HEADER HYDROLASE 24-AUG-00 1FO2 TITLE CRYSTAL STRUCTURE OF HUMAN CLASS I ALPHA1,2-MANNOSIDASE IN TITLE 2 COMPLEX WITH 1-DEOXYMANNOJIRIMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA1,2-MANNOSIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL CATALYTIC DOMAIN; COMPND 5 EC: 3.2.1.24; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS ALPHA-ALPHA7 BARREL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.VALLEE,K.KARAVEG,K.W.MOREMEN,A.HERSCOVICS,P.L.HOWELL REVDAT 3 24-FEB-09 1FO2 1 VERSN REVDAT 2 31-DEC-02 1FO2 1 REMARK REVDAT 1 17-JAN-01 1FO2 0 JRNL AUTH F.VALLEE,K.KARAVEG,A.HERSCOVICS,K.W.MOREMEN, JRNL AUTH 2 P.L.HOWELL JRNL TITL STRUCTURAL BASIS FOR CATALYSIS AND INHIBITION OF JRNL TITL 2 N-GLYCAN PROCESSING CLASS I ALPHA 1,2-MANNOSIDASES. JRNL REF J.BIOL.CHEM. V. 275 41287 2000 JRNL REFN ISSN 0021-9258 JRNL PMID 10995765 JRNL DOI 10.1074/JBC.M006927200 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.38 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) : 2.38 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.61 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 164072.900 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 27901 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) : 0.194 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1357 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 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) : 2.38 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.53 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3979 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 224 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3685 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 399 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.27000 REMARK 3 B22 (A**2) : 7.27000 REMARK 3 B33 (A**2) : -14.54000 REMARK 3 B12 (A**2) : 1.51000 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) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.32 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) : 0.34 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.35 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.30 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.81 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) : 1.220 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.020 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.930 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.890 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 60.38 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 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : DMNJ.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1FO2 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-SEP-00. REMARK 100 THE RCSB ID CODE IS RCSB011758. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-99 REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X8C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.05 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 : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 129911 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.380 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.34000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES,AMMONIUM SULFATE,CALCIUM,DMNJ, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 45.70600 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 91.41200 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 91.41200 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 45.70600 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A MONOMER 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 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 TRP A 389 REMARK 465 THR A 390 REMARK 465 PRO A 698 REMARK 465 ALA A 699 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 THR A 239 OG1 CG2 REMARK 470 ARG A 367 NH1 NH2 REMARK 470 LYS A 506 CG CD CE NZ REMARK 470 LYS A 649 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG A 367 NE ARG A 367 CZ 0.161 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 ARG A 367 CD - NE - CZ ANGL. DEV. = -11.8 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 SER A 280 -143.98 -127.25 REMARK 500 LYS A 371 -4.88 84.08 REMARK 500 ARG A 461 -3.28 79.33 REMARK 500 ALA A 462 -36.04 -145.74 REMARK 500 ASP A 463 -73.50 -30.73 REMARK 500 CYS A 527 2.25 -63.44 REMARK 500 PRO A 542 137.68 -38.60 REMARK 500 PRO A 578 111.51 -35.03 REMARK 500 PRO A 580 -95.89 -34.10 REMARK 500 GLU A 651 87.60 66.01 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 A 715 DISTANCE = 10.92 ANGSTROMS REMARK 525 HOH A 731 DISTANCE = 5.48 ANGSTROMS REMARK 525 HOH A 734 DISTANCE = 22.27 ANGSTROMS REMARK 525 HOH A 743 DISTANCE = 6.10 ANGSTROMS REMARK 525 HOH A 751 DISTANCE = 11.32 ANGSTROMS REMARK 525 HOH A 752 DISTANCE = 8.22 ANGSTROMS REMARK 525 HOH A 759 DISTANCE = 11.47 ANGSTROMS REMARK 525 HOH A 806 DISTANCE = 8.63 ANGSTROMS REMARK 525 HOH A 807 DISTANCE = 10.26 ANGSTROMS REMARK 525 HOH A 816 DISTANCE = 11.46 ANGSTROMS REMARK 525 HOH A 818 DISTANCE = 14.13 ANGSTROMS REMARK 525 HOH A 820 DISTANCE = 12.94 ANGSTROMS REMARK 525 HOH A 828 DISTANCE = 14.27 ANGSTROMS REMARK 525 HOH A 838 DISTANCE = 13.12 ANGSTROMS REMARK 525 HOH A 851 DISTANCE = 8.81 ANGSTROMS REMARK 525 HOH A 854 DISTANCE = 8.67 ANGSTROMS REMARK 525 HOH A 855 DISTANCE = 10.88 ANGSTROMS REMARK 525 HOH A 857 DISTANCE = 7.98 ANGSTROMS REMARK 525 HOH A 861 DISTANCE = 6.33 ANGSTROMS REMARK 525 HOH A 863 DISTANCE = 7.89 ANGSTROMS REMARK 525 HOH A 867 DISTANCE = 8.72 ANGSTROMS REMARK 525 HOH A 878 DISTANCE = 11.57 ANGSTROMS REMARK 525 HOH A 881 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A 904 DISTANCE = 5.75 ANGSTROMS REMARK 525 HOH A 907 DISTANCE = 7.70 ANGSTROMS REMARK 525 HOH A 913 DISTANCE = 7.59 ANGSTROMS REMARK 525 HOH A 915 DISTANCE = 9.68 ANGSTROMS REMARK 525 HOH A 948 DISTANCE = 10.39 ANGSTROMS REMARK 525 HOH A 951 DISTANCE = 5.37 ANGSTROMS REMARK 525 HOH A 955 DISTANCE = 24.16 ANGSTROMS REMARK 525 HOH A 964 DISTANCE = 7.72 ANGSTROMS REMARK 525 HOH A 979 DISTANCE = 17.38 ANGSTROMS REMARK 525 HOH A1016 DISTANCE = 6.83 ANGSTROMS REMARK 525 HOH A1024 DISTANCE = 10.76 ANGSTROMS REMARK 525 HOH A1027 DISTANCE = 6.83 ANGSTROMS REMARK 525 HOH A1043 DISTANCE = 9.19 ANGSTROMS REMARK 525 HOH A1046 DISTANCE = 7.36 ANGSTROMS REMARK 525 HOH A1057 DISTANCE = 7.57 ANGSTROMS REMARK 525 HOH A1064 DISTANCE = 8.48 ANGSTROMS REMARK 525 HOH A1071 DISTANCE = 6.07 ANGSTROMS 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 CA A 700 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 688 O REMARK 620 2 THR A 688 OG1 69.1 REMARK 620 3 DMJ A 704 O2 79.0 67.5 REMARK 620 4 HOH A 705 O 88.1 79.3 146.8 REMARK 620 5 HOH A 708 O 142.7 74.8 95.9 76.0 REMARK 620 6 HOH A 710 O 93.3 153.1 130.8 79.9 116.2 REMARK 620 7 HOH A 709 O 146.0 123.8 78.8 123.7 65.2 82.3 REMARK 620 8 DMJ A 704 O3 69.9 119.2 62.2 140.6 139.9 69.5 77.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 700 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 701 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 702 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 703 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMJ A 704 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FMI RELATED DB: PDB REMARK 900 1FMI CONTAINS ALPHA 1,2-MANNOSIDASE. REMARK 900 RELATED ID: 1FO3 RELATED DB: PDB REMARK 900 1FO3 CONTAINS ALPHA 1,2-MANNOSIDASE COMPLEXED WITH REMARK 900 KIFUNENSINE. DBREF 1FO2 A 239 699 UNP Q9UKM7 MA1B1_HUMAN 239 699 SEQADV 1FO2 A UNP Q9UKM7 THR 242 DELETION SEQRES 1 A 460 THR GLN GLY PRO VAL HIS LEU ASN TYR ARG GLN LYS GLY SEQRES 2 A 460 VAL ILE ASP VAL PHE LEU HIS ALA TRP LYS GLY TYR ARG SEQRES 3 A 460 LYS PHE ALA TRP GLY HIS ASP GLU LEU LYS PRO VAL SER SEQRES 4 A 460 ARG SER PHE SER GLU TRP PHE GLY LEU GLY LEU THR LEU SEQRES 5 A 460 ILE ASP ALA LEU ASP THR MET TRP ILE LEU GLY LEU ARG SEQRES 6 A 460 LYS GLU PHE GLU GLU ALA ARG LYS TRP VAL SER LYS LYS SEQRES 7 A 460 LEU HIS PHE GLU LYS ASP VAL ASP VAL ASN LEU PHE GLU SEQRES 8 A 460 SER THR ILE ARG ILE LEU GLY GLY LEU LEU SER ALA TYR SEQRES 9 A 460 HIS LEU SER GLY ASP SER LEU PHE LEU ARG LYS ALA GLU SEQRES 10 A 460 ASP PHE GLY ASN ARG LEU MET PRO ALA PHE ARG THR PRO SEQRES 11 A 460 SER LYS ILE PRO TYR SER ASP VAL ASN ILE GLY THR GLY SEQRES 12 A 460 VAL ALA HIS PRO PRO ARG TRP THR SER ASP SER THR VAL SEQRES 13 A 460 ALA GLU VAL THR SER ILE GLN LEU GLU PHE ARG GLU LEU SEQRES 14 A 460 SER ARG LEU THR GLY ASP LYS LYS PHE GLN GLU ALA VAL SEQRES 15 A 460 GLU LYS VAL THR GLN HIS ILE HIS GLY LEU SER GLY LYS SEQRES 16 A 460 LYS ASP GLY LEU VAL PRO MET PHE ILE ASN THR HIS SER SEQRES 17 A 460 GLY LEU PHE THR HIS LEU GLY VAL PHE THR LEU GLY ALA SEQRES 18 A 460 ARG ALA ASP SER TYR TYR GLU TYR LEU LEU LYS GLN TRP SEQRES 19 A 460 ILE GLN GLY GLY LYS GLN GLU THR GLN LEU LEU GLU ASP SEQRES 20 A 460 TYR VAL GLU ALA ILE GLU GLY VAL ARG THR HIS LEU LEU SEQRES 21 A 460 ARG HIS SER GLU PRO SER LYS LEU THR PHE VAL GLY GLU SEQRES 22 A 460 LEU ALA HIS GLY ARG PHE SER ALA LYS MET ASP HIS LEU SEQRES 23 A 460 VAL CYS PHE LEU PRO GLY THR LEU ALA LEU GLY VAL TYR SEQRES 24 A 460 HIS GLY LEU PRO ALA SER HIS MET GLU LEU ALA GLN GLU SEQRES 25 A 460 LEU MET GLU THR CYS TYR GLN MET ASN ARG GLN MET GLU SEQRES 26 A 460 THR GLY LEU SER PRO GLU ILE VAL HIS PHE ASN LEU TYR SEQRES 27 A 460 PRO GLN PRO GLY ARG ARG ASP VAL GLU VAL LYS PRO ALA SEQRES 28 A 460 ASP ARG HIS ASN LEU LEU ARG PRO GLU THR VAL GLU SER SEQRES 29 A 460 LEU PHE TYR LEU TYR ARG VAL THR GLY ASP ARG LYS TYR SEQRES 30 A 460 GLN ASP TRP GLY TRP GLU ILE LEU GLN SER PHE SER ARG SEQRES 31 A 460 PHE THR ARG VAL PRO SER GLY GLY TYR SER SER ILE ASN SEQRES 32 A 460 ASN VAL GLN ASP PRO GLN LYS PRO GLU PRO ARG ASP LYS SEQRES 33 A 460 MET GLU SER PHE PHE LEU GLY GLU THR LEU LYS TYR LEU SEQRES 34 A 460 PHE LEU LEU PHE SER ASP ASP PRO ASN LEU LEU SER LEU SEQRES 35 A 460 ASP ALA TYR VAL PHE ASN THR GLU ALA HIS PRO LEU PRO SEQRES 36 A 460 ILE TRP THR PRO ALA HET CA A 700 1 HET SO4 A 701 5 HET SO4 A 702 5 HET SO4 A 703 5 HET DMJ A 704 11 HETNAM CA CALCIUM ION HETNAM SO4 SULFATE ION HETNAM DMJ 1-DEOXYMANNOJIRIMYCIN FORMUL 2 CA CA 2+ FORMUL 3 SO4 3(O4 S 2-) FORMUL 6 DMJ C6 H13 N O4 FORMUL 7 HOH *399(H2 O) HELIX 1 1 ASN A 247 ALA A 268 1 22 HELIX 2 2 GLY A 288 ALA A 294 1 7 HELIX 3 3 ALA A 294 LEU A 301 1 8 HELIX 4 4 LEU A 303 LYS A 317 1 15 HELIX 5 5 LEU A 328 GLY A 347 1 20 HELIX 6 6 ASP A 348 MET A 363 1 16 HELIX 7 7 PRO A 364 ARG A 367 5 4 HELIX 8 8 VAL A 395 SER A 400 1 6 HELIX 9 9 ILE A 401 GLY A 413 1 13 HELIX 10 10 LYS A 415 LEU A 431 1 17 HELIX 11 11 ALA A 462 GLY A 476 1 15 HELIX 12 12 GLU A 480 LEU A 498 1 19 HELIX 13 13 LEU A 525 CYS A 527 5 3 HELIX 14 14 PHE A 528 HIS A 539 1 12 HELIX 15 15 PRO A 542 GLN A 562 1 21 HELIX 16 16 LYS A 588 ARG A 592 5 5 HELIX 17 17 PRO A 598 GLY A 612 1 15 HELIX 18 18 ARG A 614 THR A 631 1 18 HELIX 19 19 GLU A 657 GLU A 663 1 7 HELIX 20 20 GLU A 663 PHE A 672 1 10 SHEET 1 A 2 GLU A 273 LYS A 275 0 SHEET 2 A 2 SER A 280 SER A 282 -1 N SER A 280 O LYS A 275 SHEET 1 B 3 ASP A 325 ASN A 327 0 SHEET 2 B 3 ASP A 376 ASN A 378 -1 N VAL A 377 O VAL A 326 SHEET 3 B 3 ALA A 384 HIS A 385 -1 O HIS A 385 N ASP A 376 SHEET 1 C 3 SER A 393 THR A 394 0 SHEET 2 C 3 PHE A 442 ILE A 443 -1 N ILE A 443 O SER A 393 SHEET 3 C 3 PHE A 450 THR A 451 -1 N THR A 451 O PHE A 442 SHEET 1 D 3 VAL A 455 PHE A 456 0 SHEET 2 D 3 GLU A 512 ALA A 514 -1 O LEU A 513 N PHE A 456 SHEET 3 D 3 ARG A 517 SER A 519 -1 N ARG A 517 O ALA A 514 SHEET 1 E 2 LEU A 499 HIS A 501 0 SHEET 2 E 2 THR A 508 VAL A 510 -1 O PHE A 509 N ARG A 500 SHEET 1 F 3 LYS A 521 ASP A 523 0 SHEET 2 F 3 ILE A 571 PHE A 574 -1 N VAL A 572 O MET A 522 SHEET 3 F 3 VAL A 585 GLU A 586 -1 N GLU A 586 O HIS A 573 SHEET 1 G 2 TYR A 684 PHE A 686 0 SHEET 2 G 2 PRO A 692 PRO A 694 -1 O LEU A 693 N VAL A 685 SSBOND 1 CYS A 527 CYS A 556 1555 1555 2.03 LINK CA CA A 700 O THR A 688 1555 1555 2.58 LINK CA CA A 700 OG1 THR A 688 1555 1555 2.66 LINK CA CA A 700 O2 DMJ A 704 1555 1555 2.76 LINK CA CA A 700 O HOH A 705 1555 1555 2.69 LINK CA CA A 700 O HOH A 708 1555 1555 2.67 LINK CA CA A 700 O HOH A 710 1555 1555 2.56 LINK CA CA A 700 O HOH A 709 1555 1555 2.81 LINK CA CA A 700 O3 DMJ A 704 1555 1555 2.66 CISPEP 1 GLU A 503 PRO A 504 0 0.00 SITE 1 AC1 6 THR A 688 DMJ A 704 HOH A 705 HOH A 708 SITE 2 AC1 6 HOH A 709 HOH A 710 SITE 1 AC2 3 ARG A 500 HIS A 501 HOH A 926 SITE 1 AC3 4 TRP A 299 ARG A 304 LYS A 435 HOH A 870 SITE 1 AC4 5 TRP A 269 TRP A 313 LYS A 317 HOH A1039 SITE 2 AC4 5 HOH A1076 SITE 1 AC5 13 ARG A 334 ARG A 597 PRO A 598 GLU A 599 SITE 2 AC5 13 PHE A 659 GLU A 663 THR A 688 GLU A 689 SITE 3 AC5 13 CA A 700 HOH A 709 HOH A 710 HOH A 712 SITE 4 AC5 13 HOH A 713 CRYST1 96.174 96.174 137.118 90.00 90.00 120.00 P 31 2 1 6 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 0.010398 0.006003 0.000000 0.00000 SCALE2 0.000000 0.012006 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007293 0.00000