10 20 30 40 50 60 70 80 3IHB - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 29-JUL-09 3IHB
TITLE CRYSTAL STRUCTURE ANALYSIS OF MGLU IN ITS TRIS AND GLUTAMATE TITLE 2 FORM
COMPND MOL_ID: 1; COMPND 2 MOLECULE: SALT-TOLERANT GLUTAMINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.5.1.2; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MICROCOCCUS LUTEUS; SOURCE 3 ORGANISM_COMMON: MICROCOCCUS LYSODEIKTICUS; SOURCE 4 ORGANISM_TAXID: 1270; SOURCE 5 STRAIN: K-3; SOURCE 6 GENE: GLUTAMINASE; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PKK223-3
KEYWDS SALT-TOLERANT GLUTAMINASE, HYDROLASE
EXPDTA X-RAY DIFFRACTION
AUTHOR K.YOSHIMUNE,Y.SHIRAKIHARA
REVDAT 2 26-JAN-10 3IHB 1 JRNL REVDAT 1 19-JAN-10 3IHB 0
JRNL AUTH K.YOSHIMUNE,Y.SHIRAKIHARA,M.WAKAYAMA,I.YUMOTO JRNL TITL CRYSTAL STRUCTURE OF SALT-TOLERANT GLUTAMINASE FROM JRNL TITL 2 MICROCOCCUS LUTEUS K-3 IN THE PRESENCE AND ABSENCE JRNL TITL 3 OF ITS PRODUCT L-GLUTAMATE AND ITS ACTIVATOR TRIS JRNL REF FEBS J. V. 277 738 2010 JRNL REFN ISSN 1742-464X JRNL PMID 20050917 JRNL DOI 10.1111/J.1742-4658.2009.07523.X
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.86 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2131955.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 46741 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) : 0.221 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2305 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7311 REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE : 0.3370 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 390 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.017 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6677 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 511 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.94 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -10.27000 REMARK 3 B22 (A**2) : -4.11000 REMARK 3 B33 (A**2) : 14.38000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.40000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.35 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) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.38 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.30 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.95 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 : 0.40 REMARK 3 BSOL : 70.71 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : GLUTMN_XPLOR_PAR.TXT REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : GLUTMN_XPLOR_TOP.TXT REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED
REMARK 4 REMARK 4 3IHB COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-JUL-09. REMARK 100 THE RCSB ID CODE IS RCSB054410.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-FEB-08 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46819 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 57.073 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.13100 REMARK 200 R SYM (I) : 0.13100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 4.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.41200 REMARK 200 R SYM FOR SHELL (I) : 0.41200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 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 3IH8 REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 4000, 100MM SODIUM ACETATE, REMARK 280 50MM HEPES, 300MM TRIS, 200MM GLUTAMATE, PH 7.2, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K
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 59.17950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 70.60100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.17950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 70.60100 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -35.0 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 -1.000000 0.000000 0.000000 118.35900 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 GLU A 451 REMARK 465 GLU A 452 REMARK 465 ALA A 453 REMARK 465 GLY A 454 REMARK 465 ALA A 455 REMARK 465 HIS A 456 REMARK 465 PRO B 449 REMARK 465 LEU B 450 REMARK 465 GLU B 451 REMARK 465 GLU B 452 REMARK 465 ALA B 453 REMARK 465 GLY B 454 REMARK 465 ALA B 455 REMARK 465 HIS B 456
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 N VAL B 125 O HOH B 671 1.69 REMARK 500 OD2 ASP B 77 O LEU B 124 2.12 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 O ASP B 310 O ASP B 310 2655 2.00 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 LEU B 124 N - CA - C ANGL. DEV. = 18.8 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 ASN A 20 68.15 -162.19 REMARK 500 TYR A 27 15.95 -67.28 REMARK 500 PHE A 39 110.61 -163.38 REMARK 500 GLN A 63 -133.35 45.26 REMARK 500 GLU A 104 -9.80 -53.54 REMARK 500 TYR A 243 -128.93 58.65 REMARK 500 VAL A 261 0.77 -60.74 REMARK 500 SER A 279 97.99 -170.02 REMARK 500 ARG A 336 -159.05 -130.54 REMARK 500 ASP A 349 7.62 -64.19 REMARK 500 LYS A 356 51.30 -119.13 REMARK 500 THR A 359 -44.49 -28.75 REMARK 500 TYR A 366 72.07 -112.40 REMARK 500 ALA A 396 -139.87 -82.46 REMARK 500 ARG A 397 -31.71 -32.81 REMARK 500 ARG A 446 91.44 -26.92 REMARK 500 PRO A 449 166.95 -42.24 REMARK 500 ASN B 20 66.13 -153.84 REMARK 500 TYR B 27 22.57 -70.90 REMARK 500 ILE B 28 109.71 -163.51 REMARK 500 PHE B 39 114.60 -165.31 REMARK 500 ASP B 55 56.81 -69.35 REMARK 500 GLN B 63 -129.62 45.22 REMARK 500 ALA B 65 -3.51 -57.97 REMARK 500 GLU B 104 -6.01 -56.44 REMARK 500 VAL B 163 41.21 -143.02 REMARK 500 TYR B 243 -135.39 57.41 REMARK 500 VAL B 261 6.82 -69.25 REMARK 500 ARG B 272 -54.06 -126.48 REMARK 500 SER B 279 105.89 -176.92 REMARK 500 ASP B 283 -163.24 -78.72 REMARK 500 ARG B 351 64.68 -54.93 REMARK 500 ALA B 354 0.52 -175.14 REMARK 500 PRO B 357 -94.72 -35.91 REMARK 500 TYR B 366 73.72 -110.58 REMARK 500 ARG B 397 33.23 -79.77 REMARK 500 ASP B 401 -157.01 -103.30 REMARK 500 GLU B 445 -103.60 -120.15 REMARK 500 ILE B 447 126.82 -18.38 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 LEU A 124 23.0 L L OUTSIDE RANGE REMARK 500 LEU B 124 20.9 L L OUTSIDE RANGE 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 704 DISTANCE = 5.75 ANGSTROMS
REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 GLU A 500 REMARK 610 GLU B 500
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLU A 500 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLU B 500 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 600 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS B 600
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IF5 RELATED DB: PDB REMARK 900 MAJOR FRAGMENT OF MICROCOCCUS GLUTAMINASE REMARK 900 RELATED ID: 3IH8 RELATED DB: PDB REMARK 900 NATIVE FORM OF MICROCOCCUS GLUTAMINASE REMARK 900 RELATED ID: 3IH9 RELATED DB: PDB REMARK 900 TRIS FORM OF MICROCOCCUS GLUTAMINASE REMARK 900 RELATED ID: 3IHA RELATED DB: PDB REMARK 900 GLUTAMATE FORM OF MICROCOCCUS GLUTAMINASE
DBREF 3IHB A 1 456 UNP Q4U1A6 Q4U1A6_MICLU 1 456 DBREF 3IHB B 1 456 UNP Q4U1A6 Q4U1A6_MICLU 1 456
SEQRES 1 A 456 MET ARG HIS PRO ILE PRO ASP TYR LEU ALA SER LEU VAL SEQRES 2 A 456 THR GLU LEU GLY ALA VAL ASN PRO GLY GLU THR ALA GLN SEQRES 3 A 456 TYR ILE PRO VAL LEU ALA GLU ALA ASP PRO ASP ARG PHE SEQRES 4 A 456 GLY ILE ALA LEU ALA THR PRO THR GLY ARG LEU HIS CYS SEQRES 5 A 456 ALA GLY ASP ALA ASP VAL GLU PHE THR ILE GLN SER ALA SEQRES 6 A 456 SER LYS PRO PHE THR TYR ALA ALA ALA LEU VAL ASP ARG SEQRES 7 A 456 GLY PHE ALA ALA VAL ASP ARG GLN VAL GLY LEU ASN PRO SEQRES 8 A 456 SER GLY GLU ALA PHE ASN GLU LEU SER LEU GLU ALA GLU SEQRES 9 A 456 SER HIS ARG PRO ASP ASN ALA MET ILE ASN ALA GLY ALA SEQRES 10 A 456 LEU ALA VAL HIS GLN LEU LEU VAL GLY PRO GLU ALA SER SEQRES 11 A 456 ARG LYS GLU ARG LEU ASP ARG ALA VAL GLU ILE MET SER SEQRES 12 A 456 LEU LEU ALA GLY ARG ARG LEU SER VAL ASP TRP GLU THR SEQRES 13 A 456 TYR GLU SER GLU MET ALA VAL SER ASP ARG ASN LEU SER SEQRES 14 A 456 LEU ALA HIS MET LEU ARG SER TYR GLY VAL LEU GLN ASP SEQRES 15 A 456 SER ALA GLU GLU ILE VAL ALA GLY TYR VAL ALA GLN CYS SEQRES 16 A 456 ALA VAL LEU VAL THR VAL LYS ASP LEU ALA VAL MET GLY SEQRES 17 A 456 ALA CYS LEU ALA THR GLY GLY ILE HIS PRO MET THR GLY SEQRES 18 A 456 GLU ARG MET LEU PRO SER ILE VAL ALA ARG ARG VAL VAL SEQRES 19 A 456 SER VAL MET THR SER SER GLY MET TYR ASP ALA ALA GLY SEQRES 20 A 456 GLN TRP LEU ALA ASP VAL GLY ILE PRO ALA LYS SER GLY SEQRES 21 A 456 VAL ALA GLY GLY VAL LEU GLY ALA LEU PRO GLY ARG VAL SEQRES 22 A 456 GLY ILE GLY VAL PHE SER PRO ARG LEU ASP GLU VAL GLY SEQRES 23 A 456 ASN SER ALA ARG GLY VAL LEU ALA CYS ARG ARG LEU SER SEQRES 24 A 456 GLU ASP PHE ARG LEU HIS LEU MET ASP GLY ASP SER LEU SEQRES 25 A 456 GLY GLY THR ALA VAL ARG PHE VAL GLU ARG GLU GLY ASP SEQRES 26 A 456 ARG VAL PHE LEU HIS LEU GLN GLY VAL ILE ARG PHE GLY SEQRES 27 A 456 GLY ALA GLU ALA VAL LEU ASP ALA LEU THR ASP LEU ARG SEQRES 28 A 456 THR GLY ALA GLU LYS PRO GLY THR GLY TRP ASP ALA ALA SEQRES 29 A 456 VAL TYR PRO ARG TRP GLN GLU ALA ALA ALA ASP ARG ALA SEQRES 30 A 456 ALA LEU SER ALA ALA THR GLY GLY GLY ALA VAL HIS GLU SEQRES 31 A 456 ALA ALA ALA ALA ALA ALA ARG ASP GLU ASN ASP GLY PRO SEQRES 32 A 456 ILE ARG THR VAL VAL LEU ASN LEU ALA ARG VAL ASP ARG SEQRES 33 A 456 ILE ASP ASP VAL GLY ARG ARG LEU ILE ALA GLU GLY VAL SEQRES 34 A 456 ARG ARG LEU GLN ALA ASP GLY VAL ARG VAL GLU VAL GLU SEQRES 35 A 456 ASP PRO GLU ARG ILE LEU PRO LEU GLU GLU ALA GLY ALA SEQRES 36 A 456 HIS SEQRES 1 B 456 MET ARG HIS PRO ILE PRO ASP TYR LEU ALA SER LEU VAL SEQRES 2 B 456 THR GLU LEU GLY ALA VAL ASN PRO GLY GLU THR ALA GLN SEQRES 3 B 456 TYR ILE PRO VAL LEU ALA GLU ALA ASP PRO ASP ARG PHE SEQRES 4 B 456 GLY ILE ALA LEU ALA THR PRO THR GLY ARG LEU HIS CYS SEQRES 5 B 456 ALA GLY ASP ALA ASP VAL GLU PHE THR ILE GLN SER ALA SEQRES 6 B 456 SER LYS PRO PHE THR TYR ALA ALA ALA LEU VAL ASP ARG SEQRES 7 B 456 GLY PHE ALA ALA VAL ASP ARG GLN VAL GLY LEU ASN PRO SEQRES 8 B 456 SER GLY GLU ALA PHE ASN GLU LEU SER LEU GLU ALA GLU SEQRES 9 B 456 SER HIS ARG PRO ASP ASN ALA MET ILE ASN ALA GLY ALA SEQRES 10 B 456 LEU ALA VAL HIS GLN LEU LEU VAL GLY PRO GLU ALA SER SEQRES 11 B 456 ARG LYS GLU ARG LEU ASP ARG ALA VAL GLU ILE MET SER SEQRES 12 B 456 LEU LEU ALA GLY ARG ARG LEU SER VAL ASP TRP GLU THR SEQRES 13 B 456 TYR GLU SER GLU MET ALA VAL SER ASP ARG ASN LEU SER SEQRES 14 B 456 LEU ALA HIS MET LEU ARG SER TYR GLY VAL LEU GLN ASP SEQRES 15 B 456 SER ALA GLU GLU ILE VAL ALA GLY TYR VAL ALA GLN CYS SEQRES 16 B 456 ALA VAL LEU VAL THR VAL LYS ASP LEU ALA VAL MET GLY SEQRES 17 B 456 ALA CYS LEU ALA THR GLY GLY ILE HIS PRO MET THR GLY SEQRES 18 B 456 GLU ARG MET LEU PRO SER ILE VAL ALA ARG ARG VAL VAL SEQRES 19 B 456 SER VAL MET THR SER SER GLY MET TYR ASP ALA ALA GLY SEQRES 20 B 456 GLN TRP LEU ALA ASP VAL GLY ILE PRO ALA LYS SER GLY SEQRES 21 B 456 VAL ALA GLY GLY VAL LEU GLY ALA LEU PRO GLY ARG VAL SEQRES 22 B 456 GLY ILE GLY VAL PHE SER PRO ARG LEU ASP GLU VAL GLY SEQRES 23 B 456 ASN SER ALA ARG GLY VAL LEU ALA CYS ARG ARG LEU SER SEQRES 24 B 456 GLU ASP PHE ARG LEU HIS LEU MET ASP GLY ASP SER LEU SEQRES 25 B 456 GLY GLY THR ALA VAL ARG PHE VAL GLU ARG GLU GLY ASP SEQRES 26 B 456 ARG VAL PHE LEU HIS LEU GLN GLY VAL ILE ARG PHE GLY SEQRES 27 B 456 GLY ALA GLU ALA VAL LEU ASP ALA LEU THR ASP LEU ARG SEQRES 28 B 456 THR GLY ALA GLU LYS PRO GLY THR GLY TRP ASP ALA ALA SEQRES 29 B 456 VAL TYR PRO ARG TRP GLN GLU ALA ALA ALA ASP ARG ALA SEQRES 30 B 456 ALA LEU SER ALA ALA THR GLY GLY GLY ALA VAL HIS GLU SEQRES 31 B 456 ALA ALA ALA ALA ALA ALA ARG ASP GLU ASN ASP GLY PRO SEQRES 32 B 456 ILE ARG THR VAL VAL LEU ASN LEU ALA ARG VAL ASP ARG SEQRES 33 B 456 ILE ASP ASP VAL GLY ARG ARG LEU ILE ALA GLU GLY VAL SEQRES 34 B 456 ARG ARG LEU GLN ALA ASP GLY VAL ARG VAL GLU VAL GLU SEQRES 35 B 456 ASP PRO GLU ARG ILE LEU PRO LEU GLU GLU ALA GLY ALA SEQRES 36 B 456 HIS
HET GLU A 500 9 HET GLU B 500 9 HET TRS A 600 8 HET TRS B 600 8
HETNAM GLU GLUTAMIC ACID HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
HETSYN TRS TRIS BUFFER
FORMUL 3 GLU 2(C5 H9 N O4) FORMUL 5 TRS 2(C4 H12 N O3 1+) FORMUL 7 HOH *511(H2 O)
HELIX 1 1 HIS A 3 GLY A 17 1 15 HELIX 2 2 ILE A 28 GLU A 33 1 6 HELIX 3 3 GLN A 63 ALA A 65 5 3 HELIX 4 4 SER A 66 GLY A 79 1 14 HELIX 5 5 GLY A 79 ARG A 85 1 7 HELIX 6 6 GLU A 98 ALA A 103 1 6 HELIX 7 7 ILE A 113 LEU A 124 1 12 HELIX 8 8 SER A 130 GLY A 147 1 18 HELIX 9 9 ASP A 153 ALA A 162 1 10 HELIX 10 10 SER A 164 TYR A 177 1 14 HELIX 11 11 SER A 183 ALA A 196 1 14 HELIX 12 12 THR A 200 THR A 213 1 14 HELIX 13 13 PRO A 226 GLY A 241 1 16 HELIX 14 14 MET A 242 ASP A 244 5 3 HELIX 15 15 ALA A 245 VAL A 253 1 9 HELIX 16 16 SER A 288 ARG A 303 1 16 HELIX 17 17 LEU A 312 THR A 315 5 4 HELIX 18 18 ARG A 336 ASP A 349 1 14 HELIX 19 19 TYR A 366 ASP A 375 1 10 HELIX 20 20 ASP A 375 GLY A 384 1 10 HELIX 21 21 VAL A 388 ALA A 395 1 8 HELIX 22 22 ALA A 396 GLY A 402 5 7 HELIX 23 23 ASP A 418 ALA A 434 1 17 HELIX 24 24 HIS B 3 GLY B 17 1 15 HELIX 25 25 ILE B 28 GLU B 33 1 6 HELIX 26 26 GLN B 63 ALA B 65 5 3 HELIX 27 27 SER B 66 GLY B 79 1 14 HELIX 28 28 GLY B 79 ARG B 85 1 7 HELIX 29 29 GLU B 98 ALA B 103 1 6 HELIX 30 30 ILE B 113 LEU B 124 1 12 HELIX 31 31 SER B 130 GLY B 147 1 18 HELIX 32 32 ASP B 153 ALA B 162 1 10 HELIX 33 33 SER B 164 TYR B 177 1 14 HELIX 34 34 SER B 183 ALA B 196 1 14 HELIX 35 35 THR B 200 THR B 213 1 14 HELIX 36 36 PRO B 226 GLY B 241 1 16 HELIX 37 37 MET B 242 ASP B 244 5 3 HELIX 38 38 ALA B 245 VAL B 253 1 9 HELIX 39 39 SER B 288 ARG B 303 1 16 HELIX 40 40 LEU B 312 THR B 315 5 4 HELIX 41 41 ARG B 336 ASP B 349 1 14 HELIX 42 42 TYR B 366 ASP B 375 1 10 HELIX 43 43 ASP B 375 ALA B 382 1 8 HELIX 44 44 VAL B 388 ALA B 395 1 8 HELIX 45 45 ASP B 418 ALA B 434 1 17
SHEET 1 A 5 LEU A 50 GLY A 54 0 SHEET 2 A 5 GLY A 40 ALA A 44 -1 N LEU A 43 O HIS A 51 SHEET 3 A 5 VAL A 273 PHE A 278 -1 O GLY A 274 N ALA A 44 SHEET 4 A 5 GLY A 264 LEU A 269 -1 N LEU A 269 O VAL A 273 SHEET 5 A 5 ALA A 257 SER A 259 -1 N LYS A 258 O LEU A 266 SHEET 1 B 2 PHE A 60 THR A 61 0 SHEET 2 B 2 LEU A 198 VAL A 199 -1 O VAL A 199 N PHE A 60 SHEET 1 C 4 VAL A 317 GLU A 321 0 SHEET 2 C 4 ARG A 326 LEU A 331 -1 O PHE A 328 N GLU A 321 SHEET 3 C 4 THR A 406 ASN A 410 1 O VAL A 408 N VAL A 327 SHEET 4 C 4 ARG A 438 GLU A 442 1 O ARG A 438 N VAL A 407 SHEET 1 D 2 GLY A 333 ILE A 335 0 SHEET 2 D 2 VAL A 414 ILE A 417 1 O ARG A 416 N ILE A 335 SHEET 1 E 5 LEU B 50 GLY B 54 0 SHEET 2 E 5 GLY B 40 ALA B 44 -1 N LEU B 43 O HIS B 51 SHEET 3 E 5 VAL B 273 PHE B 278 -1 O PHE B 278 N GLY B 40 SHEET 4 E 5 GLY B 264 LEU B 269 -1 N GLY B 267 O ILE B 275 SHEET 5 E 5 ALA B 257 SER B 259 -1 N LYS B 258 O LEU B 266 SHEET 1 F 2 PHE B 60 THR B 61 0 SHEET 2 F 2 LEU B 198 VAL B 199 -1 O VAL B 199 N PHE B 60 SHEET 1 G 4 VAL B 317 ARG B 322 0 SHEET 2 G 4 ARG B 326 ILE B 335 -1 O PHE B 328 N GLU B 321 SHEET 3 G 4 THR B 406 ILE B 417 1 O VAL B 408 N LEU B 329 SHEET 4 G 4 ARG B 438 GLU B 442 1 O GLU B 442 N LEU B 409
SITE 1 AC1 10 GLN A 63 SER A 64 ASN A 114 GLU A 160 SITE 2 AC1 10 ASN A 167 CYS A 195 GLY A 260 VAL A 261 SITE 3 AC1 10 HOH A 486 HOH A 622 SITE 1 AC2 9 GLN B 63 SER B 64 ASN B 114 GLU B 160 SITE 2 AC2 9 ASN B 167 CYS B 195 GLY B 260 VAL B 261 SITE 3 AC2 9 HOH B 508 SITE 1 AC3 9 ARG A 223 PRO A 226 SER A 227 HOH A 507 SITE 2 AC3 9 HOH A 508 HOH A 509 HOH A 510 HOH A 633 SITE 3 AC3 9 HOH A 640 SITE 1 AC4 4 ARG B 223 PRO B 226 SER B 227 ILE B 228
CRYST1 118.359 141.202 76.115 90.00 105.37 90.00 C 1 2 1 8
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 0.008449 0.000000 0.002323 0.00000
SCALE2 0.000000 0.007082 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013625 0.00000