10 20 30 40 50 60 70 80 1OMZ - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 26-FEB-03 1OMZ
TITLE CRYSTAL STRUCTURE OF MOUSE ALPHA-1,4-N- TITLE 2 ACETYLHEXOSAMINYLTRANSFERASE (EXTL2) IN COMPLEX WITH TITLE 3 UDPGALNAC
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-1,4-N-ACETYLHEXOSAMINYLTRANSFERASE EXTL2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CATALYTIC DOMAIN; COMPND 5 SYNONYM: ALPHA-GALNACT EXTL2, EXT-RELATED PROTEIN 2, COMPND 6 EXOSTOSIN-LIKE 2; COMPND 7 EC: 2.4.1.-; COMPND 8 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: EXTL2 OR EXTR2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMAL-2C
KEYWDS ROSSMANN FOLD, DXD MOTIF, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR L.C.PEDERSEN,J.DONG,F.TANIGUCHI,H.KITAGAWA,J.M.KRAHN, AUTHOR 2 L.G.PEDERSEN,K.SUGAHARA,M.NEGISHI
REVDAT 2 24-FEB-09 1OMZ 1 VERSN REVDAT 1 22-APR-03 1OMZ 0
JRNL AUTH L.C.PEDERSEN,J.DONG,F.TANIGUCHI,H.KITAGAWA, JRNL AUTH 2 J.M.KRAHN,L.G.PEDERSEN,K.SUGAHARA,M.NEGISHI JRNL TITL CRYSTAL STRUCTURE OF AN JRNL TITL 2 ALPHA-1,4-N-ACETYLHEXOSAMINYLTRANSFERASE (EXTL2), JRNL TITL 3 A MEMBER OF THE EXOSTOSIN GENE FAMILY INVOLVED IN JRNL TITL 4 HEPARAN SULFATE BIOSYNTHESIS JRNL REF J.BIOL.CHEM. V. 278 14420 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12562774 JRNL DOI 10.1074/JBC.M210532200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.88 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) (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 38939 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 : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1924 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5713 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 281 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4014 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 88 REMARK 3 SOLVENT ATOMS : 249 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.35000 REMARK 3 B22 (A**2) : 0.35000 REMARK 3 B33 (A**2) : -0.69000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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) : 0.29 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.29 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.20 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.89 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) : 1.380 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.280 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.870 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.700 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 53.19 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 : UGL.PAR REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : EDO.PAR REMARK 3 PARAMETER FILE 6 : 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 : UGL.TOP REMARK 3 TOPOLOGY FILE 5 : EDO.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1OMZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAR-03. REMARK 100 THE RCSB ID CODE IS RCSB018456.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39701 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.39600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1OMX REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3000, MAGNESIUM CHLORIDE, REMARK 280 CACODYLATE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y+1/2,X+1/2,Z REMARK 290 4555 Y+1/2,-X+1/2,Z REMARK 290 5555 -X+1/2,Y+1/2,-Z REMARK 290 6555 X+1/2,-Y+1/2,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 63.16950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 63.16950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 63.16950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 63.16950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 63.16950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.16950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 63.16950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.16950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 2 CHAIN(S). THE BIOLOGICAL REMARK 300 UNIT IS NOT KNOWN.
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: 5420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 38040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 65580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -252.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -126.33900 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 -63.16950 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 -63.16950 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 63.16950 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 -63.16950 REMARK 350 BIOMT3 4 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 THR A 38 REMARK 465 ASN A 39 REMARK 465 LEU A 40 REMARK 465 LEU A 41 REMARK 465 PRO A 42 REMARK 465 ASN A 43 REMARK 465 ILE A 44 REMARK 465 LYS A 45 REMARK 465 GLU A 46 REMARK 465 ASP A 47 REMARK 465 LYS A 48 REMARK 465 MET A 49 REMARK 465 LEU A 50 REMARK 465 THR A 51 REMARK 465 LEU A 52 REMARK 465 ARG A 53 REMARK 465 ARG A 54 REMARK 465 GLU A 55 REMARK 465 ILE A 56 REMARK 465 LYS A 57 REMARK 465 SER A 58 REMARK 465 PRO A 59 REMARK 465 SER A 60 REMARK 465 LYS A 61 REMARK 465 SER A 62 REMARK 465 LYS A 275 REMARK 465 GLU A 276 REMARK 465 THR A 277 REMARK 465 ASN A 278 REMARK 465 GLY A 279 REMARK 465 TYR A 280 REMARK 465 SER A 281 REMARK 465 GLY A 282 REMARK 465 MET A 283 REMARK 465 TRP A 284 REMARK 465 HIS A 285 REMARK 465 ARG A 286 REMARK 465 SER A 328 REMARK 465 LYS A 329 REMARK 465 MET A 330 REMARK 465 THR B 38 REMARK 465 ASN B 39 REMARK 465 LEU B 40 REMARK 465 LEU B 41 REMARK 465 PRO B 42 REMARK 465 ASN B 43 REMARK 465 ILE B 44 REMARK 465 LYS B 45 REMARK 465 GLU B 46 REMARK 465 ASP B 47 REMARK 465 LYS B 48 REMARK 465 MET B 49 REMARK 465 LEU B 50 REMARK 465 THR B 51 REMARK 465 LEU B 52 REMARK 465 ARG B 53 REMARK 465 ARG B 54 REMARK 465 GLU B 55 REMARK 465 ILE B 56 REMARK 465 LYS B 57 REMARK 465 SER B 58 REMARK 465 PRO B 59 REMARK 465 SER B 60 REMARK 465 LYS B 61 REMARK 465 LYS B 275 REMARK 465 GLU B 276 REMARK 465 THR B 277 REMARK 465 ASN B 278 REMARK 465 GLY B 279 REMARK 465 TYR B 280 REMARK 465 SER B 281 REMARK 465 GLY B 282 REMARK 465 MET B 283 REMARK 465 TRP B 284 REMARK 465 HIS B 285 REMARK 465 SER B 328 REMARK 465 LYS B 329 REMARK 465 MET B 330
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 LEU A 64 CG CD1 CD2 REMARK 470 VAL A 103 CG1 CG2 REMARK 470 PHE A 290 CG CD1 CD2 CE1 CE2 CZ REMARK 470 SER B 62 OG REMARK 470 LEU B 64 CG CD1 CD2 REMARK 470 GLU B 105 CG CD OE1 OE2 REMARK 470 LYS B 106 CG CD CE NZ REMARK 470 GLU B 110 CG CD OE1 OE2 REMARK 470 GLU B 225 CG CD OE1 OE2 REMARK 470 GLU B 274 CG CD OE1 OE2 REMARK 470 ARG B 286 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 288 CG CD OE1 OE2 REMARK 470 LYS B 327 CG CD CE NZ
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 ARG A 76 32.14 -146.81 REMARK 500 ASP A 152 28.01 -76.69 REMARK 500 PHE A 171 59.67 -144.80 REMARK 500 SER A 188 125.78 -32.26 REMARK 500 PRO A 203 -148.00 12.41 REMARK 500 ALA A 216 66.48 -160.41 REMARK 500 ASP B 65 30.08 -89.26 REMARK 500 TYR B 74 116.38 -162.51 REMARK 500 ARG B 76 33.32 -142.98 REMARK 500 ASP B 152 30.34 -79.03 REMARK 500 SER B 188 114.13 -34.49 REMARK 500 PRO B 203 -75.69 -53.23 REMARK 500 ALA B 216 68.67 -165.15 REMARK 500 ASN B 269 86.56 -151.90 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 MN A 600 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 153 OD2 REMARK 620 2 UD2 A 405 O1A 101.1 REMARK 620 3 HOH A 601 O 93.3 82.3 REMARK 620 4 HOH A 706 O 83.1 100.8 175.6 REMARK 620 5 HOH A 603 O 95.9 162.3 91.9 86.0 REMARK 620 6 UD2 A 405 O1B 162.3 80.7 104.4 79.3 84.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 601 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 603 O REMARK 620 2 ASP B 153 OD2 87.5 REMARK 620 3 UD2 B 404 O1A 87.6 90.9 REMARK 620 4 UD2 B 404 O1B 101.3 169.2 83.2 REMARK 620 5 HOH B 604 O 168.4 83.7 100.0 88.4 REMARK 620 6 HOH B 602 O 77.5 94.3 163.9 93.8 95.7 REMARK 620 N 1 2 3 4 5
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 600 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 601 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD2 B 404 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD2 A 405 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 401 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 402
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OMX RELATED DB: PDB REMARK 900 APO ENZYME REMARK 900 RELATED ID: 1ON6 RELATED DB: PDB REMARK 900 WITH DONOR SUBSTRATE UDPGLCNAC REMARK 900 RELATED ID: 1ON8 RELATED DB: PDB REMARK 900 WITH DONOR SUBSTRATE UDP AND GLCUAB(1-3)GALB(1-O)- REMARK 900 NAPHTHALENELMETHANOL
REMARK 999 REMARK 999 SEQUENCE REMARK 999 ALTHOUGH THE FUSION PROTEIN INCODES REMARK 999 RESIDUES 38-330, THE EXACT N-TERMINI IS REMARK 999 NOT KNOWN DUE TO USE OF A NON-SPECIFIC REMARK 999 PROTEASE TO CLEAVE OF THE MALTOSE BINDING REMARK 999 PROTEIN. HOWEVER RESIDUES 62-327 ARE REMARK 999 VISIBLE IN THE ELECTRON DENSITY.
DBREF 1OMZ A 38 330 UNP Q9ES89 EXTL2_MOUSE 38 330 DBREF 1OMZ B 38 330 UNP Q9ES89 EXTL2_MOUSE 38 330
SEQRES 1 A 293 THR ASN LEU LEU PRO ASN ILE LYS GLU ASP LYS MET LEU SEQRES 2 A 293 THR LEU ARG ARG GLU ILE LYS SER PRO SER LYS SER ALA SEQRES 3 A 293 LEU ASP SER PHE THR LEU ILE MET GLN THR TYR ASN ARG SEQRES 4 A 293 THR ASP LEU LEU LEU ARG LEU LEU ASN HIS TYR GLN ALA SEQRES 5 A 293 VAL PRO SER LEU HIS LYS VAL ILE VAL VAL TRP ASN ASN SEQRES 6 A 293 VAL GLY GLU LYS GLY PRO GLU GLU LEU TRP ASN SER LEU SEQRES 7 A 293 GLY PRO HIS PRO ILE PRO VAL ILE PHE LYS PRO GLN THR SEQRES 8 A 293 ALA ASN LYS MET ARG ASN ARG LEU GLN VAL PHE PRO GLU SEQRES 9 A 293 VAL GLU THR ASN ALA VAL LEU MET VAL ASP ASP ASP THR SEQRES 10 A 293 LEU ILE SER ALA GLN ASP LEU VAL PHE ALA PHE SER ILE SEQRES 11 A 293 TRP GLN GLN PHE PRO ASP GLN ILE ILE GLY PHE VAL PRO SEQRES 12 A 293 ARG LYS HIS VAL SER THR SER SER GLY ILE TYR SER TYR SEQRES 13 A 293 GLY GLY PHE GLU LEU GLN THR PRO GLY PRO GLY ASN GLY SEQRES 14 A 293 ASP GLN TYR SER MET VAL LEU ILE GLY ALA SER PHE PHE SEQRES 15 A 293 ASN SER LYS TYR LEU GLU LEU PHE GLN LYS GLN PRO ALA SEQRES 16 A 293 ALA VAL HIS ALA LEU ILE ASP GLU THR GLN ASN CYS ASP SEQRES 17 A 293 ASP ILE ALA MET ASN PHE LEU VAL THR ARG HIS THR GLY SEQRES 18 A 293 LYS PRO SER GLY ILE PHE VAL LYS PRO ILE ASN MET VAL SEQRES 19 A 293 ASN LEU GLU LYS GLU THR ASN GLY TYR SER GLY MET TRP SEQRES 20 A 293 HIS ARG ALA GLU HIS PHE LEU GLN ARG SER TYR CYS ILE SEQRES 21 A 293 ASN LYS LEU VAL ASN ILE TYR ASP GLY MET PRO LEU LYS SEQRES 22 A 293 TYR SER ASN ILE MET ILE SER GLN PHE GLY PHE PRO TYR SEQRES 23 A 293 ALA ASN HIS LYS SER LYS MET SEQRES 1 B 293 THR ASN LEU LEU PRO ASN ILE LYS GLU ASP LYS MET LEU SEQRES 2 B 293 THR LEU ARG ARG GLU ILE LYS SER PRO SER LYS SER ALA SEQRES 3 B 293 LEU ASP SER PHE THR LEU ILE MET GLN THR TYR ASN ARG SEQRES 4 B 293 THR ASP LEU LEU LEU ARG LEU LEU ASN HIS TYR GLN ALA SEQRES 5 B 293 VAL PRO SER LEU HIS LYS VAL ILE VAL VAL TRP ASN ASN SEQRES 6 B 293 VAL GLY GLU LYS GLY PRO GLU GLU LEU TRP ASN SER LEU SEQRES 7 B 293 GLY PRO HIS PRO ILE PRO VAL ILE PHE LYS PRO GLN THR SEQRES 8 B 293 ALA ASN LYS MET ARG ASN ARG LEU GLN VAL PHE PRO GLU SEQRES 9 B 293 VAL GLU THR ASN ALA VAL LEU MET VAL ASP ASP ASP THR SEQRES 10 B 293 LEU ILE SER ALA GLN ASP LEU VAL PHE ALA PHE SER ILE SEQRES 11 B 293 TRP GLN GLN PHE PRO ASP GLN ILE ILE GLY PHE VAL PRO SEQRES 12 B 293 ARG LYS HIS VAL SER THR SER SER GLY ILE TYR SER TYR SEQRES 13 B 293 GLY GLY PHE GLU LEU GLN THR PRO GLY PRO GLY ASN GLY SEQRES 14 B 293 ASP GLN TYR SER MET VAL LEU ILE GLY ALA SER PHE PHE SEQRES 15 B 293 ASN SER LYS TYR LEU GLU LEU PHE GLN LYS GLN PRO ALA SEQRES 16 B 293 ALA VAL HIS ALA LEU ILE ASP GLU THR GLN ASN CYS ASP SEQRES 17 B 293 ASP ILE ALA MET ASN PHE LEU VAL THR ARG HIS THR GLY SEQRES 18 B 293 LYS PRO SER GLY ILE PHE VAL LYS PRO ILE ASN MET VAL SEQRES 19 B 293 ASN LEU GLU LYS GLU THR ASN GLY TYR SER GLY MET TRP SEQRES 20 B 293 HIS ARG ALA GLU HIS PHE LEU GLN ARG SER TYR CYS ILE SEQRES 21 B 293 ASN LYS LEU VAL ASN ILE TYR ASP GLY MET PRO LEU LYS SEQRES 22 B 293 TYR SER ASN ILE MET ILE SER GLN PHE GLY PHE PRO TYR SEQRES 23 B 293 ALA ASN HIS LYS SER LYS MET
HET MN A 600 1 HET MN B 601 1 HET UD2 B 404 39 HET UD2 A 405 39 HET EDO A 401 4 HET EDO B 402 4
HETNAM MN MANGANESE (II) ION HETNAM UD2 URIDINE-DIPHOSPHATE-N-ACETYLGALACTOSAMINE HETNAM EDO 1,2-ETHANEDIOL
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 HETSYN EDO ETHYLENE GLYCOL
FORMUL 3 MN 2(MN 2+) FORMUL 5 UD2 2(C17 H27 N3 O17 P2) FORMUL 7 EDO 2(C2 H6 O2) FORMUL 9 HOH *249(H2 O)
HELIX 1 1 ARG A 76 GLN A 88 1 13 HELIX 2 2 PRO A 108 LEU A 115 1 8 HELIX 3 3 LYS A 131 GLN A 137 5 7 HELIX 4 4 SER A 157 GLN A 169 1 13 HELIX 5 5 SER A 221 LYS A 229 1 9 HELIX 6 6 PRO A 231 GLN A 242 1 12 HELIX 7 7 CYS A 244 GLY A 258 1 15 HELIX 8 8 ALA A 287 ASP A 305 1 19 HELIX 9 9 ARG B 76 GLN B 88 1 13 HELIX 10 10 PRO B 108 LEU B 115 1 8 HELIX 11 11 LYS B 131 GLN B 137 5 7 HELIX 12 12 SER B 157 PHE B 171 1 15 HELIX 13 13 SER B 221 LYS B 229 1 9 HELIX 14 14 PRO B 231 GLN B 242 1 12 HELIX 15 15 CYS B 244 GLY B 258 1 15 HELIX 16 16 ALA B 287 TYR B 304 1 18
SHEET 1 A16 VAL A 122 PRO A 126 0 SHEET 2 A16 LEU A 93 TRP A 100 1 N VAL A 96 O ILE A 123 SHEET 3 A16 PHE A 67 THR A 73 1 N LEU A 69 O ILE A 97 SHEET 4 A16 ALA A 146 VAL A 150 1 O LEU A 148 N THR A 68 SHEET 5 A16 ALA A 216 ASN A 220 -1 O SER A 217 N MET A 149 SHEET 6 A16 ILE A 175 GLY A 177 -1 N ILE A 176 O PHE A 218 SHEET 7 A16 GLY A 262 VAL A 265 1 O VAL A 265 N GLY A 177 SHEET 8 A16 ILE A 314 GLN A 318 1 O ILE A 316 N PHE A 264 SHEET 9 A16 ILE B 314 GLN B 318 -1 O MET B 315 N SER A 317 SHEET 10 A16 GLY B 262 VAL B 265 1 N PHE B 264 O ILE B 316 SHEET 11 A16 ILE B 175 GLY B 177 1 N GLY B 177 O VAL B 265 SHEET 12 A16 ALA B 216 ASN B 220 -1 O PHE B 218 N ILE B 176 SHEET 13 A16 ALA B 146 VAL B 150 -1 N VAL B 147 O PHE B 219 SHEET 14 A16 PHE B 67 THR B 73 1 N THR B 68 O LEU B 148 SHEET 15 A16 LEU B 93 TRP B 100 1 O ILE B 97 N LEU B 69 SHEET 16 A16 VAL B 122 PRO B 126 1 O ILE B 123 N VAL B 96 SHEET 1 B 2 THR A 154 ILE A 156 0 SHEET 2 B 2 MET A 270 ASN A 272 -1 O VAL A 271 N LEU A 155 SHEET 1 C 3 ILE A 190 GLY A 194 0 SHEET 2 C 3 PRO A 180 SER A 187 -1 N SER A 187 O ILE A 190 SHEET 3 C 3 MET A 211 VAL A 212 -1 O MET A 211 N ARG A 181 SHEET 1 D 2 THR B 154 ILE B 156 0 SHEET 2 D 2 MET B 270 ASN B 272 -1 O VAL B 271 N LEU B 155 SHEET 1 E 3 ILE B 190 GLY B 194 0 SHEET 2 E 3 PRO B 180 SER B 187 -1 N SER B 187 O ILE B 190 SHEET 3 E 3 MET B 211 VAL B 212 -1 O MET B 211 N ARG B 181
SSBOND 1 CYS A 244 CYS A 296 1555 1555 2.02 SSBOND 2 CYS B 244 CYS B 296 1555 1555 2.03
LINK MN MN A 600 OD2 ASP A 153 1555 1555 2.35 LINK MN MN A 600 O1A UD2 A 405 1555 1555 2.06 LINK MN MN A 600 O HOH A 601 1555 1555 2.33 LINK MN MN A 600 O HOH A 706 1555 1555 2.16 LINK MN MN A 600 O HOH A 603 1555 1555 2.16 LINK MN MN A 600 O1B UD2 A 405 1555 1555 2.52 LINK MN MN B 601 O HOH B 603 1555 1555 2.24 LINK MN MN B 601 OD2 ASP B 153 1555 1555 2.12 LINK MN MN B 601 O1A UD2 B 404 1555 1555 2.14 LINK MN MN B 601 O1B UD2 B 404 1555 1555 2.38 LINK MN MN B 601 O HOH B 604 1555 1555 2.25 LINK MN MN B 601 O HOH B 602 1555 1555 2.24
CISPEP 1 GLY A 116 PRO A 117 0 -0.01 CISPEP 2 PHE A 321 PRO A 322 0 -0.06 CISPEP 3 GLY B 116 PRO B 117 0 0.17 CISPEP 4 PHE B 321 PRO B 322 0 0.25
SITE 1 AC1 5 ASP A 153 UD2 A 405 HOH A 601 HOH A 603 SITE 2 AC1 5 HOH A 706 SITE 1 AC2 5 ASP B 153 UD2 B 404 HOH B 602 HOH B 603 SITE 2 AC2 5 HOH B 604 SITE 1 AC3 23 GLN B 72 THR B 73 TYR B 74 ARG B 76 SITE 2 AC3 23 ASN B 101 ASN B 130 MET B 132 ARG B 135 SITE 3 AC3 23 ASP B 151 ASP B 152 ASP B 153 LEU B 213 SITE 4 AC3 23 GLY B 215 GLN B 242 ASP B 245 ASP B 246 SITE 5 AC3 23 HIS B 289 ARG B 293 MN B 601 HOH B 603 SITE 6 AC3 23 HOH B 633 HOH B 645 HOH B 670 SITE 1 AC4 23 GLN A 72 THR A 73 TYR A 74 ARG A 76 SITE 2 AC4 23 ASN A 101 ASN A 130 MET A 132 ARG A 135 SITE 3 AC4 23 ASP A 151 ASP A 152 ASP A 153 LEU A 213 SITE 4 AC4 23 GLY A 215 GLN A 242 ASN A 243 ASP A 245 SITE 5 AC4 23 ASP A 246 HIS A 289 ARG A 293 MN A 600 SITE 6 AC4 23 HOH A 601 HOH A 627 HOH A 706 SITE 1 AC5 5 PHE A 171 GLN A 174 ILE A 314 HOH A 614 SITE 2 AC5 5 GLN B 170 SITE 1 AC6 5 PHE B 171 GLN B 174 PRO B 260 ILE B 314 SITE 2 AC6 5 HOH B 629
CRYST1 126.339 126.339 83.929 90.00 90.00 90.00 P 4 21 2 16
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 0.007915 0.000000 0.000000 0.00000
SCALE2 0.000000 0.007915 0.000000 0.00000
SCALE3 0.000000 0.000000 0.011915 0.00000