HEADER HYDROLASE 03-OCT-03 1R46 TITLE STRUCTURE OF HUMAN ALPHA-GALACTOSIDASE CAVEAT 1R46 MAN C 3 HAS WRONG CHIRALITY AT ATOM C1 MAN E 3 HAS WRONG CAVEAT 2 1R46 CHIRALITY AT ATOM C1 MAN F 3 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-GALACTOSIDASE A; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MELIBIASE, ALPHA-D- GALACTOSIDE GALACTOHYDROLASE, ALPHA-D- COMPND 5 GALACTOSIDASE A, AGALSIDASE ALFA; COMPND 6 EC: 3.2.1.22; COMPND 7 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: GLA; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS GLYCOPROTEIN, CARBOHYDRATE-BINDING PROTEIN, GLYCOSIDASE, LYSOSOMAL KEYWDS 2 ENZYME, (BETA/ALPHA)8 BARREL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.C.GARMAN,D.N.GARBOCZI REVDAT 5 23-AUG-23 1R46 1 HETSYN REVDAT 4 29-JUL-20 1R46 1 CAVEAT COMPND REMARK HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 13-JUL-11 1R46 1 VERSN REVDAT 2 24-FEB-09 1R46 1 VERSN REVDAT 1 16-MAR-04 1R46 0 JRNL AUTH S.C.GARMAN,D.N.GARBOCZI JRNL TITL THE MOLECULAR DEFECT LEADING TO FABRY DISEASE: STRUCTURE OF JRNL TITL 2 HUMAN ALPHA-GALACTOSIDASE JRNL REF J.MOL.BIOL. V. 337 319 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15003450 JRNL DOI 10.1016/J.JMB.2004.01.035 REMARK 2 REMARK 2 RESOLUTION. 3.25 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) : 3.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1225510.470 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 16005 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : SHELLS REMARK 3 R VALUE (WORKING SET) : 0.262 REMARK 3 FREE R VALUE : 0.301 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 820 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.011 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) : 3.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.45 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2459 REMARK 3 BIN R VALUE (WORKING SET) : 0.3800 REMARK 3 BIN FREE R VALUE : 0.4030 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 123 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.036 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6253 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 268 REMARK 3 SOLVENT ATOMS : 18 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 80.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 29.37000 REMARK 3 B22 (A**2) : 29.37000 REMARK 3 B33 (A**2) : -58.73000 REMARK 3 B12 (A**2) : 18.03000 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) : 0.49 REMARK 3 ESD FROM SIGMAA (A) : 0.90 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) : 0.53 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.80 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.880 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) : 3.850 ; 4.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 6.070 ; 6.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 6.070 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.920 ; 7.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.26 REMARK 3 BSOL : 10.29 REMARK 3 REMARK 3 NCS MODEL : CONSTR REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; 300.0 REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; 2.0 REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 300 KCAL/MOL/A^2 NCS RESTRAINTS APPLIED REMARK 3 TO ALL ATOMS IN EARLY ROUNDS OF REFINEMENT AND RELAXED IN LATER REMARK 3 ROUNDS. REMARK 4 REMARK 4 1R46 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-OCT-03. REMARK 100 THE DEPOSITION ID IS D_1000020414. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.033 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16005 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.250 REMARK 200 RESOLUTION RANGE LOW (A) : 40.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.24600 REMARK 200 R SYM (I) : 0.24600 REMARK 200 FOR THE DATA SET : 9.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.74000 REMARK 200 R SYM FOR SHELL (I) : 0.74000 REMARK 200 FOR SHELL : 2.400 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: HOMOLOGY MODEL DERIVED FROM 1KTB REMARK 200 REMARK 200 REMARK: SMALL CRYSTALS PRODUCED WEAK ANISOTROPIC DIFFRACTION, REMARK 200 LEADING TO VERY POOR MERGING STATISTICS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 4000, 0.1M TRIS HCL (PH 8.0), REMARK 280 0.2M AMMONIUM SULFATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 143.65467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 71.82733 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 71.82733 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 143.65467 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: 7310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 70.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G 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 GLN A 422 REMARK 465 MET A 423 REMARK 465 SER A 424 REMARK 465 LEU A 425 REMARK 465 LYS A 426 REMARK 465 ASP A 427 REMARK 465 LEU A 428 REMARK 465 LEU A 429 REMARK 465 MET B 423 REMARK 465 SER B 424 REMARK 465 LEU B 425 REMARK 465 LYS B 426 REMARK 465 ASP B 427 REMARK 465 LEU B 428 REMARK 465 LEU B 429 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU B 58 OE2 GLU B 58 4556 1.96 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 PRO A 98 C - N - CA ANGL. DEV. = 10.9 DEGREES REMARK 500 PRO B 98 C - N - CA ANGL. DEV. = 11.1 DEGREES REMARK 500 TRP B 209 N - CA - C ANGL. DEV. = -17.3 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 TRP A 47 -82.93 -41.07 REMARK 500 MET A 51 -136.55 43.74 REMARK 500 CYS A 52 76.62 -115.88 REMARK 500 GLU A 66 -16.47 -49.79 REMARK 500 SER A 78 -76.62 -53.65 REMARK 500 GLU A 79 33.44 -77.60 REMARK 500 CYS A 94 29.68 86.35 REMARK 500 PRO A 98 -42.91 -27.00 REMARK 500 ARG A 100 167.13 -42.63 REMARK 500 ASP A 136 132.04 -174.67 REMARK 500 PRO A 146 143.49 -32.19 REMARK 500 SER A 148 15.00 -158.41 REMARK 500 TYR A 151 -16.92 -163.40 REMARK 500 TYR A 173 91.38 74.50 REMARK 500 CYS A 174 135.10 -171.62 REMARK 500 ASP A 175 -81.57 -42.71 REMARK 500 GLU A 178 -70.98 -55.66 REMARK 500 LEU A 180 -82.27 -60.90 REMARK 500 ALA A 181 -34.42 -37.96 REMARK 500 PHE A 211 -30.44 -139.53 REMARK 500 GLN A 212 127.67 178.07 REMARK 500 TYR A 216 -38.55 -34.91 REMARK 500 HIS A 225 147.88 -179.64 REMARK 500 ALA A 230 -177.89 -45.79 REMARK 500 PHE A 248 28.14 -76.69 REMARK 500 ASN A 249 -3.72 -156.07 REMARK 500 VAL A 254 -27.87 -39.26 REMARK 500 VAL A 256 3.90 -54.64 REMARK 500 ASP A 266 166.51 153.76 REMARK 500 MET A 267 155.23 -40.29 REMARK 500 ASN A 272 -129.85 -82.18 REMARK 500 ALA A 291 60.26 32.79 REMARK 500 SER A 297 82.78 -153.08 REMARK 500 LEU A 300 3.86 -64.46 REMARK 500 ASP A 313 98.73 -46.20 REMARK 500 GLN A 333 -163.72 -129.68 REMARK 500 ASN A 336 52.72 28.31 REMARK 500 LEU A 344 -149.94 -105.88 REMARK 500 ALA A 370 -73.99 -47.94 REMARK 500 SER A 371 67.72 -67.30 REMARK 500 LEU A 372 -81.64 -140.17 REMARK 500 LYS A 374 23.23 41.15 REMARK 500 VAL A 376 -88.26 -59.43 REMARK 500 CYS A 378 -5.41 99.68 REMARK 500 LYS A 391 80.75 41.46 REMARK 500 SER A 401 157.44 -36.39 REMARK 500 THR A 410 16.09 51.01 REMARK 500 TRP B 47 -82.88 -40.82 REMARK 500 MET B 51 -136.53 42.00 REMARK 500 CYS B 52 78.22 -114.46 REMARK 500 REMARK 500 THIS ENTRY HAS 99 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE NAG A 639 IS ONE SUGAR OF A POLYSACCHARIDE. REMARK 600 THE REST OF THE SUGARS WERE NOT MODELLED DUE TO REMARK 600 MISSING DENSITY REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1R47 RELATED DB: PDB REMARK 900 COMPLEX WITH ALPHA-GALACTOSE DBREF 1R46 A 32 429 UNP P06280 AGAL_HUMAN 32 429 DBREF 1R46 B 32 429 UNP P06280 AGAL_HUMAN 32 429 SEQRES 1 A 398 LEU ASP ASN GLY LEU ALA ARG THR PRO THR MET GLY TRP SEQRES 2 A 398 LEU HIS TRP GLU ARG PHE MET CYS ASN LEU ASP CYS GLN SEQRES 3 A 398 GLU GLU PRO ASP SER CYS ILE SER GLU LYS LEU PHE MET SEQRES 4 A 398 GLU MET ALA GLU LEU MET VAL SER GLU GLY TRP LYS ASP SEQRES 5 A 398 ALA GLY TYR GLU TYR LEU CYS ILE ASP ASP CYS TRP MET SEQRES 6 A 398 ALA PRO GLN ARG ASP SER GLU GLY ARG LEU GLN ALA ASP SEQRES 7 A 398 PRO GLN ARG PHE PRO HIS GLY ILE ARG GLN LEU ALA ASN SEQRES 8 A 398 TYR VAL HIS SER LYS GLY LEU LYS LEU GLY ILE TYR ALA SEQRES 9 A 398 ASP VAL GLY ASN LYS THR CYS ALA GLY PHE PRO GLY SER SEQRES 10 A 398 PHE GLY TYR TYR ASP ILE ASP ALA GLN THR PHE ALA ASP SEQRES 11 A 398 TRP GLY VAL ASP LEU LEU LYS PHE ASP GLY CYS TYR CYS SEQRES 12 A 398 ASP SER LEU GLU ASN LEU ALA ASP GLY TYR LYS HIS MET SEQRES 13 A 398 SER LEU ALA LEU ASN ARG THR GLY ARG SER ILE VAL TYR SEQRES 14 A 398 SER CYS GLU TRP PRO LEU TYR MET TRP PRO PHE GLN LYS SEQRES 15 A 398 PRO ASN TYR THR GLU ILE ARG GLN TYR CYS ASN HIS TRP SEQRES 16 A 398 ARG ASN PHE ALA ASP ILE ASP ASP SER TRP LYS SER ILE SEQRES 17 A 398 LYS SER ILE LEU ASP TRP THR SER PHE ASN GLN GLU ARG SEQRES 18 A 398 ILE VAL ASP VAL ALA GLY PRO GLY GLY TRP ASN ASP PRO SEQRES 19 A 398 ASP MET LEU VAL ILE GLY ASN PHE GLY LEU SER TRP ASN SEQRES 20 A 398 GLN GLN VAL THR GLN MET ALA LEU TRP ALA ILE MET ALA SEQRES 21 A 398 ALA PRO LEU PHE MET SER ASN ASP LEU ARG HIS ILE SER SEQRES 22 A 398 PRO GLN ALA LYS ALA LEU LEU GLN ASP LYS ASP VAL ILE SEQRES 23 A 398 ALA ILE ASN GLN ASP PRO LEU GLY LYS GLN GLY TYR GLN SEQRES 24 A 398 LEU ARG GLN GLY ASP ASN PHE GLU VAL TRP GLU ARG PRO SEQRES 25 A 398 LEU SER GLY LEU ALA TRP ALA VAL ALA MET ILE ASN ARG SEQRES 26 A 398 GLN GLU ILE GLY GLY PRO ARG SER TYR THR ILE ALA VAL SEQRES 27 A 398 ALA SER LEU GLY LYS GLY VAL ALA CYS ASN PRO ALA CYS SEQRES 28 A 398 PHE ILE THR GLN LEU LEU PRO VAL LYS ARG LYS LEU GLY SEQRES 29 A 398 PHE TYR GLU TRP THR SER ARG LEU ARG SER HIS ILE ASN SEQRES 30 A 398 PRO THR GLY THR VAL LEU LEU GLN LEU GLU ASN THR MET SEQRES 31 A 398 GLN MET SER LEU LYS ASP LEU LEU SEQRES 1 B 398 LEU ASP ASN GLY LEU ALA ARG THR PRO THR MET GLY TRP SEQRES 2 B 398 LEU HIS TRP GLU ARG PHE MET CYS ASN LEU ASP CYS GLN SEQRES 3 B 398 GLU GLU PRO ASP SER CYS ILE SER GLU LYS LEU PHE MET SEQRES 4 B 398 GLU MET ALA GLU LEU MET VAL SER GLU GLY TRP LYS ASP SEQRES 5 B 398 ALA GLY TYR GLU TYR LEU CYS ILE ASP ASP CYS TRP MET SEQRES 6 B 398 ALA PRO GLN ARG ASP SER GLU GLY ARG LEU GLN ALA ASP SEQRES 7 B 398 PRO GLN ARG PHE PRO HIS GLY ILE ARG GLN LEU ALA ASN SEQRES 8 B 398 TYR VAL HIS SER LYS GLY LEU LYS LEU GLY ILE TYR ALA SEQRES 9 B 398 ASP VAL GLY ASN LYS THR CYS ALA GLY PHE PRO GLY SER SEQRES 10 B 398 PHE GLY TYR TYR ASP ILE ASP ALA GLN THR PHE ALA ASP SEQRES 11 B 398 TRP GLY VAL ASP LEU LEU LYS PHE ASP GLY CYS TYR CYS SEQRES 12 B 398 ASP SER LEU GLU ASN LEU ALA ASP GLY TYR LYS HIS MET SEQRES 13 B 398 SER LEU ALA LEU ASN ARG THR GLY ARG SER ILE VAL TYR SEQRES 14 B 398 SER CYS GLU TRP PRO LEU TYR MET TRP PRO PHE GLN LYS SEQRES 15 B 398 PRO ASN TYR THR GLU ILE ARG GLN TYR CYS ASN HIS TRP SEQRES 16 B 398 ARG ASN PHE ALA ASP ILE ASP ASP SER TRP LYS SER ILE SEQRES 17 B 398 LYS SER ILE LEU ASP TRP THR SER PHE ASN GLN GLU ARG SEQRES 18 B 398 ILE VAL ASP VAL ALA GLY PRO GLY GLY TRP ASN ASP PRO SEQRES 19 B 398 ASP MET LEU VAL ILE GLY ASN PHE GLY LEU SER TRP ASN SEQRES 20 B 398 GLN GLN VAL THR GLN MET ALA LEU TRP ALA ILE MET ALA SEQRES 21 B 398 ALA PRO LEU PHE MET SER ASN ASP LEU ARG HIS ILE SER SEQRES 22 B 398 PRO GLN ALA LYS ALA LEU LEU GLN ASP LYS ASP VAL ILE SEQRES 23 B 398 ALA ILE ASN GLN ASP PRO LEU GLY LYS GLN GLY TYR GLN SEQRES 24 B 398 LEU ARG GLN GLY ASP ASN PHE GLU VAL TRP GLU ARG PRO SEQRES 25 B 398 LEU SER GLY LEU ALA TRP ALA VAL ALA MET ILE ASN ARG SEQRES 26 B 398 GLN GLU ILE GLY GLY PRO ARG SER TYR THR ILE ALA VAL SEQRES 27 B 398 ALA SER LEU GLY LYS GLY VAL ALA CYS ASN PRO ALA CYS SEQRES 28 B 398 PHE ILE THR GLN LEU LEU PRO VAL LYS ARG LYS LEU GLY SEQRES 29 B 398 PHE TYR GLU TRP THR SER ARG LEU ARG SER HIS ILE ASN SEQRES 30 B 398 PRO THR GLY THR VAL LEU LEU GLN LEU GLU ASN THR MET SEQRES 31 B 398 GLN MET SER LEU LYS ASP LEU LEU MODRES 1R46 ASN A 139 ASN GLYCOSYLATION SITE MODRES 1R46 ASN A 192 ASN GLYCOSYLATION SITE MODRES 1R46 ASN A 215 ASN GLYCOSYLATION SITE MODRES 1R46 ASN B 139 ASN GLYCOSYLATION SITE MODRES 1R46 ASN B 192 ASN GLYCOSYLATION SITE MODRES 1R46 ASN B 215 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET MAN C 3 11 HET MAN C 4 11 HET MAN C 5 11 HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET MAN E 3 11 HET MAN E 4 11 HET MAN E 5 11 HET FUC E 6 10 HET NAG F 1 14 HET NAG F 2 14 HET MAN F 3 11 HET MAN F 4 11 HET NAG G 1 14 HET NAG G 2 14 HET NAG A 639 14 HET EDO A1101 4 HET EDO A1102 4 HET EDO B1103 4 HET EDO B1104 4 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NAG 11(C8 H15 N O6) FORMUL 3 MAN 8(C6 H12 O6) FORMUL 5 FUC C6 H12 O5 FORMUL 9 EDO 4(C2 H6 O2) FORMUL 13 HOH *18(H2 O) HELIX 1 1 HIS A 46 MET A 51 1 6 HELIX 2 2 SER A 65 GLU A 79 1 15 HELIX 3 3 GLY A 80 GLY A 85 1 6 HELIX 4 4 HIS A 115 LYS A 127 1 13 HELIX 5 5 TYR A 151 GLY A 163 1 13 HELIX 6 6 SER A 176 GLY A 195 1 20 HELIX 7 7 GLU A 203 TRP A 209 1 7 HELIX 8 8 ASN A 215 ARG A 220 1 6 HELIX 9 9 SER A 235 PHE A 248 1 14 HELIX 10 10 ARG A 252 ALA A 257 1 6 HELIX 11 11 SER A 276 MET A 290 1 15 HELIX 12 12 SER A 304 ASP A 313 1 10 HELIX 13 13 ASP A 313 GLN A 321 1 9 HELIX 14 14 HIS B 46 MET B 51 1 6 HELIX 15 15 SER B 65 GLU B 79 1 15 HELIX 16 16 GLY B 80 GLY B 85 1 6 HELIX 17 17 ARG B 118 LYS B 127 1 10 HELIX 18 18 TYR B 151 GLY B 163 1 13 HELIX 19 19 SER B 176 GLY B 195 1 20 HELIX 20 20 GLU B 203 TRP B 209 1 7 HELIX 21 21 ASN B 215 ARG B 220 1 6 HELIX 22 22 SER B 235 PHE B 248 1 14 HELIX 23 23 ARG B 252 ALA B 257 1 6 HELIX 24 24 SER B 276 MET B 290 1 15 HELIX 25 25 SER B 304 ASP B 313 1 10 HELIX 26 26 ASP B 313 GLN B 321 1 9 SHEET 1 A 8 TRP A 262 ASP A 264 0 SHEET 2 A 8 HIS A 225 ARG A 227 1 N TRP A 226 O ASP A 264 SHEET 3 A 8 VAL A 199 CYS A 202 1 N CYS A 202 O HIS A 225 SHEET 4 A 8 LEU A 166 ASP A 170 1 N LEU A 167 O VAL A 199 SHEET 5 A 8 LYS A 130 ASP A 136 1 N ILE A 133 O LYS A 168 SHEET 6 A 8 TYR A 88 CYS A 90 1 N LEU A 89 O LYS A 130 SHEET 7 A 8 MET A 42 LEU A 45 1 N TRP A 44 O CYS A 90 SHEET 8 A 8 LEU A 294 MET A 296 1 O LEU A 294 N GLY A 43 SHEET 1 B 5 TYR A 329 ARG A 332 0 SHEET 2 B 5 PHE A 337 PRO A 343 -1 O GLU A 341 N TYR A 329 SHEET 3 B 5 ALA A 348 ASN A 355 -1 O ALA A 352 N TRP A 340 SHEET 4 B 5 THR A 412 GLU A 418 -1 O LEU A 417 N TRP A 349 SHEET 5 B 5 THR A 385 LEU A 388 -1 N LEU A 388 O LEU A 414 SHEET 1 C 2 ARG A 363 ALA A 368 0 SHEET 2 C 2 ARG A 402 ILE A 407 -1 O ILE A 407 N ARG A 363 SHEET 1 D 2 ALA A 381 PHE A 383 0 SHEET 2 D 2 PHE A 396 GLU A 398 -1 O TYR A 397 N CYS A 382 SHEET 1 E 8 TRP B 262 ASP B 264 0 SHEET 2 E 8 HIS B 225 ARG B 227 1 N TRP B 226 O ASP B 264 SHEET 3 E 8 VAL B 199 CYS B 202 1 N CYS B 202 O HIS B 225 SHEET 4 E 8 LEU B 166 ASP B 170 1 N LEU B 167 O VAL B 199 SHEET 5 E 8 LYS B 130 ASP B 136 1 N ILE B 133 O LYS B 168 SHEET 6 E 8 TYR B 88 CYS B 90 1 N LEU B 89 O LYS B 130 SHEET 7 E 8 MET B 42 LEU B 45 1 N TRP B 44 O CYS B 90 SHEET 8 E 8 LEU B 294 MET B 296 1 O LEU B 294 N GLY B 43 SHEET 1 F 5 TYR B 329 ARG B 332 0 SHEET 2 F 5 GLU B 338 PRO B 343 -1 O GLU B 341 N TYR B 329 SHEET 3 F 5 ALA B 348 ILE B 354 -1 O ALA B 352 N TRP B 340 SHEET 4 F 5 THR B 412 GLU B 418 -1 O LEU B 417 N TRP B 349 SHEET 5 F 5 THR B 385 LEU B 388 -1 N LEU B 388 O LEU B 414 SHEET 1 G 2 ARG B 363 ALA B 368 0 SHEET 2 G 2 ARG B 402 ILE B 407 -1 O ILE B 407 N ARG B 363 SHEET 1 H 2 ALA B 381 PHE B 383 0 SHEET 2 H 2 PHE B 396 GLU B 398 -1 O TYR B 397 N CYS B 382 SSBOND 1 CYS A 52 CYS A 94 1555 1555 2.04 SSBOND 2 CYS A 56 CYS A 63 1555 1555 2.04 SSBOND 3 CYS A 142 CYS A 172 1555 1555 2.03 SSBOND 4 CYS A 202 CYS A 223 1555 1555 2.03 SSBOND 5 CYS A 378 CYS A 382 1555 1555 2.02 SSBOND 6 CYS B 52 CYS B 94 1555 1555 2.05 SSBOND 7 CYS B 56 CYS B 63 1555 1555 2.03 SSBOND 8 CYS B 142 CYS B 172 1555 1555 2.04 SSBOND 9 CYS B 202 CYS B 223 1555 1555 2.03 SSBOND 10 CYS B 378 CYS B 382 1555 1555 2.03 LINK ND2 ASN A 139 C1 NAG A 639 1555 1555 1.47 LINK ND2 ASN A 192 C1 NAG C 1 1555 1555 1.46 LINK ND2 ASN A 215 C1 NAG D 1 1555 1555 1.46 LINK ND2 ASN B 139 C1 NAG E 1 1555 1555 1.45 LINK ND2 ASN B 192 C1 NAG F 1 1555 1555 1.45 LINK ND2 ASN B 215 C1 NAG G 1 1555 1555 1.46 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.38 LINK O4 NAG C 2 C1 MAN C 3 1555 1555 1.38 LINK O3 MAN C 3 C1 MAN C 4 1555 1555 1.41 LINK O6 MAN C 3 C1 MAN C 5 1555 1555 1.41 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.39 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.38 LINK O6 NAG E 1 C1 FUC E 6 1555 1555 1.42 LINK O4 NAG E 2 C1 MAN E 3 1555 1555 1.39 LINK O3 MAN E 3 C1 MAN E 4 1555 1555 1.41 LINK O6 MAN E 3 C1 MAN E 5 1555 1555 1.41 LINK O4 NAG F 1 C1 NAG F 2 1555 1555 1.39 LINK O4 NAG F 2 C1 MAN F 3 1555 1555 1.38 LINK O3 MAN F 3 C1 MAN F 4 1555 1555 1.41 LINK O4 NAG G 1 C1 NAG G 2 1555 1555 1.40 CISPEP 1 TRP A 209 PRO A 210 0 -0.08 CISPEP 2 ASN A 379 PRO A 380 0 -0.11 CISPEP 3 LEU A 388 PRO A 389 0 0.01 CISPEP 4 TRP B 209 PRO B 210 0 0.72 CISPEP 5 ASN B 379 PRO B 380 0 -0.23 CISPEP 6 LEU B 388 PRO B 389 0 0.83 CRYST1 88.458 88.458 215.482 90.00 90.00 120.00 P 32 2 1 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011305 0.006527 0.000000 0.00000 SCALE2 0.000000 0.013054 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004641 0.00000