PDB Short entry for 4LDY HEADER TRANSCRIPTION 25-JUN-13 4LDY TITLE CRYSTAL STRUCTURE OF THE DNA BINDING DOMAIN OF THE G245A MUTANT OF TITLE 2 ARABIDOPSIS THALIANA AUXIN REPONSE FACTOR 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AUXIN RESPONSE FACTOR 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: DNA BINDING DOMAIN, UNP RESIDUES 1-355; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS,THALE-CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: ARF1, AT1G59750, F23H11.7; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTWIN1 KEYWDS TRANSCRIPTION FACTOR, DNA BINDING, NUCLEUS, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR D.R.BOER,A.FREIRE-RIOS,W.M.A.VAN DEN BERG,D.WEIJERS,M.COLL REVDAT 3 20-SEP-23 4LDY 1 REMARK SEQADV REVDAT 2 19-FEB-14 4LDY 1 AUTHOR REVDAT 1 12-FEB-14 4LDY 0 JRNL AUTH D.R.BOER,A.FREIRE-RIOS,W.A.VAN DEN BERG,T.SAAKI, JRNL AUTH 2 I.W.MANFIELD,S.KEPINSKI,I.LOPEZ-VIDRIEO,J.M.FRANCO-ZORRILLA, JRNL AUTH 3 S.C.DE VRIES,R.SOLANO,D.WEIJERS,M.COLL JRNL TITL STRUCTURAL BASIS FOR DNA BINDING SPECIFICITY BY THE JRNL TITL 2 AUXIN-DEPENDENT ARF TRANSCRIPTION FACTORS. JRNL REF CELL(CAMBRIDGE,MASS.) V. 156 577 2014 JRNL REFN ISSN 0092-8674 JRNL PMID 24485461 JRNL DOI 10.1016/J.CELL.2013.12.027 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.91 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 36804 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1943 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2750 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.3080 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.3260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5239 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 109 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.83000 REMARK 3 B22 (A**2) : -0.58000 REMARK 3 B33 (A**2) : 0.56000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.33000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.290 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.231 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.194 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.446 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5387 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5037 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7302 ; 1.641 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11608 ; 0.799 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 645 ; 7.532 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 261 ;35.148 ;22.797 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 912 ;17.289 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 51 ;17.695 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 785 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6016 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1295 ; 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): 2595 ; 2.368 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2594 ; 2.368 ; 2.998 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3232 ; 3.830 ; 4.482 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3233 ; 3.830 ; 4.483 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2792 ; 2.604 ; 3.286 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2793 ; 2.604 ; 3.287 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4070 ; 4.215 ; 4.810 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5977 ; 7.115 ;24.211 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5969 ; 7.104 ;24.185 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 16 A 288 REMARK 3 ORIGIN FOR THE GROUP (A): -4.4930 -21.3025 -45.8045 REMARK 3 T TENSOR REMARK 3 T11: 0.1634 T22: 0.2108 REMARK 3 T33: 0.1643 T12: -0.0249 REMARK 3 T13: 0.0241 T23: 0.0061 REMARK 3 L TENSOR REMARK 3 L11: 3.7342 L22: 0.4452 REMARK 3 L33: 7.5603 L12: 0.3063 REMARK 3 L13: -5.2441 L23: -0.1649 REMARK 3 S TENSOR REMARK 3 S11: -0.1869 S12: 0.0977 S13: -0.2167 REMARK 3 S21: -0.1787 S22: -0.0325 S23: -0.1360 REMARK 3 S31: 0.1312 S32: -0.0828 S33: 0.2194 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 289 A 356 REMARK 3 ORIGIN FOR THE GROUP (A): -15.3720 -40.4088 -41.7600 REMARK 3 T TENSOR REMARK 3 T11: 0.2343 T22: 0.0956 REMARK 3 T33: 0.2479 T12: -0.0370 REMARK 3 T13: 0.0176 T23: -0.0564 REMARK 3 L TENSOR REMARK 3 L11: 7.9312 L22: 12.0786 REMARK 3 L33: 5.6183 L12: 0.2631 REMARK 3 L13: -0.3152 L23: 3.4275 REMARK 3 S TENSOR REMARK 3 S11: 0.0654 S12: -0.0447 S13: 0.1146 REMARK 3 S21: 0.0708 S22: 0.0225 S23: -0.1670 REMARK 3 S31: -0.0867 S32: 0.2507 S33: -0.0880 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 16 B 288 REMARK 3 ORIGIN FOR THE GROUP (A): 16.1506 -19.3744 -9.5661 REMARK 3 T TENSOR REMARK 3 T11: 0.1385 T22: 0.1255 REMARK 3 T33: 0.1948 T12: -0.0149 REMARK 3 T13: -0.0126 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 10.0041 L22: 0.0120 REMARK 3 L33: 0.3420 L12: 0.2773 REMARK 3 L13: -1.8343 L23: -0.0552 REMARK 3 S TENSOR REMARK 3 S11: 0.0239 S12: -0.1017 S13: -0.1392 REMARK 3 S21: 0.0026 S22: -0.0295 S23: 0.0125 REMARK 3 S31: -0.0201 S32: 0.0403 S33: 0.0057 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 289 B 356 REMARK 3 ORIGIN FOR THE GROUP (A): 9.1107 -0.3422 -2.5164 REMARK 3 T TENSOR REMARK 3 T11: 0.3368 T22: 0.0881 REMARK 3 T33: 0.6648 T12: -0.0388 REMARK 3 T13: -0.0933 T23: -0.0623 REMARK 3 L TENSOR REMARK 3 L11: 8.9980 L22: 6.5410 REMARK 3 L33: 5.1147 L12: 1.2563 REMARK 3 L13: 0.3810 L23: 0.9787 REMARK 3 S TENSOR REMARK 3 S11: -0.1627 S12: -0.0750 S13: 0.9127 REMARK 3 S21: -0.0371 S22: 0.0924 S23: 0.1260 REMARK 3 S31: -0.2955 S32: 0.2177 S33: 0.0703 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4LDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080508. 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) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38764 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 71.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.63000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 4LDV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.75 L OF 13 MG/ML ARF1DBD-G245A +0.75 REMARK 280 L CRYSTALLIZATION BUFFER (100 MM BIS-TRIS-PROPANE PH 7.0, 0.7 M REMARK 280 SUCCINIC ACID), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 42.12000 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 ALA A 3 REMARK 465 SER A 4 REMARK 465 ASN A 5 REMARK 465 HIS A 6 REMARK 465 SER A 7 REMARK 465 SER A 8 REMARK 465 GLY A 9 REMARK 465 LYS A 10 REMARK 465 PRO A 11 REMARK 465 GLY A 12 REMARK 465 GLY A 13 REMARK 465 VAL A 14 REMARK 465 LEU A 15 REMARK 465 SER A 55 REMARK 465 MET A 56 REMARK 465 HIS A 57 REMARK 465 GLN A 58 REMARK 465 GLY A 59 REMARK 465 LEU A 60 REMARK 465 GLU A 61 REMARK 465 GLN A 62 REMARK 465 GLN A 63 REMARK 465 GLN A 228 REMARK 465 GLN A 229 REMARK 465 THR A 230 REMARK 465 ASN A 231 REMARK 465 ILE A 232 REMARK 465 PRO A 233 REMARK 465 SER A 234 REMARK 465 SER A 235 REMARK 465 VAL A 236 REMARK 465 ILE A 237 REMARK 465 SER A 238 REMARK 465 SER A 239 REMARK 465 HIS A 240 REMARK 465 SER A 357 REMARK 465 TYR A 358 REMARK 465 SER A 359 REMARK 465 GLN A 360 REMARK 465 SER A 361 REMARK 465 MET A 362 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 ALA B 3 REMARK 465 SER B 4 REMARK 465 ASN B 5 REMARK 465 HIS B 6 REMARK 465 SER B 7 REMARK 465 SER B 8 REMARK 465 GLY B 9 REMARK 465 LYS B 10 REMARK 465 PRO B 11 REMARK 465 GLY B 12 REMARK 465 GLY B 13 REMARK 465 VAL B 14 REMARK 465 LEU B 15 REMARK 465 GLY B 59 REMARK 465 LEU B 60 REMARK 465 GLU B 61 REMARK 465 GLU B 115 REMARK 465 PRO B 116 REMARK 465 GLN B 228 REMARK 465 GLN B 229 REMARK 465 THR B 230 REMARK 465 ASN B 231 REMARK 465 ILE B 232 REMARK 465 SER B 357 REMARK 465 TYR B 358 REMARK 465 SER B 359 REMARK 465 GLN B 360 REMARK 465 SER B 361 REMARK 465 MET B 362 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 SER B 66 O HOH B 507 1.89 REMARK 500 O GLU A 85 O THR A 88 1.93 REMARK 500 OG SER B 269 OG SER B 271 2.06 REMARK 500 O MET B 155 O HOH B 543 2.14 REMARK 500 OE1 GLU B 90 O HOH B 534 2.15 REMARK 500 OG SER A 134 O HIS A 136 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 507 O HOH B 518 1455 1.73 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 ARG B 185 NE - CZ - NH2 ANGL. DEV. = -3.5 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 PRO A 65 160.45 -49.40 REMARK 500 ASP A 89 40.34 -96.80 REMARK 500 PRO A 112 154.69 -43.21 REMARK 500 VAL A 113 -61.84 -96.96 REMARK 500 ASP A 168 -168.99 -101.79 REMARK 500 ASN A 171 19.86 54.04 REMARK 500 THR A 190 -101.34 -110.43 REMARK 500 ALA A 204 127.23 -33.40 REMARK 500 GLU A 216 23.70 49.38 REMARK 500 SER A 321 -76.70 15.66 REMARK 500 ASN B 171 23.76 48.39 REMARK 500 THR B 190 -101.10 -114.12 REMARK 500 ASN B 215 56.73 -104.06 REMARK 500 GLU B 216 36.64 37.18 REMARK 500 ALA B 303 154.67 76.56 REMARK 500 VAL B 341 136.81 -27.14 REMARK 500 LEU B 355 69.96 -111.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LDU RELATED DB: PDB REMARK 900 RELATED ID: 4LDV RELATED DB: PDB REMARK 900 RELATED ID: 4LDW RELATED DB: PDB REMARK 900 RELATED ID: 4LDX RELATED DB: PDB DBREF 4LDY A 1 355 UNP Q8L7G0 ARFA_ARATH 1 355 DBREF 4LDY B 1 355 UNP Q8L7G0 ARFA_ARATH 1 355 SEQADV 4LDY ALA A 245 UNP Q8L7G0 GLY 245 ENGINEERED MUTATION SEQADV 4LDY ASN A 356 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY SER A 357 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY TYR A 358 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY SER A 359 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY GLN A 360 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY SER A 361 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY MET A 362 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY ALA B 245 UNP Q8L7G0 GLY 245 ENGINEERED MUTATION SEQADV 4LDY ASN B 356 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY SER B 357 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY TYR B 358 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY SER B 359 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY GLN B 360 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY SER B 361 UNP Q8L7G0 EXPRESSION TAG SEQADV 4LDY MET B 362 UNP Q8L7G0 EXPRESSION TAG SEQRES 1 A 362 MET ALA ALA SER ASN HIS SER SER GLY LYS PRO GLY GLY SEQRES 2 A 362 VAL LEU SER ASP ALA LEU CYS ARG GLU LEU TRP HIS ALA SEQRES 3 A 362 CYS ALA GLY PRO LEU VAL THR LEU PRO ARG GLU GLY GLU SEQRES 4 A 362 ARG VAL TYR TYR PHE PRO GLU GLY HIS MET GLU GLN LEU SEQRES 5 A 362 GLU ALA SER MET HIS GLN GLY LEU GLU GLN GLN MET PRO SEQRES 6 A 362 SER PHE ASN LEU PRO SER LYS ILE LEU CYS LYS VAL ILE SEQRES 7 A 362 ASN ILE GLN ARG ARG ALA GLU PRO GLU THR ASP GLU VAL SEQRES 8 A 362 TYR ALA GLN ILE THR LEU LEU PRO GLU LEU ASP GLN SER SEQRES 9 A 362 GLU PRO THR SER PRO ASP ALA PRO VAL GLN GLU PRO GLU SEQRES 10 A 362 LYS CYS THR VAL HIS SER PHE CYS LYS THR LEU THR ALA SEQRES 11 A 362 SER ASP THR SER THR HIS GLY GLY PHE SER VAL LEU ARG SEQRES 12 A 362 ARG HIS ALA ASP ASP CYS LEU PRO PRO LEU ASP MET SER SEQRES 13 A 362 GLN GLN PRO PRO TRP GLN GLU LEU VAL ALA THR ASP LEU SEQRES 14 A 362 HIS ASN SER GLU TRP HIS PHE ARG HIS ILE PHE ARG GLY SEQRES 15 A 362 GLN PRO ARG ARG HIS LEU LEU THR THR GLY TRP SER VAL SEQRES 16 A 362 PHE VAL SER SER LYS LYS LEU VAL ALA GLY ASP ALA PHE SEQRES 17 A 362 ILE PHE LEU ARG GLY GLU ASN GLU GLU LEU ARG VAL GLY SEQRES 18 A 362 VAL ARG ARG HIS MET ARG GLN GLN THR ASN ILE PRO SER SEQRES 19 A 362 SER VAL ILE SER SER HIS SER MET HIS ILE ALA VAL LEU SEQRES 20 A 362 ALA THR ALA ALA HIS ALA ILE THR THR GLY THR ILE PHE SEQRES 21 A 362 SER VAL PHE TYR LYS PRO ARG THR SER ARG SER GLU PHE SEQRES 22 A 362 ILE VAL SER VAL ASN ARG TYR LEU GLU ALA LYS THR GLN SEQRES 23 A 362 LYS LEU SER VAL GLY MET ARG PHE LYS MET ARG PHE GLU SEQRES 24 A 362 GLY GLU GLU ALA PRO GLU LYS ARG PHE SER GLY THR ILE SEQRES 25 A 362 VAL GLY VAL GLN GLU ASN LYS SER SER VAL TRP HIS ASP SEQRES 26 A 362 SER GLU TRP ARG SER LEU LYS VAL GLN TRP ASP GLU PRO SEQRES 27 A 362 SER SER VAL PHE ARG PRO GLU ARG VAL SER PRO TRP GLU SEQRES 28 A 362 LEU GLU PRO LEU ASN SER TYR SER GLN SER MET SEQRES 1 B 362 MET ALA ALA SER ASN HIS SER SER GLY LYS PRO GLY GLY SEQRES 2 B 362 VAL LEU SER ASP ALA LEU CYS ARG GLU LEU TRP HIS ALA SEQRES 3 B 362 CYS ALA GLY PRO LEU VAL THR LEU PRO ARG GLU GLY GLU SEQRES 4 B 362 ARG VAL TYR TYR PHE PRO GLU GLY HIS MET GLU GLN LEU SEQRES 5 B 362 GLU ALA SER MET HIS GLN GLY LEU GLU GLN GLN MET PRO SEQRES 6 B 362 SER PHE ASN LEU PRO SER LYS ILE LEU CYS LYS VAL ILE SEQRES 7 B 362 ASN ILE GLN ARG ARG ALA GLU PRO GLU THR ASP GLU VAL SEQRES 8 B 362 TYR ALA GLN ILE THR LEU LEU PRO GLU LEU ASP GLN SER SEQRES 9 B 362 GLU PRO THR SER PRO ASP ALA PRO VAL GLN GLU PRO GLU SEQRES 10 B 362 LYS CYS THR VAL HIS SER PHE CYS LYS THR LEU THR ALA SEQRES 11 B 362 SER ASP THR SER THR HIS GLY GLY PHE SER VAL LEU ARG SEQRES 12 B 362 ARG HIS ALA ASP ASP CYS LEU PRO PRO LEU ASP MET SER SEQRES 13 B 362 GLN GLN PRO PRO TRP GLN GLU LEU VAL ALA THR ASP LEU SEQRES 14 B 362 HIS ASN SER GLU TRP HIS PHE ARG HIS ILE PHE ARG GLY SEQRES 15 B 362 GLN PRO ARG ARG HIS LEU LEU THR THR GLY TRP SER VAL SEQRES 16 B 362 PHE VAL SER SER LYS LYS LEU VAL ALA GLY ASP ALA PHE SEQRES 17 B 362 ILE PHE LEU ARG GLY GLU ASN GLU GLU LEU ARG VAL GLY SEQRES 18 B 362 VAL ARG ARG HIS MET ARG GLN GLN THR ASN ILE PRO SER SEQRES 19 B 362 SER VAL ILE SER SER HIS SER MET HIS ILE ALA VAL LEU SEQRES 20 B 362 ALA THR ALA ALA HIS ALA ILE THR THR GLY THR ILE PHE SEQRES 21 B 362 SER VAL PHE TYR LYS PRO ARG THR SER ARG SER GLU PHE SEQRES 22 B 362 ILE VAL SER VAL ASN ARG TYR LEU GLU ALA LYS THR GLN SEQRES 23 B 362 LYS LEU SER VAL GLY MET ARG PHE LYS MET ARG PHE GLU SEQRES 24 B 362 GLY GLU GLU ALA PRO GLU LYS ARG PHE SER GLY THR ILE SEQRES 25 B 362 VAL GLY VAL GLN GLU ASN LYS SER SER VAL TRP HIS ASP SEQRES 26 B 362 SER GLU TRP ARG SER LEU LYS VAL GLN TRP ASP GLU PRO SEQRES 27 B 362 SER SER VAL PHE ARG PRO GLU ARG VAL SER PRO TRP GLU SEQRES 28 B 362 LEU GLU PRO LEU ASN SER TYR SER GLN SER MET HET CL A 401 1 HET CL B 401 1 HETNAM CL CHLORIDE ION FORMUL 3 CL 2(CL 1-) FORMUL 5 HOH *109(H2 O) HELIX 1 1 SER A 16 GLY A 29 1 14 HELIX 2 2 PHE A 44 ALA A 54 1 11 HELIX 3 3 LEU A 142 LEU A 150 1 9 HELIX 4 4 GLY A 192 LYS A 201 1 10 HELIX 5 5 MET A 242 GLY A 257 1 16 HELIX 6 6 VAL A 277 GLN A 286 1 10 HELIX 7 7 SER A 348 LEU A 352 5 5 HELIX 8 8 ASP B 17 GLY B 29 1 13 HELIX 9 9 PHE B 44 MET B 56 1 13 HELIX 10 10 THR B 129 SER B 134 5 6 HELIX 11 11 LEU B 142 LEU B 150 1 9 HELIX 12 12 GLY B 192 LYS B 201 1 10 HELIX 13 13 SER B 238 GLY B 257 1 20 HELIX 14 14 VAL B 277 GLN B 286 1 10 HELIX 15 15 SER B 348 LEU B 352 5 5 SHEET 1 A 5 PHE A 260 TYR A 264 0 SHEET 2 A 5 VAL A 91 PRO A 99 -1 N LEU A 97 O PHE A 260 SHEET 3 A 5 ILE A 73 ALA A 84 -1 N ILE A 78 O THR A 96 SHEET 4 A 5 ARG A 40 TYR A 43 -1 N TYR A 43 O ILE A 73 SHEET 5 A 5 ILE A 274 SER A 276 -1 O VAL A 275 N TYR A 42 SHEET 1 B 3 HIS A 122 THR A 127 0 SHEET 2 B 3 ALA A 207 ARG A 212 -1 O ARG A 212 N HIS A 122 SHEET 3 B 3 LEU A 218 ARG A 223 -1 O ARG A 219 N LEU A 211 SHEET 1 C 4 PHE A 139 VAL A 141 0 SHEET 2 C 4 ARG A 186 LEU A 189 -1 O LEU A 189 N PHE A 139 SHEET 3 C 4 GLU A 173 ARG A 181 -1 N ILE A 179 O LEU A 188 SHEET 4 C 4 TRP A 161 THR A 167 -1 N ALA A 166 O TRP A 174 SHEET 1 D 5 ARG A 346 VAL A 347 0 SHEET 2 D 5 LEU A 331 TRP A 335 -1 N LEU A 331 O VAL A 347 SHEET 3 D 5 LYS A 306 GLY A 314 -1 N THR A 311 O GLN A 334 SHEET 4 D 5 ARG A 293 PHE A 298 -1 N PHE A 294 O GLY A 310 SHEET 5 D 5 GLU A 353 PRO A 354 -1 O GLU A 353 N LYS A 295 SHEET 1 E 5 PHE B 260 TYR B 264 0 SHEET 2 E 5 VAL B 91 PRO B 99 -1 N LEU B 97 O PHE B 260 SHEET 3 E 5 ILE B 73 ALA B 84 -1 N ILE B 78 O THR B 96 SHEET 4 E 5 ARG B 40 TYR B 43 -1 N VAL B 41 O CYS B 75 SHEET 5 E 5 ILE B 274 SER B 276 -1 O VAL B 275 N TYR B 42 SHEET 1 F 3 HIS B 122 THR B 127 0 SHEET 2 F 3 ALA B 207 ARG B 212 -1 O PHE B 208 N LYS B 126 SHEET 3 F 3 LEU B 218 ARG B 223 -1 O ARG B 223 N ALA B 207 SHEET 1 G 4 PHE B 139 VAL B 141 0 SHEET 2 G 4 ARG B 186 LEU B 189 -1 O LEU B 189 N PHE B 139 SHEET 3 G 4 GLU B 173 ARG B 181 -1 N ARG B 181 O ARG B 186 SHEET 4 G 4 TRP B 161 THR B 167 -1 N ALA B 166 O TRP B 174 SHEET 1 H 5 ARG B 346 VAL B 347 0 SHEET 2 H 5 LEU B 331 TRP B 335 -1 N LEU B 331 O VAL B 347 SHEET 3 H 5 GLU B 305 VAL B 315 -1 N THR B 311 O GLN B 334 SHEET 4 H 5 ARG B 293 GLU B 299 -1 N PHE B 294 O GLY B 310 SHEET 5 H 5 GLU B 353 PRO B 354 -1 O GLU B 353 N LYS B 295 CISPEP 1 GLN A 158 PRO A 159 0 7.22 CISPEP 2 GLN A 183 PRO A 184 0 3.89 CISPEP 3 GLN B 158 PRO B 159 0 2.65 CISPEP 4 GLN B 183 PRO B 184 0 6.22 SITE 1 AC1 2 PRO A 159 ARG A 177 SITE 1 AC2 2 ARG B 177 ARG B 181 CRYST1 73.100 84.240 78.960 90.00 114.76 90.00 P 1 21 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 0.013680 0.000000 0.006309 0.00000 SCALE2 0.000000 0.011871 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013947 0.00000