HEADER TRANSPORT PROTEIN 18-APR-07 2YVZ TITLE CRYSTAL STRUCTURE OF MAGNESIUM TRANSPORTER MGTE CYTOSOLIC DOMAIN, TITLE 2 MG2+-FREE FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: MG2+ TRANSPORTER MGTE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CYTOSOLIC DOMAIN; COMPND 5 SYNONYM: MGTE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: C41 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS MEMBRANE PROTEIN, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.HATTORI,Y.TANAKA,S.FUKAI,R.ISHITANI,O.NUREKI REVDAT 5 13-NOV-24 2YVZ 1 SEQADV LINK REVDAT 4 13-JUL-11 2YVZ 1 VERSN REVDAT 3 24-FEB-09 2YVZ 1 VERSN REVDAT 2 15-JAN-08 2YVZ 1 TITLE REVDAT 1 04-SEP-07 2YVZ 0 JRNL AUTH M.HATTORI,Y.TANAKA,S.FUKAI,R.ISHITANI,O.NUREKI JRNL TITL CRYSTAL STRUCTURE OF THE MGTE MG(2+) TRANSPORTER JRNL REF NATURE V. 448 1072 2007 JRNL REFN ISSN 0028-0836 JRNL PMID 17700703 JRNL DOI 10.1038/NATURE06093 REMARK 2 REMARK 2 RESOLUTION. 3.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 3084808.870 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 7435 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) : 0.346 REMARK 3 FREE R VALUE : 0.370 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.400 REMARK 3 FREE R VALUE TEST SET COUNT : 402 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.018 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) : 3.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 4.14 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1159 REMARK 3 BIN R VALUE (WORKING SET) : 0.5880 REMARK 3 BIN FREE R VALUE : 0.5530 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 51 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.077 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3982 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 227.1 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -51.62000 REMARK 3 B22 (A**2) : 20.56000 REMARK 3 B33 (A**2) : 31.06000 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) : 0.92 REMARK 3 ESD FROM SIGMAA (A) : 1.18 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) : 0.73 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.89 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.014 REMARK 3 BOND ANGLES (DEGREES) : 1.900 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.260 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) : 1.630 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.980 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.640 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.800 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.25 REMARK 3 BSOL : 117.9 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 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 2YVZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000027203. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JAN-07 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 : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97909, 0.97926, 0.96403 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7435 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.97 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.38100 REMARK 200 FOR SHELL : 2.200 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 (%): 63.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M AMMONIUM ACETATE, REMARK 280 0.5% N-OCTYL-BETA-D-GLUCOPYRANOSIDE, 10% ETHYLENE GLYCOL, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 38.55600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.07900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.09150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.07900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.55600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.09150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 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: DIMERIC 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 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 -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MSE A 1 REMARK 465 GLU A 2 REMARK 465 GLU A 3 REMARK 465 LYS A 4 REMARK 465 GLU A 253 REMARK 465 ALA A 254 REMARK 465 GLU A 255 REMARK 465 ALA A 256 REMARK 465 THR A 257 REMARK 465 GLU A 258 REMARK 465 ASP A 259 REMARK 465 ILE A 260 REMARK 465 HIS A 261 REMARK 465 LYS A 262 REMARK 465 LEU A 263 REMARK 465 GLY A 264 REMARK 465 ALA A 265 REMARK 465 VAL A 266 REMARK 465 ASP A 267 REMARK 465 VAL A 268 REMARK 465 PRO A 269 REMARK 465 ASP A 270 REMARK 465 LEU A 271 REMARK 465 VAL A 272 REMARK 465 TYR A 273 REMARK 465 SER A 274 REMARK 465 GLU A 275 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MSE B 1 REMARK 465 GLU B 2 REMARK 465 GLU B 3 REMARK 465 LYS B 4 REMARK 465 GLU B 253 REMARK 465 ALA B 254 REMARK 465 GLU B 255 REMARK 465 ALA B 256 REMARK 465 THR B 257 REMARK 465 GLU B 258 REMARK 465 ASP B 259 REMARK 465 ILE B 260 REMARK 465 HIS B 261 REMARK 465 LYS B 262 REMARK 465 LEU B 263 REMARK 465 GLY B 264 REMARK 465 ALA B 265 REMARK 465 VAL B 266 REMARK 465 ASP B 267 REMARK 465 VAL B 268 REMARK 465 PRO B 269 REMARK 465 ASP B 270 REMARK 465 LEU B 271 REMARK 465 VAL B 272 REMARK 465 TYR B 273 REMARK 465 SER B 274 REMARK 465 GLU B 275 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 GLU A 133 N GLY A 135 1.78 REMARK 500 O GLU B 124 NH1 ARG B 128 2.10 REMARK 500 OG SER B 65 OE1 GLU B 68 2.13 REMARK 500 C GLU A 131 OE1 GLU A 133 2.15 REMARK 500 NH2 ARG A 187 O GLU B 166 2.15 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 ALA A 127 N - CA - C ANGL. DEV. = 21.4 DEGREES REMARK 500 TYR A 129 CA - CB - CG ANGL. DEV. = -11.6 DEGREES REMARK 500 GLU A 133 N - CA - C ANGL. DEV. = 25.1 DEGREES REMARK 500 PRO A 163 C - N - CA ANGL. DEV. = 11.2 DEGREES REMARK 500 ALA B 127 N - CA - C ANGL. DEV. = 19.2 DEGREES REMARK 500 PRO B 163 C - N - CA ANGL. DEV. = 12.0 DEGREES REMARK 500 PRO B 231 C - N - CA ANGL. DEV. = 9.3 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 ALA A 6 -106.90 -73.68 REMARK 500 VAL A 7 2.45 -67.71 REMARK 500 GLN A 10 0.96 -56.23 REMARK 500 LEU A 13 -66.93 -94.43 REMARK 500 GLN A 14 0.92 -49.77 REMARK 500 ARG A 19 -66.88 -104.69 REMARK 500 ALA A 20 0.51 -66.02 REMARK 500 ASP A 32 -24.81 -39.94 REMARK 500 LEU A 34 -1.86 -52.19 REMARK 500 ALA A 35 -79.64 -95.75 REMARK 500 TRP A 37 -85.47 -32.24 REMARK 500 ASP A 38 -7.64 -34.23 REMARK 500 LEU A 40 177.06 -51.35 REMARK 500 LYS A 54 -15.35 -19.28 REMARK 500 ALA A 57 -37.22 -39.41 REMARK 500 SER A 62 -2.38 -58.72 REMARK 500 SER A 65 170.70 -58.23 REMARK 500 GLU A 67 -36.06 -37.71 REMARK 500 GLU A 68 -70.41 -70.72 REMARK 500 GLN A 69 -40.84 -26.76 REMARK 500 ALA A 96 -77.96 -60.82 REMARK 500 LYS A 102 -36.60 -24.99 REMARK 500 GLU A 103 -70.93 -95.90 REMARK 500 LEU A 126 -79.52 -98.47 REMARK 500 ALA A 127 170.14 -43.18 REMARK 500 ARG A 128 15.88 -168.76 REMARK 500 GLU A 131 16.76 -49.44 REMARK 500 ASP A 132 14.66 124.27 REMARK 500 ALA A 134 -70.32 20.09 REMARK 500 LEU A 137 -50.51 -146.42 REMARK 500 PRO A 140 5.86 -46.55 REMARK 500 MSE A 149 125.62 -37.52 REMARK 500 THR A 167 132.84 -176.23 REMARK 500 GLU A 176 -67.37 -26.11 REMARK 500 GLU A 200 15.39 -53.81 REMARK 500 ILE A 201 -41.95 -135.69 REMARK 500 TYR A 208 -145.37 -100.87 REMARK 500 VAL A 209 144.45 172.85 REMARK 500 GLN A 215 -5.34 -58.68 REMARK 500 LEU A 230 116.19 -170.04 REMARK 500 ASP A 234 -138.81 -98.07 REMARK 500 VAL A 240 -4.95 -144.91 REMARK 500 VAL A 251 3.11 -63.18 REMARK 500 ALA B 6 -105.43 -74.86 REMARK 500 VAL B 7 1.13 -66.90 REMARK 500 GLN B 10 1.30 -57.20 REMARK 500 LEU B 13 -63.75 -96.92 REMARK 500 GLN B 14 -1.54 -49.04 REMARK 500 ARG B 19 -66.78 -105.24 REMARK 500 LEU B 34 -2.11 -51.36 REMARK 500 REMARK 500 THIS ENTRY HAS 81 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 TYR A 129 0.11 SIDE CHAIN REMARK 500 TYR A 172 0.07 SIDE CHAIN REMARK 500 TYR B 170 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YVX RELATED DB: PDB REMARK 900 RELATED ID: 2YVY RELATED DB: PDB DBREF 2YVZ A 1 275 UNP Q5SMG8 Q5SMG8_THET8 1 275 DBREF 2YVZ B 1 275 UNP Q5SMG8 Q5SMG8_THET8 1 275 SEQADV 2YVZ GLY A -2 UNP Q5SMG8 EXPRESSION TAG SEQADV 2YVZ SER A -1 UNP Q5SMG8 EXPRESSION TAG SEQADV 2YVZ HIS A 0 UNP Q5SMG8 EXPRESSION TAG SEQADV 2YVZ MSE A 1 UNP Q5SMG8 MET 1 MODIFIED RESIDUE SEQADV 2YVZ MSE A 138 UNP Q5SMG8 MET 138 MODIFIED RESIDUE SEQADV 2YVZ MSE A 149 UNP Q5SMG8 MET 149 MODIFIED RESIDUE SEQADV 2YVZ MSE A 202 UNP Q5SMG8 MET 202 MODIFIED RESIDUE SEQADV 2YVZ MSE A 222 UNP Q5SMG8 MET 222 MODIFIED RESIDUE SEQADV 2YVZ GLY B -2 UNP Q5SMG8 EXPRESSION TAG SEQADV 2YVZ SER B -1 UNP Q5SMG8 EXPRESSION TAG SEQADV 2YVZ HIS B 0 UNP Q5SMG8 EXPRESSION TAG SEQADV 2YVZ MSE B 1 UNP Q5SMG8 MET 1 MODIFIED RESIDUE SEQADV 2YVZ MSE B 138 UNP Q5SMG8 MET 138 MODIFIED RESIDUE SEQADV 2YVZ MSE B 149 UNP Q5SMG8 MET 149 MODIFIED RESIDUE SEQADV 2YVZ MSE B 202 UNP Q5SMG8 MET 202 MODIFIED RESIDUE SEQADV 2YVZ MSE B 222 UNP Q5SMG8 MET 222 MODIFIED RESIDUE SEQRES 1 A 278 GLY SER HIS MSE GLU GLU LYS LEU ALA VAL SER LEU GLN SEQRES 2 A 278 GLU ALA LEU GLN GLU GLY ASP THR ARG ALA LEU ARG GLU SEQRES 3 A 278 VAL LEU GLU GLU ILE HIS PRO GLN ASP LEU LEU ALA LEU SEQRES 4 A 278 TRP ASP GLU LEU LYS GLY GLU HIS ARG TYR VAL VAL LEU SEQRES 5 A 278 THR LEU LEU PRO LYS ALA LYS ALA ALA GLU VAL LEU SER SEQRES 6 A 278 HIS LEU SER PRO GLU GLU GLN ALA GLU TYR LEU LYS THR SEQRES 7 A 278 LEU PRO PRO TRP ARG LEU ARG GLU ILE LEU GLU GLU LEU SEQRES 8 A 278 SER LEU ASP ASP LEU ALA ASP ALA LEU GLN ALA VAL ARG SEQRES 9 A 278 LYS GLU ASP PRO ALA TYR PHE GLN ARG LEU LYS ASP LEU SEQRES 10 A 278 LEU ASP PRO ARG THR ARG ALA GLU VAL GLU ALA LEU ALA SEQRES 11 A 278 ARG TYR GLU GLU ASP GLU ALA GLY GLY LEU MSE THR PRO SEQRES 12 A 278 GLU TYR VAL ALA VAL ARG GLU GLY MSE THR VAL GLU GLU SEQRES 13 A 278 VAL LEU ARG PHE LEU ARG ARG ALA ALA PRO ASP ALA GLU SEQRES 14 A 278 THR ILE TYR TYR ILE TYR VAL VAL ASP GLU LYS GLY ARG SEQRES 15 A 278 LEU LYS GLY VAL LEU SER LEU ARG ASP LEU ILE VAL ALA SEQRES 16 A 278 ASP PRO ARG THR ARG VAL ALA GLU ILE MSE ASN PRO LYS SEQRES 17 A 278 VAL VAL TYR VAL ARG THR ASP THR ASP GLN GLU GLU VAL SEQRES 18 A 278 ALA ARG LEU MSE ALA ASP TYR ASP PHE THR VAL LEU PRO SEQRES 19 A 278 VAL VAL ASP GLU GLU GLY ARG LEU VAL GLY ILE VAL THR SEQRES 20 A 278 VAL ASP ASP VAL LEU ASP VAL LEU GLU ALA GLU ALA THR SEQRES 21 A 278 GLU ASP ILE HIS LYS LEU GLY ALA VAL ASP VAL PRO ASP SEQRES 22 A 278 LEU VAL TYR SER GLU SEQRES 1 B 278 GLY SER HIS MSE GLU GLU LYS LEU ALA VAL SER LEU GLN SEQRES 2 B 278 GLU ALA LEU GLN GLU GLY ASP THR ARG ALA LEU ARG GLU SEQRES 3 B 278 VAL LEU GLU GLU ILE HIS PRO GLN ASP LEU LEU ALA LEU SEQRES 4 B 278 TRP ASP GLU LEU LYS GLY GLU HIS ARG TYR VAL VAL LEU SEQRES 5 B 278 THR LEU LEU PRO LYS ALA LYS ALA ALA GLU VAL LEU SER SEQRES 6 B 278 HIS LEU SER PRO GLU GLU GLN ALA GLU TYR LEU LYS THR SEQRES 7 B 278 LEU PRO PRO TRP ARG LEU ARG GLU ILE LEU GLU GLU LEU SEQRES 8 B 278 SER LEU ASP ASP LEU ALA ASP ALA LEU GLN ALA VAL ARG SEQRES 9 B 278 LYS GLU ASP PRO ALA TYR PHE GLN ARG LEU LYS ASP LEU SEQRES 10 B 278 LEU ASP PRO ARG THR ARG ALA GLU VAL GLU ALA LEU ALA SEQRES 11 B 278 ARG TYR GLU GLU ASP GLU ALA GLY GLY LEU MSE THR PRO SEQRES 12 B 278 GLU TYR VAL ALA VAL ARG GLU GLY MSE THR VAL GLU GLU SEQRES 13 B 278 VAL LEU ARG PHE LEU ARG ARG ALA ALA PRO ASP ALA GLU SEQRES 14 B 278 THR ILE TYR TYR ILE TYR VAL VAL ASP GLU LYS GLY ARG SEQRES 15 B 278 LEU LYS GLY VAL LEU SER LEU ARG ASP LEU ILE VAL ALA SEQRES 16 B 278 ASP PRO ARG THR ARG VAL ALA GLU ILE MSE ASN PRO LYS SEQRES 17 B 278 VAL VAL TYR VAL ARG THR ASP THR ASP GLN GLU GLU VAL SEQRES 18 B 278 ALA ARG LEU MSE ALA ASP TYR ASP PHE THR VAL LEU PRO SEQRES 19 B 278 VAL VAL ASP GLU GLU GLY ARG LEU VAL GLY ILE VAL THR SEQRES 20 B 278 VAL ASP ASP VAL LEU ASP VAL LEU GLU ALA GLU ALA THR SEQRES 21 B 278 GLU ASP ILE HIS LYS LEU GLY ALA VAL ASP VAL PRO ASP SEQRES 22 B 278 LEU VAL TYR SER GLU MODRES 2YVZ MSE A 138 MET SELENOMETHIONINE MODRES 2YVZ MSE A 149 MET SELENOMETHIONINE MODRES 2YVZ MSE A 202 MET SELENOMETHIONINE MODRES 2YVZ MSE A 222 MET SELENOMETHIONINE MODRES 2YVZ MSE B 138 MET SELENOMETHIONINE MODRES 2YVZ MSE B 149 MET SELENOMETHIONINE MODRES 2YVZ MSE B 202 MET SELENOMETHIONINE MODRES 2YVZ MSE B 222 MET SELENOMETHIONINE HET MSE A 138 8 HET MSE A 149 8 HET MSE A 202 8 HET MSE A 222 8 HET MSE B 138 8 HET MSE B 149 8 HET MSE B 202 8 HET MSE B 222 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 8(C5 H11 N O2 SE) HELIX 1 1 LEU A 9 GLU A 15 1 7 HELIX 2 2 ARG A 19 GLU A 27 1 9 HELIX 3 3 HIS A 29 TRP A 37 1 9 HELIX 4 4 ASP A 38 LEU A 40 5 3 HELIX 5 5 LYS A 41 LEU A 52 1 12 HELIX 6 6 ALA A 55 SER A 62 1 8 HELIX 7 7 SER A 65 TYR A 72 1 8 HELIX 8 8 PRO A 77 GLU A 87 1 11 HELIX 9 9 SER A 89 LYS A 102 1 14 HELIX 10 10 PRO A 105 LEU A 114 1 10 HELIX 11 11 ASP A 116 ALA A 125 1 10 HELIX 12 12 GLU A 133 LEU A 137 5 5 HELIX 13 13 THR A 150 ALA A 162 1 13 HELIX 14 14 PRO A 163 ALA A 165 5 3 HELIX 15 15 LEU A 186 ALA A 192 1 7 HELIX 16 16 GLU A 216 ASP A 226 1 11 HELIX 17 17 VAL A 245 VAL A 251 1 7 HELIX 18 18 LEU B 9 GLU B 15 1 7 HELIX 19 19 ARG B 19 GLU B 27 1 9 HELIX 20 20 HIS B 29 TRP B 37 1 9 HELIX 21 21 ASP B 38 LEU B 40 5 3 HELIX 22 22 LYS B 41 LEU B 52 1 12 HELIX 23 23 ALA B 55 SER B 62 1 8 HELIX 24 24 SER B 65 TYR B 72 1 8 HELIX 25 25 PRO B 77 GLU B 87 1 11 HELIX 26 26 LEU B 90 LYS B 102 1 13 HELIX 27 27 PRO B 105 LEU B 114 1 10 HELIX 28 28 ASP B 116 ALA B 125 1 10 HELIX 29 29 THR B 150 ALA B 162 1 13 HELIX 30 30 PRO B 163 ALA B 165 5 3 HELIX 31 31 LEU B 186 ALA B 192 1 7 HELIX 32 32 GLU B 216 ASP B 226 1 11 HELIX 33 33 VAL B 245 VAL B 251 1 7 SHEET 1 A 3 ALA A 144 ARG A 146 0 SHEET 2 A 3 TYR A 170 VAL A 174 1 O TYR A 172 N VAL A 145 SHEET 3 A 3 LEU A 180 SER A 185 -1 O LEU A 184 N ILE A 171 SHEET 1 B 2 VAL A 229 VAL A 233 0 SHEET 2 B 2 LEU A 239 THR A 244 -1 O GLY A 241 N VAL A 232 SHEET 1 C 3 ALA B 144 ARG B 146 0 SHEET 2 C 3 TYR B 170 VAL B 174 1 O TYR B 172 N VAL B 145 SHEET 3 C 3 LEU B 180 SER B 185 -1 O LEU B 184 N ILE B 171 SHEET 1 D 2 VAL B 229 VAL B 233 0 SHEET 2 D 2 LEU B 239 THR B 244 -1 O GLY B 241 N VAL B 232 LINK C LEU A 137 N MSE A 138 1555 1555 1.33 LINK C MSE A 138 N THR A 139 1555 1555 1.33 LINK C GLY A 148 N MSE A 149 1555 1555 1.34 LINK C MSE A 149 N THR A 150 1555 1555 1.34 LINK C ILE A 201 N MSE A 202 1555 1555 1.32 LINK C MSE A 202 N ASN A 203 1555 1555 1.33 LINK C LEU A 221 N MSE A 222 1555 1555 1.33 LINK C MSE A 222 N ALA A 223 1555 1555 1.33 LINK C LEU B 137 N MSE B 138 1555 1555 1.33 LINK C MSE B 138 N THR B 139 1555 1555 1.32 LINK C GLY B 148 N MSE B 149 1555 1555 1.34 LINK C MSE B 149 N THR B 150 1555 1555 1.33 LINK C ILE B 201 N MSE B 202 1555 1555 1.32 LINK C MSE B 202 N ASN B 203 1555 1555 1.33 LINK C LEU B 221 N MSE B 222 1555 1555 1.33 LINK C MSE B 222 N ALA B 223 1555 1555 1.33 CRYST1 77.112 100.183 100.158 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 0.012968 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009982 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009984 0.00000 HETATM 1074 N MSE A 138 -30.967 -99.333 -48.990 1.00223.71 N HETATM 1075 CA MSE A 138 -31.018 -98.551 -50.208 1.00221.63 C HETATM 1076 C MSE A 138 -29.923 -97.522 -50.315 1.00218.73 C HETATM 1077 O MSE A 138 -29.473 -96.975 -49.318 1.00217.81 O HETATM 1078 CB MSE A 138 -32.372 -97.861 -50.333 1.00225.20 C HETATM 1079 CG MSE A 138 -32.754 -96.872 -49.204 1.00230.87 C HETATM 1080 SE MSE A 138 -34.553 -95.990 -49.581 1.00239.54 SE HETATM 1081 CE MSE A 138 -35.380 -95.747 -47.820 1.00237.55 C HETATM 1160 N MSE A 149 -40.178 -88.051 -71.943 1.00218.15 N HETATM 1161 CA MSE A 149 -38.891 -87.987 -72.654 1.00219.79 C HETATM 1162 C MSE A 149 -38.689 -89.051 -73.723 1.00220.18 C HETATM 1163 O MSE A 149 -38.781 -90.230 -73.420 1.00221.01 O HETATM 1164 CB MSE A 149 -37.752 -88.110 -71.648 1.00222.32 C HETATM 1165 CG MSE A 149 -37.660 -86.975 -70.634 1.00226.40 C HETATM 1166 SE MSE A 149 -36.234 -87.262 -69.304 1.00233.67 SE HETATM 1167 CE MSE A 149 -34.623 -86.902 -70.380 1.00229.72 C HETATM 1590 N MSE A 202 -42.204 -98.930 -71.364 1.00192.88 N HETATM 1591 CA MSE A 202 -42.046 -99.355 -69.984 1.00192.44 C HETATM 1592 C MSE A 202 -43.183-100.214 -69.474 1.00191.83 C HETATM 1593 O MSE A 202 -44.343-100.002 -69.834 1.00189.84 O HETATM 1594 CB MSE A 202 -42.021 -98.150 -69.083 1.00193.65 C HETATM 1595 CG MSE A 202 -43.418 -97.542 -69.033 1.00196.17 C HETATM 1596 SE MSE A 202 -43.735 -96.418 -67.512 1.00202.22 SE HETATM 1597 CE MSE A 202 -45.471 -97.055 -66.958 1.00198.58 C HETATM 1754 N MSE A 222 -37.440-110.559 -53.336 1.00237.38 N HETATM 1755 CA MSE A 222 -36.324-110.510 -54.264 1.00238.22 C HETATM 1756 C MSE A 222 -35.737-111.852 -54.661 1.00237.76 C HETATM 1757 O MSE A 222 -35.133-111.961 -55.729 1.00237.57 O HETATM 1758 CB MSE A 222 -35.235-109.634 -53.673 1.00240.13 C HETATM 1759 CG MSE A 222 -34.001-109.522 -54.506 1.00243.80 C HETATM 1760 SE MSE A 222 -33.048-107.967 -53.912 1.00250.22 SE HETATM 1761 CE MSE A 222 -33.114-108.259 -52.016 1.00246.14 C TER 1992 LEU A 252 HETATM 3066 N MSE B 138 -26.951-126.202 -75.767 1.00212.73 N HETATM 3067 CA MSE B 138 -26.885-124.977 -76.545 1.00213.16 C HETATM 3068 C MSE B 138 -27.976-124.860 -77.583 1.00212.00 C HETATM 3069 O MSE B 138 -28.434-125.846 -78.137 1.00211.08 O HETATM 3070 CB MSE B 138 -25.507-124.835 -77.225 1.00217.21 C HETATM 3071 CG MSE B 138 -25.160-125.830 -78.399 1.00224.18 C HETATM 3072 SE MSE B 138 -23.308-125.625 -79.377 1.00232.67 SE HETATM 3073 CE MSE B 138 -22.346-127.226 -78.783 1.00229.91 C HETATM 3152 N MSE B 149 -17.492-103.263 -86.886 1.00226.72 N HETATM 3153 CA MSE B 149 -18.772-102.538 -86.954 1.00228.22 C HETATM 3154 C MSE B 149 -18.969-101.474 -85.883 1.00228.04 C HETATM 3155 O MSE B 149 -18.879-101.785 -84.703 1.00229.09 O HETATM 3156 CB MSE B 149 -19.936-103.517 -86.833 1.00231.40 C HETATM 3157 CG MSE B 149 -20.027-104.572 -87.923 1.00236.24 C HETATM 3158 SE MSE B 149 -21.478-105.885 -87.608 1.00243.08 SE HETATM 3159 CE MSE B 149 -23.027-104.770 -88.008 1.00240.12 C HETATM 3582 N MSE B 202 -15.571-103.905 -75.998 1.00189.57 N HETATM 3583 CA MSE B 202 -15.734-105.287 -75.577 1.00189.14 C HETATM 3584 C MSE B 202 -14.598-105.818 -74.707 1.00187.46 C HETATM 3585 O MSE B 202 -13.431-105.459 -74.894 1.00186.75 O HETATM 3586 CB MSE B 202 -15.820-106.179 -76.809 1.00190.65 C HETATM 3587 CG MSE B 202 -14.480-106.204 -77.569 1.00192.93 C HETATM 3588 SE MSE B 202 -14.111-107.829 -78.618 1.00197.27 SE HETATM 3589 CE MSE B 202 -12.292-108.302 -78.087 1.00193.09 C HETATM 3746 N MSE B 222 -20.548-121.960 -64.473 1.00221.52 N HETATM 3747 CA MSE B 222 -21.663-121.035 -64.535 1.00223.39 C HETATM 3748 C MSE B 222 -22.265-120.637 -63.188 1.00222.24 C HETATM 3749 O MSE B 222 -22.865-119.565 -63.077 1.00222.09 O HETATM 3750 CB MSE B 222 -22.727-121.640 -65.438 1.00227.48 C HETATM 3751 CG MSE B 222 -23.937-120.786 -65.630 1.00234.99 C HETATM 3752 SE MSE B 222 -24.794-121.216 -67.312 1.00246.17 SE HETATM 3753 CE MSE B 222 -24.980-123.125 -67.146 1.00241.10 C TER 3984 LEU B 252 CONECT 1068 1074 CONECT 1074 1068 1075 CONECT 1075 1074 1076 1078 CONECT 1076 1075 1077 1082 CONECT 1077 1076 CONECT 1078 1075 1079 CONECT 1079 1078 1080 CONECT 1080 1079 1081 CONECT 1081 1080 CONECT 1082 1076 CONECT 1158 1160 CONECT 1160 1158 1161 CONECT 1161 1160 1162 1164 CONECT 1162 1161 1163 1168 CONECT 1163 1162 CONECT 1164 1161 1165 CONECT 1165 1164 1166 CONECT 1166 1165 1167 CONECT 1167 1166 CONECT 1168 1162 CONECT 1584 1590 CONECT 1590 1584 1591 CONECT 1591 1590 1592 1594 CONECT 1592 1591 1593 1598 CONECT 1593 1592 CONECT 1594 1591 1595 CONECT 1595 1594 1596 CONECT 1596 1595 1597 CONECT 1597 1596 CONECT 1598 1592 CONECT 1748 1754 CONECT 1754 1748 1755 CONECT 1755 1754 1756 1758 CONECT 1756 1755 1757 1762 CONECT 1757 1756 CONECT 1758 1755 1759 CONECT 1759 1758 1760 CONECT 1760 1759 1761 CONECT 1761 1760 CONECT 1762 1756 CONECT 3060 3066 CONECT 3066 3060 3067 CONECT 3067 3066 3068 3070 CONECT 3068 3067 3069 3074 CONECT 3069 3068 CONECT 3070 3067 3071 CONECT 3071 3070 3072 CONECT 3072 3071 3073 CONECT 3073 3072 CONECT 3074 3068 CONECT 3150 3152 CONECT 3152 3150 3153 CONECT 3153 3152 3154 3156 CONECT 3154 3153 3155 3160 CONECT 3155 3154 CONECT 3156 3153 3157 CONECT 3157 3156 3158 CONECT 3158 3157 3159 CONECT 3159 3158 CONECT 3160 3154 CONECT 3576 3582 CONECT 3582 3576 3583 CONECT 3583 3582 3584 3586 CONECT 3584 3583 3585 3590 CONECT 3585 3584 CONECT 3586 3583 3587 CONECT 3587 3586 3588 CONECT 3588 3587 3589 CONECT 3589 3588 CONECT 3590 3584 CONECT 3740 3746 CONECT 3746 3740 3747 CONECT 3747 3746 3748 3750 CONECT 3748 3747 3749 3754 CONECT 3749 3748 CONECT 3750 3747 3751 CONECT 3751 3750 3752 CONECT 3752 3751 3753 CONECT 3753 3752 CONECT 3754 3748 MASTER 408 0 8 33 10 0 0 6 3982 2 80 44 END