HEADER TRANSFERASE 30-AUG-01 1JVG TITLE CRYSTAL STRUCTURE OF HUMAN AGX2 COMPLEXED WITH UDPGALNAC COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLCNAC1P URIDYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE; COMPND 5 EC: 2.7.7.23; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UAP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: XL1BLUE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRU277 KEYWDS NUCLEOTIDYLTRANSFERASE, ALTERNATIVE SPLICING EXPDTA X-RAY DIFFRACTION AUTHOR C.PENEFF,Y.BOURNE REVDAT 2 24-FEB-09 1JVG 1 VERSN REVDAT 1 30-AUG-02 1JVG 0 JRNL AUTH C.PENEFF,P.FERRARI,V.CHARRIER,Y.TABURET,C.MONNIER, JRNL AUTH 2 V.ZAMBONI,J.WINTER,M.HARNOIS,F.FASSY,Y.BOURNE JRNL TITL CRYSTAL STRUCTURES OF TWO HUMAN PYROPHOSPHORYLASE JRNL TITL 2 ISOFORMS IN COMPLEXES WITH UDPGLC(GAL)NAC: ROLE OF JRNL TITL 3 THE ALTERNATIVELY SPLICED INSERT IN THE ENZYME JRNL TITL 4 OLIGOMERIC ASSEMBLY AND ACTIVE SITE ARCHITECTURE. JRNL REF EMBO J. V. 20 6191 2001 JRNL REFN ISSN 0261-4189 JRNL PMID 11707391 JRNL DOI 10.1093/EMBOJ/20.22.6191 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2101645.630 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 49655 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) : 0.201 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1986 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) (%) : 98.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7881 REMARK 3 BIN R VALUE (WORKING SET) : 0.2300 REMARK 3 BIN FREE R VALUE : 0.3020 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 331 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.017 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7654 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 78 REMARK 3 SOLVENT ATOMS : 308 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.17000 REMARK 3 B22 (A**2) : -0.64000 REMARK 3 B33 (A**2) : 1.81000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -4.47000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM SIGMAA (A) : 0.19 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) : 0.33 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.32 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.40 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.56 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) : 1.530 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.510 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.290 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.420 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 43.19 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 : UD1-GAL.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : UD1.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1JVG COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-SEP-01. REMARK 100 THE RCSB ID CODE IS RCSB014229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9464 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50606 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.420 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06200 REMARK 200 FOR THE DATA SET : 8.1931 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 (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.26000 REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: RIGID BODY REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1JVD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG600, IMIDAZOLE/MALATE, PH 5.7, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 35.89250 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASN A 57 REMARK 465 GLN A 58 REMARK 465 SER A 59 REMARK 465 SER A 60 REMARK 465 HIS A 61 REMARK 465 GLN A 62 REMARK 465 LYS A 63 REMARK 465 ASN A 64 REMARK 465 VAL A 65 REMARK 465 ALA A 455 REMARK 465 THR A 456 REMARK 465 ASN A 457 REMARK 465 GLY A 458 REMARK 465 LYS A 459 REMARK 465 SER A 460 REMARK 465 GLU A 461 REMARK 465 THR A 462 REMARK 465 ILE A 463 REMARK 465 THR A 464 REMARK 465 ALA A 465 REMARK 465 ASP A 466 REMARK 465 VAL A 467 REMARK 465 ASN A 468 REMARK 465 HIS A 469 REMARK 465 ASN A 470 REMARK 465 LEU A 471 REMARK 465 LYS A 472 REMARK 465 ASP A 473 REMARK 465 ALA A 474 REMARK 465 ASN A 475 REMARK 465 ASP A 476 REMARK 465 VAL A 518 REMARK 465 LYS A 519 REMARK 465 ASN A 520 REMARK 465 GLY A 521 REMARK 465 ILE A 522 REMARK 465 MET B 1 REMARK 465 ASN B 57 REMARK 465 GLN B 58 REMARK 465 SER B 59 REMARK 465 SER B 60 REMARK 465 HIS B 61 REMARK 465 GLN B 62 REMARK 465 LYS B 63 REMARK 465 GLY B 113 REMARK 465 THR B 114 REMARK 465 ARG B 115 REMARK 465 LEU B 116 REMARK 465 GLY B 117 REMARK 465 VAL B 118 REMARK 465 SER B 454 REMARK 465 ALA B 455 REMARK 465 THR B 456 REMARK 465 ASN B 457 REMARK 465 GLY B 458 REMARK 465 LYS B 459 REMARK 465 SER B 460 REMARK 465 GLU B 461 REMARK 465 THR B 462 REMARK 465 ILE B 463 REMARK 465 THR B 464 REMARK 465 ALA B 465 REMARK 465 ASP B 466 REMARK 465 VAL B 467 REMARK 465 ASN B 468 REMARK 465 HIS B 469 REMARK 465 ASN B 470 REMARK 465 LEU B 471 REMARK 465 LYS B 472 REMARK 465 ASP B 473 REMARK 465 ALA B 474 REMARK 465 ASN B 475 REMARK 465 ASP B 476 REMARK 465 VAL B 518 REMARK 465 LYS B 519 REMARK 465 ASN B 520 REMARK 465 GLY B 521 REMARK 465 ILE B 522 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 ARG A 74 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 84 CG CD OE1 NE2 REMARK 470 THR A 114 OG1 CG2 REMARK 470 ARG A 115 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 12 CG CD CE NZ REMARK 470 ARG B 68 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 74 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 85 CG OD1 OD2 REMARK 470 GLN B 112 CB CG CD OE1 NE2 REMARK 470 ASP B 410 CG OD1 OD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 142 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 453 CB - CA - C ANGL. DEV. = -12.5 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 ALA A 67 -20.09 71.07 REMARK 500 PHE A 184 23.15 46.81 REMARK 500 CYS A 293 -163.66 -167.87 REMARK 500 VAL A 344 -64.03 -134.62 REMARK 500 ASP A 410 88.24 169.09 REMARK 500 ASN A 413 3.92 -154.97 REMARK 500 LYS A 415 -169.82 -117.12 REMARK 500 ALA A 490 32.37 -142.02 REMARK 500 LEU B 19 54.06 -117.04 REMARK 500 THR B 81 -60.77 -93.07 REMARK 500 GLN B 84 -9.13 -59.91 REMARK 500 PRO B 121 125.58 -38.76 REMARK 500 ASP B 221 32.32 -86.28 REMARK 500 VAL B 344 -67.74 -157.25 REMARK 500 GLU B 346 -56.00 -24.76 REMARK 500 ASP B 362 -176.44 -62.89 REMARK 500 SER B 404 85.85 -154.49 REMARK 500 GLN B 412 -74.22 -53.96 REMARK 500 ILE B 479 92.79 -68.94 REMARK 500 GLU B 511 8.07 -67.20 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 B1994 DISTANCE = 5.20 ANGSTROMS REMARK 525 HOH B2001 DISTANCE = 5.57 ANGSTROMS REMARK 525 HOH A2032 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A2045 DISTANCE = 5.47 ANGSTROMS REMARK 525 HOH A2062 DISTANCE = 5.79 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD2 A 1901 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD2 B 1902 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JV1 RELATED DB: PDB REMARK 900 STRUCTURE OF AGX1 COMPLEXED WITH UDPGLCNAC REMARK 900 RELATED ID: 1JV3 RELATED DB: PDB REMARK 900 STRUCTURE OF AGX1 COMPLEXED WITH UDPGALNAC REMARK 900 RELATED ID: 1JVD RELATED DB: PDB REMARK 900 STRUCTURE OF AGX2 COMPLEXED WITH UDPGLCNAC DBREF 1JVG A 1 522 UNP Q16222 UAP1_HUMAN 1 522 DBREF 1JVG B 1 522 UNP Q16222 UAP1_HUMAN 1 522 SEQADV 1JVG GLY A 445 UNP Q16222 SER 445 SEE REMARK 999 SEQADV 1JVG SER A 454 UNP Q16222 GLN 454 SEE REMARK 999 SEQADV 1JVG GLY B 445 UNP Q16222 SER 445 SEE REMARK 999 SEQADV 1JVG SER B 454 UNP Q16222 GLN 454 SEE REMARK 999 SEQRES 1 A 522 MET ASN ILE ASN ASP LEU LYS LEU THR LEU SER LYS ALA SEQRES 2 A 522 GLY GLN GLU HIS LEU LEU ARG PHE TRP ASN GLU LEU GLU SEQRES 3 A 522 GLU ALA GLN GLN VAL GLU LEU TYR ALA GLU LEU GLN ALA SEQRES 4 A 522 MET ASN PHE GLU GLU LEU ASN PHE PHE PHE GLN LYS ALA SEQRES 5 A 522 ILE GLU GLY PHE ASN GLN SER SER HIS GLN LYS ASN VAL SEQRES 6 A 522 ASP ALA ARG MET GLU PRO VAL PRO ARG GLU VAL LEU GLY SEQRES 7 A 522 SER ALA THR ARG ASP GLN ASP GLN LEU GLN ALA TRP GLU SEQRES 8 A 522 SER GLU GLY LEU PHE GLN ILE SER GLN ASN LYS VAL ALA SEQRES 9 A 522 VAL LEU LEU LEU ALA GLY GLY GLN GLY THR ARG LEU GLY SEQRES 10 A 522 VAL ALA TYR PRO LYS GLY MET TYR ASP VAL GLY LEU PRO SEQRES 11 A 522 SER ARG LYS THR LEU PHE GLN ILE GLN ALA GLU ARG ILE SEQRES 12 A 522 LEU LYS LEU GLN GLN VAL ALA GLU LYS TYR TYR GLY ASN SEQRES 13 A 522 LYS CYS ILE ILE PRO TRP TYR ILE MET THR SER GLY ARG SEQRES 14 A 522 THR MET GLU SER THR LYS GLU PHE PHE THR LYS HIS LYS SEQRES 15 A 522 TYR PHE GLY LEU LYS LYS GLU ASN VAL ILE PHE PHE GLN SEQRES 16 A 522 GLN GLY MET LEU PRO ALA MET SER PHE ASP GLY LYS ILE SEQRES 17 A 522 ILE LEU GLU GLU LYS ASN LYS VAL SER MET ALA PRO ASP SEQRES 18 A 522 GLY ASN GLY GLY LEU TYR ARG ALA LEU ALA ALA GLN ASN SEQRES 19 A 522 ILE VAL GLU ASP MET GLU GLN ARG GLY ILE TRP SER ILE SEQRES 20 A 522 HIS VAL TYR CYS VAL ASP ASN ILE LEU VAL LYS VAL ALA SEQRES 21 A 522 ASP PRO ARG PHE ILE GLY PHE CYS ILE GLN LYS GLY ALA SEQRES 22 A 522 ASP CYS GLY ALA LYS VAL VAL GLU LYS THR ASN PRO THR SEQRES 23 A 522 GLU PRO VAL GLY VAL VAL CYS ARG VAL ASP GLY VAL TYR SEQRES 24 A 522 GLN VAL VAL GLU TYR SER GLU ILE SER LEU ALA THR ALA SEQRES 25 A 522 GLN LYS ARG SER SER ASP GLY ARG LEU LEU PHE ASN ALA SEQRES 26 A 522 GLY ASN ILE ALA ASN HIS PHE PHE THR VAL PRO PHE LEU SEQRES 27 A 522 ARG ASP VAL VAL ASN VAL TYR GLU PRO GLN LEU GLN HIS SEQRES 28 A 522 HIS VAL ALA GLN LYS LYS ILE PRO TYR VAL ASP THR GLN SEQRES 29 A 522 GLY GLN LEU ILE LYS PRO ASP LYS PRO ASN GLY ILE LYS SEQRES 30 A 522 MET GLU LYS PHE VAL PHE ASP ILE PHE GLN PHE ALA LYS SEQRES 31 A 522 LYS PHE VAL VAL TYR GLU VAL LEU ARG GLU ASP GLU PHE SEQRES 32 A 522 SER PRO LEU LYS ASN ALA ASP SER GLN ASN GLY LYS ASP SEQRES 33 A 522 ASN PRO THR THR ALA ARG HIS ALA LEU MET SER LEU HIS SEQRES 34 A 522 HIS CYS TRP VAL LEU ASN ALA GLY GLY HIS PHE ILE ASP SEQRES 35 A 522 GLU ASN GLY SER ARG LEU PRO ALA ILE PRO ARG SER ALA SEQRES 36 A 522 THR ASN GLY LYS SER GLU THR ILE THR ALA ASP VAL ASN SEQRES 37 A 522 HIS ASN LEU LYS ASP ALA ASN ASP VAL PRO ILE GLN CYS SEQRES 38 A 522 GLU ILE SER PRO LEU ILE SER TYR ALA GLY GLU GLY LEU SEQRES 39 A 522 GLU SER TYR VAL ALA ASP LYS GLU PHE HIS ALA PRO LEU SEQRES 40 A 522 ILE ILE ASP GLU ASN GLY VAL HIS GLU LEU VAL LYS ASN SEQRES 41 A 522 GLY ILE SEQRES 1 B 522 MET ASN ILE ASN ASP LEU LYS LEU THR LEU SER LYS ALA SEQRES 2 B 522 GLY GLN GLU HIS LEU LEU ARG PHE TRP ASN GLU LEU GLU SEQRES 3 B 522 GLU ALA GLN GLN VAL GLU LEU TYR ALA GLU LEU GLN ALA SEQRES 4 B 522 MET ASN PHE GLU GLU LEU ASN PHE PHE PHE GLN LYS ALA SEQRES 5 B 522 ILE GLU GLY PHE ASN GLN SER SER HIS GLN LYS ASN VAL SEQRES 6 B 522 ASP ALA ARG MET GLU PRO VAL PRO ARG GLU VAL LEU GLY SEQRES 7 B 522 SER ALA THR ARG ASP GLN ASP GLN LEU GLN ALA TRP GLU SEQRES 8 B 522 SER GLU GLY LEU PHE GLN ILE SER GLN ASN LYS VAL ALA SEQRES 9 B 522 VAL LEU LEU LEU ALA GLY GLY GLN GLY THR ARG LEU GLY SEQRES 10 B 522 VAL ALA TYR PRO LYS GLY MET TYR ASP VAL GLY LEU PRO SEQRES 11 B 522 SER ARG LYS THR LEU PHE GLN ILE GLN ALA GLU ARG ILE SEQRES 12 B 522 LEU LYS LEU GLN GLN VAL ALA GLU LYS TYR TYR GLY ASN SEQRES 13 B 522 LYS CYS ILE ILE PRO TRP TYR ILE MET THR SER GLY ARG SEQRES 14 B 522 THR MET GLU SER THR LYS GLU PHE PHE THR LYS HIS LYS SEQRES 15 B 522 TYR PHE GLY LEU LYS LYS GLU ASN VAL ILE PHE PHE GLN SEQRES 16 B 522 GLN GLY MET LEU PRO ALA MET SER PHE ASP GLY LYS ILE SEQRES 17 B 522 ILE LEU GLU GLU LYS ASN LYS VAL SER MET ALA PRO ASP SEQRES 18 B 522 GLY ASN GLY GLY LEU TYR ARG ALA LEU ALA ALA GLN ASN SEQRES 19 B 522 ILE VAL GLU ASP MET GLU GLN ARG GLY ILE TRP SER ILE SEQRES 20 B 522 HIS VAL TYR CYS VAL ASP ASN ILE LEU VAL LYS VAL ALA SEQRES 21 B 522 ASP PRO ARG PHE ILE GLY PHE CYS ILE GLN LYS GLY ALA SEQRES 22 B 522 ASP CYS GLY ALA LYS VAL VAL GLU LYS THR ASN PRO THR SEQRES 23 B 522 GLU PRO VAL GLY VAL VAL CYS ARG VAL ASP GLY VAL TYR SEQRES 24 B 522 GLN VAL VAL GLU TYR SER GLU ILE SER LEU ALA THR ALA SEQRES 25 B 522 GLN LYS ARG SER SER ASP GLY ARG LEU LEU PHE ASN ALA SEQRES 26 B 522 GLY ASN ILE ALA ASN HIS PHE PHE THR VAL PRO PHE LEU SEQRES 27 B 522 ARG ASP VAL VAL ASN VAL TYR GLU PRO GLN LEU GLN HIS SEQRES 28 B 522 HIS VAL ALA GLN LYS LYS ILE PRO TYR VAL ASP THR GLN SEQRES 29 B 522 GLY GLN LEU ILE LYS PRO ASP LYS PRO ASN GLY ILE LYS SEQRES 30 B 522 MET GLU LYS PHE VAL PHE ASP ILE PHE GLN PHE ALA LYS SEQRES 31 B 522 LYS PHE VAL VAL TYR GLU VAL LEU ARG GLU ASP GLU PHE SEQRES 32 B 522 SER PRO LEU LYS ASN ALA ASP SER GLN ASN GLY LYS ASP SEQRES 33 B 522 ASN PRO THR THR ALA ARG HIS ALA LEU MET SER LEU HIS SEQRES 34 B 522 HIS CYS TRP VAL LEU ASN ALA GLY GLY HIS PHE ILE ASP SEQRES 35 B 522 GLU ASN GLY SER ARG LEU PRO ALA ILE PRO ARG SER ALA SEQRES 36 B 522 THR ASN GLY LYS SER GLU THR ILE THR ALA ASP VAL ASN SEQRES 37 B 522 HIS ASN LEU LYS ASP ALA ASN ASP VAL PRO ILE GLN CYS SEQRES 38 B 522 GLU ILE SER PRO LEU ILE SER TYR ALA GLY GLU GLY LEU SEQRES 39 B 522 GLU SER TYR VAL ALA ASP LYS GLU PHE HIS ALA PRO LEU SEQRES 40 B 522 ILE ILE ASP GLU ASN GLY VAL HIS GLU LEU VAL LYS ASN SEQRES 41 B 522 GLY ILE HET UD2 A1901 39 HET UD2 B1902 39 HETNAM UD2 URIDINE-DIPHOSPHATE-N-ACETYLGALACTOSAMINE HETSYN UD2 (2R,3R,4R,5R,6R)-3-(ACETYLAMINO)-4,5-DIHYDROXY-6- HETSYN 2 UD2 (HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-YL [(2R,3S,4R, HETSYN 3 UD2 5R)-5-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)-3,4- HETSYN 4 UD2 DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN HETSYN 5 UD2 DIPHOSPHATE FORMUL 3 UD2 2(C17 H27 N3 O17 P2) FORMUL 5 HOH *308(H2 O) HELIX 1 1 ASN A 2 ALA A 13 1 12 HELIX 2 2 GLN A 15 ARG A 20 5 6 HELIX 3 3 PHE A 21 LEU A 25 5 5 HELIX 4 4 GLU A 26 ALA A 39 1 14 HELIX 5 5 ASN A 41 GLY A 55 1 15 HELIX 6 6 PRO A 73 GLU A 75 5 3 HELIX 7 7 ASP A 83 ASP A 85 5 3 HELIX 8 8 GLN A 86 GLN A 100 1 15 HELIX 9 9 GLY A 113 GLY A 117 5 5 HELIX 10 10 PRO A 121 TYR A 125 5 5 HELIX 11 11 THR A 134 TYR A 154 1 21 HELIX 12 12 THR A 170 HIS A 181 1 12 HELIX 13 13 LYS A 182 LEU A 186 5 5 HELIX 14 14 LYS A 187 GLU A 189 5 3 HELIX 15 15 GLY A 222 GLY A 224 5 3 HELIX 16 16 GLY A 225 GLN A 233 1 9 HELIX 17 17 ASN A 234 ARG A 242 1 9 HELIX 18 18 ASP A 261 LYS A 271 1 11 HELIX 19 19 GLU A 303 ILE A 307 5 5 HELIX 20 20 SER A 308 LYS A 314 1 7 HELIX 21 21 VAL A 335 VAL A 344 1 10 HELIX 22 22 TYR A 345 LEU A 349 5 5 HELIX 23 23 PHE A 381 ALA A 389 5 9 HELIX 24 24 LEU A 398 PHE A 403 1 6 HELIX 25 25 ASN A 417 ALA A 436 1 20 HELIX 26 26 LEU A 494 ALA A 499 1 6 HELIX 27 27 ASN B 4 ALA B 13 1 10 HELIX 28 28 GLN B 15 ARG B 20 5 6 HELIX 29 29 PHE B 21 LEU B 25 5 5 HELIX 30 30 GLU B 26 ALA B 39 1 14 HELIX 31 31 ASN B 41 GLU B 54 1 14 HELIX 32 32 ASN B 64 ARG B 68 1 5 HELIX 33 33 GLN B 86 GLN B 100 1 15 HELIX 34 34 PRO B 121 TYR B 125 5 5 HELIX 35 35 THR B 134 GLY B 155 1 22 HELIX 36 36 THR B 170 HIS B 181 1 12 HELIX 37 37 LYS B 182 LEU B 186 5 5 HELIX 38 38 LYS B 187 GLU B 189 5 3 HELIX 39 39 GLY B 222 GLY B 224 5 3 HELIX 40 40 GLY B 225 GLN B 233 1 9 HELIX 41 41 ASN B 234 GLY B 243 1 10 HELIX 42 42 ASP B 261 LYS B 271 1 11 HELIX 43 43 GLU B 303 ILE B 307 5 5 HELIX 44 44 SER B 308 LYS B 314 1 7 HELIX 45 45 VAL B 335 ASN B 343 1 9 HELIX 46 46 TYR B 345 LEU B 349 5 5 HELIX 47 47 PHE B 381 ALA B 389 5 9 HELIX 48 48 LEU B 398 PHE B 403 1 6 HELIX 49 49 ASN B 408 ASN B 413 1 6 HELIX 50 50 ASN B 417 ALA B 436 1 20 HELIX 51 51 LEU B 494 ALA B 499 1 6 SHEET 1 A 8 LEU A 77 SER A 79 0 SHEET 2 A 8 PHE A 392 GLU A 396 1 O VAL A 394 N GLY A 78 SHEET 3 A 8 CYS A 275 GLU A 281 1 N VAL A 279 O TYR A 395 SHEET 4 A 8 ALA A 325 THR A 334 -1 O GLY A 326 N VAL A 280 SHEET 5 A 8 SER A 246 CYS A 251 -1 N ILE A 247 O PHE A 333 SHEET 6 A 8 VAL A 103 LEU A 108 1 N LEU A 106 O HIS A 248 SHEET 7 A 8 TRP A 162 THR A 166 1 O TYR A 163 N VAL A 105 SHEET 8 A 8 VAL A 191 GLN A 195 1 O ILE A 192 N ILE A 164 SHEET 1 B 2 MET A 198 PRO A 200 0 SHEET 2 B 2 MET A 218 PRO A 220 -1 O ALA A 219 N LEU A 199 SHEET 1 C 3 MET A 202 SER A 203 0 SHEET 2 C 3 GLY A 375 GLU A 379 -1 O ILE A 376 N MET A 202 SHEET 3 C 3 HIS A 352 LYS A 356 -1 N HIS A 352 O GLU A 379 SHEET 1 D 2 LEU A 210 GLU A 212 0 SHEET 2 D 2 LYS A 215 VAL A 216 -1 O LYS A 215 N GLU A 212 SHEET 1 E 2 VAL A 291 VAL A 295 0 SHEET 2 E 2 VAL A 298 VAL A 302 -1 O GLN A 300 N CYS A 293 SHEET 1 F 2 TYR A 360 VAL A 361 0 SHEET 2 F 2 LEU A 367 ILE A 368 -1 O ILE A 368 N TYR A 360 SHEET 1 G 2 HIS A 439 PHE A 440 0 SHEET 2 G 2 GLU A 502 PHE A 503 1 O PHE A 503 N HIS A 439 SHEET 1 H 3 CYS A 481 ILE A 483 0 SHEET 2 H 3 LEU A 507 ASP A 510 1 O LEU A 507 N GLU A 482 SHEET 3 H 3 GLY A 513 GLU A 516 -1 O HIS A 515 N ILE A 508 SHEET 1 I 3 MET B 69 GLU B 70 0 SHEET 2 I 3 VAL B 291 VAL B 295 -1 O ARG B 294 N GLU B 70 SHEET 3 I 3 VAL B 298 VAL B 302 -1 O GLN B 300 N CYS B 293 SHEET 1 J 8 LEU B 77 SER B 79 0 SHEET 2 J 8 PHE B 392 VAL B 397 1 O VAL B 394 N GLY B 78 SHEET 3 J 8 CYS B 275 GLU B 281 1 N VAL B 279 O VAL B 397 SHEET 4 J 8 ALA B 325 THR B 334 -1 O ASN B 330 N LYS B 278 SHEET 5 J 8 SER B 246 CYS B 251 -1 N ILE B 247 O PHE B 333 SHEET 6 J 8 VAL B 103 LEU B 108 1 N LEU B 106 O HIS B 248 SHEET 7 J 8 TRP B 162 THR B 166 1 O TYR B 163 N VAL B 105 SHEET 8 J 8 VAL B 191 GLN B 195 1 O ILE B 192 N ILE B 164 SHEET 1 K 2 MET B 198 PRO B 200 0 SHEET 2 K 2 MET B 218 PRO B 220 -1 O ALA B 219 N LEU B 199 SHEET 1 L 2 LEU B 210 GLU B 212 0 SHEET 2 L 2 LYS B 215 VAL B 216 -1 O LYS B 215 N GLU B 212 SHEET 1 M 2 HIS B 352 LYS B 356 0 SHEET 2 M 2 GLY B 375 GLU B 379 -1 O GLU B 379 N HIS B 352 SHEET 1 N 2 TYR B 360 VAL B 361 0 SHEET 2 N 2 LEU B 367 ILE B 368 -1 O ILE B 368 N TYR B 360 SHEET 1 O 2 GLY B 438 PHE B 440 0 SHEET 2 O 2 LYS B 501 PHE B 503 1 O PHE B 503 N HIS B 439 SHEET 1 P 3 CYS B 481 ILE B 483 0 SHEET 2 P 3 LEU B 507 ASP B 510 1 O LEU B 507 N GLU B 482 SHEET 3 P 3 GLY B 513 GLU B 516 -1 O HIS B 515 N ILE B 508 CISPEP 1 VAL A 477 PRO A 478 0 0.34 CISPEP 2 ALA A 505 PRO A 506 0 1.63 CISPEP 3 VAL B 477 PRO B 478 0 -0.37 CISPEP 4 ALA B 505 PRO B 506 0 -0.61 SITE 1 AC1 26 LEU A 108 GLY A 110 GLY A 111 MET A 165 SITE 2 AC1 26 GLN A 196 PRO A 220 GLY A 222 ASN A 223 SITE 3 AC1 26 CYS A 251 VAL A 252 GLY A 290 GLU A 303 SITE 4 AC1 26 TYR A 304 ASN A 327 ILE A 328 ALA A 329 SITE 5 AC1 26 PHE A 381 PHE A 383 LYS A 407 HOH A1925 SITE 6 AC1 26 HOH A1957 HOH A1996 HOH A2046 HOH A2047 SITE 7 AC1 26 HOH A2049 ARG B 453 SITE 1 AC2 21 ARG A 453 LEU B 108 GLY B 110 GLY B 111 SITE 2 AC2 21 MET B 165 GLN B 196 PRO B 220 GLY B 222 SITE 3 AC2 21 ASN B 223 CYS B 251 VAL B 252 GLY B 290 SITE 4 AC2 21 GLU B 303 TYR B 304 ASN B 327 ILE B 328 SITE 5 AC2 21 ALA B 329 PHE B 383 LYS B 407 HOH B1914 SITE 6 AC2 21 HOH B1936 CRYST1 85.581 71.785 93.561 90.00 94.01 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011685 0.000000 0.000819 0.00000 SCALE2 0.000000 0.013930 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010714 0.00000 MASTER 404 0 2 51 48 0 13 6 0 0 0 82 END