HEADER PROTEIN TRANSPORT,SUGAR BINDING PROTEIN 01-APR-04 1SYO TITLE N-TERMINAL 3 DOMAINS OF CI-MPR BOUND TO MANNOSE 6-PHOSPHATE CAVEAT 1SYO NAG C 2 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CATION-INDEPENDENT MANNOSE 6-PHOSPHATE RECEPTOR; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: N-TERMINAL 3 DOMAINS; COMPND 5 SYNONYM: CI MAN-6-P RECEPTOR; CI-MPR; INSULIN-LIKE GROWTH FACTOR II COMPND 6 RECEPTOR; 300 KDA MANNOSE 6-PHOSPHATE RECEPTOR; MPR 300; MPR30; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 GENE: IGF2R, M6P; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_COMMON: CABBAGE LOOPER; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: 5B1-4 KEYWDS LECTIN; RECEPTOR; MANNOSE 6-PHOSPHATE, PROTEIN TRANSPORT, SUGAR KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.J.OLSON,N.M.DAHMS,J.-J.P.KIM REVDAT 7 25-DEC-24 1SYO 1 REMARK LINK ATOM REVDAT 6 23-AUG-23 1SYO 1 HETSYN REVDAT 5 29-JUL-20 1SYO 1 CAVEAT COMPND REMARK HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 13-JUL-11 1SYO 1 VERSN REVDAT 3 24-FEB-09 1SYO 1 VERSN REVDAT 2 12-OCT-04 1SYO 1 JRNL SOURCE REVDAT 1 29-JUN-04 1SYO 0 JRNL AUTH L.J.OLSON,N.M.DAHMS,J.-J.P.KIM JRNL TITL THE N-TERMINAL CARBOHYDRATE RECOGNITION SITE OF THE JRNL TITL 2 CATION-INDEPENDENT MANNOSE 6-PHOSPHATE RECEPTOR JRNL REF J.BIOL.CHEM. V. 279 34000 2004 JRNL REFN ISSN 0021-9258 JRNL PMID 15169779 JRNL DOI 10.1074/JBC.M404588200 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 88.3 REMARK 3 NUMBER OF REFLECTIONS : 38615 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) : 0.228 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.700 REMARK 3 FREE R VALUE TEST SET COUNT : 2600 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.30 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 58.10 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2992 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 160 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.026 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6429 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 126 REMARK 3 SOLVENT ATOMS : 336 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.73000 REMARK 3 B22 (A**2) : -4.71000 REMARK 3 B33 (A**2) : 11.44000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 6.16000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.43 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) : 0.41 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.52 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : CNS BULK SOLVENT MODEL USED REMARK 3 KSOL : 0.33 REMARK 3 BSOL : 41.38 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1SYO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-APR-04. REMARK 100 THE DEPOSITION ID IS D_1000022096. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAY-00 REMARK 200 TEMPERATURE (KELVIN) : 103.0 REMARK 200 PH : 6.35 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : CONFOCAL BLUE REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38820 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 29.960 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 55.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.30100 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1Q25 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 4000, 0.1M SODIUM CACODYLATE REMARK 280 (PH 6.35), 150MM NACL, 50 MM IMIDAZOLE (PH 6.7), 10 MM MANGANESE REMARK 280 CHLORIDE, 5MM BETA-GLYCEROPHOSPHATE, 10 MM MANNOSE 6-PHOSPHATE, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K 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 43.20000 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 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 ALA A 1 REMARK 465 ALA A 2 REMARK 465 GLY A 3 REMARK 465 THR A 4 REMARK 465 GLN A 5 REMARK 465 GLY A 6 REMARK 465 VAL A 309 REMARK 465 GLU A 310 REMARK 465 ALA A 311 REMARK 465 SER A 312 REMARK 465 ALA B 1001 REMARK 465 ALA B 1002 REMARK 465 GLY B 1003 REMARK 465 THR B 1004 REMARK 465 GLN B 1005 REMARK 465 GLY B 1006 REMARK 465 CYS B 1081 REMARK 465 LYS B 1082 REMARK 465 GLN B 1083 REMARK 465 GLN B 1084 REMARK 465 ASN B 1085 REMARK 465 HIS B 1086 REMARK 465 LYS B 1087 REMARK 465 GLU B 1229 REMARK 465 GLY B 1230 REMARK 465 ALA B 1231 REMARK 465 GLY B 1232 REMARK 465 GLN B 1233 REMARK 465 PRO B 1234 REMARK 465 ASP B 1235 REMARK 465 GLU B 1310 REMARK 465 ALA B 1311 REMARK 465 SER B 1312 REMARK 465 ASP B 1313 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD1 ASN B 1076 C1 NAG B 1501 1.29 REMARK 500 OD1 ASN B 1365 C1 NAG B 1502 1.50 REMARK 500 OD1 ASN A 76 C1 NDG C 1 1.52 REMARK 500 O3 NDG C 1 O1 NAG C 2 1.92 REMARK 500 OD1 ASN B 1076 O5 NAG B 1501 1.98 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 203 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 308 NE - CZ - NH2 ANGL. DEV. = -3.5 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 39 -55.65 -1.22 REMARK 500 GLN A 40 9.69 -60.16 REMARK 500 ASP A 55 58.74 34.64 REMARK 500 THR A 107 157.62 173.67 REMARK 500 ASP A 110 -34.65 -38.62 REMARK 500 ASN A 126 8.97 -59.78 REMARK 500 CYS A 174 13.97 59.76 REMARK 500 LEU A 180 -70.23 -31.67 REMARK 500 ARG A 181 72.19 -112.26 REMARK 500 ASP A 202 71.98 41.20 REMARK 500 ARG A 203 -22.74 -143.82 REMARK 500 ALA A 204 99.75 34.33 REMARK 500 GLN A 211 -60.64 -136.22 REMARK 500 ASN A 219 -5.43 76.78 REMARK 500 ASP A 220 -59.52 -136.50 REMARK 500 LYS A 228 49.12 -145.72 REMARK 500 ASP A 238 75.68 44.32 REMARK 500 LYS A 265 32.52 -151.54 REMARK 500 CYS A 268 19.40 52.27 REMARK 500 LEU A 315 22.22 -75.62 REMARK 500 CYS A 331 71.70 46.80 REMARK 500 ASN A 340 30.62 -70.39 REMARK 500 ASP A 353 84.85 -176.20 REMARK 500 SER A 354 -3.50 -53.56 REMARK 500 ASN A 365 69.75 -105.68 REMARK 500 PHE A 380 -159.07 -134.26 REMARK 500 SER A 386 -36.06 -37.28 REMARK 500 GLU B1008 86.47 56.22 REMARK 500 ASN B1035 53.16 -147.27 REMARK 500 ALA B1039 -38.52 -39.30 REMARK 500 LEU B1065 56.79 -102.91 REMARK 500 VAL B1106 -70.91 -100.37 REMARK 500 THR B1109 -150.66 -74.21 REMARK 500 ASP B1162 -152.05 -139.97 REMARK 500 SER B1163 -53.53 -128.89 REMARK 500 GLN B1211 -82.30 -122.86 REMARK 500 CYS B1290 24.66 -79.04 REMARK 500 PRO B1305 -13.86 -48.26 REMARK 500 CYS B1331 75.39 47.39 REMARK 500 ASP B1353 76.43 -165.25 REMARK 500 SER B1354 -16.23 -44.91 REMARK 500 ASN B1365 73.07 -116.16 REMARK 500 ASN B1400 101.41 -162.33 REMARK 500 ALA B1403 145.79 -36.96 REMARK 500 TYR B1429 1.67 -58.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 70 0.29 SIDE CHAIN REMARK 500 ARG A 369 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 NDG C 1 REMARK 610 NAG B 1501 REMARK 610 NAG B 1502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1Q25 RELATED DB: PDB REMARK 900 N-TERMINAL 3 DOMAINS OF THE CATION INDEPENDENT MANNOSE 6-PHOSPHATE REMARK 900 RECEPTOR REMARK 900 RELATED ID: 1SZ0 RELATED DB: PDB DBREF 1SYO A 1 432 UNP P08169 MPRI_BOVIN 45 476 DBREF 1SYO B 1001 1432 UNP P08169 MPRI_BOVIN 45 476 SEQRES 1 A 432 ALA ALA GLY THR GLN GLY ALA GLU PHE PRO GLU LEU CYS SEQRES 2 A 432 SER TYR THR TRP GLU ALA VAL ASP THR LYS ASN ASN MET SEQRES 3 A 432 LEU TYR LYS ILE ASN ILE CYS GLY ASN MET GLY VAL ALA SEQRES 4 A 432 GLN CYS GLY PRO SER SER ALA VAL CYS MET HIS ASP LEU SEQRES 5 A 432 LYS THR ASP SER PHE HIS SER VAL GLY ASP SER LEU LEU SEQRES 6 A 432 LYS THR ALA SER ARG SER LEU LEU GLU PHE ASN THR THR SEQRES 7 A 432 VAL ASN CYS LYS GLN GLN ASN HIS LYS ILE GLN SER SER SEQRES 8 A 432 ILE THR PHE LEU CYS GLY LYS THR LEU GLY THR PRO GLU SEQRES 9 A 432 PHE VAL THR ALA THR ASP CYS VAL HIS TYR PHE GLU TRP SEQRES 10 A 432 ARG THR THR ALA ALA CYS LYS LYS ASN ILE PHE LYS ALA SEQRES 11 A 432 ASN LYS GLU VAL PRO CYS TYR ALA PHE ASP ARG GLU LEU SEQRES 12 A 432 LYS LYS HIS ASP LEU ASN PRO LEU ILE LYS THR SER GLY SEQRES 13 A 432 ALA TYR LEU VAL ASP ASP SER ASP PRO ASP THR SER LEU SEQRES 14 A 432 PHE ILE ASN VAL CYS ARG ASP ILE GLU VAL LEU ARG ALA SEQRES 15 A 432 SER SER PRO GLN VAL ARG VAL CYS PRO THR GLY ALA ALA SEQRES 16 A 432 ALA CYS LEU VAL ARG GLY ASP ARG ALA PHE ASP VAL GLY SEQRES 17 A 432 ARG PRO GLN GLU GLY LEU LYS LEU VAL SER ASN ASP ARG SEQRES 18 A 432 LEU VAL LEU SER TYR VAL LYS GLU GLY ALA GLY GLN PRO SEQRES 19 A 432 ASP PHE CYS ASP GLY HIS SER PRO ALA VAL THR ILE THR SEQRES 20 A 432 PHE VAL CYS PRO SER GLU ARG ARG GLU GLY THR ILE PRO SEQRES 21 A 432 LYS LEU THR ALA LYS SER ASN CYS ARG PHE GLU ILE GLU SEQRES 22 A 432 TRP VAL THR GLU TYR ALA CYS HIS ARG ASP TYR LEU GLU SEQRES 23 A 432 SER ARG SER CYS SER LEU SER SER ALA GLN HIS ASP VAL SEQRES 24 A 432 ALA VAL ASP LEU GLN PRO LEU SER ARG VAL GLU ALA SER SEQRES 25 A 432 ASP SER LEU PHE TYR THR SER GLU ALA ASP GLU TYR THR SEQRES 26 A 432 TYR TYR LEU SER ILE CYS GLY GLY SER GLN ALA PRO ILE SEQRES 27 A 432 CYS ASN LYS LYS ASP ALA ALA VAL CYS GLN VAL LYS LYS SEQRES 28 A 432 ALA ASP SER THR GLN VAL LYS VAL ALA GLY ARG PRO GLN SEQRES 29 A 432 ASN LEU THR LEU ARG TYR SER ASP GLY ASP LEU THR LEU SEQRES 30 A 432 ILE TYR PHE GLY GLY GLU GLU CYS SER SER GLY PHE GLN SEQRES 31 A 432 ARG MET SER VAL ILE ASN PHE GLU CYS ASN GLN THR ALA SEQRES 32 A 432 GLY ASN ASN GLY ARG GLY ALA PRO VAL PHE THR GLY GLU SEQRES 33 A 432 VAL ASP CYS THR TYR PHE PHE THR TRP ASP THR LYS TYR SEQRES 34 A 432 ALA CYS VAL SEQRES 1 B 432 ALA ALA GLY THR GLN GLY ALA GLU PHE PRO GLU LEU CYS SEQRES 2 B 432 SER TYR THR TRP GLU ALA VAL ASP THR LYS ASN ASN MET SEQRES 3 B 432 LEU TYR LYS ILE ASN ILE CYS GLY ASN MET GLY VAL ALA SEQRES 4 B 432 GLN CYS GLY PRO SER SER ALA VAL CYS MET HIS ASP LEU SEQRES 5 B 432 LYS THR ASP SER PHE HIS SER VAL GLY ASP SER LEU LEU SEQRES 6 B 432 LYS THR ALA SER ARG SER LEU LEU GLU PHE ASN THR THR SEQRES 7 B 432 VAL ASN CYS LYS GLN GLN ASN HIS LYS ILE GLN SER SER SEQRES 8 B 432 ILE THR PHE LEU CYS GLY LYS THR LEU GLY THR PRO GLU SEQRES 9 B 432 PHE VAL THR ALA THR ASP CYS VAL HIS TYR PHE GLU TRP SEQRES 10 B 432 ARG THR THR ALA ALA CYS LYS LYS ASN ILE PHE LYS ALA SEQRES 11 B 432 ASN LYS GLU VAL PRO CYS TYR ALA PHE ASP ARG GLU LEU SEQRES 12 B 432 LYS LYS HIS ASP LEU ASN PRO LEU ILE LYS THR SER GLY SEQRES 13 B 432 ALA TYR LEU VAL ASP ASP SER ASP PRO ASP THR SER LEU SEQRES 14 B 432 PHE ILE ASN VAL CYS ARG ASP ILE GLU VAL LEU ARG ALA SEQRES 15 B 432 SER SER PRO GLN VAL ARG VAL CYS PRO THR GLY ALA ALA SEQRES 16 B 432 ALA CYS LEU VAL ARG GLY ASP ARG ALA PHE ASP VAL GLY SEQRES 17 B 432 ARG PRO GLN GLU GLY LEU LYS LEU VAL SER ASN ASP ARG SEQRES 18 B 432 LEU VAL LEU SER TYR VAL LYS GLU GLY ALA GLY GLN PRO SEQRES 19 B 432 ASP PHE CYS ASP GLY HIS SER PRO ALA VAL THR ILE THR SEQRES 20 B 432 PHE VAL CYS PRO SER GLU ARG ARG GLU GLY THR ILE PRO SEQRES 21 B 432 LYS LEU THR ALA LYS SER ASN CYS ARG PHE GLU ILE GLU SEQRES 22 B 432 TRP VAL THR GLU TYR ALA CYS HIS ARG ASP TYR LEU GLU SEQRES 23 B 432 SER ARG SER CYS SER LEU SER SER ALA GLN HIS ASP VAL SEQRES 24 B 432 ALA VAL ASP LEU GLN PRO LEU SER ARG VAL GLU ALA SER SEQRES 25 B 432 ASP SER LEU PHE TYR THR SER GLU ALA ASP GLU TYR THR SEQRES 26 B 432 TYR TYR LEU SER ILE CYS GLY GLY SER GLN ALA PRO ILE SEQRES 27 B 432 CYS ASN LYS LYS ASP ALA ALA VAL CYS GLN VAL LYS LYS SEQRES 28 B 432 ALA ASP SER THR GLN VAL LYS VAL ALA GLY ARG PRO GLN SEQRES 29 B 432 ASN LEU THR LEU ARG TYR SER ASP GLY ASP LEU THR LEU SEQRES 30 B 432 ILE TYR PHE GLY GLY GLU GLU CYS SER SER GLY PHE GLN SEQRES 31 B 432 ARG MET SER VAL ILE ASN PHE GLU CYS ASN GLN THR ALA SEQRES 32 B 432 GLY ASN ASN GLY ARG GLY ALA PRO VAL PHE THR GLY GLU SEQRES 33 B 432 VAL ASP CYS THR TYR PHE PHE THR TRP ASP THR LYS TYR SEQRES 34 B 432 ALA CYS VAL MODRES 1SYO ASN A 76 ASN GLYCOSYLATION SITE MODRES 1SYO ASN A 365 ASN GLYCOSYLATION SITE MODRES 1SYO ASN B 1076 ASN GLYCOSYLATION SITE MODRES 1SYO ASN B 1365 ASN GLYCOSYLATION SITE HET NDG C 1 14 HET NAG C 2 15 HET BMA C 3 11 HET NAG A 601 14 HET M6P A 602 16 HET GOL A 603 6 HET NAG B1501 14 HET NAG B1502 14 HET M6P B1503 16 HET GOL B1504 6 HETNAM NDG 2-ACETAMIDO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM M6P 6-O-PHOSPHONO-ALPHA-D-MANNOPYRANOSE HETNAM GOL GLYCEROL HETSYN NDG N-ACETYL-ALPHA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 NDG ALPHA-D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2- HETSYN 3 NDG ACETAMIDO-2-DEOXY-GLUCOSE; 2-(ACETYLAMINO)-2-DEOXY-A- HETSYN 4 NDG D-GLUCOPYRANOSE 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN M6P ALPHA-D-MANNOSE-6-PHOSPHATE; 6-O-PHOSPHONO-ALPHA-D- HETSYN 2 M6P MANNOSE; 6-O-PHOSPHONO-D-MANNOSE; 6-O-PHOSPHONO- HETSYN 3 M6P MANNOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 NDG C8 H15 N O6 FORMUL 3 NAG 4(C8 H15 N O6) FORMUL 3 BMA C6 H12 O6 FORMUL 5 M6P 2(C6 H13 O9 P) FORMUL 6 GOL 2(C3 H8 O3) FORMUL 11 HOH *336(H2 O) HELIX 1 1 PHE A 9 CYS A 13 5 5 HELIX 2 2 VAL A 38 GLY A 42 5 5 HELIX 3 3 THR A 120 CYS A 123 5 4 HELIX 4 4 LYS A 125 LYS A 129 5 5 HELIX 5 5 ASN A 149 ILE A 152 5 4 HELIX 6 6 PRO A 234 ASP A 238 5 5 HELIX 7 7 LYS A 265 ASN A 267 5 3 HELIX 8 8 GLU A 277 CYS A 280 5 4 HELIX 9 9 HIS A 281 LEU A 285 1 5 HELIX 10 10 SER A 293 ASP A 298 1 6 HELIX 11 11 GLN A 304 ARG A 308 5 5 HELIX 12 12 ALA A 336 ASN A 340 5 5 HELIX 13 13 LYS A 428 CYS A 431 5 4 HELIX 14 14 PHE B 1009 CYS B 1013 5 5 HELIX 15 15 THR B 1120 CYS B 1123 5 4 HELIX 16 16 ASN B 1149 ILE B 1152 5 4 HELIX 17 17 SER B 1184 VAL B 1189 1 6 HELIX 18 18 GLU B 1277 CYS B 1280 5 4 HELIX 19 19 HIS B 1281 TYR B 1284 5 4 HELIX 20 20 SER B 1293 ASP B 1298 1 6 HELIX 21 21 GLN B 1304 ARG B 1308 5 5 HELIX 22 22 ALA B 1336 ASN B 1340 5 5 HELIX 23 23 LYS B 1428 CYS B 1431 5 4 SHEET 1 A 4 TRP A 17 ASP A 21 0 SHEET 2 A 4 MET A 26 ILE A 30 -1 O ILE A 30 N TRP A 17 SHEET 3 A 4 SER A 45 ASP A 51 -1 O CYS A 48 N LYS A 29 SHEET 4 A 4 SER A 56 ASP A 62 -1 O HIS A 58 N MET A 49 SHEET 1 B 5 LYS A 66 ALA A 68 0 SHEET 2 B 5 LEU A 72 ASN A 80 -1 O GLU A 74 N THR A 67 SHEET 3 B 5 LYS A 87 CYS A 96 -1 O ILE A 92 N LEU A 73 SHEET 4 B 5 VAL A 112 THR A 119 1 O THR A 119 N LEU A 95 SHEET 5 B 5 PRO A 103 ALA A 108 -1 N GLU A 104 O GLU A 116 SHEET 1 C 2 TYR A 137 PHE A 139 0 SHEET 2 C 2 LYS A 145 ASP A 147 -1 O HIS A 146 N ALA A 138 SHEET 1 D 4 TYR A 158 LEU A 159 0 SHEET 2 D 4 THR A 167 ILE A 171 -1 O ILE A 171 N TYR A 158 SHEET 3 D 4 ALA A 196 ARG A 200 -1 O CYS A 197 N PHE A 170 SHEET 4 D 4 PHE A 205 ASP A 206 -1 O PHE A 205 N LEU A 198 SHEET 1 E 3 ARG A 209 PRO A 210 0 SHEET 2 E 3 LEU A 222 VAL A 227 -1 O VAL A 227 N ARG A 209 SHEET 3 E 3 LYS A 215 LEU A 216 -1 N LYS A 215 O VAL A 223 SHEET 1 F 5 ARG A 209 PRO A 210 0 SHEET 2 F 5 LEU A 222 VAL A 227 -1 O VAL A 227 N ARG A 209 SHEET 3 F 5 ALA A 243 VAL A 249 -1 O PHE A 248 N LEU A 222 SHEET 4 F 5 ARG A 269 VAL A 275 1 O TRP A 274 N THR A 247 SHEET 5 F 5 LYS A 261 ALA A 264 -1 N LYS A 261 O GLU A 273 SHEET 1 G 6 GLU A 286 SER A 287 0 SHEET 2 G 6 ARG A 362 SER A 371 -1 O LEU A 368 N SER A 287 SHEET 3 G 6 ASP A 374 PHE A 380 -1 O ILE A 378 N THR A 367 SHEET 4 G 6 MET A 392 CYS A 399 -1 O ILE A 395 N LEU A 377 SHEET 5 G 6 THR A 420 THR A 427 1 O PHE A 423 N ASN A 396 SHEET 6 G 6 PRO A 411 GLU A 416 -1 N GLY A 415 O PHE A 422 SHEET 1 H 2 SER A 291 LEU A 292 0 SHEET 2 H 2 VAL A 301 ASP A 302 -1 O VAL A 301 N LEU A 292 SHEET 1 I 4 TYR A 317 GLU A 320 0 SHEET 2 I 4 TYR A 324 LEU A 328 -1 O TYR A 326 N SER A 319 SHEET 3 I 4 VAL A 346 LYS A 350 -1 O CYS A 347 N TYR A 327 SHEET 4 I 4 ASP A 353 VAL A 359 -1 O LYS A 358 N GLN A 348 SHEET 1 J 4 TRP B1017 ASP B1021 0 SHEET 2 J 4 MET B1026 ILE B1030 -1 O ILE B1030 N TRP B1017 SHEET 3 J 4 SER B1045 ASP B1051 -1 O HIS B1050 N LEU B1027 SHEET 4 J 4 SER B1056 ASP B1062 -1 O GLY B1061 N ALA B1046 SHEET 1 K 5 LYS B1066 SER B1069 0 SHEET 2 K 5 LEU B1072 ASN B1076 -1 O GLU B1074 N THR B1067 SHEET 3 K 5 GLN B1089 CYS B1096 -1 O ILE B1092 N LEU B1073 SHEET 4 K 5 VAL B1112 THR B1119 1 O TRP B1117 N THR B1093 SHEET 5 K 5 PRO B1103 ALA B1108 -1 N GLU B1104 O GLU B1116 SHEET 1 L 2 TYR B1137 PHE B1139 0 SHEET 2 L 2 LYS B1145 ASP B1147 -1 O HIS B1146 N ALA B1138 SHEET 1 M 6 TYR B1158 VAL B1160 0 SHEET 2 M 6 THR B1167 ILE B1171 -1 O ILE B1171 N TYR B1158 SHEET 3 M 6 ALA B1196 ARG B1200 -1 O CYS B1197 N PHE B1170 SHEET 4 M 6 ARG B1203 PRO B1210 -1 O ARG B1203 N ARG B1200 SHEET 5 M 6 ARG B1221 VAL B1227 -1 O VAL B1227 N ARG B1209 SHEET 6 M 6 LYS B1215 SER B1218 -1 N LYS B1215 O VAL B1223 SHEET 1 N 8 TYR B1158 VAL B1160 0 SHEET 2 N 8 THR B1167 ILE B1171 -1 O ILE B1171 N TYR B1158 SHEET 3 N 8 ALA B1196 ARG B1200 -1 O CYS B1197 N PHE B1170 SHEET 4 N 8 ARG B1203 PRO B1210 -1 O ARG B1203 N ARG B1200 SHEET 5 N 8 ARG B1221 VAL B1227 -1 O VAL B1227 N ARG B1209 SHEET 6 N 8 ALA B1243 VAL B1249 -1 O VAL B1244 N TYR B1226 SHEET 7 N 8 ARG B1269 VAL B1275 1 O ILE B1272 N THR B1247 SHEET 8 N 8 LYS B1261 LYS B1265 -1 N LYS B1261 O GLU B1273 SHEET 1 O 6 GLU B1286 SER B1287 0 SHEET 2 O 6 LEU B1366 SER B1371 -1 O LEU B1368 N SER B1287 SHEET 3 O 6 ASP B1374 TYR B1379 -1 O THR B1376 N ARG B1369 SHEET 4 O 6 MET B1392 CYS B1399 -1 O SER B1393 N TYR B1379 SHEET 5 O 6 THR B1420 THR B1427 1 O PHE B1423 N ASN B1396 SHEET 6 O 6 VAL B1412 VAL B1417 -1 N THR B1414 O PHE B1422 SHEET 1 P 2 SER B1291 LEU B1292 0 SHEET 2 P 2 VAL B1301 ASP B1302 -1 O VAL B1301 N LEU B1292 SHEET 1 Q 4 TYR B1317 GLU B1320 0 SHEET 2 Q 4 TYR B1324 LEU B1328 -1 O TYR B1326 N SER B1319 SHEET 3 Q 4 VAL B1346 LYS B1350 -1 O CYS B1347 N TYR B1327 SHEET 4 Q 4 VAL B1357 VAL B1359 -1 O LYS B1358 N GLN B1348 SSBOND 1 CYS A 13 CYS A 33 1555 1555 2.03 SSBOND 2 CYS A 41 CYS A 48 1555 1555 2.02 SSBOND 3 CYS A 81 CYS A 111 1555 1555 2.03 SSBOND 4 CYS A 96 CYS A 123 1555 1555 2.02 SSBOND 5 CYS A 136 CYS A 174 1555 1555 2.01 SSBOND 6 CYS A 190 CYS A 197 1555 1555 2.03 SSBOND 7 CYS A 237 CYS A 268 1555 1555 2.03 SSBOND 8 CYS A 250 CYS A 280 1555 1555 2.04 SSBOND 9 CYS A 290 CYS A 331 1555 1555 2.03 SSBOND 10 CYS A 339 CYS A 347 1555 1555 2.03 SSBOND 11 CYS A 385 CYS A 419 1555 1555 2.02 SSBOND 12 CYS A 399 CYS A 431 1555 1555 2.03 SSBOND 13 CYS B 1013 CYS B 1033 1555 1555 2.03 SSBOND 14 CYS B 1041 CYS B 1048 1555 1555 2.02 SSBOND 15 CYS B 1096 CYS B 1123 1555 1555 2.04 SSBOND 16 CYS B 1136 CYS B 1174 1555 1555 2.04 SSBOND 17 CYS B 1190 CYS B 1197 1555 1555 2.02 SSBOND 18 CYS B 1237 CYS B 1268 1555 1555 2.03 SSBOND 19 CYS B 1250 CYS B 1280 1555 1555 2.03 SSBOND 20 CYS B 1290 CYS B 1331 1555 1555 2.03 SSBOND 21 CYS B 1339 CYS B 1347 1555 1555 2.03 SSBOND 22 CYS B 1385 CYS B 1419 1555 1555 2.03 SSBOND 23 CYS B 1399 CYS B 1431 1555 1555 2.02 LINK ND2 ASN A 365 C1 NAG A 601 1555 1555 1.46 LINK O4 NDG C 1 C1 NAG C 2 1555 1555 1.39 LINK O4 NAG C 2 C1 BMA C 3 1555 1555 1.39 CRYST1 61.400 86.400 86.900 90.00 108.80 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 0.016287 0.000000 0.005544 0.00000 SCALE2 0.000000 0.011574 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012156 0.00000