HEADER TRANSFERASE 07-FEB-18 6CCI TITLE THE CRYSTAL STRUCTURE OF XOAT1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN ESKIMO 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN TRICHOME BIREFRINGENCE-LIKE 29; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 GENE: ESK1, TBL29, AT3G55990, F27K19.170; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK 293 KEYWDS ACETYLTRANSFERASE, ARABIDOPSIS THALIANA, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.M.ALAHUHTA,V.V.LUNIN REVDAT 4 06-NOV-24 6CCI 1 REMARK REVDAT 3 02-SEP-20 6CCI 1 JRNL HETSYN REVDAT 2 29-JUL-20 6CCI 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE ATOM REVDAT 1 20-FEB-19 6CCI 0 JRNL AUTH V.V.LUNIN,H.T.WANG,V.S.BHARADWAJ,M.ALAHUHTA,M.J.PENA, JRNL AUTH 2 J.Y.YANG,S.A.ARCHER-HARTMANN,P.AZADI,M.E.HIMMEL,K.W.MOREMEN, JRNL AUTH 3 W.S.YORK,Y.J.BOMBLE,B.R.URBANOWICZ JRNL TITL MOLECULAR MECHANISM OF POLYSACCHARIDE ACETYLATION BY THE JRNL TITL 2 ARABIDOPSIS XYLANO-ACETYLTRANSFERASE XOAT1. JRNL REF PLANT CELL V. 32 2367 2020 JRNL REFN ESSN 1532-298X JRNL PMID 32354790 JRNL DOI 10.1105/TPC.20.00028 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 69.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 33131 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1722 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2408 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 123 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2924 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 101 REMARK 3 SOLVENT ATOMS : 552 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.32000 REMARK 3 B22 (A**2) : -1.15000 REMARK 3 B33 (A**2) : -0.17000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.135 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.137 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.100 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.397 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3219 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2868 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4403 ; 1.913 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6669 ; 1.091 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 372 ; 6.294 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 158 ;31.508 ;23.418 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 529 ;13.936 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;16.479 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 477 ; 0.118 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3543 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 697 ; 0.002 ; 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): 1464 ; 1.858 ; 1.850 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1463 ; 1.844 ; 1.848 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1844 ; 2.576 ; 2.765 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1845 ; 2.575 ; 2.767 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1755 ; 2.792 ; 2.296 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1756 ; 2.791 ; 2.296 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2560 ; 4.321 ; 3.320 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3970 ; 6.282 ;24.443 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3971 ; 6.281 ;24.443 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 : 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 6CCI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-FEB-18. REMARK 100 THE DEPOSITION ID IS D_1000232538. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-FEB-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54188 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : HELIOS MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER PLATINUM 135 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SAINT REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34979 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11980 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 7.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.50170 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: CRANK2 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 29.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.0 TO 7.0, 15% TO 22% REMARK 280 W/V PEG 3350, 0.02 M CALCIUM CHLORIDE DIHYDRATE, 0.02 M CADMIUM REMARK 280 CHLORIDE HYDRATE AND 0.02 M COBALT(II) CHLORIDE HEXAHYDRATE, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 24.71550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.26400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.08450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.26400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.71550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.08450 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: MONOMERIC 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 GLN A 2 REMARK 465 PRO A 3 REMARK 465 TRP A 4 REMARK 465 ARG A 5 REMARK 465 ARG A 6 REMARK 465 LYS A 7 REMARK 465 PHE A 8 REMARK 465 PRO A 9 REMARK 465 LEU A 10 REMARK 465 PHE A 11 REMARK 465 GLU A 12 REMARK 465 THR A 13 REMARK 465 GLY A 14 REMARK 465 VAL A 15 REMARK 465 THR A 16 REMARK 465 MET A 17 REMARK 465 LYS A 18 REMARK 465 GLN A 19 REMARK 465 ARG A 20 REMARK 465 LYS A 21 REMARK 465 ASN A 22 REMARK 465 SER A 23 REMARK 465 ASN A 24 REMARK 465 LEU A 25 REMARK 465 SER A 26 REMARK 465 ILE A 27 REMARK 465 PHE A 28 REMARK 465 VAL A 29 REMARK 465 VAL A 30 REMARK 465 VAL A 31 REMARK 465 PHE A 32 REMARK 465 SER A 33 REMARK 465 VAL A 34 REMARK 465 PHE A 35 REMARK 465 LEU A 36 REMARK 465 PHE A 37 REMARK 465 GLY A 38 REMARK 465 ILE A 39 REMARK 465 PHE A 40 REMARK 465 MET A 41 REMARK 465 TYR A 42 REMARK 465 ASN A 43 REMARK 465 GLU A 44 REMARK 465 ASP A 45 REMARK 465 VAL A 46 REMARK 465 LYS A 47 REMARK 465 SER A 48 REMARK 465 ILE A 49 REMARK 465 ALA A 50 REMARK 465 GLU A 51 REMARK 465 PHE A 52 REMARK 465 PRO A 53 REMARK 465 PHE A 54 REMARK 465 SER A 55 REMARK 465 THR A 56 REMARK 465 SER A 57 REMARK 465 LYS A 58 REMARK 465 PRO A 59 REMARK 465 HIS A 60 REMARK 465 ASP A 61 REMARK 465 VAL A 62 REMARK 465 HIS A 63 REMARK 465 ASP A 64 REMARK 465 GLU A 65 REMARK 465 ALA A 66 REMARK 465 THR A 67 REMARK 465 PRO A 68 REMARK 465 ILE A 69 REMARK 465 THR A 70 REMARK 465 GLU A 71 REMARK 465 ILE A 72 REMARK 465 THR A 73 REMARK 465 THR A 74 REMARK 465 LEU A 75 REMARK 465 PRO A 76 REMARK 465 VAL A 77 REMARK 465 GLN A 78 REMARK 465 GLU A 79 REMARK 465 SER A 80 REMARK 465 ILE A 81 REMARK 465 LYS A 82 REMARK 465 ASN A 83 REMARK 465 SER A 84 REMARK 465 ASP A 85 REMARK 465 PRO A 86 REMARK 465 ILE A 87 REMARK 465 GLN A 88 REMARK 465 GLU A 89 REMARK 465 SER A 90 REMARK 465 ILE A 91 REMARK 465 LYS A 92 REMARK 465 ASN A 93 REMARK 465 ALA A 94 REMARK 465 ASP A 95 REMARK 465 SER A 96 REMARK 465 VAL A 97 REMARK 465 GLN A 98 REMARK 465 ASP A 99 REMARK 465 SER A 100 REMARK 465 VAL A 101 REMARK 465 LYS A 102 REMARK 465 ASP A 103 REMARK 465 VAL A 104 REMARK 465 ALA A 105 REMARK 465 GLU A 106 REMARK 465 PRO A 107 REMARK 465 VAL A 108 REMARK 465 GLN A 109 REMARK 465 GLU A 110 REMARK 465 GLU A 111 REMARK 465 VAL A 112 REMARK 465 SER A 113 REMARK 465 LYS A 114 REMARK 465 THR A 115 REMARK 465 GLU A 116 REMARK 465 GLU A 117 REMARK 465 VAL A 118 REMARK 465 LYS A 119 REMARK 465 LYS A 120 REMARK 465 ILE A 121 REMARK 465 GLU A 122 REMARK 465 LEU A 123 REMARK 465 PHE A 124 REMARK 465 ALA A 125 REMARK 465 ALA A 126 REMARK 465 THR A 127 REMARK 465 GLU A 128 REMARK 465 ASP A 129 REMARK 465 GLU A 130 REMARK 465 GLU A 131 REMARK 465 ASP A 132 REMARK 465 SER A 487 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 HOH A 675 O HOH A 921 2.08 REMARK 500 O HOH A 872 O HOH A 892 2.19 REMARK 500 O HOH A 1072 O HOH A 1115 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 OD2 ASP A 273 OE1 GLU A 332 4555 2.07 REMARK 500 O HOH A 1059 O HOH A 1079 3645 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 146 CD GLU A 146 OE1 0.084 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 A 358 NE - CZ - NH1 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 358 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 482 NE - CZ - NH2 ANGL. DEV. = 3.1 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 ASP A 150 87.96 -155.15 REMARK 500 ALA A 263 79.42 -151.72 REMARK 500 LEU A 266 -54.97 68.83 REMARK 500 ILE A 289 -2.08 -140.84 REMARK 500 THR A 306 119.81 -179.89 REMARK 500 TYR A 307 -60.00 -152.61 REMARK 500 LYS A 383 -134.74 46.95 REMARK 500 SER A 439 -133.83 57.11 REMARK 500 HIS A 441 59.38 -95.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1148 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A1149 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A1150 DISTANCE = 6.49 ANGSTROMS REMARK 525 HOH A1151 DISTANCE = 6.61 ANGSTROMS REMARK 525 HOH A1152 DISTANCE = 6.94 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 510 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 134 OE1 REMARK 620 2 HOH A 604 O 83.9 REMARK 620 3 HOH A 744 O 95.0 107.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A 501 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 146 OE2 REMARK 620 2 HIS A 441 NE2 37.4 REMARK 620 3 HOH A 621 O 81.0 96.4 REMARK 620 4 HOH A 896 O 87.3 51.8 95.8 REMARK 620 5 HOH A 947 O 89.2 124.5 85.1 176.2 REMARK 620 6 HOH A 957 O 88.3 78.5 167.7 89.9 88.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO A 502 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 358 NH1 REMARK 620 2 NAG A 505 O6 139.9 REMARK 620 3 HOH A 645 O 83.2 63.3 REMARK 620 4 HOH A 665 O 101.2 80.2 121.4 REMARK 620 5 HOH A 669 O 89.6 129.3 134.3 104.3 REMARK 620 6 HOH A 799 O 111.7 86.6 82.6 141.7 58.4 REMARK 620 N 1 2 3 4 5 DBREF 6CCI A 1 487 UNP Q9LY46 TBL29_ARATH 1 487 SEQRES 1 A 487 MET GLN PRO TRP ARG ARG LYS PHE PRO LEU PHE GLU THR SEQRES 2 A 487 GLY VAL THR MET LYS GLN ARG LYS ASN SER ASN LEU SER SEQRES 3 A 487 ILE PHE VAL VAL VAL PHE SER VAL PHE LEU PHE GLY ILE SEQRES 4 A 487 PHE MET TYR ASN GLU ASP VAL LYS SER ILE ALA GLU PHE SEQRES 5 A 487 PRO PHE SER THR SER LYS PRO HIS ASP VAL HIS ASP GLU SEQRES 6 A 487 ALA THR PRO ILE THR GLU ILE THR THR LEU PRO VAL GLN SEQRES 7 A 487 GLU SER ILE LYS ASN SER ASP PRO ILE GLN GLU SER ILE SEQRES 8 A 487 LYS ASN ALA ASP SER VAL GLN ASP SER VAL LYS ASP VAL SEQRES 9 A 487 ALA GLU PRO VAL GLN GLU GLU VAL SER LYS THR GLU GLU SEQRES 10 A 487 VAL LYS LYS ILE GLU LEU PHE ALA ALA THR GLU ASP GLU SEQRES 11 A 487 GLU ASP VAL GLU LEU PRO PRO GLU GLU CYS ASP LEU PHE SEQRES 12 A 487 THR GLY GLU TRP VAL PHE ASP ASN GLU THR HIS PRO LEU SEQRES 13 A 487 TYR LYS GLU ASP GLN CYS GLU PHE LEU THR ALA GLN VAL SEQRES 14 A 487 THR CYS MET ARG ASN GLY ARG ARG ASP SER LEU TYR GLN SEQRES 15 A 487 ASN TRP ARG TRP GLN PRO ARG ASP CYS SER LEU PRO LYS SEQRES 16 A 487 PHE LYS ALA LYS LEU LEU LEU GLU LYS LEU ARG ASN LYS SEQRES 17 A 487 ARG MET MET PHE VAL GLY ASP SER LEU ASN ARG ASN GLN SEQRES 18 A 487 TRP GLU SER MET VAL CYS LEU VAL GLN SER VAL VAL PRO SEQRES 19 A 487 PRO GLY ARG LYS SER LEU ASN LYS THR GLY SER LEU SER SEQRES 20 A 487 VAL PHE ARG VAL GLU ASP TYR ASN ALA THR VAL GLU PHE SEQRES 21 A 487 TYR TRP ALA PRO PHE LEU VAL GLU SER ASN SER ASP ASP SEQRES 22 A 487 PRO ASN MET HIS SER ILE LEU ASN ARG ILE ILE MET PRO SEQRES 23 A 487 GLU SER ILE GLU LYS HIS GLY VAL ASN TRP LYS GLY VAL SEQRES 24 A 487 ASP PHE LEU VAL PHE ASN THR TYR ILE TRP TRP MET ASN SEQRES 25 A 487 THR PHE ALA MET LYS VAL LEU ARG GLY SER PHE ASP LYS SEQRES 26 A 487 GLY ASP THR GLU TYR GLU GLU ILE GLU ARG PRO VAL ALA SEQRES 27 A 487 TYR ARG ARG VAL MET ARG THR TRP GLY ASP TRP VAL GLU SEQRES 28 A 487 ARG ASN ILE ASP PRO LEU ARG THR THR VAL PHE PHE ALA SEQRES 29 A 487 SER MET SER PRO LEU HIS ILE LYS SER LEU ASP TRP GLU SEQRES 30 A 487 ASN PRO ASP GLY ILE LYS CYS ALA LEU GLU THR THR PRO SEQRES 31 A 487 ILE LEU ASN MET SER MET PRO PHE SER VAL GLY THR ASP SEQRES 32 A 487 TYR ARG LEU PHE SER VAL ALA GLU ASN VAL THR HIS SER SEQRES 33 A 487 LEU ASN VAL PRO VAL TYR PHE LEU ASN ILE THR LYS LEU SEQRES 34 A 487 SER GLU TYR ARG LYS ASP ALA HIS THR SER VAL HIS THR SEQRES 35 A 487 ILE ARG GLN GLY LYS MET LEU THR PRO GLU GLN GLN ALA SEQRES 36 A 487 ASP PRO ASN THR TYR ALA ASP CYS ILE HIS TRP CYS LEU SEQRES 37 A 487 PRO GLY LEU PRO ASP THR TRP ASN GLU PHE LEU TYR THR SEQRES 38 A 487 ARG ILE ILE SER ARG SER HET NAG B 1 14 HET NAG B 2 14 HET CO A 501 1 HET CO A 502 1 HET NAG A 503 14 HET NAG A 504 14 HET NAG A 505 14 HET NAG A 506 14 HET NAG A 507 14 HET CA A 510 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CO COBALT (II) ION HETNAM CA CALCIUM ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 2 NAG 7(C8 H15 N O6) FORMUL 3 CO 2(CO 2+) FORMUL 10 CA CA 2+ FORMUL 11 HOH *552(H2 O) HELIX 1 AA1 LYS A 158 CYS A 162 5 5 HELIX 2 AA2 SER A 179 GLN A 182 5 4 HELIX 3 AA3 LYS A 197 LEU A 205 1 9 HELIX 4 AA4 ASP A 215 SER A 231 1 17 HELIX 5 AA5 ILE A 289 VAL A 294 1 6 HELIX 6 AA6 ASN A 295 LYS A 297 5 3 HELIX 7 AA7 TYR A 307 MET A 311 5 5 HELIX 8 AA8 SER A 322 GLY A 326 5 5 HELIX 9 AA9 ARG A 335 ILE A 354 1 20 HELIX 10 AB1 LYS A 372 GLU A 377 5 6 HELIX 11 AB2 ASP A 403 LEU A 417 1 15 HELIX 12 AB3 ILE A 426 TYR A 432 1 7 HELIX 13 AB4 THR A 450 ALA A 455 1 6 HELIX 14 AB5 ASP A 456 ALA A 461 1 6 HELIX 15 AB6 GLY A 470 SER A 485 1 16 SHEET 1 AA1 2 GLY A 145 PHE A 149 0 SHEET 2 AA1 2 TRP A 184 PRO A 188 -1 O GLN A 187 N GLU A 146 SHEET 1 AA2 7 LYS A 238 THR A 243 0 SHEET 2 AA2 7 LEU A 246 VAL A 251 -1 O LEU A 246 N THR A 243 SHEET 3 AA2 7 ALA A 256 TRP A 262 -1 O PHE A 260 N SER A 247 SHEET 4 AA2 7 ARG A 209 GLY A 214 1 N MET A 210 O GLU A 259 SHEET 5 AA2 7 PHE A 301 PHE A 304 1 O PHE A 301 N MET A 211 SHEET 6 AA2 7 THR A 360 ALA A 364 1 O PHE A 362 N LEU A 302 SHEET 7 AA2 7 VAL A 421 LEU A 424 1 O LEU A 424 N PHE A 363 SHEET 1 AA3 3 ILE A 283 ILE A 284 0 SHEET 2 AA3 3 ALA A 315 LEU A 319 1 O LYS A 317 N ILE A 284 SHEET 3 AA3 3 TYR A 330 GLU A 334 -1 O ILE A 333 N MET A 316 SHEET 1 AA4 2 HIS A 437 SER A 439 0 SHEET 2 AA4 2 ASP A 462 TRP A 466 -1 O ASP A 462 N SER A 439 SHEET 1 AA5 2 ILE A 443 ARG A 444 0 SHEET 2 AA5 2 LYS A 447 MET A 448 -1 O LYS A 447 N ARG A 444 SSBOND 1 CYS A 140 CYS A 191 1555 1555 2.05 SSBOND 2 CYS A 162 CYS A 227 1555 1555 2.19 SSBOND 3 CYS A 171 CYS A 467 1555 1555 2.11 SSBOND 4 CYS A 384 CYS A 463 1555 1555 2.27 LINK ND2 ASN A 151 C1 NAG A 503 1555 1555 1.44 LINK ND2 ASN A 241 C1 NAG A 504 1555 1555 1.44 LINK ND2 ASN A 255 C1 NAG A 505 1555 1555 1.44 LINK ND2 ASN A 393 C1 NAG A 506 1555 1555 1.45 LINK ND2 ASN A 412 C1 NAG A 507 1555 1555 1.47 LINK ND2 ASN A 425 C1 NAG B 1 1555 1555 1.39 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.46 LINK OE1 GLU A 134 CA CA A 510 1555 1555 2.53 LINK OE2 GLU A 146 CO CO A 501 1555 1555 2.28 LINK NH1 ARG A 358 CO CO A 502 1555 1555 2.15 LINK NE2 HIS A 441 CO CO A 501 1555 3655 2.12 LINK CO CO A 501 O HOH A 621 1555 1555 2.10 LINK CO CO A 501 O HOH A 896 1555 3645 2.13 LINK CO CO A 501 O HOH A 947 1555 3645 2.11 LINK CO CO A 501 O HOH A 957 1555 1555 2.04 LINK CO CO A 502 O6 NAG A 505 1555 1555 2.58 LINK CO CO A 502 O HOH A 645 1555 1555 2.34 LINK CO CO A 502 O HOH A 665 1555 4545 2.01 LINK CO CO A 502 O HOH A 669 1555 4545 2.73 LINK CO CO A 502 O HOH A 799 1555 4545 2.71 LINK CA CA A 510 O HOH A 604 1555 1555 2.20 LINK CA CA A 510 O HOH A 744 1555 3645 2.18 CISPEP 1 HIS A 154 PRO A 155 0 4.33 CISPEP 2 LEU A 468 PRO A 469 0 -5.21 CRYST1 49.431 58.169 138.528 90.00 90.00 90.00 P 21 21 21 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 0.020230 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017191 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007219 0.00000