HEADER TRANSFERASE 11-SEP-09 3JSZ TITLE LEGIONELLA PNEUMOPHILA GLUCOSYLTRANSFERASE LGT1 N293A WITH UDP-GLC COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LGT1; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEGIONELLA PNEUMOPHILA; SOURCE 3 ORGANISM_TAXID: 297245; SOURCE 4 STRAIN: LENS KEYWDS GLUCOSYLTRANSFERASE, LEGIONNAIRE'S DISEASE, LEGIONELLA PNEUMOPHILA, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR W.LU,J.DU,Y.BELYI,M.STAHL,T.ZIVILIKIDIS,S.GERHARDT,K.AKTORIES, AUTHOR 2 O.EINSLE REVDAT 2 13-JUL-11 3JSZ 1 VERSN REVDAT 1 02-FEB-10 3JSZ 0 JRNL AUTH W.LU,J.DU,M.STAHL,T.TZIVELEKIDIS,Y.BELYI,S.GERHARDT, JRNL AUTH 2 K.AKTORIES,O.EINSLE JRNL TITL STRUCTURAL BASIS OF THE ACTION OF GLUCOSYLTRANSFERASE LGT1 JRNL TITL 2 FROM LEGIONELLA PNEUMOPHILA. JRNL REF J.MOL.BIOL. 2009 JRNL REFN ESSN 1089-8638 JRNL PMID 19941871 JRNL DOI 10.1016/J.JMB.2009.11.044 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 59723 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) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3192 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4374 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.1960 REMARK 3 BIN FREE R VALUE SET COUNT : 231 REMARK 3 BIN FREE R VALUE : 0.2310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4135 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 712 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.62000 REMARK 3 B22 (A**2) : -0.62000 REMARK 3 B33 (A**2) : 0.92000 REMARK 3 B12 (A**2) : -0.31000 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): 0.101 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.096 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.061 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.903 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4325 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2961 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5876 ; 1.182 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7259 ; 0.831 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 536 ; 5.397 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 200 ;32.547 ;24.600 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 759 ;13.058 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;22.311 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 649 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4777 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 848 ; 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): 2631 ; 0.620 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1051 ; 0.125 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4268 ; 1.209 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1694 ; 2.061 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1600 ; 3.244 ; 4.500 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 : 1 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 6 A 525 REMARK 3 ORIGIN FOR THE GROUP (A): 32.6081 4.4195 1.2796 REMARK 3 T TENSOR REMARK 3 T11: 0.0125 T22: 0.0112 REMARK 3 T33: 0.0049 T12: -0.0001 REMARK 3 T13: -0.0052 T23: -0.0009 REMARK 3 L TENSOR REMARK 3 L11: 0.1339 L22: 0.4252 REMARK 3 L33: 0.0889 L12: 0.0739 REMARK 3 L13: -0.0108 L23: -0.0058 REMARK 3 S TENSOR REMARK 3 S11: 0.0081 S12: -0.0143 S13: -0.0112 REMARK 3 S21: 0.0072 S22: 0.0068 S23: -0.0008 REMARK 3 S31: 0.0026 S32: 0.0110 S33: -0.0149 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3JSZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-SEP-09. REMARK 100 THE RCSB ID CODE IS RCSB055120. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00, 0.97973, 0.97957, 0.97205 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 : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62915 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 22.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.39100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG3350, 0.06M AMMONIUM ACETAT, REMARK 280 0.1M SODIUM ACETATE BUFFER, PH5.0, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 61.11600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.28534 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 34.25967 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 61.11600 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 35.28534 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 34.25967 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 61.11600 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 35.28534 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 34.25967 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 70.57068 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 68.51933 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 70.57068 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 68.51933 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 70.57068 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 68.51933 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 MSE A 1 REMARK 465 LYS A 2 REMARK 465 ALA A 3 REMARK 465 ARG A 4 REMARK 465 ARG A 5 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 ASN A 7 CG OD1 REMARK 470 LYS A 11 CG CD CE NZ REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 13 CA CB CG CD NE CZ NH1 REMARK 480 ARG A 13 NH2 REMARK 480 GLU A 59 CA CB CG CD OE1 OE2 REMARK 480 CYS A 166 CA CB SG REMARK 480 GLN A 287 CA CB CG CD OE1 NE2 REMARK 480 MSE A 309 CA CB CG SE CE REMARK 480 ASN A 339 CA CB CG OD1 ND2 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 OD1 ASN A 339 O HOH A 896 1.93 REMARK 500 OE2 GLU A 516 O HOH A 949 1.97 REMARK 500 OE1 GLU A 59 O HOH A 1183 1.99 REMARK 500 OD1 ASP A 310 O HOH A 813 2.03 REMARK 500 OD1 ASP A 310 O HOH A 1033 2.12 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 164 C - N - CD ANGL. DEV. = -16.5 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 VAL A 81 -58.01 -124.24 REMARK 500 ASN A 410 73.86 -159.13 REMARK 500 SER A 470 -165.56 42.87 REMARK 500 GLU A 509 57.43 -144.27 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 TYR A 163 PRO A 164 138.08 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 A 607 DISTANCE = 5.13 ANGSTROMS REMARK 525 HOH A 618 DISTANCE = 5.13 ANGSTROMS REMARK 525 HOH A 647 DISTANCE = 5.23 ANGSTROMS REMARK 525 HOH A 655 DISTANCE = 5.55 ANGSTROMS REMARK 525 HOH A 656 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A 692 DISTANCE = 5.79 ANGSTROMS REMARK 525 HOH A 694 DISTANCE = 5.02 ANGSTROMS REMARK 525 HOH A 731 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH A 734 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A 884 DISTANCE = 5.13 ANGSTROMS REMARK 525 HOH A 903 DISTANCE = 5.79 ANGSTROMS REMARK 525 HOH A 915 DISTANCE = 11.04 ANGSTROMS REMARK 525 HOH A 926 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH A 928 DISTANCE = 8.79 ANGSTROMS REMARK 525 HOH A 941 DISTANCE = 5.11 ANGSTROMS REMARK 525 HOH A1117 DISTANCE = 5.10 ANGSTROMS REMARK 525 HOH A1226 DISTANCE = 5.27 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 MG A 527 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 UPG A 526 O1A REMARK 620 2 UPG A 526 O2B 81.4 REMARK 620 3 HOH A1069 O 92.2 132.7 REMARK 620 4 HOH A 552 O 159.1 89.9 107.5 REMARK 620 5 HOH A 936 O 89.1 127.9 98.6 81.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UPG A 526 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 527 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3JT1 RELATED DB: PDB REMARK 900 LEGIONELLA PNEUMOPHILA GLUCOSYLTRANSFERASE LGT1, UDP-BOUND REMARK 900 FORM DBREF 3JSZ A 1 525 UNP Q5WWY0 Q5WWY0_LEGPL 1 525 SEQRES 1 A 525 MSE LYS ALA ARG ARG SER ASN GLU LEU SER LYS LEU ARG SEQRES 2 A 525 MSE ARG PHE PHE SER ALA LEU ASN HIS THR SER GLU ILE SEQRES 3 A 525 ASP LEU HIS THR LEU PHE ASP ASN LEU LYS SER ASN LEU SEQRES 4 A 525 THR LEU GLY SER ILE GLU HIS LEU GLN GLU GLY SER VAL SEQRES 5 A 525 THR TYR ALA ILE ILE GLN GLU LEU LEU LYS GLY ALA ASP SEQRES 6 A 525 ALA GLN LYS LYS ILE GLU SER PHE LEU LYS GLY ALA ILE SEQRES 7 A 525 LYS ASN VAL ILE HIS PRO GLY VAL ILE LYS GLY LEU THR SEQRES 8 A 525 PRO ASN GLU ILE ASN TRP ASN VAL ALA LYS ALA TYR PRO SEQRES 9 A 525 GLU TYR TYR GLU HIS GLU LYS LEU PRO ASP VAL THR PHE SEQRES 10 A 525 GLY GLY PHE LYS VAL ARG ASP SER ASN GLU PHE LYS PHE SEQRES 11 A 525 LYS THR ASN VAL GLN THR SER ILE TRP PHE SER ILE LYS SEQRES 12 A 525 PRO GLU LEU PHE MSE PRO SER LYS GLN GLN GLU ALA LEU SEQRES 13 A 525 LYS ARG ARG ARG GLU GLN TYR PRO GLY CYS LYS ILE ARG SEQRES 14 A 525 LEU ILE TYR SER SER SER LEU LEU ASN PRO GLU ALA ASN SEQRES 15 A 525 ARG GLN MSE LYS ALA PHE ALA LYS LYS GLN ASN ILE SER SEQRES 16 A 525 LEU ILE ASP ILE ASP SER VAL LYS THR ASP SER PRO LEU SEQRES 17 A 525 TYR PRO LEU ILE LYS ALA GLU LEU ALA ASN LEU GLY MSE SEQRES 18 A 525 GLY GLY ASN PRO ALA ALA ALA SER ASP LEU CYS ARG TRP SEQRES 19 A 525 ILE PRO GLU LEU PHE ASN GLU GLY PHE TYR VAL ASP ILE SEQRES 20 A 525 ASP LEU PRO VAL ASP SER SER LYS ILE VAL GLU GLY HIS SEQRES 21 A 525 GLN ILE THR GLY GLY VAL PRO ILE MSE LEU ASN MSE GLY SEQRES 22 A 525 SER ILE ILE SER GLU PRO ILE ALA PRO HIS HIS ARG ARG SEQRES 23 A 525 GLN GLU ALA VAL CYS MSE ALA THR ASP ILE ILE ALA TYR SEQRES 24 A 525 ALA ASN ASP ARG GLU THR GLN VAL MSE MSE ASP THR VAL SEQRES 25 A 525 ALA LEU HIS LEU LYS ASN ILE TYR ASP ASP PRO TYR THR SEQRES 26 A 525 ALA LEU LYS ASP THR PRO LEU ALA GLN THR ALA PHE PHE SEQRES 27 A 525 ASN ARG CYS GLU GLU GLU GLY LYS ASN ILE PHE GLU LEU SEQRES 28 A 525 ARG LYS GLY LEU GLN ASP ALA PHE ARG SER ASP SER LEU SEQRES 29 A 525 LEU GLU LEU TYR VAL PHE LEU GLY PRO ALA LYS PHE LYS SEQRES 30 A 525 GLU VAL PHE LYS LEU LYS GLU THR GLN ILE LYS TYR ILE SEQRES 31 A 525 ASP ASP HIS ILE SER GLU PHE ASN GLU HIS ASP LEU LEU SEQRES 32 A 525 LEU HIS LEU ILE SER ASP ASN PRO SER GLU ILE ASN GLN SEQRES 33 A 525 HIS THR LEU ASP PHE GLY ARG ALA LYS VAL MSE TYR MSE SEQRES 34 A 525 ASP ILE ALA LYS GLU HIS TYR SER ALA PHE TYR LYS PRO SEQRES 35 A 525 LEU VAL GLU GLU ILE SER GLY PRO GLY ALA ILE TYR ASN SEQRES 36 A 525 ALA LEU GLY GLY ALA SER ASN PHE THR THR THR HIS ARG SEQRES 37 A 525 ARG SER THR GLY PRO MSE LEU PRO THR THR PRO PRO ARG SEQRES 38 A 525 VAL LEU GLN VAL PHE CYS ASP ALA HIS ASP LYS GLY PRO SEQRES 39 A 525 PHE VAL SER ASP ASN ILE ALA ARG TRP GLN THR ASN VAL SEQRES 40 A 525 ARG GLU LEU GLY VAL LEU ASN ARG GLU GLY LEU SER TRP SEQRES 41 A 525 LEU PRO SER VAL GLY MODRES 3JSZ MSE A 14 MET SELENOMETHIONINE MODRES 3JSZ MSE A 148 MET SELENOMETHIONINE MODRES 3JSZ MSE A 185 MET SELENOMETHIONINE MODRES 3JSZ MSE A 221 MET SELENOMETHIONINE MODRES 3JSZ MSE A 269 MET SELENOMETHIONINE MODRES 3JSZ MSE A 272 MET SELENOMETHIONINE MODRES 3JSZ MSE A 292 MET SELENOMETHIONINE MODRES 3JSZ MSE A 308 MET SELENOMETHIONINE MODRES 3JSZ MSE A 309 MET SELENOMETHIONINE MODRES 3JSZ MSE A 427 MET SELENOMETHIONINE MODRES 3JSZ MSE A 429 MET SELENOMETHIONINE MODRES 3JSZ MSE A 474 MET SELENOMETHIONINE HET MSE A 14 8 HET MSE A 148 8 HET MSE A 185 8 HET MSE A 221 8 HET MSE A 269 8 HET MSE A 272 8 HET MSE A 292 8 HET MSE A 308 8 HET MSE A 309 13 HET MSE A 427 8 HET MSE A 429 8 HET MSE A 474 13 HET UPG A 526 36 HET MG A 527 1 HETNAM MSE SELENOMETHIONINE HETNAM UPG URIDINE-5'-DIPHOSPHATE-GLUCOSE HETNAM MG MAGNESIUM ION HETSYN UPG URIDINE-5'-MONOPHOSPHATE GLUCOPYRANOSYL-MONOPHOSPHATE HETSYN 2 UPG ESTER FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 2 UPG C15 H24 N2 O17 P2 FORMUL 3 MG MG 2+ FORMUL 4 HOH *712(H2 O) HELIX 1 1 SER A 6 LEU A 20 1 15 HELIX 2 2 ASP A 27 LYS A 36 1 10 HELIX 3 3 SER A 37 LEU A 39 5 3 HELIX 4 4 THR A 40 GLU A 45 1 6 HELIX 5 5 HIS A 46 GLN A 48 5 3 HELIX 6 6 SER A 51 LEU A 61 1 11 HELIX 7 7 ASP A 65 VAL A 81 1 17 HELIX 8 8 VAL A 81 GLY A 89 1 9 HELIX 9 9 THR A 91 TYR A 103 1 13 HELIX 10 10 PRO A 149 TYR A 163 1 15 HELIX 11 11 ASN A 178 GLN A 192 1 15 HELIX 12 12 ASP A 200 VAL A 202 5 3 HELIX 13 13 PRO A 207 ASN A 218 1 12 HELIX 14 14 ASN A 224 ARG A 233 1 10 HELIX 15 15 ASP A 252 ILE A 256 5 5 HELIX 16 16 ASP A 302 ASP A 322 1 21 HELIX 17 17 ASP A 322 LEU A 327 1 6 HELIX 18 18 THR A 330 GLN A 334 5 5 HELIX 19 19 THR A 335 GLY A 345 1 11 HELIX 20 20 ASN A 347 SER A 361 1 15 HELIX 21 21 SER A 363 LYS A 381 1 19 HELIX 22 22 LYS A 383 ILE A 394 1 12 HELIX 23 23 SER A 395 PHE A 397 5 3 HELIX 24 24 ASN A 398 ASN A 410 1 13 HELIX 25 25 PRO A 411 ASN A 415 5 5 HELIX 26 26 ASP A 420 GLU A 434 1 15 HELIX 27 27 HIS A 435 LYS A 441 1 7 HELIX 28 28 LYS A 441 GLU A 446 1 6 HELIX 29 29 GLY A 449 GLY A 458 1 10 HELIX 30 30 GLY A 458 PHE A 463 1 6 HELIX 31 31 THR A 478 CYS A 487 1 10 HELIX 32 32 ASP A 488 GLY A 493 1 6 HELIX 33 33 ARG A 508 LEU A 510 5 3 SHEET 1 A 2 THR A 116 PHE A 117 0 SHEET 2 A 2 PHE A 120 LYS A 121 -1 O PHE A 120 N PHE A 117 SHEET 1 B 2 PHE A 128 LYS A 131 0 SHEET 2 B 2 GLN A 261 GLY A 264 -1 O ILE A 262 N PHE A 130 SHEET 1 C 6 ILE A 194 ASP A 198 0 SHEET 2 C 6 LYS A 167 TYR A 172 1 N LEU A 170 O ILE A 197 SHEET 3 C 6 VAL A 134 ILE A 138 1 N GLN A 135 O ARG A 169 SHEET 4 C 6 GLY A 242 VAL A 245 1 O PHE A 243 N THR A 136 SHEET 5 C 6 GLN A 287 TYR A 299 -1 O TYR A 299 N GLY A 242 SHEET 6 C 6 THR A 464 THR A 466 -1 O THR A 465 N GLU A 288 SHEET 1 D 7 ILE A 194 ASP A 198 0 SHEET 2 D 7 LYS A 167 TYR A 172 1 N LEU A 170 O ILE A 197 SHEET 3 D 7 VAL A 134 ILE A 138 1 N GLN A 135 O ARG A 169 SHEET 4 D 7 GLY A 242 VAL A 245 1 O PHE A 243 N THR A 136 SHEET 5 D 7 GLN A 287 TYR A 299 -1 O TYR A 299 N GLY A 242 SHEET 6 D 7 ILE A 268 ILE A 276 -1 N MSE A 269 O ALA A 298 SHEET 7 D 7 THR A 505 ASN A 506 1 O THR A 505 N ILE A 276 LINK C AARG A 13 N MSE A 14 1555 1555 1.33 LINK C BARG A 13 N MSE A 14 1555 1555 1.33 LINK C MSE A 14 N ARG A 15 1555 1555 1.32 LINK C PHE A 147 N MSE A 148 1555 1555 1.33 LINK C MSE A 148 N PRO A 149 1555 1555 1.35 LINK C GLN A 184 N MSE A 185 1555 1555 1.33 LINK C MSE A 185 N LYS A 186 1555 1555 1.33 LINK C GLY A 220 N MSE A 221 1555 1555 1.33 LINK C MSE A 221 N GLY A 222 1555 1555 1.33 LINK C ILE A 268 N MSE A 269 1555 1555 1.33 LINK C MSE A 269 N LEU A 270 1555 1555 1.33 LINK C ASN A 271 N MSE A 272 1555 1555 1.33 LINK C MSE A 272 N GLY A 273 1555 1555 1.32 LINK C CYS A 291 N MSE A 292 1555 1555 1.32 LINK C VAL A 307 N MSE A 308 1555 1555 1.33 LINK C MSE A 308 N MSE A 309 1555 1555 1.33 LINK C MSE A 309 N ASP A 310 1555 1555 1.34 LINK C VAL A 426 N MSE A 427 1555 1555 1.33 LINK C MSE A 427 N TYR A 428 1555 1555 1.33 LINK C TYR A 428 N MSE A 429 1555 1555 1.33 LINK C MSE A 429 N ASP A 430 1555 1555 1.33 LINK C PRO A 473 N MSE A 474 1555 1555 1.33 LINK C MSE A 474 N LEU A 475 1555 1555 1.33 LINK O1A UPG A 526 MG MG A 527 1555 1555 2.42 LINK O2B UPG A 526 MG MG A 527 1555 1555 2.29 LINK MG MG A 527 O HOH A1069 1555 1555 2.24 LINK MG MG A 527 O HOH A 552 1555 1555 2.39 LINK MG MG A 527 O HOH A 936 1555 1555 2.11 LINK C MSE A 292 N ALA A 293 1555 1555 1.32 CISPEP 1 PRO A 164 GLY A 165 0 -9.64 CISPEP 2 ALA A 281 PRO A 282 0 -0.45 CISPEP 3 SER A 470 THR A 471 0 0.27 SITE 1 AC1 21 ILE A 138 TRP A 139 PHE A 140 ALA A 226 SITE 2 AC1 21 SER A 229 ASP A 230 ARG A 233 ASP A 246 SITE 3 AC1 21 ASP A 295 ASN A 499 SER A 519 TRP A 520 SITE 4 AC1 21 MG A 527 HOH A 550 HOH A 590 HOH A 646 SITE 5 AC1 21 HOH A 729 HOH A 736 HOH A 741 HOH A 754 SITE 6 AC1 21 HOH A1085 SITE 1 AC2 4 UPG A 526 HOH A 552 HOH A 936 HOH A1069 CRYST1 122.232 122.232 102.779 90.00 90.00 120.00 H 3 9 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 0.008181 0.004723 0.000000 0.00000 SCALE2 0.000000 0.009447 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009730 0.00000