HEADER HYDROLASE 05-FEB-00 1EF2 TITLE CRYSTAL STRUCTURE OF MANGANESE-SUBSTITUTED KLEBSIELLA AEROGENES UREASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UREASE ALPHA SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 EC: 3.5.1.5; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: UREASE BETA SUBUNIT; COMPND 8 CHAIN: B; COMPND 9 EC: 3.5.1.5; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: UREASE GAMMA SUBUNIT; COMPND 13 CHAIN: C; COMPND 14 EC: 3.5.1.5; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA AEROGENES; SOURCE 3 ORGANISM_TAXID: 28451; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: KLEBSIELLA AEROGENES; SOURCE 8 ORGANISM_TAXID: 28451; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: KLEBSIELLA AEROGENES; SOURCE 13 ORGANISM_TAXID: 28451; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA-BETA BARREL, METALLOENZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.YAMAGUCHI,N.J.COSPER,C.STALHANDSKE,R.A.SCOTT,M.A.PEARSON, AUTHOR 2 P.A.KARPLUS,R.P.HAUSINGER REVDAT 3 13-JUL-11 1EF2 1 VERSN REVDAT 2 24-FEB-09 1EF2 1 VERSN REVDAT 1 09-MAR-00 1EF2 0 JRNL AUTH K.YAMAGUCHI,N.J.COSPER,C.STALHANDSKE,R.A.SCOTT,M.A.PEARSON, JRNL AUTH 2 P.A.KARPLUS,R.P.HAUSINGER JRNL TITL CHARACTERIZATION OF METAL-SUBSTITUTED KLEBSIELLA AEROGENES JRNL TITL 2 UREASE. JRNL REF J.BIOL.INORG.CHEM. V. 4 468 1999 JRNL REFN ISSN 0949-8257 JRNL PMID 10555581 JRNL DOI 10.1007/S007750050333 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5790 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1EF2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-FEB-00. REMARK 100 THE RCSB ID CODE IS RCSB010514. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 7.5 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 : NULL 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 : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27559 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.32200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LITHIUM SULFATE, HEPES, EDTA, PH 7.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z+1/2 REMARK 290 14555 -X,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y,-Z REMARK 290 16555 X,-Y,-Z+1/2 REMARK 290 17555 Z+1/2,X+1/2,Y+1/2 REMARK 290 18555 Z,-X,-Y+1/2 REMARK 290 19555 -Z,-X+1/2,Y REMARK 290 20555 -Z+1/2,X,-Y REMARK 290 21555 Y+1/2,Z+1/2,X+1/2 REMARK 290 22555 -Y+1/2,Z,-X REMARK 290 23555 Y,-Z,-X+1/2 REMARK 290 24555 -Y,-Z+1/2,X 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 85.40000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 85.40000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 85.40000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 85.40000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 85.40000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 85.40000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 85.40000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 85.40000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 85.40000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 85.40000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 85.40000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 85.40000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 85.40000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 85.40000 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 85.40000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 85.40000 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 85.40000 REMARK 290 SMTRY1 17 0.000000 0.000000 1.000000 85.40000 REMARK 290 SMTRY2 17 1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY3 17 0.000000 1.000000 0.000000 85.40000 REMARK 290 SMTRY1 18 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 18 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 18 0.000000 -1.000000 0.000000 85.40000 REMARK 290 SMTRY1 19 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 19 -1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY3 19 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 20 0.000000 0.000000 -1.000000 85.40000 REMARK 290 SMTRY2 20 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 20 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 21 0.000000 1.000000 0.000000 85.40000 REMARK 290 SMTRY2 21 0.000000 0.000000 1.000000 85.40000 REMARK 290 SMTRY3 21 1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY1 22 0.000000 -1.000000 0.000000 85.40000 REMARK 290 SMTRY2 22 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 22 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 23 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 23 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 23 -1.000000 0.000000 0.000000 85.40000 REMARK 290 SMTRY1 24 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 24 0.000000 0.000000 -1.000000 85.40000 REMARK 290 SMTRY3 24 1.000000 0.000000 0.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: NONAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: NONAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 48150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 55260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -284.0 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 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 3 1.000000 0.000000 0.000000 0.00000 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 ALA A1024 -132.80 53.12 REMARK 500 LYS A1049 -168.49 -79.69 REMARK 500 ILE A1051 79.17 -69.09 REMARK 500 MET A1055 -105.05 -112.47 REMARK 500 ASN A1107 26.65 49.64 REMARK 500 HIS A1272 64.20 33.17 REMARK 500 HIS A1280 117.70 -39.66 REMARK 500 SER A1359 -65.24 -96.90 REMARK 500 ASP A1360 51.80 85.57 REMARK 500 ALA A1363 58.40 -147.35 REMARK 500 MET A1364 47.78 79.26 REMARK 500 THR A1408 -93.97 -126.44 REMARK 500 VAL A1442 -60.29 -108.42 REMARK 500 GLN A1539 -61.71 -99.74 REMARK 500 ALA A1561 -113.13 -132.38 REMARK 500 ALA B2085 -137.85 -124.29 REMARK 500 PHE B2093 -119.10 65.59 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 ASN A1299 21.4 L L OUTSIDE RANGE REMARK 500 HIS A1312 22.4 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL 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 A4774 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 KCX A1217 OQ1 REMARK 620 2 HIS A1246 ND1 97.2 REMARK 620 3 HIS A1272 NE2 96.7 87.5 REMARK 620 4 HOH A 500 O 105.1 151.9 106.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A4775 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 KCX A1217 OQ2 REMARK 620 2 HIS A1136 NE2 94.7 REMARK 620 3 ASP A1360 OD2 162.0 77.3 REMARK 620 4 HOH A 500 O 109.9 134.5 86.7 REMARK 620 5 HOH A 502 O 128.4 86.2 67.7 48.5 REMARK 620 6 HIS A1134 NE2 90.2 118.8 80.0 99.4 133.7 REMARK 620 N 1 2 3 4 5 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 4774 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 4775 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FWJ RELATED DB: PDB REMARK 900 WILD-TYPE KLEBSIELLA AEROGENES UREASE DBREF 1EF2 A 1002 1567 UNP P18314 URE1_KLEAE 2 567 DBREF 1EF2 B 2001 2101 UNP P18315 URE2_KLEAE 1 101 DBREF 1EF2 C 3001 3100 UNP P18316 URE3_KLEAE 1 100 SEQRES 1 A 566 SER ASN ILE SER ARG GLN ALA TYR ALA ASP MET PHE GLY SEQRES 2 A 566 PRO THR VAL GLY ASP LYS VAL ARG LEU ALA ASP THR GLU SEQRES 3 A 566 LEU TRP ILE GLU VAL GLU ASP ASP LEU THR THR TYR GLY SEQRES 4 A 566 GLU GLU VAL LYS PHE GLY GLY GLY LYS VAL ILE ARG ASP SEQRES 5 A 566 GLY MET GLY GLN GLY GLN MET LEU ALA ALA ASP CYS VAL SEQRES 6 A 566 ASP LEU VAL LEU THR ASN ALA LEU ILE VAL ASP HIS TRP SEQRES 7 A 566 GLY ILE VAL LYS ALA ASP ILE GLY VAL LYS ASP GLY ARG SEQRES 8 A 566 ILE PHE ALA ILE GLY LYS ALA GLY ASN PRO ASP ILE GLN SEQRES 9 A 566 PRO ASN VAL THR ILE PRO ILE GLY ALA ALA THR GLU VAL SEQRES 10 A 566 ILE ALA ALA GLU GLY LYS ILE VAL THR ALA GLY GLY ILE SEQRES 11 A 566 ASP THR HIS ILE HIS TRP ILE CYS PRO GLN GLN ALA GLU SEQRES 12 A 566 GLU ALA LEU VAL SER GLY VAL THR THR MET VAL GLY GLY SEQRES 13 A 566 GLY THR GLY PRO ALA ALA GLY THR HIS ALA THR THR CYS SEQRES 14 A 566 THR PRO GLY PRO TRP TYR ILE SER ARG MET LEU GLN ALA SEQRES 15 A 566 ALA ASP SER LEU PRO VAL ASN ILE GLY LEU LEU GLY LYS SEQRES 16 A 566 GLY ASN VAL SER GLN PRO ASP ALA LEU ARG GLU GLN VAL SEQRES 17 A 566 ALA ALA GLY VAL ILE GLY LEU KCX ILE HIS GLU ASP TRP SEQRES 18 A 566 GLY ALA THR PRO ALA ALA ILE ASP CYS ALA LEU THR VAL SEQRES 19 A 566 ALA ASP GLU MET ASP ILE GLN VAL ALA LEU HIS SER ASP SEQRES 20 A 566 THR LEU ASN GLU SER GLY PHE VAL GLU ASP THR LEU ALA SEQRES 21 A 566 ALA ILE GLY GLY ARG THR ILE HIS THR PHE HIS THR GLU SEQRES 22 A 566 GLY ALA GLY GLY GLY HIS ALA PRO ASP ILE ILE THR ALA SEQRES 23 A 566 CYS ALA HIS PRO ASN ILE LEU PRO SER SER THR ASN PRO SEQRES 24 A 566 THR LEU PRO TYR THR LEU ASN THR ILE ASP GLU HIS LEU SEQRES 25 A 566 ASP MET LEU MET VAL CYS HIS HIS LEU ASP PRO ASP ILE SEQRES 26 A 566 ALA GLU ASP VAL ALA PHE ALA GLU SER ARG ILE ARG ARG SEQRES 27 A 566 GLU THR ILE ALA ALA GLU ASP VAL LEU HIS ASP LEU GLY SEQRES 28 A 566 ALA PHE SER LEU THR SER SER ASP SER GLN ALA MET GLY SEQRES 29 A 566 ARG VAL GLY GLU VAL ILE LEU ARG THR TRP GLN VAL ALA SEQRES 30 A 566 HIS ARG MET LYS VAL GLN ARG GLY ALA LEU ALA GLU GLU SEQRES 31 A 566 THR GLY ASP ASN ASP ASN PHE ARG VAL LYS ARG TYR ILE SEQRES 32 A 566 ALA LYS TYR THR ILE ASN PRO ALA LEU THR HIS GLY ILE SEQRES 33 A 566 ALA HIS GLU VAL GLY SER ILE GLU VAL GLY LYS LEU ALA SEQRES 34 A 566 ASP LEU VAL VAL TRP SER PRO ALA PHE PHE GLY VAL LYS SEQRES 35 A 566 PRO ALA THR VAL ILE LYS GLY GLY MET ILE ALA ILE ALA SEQRES 36 A 566 PRO MET GLY ASP ILE ASN ALA SER ILE PRO THR PRO GLN SEQRES 37 A 566 PRO VAL HIS TYR ARG PRO MET PHE GLY ALA LEU GLY SER SEQRES 38 A 566 ALA ARG HIS HIS CYS ARG LEU THR PHE LEU SER GLN ALA SEQRES 39 A 566 ALA ALA ALA ASN GLY VAL ALA GLU ARG LEU ASN LEU ARG SEQRES 40 A 566 SER ALA ILE ALA VAL VAL LYS GLY CYS ARG THR VAL GLN SEQRES 41 A 566 LYS ALA ASP MET VAL HIS ASN SER LEU GLN PRO ASN ILE SEQRES 42 A 566 THR VAL ASP ALA GLN THR TYR GLU VAL ARG VAL ASP GLY SEQRES 43 A 566 GLU LEU ILE THR SER GLU PRO ALA ASP VAL LEU PRO MET SEQRES 44 A 566 ALA GLN ARG TYR PHE LEU PHE SEQRES 1 B 101 MET ILE PRO GLY GLU TYR HIS VAL LYS PRO GLY GLN ILE SEQRES 2 B 101 ALA LEU ASN THR GLY ARG ALA THR CYS ARG VAL VAL VAL SEQRES 3 B 101 GLU ASN HIS GLY ASP ARG PRO ILE GLN VAL GLY SER HIS SEQRES 4 B 101 TYR HIS PHE ALA GLU VAL ASN PRO ALA LEU LYS PHE ASP SEQRES 5 B 101 ARG GLN GLN ALA ALA GLY TYR ARG LEU ASN ILE PRO ALA SEQRES 6 B 101 GLY THR ALA VAL ARG PHE GLU PRO GLY GLN LYS ARG GLU SEQRES 7 B 101 VAL GLU LEU VAL ALA PHE ALA GLY HIS ARG ALA VAL PHE SEQRES 8 B 101 GLY PHE ARG GLY GLU VAL MET GLY PRO LEU SEQRES 1 C 100 MET GLU LEU THR PRO ARG GLU LYS ASP LYS LEU LEU LEU SEQRES 2 C 100 PHE THR ALA ALA LEU VAL ALA GLU ARG ARG LEU ALA ARG SEQRES 3 C 100 GLY LEU LYS LEU ASN TYR PRO GLU SER VAL ALA LEU ILE SEQRES 4 C 100 SER ALA PHE ILE MET GLU GLY ALA ARG ASP GLY LYS SER SEQRES 5 C 100 VAL ALA SER LEU MET GLU GLU GLY ARG HIS VAL LEU THR SEQRES 6 C 100 ARG GLU GLN VAL MET GLU GLY VAL PRO GLU MET ILE PRO SEQRES 7 C 100 ASP ILE GLN VAL GLU ALA THR PHE PRO ASP GLY SER LYS SEQRES 8 C 100 LEU VAL THR VAL HIS ASN PRO ILE ILE MODRES 1EF2 KCX A 1217 LYS LYSINE NZ-CARBOXYLIC ACID HET KCX A1217 12 HET MN A4774 1 HET MN A4775 1 HETNAM KCX LYSINE NZ-CARBOXYLIC ACID HETNAM MN MANGANESE (II) ION FORMUL 1 KCX C7 H14 N2 O4 FORMUL 4 MN 2(MN 2+) FORMUL 6 HOH *176(H2 O) HELIX 1 1 ARG A 1006 GLY A 1014 1 9 HELIX 2 2 LEU A 1061 CYS A 1065 5 5 HELIX 3 3 GLN A 1141 GLY A 1150 1 10 HELIX 4 4 ALA A 1162 THR A 1168 1 7 HELIX 5 5 PRO A 1172 ALA A 1184 1 13 HELIX 6 6 ASP A 1185 LEU A 1187 5 3 HELIX 7 7 GLN A 1201 GLY A 1212 1 12 HELIX 8 8 ASP A 1221 GLY A 1223 5 3 HELIX 9 9 THR A 1225 ASP A 1240 1 16 HELIX 10 10 PHE A 1255 GLY A 1264 1 10 HELIX 11 11 ASP A 1283 HIS A 1290 5 8 HELIX 12 12 PRO A 1300 LEU A 1302 5 3 HELIX 13 13 ASN A 1307 HIS A 1321 1 15 HELIX 14 14 ILE A 1326 SER A 1335 1 10 HELIX 15 15 ARG A 1338 LEU A 1351 1 14 HELIX 16 16 GLU A 1369 GLY A 1386 1 18 HELIX 17 17 ASP A 1396 ALA A 1405 1 10 HELIX 18 18 THR A 1408 HIS A 1415 1 8 HELIX 19 19 SER A 1436 PHE A 1440 5 5 HELIX 20 20 PHE A 1477 ALA A 1479 5 3 HELIX 21 21 LEU A 1480 ARG A 1488 1 9 HELIX 22 22 SER A 1493 ASN A 1499 1 7 HELIX 23 23 GLY A 1500 LEU A 1505 1 6 HELIX 24 24 GLN A 1521 MET A 1525 5 5 HELIX 25 25 HIS B 2041 VAL B 2045 5 5 HELIX 26 26 THR C 3004 ARG C 3026 1 23 HELIX 27 27 ASN C 3031 GLY C 3050 1 20 HELIX 28 28 SER C 3052 GLY C 3060 1 9 HELIX 29 29 ARG C 3061 VAL C 3063 5 3 HELIX 30 30 THR C 3065 GLN C 3068 5 4 HELIX 31 31 GLY C 3072 ILE C 3077 1 6 SHEET 1 A 2 ASN A1003 SER A1005 0 SHEET 2 A 2 GLN B2012 ALA B2014 -1 N ILE B2013 O ILE A1004 SHEET 1 B 3 TRP A1029 GLU A1031 0 SHEET 2 B 3 LYS A1020 ARG A1022 -1 O VAL A1021 N ILE A1030 SHEET 3 B 3 TYR B2006 HIS B2007 -1 N HIS B2007 O LYS A1020 SHEET 1 C12 ARG A1092 GLY A1097 0 SHEET 2 C12 GLY A1080 LYS A1089 -1 N ASP A1085 O GLY A1097 SHEET 3 C12 ASP A1034 ASP A1035 1 O ASP A1034 N LYS A1083 SHEET 4 C12 GLY A1080 LYS A1089 1 O ILE A1081 N ASP A1034 SHEET 5 C12 LEU A1068 ASP A1077 -1 O LEU A1068 N VAL A1088 SHEET 6 C12 GLU A1117 ALA A1120 1 O GLU A1117 N VAL A1069 SHEET 7 C12 LEU A1068 ASP A1077 1 O VAL A1069 N ILE A1119 SHEET 8 C12 ILE A1125 ALA A1128 1 N VAL A1126 O LEU A1074 SHEET 9 C12 LEU A1432 TRP A1435 -1 N VAL A1433 O THR A1127 SHEET 10 C12 THR A1446 LYS A1449 -1 O THR A1446 N VAL A1434 SHEET 11 C12 MET A1452 MET A1458 -1 O MET A1452 N LYS A1449 SHEET 12 C12 HIS A1472 PRO A1475 -1 N HIS A1472 O MET A1458 SHEET 1 D 2 ALA A1099 GLY A1100 0 SHEET 2 D 2 ILE A1110 PRO A1111 1 O ILE A1110 N GLY A1100 SHEET 1 E 5 GLY A1130 HIS A1136 0 SHEET 2 E 5 VAL A1151 GLY A1157 1 N THR A1152 O GLY A1130 SHEET 3 E 5 ASN A1190 LEU A1193 1 O ASN A1190 N MET A1154 SHEET 4 E 5 LEU A1489 LEU A1492 1 O LEU A1489 N ILE A1191 SHEET 5 E 5 ALA A1510 VAL A1513 1 O ALA A1510 N THR A1490 SHEET 1 F 5 GLY A1215 HIS A1219 0 SHEET 2 F 5 GLN A1242 HIS A1246 1 O GLN A1242 N LEU A1216 SHEET 3 F 5 ILE A1268 THR A1270 1 N HIS A1269 O VAL A1243 SHEET 4 F 5 ILE A1293 THR A1298 1 N LEU A1294 O ILE A1268 SHEET 5 F 5 LEU A1356 SER A1358 1 O LEU A1356 N SER A1297 SHEET 1 G 3 ILE A1534 VAL A1536 0 SHEET 2 G 3 VAL A1543 VAL A1545 -1 O ARG A1544 N THR A1535 SHEET 3 G 3 GLU A1548 LEU A1549 -1 O GLU A1548 N VAL A1545 SHEET 1 H 4 LEU B2049 LYS B2050 0 SHEET 2 H 4 THR B2021 ASN B2028 -1 O GLU B2027 N LYS B2050 SHEET 3 H 4 LYS B2076 ALA B2083 -1 O ARG B2077 N VAL B2026 SHEET 4 H 4 TYR B2059 LEU B2061 -1 O ARG B2060 N VAL B2082 SHEET 1 I 2 ILE B2034 GLY B2037 0 SHEET 2 I 2 ALA B2068 PHE B2071 -1 O VAL B2069 N VAL B2036 SHEET 1 J 2 ALA B2089 VAL B2090 0 SHEET 2 J 2 GLY B2099 PRO B2100 -1 O GLY B2099 N VAL B2090 SHEET 1 K 2 ASP C3079 PHE C3086 0 SHEET 2 K 2 GLY C3089 HIS C3096 -1 O GLY C3089 N PHE C3086 LINK C LEU A1216 N KCX A1217 1555 1555 1.32 LINK C KCX A1217 N ILE A1218 1555 1555 1.33 LINK MN MN A4774 OQ1 KCX A1217 1555 1555 2.18 LINK MN MN A4774 ND1 HIS A1246 1555 1555 2.17 LINK MN MN A4774 NE2 HIS A1272 1555 1555 2.60 LINK MN MN A4774 O HOH A 500 1555 1555 2.18 LINK MN MN A4775 OQ2 KCX A1217 1555 1555 2.07 LINK MN MN A4775 NE2 HIS A1136 1555 1555 2.33 LINK MN MN A4775 OD2 ASP A1360 1555 1555 2.39 LINK MN MN A4775 O HOH A 500 1555 1555 2.23 LINK MN MN A4775 O HOH A 502 1555 1555 2.45 LINK MN MN A4775 NE2 HIS A1134 1555 1555 2.63 CISPEP 1 ALA A 1281 PRO A 1282 0 -0.69 CISPEP 2 LEU A 1302 PRO A 1303 0 -0.54 CISPEP 3 GLN A 1469 PRO A 1470 0 -0.16 SITE 1 AC1 8 HOH A 500 HOH A 501 KCX A1217 HIS A1219 SITE 2 AC1 8 HIS A1246 HIS A1272 GLY A1277 MN A4775 SITE 1 AC2 7 HOH A 500 HOH A 502 HIS A1134 HIS A1136 SITE 2 AC2 7 KCX A1217 ASP A1360 MN A4774 CRYST1 170.800 170.800 170.800 90.00 90.00 90.00 I 21 3 24 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 0.005855 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005855 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005855 0.00000