HEADER CYTOSOLIC PROTEIN 15-MAY-18 6GIR TITLE ARABIDOPSIS THALIANA CYTOSOLIC SERYL-TRNA SYNTHETASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE--TRNA LIGASE, CYTOPLASMIC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SERYL-TRNA SYNTHETASE,SERRS,SERYL-TRNA(SER/SEC) SYNTHETASE; COMPND 5 EC: 6.1.1.11; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: THALE CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: AT5G27470, F21A20_180; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRNA SYNTHETASE, PROTEIN SYNTHESIS, CYTOSOLIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR I.KEKEZ,M.KEKEZ,J.ROKOV-PLAVEC,D.MATKOVIC-CALOGOVIC REVDAT 3 17-JAN-24 6GIR 1 REMARK REVDAT 2 13-FEB-19 6GIR 1 JRNL REVDAT 1 02-JAN-19 6GIR 0 JRNL AUTH M.KEKEZ,V.ZANKI,I.KEKEZ,J.BARANASIC,V.HODNIK,A.M.DUCHENE, JRNL AUTH 2 G.ANDERLUH,I.GRUIC-SOVULJ,D.MATKOVIC-CALOGOVIC, JRNL AUTH 3 I.WEYGAND-DURASEVIC,J.ROKOV-PLAVEC JRNL TITL ARABIDOPSIS SERYL-TRNA SYNTHETASE: THE FIRST CRYSTAL JRNL TITL 2 STRUCTURE AND NOVEL PROTEIN INTERACTOR OF PLANT JRNL TITL 3 AMINOACYL-TRNA SYNTHETASE. JRNL REF FEBS J. V. 286 536 2019 JRNL REFN ISSN 1742-4658 JRNL PMID 30570212 JRNL DOI 10.1111/FEBS.14735 REMARK 2 REMARK 2 RESOLUTION. 2.34 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.34 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 16605 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) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 891 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) : 1137 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.3150 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3177 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 71 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.15000 REMARK 3 B22 (A**2) : -3.14000 REMARK 3 B33 (A**2) : -2.58000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.43000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.485 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.298 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.331 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.166 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3238 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3013 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4374 ; 1.505 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6905 ; 0.971 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 400 ; 8.472 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 157 ;38.003 ;24.586 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 547 ;16.165 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;13.852 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 482 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3690 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 753 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL 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): 1618 ; 2.607 ; 4.275 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1617 ; 2.604 ; 4.274 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2012 ; 4.233 ; 6.393 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2013 ; 4.232 ; 6.394 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1620 ; 2.603 ; 4.399 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1621 ; 2.602 ; 4.399 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2362 ; 4.309 ; 6.518 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3562 ; 6.705 ;33.374 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3552 ; 6.686 ;33.373 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6GIR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1200010004. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-MAR-18 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 : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSALISPRO 1.171.38.43 REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16605 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.343 REMARK 200 RESOLUTION RANGE LOW (A) : 73.280 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : 0.12700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.2900 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) : 2.44 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) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 3QNE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROP VAPOR DIFFUSION METHOD; REMARK 280 MIXTURE OF 4 UL 3.9 MG/ML PROTEIN SOLUTION, 2 UL OF REMARK 280 PRECIPITATING SOLUTION (0.2 M MGCL2, 0.1 M TRIS PH 7, 30%(W/V) REMARK 280 PEG 4000) AND 1UL OF ADDITIVE SOLUTION (0.6 M MGCL2) AT 291 K., REMARK 280 VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 1 2 1 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+1/2 REMARK 290 4555 -X+1/2,Y+1/2,-Z+1/2 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 39.09068 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.80350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 51.30231 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 39.09068 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.80350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 51.30231 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 92.12700 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 505 LIES ON A SPECIAL POSITION. 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 GLU A 10 REMARK 465 LYS A 11 REMARK 465 GLY A 12 REMARK 465 LYS A 67 REMARK 465 ILE A 68 REMARK 465 LYS A 69 REMARK 465 LYS A 70 REMARK 465 GLU A 71 REMARK 465 ASP A 72 REMARK 465 ALA A 73 REMARK 465 ALA A 214 REMARK 465 GLN A 215 REMARK 465 LEU A 216 REMARK 465 ALA A 217 REMARK 465 GLN A 218 REMARK 465 PHE A 219 REMARK 465 ASP A 220 REMARK 465 SER A 274 REMARK 465 HIS A 275 REMARK 465 GLY A 276 REMARK 465 ARG A 277 REMARK 465 ASP A 278 REMARK 465 THR A 279 REMARK 465 GLY A 378 REMARK 465 GLN A 379 REMARK 465 LYS A 380 REMARK 465 LYS A 381 REMARK 465 SER A 382 REMARK 465 ASN A 383 REMARK 465 GLU A 384 REMARK 465 ALA A 437 REMARK 465 LYS A 438 REMARK 465 PRO A 439 REMARK 465 VAL A 440 REMARK 465 VAL A 441 REMARK 465 ALA A 442 REMARK 465 ASP A 443 REMARK 465 THR A 444 REMARK 465 LYS A 445 REMARK 465 GLY A 446 REMARK 465 LYS A 447 REMARK 465 LYS A 448 REMARK 465 SER A 449 REMARK 465 LYS A 450 REMARK 465 ALA A 451 REMARK 465 ALA A 452 REMARK 465 ALA A 453 REMARK 465 ALA A 454 REMARK 465 LEU A 455 REMARK 465 GLU A 456 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 LEU A 6 CG CD1 CD2 REMARK 470 ARG A 8 CD NE CZ NH1 NH2 REMARK 470 GLU A 9 CG CD OE1 OE2 REMARK 470 ASN A 13 CG OD1 ND2 REMARK 470 LYS A 37 CE NZ REMARK 470 ARG A 43 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 46 CG CD OE1 NE2 REMARK 470 ARG A 53 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 54 CG CD CE NZ REMARK 470 LYS A 58 CG CD CE NZ REMARK 470 LEU A 59 CG CD1 CD2 REMARK 470 LYS A 61 CG CD CE NZ REMARK 470 GLN A 65 CG CD OE1 NE2 REMARK 470 LEU A 66 CG CD1 CD2 REMARK 470 SER A 74 OG REMARK 470 GLU A 75 CG CD OE1 OE2 REMARK 470 ILE A 76 CG1 CG2 CD1 REMARK 470 GLN A 79 CG CD OE1 NE2 REMARK 470 GLU A 81 CG CD OE1 OE2 REMARK 470 LYS A 82 CG CD CE NZ REMARK 470 LYS A 84 CD CE NZ REMARK 470 GLN A 85 CG CD OE1 NE2 REMARK 470 LYS A 90 CG CD CE NZ REMARK 470 GLU A 91 CD OE1 OE2 REMARK 470 ARG A 95 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 141 CG CD1 CD2 REMARK 470 LYS A 142 CG CD CE NZ REMARK 470 GLU A 221 CG CD OE1 OE2 REMARK 470 GLU A 271 CG CD OE1 OE2 REMARK 470 LYS A 436 CG CD CE NZ 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 LYS A 61 37.43 -91.18 REMARK 500 ALA A 64 -34.32 -37.38 REMARK 500 ASP A 231 137.59 -24.60 REMARK 500 THR A 238 145.63 -171.70 REMARK 500 HIS A 247 10.43 82.48 REMARK 500 ASP A 249 -4.43 62.93 REMARK 500 PRO A 254 -39.06 -39.75 REMARK 500 ALA A 272 61.07 -116.54 REMARK 500 THR A 366 -131.35 33.89 REMARK 500 SER A 395 107.41 -161.93 REMARK 500 THR A 396 135.73 -38.85 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 LYS A 142 LEU A 143 145.98 REMARK 500 GLU A 221 GLU A 222 145.45 REMARK 500 REMARK 500 REMARK: NULL DBREF 6GIR A 3 451 UNP Q39230 SYSC_ARATH 3 451 SEQADV 6GIR MET A 1 UNP Q39230 INITIATING METHIONINE SEQADV 6GIR VAL A 2 UNP Q39230 EXPRESSION TAG SEQADV 6GIR ALA A 452 UNP Q39230 EXPRESSION TAG SEQADV 6GIR ALA A 453 UNP Q39230 EXPRESSION TAG SEQADV 6GIR ALA A 454 UNP Q39230 EXPRESSION TAG SEQADV 6GIR LEU A 455 UNP Q39230 EXPRESSION TAG SEQADV 6GIR GLU A 456 UNP Q39230 EXPRESSION TAG SEQRES 1 A 456 MET VAL ASP ILE ASN LEU PHE ARG GLU GLU LYS GLY ASN SEQRES 2 A 456 ASN PRO GLU ILE ILE ARG GLU SER GLN ARG ARG ARG PHE SEQRES 3 A 456 ALA SER VAL GLU ILE VAL ASP GLU ILE ILE LYS LEU ASP SEQRES 4 A 456 LYS GLU TRP ARG GLN ARG GLN PHE GLU VAL ASP SER PHE SEQRES 5 A 456 ARG LYS GLU PHE ASN LYS LEU ASN LYS GLN VAL ALA GLN SEQRES 6 A 456 LEU LYS ILE LYS LYS GLU ASP ALA SER GLU ILE ILE GLN SEQRES 7 A 456 GLN THR GLU LYS ASN LYS GLN ASP SER THR ALA LYS GLU SEQRES 8 A 456 ALA GLU VAL ARG GLU ALA TYR ALA ALA LEU LYS ALA LYS SEQRES 9 A 456 LEU GLU GLN VAL GLY ASN LEU VAL HIS ASP SER VAL PRO SEQRES 10 A 456 VAL ASP LYS ASP GLU ALA ASN ASN LEU VAL ILE LYS LEU SEQRES 11 A 456 TRP GLY GLU LYS ARG PHE SER THR PRO GLY LEU LYS LEU SEQRES 12 A 456 LYS ASN HIS VAL ASP LEU VAL GLU LEU LEU GLY ILE ALA SEQRES 13 A 456 ASP THR LYS ARG GLY ALA GLU ILE ALA GLY ALA ARG GLY SEQRES 14 A 456 PHE PHE LEU LYS GLY ASP GLY LEU MET LEU ASN GLN ALA SEQRES 15 A 456 LEU ILE ASN PHE GLY LEU THR PHE LEU LYS LYS ARG GLY SEQRES 16 A 456 PHE THR GLY LEU GLN PRO PRO PHE PHE MET ARG LYS ASP SEQRES 17 A 456 VAL MET ALA LYS CYS ALA GLN LEU ALA GLN PHE ASP GLU SEQRES 18 A 456 GLU LEU TYR LYS VAL THR GLY GLU GLY ASP ASP LYS TYR SEQRES 19 A 456 LEU ILE ALA THR ALA GLU GLN PRO LEU CYS ALA TYR HIS SEQRES 20 A 456 ILE ASP GLU TRP ILE HIS PRO THR GLU LEU PRO LEU ARG SEQRES 21 A 456 TYR ALA GLY TYR SER SER CYS PHE ARG LYS GLU ALA GLY SEQRES 22 A 456 SER HIS GLY ARG ASP THR LEU GLY ILE PHE ARG VAL HIS SEQRES 23 A 456 GLN PHE GLU LYS ILE GLU GLN PHE CYS ILE THR GLY PRO SEQRES 24 A 456 ASN GLU ASN ALA SER TRP GLU MET LEU ASP GLU MET MET SEQRES 25 A 456 LYS ASN SER GLU ASP PHE TYR GLN ALA LEU LYS LEU PRO SEQRES 26 A 456 TYR GLN ILE VAL SER ILE VAL SER GLY ALA LEU ASN ASP SEQRES 27 A 456 ALA ALA ALA LYS LYS TYR ASP LEU GLU ALA TRP PHE PRO SEQRES 28 A 456 SER SER GLU THR PHE ARG GLU LEU VAL SER CYS SER ASN SEQRES 29 A 456 CYS THR ASP TYR GLN ALA ARG ARG LEU GLU ILE ARG TYR SEQRES 30 A 456 GLY GLN LYS LYS SER ASN GLU GLN THR LYS GLN TYR VAL SEQRES 31 A 456 HIS MET LEU ASN SER THR LEU THR ALA THR GLU ARG THR SEQRES 32 A 456 ILE CYS CYS ILE LEU GLU ASN TYR GLN ARG GLU ASP GLY SEQRES 33 A 456 VAL ASP ILE PRO GLU VAL LEU GLN PRO PHE MET GLY GLY SEQRES 34 A 456 GLU THR PHE LEU PRO PHE LYS ALA LYS PRO VAL VAL ALA SEQRES 35 A 456 ASP THR LYS GLY LYS LYS SER LYS ALA ALA ALA ALA LEU SEQRES 36 A 456 GLU FORMUL 2 HOH *71(H2 O) HELIX 1 AA1 ASP A 3 ARG A 8 5 6 HELIX 2 AA2 ASN A 14 PHE A 26 1 13 HELIX 3 AA3 GLU A 30 LYS A 61 1 32 HELIX 4 AA4 GLU A 75 GLU A 106 1 32 HELIX 5 AA5 ASP A 121 ASN A 125 5 5 HELIX 6 AA6 ASN A 145 GLY A 154 1 10 HELIX 7 AA7 THR A 158 GLY A 166 1 9 HELIX 8 AA8 GLY A 174 ARG A 194 1 21 HELIX 9 AA9 LYS A 207 ALA A 211 1 5 HELIX 10 AB1 ALA A 239 TYR A 246 1 8 HELIX 11 AB2 HIS A 253 LEU A 257 5 5 HELIX 12 AB3 ASN A 302 LEU A 322 1 21 HELIX 13 AB4 ASP A 367 LEU A 373 1 7 HELIX 14 AB5 THR A 400 TYR A 411 1 12 HELIX 15 AB6 PRO A 420 GLY A 428 5 9 SHEET 1 AA1 8 LEU A 126 TRP A 131 0 SHEET 2 AA1 8 TYR A 326 SER A 330 -1 O ILE A 328 N ILE A 128 SHEET 3 AA1 8 LYS A 342 PHE A 350 -1 O GLU A 347 N GLN A 327 SHEET 4 AA1 8 THR A 355 ASN A 364 -1 O ARG A 357 N ALA A 348 SHEET 5 AA1 8 HIS A 391 ALA A 399 -1 O ASN A 394 N SER A 363 SHEET 6 AA1 8 GLN A 287 THR A 297 -1 N ILE A 291 O LEU A 397 SHEET 7 AA1 8 LEU A 259 PHE A 268 -1 N CYS A 267 O PHE A 288 SHEET 8 AA1 8 THR A 197 LEU A 199 1 N THR A 197 O ARG A 260 SHEET 1 AA2 2 ALA A 156 ASP A 157 0 SHEET 2 AA2 2 PHE A 171 LEU A 172 -1 O PHE A 171 N ASP A 157 SHEET 1 AA3 3 PHE A 204 ARG A 206 0 SHEET 2 AA3 3 LYS A 233 LEU A 235 -1 O TYR A 234 N MET A 205 SHEET 3 AA3 3 LYS A 225 VAL A 226 -1 N VAL A 226 O LYS A 233 SHEET 1 AA4 2 GLY A 416 ASP A 418 0 SHEET 2 AA4 2 PHE A 432 PRO A 434 -1 O LEU A 433 N VAL A 417 SSBOND 1 CYS A 213 CYS A 244 1555 1555 2.09 CISPEP 1 THR A 227 GLY A 228 0 -21.26 CISPEP 2 LEU A 257 PRO A 258 0 0.35 CISPEP 3 GLY A 428 GLY A 429 0 -11.98 CISPEP 4 PHE A 435 LYS A 436 0 15.69 CRYST1 92.127 45.607 103.548 90.00 97.74 90.00 I 1 2 1 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 0.010855 0.000000 0.001475 0.00000 SCALE2 0.000000 0.021927 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009746 0.00000