HEADER TRANSFERASE 30-MAR-07 2YQJ TITLE CRYSTAL STRUCTURE OF URIDINE-DIPHOSPHO-N-ACETYLGLUCOSAMINE TITLE 2 PYROPHOSPHORYLASE FROM CANDIDA ALBICANS, IN THE REACTION-COMPLETED TITLE 3 FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.7.23; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CANDIDA ALBICANS; SOURCE 3 ORGANISM_TAXID: 5476; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS PYROPHOSPHORYLASE, N-ACETYLGLUCOSAMINE, URIDINE-DIPHOSPHO-N- KEYWDS 2 ACETYLGLUCOSAMINE, CANDIDA ALBICANS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.MIKI,D.MARUYAMA,Y.NISHITANI,T.NONAKA,A.KITA REVDAT 6 25-OCT-23 2YQJ 1 REMARK REVDAT 5 10-NOV-21 2YQJ 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2YQJ 1 VERSN REVDAT 3 24-FEB-09 2YQJ 1 VERSN REVDAT 2 19-JUN-07 2YQJ 1 JRNL REVDAT 1 22-MAY-07 2YQJ 0 JRNL AUTH D.MARUYAMA,Y.NISHITANI,T.NONAKA,A.KITA,T.A.FUKAMI,T.MIO, JRNL AUTH 2 H.YAMADA-OKABE,T.YAMADA-OKABE,K.MIKI JRNL TITL CRYSTAL STRUCTURE OF URIDINE-DIPHOSPHO-N-ACETYLGLUCOSAMINE JRNL TITL 2 PYROPHOSPHORYLASE FROM CANDIDA ALBICANS AND CATALYTIC JRNL TITL 3 REACTION MECHANISM JRNL REF J.BIOL.CHEM. V. 282 17221 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17392279 JRNL DOI 10.1074/JBC.M611873200 REMARK 2 REMARK 2 RESOLUTION. 2.31 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) : 2.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1206437.500 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 43546 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) : 0.193 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2164 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.44 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6320 REMARK 3 BIN R VALUE (WORKING SET) : 0.2150 REMARK 3 BIN FREE R VALUE : 0.2850 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 335 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7292 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 100 REMARK 3 SOLVENT ATOMS : 223 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.97000 REMARK 3 B22 (A**2) : -0.09000 REMARK 3 B33 (A**2) : -2.88000 REMARK 3 B12 (A**2) : 3.06000 REMARK 3 B13 (A**2) : 3.39000 REMARK 3 B23 (A**2) : -1.98000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : 0.20 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.28 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : 0.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.750 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.650 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.790 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.690 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 31.63 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : LIGAND4.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : LIGAND4.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE INTENSITY OF THE REFLECTION USED FOR THE REFINEMENT IS MORE REMARK 3 THAN 0 REMARK 3 SIGMA, BUT THAT OF THE UNIQUE REFLECTIONS IN THE TABLE OF THE REMARK 3 STATISTICS OF THE X-RAY CRYSTALLOGRAPHY AT THE ARTICLE IS MORE REMARK 3 THAN 1 SIGMA. THEREFORE, THE NUMBER OF REFLECTIONS IN THE REMARK 3 REFINEMENT REMARK 3 SECTION IS LARGER THAN THAT IN THE DATA COLLECTION. REMARK 4 REMARK 4 2YQJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000027007. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL45XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU JUPITER 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42318 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 (%) : 91.1 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06200 REMARK 200 FOR THE DATA SET : 12.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 79.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.16700 REMARK 200 FOR SHELL : 4.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2YQC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 6000, 0.1M AMMONIUM SULFATE, REMARK 280 5% GLYCEROL, 0.001M N-ACETYLGLUCOSAMINE-1-PHOSPHATE, 0.01M UTP, REMARK 280 0.1M CITRATE, PH 5.7, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 THR A 2 REMARK 465 GLN A 58 REMARK 465 PHE A 59 REMARK 465 SER A 60 REMARK 465 GLN A 61 REMARK 465 THR A 62 REMARK 465 ASN A 63 REMARK 465 SER A 64 REMARK 465 THR A 65 REMARK 465 SER A 66 REMARK 465 GLU A 375 REMARK 465 ASN A 376 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 ILE B 57 REMARK 465 GLN B 58 REMARK 465 PHE B 59 REMARK 465 SER B 60 REMARK 465 GLN B 61 REMARK 465 THR B 62 REMARK 465 ASN B 63 REMARK 465 SER B 64 REMARK 465 THR B 65 REMARK 465 SER B 66 REMARK 465 GLU B 375 REMARK 465 ASN B 376 REMARK 465 GLY B 377 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 VAL A 3 CG1 CG2 REMARK 470 LYS A 4 CG CD CE NZ REMARK 470 GLU A 35 CD OE1 OE2 REMARK 470 GLU A 44 CG CD OE1 OE2 REMARK 470 LYS A 48 CG CD CE NZ REMARK 470 SER A 51 OG REMARK 470 GLU A 54 CG CD OE1 OE2 REMARK 470 GLN A 55 CG CD OE1 NE2 REMARK 470 ILE A 57 CG1 CG2 CD1 REMARK 470 GLU A 75 CD OE1 OE2 REMARK 470 LYS A 85 CG CD CE NZ REMARK 470 GLN A 113 CG CD OE1 NE2 REMARK 470 SER A 119 OG REMARK 470 LYS A 159 CE NZ REMARK 470 LYS A 217 CE NZ REMARK 470 LYS A 235 CD CE NZ REMARK 470 LYS A 276 CD CE NZ REMARK 470 GLN A 315 CG CD OE1 NE2 REMARK 470 GLU A 316 CG CD OE1 OE2 REMARK 470 LYS A 321 CD CE NZ REMARK 470 SER A 326 OG REMARK 470 ASN A 373 CG OD1 ND2 REMARK 470 GLU A 378 CG CD OE1 OE2 REMARK 470 LYS A 381 CG CD CE NZ REMARK 470 GLU A 384 CG CD OE1 OE2 REMARK 470 GLN A 448 CD OE1 NE2 REMARK 470 LYS A 478 CG CD CE NZ REMARK 470 LYS A 481 CG CD CE NZ REMARK 470 LYS B 4 CE NZ REMARK 470 GLU B 44 CG CD OE1 OE2 REMARK 470 GLU B 45 CG CD OE1 OE2 REMARK 470 LYS B 48 CG CD CE NZ REMARK 470 ILE B 50 CG1 CG2 CD1 REMARK 470 SER B 51 OG REMARK 470 GLU B 54 CG CD OE1 OE2 REMARK 470 GLN B 55 CG CD OE1 NE2 REMARK 470 GLU B 75 CG CD OE1 OE2 REMARK 470 LYS B 85 CD CE NZ REMARK 470 LYS B 97 CE NZ REMARK 470 GLN B 113 CG CD OE1 NE2 REMARK 470 THR B 115 OG1 CG2 REMARK 470 SER B 119 OG REMARK 470 SER B 120 OG REMARK 470 LYS B 159 CD CE NZ REMARK 470 ASN B 175 CG OD1 ND2 REMARK 470 ASN B 190 CG OD1 ND2 REMARK 470 LYS B 235 CE NZ REMARK 470 LYS B 249 CE NZ REMARK 470 LYS B 276 CD CE NZ REMARK 470 ARG B 285 CD NE CZ NH1 NH2 REMARK 470 ASN B 290 CG OD1 ND2 REMARK 470 SER B 314 OG REMARK 470 GLN B 315 CG CD OE1 NE2 REMARK 470 GLU B 316 CG CD OE1 OE2 REMARK 470 LYS B 321 CD CE NZ REMARK 470 GLN B 324 CD OE1 NE2 REMARK 470 SER B 326 OG REMARK 470 LYS B 348 CD CE NZ REMARK 470 LYS B 352 CE NZ REMARK 470 LYS B 358 CG CD CE NZ REMARK 470 LYS B 368 CE NZ REMARK 470 ASN B 373 CG OD1 ND2 REMARK 470 GLU B 378 CG CD OE1 OE2 REMARK 470 LYS B 381 CG CD CE NZ REMARK 470 GLU B 384 CD OE1 OE2 REMARK 470 GLN B 448 CD OE1 NE2 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 GLN A 18 42.48 -108.29 REMARK 500 GLU A 45 78.94 44.12 REMARK 500 ASP A 225 21.64 -72.36 REMARK 500 PHE A 379 171.66 -51.30 REMARK 500 TYR A 380 139.43 170.36 REMARK 500 GLN B 18 40.98 -106.49 REMARK 500 GLU B 45 84.90 32.72 REMARK 500 GLN B 55 -82.41 -48.83 REMARK 500 LEU B 117 -72.85 -80.18 REMARK 500 ASP B 225 28.43 -79.16 REMARK 500 SER B 355 46.16 -94.71 REMARK 500 SER B 356 139.07 -179.24 REMARK 500 SER B 371 -162.10 -169.81 REMARK 500 TYR B 380 174.42 178.86 REMARK 500 PRO B 399 -4.83 -59.35 REMARK 500 SER B 418 86.34 -150.82 REMARK 500 ASN B 482 121.32 -35.72 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 A1201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 74 O REMARK 620 2 ASN A 74 OD1 85.1 REMARK 620 3 THR A 77 O 90.1 171.5 REMARK 620 4 THR A 77 OG1 82.3 89.5 82.9 REMARK 620 5 HOH A1445 O 168.0 83.8 100.3 93.1 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 SO4 A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 2102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD1 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD1 B 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YQC RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE APO-LIKE FORM REMARK 900 RELATED ID: 2YQH RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE SUBSTRATE-BINDING FORM REMARK 900 RELATED ID: 2YQS RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN THE PRODUCT-BINDING FORM DBREF 2YQJ A 1 486 UNP O74933 UAP1_CANAL 1 486 DBREF 2YQJ B 1 486 UNP O74933 UAP1_CANAL 1 486 SEQADV 2YQJ LEU A 216 UNP O74933 SER 216 ENGINEERED MUTATION SEQADV 2YQJ LEU B 216 UNP O74933 SER 216 ENGINEERED MUTATION SEQRES 1 A 486 MET THR VAL LYS SER GLN GLN GLN ILE ILE ASP SER PHE SEQRES 2 A 486 LYS GLN ALA ASN GLN ASP GLN LEU PHE GLN TYR TYR ASP SEQRES 3 A 486 SER LEU THR ILE ASP GLN GLN GLN GLU PHE ILE ASP GLN SEQRES 4 A 486 LEU SER THR ILE GLU GLU PRO ALA LYS LEU ILE SER THR SEQRES 5 A 486 VAL GLU GLN ALA ILE GLN PHE SER GLN THR ASN SER THR SEQRES 6 A 486 SER ARG ASN PHE THR GLN LEU PRO ASN GLU GLN THR ALA SEQRES 7 A 486 SER THR LEU ASP LEU SER LYS ASP ILE LEU GLN ASN TRP SEQRES 8 A 486 THR GLU LEU GLY LEU LYS ALA ILE GLY ASN GLY GLU VAL SEQRES 9 A 486 ALA VAL LEU LEU MET ALA GLY GLY GLN GLY THR ARG LEU SEQRES 10 A 486 GLY SER SER ALA PRO LYS GLY CYS PHE ASN ILE GLU LEU SEQRES 11 A 486 PRO SER GLN LYS SER LEU PHE GLN ILE GLN ALA GLU LYS SEQRES 12 A 486 ILE LEU LYS ILE GLU GLN LEU ALA GLN GLN TYR LEU LYS SEQRES 13 A 486 SER THR LYS LYS PRO ILE ILE ASN TRP TYR ILE MET THR SEQRES 14 A 486 SER GLY PRO THR ARG ASN ALA THR GLU SER PHE PHE ILE SEQRES 15 A 486 GLU ASN ASN TYR PHE GLY LEU ASN SER HIS GLN VAL ILE SEQRES 16 A 486 PHE PHE ASN GLN GLY THR LEU PRO CYS PHE ASN LEU GLN SEQRES 17 A 486 GLY ASN LYS ILE LEU LEU GLU LEU LYS ASN SER ILE CYS SEQRES 18 A 486 GLN SER PRO ASP GLY ASN GLY GLY LEU TYR LYS ALA LEU SEQRES 19 A 486 LYS ASP ASN GLY ILE LEU ASP ASP LEU ASN SER LYS GLY SEQRES 20 A 486 ILE LYS HIS ILE HIS MET TYR CYS VAL ASP ASN CYS LEU SEQRES 21 A 486 VAL LYS VAL ALA ASP PRO ILE PHE ILE GLY PHE ALA ILE SEQRES 22 A 486 ALA LYS LYS PHE ASP LEU ALA THR LYS VAL VAL ARG LYS SEQRES 23 A 486 ARG ASP ALA ASN GLU SER VAL GLY LEU ILE VAL LEU ASP SEQRES 24 A 486 GLN ASP ASN GLN LYS PRO CYS VAL ILE GLU TYR SER GLU SEQRES 25 A 486 ILE SER GLN GLU LEU ALA ASN LYS LYS ASP PRO GLN ASP SEQRES 26 A 486 SER SER LYS LEU PHE LEU ARG ALA ALA ASN ILE VAL ASN SEQRES 27 A 486 HIS TYR TYR SER VAL GLU PHE LEU ASN LYS MET ILE PRO SEQRES 28 A 486 LYS TRP ILE SER SER GLN LYS TYR LEU PRO PHE HIS ILE SEQRES 29 A 486 ALA LYS LYS LYS ILE PRO SER LEU ASN LEU GLU ASN GLY SEQRES 30 A 486 GLU PHE TYR LYS PRO THR GLU PRO ASN GLY ILE LYS LEU SEQRES 31 A 486 GLU GLN PHE ILE PHE ASP VAL PHE PRO SER VAL GLU LEU SEQRES 32 A 486 ASN LYS PHE GLY CYS LEU GLU VAL ASP ARG LEU ASP GLU SEQRES 33 A 486 PHE SER PRO LEU LYS ASN ALA ASP GLY ALA LYS ASN ASP SEQRES 34 A 486 THR PRO THR THR CYS ARG ASN HIS TYR LEU GLU ARG SER SEQRES 35 A 486 SER LYS TRP VAL ILE GLN ASN GLY GLY VAL ILE ASP ASN SEQRES 36 A 486 GLN GLY LEU VAL GLU VAL ASP SER LYS THR SER TYR GLY SEQRES 37 A 486 GLY GLU GLY LEU GLU PHE VAL ASN GLY LYS HIS PHE LYS SEQRES 38 A 486 ASN GLY ASP ILE ILE SEQRES 1 B 486 MET THR VAL LYS SER GLN GLN GLN ILE ILE ASP SER PHE SEQRES 2 B 486 LYS GLN ALA ASN GLN ASP GLN LEU PHE GLN TYR TYR ASP SEQRES 3 B 486 SER LEU THR ILE ASP GLN GLN GLN GLU PHE ILE ASP GLN SEQRES 4 B 486 LEU SER THR ILE GLU GLU PRO ALA LYS LEU ILE SER THR SEQRES 5 B 486 VAL GLU GLN ALA ILE GLN PHE SER GLN THR ASN SER THR SEQRES 6 B 486 SER ARG ASN PHE THR GLN LEU PRO ASN GLU GLN THR ALA SEQRES 7 B 486 SER THR LEU ASP LEU SER LYS ASP ILE LEU GLN ASN TRP SEQRES 8 B 486 THR GLU LEU GLY LEU LYS ALA ILE GLY ASN GLY GLU VAL SEQRES 9 B 486 ALA VAL LEU LEU MET ALA GLY GLY GLN GLY THR ARG LEU SEQRES 10 B 486 GLY SER SER ALA PRO LYS GLY CYS PHE ASN ILE GLU LEU SEQRES 11 B 486 PRO SER GLN LYS SER LEU PHE GLN ILE GLN ALA GLU LYS SEQRES 12 B 486 ILE LEU LYS ILE GLU GLN LEU ALA GLN GLN TYR LEU LYS SEQRES 13 B 486 SER THR LYS LYS PRO ILE ILE ASN TRP TYR ILE MET THR SEQRES 14 B 486 SER GLY PRO THR ARG ASN ALA THR GLU SER PHE PHE ILE SEQRES 15 B 486 GLU ASN ASN TYR PHE GLY LEU ASN SER HIS GLN VAL ILE SEQRES 16 B 486 PHE PHE ASN GLN GLY THR LEU PRO CYS PHE ASN LEU GLN SEQRES 17 B 486 GLY ASN LYS ILE LEU LEU GLU LEU LYS ASN SER ILE CYS SEQRES 18 B 486 GLN SER PRO ASP GLY ASN GLY GLY LEU TYR LYS ALA LEU SEQRES 19 B 486 LYS ASP ASN GLY ILE LEU ASP ASP LEU ASN SER LYS GLY SEQRES 20 B 486 ILE LYS HIS ILE HIS MET TYR CYS VAL ASP ASN CYS LEU SEQRES 21 B 486 VAL LYS VAL ALA ASP PRO ILE PHE ILE GLY PHE ALA ILE SEQRES 22 B 486 ALA LYS LYS PHE ASP LEU ALA THR LYS VAL VAL ARG LYS SEQRES 23 B 486 ARG ASP ALA ASN GLU SER VAL GLY LEU ILE VAL LEU ASP SEQRES 24 B 486 GLN ASP ASN GLN LYS PRO CYS VAL ILE GLU TYR SER GLU SEQRES 25 B 486 ILE SER GLN GLU LEU ALA ASN LYS LYS ASP PRO GLN ASP SEQRES 26 B 486 SER SER LYS LEU PHE LEU ARG ALA ALA ASN ILE VAL ASN SEQRES 27 B 486 HIS TYR TYR SER VAL GLU PHE LEU ASN LYS MET ILE PRO SEQRES 28 B 486 LYS TRP ILE SER SER GLN LYS TYR LEU PRO PHE HIS ILE SEQRES 29 B 486 ALA LYS LYS LYS ILE PRO SER LEU ASN LEU GLU ASN GLY SEQRES 30 B 486 GLU PHE TYR LYS PRO THR GLU PRO ASN GLY ILE LYS LEU SEQRES 31 B 486 GLU GLN PHE ILE PHE ASP VAL PHE PRO SER VAL GLU LEU SEQRES 32 B 486 ASN LYS PHE GLY CYS LEU GLU VAL ASP ARG LEU ASP GLU SEQRES 33 B 486 PHE SER PRO LEU LYS ASN ALA ASP GLY ALA LYS ASN ASP SEQRES 34 B 486 THR PRO THR THR CYS ARG ASN HIS TYR LEU GLU ARG SER SEQRES 35 B 486 SER LYS TRP VAL ILE GLN ASN GLY GLY VAL ILE ASP ASN SEQRES 36 B 486 GLN GLY LEU VAL GLU VAL ASP SER LYS THR SER TYR GLY SEQRES 37 B 486 GLY GLU GLY LEU GLU PHE VAL ASN GLY LYS HIS PHE LYS SEQRES 38 B 486 ASN GLY ASP ILE ILE HET SO4 A1101 5 HET SO4 A1102 5 HET MG A1201 1 HET UD1 A1001 39 HET GOL A1301 6 HET SO4 B2102 5 HET UD1 B2001 39 HETNAM SO4 SULFATE ION HETNAM MG MAGNESIUM ION HETNAM UD1 URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 SO4 3(O4 S 2-) FORMUL 5 MG MG 2+ FORMUL 6 UD1 2(C17 H27 N3 O17 P2) FORMUL 7 GOL C3 H8 O3 FORMUL 10 HOH *223(H2 O) HELIX 1 1 SER A 5 ALA A 16 1 12 HELIX 2 2 GLN A 18 GLN A 23 5 6 HELIX 3 3 TYR A 24 LEU A 28 5 5 HELIX 4 4 THR A 29 SER A 41 1 13 HELIX 5 5 GLU A 45 ILE A 57 1 13 HELIX 6 6 PRO A 73 GLU A 75 5 3 HELIX 7 7 SER A 84 ASN A 101 1 18 HELIX 8 8 GLY A 114 GLY A 118 5 5 HELIX 9 9 PRO A 122 PHE A 126 5 5 HELIX 10 10 SER A 135 LYS A 156 1 22 HELIX 11 11 THR A 173 ASN A 184 1 12 HELIX 12 12 ASN A 185 LEU A 189 5 5 HELIX 13 13 ASN A 190 HIS A 192 5 3 HELIX 14 14 GLY A 226 GLY A 228 5 3 HELIX 15 15 GLY A 229 ASN A 237 1 9 HELIX 16 16 GLY A 238 LYS A 246 1 9 HELIX 17 17 ASP A 265 LYS A 276 1 12 HELIX 18 18 SER A 314 ASN A 319 1 6 HELIX 19 19 VAL A 343 ILE A 354 1 12 HELIX 20 20 PHE A 393 VAL A 401 5 9 HELIX 21 21 GLU A 402 ASN A 404 5 3 HELIX 22 22 ASP A 412 PHE A 417 1 6 HELIX 23 23 THR A 430 ASN A 449 1 20 HELIX 24 24 LEU A 472 ASN A 476 5 5 HELIX 25 25 SER B 5 ALA B 16 1 12 HELIX 26 26 GLN B 18 GLN B 23 5 6 HELIX 27 27 TYR B 24 LEU B 28 5 5 HELIX 28 28 THR B 29 SER B 41 1 13 HELIX 29 29 GLU B 45 ALA B 56 1 12 HELIX 30 30 PRO B 73 GLU B 75 5 3 HELIX 31 31 SER B 84 ASN B 101 1 18 HELIX 32 32 PRO B 122 PHE B 126 5 5 HELIX 33 33 SER B 135 LYS B 156 1 22 HELIX 34 34 SER B 170 ASN B 184 1 15 HELIX 35 35 ASN B 185 LEU B 189 5 5 HELIX 36 36 ASN B 190 HIS B 192 5 3 HELIX 37 37 GLY B 226 GLY B 228 5 3 HELIX 38 38 GLY B 229 ASN B 237 1 9 HELIX 39 39 GLY B 238 LYS B 246 1 9 HELIX 40 40 ASP B 265 LYS B 276 1 12 HELIX 41 41 SER B 314 LYS B 320 1 7 HELIX 42 42 VAL B 343 SER B 355 1 13 HELIX 43 43 PHE B 393 VAL B 401 5 9 HELIX 44 44 GLU B 402 ASN B 404 5 3 HELIX 45 45 ASP B 412 PHE B 417 1 6 HELIX 46 46 THR B 430 ASN B 449 1 20 HELIX 47 47 ASN B 455 GLY B 457 5 3 HELIX 48 48 LEU B 472 ASN B 476 5 5 SHEET 1 A 3 PHE A 69 THR A 70 0 SHEET 2 A 3 LEU A 295 ASP A 299 -1 O LEU A 298 N THR A 70 SHEET 3 A 3 LYS A 304 ILE A 308 -1 O LYS A 304 N ASP A 299 SHEET 1 B 8 THR A 77 SER A 79 0 SHEET 2 B 8 PHE A 406 GLU A 410 1 O GLU A 410 N ALA A 78 SHEET 3 B 8 LEU A 279 ARG A 285 1 N THR A 281 O LEU A 409 SHEET 4 B 8 ALA A 333 SER A 342 -1 O TYR A 340 N ALA A 280 SHEET 5 B 8 HIS A 250 CYS A 255 -1 N MET A 253 O HIS A 339 SHEET 6 B 8 VAL A 104 ALA A 110 1 N LEU A 107 O HIS A 252 SHEET 7 B 8 ASN A 164 THR A 169 1 O TYR A 166 N VAL A 106 SHEET 8 B 8 VAL A 194 ASN A 198 1 O ILE A 195 N TRP A 165 SHEET 1 C 2 THR A 201 PRO A 203 0 SHEET 2 C 2 GLN A 222 PRO A 224 -1 O SER A 223 N LEU A 202 SHEET 1 D 3 PHE A 205 ASN A 206 0 SHEET 2 D 3 GLY A 387 GLU A 391 -1 O ILE A 388 N PHE A 205 SHEET 3 D 3 HIS A 363 LYS A 367 -1 N ALA A 365 O LYS A 389 SHEET 1 E 2 LEU A 214 LEU A 216 0 SHEET 2 E 2 SER A 219 ILE A 220 -1 O SER A 219 N GLU A 215 SHEET 1 F 2 LYS A 321 ASP A 322 0 SHEET 2 F 2 ASP A 325 LEU A 329 -1 O LYS A 328 N ASP A 322 SHEET 1 G 2 VAL A 452 ILE A 453 0 SHEET 2 G 2 HIS A 479 PHE A 480 1 O PHE A 480 N VAL A 452 SHEET 1 H 3 PHE B 69 THR B 70 0 SHEET 2 H 3 LEU B 295 ASP B 299 -1 O LEU B 298 N THR B 70 SHEET 3 H 3 LYS B 304 ILE B 308 -1 O CYS B 306 N VAL B 297 SHEET 1 I 8 THR B 77 SER B 79 0 SHEET 2 I 8 PHE B 406 GLU B 410 1 O GLU B 410 N ALA B 78 SHEET 3 I 8 LEU B 279 ARG B 285 1 N LEU B 279 O GLY B 407 SHEET 4 I 8 ALA B 333 SER B 342 -1 O TYR B 340 N ALA B 280 SHEET 5 I 8 HIS B 250 CYS B 255 -1 N MET B 253 O HIS B 339 SHEET 6 I 8 VAL B 104 MET B 109 1 N LEU B 107 O HIS B 252 SHEET 7 I 8 ASN B 164 THR B 169 1 O TYR B 166 N VAL B 106 SHEET 8 I 8 VAL B 194 ASN B 198 1 O ILE B 195 N TRP B 165 SHEET 1 J 2 THR B 201 PRO B 203 0 SHEET 2 J 2 GLN B 222 PRO B 224 -1 O SER B 223 N LEU B 202 SHEET 1 K 2 LEU B 214 LEU B 216 0 SHEET 2 K 2 SER B 219 ILE B 220 -1 O SER B 219 N GLU B 215 SHEET 1 L 2 LYS B 321 ASP B 322 0 SHEET 2 L 2 ASP B 325 LEU B 329 -1 O LYS B 328 N ASP B 322 SHEET 1 M 2 HIS B 363 LYS B 367 0 SHEET 2 M 2 GLY B 387 GLU B 391 -1 O GLY B 387 N LYS B 367 SHEET 1 N 2 SER B 371 LEU B 372 0 SHEET 2 N 2 PHE B 379 TYR B 380 -1 O TYR B 380 N SER B 371 SHEET 1 O 2 VAL B 452 ILE B 453 0 SHEET 2 O 2 HIS B 479 PHE B 480 1 O PHE B 480 N VAL B 452 SSBOND 1 CYS A 204 CYS A 221 1555 1555 2.90 SSBOND 2 CYS B 204 CYS B 221 1555 1555 2.97 LINK O ASN A 74 MG MG A1201 1555 1555 2.30 LINK OD1 ASN A 74 MG MG A1201 1555 1555 2.85 LINK O THR A 77 MG MG A1201 1555 1555 2.39 LINK OG1 THR A 77 MG MG A1201 1555 1555 2.46 LINK MG MG A1201 O HOH A1445 1555 1555 2.40 SITE 1 AC1 4 GLY A 114 THR A 115 ARG A 116 UD1 A1001 SITE 1 AC2 4 ARG A 285 LYS A 328 ARG A 332 HOH A1415 SITE 1 AC3 3 ASN A 74 THR A 77 HOH A1445 SITE 1 AC4 2 LYS B 328 ARG B 332 SITE 1 AC5 28 MET A 109 GLY A 111 GLY A 112 ARG A 116 SITE 2 AC5 28 MET A 168 GLN A 199 PRO A 224 GLY A 226 SITE 3 AC5 28 ASN A 227 CYS A 255 VAL A 256 VAL A 293 SITE 4 AC5 28 GLY A 294 GLU A 309 TYR A 310 ASN A 335 SITE 5 AC5 28 VAL A 337 PHE A 393 PHE A 395 PHE A 417 SITE 6 AC5 28 LYS A 421 SO4 A1101 HOH A1366 HOH A1386 SITE 7 AC5 28 HOH A1389 HOH A1402 HOH A1404 HOH A1439 SITE 1 AC6 26 MET B 109 GLY B 111 GLY B 112 ARG B 116 SITE 2 AC6 26 MET B 168 GLN B 199 PRO B 224 GLY B 226 SITE 3 AC6 26 ASN B 227 CYS B 255 VAL B 256 ASP B 257 SITE 4 AC6 26 VAL B 293 GLY B 294 GLU B 309 TYR B 310 SITE 5 AC6 26 ASN B 335 VAL B 337 PHE B 393 PHE B 395 SITE 6 AC6 26 PHE B 417 LYS B 421 HOH B2114 HOH B2119 SITE 7 AC6 26 HOH B2171 HOH B2175 SITE 1 AC7 6 PHE A 196 ASN A 237 HOH A1313 HOH A1377 SITE 2 AC7 6 GLN B 6 HOH B2174 CRYST1 47.556 61.975 90.249 90.07 98.11 92.93 P 1 2 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 0.021028 0.001077 0.003005 0.00000 SCALE2 0.000000 0.016157 0.000138 0.00000 SCALE3 0.000000 0.000000 0.011193 0.00000