HEADER VIRAL PROTEIN/TRANSPORT PROTEIN 30-NOV-15 5F1B TITLE STRUCTURAL BASIS OF EBOLA VIRUS ENTRY: VIRAL GLYCOPROTEIN BOUND TO ITS TITLE 2 ENDOSOMAL RECEPTOR NIEMANN-PICK C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GP1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 32-188; COMPND 5 SYNONYM: GP1,2,GP; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GP2; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 509-598; COMPND 11 SYNONYM: GP1,2,GP; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: NIEMANN-PICK C1 PROTEIN; COMPND 15 CHAIN: C; COMPND 16 FRAGMENT: UNP RESIDUES 374-620; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZAIRE EBOLAVIRUS; SOURCE 3 ORGANISM_COMMON: ZEBOV; SOURCE 4 ORGANISM_TAXID: 128951; SOURCE 5 STRAIN: KIKWIT-95; SOURCE 6 GENE: GP; SOURCE 7 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE CELLS; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PFASTBAC1; SOURCE 12 MOL_ID: 2; SOURCE 13 ORGANISM_SCIENTIFIC: ZAIRE EBOLAVIRUS; SOURCE 14 ORGANISM_COMMON: ZEBOV; SOURCE 15 ORGANISM_TAXID: 128951; SOURCE 16 STRAIN: KIKWIT-95; SOURCE 17 GENE: GP; SOURCE 18 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 20 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE CELLS; SOURCE 21 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 22 EXPRESSION_SYSTEM_VECTOR: PFASTBAC1; SOURCE 23 MOL_ID: 3; SOURCE 24 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 25 ORGANISM_COMMON: HUMAN; SOURCE 26 ORGANISM_TAXID: 9606; SOURCE 27 GENE: NPC1; SOURCE 28 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 29 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS EBOLA VIRUS, GLYCOPROTEIN, NPC1-C, VIRAL PROTEIN-TRANSPORT PROTEIN KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.WANG,Y.SHI,J.SONG,J.QI,G.LU,J.YAN,G.F.GAO REVDAT 5 09-OCT-24 5F1B 1 REMARK REVDAT 4 08-NOV-23 5F1B 1 HETSYN REVDAT 3 29-JUL-20 5F1B 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 27-JAN-16 5F1B 1 JRNL REVDAT 1 20-JAN-16 5F1B 0 JRNL AUTH H.WANG,Y.SHI,J.SONG,J.QI,G.LU,J.YAN,G.F.GAO JRNL TITL EBOLA VIRAL GLYCOPROTEIN BOUND TO ITS ENDOSOMAL RECEPTOR JRNL TITL 2 NIEMANN-PICK C1. JRNL REF CELL V. 164 258 2016 JRNL REFN ISSN 1097-4172 JRNL PMID 26771495 JRNL DOI 10.1016/J.CELL.2015.12.044 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 27310 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1369 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 41.8651 - 4.9509 1.00 2657 141 0.1748 0.2222 REMARK 3 2 4.9509 - 3.9306 1.00 2605 137 0.1467 0.1904 REMARK 3 3 3.9306 - 3.4340 1.00 2587 145 0.1713 0.1976 REMARK 3 4 3.4340 - 3.1202 1.00 2601 144 0.1971 0.2563 REMARK 3 5 3.1202 - 2.8966 1.00 2603 109 0.2022 0.2875 REMARK 3 6 2.8966 - 2.7259 1.00 2586 142 0.1978 0.2719 REMARK 3 7 2.7259 - 2.5894 1.00 2594 137 0.2071 0.2677 REMARK 3 8 2.5894 - 2.4767 1.00 2584 146 0.2061 0.2513 REMARK 3 9 2.4767 - 2.3813 1.00 2567 127 0.2130 0.2849 REMARK 3 10 2.3813 - 2.2992 1.00 2557 141 0.2343 0.2800 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.610 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3761 REMARK 3 ANGLE : 1.152 5123 REMARK 3 CHIRALITY : 0.052 567 REMARK 3 PLANARITY : 0.006 667 REMARK 3 DIHEDRAL : 14.571 1333 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 30.2833 -16.3893-320.9409 REMARK 3 T TENSOR REMARK 3 T11: 0.2617 T22: 0.2557 REMARK 3 T33: 0.2749 T12: 0.0041 REMARK 3 T13: 0.0421 T23: 0.0374 REMARK 3 L TENSOR REMARK 3 L11: 0.3580 L22: 0.2324 REMARK 3 L33: 0.1052 L12: -0.1253 REMARK 3 L13: 0.2223 L23: -0.1891 REMARK 3 S TENSOR REMARK 3 S11: -0.0216 S12: -0.0146 S13: 0.0127 REMARK 3 S21: -0.0221 S22: 0.0372 S23: 0.0583 REMARK 3 S31: 0.0118 S32: -0.0441 S33: -0.0000 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5F1B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1000215827. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27329 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 19.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: 3CSY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% (V/V) PENTAERYTHRITOLPROPOXYLATE, REMARK 280 0.2M SODIUM CHLORIDE, PH 5.5, 0.1M MES-NAOH, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 0.00000 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 0.00000 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 46.88850 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 46.88850 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 46.88850 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 ASP B 522 REMARK 465 GLU B 523 REMARK 465 GLY B 524 REMARK 465 GLY B 599 REMARK 465 THR B 600 REMARK 465 CYS B 601 REMARK 465 HIS B 602 REMARK 465 ILE B 603 REMARK 465 LEU B 604 REMARK 465 GLY B 605 REMARK 465 PRO B 606 REMARK 465 ASP B 607 REMARK 465 CYS B 608 REMARK 465 CYS B 609 REMARK 465 ILE B 610 REMARK 465 GLU B 611 REMARK 465 PRO B 612 REMARK 465 HIS B 613 REMARK 465 ASP B 614 REMARK 465 TRP B 615 REMARK 465 THR B 616 REMARK 465 LYS B 617 REMARK 465 ASN B 618 REMARK 465 ILE B 619 REMARK 465 THR B 620 REMARK 465 ASP B 621 REMARK 465 LYS B 622 REMARK 465 ILE B 623 REMARK 465 ASP B 624 REMARK 465 GLN B 625 REMARK 465 ILE B 626 REMARK 465 ILE B 627 REMARK 465 HIS B 628 REMARK 465 ASP B 629 REMARK 465 PHE B 630 REMARK 465 VAL B 631 REMARK 465 ASP B 632 REMARK 465 HIS B 633 REMARK 465 HIS B 634 REMARK 465 HIS B 635 REMARK 465 HIS B 636 REMARK 465 HIS B 637 REMARK 465 HIS B 638 REMARK 465 MET C 1 REMARK 465 THR C 2 REMARK 465 THR C 3 REMARK 465 ASN C 4 REMARK 465 PRO C 5 REMARK 465 VAL C 6 REMARK 465 ASP C 7 REMARK 465 LEU C 8 REMARK 465 TRP C 9 REMARK 465 SER C 10 REMARK 465 ALA C 11 REMARK 465 PRO C 12 REMARK 465 SER C 13 REMARK 465 SER C 14 REMARK 465 GLN C 15 REMARK 465 ALA C 16 REMARK 465 ARG C 17 REMARK 465 ALA C 233 REMARK 465 GLU C 234 REMARK 465 ARG C 235 REMARK 465 SER C 236 REMARK 465 ILE C 237 REMARK 465 GLU C 238 REMARK 465 ASP C 239 REMARK 465 GLU C 240 REMARK 465 LEU C 241 REMARK 465 ASN C 242 REMARK 465 ARG C 243 REMARK 465 GLU C 244 REMARK 465 SER C 245 REMARK 465 ASP C 246 REMARK 465 SER C 247 REMARK 465 ASP C 248 REMARK 465 LEU C 249 REMARK 465 GLU C 250 REMARK 465 HIS C 251 REMARK 465 HIS C 252 REMARK 465 HIS C 253 REMARK 465 HIS C 254 REMARK 465 HIS C 255 REMARK 465 HIS C 256 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 LYS A 50 CG CD CE NZ REMARK 470 VAL A 52 CG1 CG2 REMARK 470 ARG A 54 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 56 CG CD CE NZ REMARK 470 TRP B 597 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 597 CZ3 CH2 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 NZ LYS B 510 O6 NAG D 1 1.86 REMARK 500 O HOH A 263 O HOH A 271 2.02 REMARK 500 O HOH A 267 O HOH A 275 2.03 REMARK 500 O HOH A 270 O HOH A 274 2.05 REMARK 500 O GLU B 564 O HOH B 801 2.08 REMARK 500 REMARK 500 REMARK: NULL 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 O HOH A 251 O HOH B 815 3655 2.00 REMARK 500 ND2 ASN B 550 O HOH C 329 5555 2.07 REMARK 500 OH TYR A 137 ND2 ASN C 217 5555 2.19 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 HIS A 39 -97.70 -93.64 REMARK 500 SER A 41 19.33 -150.61 REMARK 500 VAL A 45 92.78 -67.49 REMARK 500 SER A 46 -152.69 -111.94 REMARK 500 ASP A 49 25.53 -76.37 REMARK 500 LYS A 50 -32.46 -173.40 REMARK 500 LEU A 51 95.82 -41.71 REMARK 500 VAL A 52 150.67 -47.42 REMARK 500 ALA A 148 42.60 -89.24 REMARK 500 TYR A 162 -155.50 -106.10 REMARK 500 LYS B 510 59.28 36.51 REMARK 500 ALA B 526 44.07 -98.41 REMARK 500 ASN B 550 49.24 28.74 REMARK 500 TRP B 597 -5.25 -174.14 REMARK 500 PHE C 27 -87.28 -96.02 REMARK 500 ASP C 86 -123.71 52.30 REMARK 500 TYR C 103 -57.14 1.35 REMARK 500 ASP C 129 -155.90 -137.56 REMARK 500 THR C 154 -2.95 65.79 REMARK 500 ASP C 180 -124.76 56.83 REMARK 500 ASN C 224 103.37 -160.89 REMARK 500 PHE C 231 -163.27 -111.15 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 ASN A 69 0.07 SIDE CHAIN 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 275 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH A 276 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH A 277 DISTANCE = 7.87 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5F18 RELATED DB: PDB DBREF 5F1B A 32 188 UNP P87666 VGP_EBOZ5 32 188 DBREF 5F1B B 509 632 UNP P87666 VGP_EBOZ5 509 632 DBREF 5F1B C 2 248 UNP O15118 NPC1_HUMAN 374 620 SEQADV 5F1B ARG A 31 UNP P87666 EXPRESSION TAG SEQADV 5F1B VAL A 42 UNP P87666 THR 42 ENGINEERED MUTATION SEQADV 5F1B HIS B 633 UNP P87666 EXPRESSION TAG SEQADV 5F1B HIS B 634 UNP P87666 EXPRESSION TAG SEQADV 5F1B HIS B 635 UNP P87666 EXPRESSION TAG SEQADV 5F1B HIS B 636 UNP P87666 EXPRESSION TAG SEQADV 5F1B HIS B 637 UNP P87666 EXPRESSION TAG SEQADV 5F1B HIS B 638 UNP P87666 EXPRESSION TAG SEQADV 5F1B MET C 1 UNP O15118 EXPRESSION TAG SEQADV 5F1B LEU C 249 UNP O15118 EXPRESSION TAG SEQADV 5F1B GLU C 250 UNP O15118 EXPRESSION TAG SEQADV 5F1B HIS C 251 UNP O15118 EXPRESSION TAG SEQADV 5F1B HIS C 252 UNP O15118 EXPRESSION TAG SEQADV 5F1B HIS C 253 UNP O15118 EXPRESSION TAG SEQADV 5F1B HIS C 254 UNP O15118 EXPRESSION TAG SEQADV 5F1B HIS C 255 UNP O15118 EXPRESSION TAG SEQADV 5F1B HIS C 256 UNP O15118 EXPRESSION TAG SEQRES 1 A 158 ARG SER ILE PRO LEU GLY VAL ILE HIS ASN SER VAL LEU SEQRES 2 A 158 GLN VAL SER ASP VAL ASP LYS LEU VAL CYS ARG ASP LYS SEQRES 3 A 158 LEU SER SER THR ASN GLN LEU ARG SER VAL GLY LEU ASN SEQRES 4 A 158 LEU GLU GLY ASN GLY VAL ALA THR ASP VAL PRO SER ALA SEQRES 5 A 158 THR LYS ARG TRP GLY PHE ARG SER GLY VAL PRO PRO LYS SEQRES 6 A 158 VAL VAL ASN TYR GLU ALA GLY GLU TRP ALA GLU ASN CYS SEQRES 7 A 158 TYR ASN LEU GLU ILE LYS LYS PRO ASP GLY SER GLU CYS SEQRES 8 A 158 LEU PRO ALA ALA PRO ASP GLY ILE ARG GLY PHE PRO ARG SEQRES 9 A 158 CYS ARG TYR VAL HIS LYS VAL SER GLY THR GLY PRO CYS SEQRES 10 A 158 ALA GLY ASP PHE ALA PHE HIS LYS GLU GLY ALA PHE PHE SEQRES 11 A 158 LEU TYR ASP ARG LEU ALA SER THR VAL ILE TYR ARG GLY SEQRES 12 A 158 THR THR PHE ALA GLU GLY VAL VAL ALA PHE LEU ILE LEU SEQRES 13 A 158 PRO GLN SEQRES 1 B 130 PRO LYS CYS ASN PRO ASN LEU HIS TYR TRP THR THR GLN SEQRES 2 B 130 ASP GLU GLY ALA ALA ILE GLY LEU ALA TRP ILE PRO TYR SEQRES 3 B 130 PHE GLY PRO ALA ALA GLU GLY ILE TYR THR GLU GLY LEU SEQRES 4 B 130 MET HIS ASN GLN ASP GLY LEU ILE CYS GLY LEU ARG GLN SEQRES 5 B 130 LEU ALA ASN GLU THR THR GLN ALA LEU GLN LEU PHE LEU SEQRES 6 B 130 ARG ALA THR THR GLU LEU ARG THR PHE SER ILE LEU ASN SEQRES 7 B 130 ARG LYS ALA ILE ASP PHE LEU LEU GLN ARG TRP GLY GLY SEQRES 8 B 130 THR CYS HIS ILE LEU GLY PRO ASP CYS CYS ILE GLU PRO SEQRES 9 B 130 HIS ASP TRP THR LYS ASN ILE THR ASP LYS ILE ASP GLN SEQRES 10 B 130 ILE ILE HIS ASP PHE VAL ASP HIS HIS HIS HIS HIS HIS SEQRES 1 C 256 MET THR THR ASN PRO VAL ASP LEU TRP SER ALA PRO SER SEQRES 2 C 256 SER GLN ALA ARG LEU GLU LYS GLU TYR PHE ASP GLN HIS SEQRES 3 C 256 PHE GLY PRO PHE PHE ARG THR GLU GLN LEU ILE ILE ARG SEQRES 4 C 256 ALA PRO LEU THR ASP LYS HIS ILE TYR GLN PRO TYR PRO SEQRES 5 C 256 SER GLY ALA ASP VAL PRO PHE GLY PRO PRO LEU ASP ILE SEQRES 6 C 256 GLN ILE LEU HIS GLN VAL LEU ASP LEU GLN ILE ALA ILE SEQRES 7 C 256 GLU ASN ILE THR ALA SER TYR ASP ASN GLU THR VAL THR SEQRES 8 C 256 LEU GLN ASP ILE CYS LEU ALA PRO LEU SER PRO TYR ASN SEQRES 9 C 256 THR ASN CYS THR ILE LEU SER VAL LEU ASN TYR PHE GLN SEQRES 10 C 256 ASN SER HIS SER VAL LEU ASP HIS LYS LYS GLY ASP ASP SEQRES 11 C 256 PHE PHE VAL TYR ALA ASP TYR HIS THR HIS PHE LEU TYR SEQRES 12 C 256 CYS VAL ARG ALA PRO ALA SER LEU ASN ASP THR SER LEU SEQRES 13 C 256 LEU HIS ASP PRO CYS LEU GLY THR PHE GLY GLY PRO VAL SEQRES 14 C 256 PHE PRO TRP LEU VAL LEU GLY GLY TYR ASP ASP GLN ASN SEQRES 15 C 256 TYR ASN ASN ALA THR ALA LEU VAL ILE THR PHE PRO VAL SEQRES 16 C 256 ASN ASN TYR TYR ASN ASP THR GLU LYS LEU GLN ARG ALA SEQRES 17 C 256 GLN ALA TRP GLU LYS GLU PHE ILE ASN PHE VAL LYS ASN SEQRES 18 C 256 TYR LYS ASN PRO ASN LEU THR ILE SER PHE THR ALA GLU SEQRES 19 C 256 ARG SER ILE GLU ASP GLU LEU ASN ARG GLU SER ASP SER SEQRES 20 C 256 ASP LEU GLU HIS HIS HIS HIS HIS HIS HET NAG D 1 14 HET NAG D 2 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-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 FORMUL 4 NAG 2(C8 H15 N O6) FORMUL 5 HOH *171(H2 O) HELIX 1 AA1 SER A 59 ASN A 61 5 3 HELIX 2 AA2 ASP A 78 THR A 83 1 6 HELIX 3 AA3 ALA B 538 GLY B 541 5 4 HELIX 4 AA4 GLN B 551 THR B 576 1 26 HELIX 5 AA5 SER B 583 ARG B 596 1 14 HELIX 6 AA6 GLU C 19 HIS C 26 1 8 HELIX 7 AA7 GLY C 60 LEU C 63 5 4 HELIX 8 AA8 ASP C 64 ASN C 80 1 17 HELIX 9 AA9 THR C 91 CYS C 96 1 6 HELIX 10 AB1 SER C 111 GLN C 117 5 7 HELIX 11 AB2 SER C 119 ASP C 124 1 6 HELIX 12 AB3 ASP C 136 VAL C 145 1 10 HELIX 13 AB4 PHE C 170 VAL C 174 1 5 HELIX 14 AB5 ASN C 182 ALA C 186 5 5 HELIX 15 AB6 ASP C 201 ASN C 221 1 21 SHEET 1 AA1 4 LEU A 43 SER A 46 0 SHEET 2 AA1 4 LEU A 35 ILE A 38 -1 N VAL A 37 O GLN A 44 SHEET 3 AA1 4 ALA A 177 ILE A 185 1 O PHE A 183 N GLY A 36 SHEET 4 AA1 4 LEU A 63 ASN A 69 -1 N ARG A 64 O LEU A 184 SHEET 1 AA2 7 LEU A 43 SER A 46 0 SHEET 2 AA2 7 LEU A 35 ILE A 38 -1 N VAL A 37 O GLN A 44 SHEET 3 AA2 7 ALA A 177 ILE A 185 1 O PHE A 183 N GLY A 36 SHEET 4 AA2 7 PHE A 159 LEU A 161 -1 N LEU A 161 O ALA A 177 SHEET 5 AA2 7 LEU A 165 SER A 167 -1 O SER A 167 N PHE A 160 SHEET 6 AA2 7 VAL A 96 ASN A 98 -1 N VAL A 97 O ALA A 166 SHEET 7 AA2 7 ARG B 580 THR B 581 1 O THR B 581 N VAL A 96 SHEET 1 AA3 2 TRP A 86 ARG A 89 0 SHEET 2 AA3 2 PHE A 151 HIS A 154 -1 O PHE A 153 N GLY A 87 SHEET 1 AA4 3 ALA A 101 GLU A 103 0 SHEET 2 AA4 3 LEU B 515 THR B 520 -1 O TRP B 518 N GLY A 102 SHEET 3 AA4 3 TYR B 543 MET B 548 -1 O THR B 544 N THR B 519 SHEET 1 AA5 2 ALA A 105 LYS A 114 0 SHEET 2 AA5 2 CYS A 135 THR A 144 1 O ARG A 136 N ALA A 105 SHEET 1 AA6 4 LEU C 175 GLY C 176 0 SHEET 2 AA6 4 ALA C 188 ASN C 196 -1 O ALA C 188 N GLY C 176 SHEET 3 AA6 4 PHE C 31 ARG C 39 -1 N ARG C 32 O VAL C 195 SHEET 4 AA6 4 THR C 228 SER C 230 -1 O SER C 230 N ILE C 37 SHEET 1 AA7 2 HIS C 46 TYR C 48 0 SHEET 2 AA7 2 VAL C 57 PHE C 59 -1 O PHE C 59 N HIS C 46 SHEET 1 AA8 2 ALA C 83 TYR C 85 0 SHEET 2 AA8 2 GLU C 88 VAL C 90 -1 O VAL C 90 N ALA C 83 SHEET 1 AA9 2 LYS C 127 GLY C 128 0 SHEET 2 AA9 2 VAL C 133 ALA C 135 -1 O TYR C 134 N LYS C 127 SSBOND 1 CYS A 108 CYS A 135 1555 1555 2.07 SSBOND 2 CYS A 121 CYS A 147 1555 1555 2.06 SSBOND 3 CYS B 511 CYS B 556 1555 1555 2.04 SSBOND 4 CYS C 96 CYS C 107 1555 1555 2.05 SSBOND 5 CYS C 144 CYS C 161 1555 1555 2.04 LINK ND2 ASN B 563 C1 NAG D 1 1555 1555 1.45 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.45 CISPEP 1 GLY C 28 PRO C 29 0 0.44 CISPEP 2 TYR C 51 PRO C 52 0 -0.28 CISPEP 3 SER C 101 PRO C 102 0 -3.71 CRYST1 107.261 107.261 93.777 90.00 90.00 120.00 P 63 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 0.009323 0.005383 0.000000 0.00000 SCALE2 0.000000 0.010765 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010664 0.00000