DISTANCE = 5.11 ANGSTROMS REMARK 525 HOH A 642 DISTANCE = 5.14 ANGSTROMS REMARK 525 HOH A 673 DISTANCE = 5.08 ANGSTROMS REMARK 525 HOH A 682 DISTANCE = 5.53 ANGSTROMS REMARK 525 HOH A 686 DISTANCE = 5.26 ANGSTROMS REMARK 525 HOH A 692 DISTANCE = 5.63 ANGSTROMS REMARK 525 HOH A 706 DISTANCE = 5.17 ANGSTROMS REMARK 525 HOH A 716 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH A 719 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH A 747 DISTANCE = 5.11 ANGSTROMS REMARK 525 HOH B 385 DISTANCE = 5.51 ANGSTROMS REMARK 525 HOH B 442 DISTANCE = 5.79 ANGSTROMS REMARK 525 HOH B 483 DISTANCE = 5.28 ANGSTROMS REMARK 525 HOH B 508 DISTANCE = 5.77 ANGSTROMS REMARK 525 HOH B 510 DISTANCE = 6.29 ANGSTROMS REMARK 525 HOH B 541 DISTANCE = 5.67 ANGSTROMS REMARK 525 HOH B 561 DISTANCE = 5.33 ANGSTROMS REMARK 525 HOH B 569 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH B 573 DISTANCE = 5.14 ANGSTROMS REMARK 525 HOH B 574 DISTANCE = 5.46 ANGSTROMS REMARK 525 HOH B 580 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH B 624 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH B 643 DISTANCE = 5.26 ANGSTROMS REMARK 525 HOH B 652 DISTANCE = 9.27 ANGSTROMS REMARK 525 HOH B 661 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH B 690 DISTANCE = 5.72 ANGSTROMS REMARK 525 HOH B 713 DISTANCE = 6.85 ANGSTROMS REMARK 525 HOH B 741 DISTANCE = 6.20 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE STARTING MATERIAL 2-AMINO-6-BORONO-2-(DIFLUOROMETHYL)HEXANOIC REMARK 600 ACID (FABH) UNDERGOES TO NUCLEOPHILIC ATTACK BY THE HYDROXYL GROUP REMARK 600 BRIDGING THE DI-MANGANESE CLUSTER OF THE ENZYME. REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 502 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 128 OD1 REMARK 620 2 ASP A 124 OD2 88.3 REMARK 620 3 ASP A 232 OD2 165.8 84.6 REMARK 620 4 HIS A 101 ND1 90.3 97.1 102.8 REMARK 620 5 4U7 A 551 O3 88.5 154.1 92.5 108.6 REMARK 620 6 4U7 A 551 O2 89.4 97.2 79.3 165.6 57.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 504 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 128 OD2 REMARK 620 2 HIS B 101 ND1 88.2 REMARK 620 3 4U7 B 552 O2 90.0 167.9 REMARK 620 4 ASP B 124 OD2 86.5 90.8 101.0 REMARK 620 5 ASP B 232 OD2 166.2 104.6 78.5 88.3 REMARK 620 6 4U7 B 552 O3 91.3 109.4 58.6 159.5 89.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 503 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 4U7 B 552 O2 REMARK 620 2 ASP B 234 OD1 128.6 REMARK 620 3 ASP B 124 OD1 94.8 136.0 REMARK 620 4 HIS B 126 ND1 93.3 88.2 96.6 REMARK 620 5 ASP B 232 OD2 78.8 92.1 90.0 170.1 REMARK 620 6 ASP B 234 OD2 167.0 56.0 80.2 99.2 89.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 4U7 A 551 O2 REMARK 620 2 ASP A 124 OD1 94.2 REMARK 620 3 ASP A 234 OD1 128.6 135.8 REMARK 620 4 ASP A 232 OD2 79.5 86.5 91.1 REMARK 620 5 HIS A 126 ND1 87.8 92.4 98.6 167.0 REMARK 620 6 ASP A 234 OD2 167.9 80.4 55.4 89.4 103.2 REMARK 620 7 4U7 A 551 O4 52.0 140.5 77.2 69.3 104.5 127.8 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4U7 A 551 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4U7 B 552 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AEB RELATED DB: PDB REMARK 900 HAI IN COMPLEX WITH ABH REMARK 900 RELATED ID: 3SJT RELATED DB: PDB REMARK 900 RELATED ID: 3SL0 RELATED DB: PDB REMARK 900 RELATED ID: 3SL1 RELATED DB: PDB REMARK 900 RELATED ID: 3GMZ RELATED DB: PDB REMARK 900 RELATED ID: 3GN0 RELATED DB: PDB DBREF 3SKK A 1 322 UNP P05089 ARGI1_HUMAN 1 322 DBREF 3SKK B 1 322 UNP P05089 ARGI1_HUMAN 1 322 SEQRES 1 A 322 MET SER ALA LYS SER ARG THR ILE GLY ILE ILE GLY ALA SEQRES 2 A 322 PRO PHE SER LYS GLY GLN PRO ARG GLY GLY VAL GLU GLU SEQRES 3 A 322 GLY PRO THR VAL LEU ARG LYS ALA GLY LEU LEU GLU LYS SEQRES 4 A 322 LEU LYS GLU GLN GLU CYS ASP VAL LYS ASP TYR GLY ASP SEQRES 5 A 322 LEU PRO PHE ALA ASP ILE PRO ASN ASP SER PRO PHE GLN SEQRES 6 A 322 ILE VAL LYS ASN PRO ARG SER VAL GLY LYS ALA SER GLU SEQRES 7 A 322 GLN LEU ALA GLY LYS VAL ALA GLU VAL LYS LYS ASN GLY SEQRES 8 A 322 ARG ILE SER LEU VAL LEU GLY GLY ASP HIS SER LEU ALA SEQRES 9 A 322 ILE GLY SER ILE SER GLY HIS ALA ARG VAL HIS PRO ASP SEQRES 10 A 322 LEU GLY VAL ILE TRP VAL ASP ALA HIS THR ASP ILE ASN SEQRES 11 A 322 THR PRO LEU THR THR THR SER GLY ASN LEU HIS GLY GLN SEQRES 12 A 322 PRO VAL SER PHE LEU LEU LYS GLU LEU LYS GLY LYS ILE SEQRES 13 A 322 PRO ASP VAL PRO GLY PHE SER TRP VAL THR PRO CYS ILE SEQRES 14 A 322 SER ALA LYS ASP ILE VAL TYR ILE GLY LEU ARG ASP VAL SEQRES 15 A 322 ASP PRO GLY GLU HIS TYR ILE LEU LYS THR LEU GLY ILE SEQRES 16 A 322 LYS TYR PHE SER MET THR GLU VAL ASP ARG LEU GLY ILE SEQRES 17 A 322 GLY LYS VAL MET GLU GLU THR LEU SER TYR LEU LEU GLY SEQRES 18 A 322 ARG LYS LYS ARG PRO ILE HIS LEU SER PHE ASP VAL ASP SEQRES 19 A 322 GLY LEU ASP PRO SER PHE THR PRO ALA THR GLY THR PRO SEQRES 20 A 322 VAL VAL GLY GLY LEU THR TYR ARG GLU GLY LEU TYR ILE SEQRES 21 A 322 THR GLU GLU ILE TYR LYS THR GLY LEU LEU SER GLY LEU SEQRES 22 A 322 ASP ILE MET GLU VAL ASN PRO SER LEU GLY LYS THR PRO SEQRES 23 A 322 GLU GLU VAL THR ARG THR VAL ASN THR ALA VAL ALA ILE SEQRES 24 A 322 THR LEU ALA CYS PHE GLY LEU ALA ARG GLU GLY ASN HIS SEQRES 25 A 322 LYS PRO ILE ASP TYR LEU ASN PRO PRO LYS SEQRES 1 B 322 MET SER ALA LYS SER ARG THR ILE GLY ILE ILE GLY ALA SEQRES 2 B 322 PRO PHE SER LYS GLY GLN PRO ARG GLY GLY VAL GLU GLU SEQRES 3 B 322 GLY PRO THR VAL LEU ARG LYS ALA GLY LEU LEU GLU LYS SEQRES 4 B 322 LEU LYS GLU GLN GLU CYS ASP VAL LYS ASP TYR GLY ASP SEQRES 5 B 322 LEU PRO PHE ALA ASP ILE PRO ASN ASP SER PRO PHE GLN SEQRES 6 B 322 ILE VAL LYS ASN PRO ARG SER VAL GLY LYS ALA SER GLU SEQRES 7 B 322 GLN LEU ALA GLY LYS VAL ALA GLU VAL LYS LYS ASN GLY SEQRES 8 B 322 ARG ILE SER LEU VAL LEU GLY GLY ASP HIS SER LEU ALA SEQRES 9 B 322 ILE GLY SER ILE SER GLY HIS ALA ARG VAL HIS PRO ASP SEQRES 10 B 322 LEU GLY VAL ILE TRP VAL ASP ALA HIS THR ASP ILE ASN SEQRES 11 B 322 THR PRO LEU THR THR THR SER GLY ASN LEU HIS GLY GLN SEQRES 12 B 322 PRO VAL SER PHE LEU LEU LYS GLU LEU LYS GLY LYS ILE SEQRES 13 B 322 PRO ASP VAL PRO GLY PHE SER TRP VAL THR PRO CYS ILE SEQRES 14 B 322 SER ALA LYS ASP ILE VAL TYR ILE GLY LEU ARG ASP VAL SEQRES 15 B 322 ASP PRO GLY GLU HIS TYR ILE LEU LYS THR LEU GLY ILE SEQRES 16 B 322 LYS TYR PHE SER MET THR GLU VAL ASP ARG LEU GLY ILE SEQRES 17 B 322 GLY LYS VAL MET GLU GLU THR LEU SER TYR LEU LEU GLY SEQRES 18 B 322 ARG LYS LYS ARG PRO ILE HIS LEU SER PHE ASP VAL ASP SEQRES 19 B 322 GLY LEU ASP PRO SER PHE THR PRO ALA THR GLY THR PRO SEQRES 20 B 322 VAL VAL GLY GLY LEU THR TYR ARG GLU GLY LEU TYR ILE SEQRES 21 B 322 THR GLU GLU ILE TYR LYS THR GLY LEU LEU SER GLY LEU SEQRES 22 B 322 ASP ILE MET GLU VAL ASN PRO SER LEU GLY LYS THR PRO SEQRES 23 B 322 GLU GLU VAL THR ARG THR VAL ASN THR ALA VAL ALA ILE SEQRES 24 B 322 THR LEU ALA CYS PHE GLY LEU ALA ARG GLU GLY ASN HIS SEQRES 25 B 322 LYS PRO ILE ASP TYR LEU ASN PRO PRO LYS HET MN A 501 1 HET MN A 502 1 HET 4U7 A 551 16 HET MN B 503 1 HET MN B 504 1 HET 4U7 B 552 16 HETNAM MN MANGANESE (II) ION HETNAM 4U7 [(5S)-5-AMINO-5-CARBOXY-6,6-DIFLUOROHEXYL](TRIHYDROXY) HETNAM 2 4U7 BORATE(1-) FORMUL 3 MN 4(MN 2+) FORMUL 5 4U7 2(C7 H15 B F2 N O5 1-) FORMUL 9 HOH *760(H2 O) HELIX 1 1 ARG A 21 GLU A 25 5 5 HELIX 2 2 GLU A 26 ALA A 34 1 9 HELIX 3 3 GLY A 35 GLU A 42 1 8 HELIX 4 4 ASN A 69 ASN A 90 1 22 HELIX 5 5 ASP A 100 SER A 102 5 3 HELIX 6 6 LEU A 103 HIS A 115 1 13 HELIX 7 7 ASN A 139 GLY A 142 5 4 HELIX 8 8 GLN A 143 LEU A 149 1 7 HELIX 9 9 LYS A 150 LYS A 153 5 4 HELIX 10 10 SER A 170 LYS A 172 5 3 HELIX 11 11 ASP A 183 GLY A 194 1 12 HELIX 12 12 MET A 200 GLY A 207 1 8 HELIX 13 13 GLY A 207 GLY A 221 1 15 HELIX 14 14 ASP A 234 LEU A 236 5 3 HELIX 15 15 THR A 253 GLY A 268 1 16 HELIX 16 16 ASN A 279 GLY A 283 5 5 HELIX 17 17 THR A 285 PHE A 304 1 20 HELIX 18 18 ARG B 21 GLU B 25 5 5 HELIX 19 19 GLU B 26 ALA B 34 1 9 HELIX 20 20 GLY B 35 GLN B 43 1 9 HELIX 21 21 ASN B 69 ASN B 90 1 22 HELIX 22 22 ASP B 100 SER B 102 5 3 HELIX 23 23 LEU B 103 HIS B 115 1 13 HELIX 24 24 ASN B 139 GLY B 142 5 4 HELIX 25 25 GLN B 143 LEU B 149 1 7 HELIX 26 26 LYS B 150 LYS B 153 5 4 HELIX 27 27 SER B 170 LYS B 172 5 3 HELIX 28 28 ASP B 183 GLY B 194 1 12 HELIX 29 29 SER B 199 GLY B 221 1 23 HELIX 30 30 ASP B 234 LEU B 236 5 3 HELIX 31 31 THR B 253 GLY B 268 1 16 HELIX 32 32 ASN B 279 GLY B 283 5 5 HELIX 33 33 THR B 285 PHE B 304 1 20 SHEET 1 A 8 ASP A 46 ASP A 52 0 SHEET 2 A 8 THR A 7 GLY A 12 1 N GLY A 12 O GLY A 51 SHEET 3 A 8 ILE A 93 LEU A 97 1 O ILE A 93 N GLY A 9 SHEET 4 A 8 LEU A 270 MET A 276 1 O ILE A 275 N VAL A 96 SHEET 5 A 8 ILE A 227 ASP A 232 1 N ILE A 227 O SER A 271 SHEET 6 A 8 GLY A 119 VAL A 123 1 N VAL A 123 O ASP A 232 SHEET 7 A 8 ILE A 174 LEU A 179 1 O VAL A 175 N TRP A 122 SHEET 8 A 8 LYS A 196 SER A 199 1 O PHE A 198 N GLY A 178 SHEET 1 B 8 VAL B 47 ASP B 52 0 SHEET 2 B 8 ILE B 8 GLY B 12 1 N GLY B 12 O GLY B 51 SHEET 3 B 8 ILE B 93 LEU B 97 1 O LEU B 95 N GLY B 9 SHEET 4 B 8 LEU B 270 MET B 276 1 O LEU B 273 N VAL B 96 SHEET 5 B 8 ILE B 227 ASP B 232 1 N ILE B 227 O SER B 271 SHEET 6 B 8 GLY B 119 VAL B 123 1 N ILE B 121 O SER B 230 SHEET 7 B 8 ILE B 174 ILE B 177 1 O VAL B 175 N TRP B 122 SHEET 8 B 8 LYS B 196 PHE B 198 1 O LYS B 196 N TYR B 176 LINK OD1 ASP A 128 MN MN A 502 1555 1555 2.06 LINK OD2 ASP A 124 MN MN A 502 1555 1555 2.09 LINK OD2 ASP B 128 MN MN B 504 1555 1555 2.16 LINK OD2 ASP A 232 MN MN A 502 1555 1555 2.20 LINK MN MN B 503 O2 4U7 B 552 1555 1555 2.20 LINK MN MN A 501 O2 4U7 A 551 1555 1555 2.21 LINK ND1 HIS B 101 MN MN B 504 1555 1555 2.22 LINK OD1 ASP B 234 MN MN B 503 1555 1555 2.23 LINK ND1 HIS A 101 MN MN A 502 1555 1555 2.23 LINK OD1 ASP A 124 MN MN A 501 1555 1555 2.23 LINK OD1 ASP B 124 MN MN B 503 1555 1555 2.24 LINK MN MN B 504 O2 4U7 B 552 1555 1555 2.25 LINK OD2 ASP B 124 MN MN B 504 1555 1555 2.26 LINK ND1 HIS B 126 MN MN B 503 1555 1555 2.28 LINK OD1 ASP A 234 MN MN A 501 1555 1555 2.29 LINK OD2 ASP B 232 MN MN B 504 1555 1555 2.30 LINK MN MN A 502 O3 4U7 A 551 1555 1555 2.33 LINK OD2 ASP A 232 MN MN A 501 1555 1555 2.33 LINK OD2 ASP B 232 MN MN B 503 1555 1555 2.34 LINK ND1 HIS A 126 MN MN A 501 1555 1555 2.34 LINK MN MN A 502 O2 4U7 A 551 1555 1555 2.35 LINK MN MN B 504 O3 4U7 B 552 1555 1555 2.41 LINK OD2 ASP A 234 MN MN A 501 1555 1555 2.41 LINK OD2 ASP B 234 MN MN B 503 1555 1555 2.44 LINK MN MN A 501 O4 4U7 A 551 1555 1555 2.79 CISPEP 1 GLY A 98 GLY A 99 0 -3.00 CISPEP 2 GLY B 98 GLY B 99 0 -2.10 SITE 1 AC1 6 ASP A 124 HIS A 126 ASP A 232 ASP A 234 SITE 2 AC1 6 MN A 502 4U7 A 551 SITE 1 AC2 6 HIS A 101 ASP A 124 ASP A 128 ASP A 232 SITE 2 AC2 6 MN A 501 4U7 A 551 SITE 1 AC3 20 HIS A 101 ASP A 124 HIS A 126 ASP A 128 SITE 2 AC3 20 ASN A 130 SER A 137 HIS A 141 ASP A 183 SITE 3 AC3 20 GLU A 186 ASP A 232 ASP A 234 GLU A 277 SITE 4 AC3 20 MN A 501 MN A 502 HOH A 534 HOH A 562 SITE 5 AC3 20 HOH A 564 HOH A 566 HOH A 622 HOH A 629 SITE 1 AC4 6 ASP B 124 HIS B 126 ASP B 232 ASP B 234 SITE 2 AC4 6 MN B 504 4U7 B 552 SITE 1 AC5 6 HIS B 101 ASP B 124 ASP B 128 ASP B 232 SITE 2 AC5 6 MN B 503 4U7 B 552 SITE 1 AC6 23 HIS B 101 ASP B 124 HIS B 126 ASP B 128 SITE 2 AC6 23 ASN B 130 SER B 137 HIS B 141 GLY B 142 SITE 3 AC6 23 ASP B 183 ASP B 232 ASP B 234 GLU B 277 SITE 4 AC6 23 HOH B 395 HOH B 445 HOH B 469 HOH B 482 SITE 5 AC6 23 MN B 503 MN B 504 HOH B 518 HOH B 550 SITE 6 AC6 23 HOH B 605 HOH B 667 HOH B 685 CRYST1 90.094 90.094 69.362 90.00 90.00 120.00 P 3 6 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 0.011100 0.006408 0.000000 0.00000 SCALE2 0.000000 0.012817 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014417 0.00000 MASTER 437 0 6 33 16 0 19 6 0 0 0 50 END