HEADER LIGASE 06-DEC-06 2O5R TITLE CRYSTAL STRUCTURE OF GLUTAMYL-TRNA SYNTHETASE 1 (EC 6.1.1.17) TITLE 2 (GLUTAMATE-TRNA LIGASE 1) (GLURS 1) (TM1351) FROM THERMOTOGA MARITIMA TITLE 3 AT 2.5 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMYL-TRNA SYNTHETASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GLUTAMATE-TRNA LIGASE 1, GLURS 1; COMPND 5 EC: 6.1.1.17; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: GLTX1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TM1351, GLUTAMYL-TRNA SYNTHETASE 1, EC 6.1.1.17, GLUTAMATE-TRNA KEYWDS 2 LIGASE 1, GLURS 1, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 8 15-NOV-23 2O5R 1 REMARK REVDAT 7 20-SEP-23 2O5R 1 REMARK REVDAT 6 25-JAN-23 2O5R 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 2O5R 1 REMARK REVDAT 4 18-OCT-17 2O5R 1 REMARK REVDAT 3 13-JUL-11 2O5R 1 VERSN REVDAT 2 24-FEB-09 2O5R 1 VERSN REVDAT 1 19-DEC-06 2O5R 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF GLUTAMYL-TRNA SYNTHETASE 1 (EC JRNL TITL 2 6.1.1.17) (GLUTAMATE-TRNA LIGASE 1) (GLURS 1) (TM1351) FROM JRNL TITL 3 THERMOTOGA MARITIMA AT 2.5 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.34 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.34 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.35 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.0 REMARK 3 NUMBER OF REFLECTIONS : 30264 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1524 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) : 2.34 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.40 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2431 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.4040 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.3910 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3828 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 60 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 46.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.18000 REMARK 3 B22 (A**2) : -0.18000 REMARK 3 B33 (A**2) : 0.27000 REMARK 3 B12 (A**2) : -0.09000 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): 0.319 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.247 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.278 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.009 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3927 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2833 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5293 ; 1.427 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6859 ; 1.235 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 467 ; 3.060 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 191 ;27.887 ;23.298 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 718 ;10.179 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;11.053 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 558 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4303 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 833 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 717 ; 0.144 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2728 ; 0.117 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1838 ; 0.146 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1795 ; 0.067 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 74 ; 0.078 ; 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): 7 ; 0.104 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 34 ; 0.111 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2521 ; 0.347 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 937 ; 0.044 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3781 ; 0.528 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1725 ; 0.662 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1512 ; 0.998 ; 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 251 REMARK 3 ORIGIN FOR THE GROUP (A): -43.0740 12.4700 39.4950 REMARK 3 T TENSOR REMARK 3 T11: 0.6862 T22: 0.2733 REMARK 3 T33: 0.1222 T12: 0.2821 REMARK 3 T13: -0.1361 T23: -0.0828 REMARK 3 L TENSOR REMARK 3 L11: 2.0815 L22: 1.9659 REMARK 3 L33: 4.1959 L12: -0.8882 REMARK 3 L13: 0.0073 L23: 0.1736 REMARK 3 S TENSOR REMARK 3 S11: 0.0288 S12: 0.2538 S13: 0.1672 REMARK 3 S21: -0.1355 S22: -0.0336 S23: -0.0268 REMARK 3 S31: 0.1633 S32: 0.1744 S33: 0.0048 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 252 A 468 REMARK 3 ORIGIN FOR THE GROUP (A): -23.2360 25.0700 82.7860 REMARK 3 T TENSOR REMARK 3 T11: 0.7352 T22: 0.6777 REMARK 3 T33: 0.3207 T12: 0.1762 REMARK 3 T13: -0.0815 T23: -0.1432 REMARK 3 L TENSOR REMARK 3 L11: 3.2050 L22: 1.2002 REMARK 3 L33: 5.9364 L12: 1.8620 REMARK 3 L13: 3.7834 L23: 2.1741 REMARK 3 S TENSOR REMARK 3 S11: 0.3974 S12: 0.3872 S13: -0.1142 REMARK 3 S21: 0.0575 S22: 0.0133 S23: -0.2789 REMARK 3 S31: -0.0715 S32: 0.9970 S33: -0.4107 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED REMARK 3 SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. GOL REMARK 3 MOLECULES FROM THE CRYSTALLIZATION/CRYO SOLUTION ARE MODELED. 5. REMARK 3 UNEXPLAINED DENSITY NEAR A15, A323, AND A432. 6. DUE TO STRONG REMARK 3 ICE RINGS 4928 REFLECTIONS BETWEEN 2.732-2.654, 2.584-2.551, AND REMARK 3 2.463-2.411 ANGSTROMS WERE OMITTED FROM THE FINAL REFINEMENT. 7. REMARK 3 THE NOMINAL RESOLUTION IS 2.50 A WITH 4299 OBSERVED REFLECTIONS REMARK 3 BETWEEN 2.50-2.34 (69.1% COMPLETE FOR THIS SHELL) INCLUDED IN REMARK 3 THE REFINEMENT. REMARK 4 REMARK 4 2O5R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-DEC-06. REMARK 100 THE DEPOSITION ID IS D_1000040721. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-AUG-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.94926, 0.97925, 0.97939 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : ADJUSTABLE FOCUSING MIRRORS IN K REMARK 200 -B GEOMETRY REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35284 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.340 REMARK 200 RESOLUTION RANGE LOW (A) : 47.351 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.16500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.34 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.26 REMARK 200 R MERGE FOR SHELL (I) : 0.01200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD, MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SHELX, SOLVE, MOLREP, RESOLVE, SHELXD REMARK 200 STARTING MODEL: PDB ENTRY 1G59 CHAIN A REMARK 200 REMARK 200 REMARK: THE EXPERIMENTAL MAD MAP WAS PARTIALLY AUTOTRACED WITH REMARK 200 RESOLVE. TO AID IN COMPLETING THE TRACE, A MOLECULAR REPLACEMENT REMARK 200 SOLUTION (USING 1G59 CHAIN-A AS A SEARCH MODEL) THAT HAD BEEN REMARK 200 PARTIALLY REFINED AGAINST A LOWER RESOLUTION TM1351 DATA SET WAS REMARK 200 SUPERIMPOSED ON AUTOTRACED MODEL. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M CAACETATE, 10.0% PEG-8000, 0.1M REMARK 280 IMIDAZOLE PH 8.0, VAPOR DIFFUSION, SITTING DROP, NANODROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 94.64833 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 189.29667 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 189.29667 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 94.64833 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAINS. SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 300 SIZE EXCLUSION CHROMATOGRAPHY SUPPORTS THE ASSIGNMENT OF REMARK 300 A MONOMER AS THE SIGNIFICANT OLIGOMERIZATION STATE. 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 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 MSE A -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 GLY A 469 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 MSE A 1 SE CE REMARK 470 LYS A 98 CD CE NZ REMARK 470 GLU A 140 CD OE1 OE2 REMARK 470 GLU A 146 CD OE1 OE2 REMARK 470 ARG A 160 CD NE CZ NH1 NH2 REMARK 470 GLN A 315 CD OE1 NE2 REMARK 470 LYS A 399 CD CE NZ 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 39 NE - CZ - NH2 ANGL. DEV. = -3.0 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 ILE A 112 -58.25 70.02 REMARK 500 PRO A 126 46.50 -84.90 REMARK 500 ASN A 404 62.68 -104.00 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 CL A 470 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 472 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 473 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 283212 RELATED DB: TARGETDB DBREF 2O5R A 1 469 UNP Q9X172 SYE1_THEMA 1 469 SEQADV 2O5R MSE A -11 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R GLY A -10 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R SER A -9 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R ASP A -8 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R LYS A -7 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R ILE A -6 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R HIS A -5 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R HIS A -4 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R HIS A -3 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R HIS A -2 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R HIS A -1 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R HIS A 0 UNP Q9X172 EXPRESSION TAG SEQADV 2O5R MSE A 1 UNP Q9X172 MET 1 MODIFIED RESIDUE SEQADV 2O5R MSE A 57 UNP Q9X172 MET 57 MODIFIED RESIDUE SEQADV 2O5R MSE A 115 UNP Q9X172 MET 115 MODIFIED RESIDUE SEQADV 2O5R MSE A 132 UNP Q9X172 MET 132 MODIFIED RESIDUE SEQADV 2O5R MSE A 158 UNP Q9X172 MET 158 MODIFIED RESIDUE SEQADV 2O5R MSE A 186 UNP Q9X172 MET 186 MODIFIED RESIDUE SEQADV 2O5R MSE A 203 UNP Q9X172 MET 203 MODIFIED RESIDUE SEQADV 2O5R MSE A 205 UNP Q9X172 MET 205 MODIFIED RESIDUE SEQADV 2O5R MSE A 266 UNP Q9X172 MET 266 MODIFIED RESIDUE SEQADV 2O5R MSE A 320 UNP Q9X172 MET 320 MODIFIED RESIDUE SEQADV 2O5R MSE A 328 UNP Q9X172 MET 328 MODIFIED RESIDUE SEQADV 2O5R MSE A 391 UNP Q9X172 MET 391 MODIFIED RESIDUE SEQADV 2O5R MSE A 409 UNP Q9X172 MET 409 MODIFIED RESIDUE SEQADV 2O5R MSE A 432 UNP Q9X172 MET 432 MODIFIED RESIDUE SEQRES 1 A 481 MSE GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MSE SEQRES 2 A 481 VAL ARG VAL ARG PHE ALA PRO SER PRO THR GLY PHE LEU SEQRES 3 A 481 HIS VAL GLY GLY ALA ARG THR ALA LEU PHE ASN PHE LEU SEQRES 4 A 481 PHE ALA ARG LYS GLU LYS GLY LYS PHE ILE LEU ARG ILE SEQRES 5 A 481 GLU ASP THR ASP LEU GLU ARG SER GLU ARG GLU TYR GLU SEQRES 6 A 481 GLU LYS LEU MSE GLU SER LEU ARG TRP LEU GLY LEU LEU SEQRES 7 A 481 TRP ASP GLU GLY PRO ASP VAL GLY GLY ASP HIS GLY PRO SEQRES 8 A 481 TYR ARG GLN SER GLU ARG VAL GLU ILE TYR ARG GLU HIS SEQRES 9 A 481 ALA GLU ARG LEU VAL LYS GLU GLY LYS ALA TYR TYR VAL SEQRES 10 A 481 TYR ALA TYR PRO GLU GLU ILE GLU GLU MSE ARG GLU LYS SEQRES 11 A 481 LEU LEU SER GLU GLY LYS ALA PRO HIS TYR SER GLN GLU SEQRES 12 A 481 MSE PHE GLU LYS PHE ASP THR PRO GLU ARG ARG ARG GLU SEQRES 13 A 481 TYR GLU GLU LYS GLY LEU ARG PRO ALA VAL PHE PHE LYS SEQRES 14 A 481 MSE PRO ARG LYS ASP TYR VAL LEU ASN ASP VAL VAL LYS SEQRES 15 A 481 GLY GLU VAL VAL PHE LYS THR GLY ALA ILE GLY ASP PHE SEQRES 16 A 481 VAL ILE MSE ARG SER ASN GLY LEU PRO THR TYR ASN PHE SEQRES 17 A 481 ALA CYS VAL VAL ASP ASP MSE LEU MSE GLU ILE THR HIS SEQRES 18 A 481 VAL ILE ARG GLY ASP ASP HIS LEU SER ASN THR LEU ARG SEQRES 19 A 481 GLN LEU ALA LEU TYR GLU ALA PHE GLU LYS ALA PRO PRO SEQRES 20 A 481 VAL PHE ALA HIS VAL SER THR ILE LEU GLY PRO ASP GLY SEQRES 21 A 481 LYS LYS LEU SER LYS ARG HIS GLY ALA THR SER VAL GLU SEQRES 22 A 481 ALA PHE ARG ASP MSE GLY TYR LEU PRO GLU ALA LEU VAL SEQRES 23 A 481 ASN TYR LEU ALA LEU LEU GLY TRP SER HIS PRO GLU GLY SEQRES 24 A 481 LYS GLU LEU LEU THR LEU GLU GLU LEU ILE SER SER PHE SEQRES 25 A 481 SER LEU ASP ARG LEU SER PRO ASN PRO ALA ILE PHE ASP SEQRES 26 A 481 PRO GLN LYS LEU LYS TRP MSE ASN GLY TYR TYR LEU ARG SEQRES 27 A 481 ASN MSE PRO ILE GLU LYS LEU ALA GLU LEU ALA LYS PRO SEQRES 28 A 481 PHE PHE GLU LYS ALA GLY ILE LYS ILE ILE ASP GLU GLU SEQRES 29 A 481 TYR PHE LYS LYS VAL LEU GLU ILE THR LYS GLU ARG VAL SEQRES 30 A 481 GLU VAL LEU SER GLU PHE PRO GLU GLU SER ARG PHE PHE SEQRES 31 A 481 PHE GLU ASP PRO ALA PRO VAL GLU ILE PRO GLU GLU MSE SEQRES 32 A 481 LYS GLU VAL PHE SER GLN LEU LYS GLU GLU LEU GLN ASN SEQRES 33 A 481 VAL ARG TRP THR MSE GLU GLU ILE THR PRO VAL PHE LYS SEQRES 34 A 481 LYS VAL LEU LYS GLN HIS GLY VAL LYS PRO LYS GLU PHE SEQRES 35 A 481 TYR MSE THR LEU ARG ARG VAL LEU THR GLY ARG GLU GLU SEQRES 36 A 481 GLY PRO GLU LEU VAL ASN ILE ILE PRO LEU LEU GLY LYS SEQRES 37 A 481 GLU ILE PHE LEU ARG ARG ILE GLU ARG SER LEU GLY GLY MODRES 2O5R MSE A 1 MET SELENOMETHIONINE MODRES 2O5R MSE A 57 MET SELENOMETHIONINE MODRES 2O5R MSE A 115 MET SELENOMETHIONINE MODRES 2O5R MSE A 132 MET SELENOMETHIONINE MODRES 2O5R MSE A 158 MET SELENOMETHIONINE MODRES 2O5R MSE A 186 MET SELENOMETHIONINE MODRES 2O5R MSE A 203 MET SELENOMETHIONINE MODRES 2O5R MSE A 205 MET SELENOMETHIONINE MODRES 2O5R MSE A 266 MET SELENOMETHIONINE MODRES 2O5R MSE A 320 MET SELENOMETHIONINE MODRES 2O5R MSE A 328 MET SELENOMETHIONINE MODRES 2O5R MSE A 391 MET SELENOMETHIONINE MODRES 2O5R MSE A 409 MET SELENOMETHIONINE MODRES 2O5R MSE A 432 MET SELENOMETHIONINE HET MSE A 1 6 HET MSE A 57 8 HET MSE A 115 8 HET MSE A 132 8 HET MSE A 158 8 HET MSE A 186 8 HET MSE A 203 8 HET MSE A 205 8 HET MSE A 266 8 HET MSE A 320 8 HET MSE A 328 8 HET MSE A 391 8 HET MSE A 409 8 HET MSE A 432 8 HET CL A 470 1 HET CL A 471 1 HET CL A 472 1 HET GOL A 473 6 HETNAM MSE SELENOMETHIONINE HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 2 CL 3(CL 1-) FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *60(H2 O) HELIX 1 1 HIS A 15 LYS A 33 1 19 HELIX 2 2 ARG A 47 GLU A 49 5 3 HELIX 3 3 ARG A 50 GLY A 64 1 15 HELIX 4 4 ARG A 81 GLU A 84 5 4 HELIX 5 5 ARG A 85 GLU A 99 1 15 HELIX 6 6 ILE A 112 GLU A 122 1 11 HELIX 7 7 SER A 129 GLU A 134 5 6 HELIX 8 8 THR A 138 LYS A 148 1 11 HELIX 9 9 THR A 193 MSE A 205 1 13 HELIX 10 10 HIS A 216 PHE A 230 1 15 HELIX 11 11 SER A 252 GLY A 256 5 5 HELIX 12 12 SER A 259 GLY A 267 1 9 HELIX 13 13 LEU A 269 LEU A 279 1 11 HELIX 14 14 THR A 292 PHE A 300 1 9 HELIX 15 15 SER A 301 LEU A 305 5 5 HELIX 16 16 ASP A 313 MSE A 328 1 16 HELIX 17 17 PRO A 329 ALA A 344 1 16 HELIX 18 18 ASP A 350 LYS A 362 1 13 HELIX 19 19 VAL A 367 SER A 369 5 3 HELIX 20 20 GLU A 370 SER A 375 1 6 HELIX 21 21 ARG A 376 PHE A 379 5 4 HELIX 22 22 PRO A 388 GLU A 390 5 3 HELIX 23 23 MSE A 391 LEU A 402 1 12 HELIX 24 24 THR A 408 GLY A 424 1 17 HELIX 25 25 LYS A 426 THR A 439 1 14 HELIX 26 26 GLU A 446 LEU A 454 1 9 HELIX 27 27 GLY A 455 LEU A 467 1 13 SHEET 1 A 2 ARG A 3 PHE A 6 0 SHEET 2 A 2 LYS A 35 LEU A 38 1 O ILE A 37 N VAL A 4 SHEET 1 B 3 ALA A 102 VAL A 105 0 SHEET 2 B 3 ALA A 153 PHE A 156 -1 O PHE A 155 N TYR A 103 SHEET 3 B 3 PHE A 183 MSE A 186 -1 O ILE A 185 N VAL A 154 SHEET 1 C 2 TYR A 163 ASP A 167 0 SHEET 2 C 2 GLY A 171 PHE A 175 -1 O PHE A 175 N TYR A 163 SHEET 1 D 2 HIS A 209 GLY A 213 0 SHEET 2 D 2 VAL A 236 VAL A 240 1 O VAL A 236 N VAL A 210 SHEET 1 E 2 ILE A 243 LEU A 244 0 SHEET 2 E 2 ALA A 310 ILE A 311 1 O ALA A 310 N LEU A 244 LINK C MSE A 1 N VAL A 2 1555 1555 1.34 LINK C LEU A 56 N MSE A 57 1555 1555 1.34 LINK C MSE A 57 N GLU A 58 1555 1555 1.34 LINK C GLU A 114 N MSE A 115 1555 1555 1.34 LINK C MSE A 115 N ARG A 116 1555 1555 1.34 LINK C GLU A 131 N MSE A 132 1555 1555 1.34 LINK C MSE A 132 N PHE A 133 1555 1555 1.34 LINK C LYS A 157 N MSE A 158 1555 1555 1.34 LINK C MSE A 158 N PRO A 159 1555 1555 1.35 LINK C ILE A 185 N MSE A 186 1555 1555 1.34 LINK C MSE A 186 N ARG A 187 1555 1555 1.33 LINK C ASP A 202 N MSE A 203 1555 1555 1.34 LINK C MSE A 203 N LEU A 204 1555 1555 1.34 LINK C LEU A 204 N MSE A 205 1555 1555 1.34 LINK C MSE A 205 N GLU A 206 1555 1555 1.34 LINK C ASP A 265 N MSE A 266 1555 1555 1.34 LINK C MSE A 266 N GLY A 267 1555 1555 1.34 LINK C TRP A 319 N MSE A 320 1555 1555 1.33 LINK C MSE A 320 N ASN A 321 1555 1555 1.34 LINK C ASN A 327 N MSE A 328 1555 1555 1.34 LINK C MSE A 328 N PRO A 329 1555 1555 1.37 LINK C GLU A 390 N MSE A 391 1555 1555 1.34 LINK C MSE A 391 N LYS A 392 1555 1555 1.34 LINK C THR A 408 N MSE A 409 1555 1555 1.34 LINK C MSE A 409 N GLU A 410 1555 1555 1.33 LINK C TYR A 431 N MSE A 432 1555 1555 1.34 LINK C MSE A 432 N THR A 433 1555 1555 1.33 CISPEP 1 GLY A 78 PRO A 79 0 -0.64 SITE 1 AC1 3 ARG A 5 TYR A 194 ARG A 212 SITE 1 AC2 1 ARG A 435 SITE 1 AC3 4 VAL A 168 VAL A 169 ASP A 303 LEU A 305 CRYST1 69.953 69.953 283.945 90.00 90.00 120.00 P 31 2 1 6 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 0.014290 0.008250 0.000000 0.00000 SCALE2 0.000000 0.016510 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003520 0.00000 HETATM 1 N MSE A 1 -50.230 -4.706 54.536 1.00 32.44 N HETATM 2 CA MSE A 1 -51.518 -3.960 54.662 1.00 32.51 C HETATM 3 C MSE A 1 -51.325 -2.433 54.609 1.00 32.44 C HETATM 4 O MSE A 1 -52.138 -1.745 53.982 1.00 32.77 O HETATM 5 CB MSE A 1 -52.247 -4.363 55.955 1.00 32.60 C HETATM 6 CG MSE A 1 -53.604 -3.680 56.167 1.00 32.49 C