HEADER LIGASE/RNA 16-MAY-14 4QEI TITLE TWO DISTINCT CONFORMATIONAL STATES OF GLYRS CAPTURED IN CRYSTAL TITLE 2 LATTICE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCINE--TRNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 118-739; 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 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: TRNA-GLY-CCC-2-2; COMPND 12 CHAIN: C; 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 STRAIN: 293T; SOURCE 6 GENE: GARS; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21B(+); SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_COMMON: HUMAN; SOURCE 16 ORGANISM_TAXID: 9606; SOURCE 17 OTHER_DETAILS: THE RNA IS OBTAINED FROM IN VITRO TRANSCRIPTION KEYWDS AMINOACYL-TRNA SYNTHETASE, GLYCYLATION, GLYCYL-TRNA SYNTHETASE, TRNA KEYWDS 2 LIGASE, LIGASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR W.XIE,X.QIN,X.DENG,Q.ZHANG,Q.LI REVDAT 3 08-NOV-23 4QEI 1 REMARK SEQADV LINK REVDAT 2 13-APR-16 4QEI 1 JRNL REVDAT 1 20-MAY-15 4QEI 0 JRNL AUTH X.DENG,X.QIN,L.CHEN,Q.JIA,Y.ZHANG,Z.ZHANG,D.LEI,G.REN, JRNL AUTH 2 Z.ZHOU,Z.WANG,Q.LI,W.XIE JRNL TITL LARGE CONFORMATIONAL CHANGES OF INSERTION 3 IN HUMAN JRNL TITL 2 GLYCYL-TRNA SYNTHETASE (HGLYRS) DURING CATALYSIS JRNL REF J.BIOL.CHEM. V. 291 5740 2016 JRNL REFN ISSN 0021-9258 JRNL PMID 26797133 JRNL DOI 10.1074/JBC.M115.679126 REMARK 2 REMARK 2 RESOLUTION. 2.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) 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) : 2.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 22270 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1132 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 36.9035 - 5.7432 0.99 2842 133 0.2283 0.2691 REMARK 3 2 5.7432 - 4.5612 1.00 2708 149 0.2033 0.2802 REMARK 3 3 4.5612 - 3.9854 1.00 2685 142 0.1920 0.2056 REMARK 3 4 3.9854 - 3.6214 1.00 2673 144 0.2063 0.2527 REMARK 3 5 3.6214 - 3.3620 1.00 2632 158 0.2152 0.2824 REMARK 3 6 3.3620 - 3.1639 1.00 2642 138 0.2256 0.3098 REMARK 3 7 3.1639 - 3.0055 1.00 2633 145 0.2288 0.3069 REMARK 3 8 3.0055 - 2.8748 0.87 2323 123 0.2410 0.3167 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.560 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 69.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.52 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 : 0.011 5992 REMARK 3 ANGLE : 1.732 8464 REMARK 3 CHIRALITY : 0.072 1003 REMARK 3 PLANARITY : 0.012 839 REMARK 3 DIHEDRAL : 17.077 2384 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4QEI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-MAY-14. REMARK 100 THE DEPOSITION ID IS D_1000085953. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 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) : 0.98 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 : 22329 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.875 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 5.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.49500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4KR3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27% 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 67.30250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.22300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 67.30250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.22300 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: 17280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 64900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -92.0 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 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 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 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 CYS A 388 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 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 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 MET A 148 CG SD CE REMARK 470 LYS A 150 CG CD CE NZ REMARK 470 VAL A 152 CG1 CG2 REMARK 470 LYS A 153 CG CD CE NZ REMARK 470 ASN A 154 CG OD1 ND2 REMARK 470 GLU A 156 CG CD OE1 OE2 REMARK 470 PHE A 158 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 159 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 162 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 163 CG CD1 CD2 REMARK 470 LEU A 164 CG CD1 CD2 REMARK 470 HIS A 167 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 168 CG CD1 CD2 REMARK 470 GLN A 169 CG CD OE1 NE2 REMARK 470 LYS A 170 CG CD CE NZ REMARK 470 LEU A 171 CG CD1 CD2 REMARK 470 GLN A 197 CG CD OE1 NE2 REMARK 470 GLN A 198 CG CD OE1 NE2 REMARK 470 GLU A 199 CG CD OE1 OE2 REMARK 470 LEU A 200 CG CD1 CD2 REMARK 470 ASP A 202 CG OD1 OD2 REMARK 470 LEU A 203 CG CD1 CD2 REMARK 470 PHE A 204 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A 206 CG OD1 ND2 REMARK 470 PHE A 224 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASN A 225 CG OD1 ND2 REMARK 470 LYS A 229 CG CD CE NZ REMARK 470 ASN A 237 CG OD1 ND2 REMARK 470 LYS A 264 CG CD CE NZ REMARK 470 ILE A 280 CG1 CG2 CD1 REMARK 470 ARG A 283 CG CD NE CZ NH1 NH2 REMARK 470 SER A 284 OG 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 TYR A 413 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 420 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 433 CG CD CE NZ REMARK 470 GLU A 434 CG CD OE1 OE2 REMARK 470 VAL A 440 CG1 CG2 REMARK 470 GLN A 442 CG CD OE1 NE2 REMARK 470 GLU A 444 CG CD OE1 OE2 REMARK 470 LYS A 455 CG CD CE NZ REMARK 470 ASP A 457 CG OD1 OD2 REMARK 470 LYS A 459 CG CD CE NZ REMARK 470 LEU A 460 CG CD1 CD2 REMARK 470 GLU A 463 CG CD OE1 OE2 REMARK 470 ILE A 467 CG1 CG2 CD1 REMARK 470 GLU A 475 CG CD OE1 OE2 REMARK 470 LEU A 479 CG CD1 CD2 REMARK 470 LEU A 480 CG CD1 CD2 REMARK 470 GLU A 482 CG CD OE1 OE2 REMARK 470 LYS A 483 CG CD CE NZ REMARK 470 GLU A 485 CG CD OE1 OE2 REMARK 470 ILE A 488 CG1 CG2 CD1 REMARK 470 GLU A 489 CG CD OE1 OE2 REMARK 470 GLN A 496 CG CD OE1 NE2 REMARK 470 LEU A 497 CG CD1 CD2 REMARK 470 LYS A 499 CG CD CE NZ REMARK 470 GLU A 515 CG CD OE1 OE2 REMARK 470 GLU A 543 CG CD OE1 OE2 REMARK 470 SER A 568 OG REMARK 470 GLN A 571 CG CD OE1 NE2 REMARK 470 MET A 574 CG SD CE REMARK 470 LYS A 578 CG CD CE NZ REMARK 470 GLU A 579 CG CD OE1 OE2 REMARK 470 THR A 626 OG1 CG2 REMARK 470 ILE A 645 CG1 CG2 CD1 REMARK 470 GLU A 673 CG CD OE1 OE2 REMARK 470 GLU A 676 CG CD OE1 OE2 REMARK 470 LYS A 680 CG CD CE NZ 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 OD2 ASP A 621 OG1 THR A 677 2.16 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 431 C - N - CA ANGL. DEV. = 9.8 DEGREES REMARK 500 PRO A 445 C - N - CA ANGL. DEV. = 11.3 DEGREES REMARK 500 GLU A 482 N - CA - C ANGL. DEV. = -23.1 DEGREES REMARK 500 PRO A 559 C - N - CA ANGL. DEV. = 16.2 DEGREES REMARK 500 PRO A 559 C - N - CD ANGL. DEV. = -13.8 DEGREES REMARK 500 A C 21 C8 - N9 - C4 ANGL. DEV. = -3.4 DEGREES REMARK 500 A C 21 N9 - C4 - C5 ANGL. DEV. = 3.1 DEGREES REMARK 500 A C 21 N1 - C6 - N6 ANGL. DEV. = -4.4 DEGREES REMARK 500 A C 28 N1 - C6 - N6 ANGL. DEV. = -4.1 DEGREES REMARK 500 G C 43 O5' - P - OP2 ANGL. DEV. = -5.9 DEGREES REMARK 500 C C 70 C6 - N1 - C2 ANGL. DEV. = -2.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 HIS A 114 -84.59 -59.18 REMARK 500 ASP A 146 -122.95 -166.58 REMARK 500 PHE A 147 129.55 -177.91 REMARK 500 ASN A 154 158.66 69.36 REMARK 500 ALA A 166 152.13 80.10 REMARK 500 HIS A 167 -132.23 143.76 REMARK 500 LEU A 168 -54.89 -130.44 REMARK 500 GLN A 169 142.83 -179.14 REMARK 500 LYS A 170 -175.86 68.86 REMARK 500 ASN A 278 68.83 -67.53 REMARK 500 ARG A 283 -150.41 -118.71 REMARK 500 TYR A 413 -90.28 -134.36 REMARK 500 LYS A 483 127.92 -20.43 REMARK 500 LYS A 499 -149.75 -95.46 REMARK 500 PHE A 507 157.88 175.45 REMARK 500 ASP A 545 90.92 -55.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 283 -10.02 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 DBREF 4QEI A 64 685 UNP P41250 SYG_HUMAN 118 739 DBREF1 4QEI C 1 71 GB HG983799 DBREF2 4QEI C 634721920 1 69 SEQADV 4QEI GLY A 71 UNP P41250 GLU 125 ENGINEERED MUTATION SEQADV 4QEI ARG A 157 UNP P41250 CYS 211 ENGINEERED MUTATION SEQADV 4QEI LEU A 686 UNP P41250 EXPRESSION TAG SEQADV 4QEI GLU A 687 UNP P41250 EXPRESSION TAG SEQADV 4QEI HIS A 688 UNP P41250 EXPRESSION TAG SEQADV 4QEI HIS A 689 UNP P41250 EXPRESSION TAG SEQADV 4QEI HIS A 690 UNP P41250 EXPRESSION TAG SEQADV 4QEI HIS A 691 UNP P41250 EXPRESSION TAG SEQADV 4QEI HIS A 692 UNP P41250 EXPRESSION TAG SEQADV 4QEI HIS A 693 UNP P41250 EXPRESSION TAG SEQRES 1 A 630 ILE VAL ASP ARG ALA LYS MET GLY ASP THR LEU LYS ARG SEQRES 2 A 630 ARG PHE PHE TYR ASP GLN ALA PHE ALA ILE TYR GLY GLY SEQRES 3 A 630 VAL SER GLY LEU TYR ASP PHE GLY PRO VAL GLY CYS ALA SEQRES 4 A 630 LEU LYS ASN ASN ILE ILE GLN THR TRP ARG GLN HIS PHE SEQRES 5 A 630 ILE GLN GLU GLU GLN ILE LEU GLU ILE ASP CYS THR MET SEQRES 6 A 630 LEU THR PRO GLU PRO VAL LEU LYS THR SER GLY HIS VAL SEQRES 7 A 630 ASP LYS PHE ALA ASP PHE MET VAL LYS ASP VAL LYS ASN SEQRES 8 A 630 GLY GLU ARG PHE ARG ALA ASP HIS LEU LEU LYS ALA HIS SEQRES 9 A 630 LEU GLN LYS LEU MET SER ASP LYS LYS CYS SER VAL GLU SEQRES 10 A 630 LYS LYS SER GLU MET GLU SER VAL LEU ALA GLN LEU ASP SEQRES 11 A 630 ASN TYR GLY GLN GLN GLU LEU ALA ASP LEU PHE VAL ASN SEQRES 12 A 630 TYR ASN VAL LYS SER PRO ILE THR GLY ASN ASP LEU SER SEQRES 13 A 630 PRO PRO VAL SER PHE ASN LEU MET PHE LYS THR PHE ILE SEQRES 14 A 630 GLY PRO GLY GLY ASN MET PRO GLY TYR LEU ARG PRO GLU SEQRES 15 A 630 THR ALA GLN GLY ILE PHE LEU ASN PHE LYS ARG LEU LEU SEQRES 16 A 630 GLU PHE ASN GLN GLY LYS LEU PRO PHE ALA ALA ALA GLN SEQRES 17 A 630 ILE GLY ASN SER PHE ARG ASN GLU ILE SER PRO ARG SER SEQRES 18 A 630 GLY LEU ILE ARG VAL ARG GLU PHE THR MET ALA GLU ILE SEQRES 19 A 630 GLU HIS PHE VAL ASP PRO SER GLU LYS ASP HIS PRO LYS SEQRES 20 A 630 PHE GLN ASN VAL ALA ASP LEU HIS LEU TYR LEU TYR SER SEQRES 21 A 630 ALA LYS ALA GLN VAL SER GLY GLN SER ALA ARG LYS MET SEQRES 22 A 630 ARG LEU GLY ASP ALA VAL GLU GLN GLY VAL ILE ASN ASN SEQRES 23 A 630 THR VAL LEU GLY TYR PHE ILE GLY ARG ILE TYR LEU TYR SEQRES 24 A 630 LEU THR LYS VAL GLY ILE SER PRO ASP LYS LEU ARG PHE SEQRES 25 A 630 ARG GLN HIS MET GLU ASN GLU MET ALA HIS TYR ALA CYS SEQRES 26 A 630 ASP CYS TRP ASP ALA GLU SER LYS THR SER TYR GLY TRP SEQRES 27 A 630 ILE GLU ILE VAL GLY CYS ALA ASP ARG SER CYS TYR ASP SEQRES 28 A 630 LEU SER CYS HIS ALA ARG ALA THR LYS VAL PRO LEU VAL SEQRES 29 A 630 ALA GLU LYS PRO LEU LYS GLU PRO LYS THR VAL ASN VAL SEQRES 30 A 630 VAL GLN PHE GLU PRO SER LYS GLY ALA ILE GLY LYS ALA SEQRES 31 A 630 TYR LYS LYS ASP ALA LYS LEU VAL MET GLU TYR LEU ALA SEQRES 32 A 630 ILE CYS ASP GLU CYS TYR ILE THR GLU MET GLU MET LEU SEQRES 33 A 630 LEU ASN GLU LYS GLY GLU PHE THR ILE GLU THR GLU GLY SEQRES 34 A 630 LYS THR PHE GLN LEU THR LYS ASP MET ILE ASN VAL LYS SEQRES 35 A 630 ARG PHE GLN LYS THR LEU TYR VAL GLU GLU VAL VAL PRO SEQRES 36 A 630 ASN VAL ILE GLU PRO SER PHE GLY LEU GLY ARG ILE MET SEQRES 37 A 630 TYR THR VAL PHE GLU HIS THR PHE HIS VAL ARG GLU GLY SEQRES 38 A 630 ASP GLU GLN ARG THR PHE PHE SER PHE PRO ALA VAL VAL SEQRES 39 A 630 ALA PRO PHE LYS CYS SER VAL LEU PRO LEU SER GLN ASN SEQRES 40 A 630 GLN GLU PHE MET PRO PHE VAL LYS GLU LEU SER GLU ALA SEQRES 41 A 630 LEU THR ARG HIS GLY VAL SER HIS LYS VAL ASP ASP SER SEQRES 42 A 630 SER GLY SER ILE GLY ARG ARG TYR ALA ARG THR ASP GLU SEQRES 43 A 630 ILE GLY VAL ALA PHE GLY VAL THR ILE ASP PHE ASP THR SEQRES 44 A 630 VAL ASN LYS THR PRO HIS THR ALA THR LEU ARG ASP ARG SEQRES 45 A 630 ASP SER MET ARG GLN ILE ARG ALA GLU ILE SER GLU LEU SEQRES 46 A 630 PRO SER ILE VAL GLN ASP LEU ALA ASN GLY ASN ILE THR SEQRES 47 A 630 TRP ALA ASP VAL GLU ALA ARG TYR PRO LEU PHE GLU GLY SEQRES 48 A 630 GLN GLU THR GLY LYS LYS GLU THR ILE GLU GLU LEU GLU SEQRES 49 A 630 HIS HIS HIS HIS HIS HIS SEQRES 1 C 69 GTP C G C C G C U G G U G U SEQRES 2 C 69 A G U G G U A U C A U G C SEQRES 3 C 69 A A G A U U C C C A U U C SEQRES 4 C 69 U U G C G A C C C G G G U SEQRES 5 C 69 U C G A U U C C C G G G C SEQRES 6 C 69 G G C G MODRES 4QEI 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 *33(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 GLU A 119 1 23 HELIX 4 4 GLU A 132 SER A 138 1 7 HELIX 5 5 GLY A 139 PHE A 144 1 6 HELIX 6 6 ARG A 159 ALA A 166 1 8 HELIX 7 7 GLN A 198 VAL A 205 1 8 HELIX 8 8 THR A 246 ASN A 253 1 8 HELIX 9 9 ASN A 253 ASN A 261 1 9 HELIX 10 10 SER A 284 ARG A 288 5 5 HELIX 11 11 LYS A 310 VAL A 314 5 5 HELIX 12 12 SER A 323 SER A 329 1 7 HELIX 13 13 LEU A 338 GLN A 344 1 7 HELIX 14 14 ASN A 349 VAL A 366 1 18 HELIX 15 15 SER A 369 ASP A 371 5 3 HELIX 16 16 TYR A 413 LYS A 423 1 11 HELIX 17 17 SER A 446 TYR A 454 1 9 HELIX 18 18 LYS A 456 ALA A 466 1 11 HELIX 19 19 ASP A 469 ASN A 481 1 13 HELIX 20 20 LEU A 527 THR A 538 1 12 HELIX 21 21 ASN A 570 GLU A 572 5 3 HELIX 22 22 PHE A 573 HIS A 587 1 15 HELIX 23 23 SER A 599 ILE A 610 1 12 HELIX 24 24 ASP A 619 LYS A 625 1 7 HELIX 25 25 GLU A 647 ASN A 657 1 11 HELIX 26 26 THR A 661 ALA A 667 1 7 SHEET 1 A 2 TYR A 80 GLN A 82 0 SHEET 2 A 2 TYR A 94 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 GLU A 298 N ALA A 269 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 GLY A 406 O SER A 524 SHEET 6 B 9 TRP A 391 THR A 397 -1 N SER A 395 O ILE A 402 SHEET 7 B 9 LEU A 373 GLN A 377 -1 N ARG A 376 O ASP A 392 SHEET 8 B 9 HIS A 318 TYR A 322 1 N TYR A 322 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 MET A 238 LEU A 242 -1 O TYR A 241 N THR A 130 SHEET 3 C 3 LYS A 229 ILE A 232 -1 N THR A 230 O GLY A 240 SHEET 1 D 2 MET A 148 VAL A 149 0 SHEET 2 D 2 ARG A 157 PHE A 158 -1 O ARG A 157 N VAL A 149 SHEET 1 E 2 ALA A 428 PRO A 445 0 SHEET 2 E 2 ILE A 502 VAL A 516 -1 O GLU A 514 N LYS A 430 SHEET 1 F 2 PHE A 486 THR A 487 0 SHEET 2 F 2 LEU A 497 THR A 498 -1 O THR A 498 N PHE A 486 SHEET 1 G 2 PHE A 539 VAL A 541 0 SHEET 2 G 2 THR A 549 PHE A 551 -1 O PHE A 550 N HIS A 540 SHEET 1 H 5 HIS A 591 VAL A 593 0 SHEET 2 H 5 CYS A 562 PRO A 566 1 N VAL A 564 O LYS A 592 SHEET 3 H 5 PHE A 614 ILE A 618 1 O VAL A 616 N LEU A 565 SHEET 4 H 5 THR A 629 ASP A 634 -1 O ARG A 633 N GLY A 615 SHEET 5 H 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 1.59 CISPEP 1 LEU A 265 PRO A 266 0 2.29 CISPEP 2 LYS A 483 GLY A 484 0 -2.53 SITE 1 AC1 14 ARG A 277 GLU A 279 ILE A 287 VAL A 289 SITE 2 AC1 14 PHE A 292 MET A 294 GLU A 403 ILE A 404 SITE 3 AC1 14 GLY A 406 SER A 524 GLY A 526 ARG A 529 SITE 4 AC1 14 HOH A 805 HOH A 823 CRYST1 134.605 88.446 81.206 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 0.007429 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011306 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012314 0.00000