HEADER LYASE 08-OCT-04 1XPI TITLE CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF E. COLI PSEUDOURIDINE TITLE 2 SYNTHASE RLUC COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE C; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 89-319; COMPND 5 SYNONYM: PSEUDOURIDYLATE SYNTHASE, URACIL HYDROLYASE; COMPND 6 EC: 4.2.1.70; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: RLUC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS PSEUDOURIDINE SYNTHASE, RLUC, CATALYTIC DOMAIN, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR M.DEL CAMPO,J.OFENGAND,R.FENNA,A.MALHOTRA REVDAT 4 23-AUG-23 1XPI 1 REMARK REVDAT 3 13-JUL-11 1XPI 1 VERSN REVDAT 2 24-FEB-09 1XPI 1 VERSN REVDAT 1 04-OCT-05 1XPI 0 JRNL AUTH M.DEL CAMPO,J.OFENGAND,R.FENNA,A.MALHOTRA JRNL TITL POSSIBLE RNA BINDING DOMAINS OF RLUC AND RLUD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 23094 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 + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.254 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1242 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1696 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1890 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.2290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3608 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 168 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.08000 REMARK 3 B22 (A**2) : 0.08000 REMARK 3 B33 (A**2) : -0.12000 REMARK 3 B12 (A**2) : 0.04000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.286 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.230 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.150 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.735 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3685 ; 0.022 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4956 ; 1.906 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 455 ; 7.376 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 175 ;34.194 ;22.229 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 662 ;15.222 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 44 ;20.938 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 550 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2784 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1532 ; 0.209 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2444 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 243 ; 0.167 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 97 ; 0.209 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.311 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2374 ; 1.311 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3626 ; 2.061 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1470 ; 3.176 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1330 ; 4.888 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1XPI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-NOV-04. REMARK 100 THE DEPOSITION ID IS D_1000030614. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-98 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8.0 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 : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24381 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.00 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 38.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.44100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1V9K (MOLECULE A) REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BICINE, SODIUM ACETATE, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.49133 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 28.74567 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.74567 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 57.49133 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A MONOMER FROM THE TWO MOLECULES REMARK 300 IN THE ASYMMETRIC UNIT. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 9500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 PRO A 132 REMARK 465 GLU A 133 REMARK 465 ALA B 318 REMARK 465 ARG B 319 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 131 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 135 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 310 CG CD NE CZ NH1 NH2 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 NH1 ARG A 268 OE2 GLU A 272 2.17 REMARK 500 ND1 HIS A 141 O HOH A 651 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH1 ARG A 168 O TYR A 250 2664 2.19 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 ARG A 205 NE - CZ - NH1 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 205 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 219 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 263 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ASP B 144 CB - CG - OD1 ANGL. DEV. = -6.4 DEGREES REMARK 500 ASP B 305 CB - CG - OD1 ANGL. DEV. = 5.4 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 HIS A 242 28.14 49.29 REMARK 500 ASN A 278 25.28 -145.87 REMARK 500 TYR B 97 134.78 -174.97 REMARK 500 ASP B 99 -156.93 -141.43 REMARK 500 ASP B 144 157.99 -45.96 REMARK 500 LYS B 170 57.56 26.42 REMARK 500 ALA B 284 96.40 -67.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA B 89 ALA B 90 47.01 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 ACY A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 405 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V9K RELATED DB: PDB REMARK 900 THE SAME PROTEIN, BUT FOUR RESIDUES SHORTER AT THE N-TERMINUS. DBREF 1XPI A 89 319 UNP P0AA39 RLUC_ECOLI 89 319 DBREF 1XPI B 89 319 UNP P0AA39 RLUC_ECOLI 89 319 SEQRES 1 A 231 ALA ALA LEU ALA ASP VAL ILE LEU TYR GLU ASP ASP HIS SEQRES 2 A 231 ILE LEU VAL LEU ASN LYS PRO SER GLY THR ALA VAL HIS SEQRES 3 A 231 GLY GLY SER GLY LEU SER PHE GLY VAL ILE GLU GLY LEU SEQRES 4 A 231 ARG ALA LEU ARG PRO GLU ALA ARG PHE LEU GLU LEU VAL SEQRES 5 A 231 HIS ARG LEU ASP ARG ASP THR SER GLY VAL LEU LEU VAL SEQRES 6 A 231 ALA LYS LYS ARG SER ALA LEU ARG SER LEU HIS GLU GLN SEQRES 7 A 231 LEU ARG GLU LYS GLY MET GLN LYS ASP TYR LEU ALA LEU SEQRES 8 A 231 VAL ARG GLY GLN TRP GLN SER HIS VAL LYS SER VAL GLN SEQRES 9 A 231 ALA PRO LEU LEU LYS ASN ILE LEU GLN SER GLY GLU ARG SEQRES 10 A 231 ILE VAL ARG VAL SER GLN GLU GLY LYS PRO SER GLU THR SEQRES 11 A 231 ARG PHE LYS VAL GLU GLU ARG TYR ALA PHE ALA THR LEU SEQRES 12 A 231 VAL ARG CYS SER PRO VAL THR GLY ARG THR HIS GLN ILE SEQRES 13 A 231 ARG VAL HIS THR GLN TYR ALA GLY HIS PRO ILE ALA PHE SEQRES 14 A 231 ASP ASP ARG TYR GLY ASP ARG GLU PHE ASP ARG GLN LEU SEQRES 15 A 231 THR GLU ALA GLY THR GLY LEU ASN ARG LEU PHE LEU HIS SEQRES 16 A 231 ALA ALA ALA LEU LYS PHE THR HIS PRO GLY THR GLY GLU SEQRES 17 A 231 VAL MET ARG ILE GLU ALA PRO MET ASP GLU GLY LEU LYS SEQRES 18 A 231 ARG CYS LEU GLN LYS LEU ARG ASN ALA ARG SEQRES 1 B 231 ALA ALA LEU ALA ASP VAL ILE LEU TYR GLU ASP ASP HIS SEQRES 2 B 231 ILE LEU VAL LEU ASN LYS PRO SER GLY THR ALA VAL HIS SEQRES 3 B 231 GLY GLY SER GLY LEU SER PHE GLY VAL ILE GLU GLY LEU SEQRES 4 B 231 ARG ALA LEU ARG PRO GLU ALA ARG PHE LEU GLU LEU VAL SEQRES 5 B 231 HIS ARG LEU ASP ARG ASP THR SER GLY VAL LEU LEU VAL SEQRES 6 B 231 ALA LYS LYS ARG SER ALA LEU ARG SER LEU HIS GLU GLN SEQRES 7 B 231 LEU ARG GLU LYS GLY MET GLN LYS ASP TYR LEU ALA LEU SEQRES 8 B 231 VAL ARG GLY GLN TRP GLN SER HIS VAL LYS SER VAL GLN SEQRES 9 B 231 ALA PRO LEU LEU LYS ASN ILE LEU GLN SER GLY GLU ARG SEQRES 10 B 231 ILE VAL ARG VAL SER GLN GLU GLY LYS PRO SER GLU THR SEQRES 11 B 231 ARG PHE LYS VAL GLU GLU ARG TYR ALA PHE ALA THR LEU SEQRES 12 B 231 VAL ARG CYS SER PRO VAL THR GLY ARG THR HIS GLN ILE SEQRES 13 B 231 ARG VAL HIS THR GLN TYR ALA GLY HIS PRO ILE ALA PHE SEQRES 14 B 231 ASP ASP ARG TYR GLY ASP ARG GLU PHE ASP ARG GLN LEU SEQRES 15 B 231 THR GLU ALA GLY THR GLY LEU ASN ARG LEU PHE LEU HIS SEQRES 16 B 231 ALA ALA ALA LEU LYS PHE THR HIS PRO GLY THR GLY GLU SEQRES 17 B 231 VAL MET ARG ILE GLU ALA PRO MET ASP GLU GLY LEU LYS SEQRES 18 B 231 ARG CYS LEU GLN LYS LEU ARG ASN ALA ARG HET ACY A 401 4 HET ACY A 402 4 HET ACY A 403 4 HET ACY B 404 4 HET ACY B 405 4 HETNAM ACY ACETIC ACID FORMUL 3 ACY 5(C2 H4 O2) FORMUL 8 HOH *168(H2 O) HELIX 1 1 ALA A 90 ASP A 93 5 4 HELIX 2 2 GLY A 122 ALA A 129 1 8 HELIX 3 3 LYS A 156 GLU A 169 1 14 HELIX 4 4 HIS A 242 ALA A 251 1 10 HELIX 5 5 ASP A 263 ALA A 273 1 11 HELIX 6 6 ASP A 305 ASN A 317 1 13 HELIX 7 7 ALA B 90 ASP B 93 5 4 HELIX 8 8 GLY B 122 ARG B 131 1 10 HELIX 9 9 LYS B 156 GLU B 169 1 14 HELIX 10 10 HIS B 242 ALA B 251 1 10 HELIX 11 11 ASP B 263 ALA B 273 1 11 HELIX 12 12 ASP B 305 ASN B 317 1 13 SHEET 1 A 8 ILE A 95 GLU A 98 0 SHEET 2 A 8 ILE A 102 LYS A 107 -1 O VAL A 104 N TYR A 97 SHEET 3 A 8 SER A 148 ALA A 154 -1 O VAL A 153 N LEU A 103 SHEET 4 A 8 LEU A 282 THR A 290 1 O ALA A 284 N SER A 148 SHEET 5 A 8 GLN A 173 ARG A 181 -1 N GLN A 173 O LYS A 288 SHEET 6 A 8 ALA A 229 PRO A 236 -1 O THR A 230 N VAL A 180 SHEET 7 A 8 THR A 218 ARG A 225 -1 N GLU A 223 O LEU A 231 SHEET 8 A 8 SER A 190 VAL A 191 -1 N VAL A 191 O THR A 218 SHEET 1 B 4 GLU A 138 LEU A 139 0 SHEET 2 B 4 SER A 148 ALA A 154 -1 O ALA A 154 N GLU A 138 SHEET 3 B 4 LEU A 282 THR A 290 1 O ALA A 284 N SER A 148 SHEET 4 B 4 VAL A 297 GLU A 301 -1 O MET A 298 N PHE A 289 SHEET 1 C 2 SER A 120 PHE A 121 0 SHEET 2 C 2 LEU B 119 SER B 120 -1 O LEU B 119 N PHE A 121 SHEET 1 D 2 LEU A 195 ILE A 199 0 SHEET 2 D 2 ARG A 205 VAL A 209 -1 O ARG A 208 N LEU A 196 SHEET 1 E 8 ILE B 95 GLU B 98 0 SHEET 2 E 8 ILE B 102 LYS B 107 -1 O VAL B 104 N TYR B 97 SHEET 3 E 8 SER B 148 ALA B 154 -1 O GLY B 149 N LYS B 107 SHEET 4 E 8 LEU B 282 THR B 290 1 O ALA B 284 N SER B 148 SHEET 5 E 8 GLN B 173 ARG B 181 -1 N ASP B 175 O ALA B 286 SHEET 6 E 8 ALA B 229 PRO B 236 -1 O THR B 230 N VAL B 180 SHEET 7 E 8 GLU B 217 ARG B 225 -1 N ARG B 219 O SER B 235 SHEET 8 E 8 SER B 190 GLN B 192 -1 N VAL B 191 O THR B 218 SHEET 1 F 4 GLU B 138 LEU B 139 0 SHEET 2 F 4 SER B 148 ALA B 154 -1 O ALA B 154 N GLU B 138 SHEET 3 F 4 LEU B 282 THR B 290 1 O ALA B 284 N SER B 148 SHEET 4 F 4 VAL B 297 GLU B 301 -1 O MET B 298 N PHE B 289 SHEET 1 G 2 LEU B 195 ILE B 199 0 SHEET 2 G 2 ARG B 205 VAL B 209 -1 O ARG B 208 N LEU B 196 CISPEP 1 ALA A 89 ALA A 90 0 -28.27 SITE 1 AC1 6 HIS A 114 ILE A 124 ARG A 128 LYS A 189 SITE 2 AC1 6 HOH A 665 HOH A 666 SITE 1 AC2 8 ARG A 142 TRP A 184 GLN A 185 SER A 186 SITE 2 AC2 8 LYS A 197 ILE A 199 ARG A 205 ARG A 225 SITE 1 AC3 5 ASP A 144 GLU A 204 ARG A 205 HIS A 242 SITE 2 AC3 5 HOH A 580 SITE 1 AC4 5 PRO A 303 MET A 304 LYS A 309 ARG B 161 SITE 2 AC4 5 HOH B 596 SITE 1 AC5 5 LEU B 195 LYS B 197 LYS B 214 ARG B 240 SITE 2 AC5 5 THR B 241 CRYST1 97.307 97.307 86.237 90.00 90.00 120.00 P 32 2 1 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 0.010277 0.005933 0.000000 0.00000 SCALE2 0.000000 0.011867 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011596 0.00000