HEADER SIGNALING PROTEIN 17-OCT-14 4V3D TITLE THE CIDRA DOMAIN FROM HB3VAR03 PFEMP1 BOUND TO ENDOTHELIAL PROTEIN C TITLE 2 RECEPTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: HB3VAR03 CIDRA DOMAIN; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: CIDRA; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ENDOTHELIAL PROTEIN C RECEPTOR; COMPND 8 CHAIN: B, D; COMPND 9 FRAGMENT: EXTRACELLULAR DOMAIN, UNP RESIDUES 468-718; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 137071; SOURCE 4 STRAIN: HB3; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI B; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 37762; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: B834; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: DROSOPHILA MELANOGASTER; SOURCE 15 EXPRESSION_SYSTEM_COMMON: FRUIT FLY; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 7227; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: S2; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PEXPRES2-1 KEYWDS SIGNALING PROTEIN, PFEMP1, EPCR, MALARIA, CIDR DOMAIN, ENDOTHELIAL KEYWDS 2 PROTEIN C RECEPTOR EXPDTA X-RAY DIFFRACTION AUTHOR C.K.Y.LAU,L.TURNER,J.S.JESPERSEN,E.D.LOWE,B.PETERSEN,C.W.WANG, AUTHOR 2 J.E.V.PETERSEN,J.LUSINGU,T.G.THEANDER,T.LAVSTSEN,M.K.HIGGINS REVDAT 6 13-NOV-24 4V3D 1 REMARK REVDAT 5 10-JAN-24 4V3D 1 HETSYN REVDAT 4 29-JUL-20 4V3D 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 28-JAN-15 4V3D 1 JRNL REVDAT 2 24-DEC-14 4V3D 1 JRNL REVDAT 1 17-DEC-14 4V3D 0 JRNL AUTH C.K.Y.LAU,L.TURNER,J.S.JESPERSEN,E.D.LOWE,B.PETERSEN, JRNL AUTH 2 C.W.WANG,J.E.V.PETERSEN,J.LUSINGU,T.G.THEANDER,T.LAVSTSEN, JRNL AUTH 3 M.K.HIGGINS JRNL TITL STRUCTURAL CONSERVATION DESPITE HUGE SEQUENCE DIVERSITY JRNL TITL 2 ALLOWS EPCR BINDING BY THE PFEMP1 FAMILY IMPLICATED IN JRNL TITL 3 SEVERE CHILDHOOD MALARIA. JRNL REF CELL HOST MICROBE. V. 17 118 2015 JRNL REFN ISSN 1931-3128 JRNL PMID 25482433 JRNL DOI 10.1016/J.CHOM.2014.11.007 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 53.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 3 NUMBER OF REFLECTIONS : 25427 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) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1287 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 13 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.76 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.01 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2870 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2655 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2747 REMARK 3 BIN R VALUE (WORKING SET) : 0.2636 REMARK 3 BIN FREE R VALUE : 0.3069 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.29 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 123 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6093 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 304 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 68.37 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.37320 REMARK 3 B22 (A**2) : -3.85680 REMARK 3 B33 (A**2) : 11.22990 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.450 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 3.175 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.337 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.914 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.901 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6563 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 8874 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2417 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 196 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 899 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6563 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 871 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 7059 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.25 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.02 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 21.15 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): -14.2345 -19.3130 -62.4539 REMARK 3 T TENSOR REMARK 3 T11: -0.1583 T22: -0.1158 REMARK 3 T33: -0.0034 T12: 0.0319 REMARK 3 T13: -0.0066 T23: -0.0230 REMARK 3 L TENSOR REMARK 3 L11: 0.8562 L22: 3.7140 REMARK 3 L33: 2.1042 L12: -0.7248 REMARK 3 L13: 0.3284 L23: -0.0114 REMARK 3 S TENSOR REMARK 3 S11: -0.0046 S12: -0.0698 S13: 0.0613 REMARK 3 S21: 0.0915 S22: 0.1062 S23: 0.3595 REMARK 3 S31: -0.0946 S32: -0.3553 S33: -0.1017 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 2.9310 -41.6151 -49.6384 REMARK 3 T TENSOR REMARK 3 T11: -0.0402 T22: -0.1068 REMARK 3 T33: -0.1136 T12: 0.0379 REMARK 3 T13: -0.0617 T23: -0.0024 REMARK 3 L TENSOR REMARK 3 L11: 2.4993 L22: 1.5126 REMARK 3 L33: 4.7014 L12: 0.3200 REMARK 3 L13: 0.5893 L23: 0.0430 REMARK 3 S TENSOR REMARK 3 S11: 0.0352 S12: -0.3769 S13: 0.0410 REMARK 3 S21: 0.2776 S22: -0.0136 S23: -0.2247 REMARK 3 S31: 0.1444 S32: 0.1327 S33: -0.0216 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|* } REMARK 3 ORIGIN FOR THE GROUP (A): -35.6892 -35.1317 -13.0446 REMARK 3 T TENSOR REMARK 3 T11: -0.1630 T22: -0.1615 REMARK 3 T33: -0.1102 T12: 0.0019 REMARK 3 T13: -0.1520 T23: 0.0426 REMARK 3 L TENSOR REMARK 3 L11: 3.3233 L22: 2.3135 REMARK 3 L33: 3.8036 L12: -0.8039 REMARK 3 L13: 0.5636 L23: 0.4987 REMARK 3 S TENSOR REMARK 3 S11: -0.2702 S12: -0.0729 S13: 0.4233 REMARK 3 S21: -0.2073 S22: 0.1091 S23: 0.3800 REMARK 3 S31: -0.5442 S32: -0.2107 S33: 0.1611 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { D|* } REMARK 3 ORIGIN FOR THE GROUP (A): -15.3044 -54.3663 -22.3874 REMARK 3 T TENSOR REMARK 3 T11: -0.0469 T22: -0.0329 REMARK 3 T33: -0.2624 T12: -0.1520 REMARK 3 T13: -0.0078 T23: 0.0792 REMARK 3 L TENSOR REMARK 3 L11: 2.6515 L22: 2.7334 REMARK 3 L33: 5.5289 L12: 0.2108 REMARK 3 L13: -1.3908 L23: 0.4759 REMARK 3 S TENSOR REMARK 3 S11: -0.2570 S12: 0.0309 S13: -0.1737 REMARK 3 S21: -0.4453 S22: 0.2682 S23: -0.0313 REMARK 3 S31: 0.5317 S32: -0.0208 S33: -0.0112 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4V3D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 17-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1290062023. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-NOV-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PILATUS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25427 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 53.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.58000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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: PDB ENTRY 1L8J REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M NANO3, 0.1 M BTP PH 8.5, 20% PEG REMARK 280 3350 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 145.35000 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 145.35000 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 33.06500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.33500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.06500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.33500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 145.35000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.06500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.33500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 145.35000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.06500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 47.33500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, G, H, I 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.6 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, E, F 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 PRO A 468 REMARK 465 ASP A 469 REMARK 465 CYS A 470 REMARK 465 GLY A 471 REMARK 465 VAL A 472 REMARK 465 GLU A 473 REMARK 465 CYS A 474 REMARK 465 LYS A 475 REMARK 465 ASN A 476 REMARK 465 GLU A 477 REMARK 465 THR A 478 REMARK 465 CYS A 479 REMARK 465 THR A 480 REMARK 465 PRO A 481 REMARK 465 LYS A 482 REMARK 465 THR A 483 REMARK 465 VAL A 484 REMARK 465 ILE A 485 REMARK 465 TYR A 486 REMARK 465 PRO A 487 REMARK 465 ASP A 488 REMARK 465 CYS A 489 REMARK 465 GLY A 490 REMARK 465 LYS A 491 REMARK 465 ASN A 492 REMARK 465 GLU A 493 REMARK 465 LYS A 494 REMARK 465 TYR A 495 REMARK 465 GLU A 496 REMARK 465 PRO A 497 REMARK 465 PRO A 498 REMARK 465 LYS A 684 REMARK 465 ALA A 685 REMARK 465 ASN A 686 REMARK 465 ASN A 687 REMARK 465 GLY A 688 REMARK 465 THR A 689 REMARK 465 LYS A 690 REMARK 465 ASP A 691 REMARK 465 GLU A 717 REMARK 465 GLY A 718 REMARK 465 LEU B 8 REMARK 465 PRO C 468 REMARK 465 ASP C 469 REMARK 465 CYS C 470 REMARK 465 GLY C 471 REMARK 465 VAL C 472 REMARK 465 GLU C 473 REMARK 465 CYS C 474 REMARK 465 LYS C 475 REMARK 465 ASN C 476 REMARK 465 GLU C 477 REMARK 465 THR C 478 REMARK 465 CYS C 479 REMARK 465 THR C 480 REMARK 465 PRO C 481 REMARK 465 LYS C 482 REMARK 465 THR C 483 REMARK 465 VAL C 484 REMARK 465 ILE C 485 REMARK 465 TYR C 486 REMARK 465 PRO C 487 REMARK 465 ASP C 488 REMARK 465 CYS C 489 REMARK 465 GLY C 490 REMARK 465 LYS C 491 REMARK 465 ASN C 492 REMARK 465 GLU C 493 REMARK 465 LYS C 494 REMARK 465 TYR C 495 REMARK 465 GLU C 496 REMARK 465 PRO C 497 REMARK 465 PRO C 498 REMARK 465 GLY C 499 REMARK 465 ASP C 500 REMARK 465 ALA C 501 REMARK 465 LYS C 502 REMARK 465 GLU C 529 REMARK 465 ASN C 530 REMARK 465 ASN C 531 REMARK 465 GLU C 532 REMARK 465 ASN C 533 REMARK 465 GLY C 534 REMARK 465 LYS C 535 REMARK 465 ASN C 558 REMARK 465 ILE C 559 REMARK 465 ALA C 560 REMARK 465 ASN C 561 REMARK 465 SER C 562 REMARK 465 LYS C 563 REMARK 465 LEU C 564 REMARK 465 ASN C 598 REMARK 465 ASN C 599 REMARK 465 THR C 600 REMARK 465 ASP C 601 REMARK 465 VAL C 602 REMARK 465 THR C 603 REMARK 465 ASP C 604 REMARK 465 ALA C 685 REMARK 465 ASN C 686 REMARK 465 ASN C 687 REMARK 465 GLY C 688 REMARK 465 THR C 689 REMARK 465 LYS C 690 REMARK 465 ASP C 691 REMARK 465 GLU C 717 REMARK 465 GLY C 718 REMARK 465 LEU D 8 REMARK 465 ILE D 177 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 LEU B 93 N - CA - CB ANGL. DEV. = -12.2 DEGREES REMARK 500 LEU D 93 N - CA - CB ANGL. DEV. = -12.6 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 LYS A 535 -34.77 -33.34 REMARK 500 ASN A 550 28.94 -73.06 REMARK 500 GLU A 556 -86.77 -79.79 REMARK 500 ASN A 561 -94.59 -96.93 REMARK 500 LEU A 564 45.75 -107.36 REMARK 500 LYS A 565 81.50 -61.87 REMARK 500 ASN A 566 62.40 -66.35 REMARK 500 ASN A 606 164.40 -38.73 REMARK 500 ASP A 638 57.78 -144.18 REMARK 500 ASN B 47 50.53 -154.82 REMARK 500 PRO B 55 57.11 -68.89 REMARK 500 THR B 88 118.11 72.76 REMARK 500 PHE B 123 -72.45 -126.25 REMARK 500 ARG B 158 -79.63 -111.58 REMARK 500 GLU C 538 123.11 -31.37 REMARK 500 ASN C 546 -73.68 -56.40 REMARK 500 ASN C 550 25.76 -69.49 REMARK 500 PHE C 633 -63.48 -109.72 REMARK 500 SER C 683 -75.31 -85.93 REMARK 500 PRO D 55 56.77 -68.20 REMARK 500 THR D 88 118.58 72.81 REMARK 500 PHE D 123 -72.97 -126.51 REMARK 500 ARG D 158 -79.27 -111.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4V3E RELATED DB: PDB REMARK 900 THE CIDRA DOMAIN FROM IT4VAR07 PFEMP1 BOUND TO ENDOTHELIAL PROTEIN REMARK 900 C RECEPTOR DBREF 4V3D A 468 718 PDB 4V3D 4V3D 468 718 DBREF 4V3D B 8 177 UNP Q9UNN8 EPCR_HUMAN 25 194 DBREF 4V3D C 468 718 PDB 4V3D 4V3D 468 718 DBREF 4V3D D 8 177 UNP Q9UNN8 EPCR_HUMAN 25 194 SEQRES 1 A 251 PRO ASP CYS GLY VAL GLU CYS LYS ASN GLU THR CYS THR SEQRES 2 A 251 PRO LYS THR VAL ILE TYR PRO ASP CYS GLY LYS ASN GLU SEQRES 3 A 251 LYS TYR GLU PRO PRO GLY ASP ALA LYS ASN THR GLU ILE SEQRES 4 A 251 ASN VAL ILE ASN SER GLY ASP LYS GLU GLY TYR ILE PHE SEQRES 5 A 251 GLU LYS LEU SER GLU PHE CYS THR ASN GLU ASN ASN GLU SEQRES 6 A 251 ASN GLY LYS ASN TYR GLU GLN TRP LYS CYS TYR TYR ASP SEQRES 7 A 251 ASN LYS LYS ASN ASN ASN LYS CYS LYS MET GLU ILE ASN SEQRES 8 A 251 ILE ALA ASN SER LYS LEU LYS ASN LYS VAL THR SER PHE SEQRES 9 A 251 ASP GLU PHE PHE ASP PHE TRP VAL ARG LYS LEU LEU ILE SEQRES 10 A 251 ASP THR ILE LYS TRP GLU THR GLU LEU THR TYR CYS ILE SEQRES 11 A 251 ASN ASN THR ASP VAL THR ASP CYS ASN LYS CYS ASN LYS SEQRES 12 A 251 ASN CYS VAL CYS PHE ASP LYS TRP VAL LYS GLN LYS GLU SEQRES 13 A 251 ASP GLU TRP THR ASN ILE MET LYS LEU PHE THR ASN LYS SEQRES 14 A 251 HIS ASP ILE PRO LYS LYS TYR TYR LEU ASN ILE ASN ASP SEQRES 15 A 251 LEU PHE ASP SER PHE PHE PHE GLN VAL ILE TYR LYS PHE SEQRES 16 A 251 ASN GLU GLY GLU ALA LYS TRP ASN GLU LEU LYS GLU ASN SEQRES 17 A 251 LEU LYS LYS GLN ILE ALA SER SER LYS ALA ASN ASN GLY SEQRES 18 A 251 THR LYS ASP SER GLU ALA ALA ILE LYS VAL LEU PHE ASN SEQRES 19 A 251 HIS ILE LYS GLU ILE ALA THR ILE CYS LYS ASP ASN ASN SEQRES 20 A 251 THR ASN GLU GLY SEQRES 1 B 170 LEU GLN ARG LEU HIS MET LEU GLN ILE SER TYR PHE ARG SEQRES 2 B 170 ASP PRO TYR HIS VAL TRP TYR GLN GLY ASN ALA SER LEU SEQRES 3 B 170 GLY GLY HIS LEU THR HIS VAL LEU GLU GLY PRO ASP THR SEQRES 4 B 170 ASN THR THR ILE ILE GLN LEU GLN PRO LEU GLN GLU PRO SEQRES 5 B 170 GLU SER TRP ALA ARG THR GLN SER GLY LEU GLN SER TYR SEQRES 6 B 170 LEU LEU GLN PHE HIS GLY LEU VAL ARG LEU VAL HIS GLN SEQRES 7 B 170 GLU ARG THR LEU ALA PHE PRO LEU THR ILE ARG CYS PHE SEQRES 8 B 170 LEU GLY CYS GLU LEU PRO PRO GLU GLY SER ARG ALA HIS SEQRES 9 B 170 VAL PHE PHE GLU VAL ALA VAL ASN GLY SER SER PHE VAL SEQRES 10 B 170 SER PHE ARG PRO GLU ARG ALA LEU TRP GLN ALA ASP THR SEQRES 11 B 170 GLN VAL THR SER GLY VAL VAL THR PHE THR LEU GLN GLN SEQRES 12 B 170 LEU ASN ALA TYR ASN ARG THR ARG TYR GLU LEU ARG GLU SEQRES 13 B 170 PHE LEU GLU ASP THR CYS VAL GLN TYR VAL GLN LYS HIS SEQRES 14 B 170 ILE SEQRES 1 C 251 PRO ASP CYS GLY VAL GLU CYS LYS ASN GLU THR CYS THR SEQRES 2 C 251 PRO LYS THR VAL ILE TYR PRO ASP CYS GLY LYS ASN GLU SEQRES 3 C 251 LYS TYR GLU PRO PRO GLY ASP ALA LYS ASN THR GLU ILE SEQRES 4 C 251 ASN VAL ILE ASN SER GLY ASP LYS GLU GLY TYR ILE PHE SEQRES 5 C 251 GLU LYS LEU SER GLU PHE CYS THR ASN GLU ASN ASN GLU SEQRES 6 C 251 ASN GLY LYS ASN TYR GLU GLN TRP LYS CYS TYR TYR ASP SEQRES 7 C 251 ASN LYS LYS ASN ASN ASN LYS CYS LYS MET GLU ILE ASN SEQRES 8 C 251 ILE ALA ASN SER LYS LEU LYS ASN LYS VAL THR SER PHE SEQRES 9 C 251 ASP GLU PHE PHE ASP PHE TRP VAL ARG LYS LEU LEU ILE SEQRES 10 C 251 ASP THR ILE LYS TRP GLU THR GLU LEU THR TYR CYS ILE SEQRES 11 C 251 ASN ASN THR ASP VAL THR ASP CYS ASN LYS CYS ASN LYS SEQRES 12 C 251 ASN CYS VAL CYS PHE ASP LYS TRP VAL LYS GLN LYS GLU SEQRES 13 C 251 ASP GLU TRP THR ASN ILE MET LYS LEU PHE THR ASN LYS SEQRES 14 C 251 HIS ASP ILE PRO LYS LYS TYR TYR LEU ASN ILE ASN ASP SEQRES 15 C 251 LEU PHE ASP SER PHE PHE PHE GLN VAL ILE TYR LYS PHE SEQRES 16 C 251 ASN GLU GLY GLU ALA LYS TRP ASN GLU LEU LYS GLU ASN SEQRES 17 C 251 LEU LYS LYS GLN ILE ALA SER SER LYS ALA ASN ASN GLY SEQRES 18 C 251 THR LYS ASP SER GLU ALA ALA ILE LYS VAL LEU PHE ASN SEQRES 19 C 251 HIS ILE LYS GLU ILE ALA THR ILE CYS LYS ASP ASN ASN SEQRES 20 C 251 THR ASN GLU GLY SEQRES 1 D 170 LEU GLN ARG LEU HIS MET LEU GLN ILE SER TYR PHE ARG SEQRES 2 D 170 ASP PRO TYR HIS VAL TRP TYR GLN GLY ASN ALA SER LEU SEQRES 3 D 170 GLY GLY HIS LEU THR HIS VAL LEU GLU GLY PRO ASP THR SEQRES 4 D 170 ASN THR THR ILE ILE GLN LEU GLN PRO LEU GLN GLU PRO SEQRES 5 D 170 GLU SER TRP ALA ARG THR GLN SER GLY LEU GLN SER TYR SEQRES 6 D 170 LEU LEU GLN PHE HIS GLY LEU VAL ARG LEU VAL HIS GLN SEQRES 7 D 170 GLU ARG THR LEU ALA PHE PRO LEU THR ILE ARG CYS PHE SEQRES 8 D 170 LEU GLY CYS GLU LEU PRO PRO GLU GLY SER ARG ALA HIS SEQRES 9 D 170 VAL PHE PHE GLU VAL ALA VAL ASN GLY SER SER PHE VAL SEQRES 10 D 170 SER PHE ARG PRO GLU ARG ALA LEU TRP GLN ALA ASP THR SEQRES 11 D 170 GLN VAL THR SER GLY VAL VAL THR PHE THR LEU GLN GLN SEQRES 12 D 170 LEU ASN ALA TYR ASN ARG THR ARG TYR GLU LEU ARG GLU SEQRES 13 D 170 PHE LEU GLU ASP THR CYS VAL GLN TYR VAL GLN LYS HIS SEQRES 14 D 170 ILE MODRES 4V3D ASN B 30 ASN GLYCOSYLATION SITE MODRES 4V3D ASN B 47 ASN GLYCOSYLATION SITE MODRES 4V3D ASN B 119 ASN GLYCOSYLATION SITE MODRES 4V3D ASN B 155 ASN GLYCOSYLATION SITE MODRES 4V3D ASN D 30 ASN GLYCOSYLATION SITE MODRES 4V3D ASN D 47 ASN GLYCOSYLATION SITE MODRES 4V3D ASN D 119 ASN GLYCOSYLATION SITE MODRES 4V3D ASN D 155 ASN GLYCOSYLATION SITE HET NAG E 1 14 HET NAG E 2 14 HET NAG F 1 14 HET NAG F 2 14 HET MAN F 3 11 HET NAG G 1 14 HET NAG G 2 14 HET NAG H 1 14 HET NAG H 2 14 HET MAN H 3 11 HET NAG I 1 14 HET NAG I 2 14 HET PTY B 200 50 HET NAG B 205 14 HET NAG B 206 14 HET PTY D 200 50 HET NAG D 208 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM PTY PHOSPHATIDYLETHANOLAMINE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 5 NAG 13(C8 H15 N O6) FORMUL 6 MAN 2(C6 H12 O6) FORMUL 10 PTY 2(C40 H80 N O8 P) HELIX 1 1 TYR A 517 LEU A 522 1 6 HELIX 2 2 LEU A 522 THR A 527 1 6 HELIX 3 3 PHE A 571 ASN A 599 1 29 HELIX 4 4 ASN A 606 LYS A 631 1 26 HELIX 5 5 ASN A 635 ILE A 639 5 5 HELIX 6 6 PRO A 640 TYR A 644 5 5 HELIX 7 7 ASN A 646 PHE A 654 1 9 HELIX 8 8 PHE A 654 TYR A 660 1 7 HELIX 9 9 GLU A 664 SER A 683 1 20 HELIX 10 10 ALA A 694 THR A 715 1 22 HELIX 11 11 GLU B 58 THR B 88 1 31 HELIX 12 12 SER B 141 ASN B 152 1 12 HELIX 13 13 ARG B 158 ASP B 167 1 10 HELIX 14 14 ASP B 167 ILE B 177 1 11 HELIX 15 15 TYR C 517 LEU C 522 1 6 HELIX 16 16 LEU C 522 THR C 527 1 6 HELIX 17 17 PHE C 571 CYS C 596 1 26 HELIX 18 18 ASN C 606 LYS C 631 1 26 HELIX 19 19 PRO C 640 TYR C 644 5 5 HELIX 20 20 ASN C 646 PHE C 654 1 9 HELIX 21 21 PHE C 654 TYR C 660 1 7 HELIX 22 22 GLU C 664 LYS C 684 1 21 HELIX 23 23 ALA C 694 ASN C 714 1 21 HELIX 24 24 GLU D 58 THR D 88 1 31 HELIX 25 25 SER D 141 ASN D 152 1 12 HELIX 26 26 ARG D 158 ASP D 167 1 10 HELIX 27 27 ASP D 167 HIS D 176 1 10 SHEET 1 AA 4 LYS A 502 ILE A 509 0 SHEET 2 AA 4 TYR A 537 TYR A 544 -1 O GLU A 538 N VAL A 508 SHEET 3 AA 4 LYS A 552 ASN A 558 -1 O LYS A 552 N TYR A 543 SHEET 4 AA 4 LYS A 567 SER A 570 -1 O LYS A 567 N MET A 555 SHEET 1 BA 8 THR B 49 GLN B 52 0 SHEET 2 BA 8 HIS B 36 PRO B 44 -1 O VAL B 40 N ILE B 51 SHEET 3 BA 8 HIS B 24 LEU B 33 -1 O TYR B 27 N GLY B 43 SHEET 4 BA 8 ARG B 10 ASP B 21 -1 O HIS B 12 N SER B 32 SHEET 5 BA 8 LEU B 93 GLU B 102 -1 O LEU B 93 N PHE B 19 SHEET 6 BA 8 HIS B 111 VAL B 118 -1 O HIS B 111 N GLU B 102 SHEET 7 BA 8 SER B 121 ARG B 127 -1 O SER B 121 N VAL B 118 SHEET 8 BA 8 LEU B 132 ALA B 135 -1 O LEU B 132 N ARG B 127 SHEET 1 CA 4 THR C 504 ASN C 507 0 SHEET 2 CA 4 GLN C 539 CYS C 542 -1 O TRP C 540 N ILE C 506 SHEET 3 CA 4 LYS C 552 GLU C 556 -1 O LYS C 554 N LYS C 541 SHEET 4 CA 4 VAL C 568 SER C 570 -1 O THR C 569 N CYS C 553 SHEET 1 DA 8 THR D 49 GLN D 52 0 SHEET 2 DA 8 HIS D 36 PRO D 44 -1 O VAL D 40 N ILE D 51 SHEET 3 DA 8 HIS D 24 LEU D 33 -1 O TYR D 27 N GLY D 43 SHEET 4 DA 8 ARG D 10 ASP D 21 -1 O HIS D 12 N SER D 32 SHEET 5 DA 8 LEU D 93 GLU D 102 -1 O LEU D 93 N PHE D 19 SHEET 6 DA 8 HIS D 111 VAL D 118 -1 O HIS D 111 N GLU D 102 SHEET 7 DA 8 SER D 121 ARG D 127 -1 O SER D 121 N VAL D 118 SHEET 8 DA 8 LEU D 132 ALA D 135 -1 O LEU D 132 N ARG D 127 SSBOND 1 CYS A 526 CYS A 614 1555 1555 2.03 SSBOND 2 CYS A 542 CYS A 553 1555 1555 2.03 SSBOND 3 CYS A 596 CYS A 608 1555 1555 2.05 SSBOND 4 CYS A 612 CYS A 710 1555 1555 2.06 SSBOND 5 CYS B 101 CYS B 169 1555 1555 2.06 SSBOND 6 CYS C 526 CYS C 614 1555 1555 2.04 SSBOND 7 CYS C 542 CYS C 553 1555 1555 2.04 SSBOND 8 CYS C 596 CYS C 608 1555 1555 2.03 SSBOND 9 CYS C 612 CYS C 710 1555 1555 2.02 SSBOND 10 CYS D 101 CYS D 169 1555 1555 2.05 LINK ND2 ASN B 30 C1 NAG B 205 1555 1555 1.44 LINK ND2 ASN B 47 C1 NAG E 1 1555 1555 1.44 LINK ND2 ASN B 119 C1 NAG F 1 1555 1555 1.44 LINK ND2 ASN B 155 C1 NAG B 206 1555 1555 1.44 LINK ND2 ASN D 30 C1 NAG I 1 1555 1555 1.44 LINK ND2 ASN D 47 C1 NAG G 1 1555 1555 1.43 LINK ND2 ASN D 119 C1 NAG H 1 1555 1555 1.44 LINK ND2 ASN D 155 C1 NAG D 208 1555 1555 1.43 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.46 LINK O4 NAG F 1 C1 NAG F 2 1555 1555 1.45 LINK O4 NAG F 2 C1 MAN F 3 1555 1555 1.45 LINK O4 NAG G 1 C1 NAG G 2 1555 1555 1.43 LINK O4 NAG H 1 C1 NAG H 2 1555 1555 1.44 LINK O4 NAG H 2 C1 MAN H 3 1555 1555 1.43 LINK O4 NAG I 1 C1 NAG I 2 1555 1555 1.43 CISPEP 1 PHE B 91 PRO B 92 0 -0.55 CISPEP 2 PHE D 91 PRO D 92 0 0.03 CRYST1 66.130 94.670 290.700 90.00 90.00 90.00 C 2 2 21 16 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 0.015122 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010563 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003440 0.00000