HEADER LIGASE/RNA 16-MAY-13 4KR2 TITLE GLYCYL-TRNA SYNTHETASE IN COMPLEX WITH TRNA-GLY COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCINE--TRNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 114-739; COMPND 5 SYNONYM: DIADENOSINE TETRAPHOSPHATE SYNTHETASE, AP-4-A SYNTHETASE, COMPND 6 GLYCYL-TRNA SYNTHETASE, GLYRS; COMPND 7 EC: 6.1.1.14; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: GLY-TRNA-CCC; COMPND 11 CHAIN: C; COMPND 12 SYNONYM: TRNA-GLY; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: GARS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21B(+); SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 OTHER_DETAILS: RNA IS IN-VITRO TRANSCRIBED. KEYWDS ROSSMANN FOLD, AMINOACYLATION, TRNA-GLY, LIGASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.QIN,Z.HAO,Q.TIAN,Z.ZHANG,C.ZHOU,W.XIE REVDAT 3 08-NOV-23 4KR2 1 REMARK SEQADV LINK REVDAT 2 13-AUG-14 4KR2 1 JRNL REVDAT 1 21-MAY-14 4KR2 0 JRNL AUTH X.QIN,Z.HAO,Q.TIAN,Z.ZHANG,C.ZHOU,W.XIE JRNL TITL COCRYSTAL STRUCTURES OF GLYCYL-TRNA SYNTHETASE IN COMPLEX JRNL TITL 2 WITH TRNA SUGGEST MULTIPLE CONFORMATIONAL STATES IN JRNL TITL 3 GLYCYLATION JRNL REF J.BIOL.CHEM. V. 289 20359 2014 JRNL REFN ISSN 0021-9258 JRNL PMID 24898252 JRNL DOI 10.1074/JBC.M114.557249 REMARK 2 REMARK 2 RESOLUTION. 3.29 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.25 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.3 REMARK 3 NUMBER OF REFLECTIONS : 13627 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.238 REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 691 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 32.2535 - 5.6210 0.82 2540 99 0.2470 0.2789 REMARK 3 2 5.6210 - 4.4654 0.87 2531 141 0.2222 0.2713 REMARK 3 3 4.4654 - 3.9020 0.90 2593 128 0.2126 0.2478 REMARK 3 4 3.9020 - 3.5457 0.94 2651 166 0.2457 0.3075 REMARK 3 5 3.5457 - 3.2919 0.93 2621 157 0.2586 0.2909 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.310 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.020 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 79.21 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 107.8 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 5292 REMARK 3 ANGLE : 0.905 7518 REMARK 3 CHIRALITY : 0.057 892 REMARK 3 PLANARITY : 0.004 715 REMARK 3 DIHEDRAL : 17.399 2159 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 64:304) REMARK 3 ORIGIN FOR THE GROUP (A): -5.8605 39.0086 34.0014 REMARK 3 T TENSOR REMARK 3 T11: 0.4789 T22: 0.5248 REMARK 3 T33: 0.9435 T12: -0.0753 REMARK 3 T13: -0.1031 T23: -0.0440 REMARK 3 L TENSOR REMARK 3 L11: 2.4394 L22: 2.3100 REMARK 3 L33: 1.0044 L12: -1.1800 REMARK 3 L13: -0.6039 L23: -0.0050 REMARK 3 S TENSOR REMARK 3 S11: 0.1330 S12: 0.3137 S13: -0.4617 REMARK 3 S21: -0.2704 S22: 0.0357 S23: 0.2901 REMARK 3 S31: 0.1303 S32: -0.1682 S33: -0.1971 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 305:412) REMARK 3 ORIGIN FOR THE GROUP (A): -20.6920 26.2173 44.3839 REMARK 3 T TENSOR REMARK 3 T11: 0.4856 T22: 0.5083 REMARK 3 T33: 0.9951 T12: -0.0486 REMARK 3 T13: 0.0220 T23: 0.0662 REMARK 3 L TENSOR REMARK 3 L11: 6.9510 L22: 6.4811 REMARK 3 L33: 3.8140 L12: -0.0412 REMARK 3 L13: 1.8811 L23: 0.7284 REMARK 3 S TENSOR REMARK 3 S11: 0.0156 S12: 0.0160 S13: -1.0991 REMARK 3 S21: -0.0895 S22: -0.0677 S23: 0.4836 REMARK 3 S31: 0.6624 S32: -0.1440 S33: -0.0501 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 413:438) REMARK 3 ORIGIN FOR THE GROUP (A): 4.2533 11.8324 33.0670 REMARK 3 T TENSOR REMARK 3 T11: 0.7490 T22: 0.6505 REMARK 3 T33: 1.7980 T12: 0.0252 REMARK 3 T13: -0.0263 T23: -0.0840 REMARK 3 L TENSOR REMARK 3 L11: 3.4123 L22: 3.3071 REMARK 3 L33: 6.6326 L12: 1.3978 REMARK 3 L13: -1.1603 L23: -2.1241 REMARK 3 S TENSOR REMARK 3 S11: -0.0117 S12: -0.2858 S13: -1.7501 REMARK 3 S21: -0.6272 S22: -0.1550 S23: -0.3438 REMARK 3 S31: 0.4760 S32: -0.0975 S33: 0.0375 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 506:595) REMARK 3 ORIGIN FOR THE GROUP (A): -10.7954 46.6792 50.2085 REMARK 3 T TENSOR REMARK 3 T11: 0.3932 T22: 0.6188 REMARK 3 T33: 0.6346 T12: -0.0102 REMARK 3 T13: 0.0071 T23: 0.0312 REMARK 3 L TENSOR REMARK 3 L11: 3.8182 L22: 4.7742 REMARK 3 L33: 1.2151 L12: -1.8603 REMARK 3 L13: -0.2202 L23: -0.1667 REMARK 3 S TENSOR REMARK 3 S11: -0.1713 S12: -0.5030 S13: 0.0021 REMARK 3 S21: 0.3096 S22: 0.3015 S23: -0.0199 REMARK 3 S31: -0.0850 S32: -0.0122 S33: -0.1690 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 596:676) REMARK 3 ORIGIN FOR THE GROUP (A): -15.6956 58.5833 65.0904 REMARK 3 T TENSOR REMARK 3 T11: 0.8484 T22: 0.8704 REMARK 3 T33: 0.9126 T12: 0.1247 REMARK 3 T13: 0.0734 T23: -0.0481 REMARK 3 L TENSOR REMARK 3 L11: 4.9802 L22: 3.1937 REMARK 3 L33: 5.6303 L12: 0.7612 REMARK 3 L13: 1.7153 L23: -0.5118 REMARK 3 S TENSOR REMARK 3 S11: 0.1364 S12: -0.7059 S13: -0.2702 REMARK 3 S21: 0.8657 S22: 0.1970 S23: 0.2264 REMARK 3 S31: 0.1542 S32: 0.1584 S33: -0.2157 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 1:4) REMARK 3 ORIGIN FOR THE GROUP (A): -25.6735 49.2821 14.5416 REMARK 3 T TENSOR REMARK 3 T11: 1.6701 T22: 1.7787 REMARK 3 T33: 1.8071 T12: 0.2945 REMARK 3 T13: -0.7105 T23: 0.0613 REMARK 3 L TENSOR REMARK 3 L11: 2.0033 L22: 7.4203 REMARK 3 L33: 9.1002 L12: -6.7388 REMARK 3 L13: -9.4636 L23: 7.4723 REMARK 3 S TENSOR REMARK 3 S11: -0.4843 S12: -1.3535 S13: 1.3338 REMARK 3 S21: 0.2395 S22: 0.2317 S23: -0.2705 REMARK 3 S31: 0.6670 S32: 0.3002 S33: 0.3658 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 5:20) REMARK 3 ORIGIN FOR THE GROUP (A): -26.1453 72.0065 24.9302 REMARK 3 T TENSOR REMARK 3 T11: 0.7790 T22: 0.7711 REMARK 3 T33: 1.3508 T12: 0.0382 REMARK 3 T13: 0.0734 T23: 0.2169 REMARK 3 L TENSOR REMARK 3 L11: 5.3239 L22: 5.6731 REMARK 3 L33: 9.2305 L12: -3.1128 REMARK 3 L13: 2.8043 L23: -0.4002 REMARK 3 S TENSOR REMARK 3 S11: -0.0035 S12: 0.9615 S13: 1.8449 REMARK 3 S21: -0.7829 S22: -0.2242 S23: 0.0447 REMARK 3 S31: -0.7966 S32: -0.1948 S33: 0.1796 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 21:58) REMARK 3 ORIGIN FOR THE GROUP (A): -20.5817 76.8442 36.4274 REMARK 3 T TENSOR REMARK 3 T11: 0.6413 T22: 0.8071 REMARK 3 T33: 1.5060 T12: -0.0421 REMARK 3 T13: -0.0670 T23: 0.1838 REMARK 3 L TENSOR REMARK 3 L11: 1.6741 L22: 2.8866 REMARK 3 L33: 1.1980 L12: -0.6622 REMARK 3 L13: -0.7846 L23: 0.5074 REMARK 3 S TENSOR REMARK 3 S11: 0.2264 S12: 0.2508 S13: 0.8912 REMARK 3 S21: -0.2065 S22: 0.2648 S23: 0.2803 REMARK 3 S31: -0.7876 S32: -0.1928 S33: -0.5534 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 59:71) REMARK 3 ORIGIN FOR THE GROUP (A): -23.1976 60.6080 16.5869 REMARK 3 T TENSOR REMARK 3 T11: 1.2347 T22: 0.9697 REMARK 3 T33: 0.9958 T12: -0.0891 REMARK 3 T13: -0.0420 T23: 0.1067 REMARK 3 L TENSOR REMARK 3 L11: 7.1748 L22: 9.3232 REMARK 3 L33: 6.0859 L12: -7.6564 REMARK 3 L13: 2.7026 L23: -3.5176 REMARK 3 S TENSOR REMARK 3 S11: 0.8223 S12: 0.4611 S13: 0.0838 REMARK 3 S21: -0.6871 S22: -0.9049 S23: 0.9860 REMARK 3 S31: 1.4083 S32: -0.8636 S33: 0.0495 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4KR2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000079687. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97930 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13638 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.292 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 5.600 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.12600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.630 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 1GAX AND 2PME REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 32% PEG600, 0.1M NACL, 0.1M MES, PH REMARK 280 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 67.98200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.24950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 67.98200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.24950 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 53640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -80.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 88.49900 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 MET A 57 REMARK 465 ALA A 58 REMARK 465 SER A 59 REMARK 465 PRO A 60 REMARK 465 LYS A 61 REMARK 465 ASP A 62 REMARK 465 ASP A 63 REMARK 465 LYS A 143 REMARK 465 PHE A 144 REMARK 465 ALA A 145 REMARK 465 ASP A 146 REMARK 465 PHE A 147 REMARK 465 MET A 148 REMARK 465 VAL A 149 REMARK 465 LYS A 150 REMARK 465 ASP A 151 REMARK 465 VAL A 152 REMARK 465 LYS A 153 REMARK 465 ASN A 154 REMARK 465 GLY A 155 REMARK 465 GLU A 156 REMARK 465 CYS A 157 REMARK 465 PHE A 158 REMARK 465 ARG A 159 REMARK 465 ALA A 160 REMARK 465 ASP A 161 REMARK 465 HIS A 162 REMARK 465 LEU A 163 REMARK 465 LEU A 164 REMARK 465 LYS A 165 REMARK 465 ALA A 166 REMARK 465 HIS A 167 REMARK 465 LEU A 168 REMARK 465 GLN A 169 REMARK 465 LYS A 170 REMARK 465 LEU A 171 REMARK 465 MET A 172 REMARK 465 SER A 173 REMARK 465 ASP A 174 REMARK 465 LYS A 175 REMARK 465 LYS A 176 REMARK 465 CYS A 177 REMARK 465 SER A 178 REMARK 465 VAL A 179 REMARK 465 GLU A 180 REMARK 465 LYS A 181 REMARK 465 LYS A 182 REMARK 465 SER A 183 REMARK 465 GLU A 184 REMARK 465 MET A 185 REMARK 465 GLU A 186 REMARK 465 SER A 187 REMARK 465 VAL A 188 REMARK 465 LEU A 189 REMARK 465 ALA A 190 REMARK 465 GLN A 191 REMARK 465 LEU A 192 REMARK 465 ASP A 193 REMARK 465 ASN A 194 REMARK 465 TYR A 195 REMARK 465 GLY A 196 REMARK 465 GLN A 197 REMARK 465 GLN A 198 REMARK 465 GLU A 199 REMARK 465 LEU A 200 REMARK 465 ALA A 201 REMARK 465 ASP A 202 REMARK 465 LEU A 203 REMARK 465 PHE A 204 REMARK 465 VAL A 205 REMARK 465 ASN A 206 REMARK 465 TYR A 207 REMARK 465 ASN A 208 REMARK 465 VAL A 209 REMARK 465 LYS A 210 REMARK 465 SER A 211 REMARK 465 PRO A 212 REMARK 465 ILE A 213 REMARK 465 THR A 214 REMARK 465 GLY A 215 REMARK 465 ASN A 216 REMARK 465 ASP A 217 REMARK 465 LEU A 218 REMARK 465 SER A 219 REMARK 465 PRO A 220 REMARK 465 PRO A 221 REMARK 465 VAL A 222 REMARK 465 SER A 223 REMARK 465 ASN A 381 REMARK 465 GLU A 382 REMARK 465 MET A 383 REMARK 465 ALA A 384 REMARK 465 HIS A 385 REMARK 465 TYR A 386 REMARK 465 ALA A 387 REMARK 465 ASN A 439 REMARK 465 VAL A 440 REMARK 465 VAL A 441 REMARK 465 GLN A 442 REMARK 465 PHE A 443 REMARK 465 GLU A 444 REMARK 465 PRO A 445 REMARK 465 SER A 446 REMARK 465 LYS A 447 REMARK 465 GLY A 448 REMARK 465 ALA A 449 REMARK 465 ILE A 450 REMARK 465 GLY A 451 REMARK 465 LYS A 452 REMARK 465 ALA A 453 REMARK 465 TYR A 454 REMARK 465 LYS A 455 REMARK 465 LYS A 456 REMARK 465 ASP A 457 REMARK 465 ALA A 458 REMARK 465 LYS A 459 REMARK 465 LEU A 460 REMARK 465 VAL A 461 REMARK 465 MET A 462 REMARK 465 GLU A 463 REMARK 465 TYR A 464 REMARK 465 LEU A 465 REMARK 465 ALA A 466 REMARK 465 ILE A 467 REMARK 465 CYS A 468 REMARK 465 ASP A 469 REMARK 465 GLU A 470 REMARK 465 CYS A 471 REMARK 465 TYR A 472 REMARK 465 ILE A 473 REMARK 465 THR A 474 REMARK 465 GLU A 475 REMARK 465 MET A 476 REMARK 465 GLU A 477 REMARK 465 MET A 478 REMARK 465 LEU A 479 REMARK 465 LEU A 480 REMARK 465 ASN A 481 REMARK 465 GLU A 482 REMARK 465 LYS A 483 REMARK 465 GLY A 484 REMARK 465 GLU A 485 REMARK 465 PHE A 486 REMARK 465 THR A 487 REMARK 465 ILE A 488 REMARK 465 GLU A 489 REMARK 465 THR A 490 REMARK 465 GLU A 491 REMARK 465 GLY A 492 REMARK 465 LYS A 493 REMARK 465 THR A 494 REMARK 465 PHE A 495 REMARK 465 GLN A 496 REMARK 465 LEU A 497 REMARK 465 THR A 498 REMARK 465 LYS A 499 REMARK 465 ASP A 500 REMARK 465 MET A 501 REMARK 465 ILE A 502 REMARK 465 ASN A 503 REMARK 465 VAL A 504 REMARK 465 LYS A 505 REMARK 465 THR A 677 REMARK 465 GLY A 678 REMARK 465 LYS A 679 REMARK 465 LYS A 680 REMARK 465 GLU A 681 REMARK 465 THR A 682 REMARK 465 ILE A 683 REMARK 465 GLU A 684 REMARK 465 GLU A 685 REMARK 465 LEU A 686 REMARK 465 GLU A 687 REMARK 465 HIS A 688 REMARK 465 HIS A 689 REMARK 465 HIS A 690 REMARK 465 HIS A 691 REMARK 465 HIS A 692 REMARK 465 HIS A 693 REMARK 465 C C 72 REMARK 465 A C 73 REMARK 465 C C 74 REMARK 465 C C 75 REMARK 465 A C 76 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 ILE A 64 CG1 CG2 CD1 REMARK 470 PHE A 224 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 226 CG CD1 CD2 REMARK 470 LYS A 255 CG CD CE NZ REMARK 470 GLU A 305 CG CD OE1 OE2 REMARK 470 LYS A 325 CG CD CE NZ REMARK 470 GLU A 380 CG CD OE1 OE2 REMARK 470 ASP A 409 CG OD1 OD2 REMARK 470 TYR A 413 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 423 CG CD CE NZ REMARK 470 LYS A 433 CG CD CE NZ REMARK 470 GLU A 434 CG CD OE1 OE2 REMARK 470 LYS A 436 CG CD CE NZ REMARK 470 ARG A 506 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 508 CG CD OE1 NE2 REMARK 470 LYS A 509 CG CD CE NZ REMARK 470 GLU A 543 CG CD OE1 OE2 REMARK 470 SER A 568 OG REMARK 470 GLN A 569 CG CD OE1 NE2 REMARK 470 ASN A 570 CG OD1 ND2 REMARK 470 GLN A 571 CG CD OE1 NE2 REMARK 470 GLU A 572 CG CD OE1 OE2 REMARK 470 LYS A 578 CG CD CE NZ REMARK 470 GLU A 579 CG CD OE1 OE2 REMARK 470 LYS A 592 CG CD CE NZ REMARK 470 PHE A 620 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 625 CG CD CE NZ REMARK 470 THR A 626 OG1 CG2 REMARK 470 ARG A 668 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 673 CG CD OE1 OE2 REMARK 470 GLU A 676 CG CD OE1 OE2 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 410 OE1 GLU A 522 2.11 REMARK 500 O2' A C 58 OP2 U C 60 2.13 REMARK 500 OG SER A 597 OP2 A C 29 2.17 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 VAL A 141 97.93 -69.83 REMARK 500 PRO A 234 -81.04 -45.78 REMARK 500 ARG A 283 -166.88 -129.90 REMARK 500 SER A 284 14.05 57.26 REMARK 500 GLN A 344 2.64 -66.67 REMARK 500 SER A 411 -76.40 -52.56 REMARK 500 PHE A 507 164.50 177.94 REMARK 500 GLN A 569 3.19 -62.95 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 CYS A 412 TYR A 413 -131.49 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 AMP A 701 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4KQE RELATED DB: PDB REMARK 900 RELATED ID: 4KR3 RELATED DB: PDB DBREF 4KR2 A 60 685 UNP P41250 SYG_HUMAN 114 739 DBREF 4KR2 C 1 76 GB 174921 K00209 1 74 SEQADV 4KR2 MET A 57 UNP P41250 EXPRESSION TAG SEQADV 4KR2 ALA A 58 UNP P41250 EXPRESSION TAG SEQADV 4KR2 SER A 59 UNP P41250 EXPRESSION TAG SEQADV 4KR2 LEU A 686 UNP P41250 EXPRESSION TAG SEQADV 4KR2 GLU A 687 UNP P41250 EXPRESSION TAG SEQADV 4KR2 HIS A 688 UNP P41250 EXPRESSION TAG SEQADV 4KR2 HIS A 689 UNP P41250 EXPRESSION TAG SEQADV 4KR2 HIS A 690 UNP P41250 EXPRESSION TAG SEQADV 4KR2 HIS A 691 UNP P41250 EXPRESSION TAG SEQADV 4KR2 HIS A 692 UNP P41250 EXPRESSION TAG SEQADV 4KR2 HIS A 693 UNP P41250 EXPRESSION TAG SEQRES 1 A 637 MET ALA SER PRO LYS ASP ASP ILE VAL ASP ARG ALA LYS SEQRES 2 A 637 MET GLU ASP THR LEU LYS ARG ARG PHE PHE TYR ASP GLN SEQRES 3 A 637 ALA PHE ALA ILE TYR GLY GLY VAL SER GLY LEU TYR ASP SEQRES 4 A 637 PHE GLY PRO VAL GLY CYS ALA LEU LYS ASN ASN ILE ILE SEQRES 5 A 637 GLN THR TRP ARG GLN HIS PHE ILE GLN GLU GLU GLN ILE SEQRES 6 A 637 LEU GLU ILE ASP CYS THR MET LEU THR PRO GLU PRO VAL SEQRES 7 A 637 LEU LYS THR SER GLY HIS VAL ASP LYS PHE ALA ASP PHE SEQRES 8 A 637 MET VAL LYS ASP VAL LYS ASN GLY GLU CYS PHE ARG ALA SEQRES 9 A 637 ASP HIS LEU LEU LYS ALA HIS LEU GLN LYS LEU MET SER SEQRES 10 A 637 ASP LYS LYS CYS SER VAL GLU LYS LYS SER GLU MET GLU SEQRES 11 A 637 SER VAL LEU ALA GLN LEU ASP ASN TYR GLY GLN GLN GLU SEQRES 12 A 637 LEU ALA ASP LEU PHE VAL ASN TYR ASN VAL LYS SER PRO SEQRES 13 A 637 ILE THR GLY ASN ASP LEU SER PRO PRO VAL SER PHE ASN SEQRES 14 A 637 LEU MET PHE LYS THR PHE ILE GLY PRO GLY GLY ASN MET SEQRES 15 A 637 PRO GLY TYR LEU ARG PRO GLU THR ALA GLN GLY ILE PHE SEQRES 16 A 637 LEU ASN PHE LYS ARG LEU LEU GLU PHE ASN GLN GLY LYS SEQRES 17 A 637 LEU PRO PHE ALA ALA ALA GLN ILE GLY ASN SER PHE ARG SEQRES 18 A 637 ASN GLU ILE SER PRO ARG SER GLY LEU ILE ARG VAL ARG SEQRES 19 A 637 GLU PHE THR MET ALA GLU ILE GLU HIS PHE VAL ASP PRO SEQRES 20 A 637 SER GLU LYS ASP HIS PRO LYS PHE GLN ASN VAL ALA ASP SEQRES 21 A 637 LEU HIS LEU TYR LEU TYR SER ALA LYS ALA GLN VAL SER SEQRES 22 A 637 GLY GLN SER ALA ARG LYS MET ARG LEU GLY ASP ALA VAL SEQRES 23 A 637 GLU GLN GLY VAL ILE ASN ASN THR VAL LEU GLY TYR PHE SEQRES 24 A 637 ILE GLY ARG ILE TYR LEU TYR LEU THR LYS VAL GLY ILE SEQRES 25 A 637 SER PRO ASP LYS LEU ARG PHE ARG GLN HIS MET GLU ASN SEQRES 26 A 637 GLU MET ALA HIS TYR ALA CYS ASP CYS TRP ASP ALA GLU SEQRES 27 A 637 SER LYS THR SER TYR GLY TRP ILE GLU ILE VAL GLY CYS SEQRES 28 A 637 ALA ASP ARG SER CYS TYR ASP LEU SER CYS HIS ALA ARG SEQRES 29 A 637 ALA THR LYS VAL PRO LEU VAL ALA GLU LYS PRO LEU LYS SEQRES 30 A 637 GLU PRO LYS THR VAL ASN VAL VAL GLN PHE GLU PRO SER SEQRES 31 A 637 LYS GLY ALA ILE GLY LYS ALA TYR LYS LYS ASP ALA LYS SEQRES 32 A 637 LEU VAL MET GLU TYR LEU ALA ILE CYS ASP GLU CYS TYR SEQRES 33 A 637 ILE THR GLU MET GLU MET LEU LEU ASN GLU LYS GLY GLU SEQRES 34 A 637 PHE THR ILE GLU THR GLU GLY LYS THR PHE GLN LEU THR SEQRES 35 A 637 LYS ASP MET ILE ASN VAL LYS ARG PHE GLN LYS THR LEU SEQRES 36 A 637 TYR VAL GLU GLU VAL VAL PRO ASN VAL ILE GLU PRO SER SEQRES 37 A 637 PHE GLY LEU GLY ARG ILE MET TYR THR VAL PHE GLU HIS SEQRES 38 A 637 THR PHE HIS VAL ARG GLU GLY ASP GLU GLN ARG THR PHE SEQRES 39 A 637 PHE SER PHE PRO ALA VAL VAL ALA PRO PHE LYS CYS SER SEQRES 40 A 637 VAL LEU PRO LEU SER GLN ASN GLN GLU PHE MET PRO PHE SEQRES 41 A 637 VAL LYS GLU LEU SER GLU ALA LEU THR ARG HIS GLY VAL SEQRES 42 A 637 SER HIS LYS VAL ASP ASP SER SER GLY SER ILE GLY ARG SEQRES 43 A 637 ARG TYR ALA ARG THR ASP GLU ILE GLY VAL ALA PHE GLY SEQRES 44 A 637 VAL THR ILE ASP PHE ASP THR VAL ASN LYS THR PRO HIS SEQRES 45 A 637 THR ALA THR LEU ARG ASP ARG ASP SER MET ARG GLN ILE SEQRES 46 A 637 ARG ALA GLU ILE SER GLU LEU PRO SER ILE VAL GLN ASP SEQRES 47 A 637 LEU ALA ASN GLY ASN ILE THR TRP ALA ASP VAL GLU ALA SEQRES 48 A 637 ARG TYR PRO LEU PHE GLU GLY GLN GLU THR GLY LYS LYS SEQRES 49 A 637 GLU THR ILE GLU GLU LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 74 GTP C G C C G C U G G U G U SEQRES 2 C 74 A G U G G U A U C A U G C SEQRES 3 C 74 A A G A U U C C C A U U C SEQRES 4 C 74 U U G C G A C C C G G G U SEQRES 5 C 74 U C G A U U C C C G G G C SEQRES 6 C 74 G G C G C A C C A MODRES 4KR2 GTP C 1 G GUANOSINE-5'-TRIPHOSPHATE HET GTP C 1 32 HET AMP A 701 23 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM AMP ADENOSINE MONOPHOSPHATE FORMUL 2 GTP C10 H16 N5 O14 P3 FORMUL 3 AMP C10 H14 N5 O7 P FORMUL 4 HOH *5(H2 O) HELIX 1 1 ASP A 66 ARG A 77 1 12 HELIX 2 2 PHE A 84 GLY A 88 5 5 HELIX 3 3 GLY A 97 GLN A 120 1 24 HELIX 4 4 GLU A 132 SER A 138 1 7 HELIX 5 5 ALA A 247 ASN A 253 1 7 HELIX 6 6 ASN A 253 ASN A 261 1 9 HELIX 7 7 SER A 284 ARG A 288 5 5 HELIX 8 8 LYS A 310 VAL A 314 5 5 HELIX 9 9 SER A 323 SER A 329 1 7 HELIX 10 10 LEU A 338 GLN A 344 1 7 HELIX 11 11 ASN A 349 VAL A 366 1 18 HELIX 12 12 SER A 369 ASP A 371 5 3 HELIX 13 13 ASP A 414 THR A 422 1 9 HELIX 14 14 LEU A 527 PHE A 539 1 13 HELIX 15 15 ASN A 570 GLU A 572 5 3 HELIX 16 16 PHE A 573 HIS A 587 1 15 HELIX 17 17 SER A 599 ILE A 610 1 12 HELIX 18 18 ASP A 619 ASN A 624 1 6 HELIX 19 19 GLU A 647 ASN A 657 1 11 HELIX 20 20 THR A 661 TYR A 669 1 9 SHEET 1 A 2 TYR A 80 ALA A 83 0 SHEET 2 A 2 VAL A 90 PHE A 96 -1 O ASP A 95 N ASP A 81 SHEET 1 B 9 LEU A 122 GLU A 123 0 SHEET 2 B 9 PHE A 267 PHE A 276 1 O ALA A 268 N LEU A 122 SHEET 3 B 9 GLU A 291 VAL A 301 -1 O MET A 294 N GLY A 273 SHEET 4 B 9 ASN A 519 GLY A 526 -1 O PHE A 525 N ALA A 295 SHEET 5 B 9 GLY A 400 ASP A 409 -1 N ILE A 404 O GLY A 526 SHEET 6 B 9 ASP A 389 THR A 397 -1 N TRP A 391 O CYS A 407 SHEET 7 B 9 LEU A 373 GLN A 377 -1 N ARG A 374 O GLU A 394 SHEET 8 B 9 HIS A 318 TYR A 322 1 N TYR A 320 O PHE A 375 SHEET 9 B 9 ARG A 334 ARG A 337 -1 O ARG A 334 N LEU A 321 SHEET 1 C 3 LEU A 129 PRO A 131 0 SHEET 2 C 3 PRO A 239 LEU A 242 -1 O TYR A 241 N THR A 130 SHEET 3 C 3 LYS A 229 PHE A 231 -1 N THR A 230 O GLY A 240 SHEET 1 D 2 ALA A 428 THR A 437 0 SHEET 2 D 2 THR A 510 VAL A 516 -1 O LEU A 511 N LYS A 436 SHEET 1 E 2 HIS A 540 VAL A 541 0 SHEET 2 E 2 THR A 549 PHE A 550 -1 O PHE A 550 N HIS A 540 SHEET 1 F 5 HIS A 591 VAL A 593 0 SHEET 2 F 5 CYS A 562 PRO A 566 1 N CYS A 562 O LYS A 592 SHEET 3 F 5 PHE A 614 ILE A 618 1 O VAL A 616 N SER A 563 SHEET 4 F 5 THR A 629 ASP A 634 -1 O ARG A 633 N GLY A 615 SHEET 5 F 5 GLN A 640 GLU A 644 -1 O ALA A 643 N ALA A 630 LINK O3' GTP C 1 P C C 2 1555 1555 1.60 CISPEP 1 LEU A 265 PRO A 266 0 -2.21 SITE 1 AC1 11 ARG A 277 GLU A 279 ILE A 287 VAL A 289 SITE 2 AC1 11 PHE A 292 GLU A 403 ILE A 404 VAL A 405 SITE 3 AC1 11 SER A 524 GLY A 526 ARG A 529 CRYST1 135.964 88.499 80.497 90.00 90.00 90.00 P 21 21 2 4 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 0.007355 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011300 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012423 0.00000