HEADER OXIDOREDUCTASE 26-OCT-06 2E1M TITLE CRYSTAL STRUCTURE OF L-GLUTAMATE OXIDASE FROM STREPTOMYCES SP. X-119-6 COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-GLUTAMATE OXIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN, RESIDUES 15-390; COMPND 5 EC: 1.4.3.11; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: L-GLUTAMATE OXIDASE; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: RESIDUES 391-520; COMPND 11 EC: 1.4.3.11; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: L-GLUTAMATE OXIDASE; COMPND 15 CHAIN: C; COMPND 16 FRAGMENT: C-TERMINAL DOMAIN, RESIDUES 521-701; COMPND 17 EC: 1.4.3.11; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES SP.; SOURCE 3 ORGANISM_TAXID: 196112; SOURCE 4 STRAIN: X-119-6; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PKK223-3; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: STREPTOMYCES SP.; SOURCE 12 ORGANISM_TAXID: 196112; SOURCE 13 STRAIN: X-119-6; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PKK223-3; SOURCE 19 MOL_ID: 3; SOURCE 20 ORGANISM_SCIENTIFIC: STREPTOMYCES SP.; SOURCE 21 ORGANISM_TAXID: 196112; SOURCE 22 STRAIN: X-119-6; SOURCE 23 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 24 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 25 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 26 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 27 EXPRESSION_SYSTEM_PLASMID: PKK223-3 KEYWDS L-AMINO ACID OXIDASE, L-GLUTAMATE OXIDASE, FAD, L-GOX, FLAVOPROTEIN, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.SASAKI,A.KASHIMA,C.SAKAGUCHI,H.MIZUNO,J.ARIMA,H.KUSAKABE,T.TAMURA, AUTHOR 2 S.SUGIO,K.INAGAKI REVDAT 6 25-OCT-23 2E1M 1 REMARK REVDAT 5 13-JUL-11 2E1M 1 VERSN REVDAT 4 07-JUL-09 2E1M 1 JRNL REVDAT 3 30-JUN-09 2E1M 1 JRNL REVDAT 2 24-FEB-09 2E1M 1 VERSN REVDAT 1 13-NOV-07 2E1M 0 JRNL AUTH J.ARIMA,C.SASAKI,C.SAKAGUCHI,H.MIZUNO,T.TAMURA,A.KASHIMA, JRNL AUTH 2 H.KUSAKABE,S.SUGIO,K.INAGAKI JRNL TITL STRUCTURAL CHARACTERIZATION OF L-GLUTAMATE OXIDASE FROM JRNL TITL 2 STREPTOMYCES SP. X-119-6 JRNL REF FEBS J. V. 276 4318 2009 JRNL REFN ISSN 1742-464X JRNL PMID 19531050 JRNL DOI 10.1111/J.1742-4658.2009.07103.X REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2982255.120 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 19146 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) : 0.248 REMARK 3 FREE R VALUE : 0.308 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 929 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.010 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.85 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2925 REMARK 3 BIN R VALUE (WORKING SET) : 0.4100 REMARK 3 BIN FREE R VALUE : 0.4610 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 140 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.039 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4739 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 68 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 75.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.40 REMARK 3 ESD FROM SIGMAA (A) : 0.49 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) : 0.54 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.62 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.960 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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: NULL REMARK 4 REMARK 4 2E1M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-OCT-06. REMARK 100 THE DEPOSITION ID IS D_1000026112. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 10.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL24XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24388 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.0430 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.779 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1F8R REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM CAPS-BUFFER, 1200MM NAH2PO4, REMARK 280 800MM K2HPO4, 50MM LISO4, 5MM DTT, 20MM KPB, 10MG/ML GOX, PH REMARK 280 10.50, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 278K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 56.25400 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 112.50800 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 84.38100 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 140.63500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 28.12700 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 56.25400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 112.50800 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 140.63500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 84.38100 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 28.12700 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 45710 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -259.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 61.93750 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 107.27890 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 140.63500 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 ALA A 15 REMARK 465 ASN A 16 REMARK 465 GLU A 17 REMARK 465 ARG A 364 REMARK 465 ASP A 365 REMARK 465 GLY A 366 REMARK 465 HIS A 367 REMARK 465 HIS A 368 REMARK 465 GLY A 369 REMARK 465 GLU A 370 REMARK 465 LEU A 371 REMARK 465 THR A 372 REMARK 465 GLY A 373 REMARK 465 PRO A 374 REMARK 465 GLY A 375 REMARK 465 GLY A 376 REMARK 465 GLY A 387 REMARK 465 GLU A 388 REMARK 465 PRO A 389 REMARK 465 TYR A 390 REMARK 465 LEU B 481 REMARK 465 ALA B 482 REMARK 465 LEU B 483 REMARK 465 PRO B 484 REMARK 465 GLN B 485 REMARK 465 SER B 486 REMARK 465 VAL B 487 REMARK 465 ARG B 488 REMARK 465 ASN B 489 REMARK 465 LEU B 490 REMARK 465 PRO B 491 REMARK 465 THR B 492 REMARK 465 GLY B 493 REMARK 465 LEU B 494 REMARK 465 LEU B 495 REMARK 465 GLY B 496 REMARK 465 ALA B 497 REMARK 465 HIS B 498 REMARK 465 PRO B 499 REMARK 465 SER B 500 REMARK 465 VAL B 501 REMARK 465 ASP B 502 REMARK 465 GLU B 503 REMARK 465 SER B 504 REMARK 465 ARG B 505 REMARK 465 ILE B 506 REMARK 465 GLY B 507 REMARK 465 GLU B 508 REMARK 465 GLU B 509 REMARK 465 GLN B 510 REMARK 465 VAL B 511 REMARK 465 GLU B 512 REMARK 465 TYR B 513 REMARK 465 TYR B 514 REMARK 465 ARG B 515 REMARK 465 ASN B 516 REMARK 465 SER B 517 REMARK 465 GLU B 518 REMARK 465 LEU B 519 REMARK 465 ARG B 520 REMARK 465 GLY C 521 REMARK 465 GLY C 522 REMARK 465 GLY C 674 REMARK 465 ASP C 675 REMARK 465 THR C 676 REMARK 465 GLY C 677 REMARK 465 VAL C 678 REMARK 465 THR C 679 REMARK 465 ALA C 680 REMARK 465 ALA C 681 REMARK 465 ALA C 682 REMARK 465 GLY C 683 REMARK 465 ARG C 684 REMARK 465 ARG C 685 REMARK 465 GLY C 686 REMARK 465 ALA C 687 REMARK 465 ALA C 688 REMARK 465 ALA C 689 REMARK 465 ALA C 690 REMARK 465 THR C 691 REMARK 465 GLU C 692 REMARK 465 PRO C 693 REMARK 465 MET C 694 REMARK 465 ARG C 695 REMARK 465 GLU C 696 REMARK 465 GLU C 697 REMARK 465 ALA C 698 REMARK 465 LEU C 699 REMARK 465 THR C 700 REMARK 465 SER C 701 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 PRO A 130 C - N - CA ANGL. DEV. = 11.8 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 LEU A 29 53.84 72.21 REMARK 500 ALA A 33 -48.10 -28.57 REMARK 500 PRO A 34 -77.99 -52.85 REMARK 500 ASP A 49 -81.90 -73.91 REMARK 500 ASN A 50 -61.68 -90.42 REMARK 500 LEU A 52 106.11 -59.26 REMARK 500 ASN A 53 -87.89 -45.21 REMARK 500 PRO A 55 75.13 -55.31 REMARK 500 PRO A 57 99.62 -43.61 REMARK 500 ALA A 66 40.21 -101.21 REMARK 500 LYS A 105 107.03 -28.13 REMARK 500 PHE A 128 30.56 -79.41 REMARK 500 PRO A 153 -4.30 -53.01 REMARK 500 ASP A 172 88.45 -0.49 REMARK 500 THR A 175 -146.96 -143.95 REMARK 500 TRP A 176 134.73 172.69 REMARK 500 PRO A 181 172.92 -50.17 REMARK 500 PRO A 183 -4.87 -57.30 REMARK 500 ASN A 192 59.25 -118.03 REMARK 500 ARG A 200 -9.80 61.46 REMARK 500 SER A 214 -78.71 -38.80 REMARK 500 HIS A 220 30.76 72.34 REMARK 500 ARG A 227 32.24 -90.21 REMARK 500 PHE A 259 -67.19 -2.56 REMARK 500 ARG A 283 -79.89 -70.03 REMARK 500 ASN A 301 87.57 7.97 REMARK 500 MET A 302 13.82 -150.28 REMARK 500 LEU A 306 -44.88 -14.90 REMARK 500 ALA A 309 136.76 -38.84 REMARK 500 ARG A 317 102.35 -17.20 REMARK 500 SER A 318 15.89 -66.83 REMARK 500 ASP A 319 -103.84 -73.81 REMARK 500 ILE A 320 -86.68 32.68 REMARK 500 ALA A 324 -174.83 -60.41 REMARK 500 LEU A 344 33.85 -67.99 REMARK 500 GLN B 394 117.66 -169.73 REMARK 500 PHE B 449 151.40 -41.11 REMARK 500 ASP B 475 150.94 -47.87 REMARK 500 ARG C 541 -81.67 62.22 REMARK 500 SER C 565 -124.99 28.82 REMARK 500 ASP C 576 -71.29 -20.22 REMARK 500 PRO C 612 1.65 -66.44 REMARK 500 CYS C 615 24.77 47.60 REMARK 500 HIS C 624 -20.26 76.51 REMARK 500 PHE C 629 14.75 -162.00 REMARK 500 GLU C 645 -51.98 -23.35 REMARK 500 PRO C 672 108.48 -54.21 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 PO4 A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 801 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PRECURSOR OF L-GLUTAMETE OXIDASE IS EXPRESSED AS ONE REMARK 999 POLYPEPTIDE CHAIN AND MATURED BY PROTEOLYSIS OF REMARK 999 ACTINASE E. WE USED THE MATURED ENZYME FOR THIS STUDY. REMARK 999 THE MATURED ENZYME TAKES THREE CHAINS. THE N TERMINAL OF REMARK 999 CHAIN A IS ALA15, THAT OF CHAIN B IS GLY391 AND THAT OF REMARK 999 CHAIN C IS ALA521. BUT WE DID NOT DO THE C-TERMINAL REMARK 999 AMINO ACID ANALYSIS UNTIL NOW. DBREF 2E1M A 15 390 UNP Q8L3C7 Q8L3C7_9ACTO 15 390 DBREF 2E1M B 391 520 UNP Q8L3C7 Q8L3C7_9ACTO 391 520 DBREF 2E1M C 521 701 UNP Q8L3C7 Q8L3C7_9ACTO 521 701 SEQRES 1 A 376 ALA ASN GLU MET THR TYR GLU GLN LEU ALA ARG GLU LEU SEQRES 2 A 376 LEU LEU VAL GLY PRO ALA PRO THR ASN GLU ASP LEU LYS SEQRES 3 A 376 LEU ARG TYR LEU ASP VAL LEU ILE ASP ASN GLY LEU ASN SEQRES 4 A 376 PRO PRO GLY PRO PRO LYS ARG ILE LEU ILE VAL GLY ALA SEQRES 5 A 376 GLY ILE ALA GLY LEU VAL ALA GLY ASP LEU LEU THR ARG SEQRES 6 A 376 ALA GLY HIS ASP VAL THR ILE LEU GLU ALA ASN ALA ASN SEQRES 7 A 376 ARG VAL GLY GLY ARG ILE LYS THR PHE HIS ALA LYS LYS SEQRES 8 A 376 GLY GLU PRO SER PRO PHE ALA ASP PRO ALA GLN TYR ALA SEQRES 9 A 376 GLU ALA GLY ALA MET ARG LEU PRO SER PHE HIS PRO LEU SEQRES 10 A 376 THR LEU ALA LEU ILE ASP LYS LEU GLY LEU LYS ARG ARG SEQRES 11 A 376 LEU PHE PHE ASN VAL ASP ILE ASP PRO GLN THR GLY ASN SEQRES 12 A 376 GLN ASP ALA PRO VAL PRO PRO VAL PHE TYR LYS SER PHE SEQRES 13 A 376 LYS ASP GLY LYS THR TRP THR ASN GLY ALA PRO SER PRO SEQRES 14 A 376 GLU PHE LYS GLU PRO ASP LYS ARG ASN HIS THR TRP ILE SEQRES 15 A 376 ARG THR ASN ARG GLU GLN VAL ARG ARG ALA GLN TYR ALA SEQRES 16 A 376 THR ASP PRO SER SER ILE ASN GLU GLY PHE HIS LEU THR SEQRES 17 A 376 GLY CYS GLU THR ARG LEU THR VAL SER ASP MET VAL ASN SEQRES 18 A 376 GLN ALA LEU GLU PRO VAL ARG ASP TYR TYR SER VAL LYS SEQRES 19 A 376 GLN ASP ASP GLY THR ARG VAL ASN LYS PRO PHE LYS GLU SEQRES 20 A 376 TRP LEU ALA GLY TRP ALA ASP VAL VAL ARG ASP PHE ASP SEQRES 21 A 376 GLY TYR SER MET GLY ARG PHE LEU ARG GLU TYR ALA GLU SEQRES 22 A 376 PHE SER ASP GLU ALA VAL GLU ALA ILE GLY THR ILE GLU SEQRES 23 A 376 ASN MET THR SER ARG LEU HIS LEU ALA PHE PHE HIS SER SEQRES 24 A 376 PHE LEU GLY ARG SER ASP ILE ASP PRO ARG ALA THR TYR SEQRES 25 A 376 TRP GLU ILE GLU GLY GLY SER ARG MET LEU PRO GLU THR SEQRES 26 A 376 LEU ALA LYS ASP LEU ARG ASP GLN ILE VAL MET GLY GLN SEQRES 27 A 376 ARG MET VAL ARG LEU GLU TYR TYR ASP PRO GLY ARG ASP SEQRES 28 A 376 GLY HIS HIS GLY GLU LEU THR GLY PRO GLY GLY PRO ALA SEQRES 29 A 376 VAL ALA ILE GLN THR VAL PRO GLU GLY GLU PRO TYR SEQRES 1 B 130 ALA ALA THR GLN THR TRP THR GLY ASP LEU ALA ILE VAL SEQRES 2 B 130 THR ILE PRO PHE SER SER LEU ARG PHE VAL LYS VAL THR SEQRES 3 B 130 PRO PRO PHE SER TYR LYS LYS ARG ARG ALA VAL ILE GLU SEQRES 4 B 130 THR HIS TYR ASP GLN ALA THR LYS VAL LEU LEU GLU PHE SEQRES 5 B 130 SER ARG ARG TRP TRP GLU PHE THR GLU ALA ASP TRP LYS SEQRES 6 B 130 ARG GLU LEU ASP ALA ILE ALA PRO GLY LEU TYR ASP TYR SEQRES 7 B 130 TYR GLN GLN TRP GLY GLU ASP ASP ALA GLU ALA ALA LEU SEQRES 8 B 130 ALA LEU PRO GLN SER VAL ARG ASN LEU PRO THR GLY LEU SEQRES 9 B 130 LEU GLY ALA HIS PRO SER VAL ASP GLU SER ARG ILE GLY SEQRES 10 B 130 GLU GLU GLN VAL GLU TYR TYR ARG ASN SER GLU LEU ARG SEQRES 1 C 181 GLY GLY VAL ARG PRO ALA THR ASN ALA TYR GLY GLY GLY SEQRES 2 C 181 SER THR THR ASP ASN PRO ASN ARG PHE MET TYR TYR PRO SEQRES 3 C 181 SER HIS PRO VAL PRO GLY THR GLN GLY GLY VAL VAL LEU SEQRES 4 C 181 ALA ALA TYR SER TRP SER ASP ASP ALA ALA ARG TRP ASP SEQRES 5 C 181 SER PHE ASP ASP ALA GLU ARG TYR GLY TYR ALA LEU GLU SEQRES 6 C 181 ASN LEU GLN SER VAL HIS GLY ARG ARG ILE GLU VAL PHE SEQRES 7 C 181 TYR THR GLY ALA GLY GLN THR GLN SER TRP LEU ARG ASP SEQRES 8 C 181 PRO TYR ALA CYS GLY GLU ALA ALA VAL TYR THR PRO HIS SEQRES 9 C 181 GLN MET THR ALA PHE HIS LEU ASP VAL VAL ARG PRO GLU SEQRES 10 C 181 GLY PRO VAL TYR PHE ALA GLY GLU HIS VAL SER LEU LYS SEQRES 11 C 181 HIS ALA TRP ILE GLU GLY ALA VAL GLU THR ALA VAL ARG SEQRES 12 C 181 ALA ALA ILE ALA VAL ASN GLU ALA PRO VAL GLY ASP THR SEQRES 13 C 181 GLY VAL THR ALA ALA ALA GLY ARG ARG GLY ALA ALA ALA SEQRES 14 C 181 ALA THR GLU PRO MET ARG GLU GLU ALA LEU THR SER HET PO4 A 901 5 HET PO4 A 902 5 HET PO4 A 903 5 HET FAD A 801 53 HETNAM PO4 PHOSPHATE ION HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE FORMUL 4 PO4 3(O4 P 3-) FORMUL 7 FAD C27 H33 N9 O15 P2 HELIX 1 1 MET A 18 LEU A 29 1 12 HELIX 2 2 ASP A 38 ASP A 49 1 12 HELIX 3 3 GLY A 67 ALA A 80 1 14 HELIX 4 4 HIS A 129 LEU A 139 1 11 HELIX 5 5 ARG A 205 ASP A 211 1 7 HELIX 6 6 PRO A 212 PHE A 219 1 8 HELIX 7 7 THR A 222 LEU A 228 5 7 HELIX 8 8 THR A 229 TYR A 245 1 17 HELIX 9 9 PRO A 258 ASP A 274 1 17 HELIX 10 10 SER A 277 TYR A 285 1 9 HELIX 11 11 SER A 289 GLU A 300 1 12 HELIX 12 12 ALA A 309 ARG A 317 1 9 HELIX 13 13 ARG A 334 LEU A 344 1 11 HELIX 14 14 PRO B 406 ARG B 411 1 6 HELIX 15 15 SER B 420 THR B 430 1 11 HELIX 16 16 ARG B 445 PHE B 449 5 5 HELIX 17 17 THR B 450 ALA B 462 1 13 HELIX 18 18 GLY B 464 GLY B 473 1 10 HELIX 19 19 SER C 565 ASP C 572 1 8 HELIX 20 20 ARG C 579 GLY C 592 1 14 HELIX 21 21 ARG C 593 VAL C 597 5 5 HELIX 22 22 HIS C 624 ARG C 635 1 12 HELIX 23 23 GLY C 644 SER C 648 5 5 HELIX 24 24 TRP C 653 GLU C 670 1 18 SHEET 1 A 5 ILE A 348 VAL A 349 0 SHEET 2 A 5 ASP A 83 LEU A 87 1 N ILE A 86 O VAL A 349 SHEET 3 A 5 ARG A 60 VAL A 64 1 N ILE A 61 O ASP A 83 SHEET 4 A 5 LEU B 400 VAL B 403 1 O ILE B 402 N LEU A 62 SHEET 5 A 5 VAL C 640 PHE C 642 1 O TYR C 641 N ALA B 401 SHEET 1 B 2 THR A 100 PHE A 101 0 SHEET 2 B 2 ALA A 118 GLU A 119 -1 O ALA A 118 N PHE A 101 SHEET 1 C 3 LEU A 125 PRO A 126 0 SHEET 2 C 3 TYR A 326 ILE A 329 -1 O TRP A 327 N LEU A 125 SHEET 3 C 3 ARG A 143 PHE A 146 -1 N ARG A 144 O GLU A 328 SHEET 1 D 2 PHE A 166 LYS A 168 0 SHEET 2 D 2 THR A 175 THR A 177 -1 O TRP A 176 N TYR A 167 SHEET 1 E 7 GLU A 201 ARG A 204 0 SHEET 2 E 7 TRP A 195 THR A 198 -1 N ILE A 196 O VAL A 203 SHEET 3 E 7 GLY C 533 THR C 536 1 O THR C 535 N ARG A 197 SHEET 4 E 7 PHE C 542 TYR C 544 -1 O MET C 543 N SER C 534 SHEET 5 E 7 GLY C 556 TRP C 564 -1 O LEU C 559 N TYR C 544 SHEET 6 E 7 ALA B 435 PHE B 442 -1 N VAL B 438 O ALA C 561 SHEET 7 E 7 TYR C 599 SER C 607 -1 O GLN C 604 N LEU B 439 SHEET 1 F 2 SER A 246 GLN A 249 0 SHEET 2 F 2 THR A 253 ASN A 256 -1 O THR A 253 N GLN A 249 SHEET 1 G 4 GLN B 394 GLY B 398 0 SHEET 2 G 4 VAL A 379 PRO A 385 -1 N ILE A 381 O TRP B 396 SHEET 3 G 4 GLN A 352 TYR A 359 -1 N GLU A 358 O ALA A 380 SHEET 4 G 4 LYS B 414 THR B 416 1 O LYS B 414 N VAL A 355 SHEET 1 H 2 TYR B 432 ASP B 433 0 SHEET 2 H 2 ALA C 618 ALA C 619 -1 O ALA C 618 N ASP B 433 CISPEP 1 THR B 416 PRO B 417 0 -0.21 SITE 1 AC1 4 ASN A 90 ARG A 93 LYS A 99 ASP C 611 SITE 1 AC2 3 HIS A 220 TYR B 421 ARG B 424 SITE 1 AC3 6 SER A 277 ARG A 283 LEU A 306 HIS A 307 SITE 2 AC3 6 THR C 622 PRO C 623 SITE 1 AC4 28 GLY A 65 GLY A 67 ILE A 68 ALA A 69 SITE 2 AC4 28 GLU A 88 ALA A 89 GLY A 95 GLY A 96 SITE 3 AC4 28 ARG A 97 ILE A 98 GLY A 121 ALA A 122 SITE 4 AC4 28 MET A 123 ARG A 124 GLN A 352 ARG A 353 SITE 5 AC4 28 MET A 354 ILE B 405 SER B 409 TRP C 608 SITE 6 AC4 28 TYR C 613 GLU C 617 GLY C 644 GLU C 645 SITE 7 AC4 28 ALA C 652 TRP C 653 ILE C 654 ALA C 657 CRYST1 123.875 123.875 168.762 90.00 90.00 120.00 P 61 2 2 12 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 0.008073 0.004661 0.000000 0.00000 SCALE2 0.000000 0.009321 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005926 0.00000