HEADER LIGASE/RNA 23-MAY-05 2CT8 TITLE CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS METHIONYL-TRNA SYNTHETASE TITLE 2 COMPLEXED WITH TRNA(MET) AND METHIONYL-ADENYLATE ANOLOGUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (74-MER); COMPND 3 CHAIN: C, D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: METHIONYL-TRNA SYNTHETASE; COMPND 7 CHAIN: A, B; COMPND 8 SYNONYM: METHIONINE--TRNA LIGASE, METRS; COMPND 9 EC: 6.1.1.10; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 5 ORGANISM_TAXID: 63363; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 CODON+ (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS LIGASE, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 2 STRUCTURAL GENOMICS, LIGASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.NAKANISHI,Y.OGISO,T.NAKAMA,S.FUKAI,O.NUREKI,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 13-MAR-24 2CT8 1 REMARK REVDAT 3 12-JAN-10 2CT8 1 JRNL REVDAT 2 24-FEB-09 2CT8 1 VERSN REVDAT 1 20-SEP-05 2CT8 0 JRNL AUTH K.NAKANISHI,Y.OGISO,T.NAKAMA,S.FUKAI,O.NUREKI JRNL TITL STRUCTURAL BASIS FOR ANTICODON RECOGNITION BY METHIONYL-TRNA JRNL TITL 2 SYNTHETASE. JRNL REF NAT.STRUCT.MOL.BIOL. V. 12 931 2005 JRNL REFN ISSN 1545-9993 JRNL PMID 16155581 JRNL DOI 10.1038/NSMB988 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.83 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2983927.370 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.2 REMARK 3 NUMBER OF REFLECTIONS : 42517 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) : 0.217 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3006 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5682 REMARK 3 BIN R VALUE (WORKING SET) : 0.3040 REMARK 3 BIN FREE R VALUE : 0.3510 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 454 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7828 REMARK 3 NUCLEIC ACID ATOMS : 3166 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 78 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.55000 REMARK 3 B22 (A**2) : 0.27000 REMARK 3 B33 (A**2) : -7.82000 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) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.43 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) : 0.42 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.56 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.190 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 : 0.27 REMARK 3 BSOL : 14.20 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 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : MSP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : MSP.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2CT8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 31-MAY-05. REMARK 100 THE DEPOSITION ID IS D_1000024597. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793, 0.9796, 0.9820 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42827 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 79.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 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 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 45.74400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 80.50450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.30700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 80.50450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 45.74400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.30700 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 APPLY THE FOLLOWING TO CHAINS: C, 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 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 GLY A 126 REMARK 465 TRP A 127 REMARK 465 TYR A 128 REMARK 465 CYS A 129 REMARK 465 VAL A 130 REMARK 465 GLY A 131 REMARK 465 CYS A 132 REMARK 465 GLU A 133 REMARK 465 GLU A 134 REMARK 465 PHE A 135 REMARK 465 LYS A 136 REMARK 465 SER A 137 REMARK 465 GLU A 138 REMARK 465 ALA A 139 REMARK 465 GLU A 140 REMARK 465 LEU A 141 REMARK 465 ALA A 142 REMARK 465 GLU A 143 REMARK 465 ASP A 144 REMARK 465 HIS A 145 REMARK 465 THR A 146 REMARK 465 CYS A 147 REMARK 465 PRO A 148 REMARK 465 ILE A 149 REMARK 465 HIS A 150 REMARK 465 GLN A 151 REMARK 465 LYS A 152 REMARK 465 LYS A 153 REMARK 465 CYS A 154 REMARK 465 GLU A 155 REMARK 465 TYR A 156 REMARK 465 ILE A 157 REMARK 465 GLY B 126 REMARK 465 TRP B 127 REMARK 465 TYR B 128 REMARK 465 CYS B 129 REMARK 465 VAL B 130 REMARK 465 GLY B 131 REMARK 465 CYS B 132 REMARK 465 GLU B 133 REMARK 465 GLU B 134 REMARK 465 PHE B 135 REMARK 465 LYS B 136 REMARK 465 SER B 137 REMARK 465 GLU B 138 REMARK 465 ALA B 139 REMARK 465 GLU B 140 REMARK 465 LEU B 141 REMARK 465 ALA B 142 REMARK 465 GLU B 143 REMARK 465 ASP B 144 REMARK 465 HIS B 145 REMARK 465 THR B 146 REMARK 465 CYS B 147 REMARK 465 PRO B 148 REMARK 465 ILE B 149 REMARK 465 HIS B 150 REMARK 465 GLN B 151 REMARK 465 LYS B 152 REMARK 465 LYS B 153 REMARK 465 CYS B 154 REMARK 465 GLU B 155 REMARK 465 TYR B 156 REMARK 465 ILE B 157 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 O TRP B 249 N ALA B 251 2.06 REMARK 500 O TRP A 249 N ALA A 251 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 G C 1 P G C 1 OP3 -0.087 REMARK 500 G D 1 P G D 1 OP3 -0.086 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 PRO A 220 C - N - CA ANGL. DEV. = 11.0 DEGREES REMARK 500 PRO A 456 C - N - CA ANGL. DEV. = 11.3 DEGREES REMARK 500 PRO B 186 C - N - CA ANGL. DEV. = -19.6 DEGREES REMARK 500 PRO B 186 C - N - CD ANGL. DEV. = 13.4 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 THR A 2 -158.60 -173.47 REMARK 500 LEU A 3 -75.76 -70.80 REMARK 500 HIS A 54 -162.72 -75.19 REMARK 500 LEU A 65 21.07 -74.46 REMARK 500 THR A 97 9.88 -67.08 REMARK 500 GLU A 159 113.84 168.25 REMARK 500 ARG A 165 42.24 -66.59 REMARK 500 PRO A 186 104.50 -52.98 REMARK 500 ILE A 194 10.89 -69.14 REMARK 500 GLN A 199 -3.14 162.64 REMARK 500 LEU A 201 96.26 84.42 REMARK 500 ASP A 203 139.71 -34.68 REMARK 500 ARG A 210 -8.46 -56.88 REMARK 500 SER A 211 -70.73 -76.18 REMARK 500 PRO A 220 -37.96 -26.95 REMARK 500 ASP A 222 71.57 -173.44 REMARK 500 GLU A 224 0.52 -63.77 REMARK 500 GLU A 242 71.22 24.52 REMARK 500 ASP A 243 12.44 95.40 REMARK 500 TRP A 249 -90.94 -28.85 REMARK 500 PRO A 250 93.99 -29.21 REMARK 500 VAL A 266 -71.69 -119.64 REMARK 500 VAL A 291 -95.55 -88.74 REMARK 500 GLU A 292 54.59 -101.09 REMARK 500 LEU A 315 -70.58 -51.57 REMARK 500 GLN A 420 72.56 16.61 REMARK 500 LYS A 480 110.08 80.60 REMARK 500 ASN A 481 31.85 -87.51 REMARK 500 THR A 482 149.29 170.29 REMARK 500 GLU A 487 123.32 -24.34 REMARK 500 LYS A 494 74.99 -69.84 REMARK 500 GLU A 496 51.48 -140.39 REMARK 500 THR B 2 -168.89 174.93 REMARK 500 ASP B 42 34.29 74.60 REMARK 500 THR B 97 5.91 -66.10 REMARK 500 GLU B 159 74.95 179.29 REMARK 500 PRO B 160 123.05 -26.45 REMARK 500 ARG B 165 54.21 -63.03 REMARK 500 LYS B 198 32.24 -61.82 REMARK 500 GLN B 199 4.15 -161.90 REMARK 500 LEU B 201 95.59 77.57 REMARK 500 ASP B 222 78.81 -174.66 REMARK 500 GLU B 224 12.84 -68.66 REMARK 500 PHE B 235 1.22 -69.93 REMARK 500 GLU B 242 79.96 20.15 REMARK 500 ASP B 243 -0.81 89.90 REMARK 500 TRP B 249 -89.65 -31.22 REMARK 500 PRO B 250 88.45 -29.04 REMARK 500 LYS B 282 140.18 -177.38 REMARK 500 VAL B 291 -102.16 -86.89 REMARK 500 REMARK 500 THIS ENTRY HAS 58 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 U D 33 0.09 SIDE CHAIN REMARK 500 TYR B 452 0.07 SIDE CHAIN 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 MSP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MSP B 1501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CSX RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEX WITH TRNA(MET) REMARK 900 RELATED ID: AAE001001257.2 RELATED DB: TARGETDB DBREF 2CT8 A 1 497 UNP O67298 SYM_AQUAE 1 497 DBREF 2CT8 B 1 497 UNP O67298 SYM_AQUAE 1 497 DBREF 2CT8 C 1 73 PDB 2CT8 2CT8 1 73 DBREF 2CT8 D 1 73 PDB 2CT8 2CT8 1 73 SEQRES 1 C 74 G G C G G C G U A G C U C SEQRES 2 C 74 A G C U G G U C A G A G C SEQRES 3 C 74 G G G G A U C U C A U A A SEQRES 4 C 74 G U C C C A G G U C G G A SEQRES 5 C 74 G G U U C G A G U C C U C SEQRES 6 C 74 C C G C C G C C A SEQRES 1 D 74 G G C G G C G U A G C U C SEQRES 2 D 74 A G C U G G U C A G A G C SEQRES 3 D 74 G G G G A U C U C A U A A SEQRES 4 D 74 G U C C C A G G U C G G A SEQRES 5 D 74 G G U U C G A G U C C U C SEQRES 6 D 74 C C G C C G C C A SEQRES 1 A 497 MET THR LEU MET LYS LYS PHE TYR VAL THR THR PRO ILE SEQRES 2 A 497 TYR TYR VAL ASN ASP VAL PRO HIS LEU GLY HIS ALA TYR SEQRES 3 A 497 THR THR ILE ALA ALA ASP THR ILE ALA ARG TYR TYR ARG SEQRES 4 A 497 LEU ARG ASP TYR ASP VAL PHE PHE LEU THR GLY THR ASP SEQRES 5 A 497 GLU HIS GLY LEU LYS ILE GLN LYS LYS ALA GLU GLU LEU SEQRES 6 A 497 GLY ILE SER PRO LYS GLU LEU VAL ASP ARG ASN ALA GLU SEQRES 7 A 497 ARG PHE LYS LYS LEU TRP GLU PHE LEU LYS ILE GLU TYR SEQRES 8 A 497 THR LYS PHE ILE ARG THR THR ASP PRO TYR HIS VAL LYS SEQRES 9 A 497 PHE VAL GLN LYS VAL PHE GLU GLU CYS TYR LYS ARG GLY SEQRES 10 A 497 ASP ILE TYR LEU GLY GLU TYR GLU GLY TRP TYR CYS VAL SEQRES 11 A 497 GLY CYS GLU GLU PHE LYS SER GLU ALA GLU LEU ALA GLU SEQRES 12 A 497 ASP HIS THR CYS PRO ILE HIS GLN LYS LYS CYS GLU TYR SEQRES 13 A 497 ILE LYS GLU PRO SER TYR PHE PHE ARG LEU SER LYS TYR SEQRES 14 A 497 GLN ASP LYS LEU LEU GLU LEU TYR GLU LYS ASN PRO GLU SEQRES 15 A 497 PHE ILE GLN PRO ASP TYR ARG ARG ASN GLU ILE ILE SER SEQRES 16 A 497 PHE VAL LYS GLN GLY LEU LYS ASP LEU SER VAL THR ARG SEQRES 17 A 497 PRO ARG SER ARG VAL LYS TRP GLY ILE PRO VAL PRO PHE SEQRES 18 A 497 ASP PRO GLU HIS THR ILE TYR VAL TRP PHE ASP ALA LEU SEQRES 19 A 497 PHE ASN TYR ILE SER ALA LEU GLU ASP LYS VAL GLU ILE SEQRES 20 A 497 TYR TRP PRO ALA ASP LEU HIS LEU VAL GLY LYS ASP ILE SEQRES 21 A 497 LEU ARG PHE HIS THR VAL TYR TRP PRO ALA PHE LEU MET SEQRES 22 A 497 SER LEU GLY TYR GLU LEU PRO LYS LYS VAL PHE ALA HIS SEQRES 23 A 497 GLY TRP TRP THR VAL GLU GLY LYS LYS MET SER LYS THR SEQRES 24 A 497 LEU GLY ASN VAL VAL ASP PRO TYR GLU VAL VAL GLN GLU SEQRES 25 A 497 TYR GLY LEU ASP GLU VAL ARG TYR PHE LEU LEU ARG GLU SEQRES 26 A 497 VAL PRO PHE GLY GLN ASP GLY ASP PHE SER LYS LYS ALA SEQRES 27 A 497 ILE LEU ASN ARG ILE ASN GLY GLU LEU ALA ASN GLU ILE SEQRES 28 A 497 GLY ASN LEU TYR SER ARG VAL VAL ASN MET ALA HIS LYS SEQRES 29 A 497 PHE LEU GLY GLY GLU VAL SER GLY ALA ARG ASP GLU GLU SEQRES 30 A 497 TYR ALA LYS ILE ALA GLN GLU SER ILE LYS ASN TYR GLU SEQRES 31 A 497 ASN TYR MET GLU LYS VAL ASN PHE TYR LYS ALA ILE GLU SEQRES 32 A 497 GLU ILE LEU LYS PHE THR SER TYR LEU ASN LYS TYR VAL SEQRES 33 A 497 ASP GLU LYS GLN PRO TRP ALA LEU ASN LYS GLU ARG LYS SEQRES 34 A 497 LYS GLU GLU LEU GLN LYS VAL LEU TYR ALA LEU VAL ASP SEQRES 35 A 497 GLY LEU PHE VAL LEU THR HIS LEU LEU TYR PRO ILE THR SEQRES 36 A 497 PRO ASN LYS MET LYS GLU ALA LEU GLN MET LEU GLY GLU SEQRES 37 A 497 LYS GLU PHE LEU LYS GLU LEU LYS PRO TYR SER LYS ASN SEQRES 38 A 497 THR TYR LYS LEU GLY GLU ARG LYS ILE LEU PHE PRO LYS SEQRES 39 A 497 ARG GLU GLY SEQRES 1 B 497 MET THR LEU MET LYS LYS PHE TYR VAL THR THR PRO ILE SEQRES 2 B 497 TYR TYR VAL ASN ASP VAL PRO HIS LEU GLY HIS ALA TYR SEQRES 3 B 497 THR THR ILE ALA ALA ASP THR ILE ALA ARG TYR TYR ARG SEQRES 4 B 497 LEU ARG ASP TYR ASP VAL PHE PHE LEU THR GLY THR ASP SEQRES 5 B 497 GLU HIS GLY LEU LYS ILE GLN LYS LYS ALA GLU GLU LEU SEQRES 6 B 497 GLY ILE SER PRO LYS GLU LEU VAL ASP ARG ASN ALA GLU SEQRES 7 B 497 ARG PHE LYS LYS LEU TRP GLU PHE LEU LYS ILE GLU TYR SEQRES 8 B 497 THR LYS PHE ILE ARG THR THR ASP PRO TYR HIS VAL LYS SEQRES 9 B 497 PHE VAL GLN LYS VAL PHE GLU GLU CYS TYR LYS ARG GLY SEQRES 10 B 497 ASP ILE TYR LEU GLY GLU TYR GLU GLY TRP TYR CYS VAL SEQRES 11 B 497 GLY CYS GLU GLU PHE LYS SER GLU ALA GLU LEU ALA GLU SEQRES 12 B 497 ASP HIS THR CYS PRO ILE HIS GLN LYS LYS CYS GLU TYR SEQRES 13 B 497 ILE LYS GLU PRO SER TYR PHE PHE ARG LEU SER LYS TYR SEQRES 14 B 497 GLN ASP LYS LEU LEU GLU LEU TYR GLU LYS ASN PRO GLU SEQRES 15 B 497 PHE ILE GLN PRO ASP TYR ARG ARG ASN GLU ILE ILE SER SEQRES 16 B 497 PHE VAL LYS GLN GLY LEU LYS ASP LEU SER VAL THR ARG SEQRES 17 B 497 PRO ARG SER ARG VAL LYS TRP GLY ILE PRO VAL PRO PHE SEQRES 18 B 497 ASP PRO GLU HIS THR ILE TYR VAL TRP PHE ASP ALA LEU SEQRES 19 B 497 PHE ASN TYR ILE SER ALA LEU GLU ASP LYS VAL GLU ILE SEQRES 20 B 497 TYR TRP PRO ALA ASP LEU HIS LEU VAL GLY LYS ASP ILE SEQRES 21 B 497 LEU ARG PHE HIS THR VAL TYR TRP PRO ALA PHE LEU MET SEQRES 22 B 497 SER LEU GLY TYR GLU LEU PRO LYS LYS VAL PHE ALA HIS SEQRES 23 B 497 GLY TRP TRP THR VAL GLU GLY LYS LYS MET SER LYS THR SEQRES 24 B 497 LEU GLY ASN VAL VAL ASP PRO TYR GLU VAL VAL GLN GLU SEQRES 25 B 497 TYR GLY LEU ASP GLU VAL ARG TYR PHE LEU LEU ARG GLU SEQRES 26 B 497 VAL PRO PHE GLY GLN ASP GLY ASP PHE SER LYS LYS ALA SEQRES 27 B 497 ILE LEU ASN ARG ILE ASN GLY GLU LEU ALA ASN GLU ILE SEQRES 28 B 497 GLY ASN LEU TYR SER ARG VAL VAL ASN MET ALA HIS LYS SEQRES 29 B 497 PHE LEU GLY GLY GLU VAL SER GLY ALA ARG ASP GLU GLU SEQRES 30 B 497 TYR ALA LYS ILE ALA GLN GLU SER ILE LYS ASN TYR GLU SEQRES 31 B 497 ASN TYR MET GLU LYS VAL ASN PHE TYR LYS ALA ILE GLU SEQRES 32 B 497 GLU ILE LEU LYS PHE THR SER TYR LEU ASN LYS TYR VAL SEQRES 33 B 497 ASP GLU LYS GLN PRO TRP ALA LEU ASN LYS GLU ARG LYS SEQRES 34 B 497 LYS GLU GLU LEU GLN LYS VAL LEU TYR ALA LEU VAL ASP SEQRES 35 B 497 GLY LEU PHE VAL LEU THR HIS LEU LEU TYR PRO ILE THR SEQRES 36 B 497 PRO ASN LYS MET LYS GLU ALA LEU GLN MET LEU GLY GLU SEQRES 37 B 497 LYS GLU PHE LEU LYS GLU LEU LYS PRO TYR SER LYS ASN SEQRES 38 B 497 THR TYR LYS LEU GLY GLU ARG LYS ILE LEU PHE PRO LYS SEQRES 39 B 497 ARG GLU GLY HET MSP A 501 31 HET MSP B1501 31 HETNAM MSP 5'-O-[(L-METHIONYL)-SULPHAMOYL]ADENOSINE FORMUL 5 MSP 2(C15 H25 N7 O7 S2) FORMUL 7 HOH *78(H2 O) HELIX 1 1 HIS A 21 ARG A 41 1 21 HELIX 2 2 LEU A 56 LEU A 65 1 10 HELIX 3 3 SER A 68 LEU A 87 1 20 HELIX 4 4 ASP A 99 ARG A 116 1 18 HELIX 5 5 LEU A 166 LYS A 168 5 3 HELIX 6 6 TYR A 169 ASN A 180 1 12 HELIX 7 7 PRO A 181 ILE A 184 5 4 HELIX 8 8 PRO A 186 VAL A 197 1 12 HELIX 9 9 TYR A 228 PHE A 235 1 8 HELIX 10 10 PHE A 235 ALA A 240 1 6 HELIX 11 11 LYS A 244 TRP A 249 1 6 HELIX 12 12 ILE A 260 VAL A 266 1 7 HELIX 13 13 VAL A 266 GLY A 276 1 11 HELIX 14 14 ASP A 305 GLY A 314 1 10 HELIX 15 15 GLY A 314 GLU A 325 1 12 HELIX 16 16 SER A 335 GLU A 346 1 12 HELIX 17 17 GLU A 350 LEU A 366 1 17 HELIX 18 18 ASP A 375 GLU A 394 1 20 HELIX 19 19 ASN A 397 GLN A 420 1 24 HELIX 20 20 GLN A 420 ASN A 425 1 6 HELIX 21 21 LYS A 429 TYR A 452 1 24 HELIX 22 22 THR A 455 LEU A 466 1 12 HELIX 23 23 HIS B 21 ARG B 41 1 21 HELIX 24 24 GLY B 55 GLY B 66 1 12 HELIX 25 25 SER B 68 LEU B 87 1 20 HELIX 26 26 ASP B 99 ARG B 116 1 18 HELIX 27 27 LEU B 166 LYS B 168 5 3 HELIX 28 28 TYR B 169 ASN B 180 1 12 HELIX 29 29 PRO B 186 LYS B 198 1 13 HELIX 30 30 TYR B 228 PHE B 235 1 8 HELIX 31 31 PHE B 235 ALA B 240 1 6 HELIX 32 32 LYS B 244 TRP B 249 1 6 HELIX 33 33 ILE B 260 VAL B 266 1 7 HELIX 34 34 VAL B 266 GLY B 276 1 11 HELIX 35 35 ASP B 305 GLY B 314 1 10 HELIX 36 36 GLY B 314 GLU B 325 1 12 HELIX 37 37 SER B 335 GLU B 346 1 12 HELIX 38 38 ILE B 351 LEU B 366 1 16 HELIX 39 39 ASP B 375 LYS B 395 1 21 HELIX 40 40 ASN B 397 GLN B 420 1 24 HELIX 41 41 GLN B 420 GLU B 427 1 8 HELIX 42 42 LYS B 429 TYR B 452 1 24 HELIX 43 43 THR B 455 LEU B 466 1 12 SHEET 1 A 5 LYS A 93 ARG A 96 0 SHEET 2 A 5 ASP A 44 ASP A 52 1 N THR A 51 O ILE A 95 SHEET 3 A 5 LYS A 6 TYR A 15 1 N VAL A 9 O PHE A 46 SHEET 4 A 5 LEU A 253 GLY A 257 1 O LEU A 255 N THR A 10 SHEET 5 A 5 VAL A 283 HIS A 286 1 O HIS A 286 N VAL A 256 SHEET 1 B 3 ILE A 119 GLU A 123 0 SHEET 2 B 3 PRO A 160 PHE A 164 -1 O PHE A 163 N TYR A 120 SHEET 3 B 3 LEU A 204 SER A 205 -1 O LEU A 204 N PHE A 164 SHEET 1 C 3 THR A 207 PRO A 209 0 SHEET 2 C 3 ASP A 222 ILE A 227 -1 O THR A 226 N ARG A 208 SHEET 3 C 3 PRO A 218 VAL A 219 -1 N VAL A 219 O ASP A 222 SHEET 1 D 2 TRP A 289 THR A 290 0 SHEET 2 D 2 GLY A 332 ASP A 333 1 O GLY A 332 N THR A 290 SHEET 1 E 2 GLU A 369 VAL A 370 0 SHEET 2 E 2 TYR A 483 LYS A 484 -1 O TYR A 483 N VAL A 370 SHEET 1 F 5 LYS B 93 ARG B 96 0 SHEET 2 F 5 ASP B 44 ASP B 52 1 N THR B 51 O ILE B 95 SHEET 3 F 5 LYS B 6 TYR B 15 1 N PHE B 7 O ASP B 44 SHEET 4 F 5 LEU B 253 GLY B 257 1 O LEU B 255 N THR B 10 SHEET 5 F 5 VAL B 283 HIS B 286 1 O HIS B 286 N VAL B 256 SHEET 1 G 3 ILE B 119 GLY B 122 0 SHEET 2 G 3 SER B 161 PHE B 164 -1 O PHE B 163 N TYR B 120 SHEET 3 G 3 LEU B 204 SER B 205 -1 O LEU B 204 N PHE B 164 SHEET 1 H 3 THR B 207 PRO B 209 0 SHEET 2 H 3 ASP B 222 ILE B 227 -1 O THR B 226 N ARG B 208 SHEET 3 H 3 PRO B 218 VAL B 219 -1 N VAL B 219 O ASP B 222 SHEET 1 I 2 TRP B 289 THR B 290 0 SHEET 2 I 2 GLY B 332 ASP B 333 1 O GLY B 332 N THR B 290 SITE 1 AC1 20 PRO A 12 ILE A 13 TYR A 14 TYR A 15 SITE 2 AC1 20 HIS A 21 GLY A 23 HIS A 24 ASP A 52 SITE 3 AC1 20 TRP A 230 ALA A 233 ASN A 236 TYR A 237 SITE 4 AC1 20 GLY A 257 ASP A 259 ILE A 260 HIS A 286 SITE 5 AC1 20 GLY A 287 TRP A 288 TRP A 289 HOH A 518 SITE 1 AC2 18 PRO B 12 ILE B 13 TYR B 14 TYR B 15 SITE 2 AC2 18 HIS B 21 GLY B 23 ASP B 52 TRP B 230 SITE 3 AC2 18 ALA B 233 ASN B 236 TYR B 237 GLY B 257 SITE 4 AC2 18 ASP B 259 ILE B 260 HIS B 286 GLY B 287 SITE 5 AC2 18 TRP B 288 TRP B 289 CRYST1 91.488 110.614 161.009 90.00 90.00 90.00 P 21 21 21 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 0.010930 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009040 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006211 0.00000