HEADER TRANSFERASE 17-APR-08 3CV3 TITLE CRYSTAL STRUCTURE OF GUMK MUTANT D157A IN COMPLEX WITH UDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCURONOSYLTRANSFERASE GUMK; COMPND 3 CHAIN: A; COMPND 4 EC: 2.4.1.17; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XANTHOMONAS CAMPESTRIS PV. CAMPESTRIS; SOURCE 3 ORGANISM_TAXID: 340; SOURCE 4 GENE: GUMK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS GLUCURONOSYLTRANSFERASE, GLYCOSYLTRANSFERASE, XANTHAN, XANTHOMONAS KEYWDS 2 CAMPESTRIS, UDP, UDPGLCA, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.BARRERAS REVDAT 5 30-AUG-23 3CV3 1 REMARK REVDAT 4 20-OCT-21 3CV3 1 SOURCE REMARK SEQADV REVDAT 3 24-FEB-09 3CV3 1 VERSN REVDAT 2 30-SEP-08 3CV3 1 JRNL REVDAT 1 01-JUL-08 3CV3 0 JRNL AUTH M.BARRERAS,S.R.SALINAS,P.L.ABDIAN,M.A.KAMPEL,L.IELPI JRNL TITL STRUCTURE AND MECHANISM OF GUMK, A MEMBRANE-ASSOCIATED JRNL TITL 2 GLUCURONOSYLTRANSFERASE. JRNL REF J.BIOL.CHEM. V. 283 25027 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18596046 JRNL DOI 10.1074/JBC.M801227200 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 35598 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1785 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2420 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 126 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2925 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 422 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.03000 REMARK 3 B12 (A**2) : 0.01000 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): 0.161 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.157 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.100 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.927 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3034 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4138 ; 1.944 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 368 ; 8.876 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 142 ;33.987 ;21.901 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 457 ;13.721 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;18.761 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 449 ; 0.134 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2360 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1978 ; 0.247 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2151 ; 0.331 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 461 ; 0.191 ; 0.200 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): 58 ; 0.241 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 32 ; 0.136 ; 0.200 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): 1871 ; 0.905 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2988 ; 1.530 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1304 ; 2.535 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1150 ; 4.022 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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: NULL REMARK 4 REMARK 4 3CV3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000047246. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.433 REMARK 200 MONOCHROMATOR : SILICIUM CURVED CRYSTAL, WITH REMARK 200 ASYMMETRIC 7.25 ANGLE CUT REMARK 200 OPTICS : BEAM FOCUSED BY A CILINDRICALLY REMARK 200 CURVED MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35644 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 17.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 14.90 REMARK 200 R MERGE (I) : 0.14900 REMARK 200 R SYM (I) : 0.14900 REMARK 200 FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.50 REMARK 200 R MERGE FOR SHELL (I) : 0.28600 REMARK 200 R SYM FOR SHELL (I) : 0.29700 REMARK 200 FOR SHELL : 10.10 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: ARP/WARP REMARK 200 STARTING MODEL: PDB ENTRY 2HY7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL, 35% (W/V) PEG 3350, REMARK 280 0.2 M LI2SO4, 0.1 M LICL, PH 8.2, HANGING DROP AND SOAKING OF REMARK 280 CRYSTALS IN UDPGLCA 10 MM, TEMPERATURE 293K, VAPOR DIFFUSION, REMARK 280 HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 114.02067 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 57.01033 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 85.51550 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 28.50517 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 142.52583 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 114.02067 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 57.01033 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 28.50517 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 85.51550 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 142.52583 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 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 A1083 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1391 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1447 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 MET A 1 REMARK 465 GLY A 2 REMARK 465 VAL A 3 REMARK 465 SER A 4 REMARK 465 PRO A 5 REMARK 465 ALA A 6 REMARK 465 ALA A 7 REMARK 465 PRO A 8 REMARK 465 ALA A 9 REMARK 465 SER A 10 REMARK 465 GLY A 11 REMARK 465 ILE A 12 REMARK 465 ARG A 13 REMARK 465 PRO A 383 REMARK 465 HIS A 384 REMARK 465 PRO A 385 REMARK 465 PRO A 386 REMARK 465 THR A 387 REMARK 465 ALA A 388 REMARK 465 ALA A 389 REMARK 465 PRO A 390 REMARK 465 GLN A 391 REMARK 465 LEU A 392 REMARK 465 SER A 393 REMARK 465 SER A 394 REMARK 465 GLU A 395 REMARK 465 ALA A 396 REMARK 465 ALA A 397 REMARK 465 LEU A 398 REMARK 465 SER A 399 REMARK 465 HIS A 400 REMARK 465 HIS A 401 REMARK 465 HIS A 402 REMARK 465 HIS A 403 REMARK 465 HIS A 404 REMARK 465 HIS A 405 REMARK 465 HIS A 406 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 1427 O HOH A 1428 1.47 REMARK 500 O ASP A 215 N PRO A 216 1.73 REMARK 500 O THR A 45 O HOH A 1320 1.85 REMARK 500 O HOH A 1274 O HOH A 1495 2.03 REMARK 500 OG1 THR A 27 O HOH A 1433 2.12 REMARK 500 O HOH A 1287 O HOH A 1367 2.14 REMARK 500 O HOH A 1210 O HOH A 1495 2.16 REMARK 500 O HOH A 1209 O HOH A 1497 2.18 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 LYS A 143 CD - CE - NZ ANGL. DEV. = -16.1 DEGREES REMARK 500 ASP A 215 CA - C - N ANGL. DEV. = 36.3 DEGREES REMARK 500 ASP A 215 O - C - N ANGL. DEV. = -36.7 DEGREES REMARK 500 PRO A 216 C - N - CA ANGL. DEV. = -31.0 DEGREES REMARK 500 PRO A 216 C - N - CD ANGL. DEV. = 30.0 DEGREES REMARK 500 SER A 217 CA - C - N ANGL. DEV. = -27.8 DEGREES REMARK 500 SER A 217 O - C - N ANGL. DEV. = 27.9 DEGREES REMARK 500 PRO A 218 C - N - CA ANGL. DEV. = -16.4 DEGREES REMARK 500 PRO A 218 C - N - CD ANGL. DEV. = 15.8 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 THR A 46 104.94 73.89 REMARK 500 MET A 59 41.22 -82.15 REMARK 500 LYS A 60 4.94 -157.76 REMARK 500 ASN A 146 82.19 -150.70 REMARK 500 ARG A 196 -56.24 -143.09 REMARK 500 HIS A 204 103.41 21.75 REMARK 500 PRO A 216 -126.24 -81.73 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 GLY A 203 HIS A 204 99.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 PRO A 216 17.30 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 UDP A 1081 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3CUY RELATED DB: PDB DBREF 3CV3 A 1 400 UNP Q8GCH2 Q8GCH2_XANCP 1 400 SEQADV 3CV3 ALA A 157 UNP Q8GCH2 ASP 157 ENGINEERED MUTATION SEQADV 3CV3 HIS A 401 UNP Q8GCH2 EXPRESSION TAG SEQADV 3CV3 HIS A 402 UNP Q8GCH2 EXPRESSION TAG SEQADV 3CV3 HIS A 403 UNP Q8GCH2 EXPRESSION TAG SEQADV 3CV3 HIS A 404 UNP Q8GCH2 EXPRESSION TAG SEQADV 3CV3 HIS A 405 UNP Q8GCH2 EXPRESSION TAG SEQADV 3CV3 HIS A 406 UNP Q8GCH2 EXPRESSION TAG SEQRES 1 A 406 MET GLY VAL SER PRO ALA ALA PRO ALA SER GLY ILE ARG SEQRES 2 A 406 ARG PRO CYS TYR LEU VAL LEU SER SER HIS ASP PHE ARG SEQRES 3 A 406 THR PRO ARG ARG ALA ASN ILE HIS PHE ILE THR ASP GLN SEQRES 4 A 406 LEU ALA LEU ARG GLY THR THR ARG PHE PHE SER LEU ARG SEQRES 5 A 406 TYR SER ARG LEU SER ARG MET LYS GLY ASP MET ARG LEU SEQRES 6 A 406 PRO LEU ASP ASP THR ALA ASN THR VAL VAL SER HIS ASN SEQRES 7 A 406 GLY VAL ASP CYS TYR LEU TRP ARG THR THR VAL HIS PRO SEQRES 8 A 406 PHE ASN THR ARG ARG SER TRP LEU ARG PRO VAL GLU ASP SEQRES 9 A 406 ALA MET PHE ARG TRP TYR ALA ALA HIS PRO PRO LYS GLN SEQRES 10 A 406 LEU LEU ASP TRP MET ARG GLU SER ASP VAL ILE VAL PHE SEQRES 11 A 406 GLU SER GLY ILE ALA VAL ALA PHE ILE GLU LEU ALA LYS SEQRES 12 A 406 ARG VAL ASN PRO ALA ALA LYS LEU VAL TYR ARG ALA SER SEQRES 13 A 406 ALA GLY LEU SER THR ILE ASN VAL ALA SER TYR ILE GLU SEQRES 14 A 406 ARG GLU PHE ASP ARG VAL ALA PRO THR LEU ASP VAL ILE SEQRES 15 A 406 ALA LEU VAL SER PRO ALA MET ALA ALA GLU VAL VAL SER SEQRES 16 A 406 ARG ASP ASN VAL PHE HIS VAL GLY HIS GLY VAL ASP HIS SEQRES 17 A 406 ASN LEU ASP GLN LEU GLY ASP PRO SER PRO TYR ALA GLU SEQRES 18 A 406 GLY ILE HIS ALA VAL ALA VAL GLY SER MET LEU PHE ASP SEQRES 19 A 406 PRO GLU PHE PHE VAL VAL ALA SER LYS ALA PHE PRO GLN SEQRES 20 A 406 VAL THR PHE HIS VAL ILE GLY SER GLY MET GLY ARG HIS SEQRES 21 A 406 PRO GLY TYR GLY ASP ASN VAL ILE VAL TYR GLY GLU MET SEQRES 22 A 406 LYS HIS ALA GLN THR ILE GLY TYR ILE LYS HIS ALA ARG SEQRES 23 A 406 PHE GLY ILE ALA PRO TYR ALA SER GLU GLN VAL PRO VAL SEQRES 24 A 406 TYR LEU ALA ASP SER SER MET LYS LEU LEU GLN TYR ASP SEQRES 25 A 406 PHE PHE GLY LEU PRO ALA VAL CYS PRO ASN ALA VAL VAL SEQRES 26 A 406 GLY PRO TYR LYS SER ARG PHE GLY TYR THR PRO GLY ASN SEQRES 27 A 406 ALA ASP SER VAL ILE ALA ALA ILE THR GLN ALA LEU GLU SEQRES 28 A 406 ALA PRO ARG VAL ARG TYR ARG GLN CYS LEU ASN TRP SER SEQRES 29 A 406 ASP THR THR ASP ARG VAL LEU ASP PRO ARG ALA TYR PRO SEQRES 30 A 406 GLU THR ARG LEU TYR PRO HIS PRO PRO THR ALA ALA PRO SEQRES 31 A 406 GLN LEU SER SER GLU ALA ALA LEU SER HIS HIS HIS HIS SEQRES 32 A 406 HIS HIS HIS HET UDP A1081 25 HETNAM UDP URIDINE-5'-DIPHOSPHATE FORMUL 2 UDP C9 H14 N2 O12 P2 FORMUL 3 HOH *422(H2 O) HELIX 1 1 ALA A 31 GLY A 44 1 14 HELIX 2 2 SER A 54 MET A 59 1 6 HELIX 3 3 ARG A 64 ALA A 71 5 8 HELIX 4 4 ARG A 96 TRP A 98 5 3 HELIX 5 5 LEU A 99 HIS A 113 1 15 HELIX 6 6 PRO A 115 SER A 125 1 11 HELIX 7 7 GLY A 133 ALA A 137 5 5 HELIX 8 8 PHE A 138 ASN A 146 1 9 HELIX 9 9 GLY A 158 ASN A 163 1 6 HELIX 10 10 ALA A 165 ALA A 176 1 12 HELIX 11 11 PRO A 177 LEU A 179 5 3 HELIX 12 12 SER A 186 VAL A 193 5 8 HELIX 13 13 ASN A 209 GLY A 214 1 6 HELIX 14 14 ASP A 234 PHE A 245 1 12 HELIX 15 15 LYS A 274 HIS A 284 1 11 HELIX 16 16 TYR A 300 SER A 305 1 6 HELIX 17 17 SER A 305 PHE A 314 1 10 HELIX 18 18 ASN A 322 GLY A 326 1 5 HELIX 19 19 ASN A 338 ALA A 352 1 15 HELIX 20 20 ASN A 362 ASP A 372 1 11 HELIX 21 21 PRO A 373 ARG A 380 5 8 SHEET 1 A 8 VAL A 74 HIS A 77 0 SHEET 2 A 8 VAL A 80 LEU A 84 -1 O CYS A 82 N VAL A 75 SHEET 3 A 8 ARG A 47 SER A 50 1 N SER A 50 O TYR A 83 SHEET 4 A 8 TYR A 17 SER A 21 1 N VAL A 19 O PHE A 49 SHEET 5 A 8 VAL A 127 GLU A 131 1 O VAL A 129 N LEU A 18 SHEET 6 A 8 LYS A 150 ALA A 155 1 O VAL A 152 N ILE A 128 SHEET 7 A 8 VAL A 181 LEU A 184 1 O ALA A 183 N TYR A 153 SHEET 8 A 8 VAL A 199 HIS A 201 1 O PHE A 200 N ILE A 182 SHEET 1 B 6 VAL A 267 TYR A 270 0 SHEET 2 B 6 VAL A 248 ILE A 253 1 N PHE A 250 O ILE A 268 SHEET 3 B 6 ILE A 223 VAL A 228 1 N ALA A 227 O ILE A 253 SHEET 4 B 6 PHE A 287 ILE A 289 1 O ILE A 289 N VAL A 226 SHEET 5 B 6 ALA A 318 PRO A 321 1 O VAL A 319 N GLY A 288 SHEET 6 B 6 ARG A 331 TYR A 334 1 O PHE A 332 N ALA A 318 CISPEP 1 ASP A 215 PRO A 216 0 -0.34 SITE 1 AC1 18 ARG A 29 GLY A 229 SER A 230 MET A 231 SITE 2 AC1 18 GLY A 254 GLU A 272 MET A 273 HIS A 275 SITE 3 AC1 18 THR A 278 TYR A 292 SER A 305 MET A 306 SITE 4 AC1 18 LYS A 307 GLN A 310 HOH A1204 HOH A1292 SITE 5 AC1 18 HOH A1306 HOH A1469 CRYST1 120.958 120.958 171.031 90.00 90.00 120.00 P 65 2 2 12 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 0.008267 0.004773 0.000000 0.00000 SCALE2 0.000000 0.009546 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005847 0.00000