HEADER CELL ADHESION 14-APR-14 4Q4B TITLE CRYSTAL STRUCTURE OF LIMP-2 (SPACE GROUP C2221) COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOSOME MEMBRANE PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HUMAN LIMP-2 LUMINAL DOMAIN; COMPND 5 SYNONYM: 85 KDA LYSOSOMAL MEMBRANE SIALOGLYCOPROTEIN, LGP85, CD36 COMPND 6 ANTIGEN-LIKE 2, LYSOSOME MEMBRANE PROTEIN II, LIMP II, SCAVENGER COMPND 7 RECEPTOR CLASS B MEMBER 2; COMPND 8 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: CD36L2, LIMP2, LIMPII, SCARB2; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK 293S GNTI-; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNEOSEC KEYWDS LYSOSOMAL TARGETING, BETA-GLUCOCEREBROSIDASE, CI-MPR, ER, ENDOSOME, KEYWDS 2 LYSOSOME, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR Y.ZHAO,J.REN,S.PADILLA-PARRA,L.E.FRY,D.I.STUART REVDAT 3 20-SEP-23 4Q4B 1 HETSYN REVDAT 2 29-JUL-20 4Q4B 1 COMPND REMARK SEQADV HETNAM REVDAT 2 2 1 LINK SITE ATOM REVDAT 1 30-JUL-14 4Q4B 0 JRNL AUTH Y.ZHAO,J.REN,S.PADILLA-PARRA,E.E.FRY,D.I.STUART JRNL TITL LYSOSOME SORTING OF BETA-GLUCOCEREBROSIDASE BY LIMP-2 IS JRNL TITL 2 TARGETED BY THE MANNOSE 6-PHOSPHATE RECEPTOR. JRNL REF NAT COMMUN V. 5 4321 2014 JRNL REFN ESSN 2041-1723 JRNL PMID 25027712 JRNL DOI 10.1038/NCOMMS5321 REMARK 2 REMARK 2 RESOLUTION. 2.82 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0069 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.82 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.2 REMARK 3 NUMBER OF REFLECTIONS : 14059 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 + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 770 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.82 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.89 REMARK 3 REFLECTION IN BIN (WORKING SET) : 909 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 77.58 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.4160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3175 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 363 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.96000 REMARK 3 B22 (A**2) : -3.73000 REMARK 3 B33 (A**2) : 9.69000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.412 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.370 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 45.562 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.923 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.873 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3656 ; 0.004 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3286 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5002 ; 0.986 ; 2.068 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7521 ; 0.670 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 391 ; 4.923 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 161 ;35.736 ;24.534 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 543 ;13.054 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;12.444 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 622 ; 0.054 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3778 ; 0.003 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 773 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1567 ; 0.696 ; 4.046 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1566 ; 0.696 ; 4.044 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1957 ; 1.258 ; 6.066 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1958 ; 1.257 ; 6.068 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2088 ; 0.692 ; 4.245 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2088 ; 0.692 ; 4.245 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3046 ; 1.240 ; 6.344 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3840 ; 2.205 ;33.115 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3840 ; 2.205 ;33.115 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 37 A 428 REMARK 3 ORIGIN FOR THE GROUP (A): -3.027 8.999 25.633 REMARK 3 T TENSOR REMARK 3 T11: 0.0299 T22: 0.0975 REMARK 3 T33: 0.2734 T12: -0.0015 REMARK 3 T13: -0.0470 T23: -0.0814 REMARK 3 L TENSOR REMARK 3 L11: 2.5423 L22: 1.1279 REMARK 3 L33: 1.4444 L12: -0.1294 REMARK 3 L13: -0.2305 L23: 0.2648 REMARK 3 S TENSOR REMARK 3 S11: 0.0715 S12: -0.3248 S13: 0.0950 REMARK 3 S21: 0.1085 S22: -0.0438 S23: 0.0173 REMARK 3 S31: -0.0434 S32: -0.1412 S33: -0.0277 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4Q4B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000085586. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9686 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15620 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.2 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.18000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.63600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4F7B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 %W/V POLYETHYLENE GLYCOL 8000, 0.2 REMARK 280 M AMMONIUM SULPHATE, 0.1 M SODIUM CACODYLATE, PH 6.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 108.90800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 108.90800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 31.86450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.97150 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.86450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.97150 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 108.90800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.86450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.97150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 108.90800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.86450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 47.97150 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 GLU A 25 REMARK 465 THR A 26 REMARK 465 GLY A 27 REMARK 465 VAL A 28 REMARK 465 PHE A 29 REMARK 465 GLN A 30 REMARK 465 LYS A 31 REMARK 465 ALA A 32 REMARK 465 VAL A 33 REMARK 465 ASP A 34 REMARK 465 GLN A 35 REMARK 465 SER A 36 REMARK 465 ILE A 429 REMARK 465 ASN A 430 REMARK 465 THR A 431 REMARK 465 GLY A 432 REMARK 465 THR A 433 REMARK 465 LYS A 434 REMARK 465 HIS A 435 REMARK 465 HIS A 436 REMARK 465 HIS A 437 REMARK 465 HIS A 438 REMARK 465 HIS A 439 REMARK 465 HIS A 440 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 ASN A 45 95.35 -68.35 REMARK 500 ASN A 224 52.06 -96.47 REMARK 500 ASP A 238 26.93 -148.65 REMARK 500 SER A 282 -61.54 -107.40 REMARK 500 GLN A 288 -129.57 55.66 REMARK 500 GLU A 315 36.74 -85.78 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 NA A 530 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 392 O REMARK 620 2 PHE A 395 O 68.6 REMARK 620 3 THR A 398 OG1 85.8 74.0 REMARK 620 4 GLY A 399 O 137.2 153.4 98.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 531 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 BMA F 3 O2 REMARK 620 2 MAN F 9 O4 101.4 REMARK 620 N 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Q4F RELATED DB: PDB DBREF 4Q4B A 28 431 UNP Q14108 SCRB2_HUMAN 28 431 SEQADV 4Q4B GLU A 25 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B THR A 26 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B GLY A 27 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B GLY A 432 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B THR A 433 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B LYS A 434 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B HIS A 435 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B HIS A 436 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B HIS A 437 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B HIS A 438 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B HIS A 439 UNP Q14108 EXPRESSION TAG SEQADV 4Q4B HIS A 440 UNP Q14108 EXPRESSION TAG SEQRES 1 A 416 GLU THR GLY VAL PHE GLN LYS ALA VAL ASP GLN SER ILE SEQRES 2 A 416 GLU LYS LYS ILE VAL LEU ARG ASN GLY THR GLU ALA PHE SEQRES 3 A 416 ASP SER TRP GLU LYS PRO PRO LEU PRO VAL TYR THR GLN SEQRES 4 A 416 PHE TYR PHE PHE ASN VAL THR ASN PRO GLU GLU ILE LEU SEQRES 5 A 416 ARG GLY GLU THR PRO ARG VAL GLU GLU VAL GLY PRO TYR SEQRES 6 A 416 THR TYR ARG GLU LEU ARG ASN LYS ALA ASN ILE GLN PHE SEQRES 7 A 416 GLY ASP ASN GLY THR THR ILE SER ALA VAL SER ASN LYS SEQRES 8 A 416 ALA TYR VAL PHE GLU ARG ASP GLN SER VAL GLY ASP PRO SEQRES 9 A 416 LYS ILE ASP LEU ILE ARG THR LEU ASN ILE PRO VAL LEU SEQRES 10 A 416 THR VAL ILE GLU TRP SER GLN VAL HIS PHE LEU ARG GLU SEQRES 11 A 416 ILE ILE GLU ALA MET LEU LYS ALA TYR GLN GLN LYS LEU SEQRES 12 A 416 PHE VAL THR HIS THR VAL ASP GLU LEU LEU TRP GLY TYR SEQRES 13 A 416 LYS ASP GLU ILE LEU SER LEU ILE HIS VAL PHE ARG PRO SEQRES 14 A 416 ASP ILE SER PRO TYR PHE GLY LEU PHE TYR GLU LYS ASN SEQRES 15 A 416 GLY THR ASN ASP GLY ASP TYR VAL PHE LEU THR GLY GLU SEQRES 16 A 416 ASP SER TYR LEU ASN PHE THR LYS ILE VAL GLU TRP ASN SEQRES 17 A 416 GLY LYS THR SER LEU ASP TRP TRP ILE THR ASP LYS CYS SEQRES 18 A 416 ASN MET ILE ASN GLY THR ASP GLY ASP SER PHE HIS PRO SEQRES 19 A 416 LEU ILE THR LYS ASP GLU VAL LEU TYR VAL PHE PRO SER SEQRES 20 A 416 ASP PHE CYS ARG SER VAL TYR ILE THR PHE SER ASP TYR SEQRES 21 A 416 GLU SER VAL GLN GLY LEU PRO ALA PHE ARG TYR LYS VAL SEQRES 22 A 416 PRO ALA GLU ILE LEU ALA ASN THR SER ASP ASN ALA GLY SEQRES 23 A 416 PHE CYS ILE PRO GLU GLY ASN CYS LEU GLY SER GLY VAL SEQRES 24 A 416 LEU ASN VAL SER ILE CYS LYS ASN GLY ALA PRO ILE ILE SEQRES 25 A 416 MET SER PHE PRO HIS PHE TYR GLN ALA ASP GLU ARG PHE SEQRES 26 A 416 VAL SER ALA ILE GLU GLY MET HIS PRO ASN GLN GLU ASP SEQRES 27 A 416 HIS GLU THR PHE VAL ASP ILE ASN PRO LEU THR GLY ILE SEQRES 28 A 416 ILE LEU LYS ALA ALA LYS ARG PHE GLN ILE ASN ILE TYR SEQRES 29 A 416 VAL LYS LYS LEU ASP ASP PHE VAL GLU THR GLY ASP ILE SEQRES 30 A 416 ARG THR MET VAL PHE PRO VAL MET TYR LEU ASN GLU SER SEQRES 31 A 416 VAL HIS ILE ASP LYS GLU THR ALA SER ARG LEU LYS SER SEQRES 32 A 416 MET ILE ASN THR GLY THR LYS HIS HIS HIS HIS HIS HIS MODRES 4Q4B ASN A 45 ASN GLYCOSYLATION SITE MODRES 4Q4B ASN A 249 ASN GLYCOSYLATION SITE MODRES 4Q4B ASN A 206 ASN GLYCOSYLATION SITE MODRES 4Q4B ASN A 325 ASN GLYCOSYLATION SITE MODRES 4Q4B ASN A 224 ASN GLYCOSYLATION SITE MODRES 4Q4B ASN A 68 ASN GLYCOSYLATION SITE MODRES 4Q4B ASN A 304 ASN GLYCOSYLATION SITE MODRES 4Q4B ASN A 412 ASN GLYCOSYLATION SITE HET NAG B 1 14 HET NAG B 2 14 HET BMA B 3 11 HET MAN B 4 11 HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET BMA D 3 11 HET NAG E 1 14 HET NAG E 2 14 HET NAG F 1 14 HET NAG F 2 14 HET BMA F 3 11 HET MAN F 4 11 HET MAN F 5 11 HET MAN F 6 11 HET MAN F 7 11 HET MAN F 8 11 HET MAN F 9 11 HET MAN F 10 11 HET MAN F 11 11 HET NAG G 1 14 HET NAG G 2 14 HET BMA G 3 11 HET MAN G 4 11 HET MAN G 5 11 HET NAG A 501 14 HET NAG A 508 14 HET NA A 530 1 HET NA A 531 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM NA SODIUM ION 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 MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 2 NAG 14(C8 H15 N O6) FORMUL 2 BMA 4(C6 H12 O6) FORMUL 2 MAN 11(C6 H12 O6) FORMUL 10 NA 2(NA 1+) HELIX 1 1 THR A 47 LYS A 55 1 9 HELIX 2 2 ASN A 71 ARG A 77 1 7 HELIX 3 3 ASP A 104 GLY A 106 5 3 HELIX 4 4 ARG A 121 SER A 124 5 4 HELIX 5 5 ASN A 137 VAL A 149 1 13 HELIX 6 6 LEU A 152 TYR A 163 1 12 HELIX 7 7 VAL A 173 GLY A 179 1 7 HELIX 8 8 ASP A 182 ARG A 192 1 11 HELIX 9 9 THR A 242 MET A 247 1 6 HELIX 10 10 PRO A 270 CYS A 274 5 5 HELIX 11 11 PRO A 298 ALA A 303 5 6 HELIX 12 12 ASN A 308 CYS A 312 5 5 HELIX 13 13 PRO A 340 TYR A 343 5 4 HELIX 14 14 ASP A 346 ALA A 352 1 7 HELIX 15 15 ASN A 359 GLU A 364 1 6 HELIX 16 16 ASP A 418 SER A 427 1 10 SHEET 1 A11 LYS A 227 TRP A 231 0 SHEET 2 A11 TYR A 213 LEU A 216 -1 N VAL A 214 O VAL A 229 SHEET 3 A11 THR A 108 PHE A 119 -1 N ILE A 109 O PHE A 215 SHEET 4 A11 VAL A 83 GLY A 103 -1 N ARG A 92 O VAL A 118 SHEET 5 A11 VAL A 60 VAL A 69 -1 N VAL A 60 O GLU A 93 SHEET 6 A11 MET A 404 HIS A 416 -1 O SER A 414 N TYR A 61 SHEET 7 A11 ILE A 375 VAL A 389 -1 N LYS A 381 O GLU A 413 SHEET 8 A11 PHE A 366 ASN A 370 -1 N ASP A 368 O LYS A 378 SHEET 9 A11 LEU A 290 LYS A 296 -1 N TYR A 295 O VAL A 367 SHEET 10 A11 VAL A 277 VAL A 287 -1 N SER A 282 O ARG A 294 SHEET 11 A11 LEU A 266 VAL A 268 -1 N VAL A 268 O VAL A 277 SHEET 1 B 9 LYS A 227 TRP A 231 0 SHEET 2 B 9 TYR A 213 LEU A 216 -1 N VAL A 214 O VAL A 229 SHEET 3 B 9 THR A 108 PHE A 119 -1 N ILE A 109 O PHE A 215 SHEET 4 B 9 VAL A 83 GLY A 103 -1 N ARG A 92 O VAL A 118 SHEET 5 B 9 VAL A 60 VAL A 69 -1 N VAL A 60 O GLU A 93 SHEET 6 B 9 MET A 404 HIS A 416 -1 O SER A 414 N TYR A 61 SHEET 7 B 9 ILE A 375 VAL A 389 -1 N LYS A 381 O GLU A 413 SHEET 8 B 9 ILE A 335 SER A 338 -1 N SER A 338 O GLN A 384 SHEET 9 B 9 VAL A 323 ASN A 325 -1 N LEU A 324 O MET A 337 SHEET 1 C 2 LEU A 132 LEU A 136 0 SHEET 2 C 2 PHE A 168 THR A 172 -1 O HIS A 171 N ILE A 133 SHEET 1 D 2 TYR A 180 LYS A 181 0 SHEET 2 D 2 TYR A 198 PHE A 199 -1 O PHE A 199 N TYR A 180 SSBOND 1 CYS A 274 CYS A 329 1555 1555 2.03 SSBOND 2 CYS A 312 CYS A 318 1555 1555 2.03 LINK ND2 ASN A 45 C1 NAG A 501 1555 1555 1.45 LINK ND2 ASN A 68 C1 NAG B 1 1555 1555 1.45 LINK ND2 ASN A 206 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN A 224 C1 NAG A 508 1555 1555 1.45 LINK ND2 ASN A 249 C1 NAG D 1 1555 1555 1.44 LINK ND2 ASN A 304 C1 NAG E 1 1555 1555 1.45 LINK ND2 ASN A 325 C1 NAG F 1 1555 1555 1.45 LINK ND2 ASN A 412 C1 NAG G 1 1555 1555 1.46 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.44 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.44 LINK O3 BMA B 3 C1 MAN B 4 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.45 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.44 LINK O4 NAG F 1 C1 NAG F 2 1555 1555 1.44 LINK O4 NAG F 2 C1 BMA F 3 1555 1555 1.44 LINK O3 BMA F 3 C1 MAN F 4 1555 1555 1.44 LINK O6 BMA F 3 C1 MAN F 7 1555 1555 1.44 LINK O2 MAN F 4 C1 MAN F 5 1555 1555 1.44 LINK O2 MAN F 5 C1 MAN F 6 1555 1555 1.44 LINK O3 MAN F 7 C1 MAN F 8 1555 1555 1.44 LINK O6 MAN F 7 C1 MAN F 10 1555 1555 1.44 LINK O2 MAN F 8 C1 MAN F 9 1555 1555 1.45 LINK O2 MAN F 10 C1 MAN F 11 1555 1555 1.44 LINK O4 NAG G 1 C1 NAG G 2 1555 1555 1.44 LINK O4 NAG G 2 C1 BMA G 3 1555 1555 1.44 LINK O3 BMA G 3 C1 MAN G 4 1555 1555 1.44 LINK O6 BMA G 3 C1 MAN G 5 1555 1555 1.44 LINK O LEU A 392 NA NA A 530 1555 1555 2.25 LINK O PHE A 395 NA NA A 530 1555 1555 2.26 LINK OG1 THR A 398 NA NA A 530 1555 1555 2.25 LINK O GLY A 399 NA NA A 530 1555 1555 2.27 LINK NA NA A 531 O2 BMA F 3 1555 1555 2.24 LINK NA NA A 531 O4 MAN F 9 1555 1555 2.24 CISPEP 1 GLY A 87 PRO A 88 0 2.53 CISPEP 2 ILE A 313 PRO A 314 0 -1.29 CRYST1 63.729 95.943 217.816 90.00 90.00 90.00 C 2 2 21 8 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 0.015691 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010423 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004591 0.00000