HEADER TRANSFERASE 05-AUG-13 4M2A TITLE CRYSTAL STRUCTURE OF THE UDP-GLUCOSE PYROPHOSPHORYLASE FROM LEISHMANIA TITLE 2 MAJOR IN THE POST-REACTIVE STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-GLUCOSE PYROPHOSPHORYLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.9; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MAJOR; SOURCE 3 ORGANISM_TAXID: 5664; SOURCE 4 GENE: LMJF_18_0990, UGP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ROSSMANN-LIKE ALPHA/BETA/ALPHA SANDWICH FOLD, NUCLEOTIDYLTRANSFERASE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.FUEHRING,F.H.ROUTIER,A.-C.LAMERZ,P.BARUCH,R.GERARDY-SCHAHN, AUTHOR 2 R.FEDOROV REVDAT 3 20-SEP-23 4M2A 1 REMARK SEQADV LINK REVDAT 2 12-MAR-14 4M2A 1 JRNL REVDAT 1 29-JAN-14 4M2A 0 JRNL AUTH J.FUEHRING,F.H.ROUTIER,A.-C.LAMERZ,P.BARUCH, JRNL AUTH 2 R.GERARDY-SCHAHN,R.FEDOROV JRNL TITL CATALYTIC MECHANISM AND ALLOSTERIC REGULATION OF UDP-GLUCOSE JRNL TITL 2 PYROPHOSPHORYLASE FROM LEISHMANIA MAJOR JRNL REF ACS CATALYSIS V. 3 2161 2013 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/CS4007777 REMARK 2 REMARK 2 RESOLUTION. 1.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 57274 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 SET) : 0.190 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 2929 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3726 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 665 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4M2A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000081375. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-OCT-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.806 REMARK 200 MONOCHROMATOR : THE TRIANGULAR SHAPED GE (OR SI) REMARK 200 MONOCHROMATOR CUT AT 7 FOR REMARK 200 COMPRESSION OF THE BEAM IS 180 REMARK 200 MM LONG, 1 MM THICK AND 40 MM IN REMARK 200 HEIGHT AT THE BASE. REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SADABS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57313 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.660 REMARK 200 RESOLUTION RANGE LOW (A) : 29.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 14.93 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : 0.02300 REMARK 200 FOR THE DATA SET : 28.7800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: PDB ENTRY 2OEG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS, 22% W/V PEG-MME- 2000, REMARK 280 20MM (NH4)2SO4, PH 6.0, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.24500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.24500 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 39.89500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 44.54500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.89500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 44.54500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 68.24500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.89500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 44.54500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 68.24500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.89500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 44.54500 REMARK 290 SMTRY3 8 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 300 REMARK: 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 300 REMARK 300 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 300 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 300 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 300 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 300 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 300 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 300 SOFTWARE USED: PISA REMARK 300 APPLY THE FOLLOWING TO CHAINS: A REMARK 300 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 300 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 300 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 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 A2438 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2640 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 GLU A 2 REMARK 465 ASN A 3 REMARK 465 ASP A 4 REMARK 465 MET A 5 REMARK 465 GLN A 489 REMARK 465 GLN A 490 REMARK 465 SER A 491 REMARK 465 THR A 492 REMARK 465 ASN A 493 REMARK 465 LYS A 494 REMARK 465 MET A 495 REMARK 465 ARG A 496 REMARK 465 PRO A 497 REMARK 465 LEU A 498 REMARK 465 GLU A 499 REMARK 465 HIS A 500 REMARK 465 HIS A 501 REMARK 465 HIS A 502 REMARK 465 HIS A 503 REMARK 465 HIS A 504 REMARK 465 HIS A 505 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 LYS A 6 CG CD CE NZ 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 ASN A 425 O HOH A 2446 1.82 REMARK 500 O HOH A 2092 O HOH A 2461 1.91 REMARK 500 O HOH A 2460 O HOH A 2521 1.98 REMARK 500 OE2 GLU A 276 O HOH A 2399 2.00 REMARK 500 ND2 ASN A 25 O HOH A 2200 2.05 REMARK 500 O SER A 487 O HOH A 2345 2.08 REMARK 500 O HOH A 2447 O HOH A 2652 2.11 REMARK 500 O ASN A 456 O HOH A 2466 2.14 REMARK 500 C SER A 365 O HOH A 2406 2.14 REMARK 500 O HOH A 2253 O HOH A 2646 2.15 REMARK 500 O HOH A 2354 O HOH A 2366 2.16 REMARK 500 O HOH A 2034 O HOH A 2581 2.17 REMARK 500 OD1 ASP A 171 O HOH A 2420 2.18 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 TRP A 149 CE2 TRP A 149 CD2 0.077 REMARK 500 HIS A 324 CG HIS A 324 CD2 0.065 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 GLN A 272 N - CA - CB ANGL. DEV. = -13.8 DEGREES REMARK 500 LEU A 310 CB - CG - CD1 ANGL. DEV. = -10.5 DEGREES REMARK 500 ASP A 391 CB - CG - OD1 ANGL. DEV. = 6.7 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 65 -34.02 -137.43 REMARK 500 ASN A 82 23.18 -154.86 REMARK 500 CYS A 121 -66.00 -121.54 REMARK 500 VAL A 266 157.95 -47.41 REMARK 500 LYS A 267 122.16 -32.52 REMARK 500 LYS A 269 7.77 -153.20 REMARK 500 GLN A 272 145.15 -177.47 REMARK 500 ARG A 443 117.12 -164.36 REMARK 500 ASP A 468 -75.41 -86.10 REMARK 500 PRO A 476 151.35 -49.92 REMARK 500 ASP A 483 73.31 40.82 REMARK 500 REMARK 500 REMARK: NULL 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 A1002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 UPG A1001 O2A REMARK 620 2 SO4 A1003 O4 128.5 REMARK 620 3 HOH A2549 O 104.3 103.1 REMARK 620 N 1 2 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2OEF RELATED DB: PDB REMARK 900 APO-FORM OF THE SAME ENZYME REMARK 900 RELATED ID: 2OEG RELATED DB: PDB REMARK 900 THE SAME ENZYME IN COMPLEX WITH THE UDP-GLUCOSE PRODUCT REMARK 900 RELATED ID: 4M28 RELATED DB: PDB REMARK 900 RELATED ID: 4M2B RELATED DB: PDB DBREF 4M2A A 1 494 UNP Q4QDU3 Q4QDU3_LEIMA 1 494 SEQADV 4M2A MET A 495 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A ARG A 496 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A PRO A 497 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A LEU A 498 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A GLU A 499 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A HIS A 500 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A HIS A 501 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A HIS A 502 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A HIS A 503 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A HIS A 504 UNP Q4QDU3 EXPRESSION TAG SEQADV 4M2A HIS A 505 UNP Q4QDU3 EXPRESSION TAG SEQRES 1 A 505 MET GLU ASN ASP MET LYS SER LEU SER ALA ALA ALA GLN SEQRES 2 A 505 ALA CYS VAL LYS LYS MET ARG ASP ALA LYS VAL ASN GLU SEQRES 3 A 505 ALA CYS ILE ARG THR PHE ILE ALA GLN HIS VAL MET VAL SEQRES 4 A 505 SER LYS GLY GLU THR GLY SER ILE PRO ASP SER ALA ILE SEQRES 5 A 505 MET PRO VAL ASP SER LEU ASP ALA LEU ASP SER LEU THR SEQRES 6 A 505 ILE GLU CYS ASP ASN ALA VAL LEU GLN SER THR VAL VAL SEQRES 7 A 505 LEU LYS LEU ASN GLY GLY LEU GLY THR GLY MET GLY LEU SEQRES 8 A 505 CYS ASP ALA LYS THR LEU LEU GLU VAL LYS ASP GLY LYS SEQRES 9 A 505 THR PHE LEU ASP PHE THR ALA LEU GLN VAL GLN TYR LEU SEQRES 10 A 505 ARG GLN HIS CYS SER GLU HIS LEU ARG PHE MET LEU MET SEQRES 11 A 505 ASP SER PHE ASN THR SER ALA SER THR LYS SER PHE LEU SEQRES 12 A 505 LYS ALA ARG TYR PRO TRP LEU TYR GLN VAL PHE ASP SER SEQRES 13 A 505 GLU VAL GLU LEU MET GLN ASN GLN VAL PRO LYS ILE LEU SEQRES 14 A 505 GLN ASP THR LEU GLU PRO ALA ALA TRP ALA GLU ASN PRO SEQRES 15 A 505 ALA TYR GLU TRP ALA PRO PRO GLY HIS GLY ASP ILE TYR SEQRES 16 A 505 THR ALA LEU TYR GLY SER GLY LYS LEU GLN GLU LEU VAL SEQRES 17 A 505 GLU GLN GLY TYR ARG TYR MET PHE VAL SER ASN GLY ASP SEQRES 18 A 505 ASN LEU GLY ALA THR ILE ASP LYS ARG VAL LEU ALA TYR SEQRES 19 A 505 MET GLU LYS GLU LYS ILE ASP PHE LEU MET GLU VAL CYS SEQRES 20 A 505 ARG ARG THR GLU SER ASP LYS LYS GLY GLY HIS LEU ALA SEQRES 21 A 505 ARG GLN THR VAL TYR VAL LYS GLY LYS ASP GLY GLN PRO SEQRES 22 A 505 ASP ALA GLU LYS ARG VAL LEU LEU LEU ARG GLU SER ALA SEQRES 23 A 505 GLN CYS PRO LYS ALA ASP MET GLU SER PHE GLN ASP ILE SEQRES 24 A 505 ASN LYS TYR SER PHE PHE ASN THR ASN ASN LEU TRP ILE SEQRES 25 A 505 ARG LEU PRO VAL LEU LEU GLU THR MET GLN GLU HIS GLY SEQRES 26 A 505 GLY THR LEU PRO LEU PRO VAL ILE ARG ASN GLU LYS THR SEQRES 27 A 505 VAL ASP SER SER ASN SER ALA SER PRO LYS VAL TYR GLN SEQRES 28 A 505 LEU GLU THR ALA MET GLY ALA ALA ILE ALA MET PHE GLU SEQRES 29 A 505 SER ALA SER ALA ILE VAL VAL PRO ARG SER ARG PHE ALA SEQRES 30 A 505 PRO VAL LYS THR CYS ALA ASP LEU LEU ALA LEU ARG SER SEQRES 31 A 505 ASP ALA TYR VAL VAL THR ASP ASP PHE ARG LEU VAL LEU SEQRES 32 A 505 ASP ASP ARG CYS HIS GLY HIS PRO PRO VAL VAL ASP LEU SEQRES 33 A 505 ASP SER ALA HIS TYR LYS MET MET ASN GLY PHE GLU LYS SEQRES 34 A 505 LEU VAL GLN HIS GLY VAL PRO SER LEU VAL GLU CYS LYS SEQRES 35 A 505 ARG VAL THR VAL LYS GLY LEU VAL GLN PHE GLY ALA GLY SEQRES 36 A 505 ASN VAL LEU THR GLY THR VAL THR ILE GLU ASN THR ASP SEQRES 37 A 505 SER ALA SER ALA PHE VAL ILE PRO ASP GLY ALA LYS LEU SEQRES 38 A 505 ASN ASP THR THR ALA SER PRO GLN GLN SER THR ASN LYS SEQRES 39 A 505 MET ARG PRO LEU GLU HIS HIS HIS HIS HIS HIS HET UPG A1001 36 HET MG A1002 1 HET SO4 A1003 5 HETNAM UPG URIDINE-5'-DIPHOSPHATE-GLUCOSE HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETSYN UPG URIDINE-5'-MONOPHOSPHATE GLUCOPYRANOSYL-MONOPHOSPHATE HETSYN 2 UPG ESTER FORMUL 2 UPG C15 H24 N2 O17 P2 FORMUL 3 MG MG 2+ FORMUL 4 SO4 O4 S 2- FORMUL 5 HOH *665(H2 O) HELIX 1 1 SER A 9 ALA A 22 1 14 HELIX 2 2 ASN A 25 LYS A 41 1 17 HELIX 3 3 PRO A 48 ILE A 52 5 5 HELIX 4 4 ALA A 60 LEU A 64 5 5 HELIX 5 5 ASP A 69 SER A 75 1 7 HELIX 6 6 GLY A 86 GLY A 90 5 5 HELIX 7 7 ALA A 94 LEU A 97 5 4 HELIX 8 8 PHE A 106 CYS A 121 1 16 HELIX 9 9 SER A 132 TYR A 147 1 16 HELIX 10 10 TYR A 147 GLN A 152 1 6 HELIX 11 11 ASN A 181 TYR A 184 5 4 HELIX 12 12 GLY A 192 SER A 201 1 10 HELIX 13 13 GLY A 202 GLN A 210 1 9 HELIX 14 14 ASP A 228 LYS A 239 1 12 HELIX 15 15 ALA A 286 CYS A 288 5 3 HELIX 16 16 PRO A 289 ALA A 291 5 3 HELIX 17 17 ASP A 292 ASP A 298 1 7 HELIX 18 18 LEU A 314 GLU A 323 1 10 HELIX 19 19 ALA A 355 MET A 362 5 8 HELIX 20 20 PRO A 372 PHE A 376 5 5 HELIX 21 21 THR A 381 SER A 390 1 10 HELIX 22 22 ASP A 405 HIS A 408 5 4 HELIX 23 23 MET A 423 VAL A 431 1 9 SHEET 1 A 7 GLU A 159 MET A 161 0 SHEET 2 A 7 ARG A 126 ASP A 131 1 N LEU A 129 O LEU A 160 SHEET 3 A 7 THR A 76 ASN A 82 1 N VAL A 78 O MET A 128 SHEET 4 A 7 TYR A 214 SER A 218 1 O PHE A 216 N LEU A 79 SHEET 5 A 7 PHE A 304 ARG A 313 -1 O LEU A 310 N VAL A 217 SHEET 6 A 7 PHE A 242 ARG A 248 -1 N GLU A 245 O ASN A 309 SHEET 7 A 7 SER A 367 VAL A 370 1 O ILE A 369 N VAL A 246 SHEET 1 B 2 GLU A 99 LYS A 101 0 SHEET 2 B 2 LYS A 104 THR A 105 -1 O LYS A 104 N VAL A 100 SHEET 1 C 2 VAL A 165 PRO A 166 0 SHEET 2 C 2 TRP A 186 ALA A 187 -1 O ALA A 187 N VAL A 165 SHEET 1 D 3 ILE A 168 LEU A 169 0 SHEET 2 D 3 LYS A 348 GLU A 353 -1 O TYR A 350 N ILE A 168 SHEET 3 D 3 ILE A 333 THR A 338 -1 N LYS A 337 O VAL A 349 SHEET 1 E 2 GLY A 257 VAL A 264 0 SHEET 2 E 2 LYS A 277 GLU A 284 -1 O LYS A 277 N VAL A 264 SHEET 1 F 2 TYR A 393 VAL A 395 0 SHEET 2 F 2 LEU A 401 LEU A 403 -1 O VAL A 402 N VAL A 394 SHEET 1 G 4 VAL A 413 LEU A 416 0 SHEET 2 G 4 CYS A 441 LYS A 447 1 O VAL A 444 N ASP A 415 SHEET 3 G 4 VAL A 457 GLU A 465 1 O ILE A 464 N LYS A 447 SHEET 4 G 4 LYS A 480 ALA A 486 1 O LEU A 481 N THR A 459 SHEET 1 H 2 VAL A 450 GLN A 451 0 SHEET 2 H 2 PHE A 473 VAL A 474 1 O PHE A 473 N GLN A 451 LINK O2A UPG A1001 MG MG A1002 1555 1555 2.86 LINK MG MG A1002 O4 SO4 A1003 1555 1555 2.61 LINK MG MG A1002 O HOH A2549 1555 1555 2.83 SITE 1 AC1 31 LEU A 81 ASN A 82 GLY A 83 GLY A 84 SITE 2 AC1 31 MET A 130 GLN A 162 GLY A 190 HIS A 191 SITE 3 AC1 31 ASN A 219 GLY A 220 GLY A 256 GLY A 257 SITE 4 AC1 31 GLU A 284 PHE A 305 ASN A 306 ASN A 308 SITE 5 AC1 31 PHE A 376 LYS A 380 MG A1002 HOH A2007 SITE 6 AC1 31 HOH A2064 HOH A2103 HOH A2240 HOH A2279 SITE 7 AC1 31 HOH A2498 HOH A2502 HOH A2503 HOH A2541 SITE 8 AC1 31 HOH A2548 HOH A2552 HOH A2585 SITE 1 AC2 4 GLY A 84 UPG A1001 SO4 A1003 HOH A2549 SITE 1 AC3 6 GLY A 84 LEU A 85 GLY A 86 THR A 87 SITE 2 AC3 6 MG A1002 HOH A2547 CRYST1 79.790 89.090 136.490 90.00 90.00 90.00 C 2 2 21 8 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 0.012533 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011225 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007327 0.00000