HEADER HYDROLASE 01-MAR-23 8COY TITLE STRUCTURE OF THE CATALYTIC DOMAIN OF P. VIVAX SUB1 (TRICLINIC CRYSTAL TITLE 2 FORM) IN COMPLEX WITH INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUBTILISIN; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.4.21.62; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: PEPTIDO-MIMETIC INHIBITOR; COMPND 8 CHAIN: C, D; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: THE SEQUENCE OF CHAINS D,E IS: ACE-ILE-THR-ALA-VEF- COMPND 11 ASP-GLU, WHERE VEF IS: (3~{S})-3-AZANYL-2-OXIDANYLIDENE-BUTANOIC ACID COMPND 12 AND IS COVALENTLY LINKED TO SER549 OF CHAINS A,B RESPECTIVELY: LINK COMPND 13 OG SER A 549 C2 VEF D 4 1.430 LINK OG SER B 549 C2 VEF E 4 1.430 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM VIVAX; SOURCE 3 ORGANISM_COMMON: MALARIA PARASITE P. VIVAX; SOURCE 4 ORGANISM_TAXID: 5855; SOURCE 5 GENE: SUB1, PVC01_100035100, PVT01_100029100, PVW1_100050600; SOURCE 6 EXPRESSION_SYSTEM: DROSOPHILA MELANOGASTER; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7227; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SCHNEIDER 2; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630 KEYWDS PLASMODIUM, SERINE PROTEASE, DRUG TARGET, MALARIA, PSEUDO-PEPTIDE KEYWDS 2 INHIBITOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.MARTINEZ,A.BOUILLON,F.BATISTA,P.M.ALZARI,J.C.BARALE,A.HAOUZ REVDAT 4 22-NOV-23 8COY 1 COMPND SOURCE DBREF SEQADV REVDAT 3 15-NOV-23 8COY 1 LINK ATOM REVDAT 2 09-AUG-23 8COY 1 JRNL REVDAT 1 19-JUL-23 8COY 0 JRNL AUTH M.MARTINEZ,F.A.BATISTA,M.MAUREL,A.BOUILLON,L.ORTEGA VARGA, JRNL AUTH 2 A.M.WEHENKEL,L.LE CHEVALIER-SONTAG,A.BLONDEL,A.HAOUZ, JRNL AUTH 3 J.F.HERNANDEZ,P.M.ALZARI,J.C.BARALE JRNL TITL 3D STRUCTURES OF THE PLASMODIUM VIVAX SUBTILISIN-LIKE DRUG JRNL TITL 2 TARGET SUB1 REVEAL CONFORMATIONAL CHANGES TO ACCOMMODATE A JRNL TITL 3 SUBSTRATE-DERIVED ALPHA-KETOAMIDE INHIBITOR. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 79 721 2023 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 37428845 JRNL DOI 10.1107/S2059798323004710 REMARK 2 REMARK 2 RESOLUTION. 1.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.4 (21-NOV-2022) 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) : 1.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.73 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 104436 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 5074 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 : 51 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.51 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.52 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.31 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2089 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2381 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1983 REMARK 3 BIN R VALUE (WORKING SET) : 0.2397 REMARK 3 BIN FREE R VALUE : 0.2077 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.07 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 106 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 : 5264 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 490 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.79130 REMARK 3 B22 (A**2) : -2.81900 REMARK 3 B33 (A**2) : 1.02770 REMARK 3 B12 (A**2) : -0.73440 REMARK 3 B13 (A**2) : -1.31610 REMARK 3 B23 (A**2) : -1.36060 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.180 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.073 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.070 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.072 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.070 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 : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 5427 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 7367 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1865 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 945 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5427 ; 10.000 ; 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 : 730 ; 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 : 5383 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 1.06 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 4.33 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 14.53 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|277 - A|903 } REMARK 3 ORIGIN FOR THE GROUP (A): 33.189 -50.668 -39.200 REMARK 3 T TENSOR REMARK 3 T11: -0.0331 T22: -0.0354 REMARK 3 T33: -0.0427 T12: 0.0008 REMARK 3 T13: -0.0094 T23: 0.0067 REMARK 3 L TENSOR REMARK 3 L11: 0.8117 L22: 0.6819 REMARK 3 L33: 0.4060 L12: 0.1475 REMARK 3 L13: -0.1056 L23: -0.0559 REMARK 3 S TENSOR REMARK 3 S11: -0.0042 S12: -0.0264 S13: 0.0466 REMARK 3 S21: 0.1056 S22: -0.0003 S23: -0.0273 REMARK 3 S31: 0.0123 S32: -0.0056 S33: 0.0046 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|276 - B|903 } REMARK 3 ORIGIN FOR THE GROUP (A): 6.205 -59.740 -6.692 REMARK 3 T TENSOR REMARK 3 T11: -0.0350 T22: -0.0100 REMARK 3 T33: -0.0564 T12: 0.0141 REMARK 3 T13: 0.0008 T23: 0.0130 REMARK 3 L TENSOR REMARK 3 L11: 0.7647 L22: 0.9407 REMARK 3 L33: 0.4264 L12: -0.2373 REMARK 3 L13: -0.1617 L23: -0.0944 REMARK 3 S TENSOR REMARK 3 S11: 0.0510 S12: 0.0506 S13: -0.0577 REMARK 3 S21: -0.1528 S22: -0.0907 S23: -0.0616 REMARK 3 S31: -0.0091 S32: 0.0121 S33: 0.0397 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8COY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-MAR-23. REMARK 100 THE DEPOSITION ID IS D_1292128935. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID30B 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 104444 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.507 REMARK 200 RESOLUTION RANGE LOW (A) : 64.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5 M LISO4, 15% W/V PEG8000, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 THR A 273 REMARK 465 THR A 274 REMARK 465 LYS A 275 REMARK 465 GLY A 276 REMARK 465 HIS A 467 REMARK 465 ASP A 468 REMARK 465 LYS A 469 REMARK 465 LEU A 470 REMARK 465 SER A 471 REMARK 465 LYS A 472 REMARK 465 PRO A 473 REMARK 465 ASP A 474 REMARK 465 ILE A 475 REMARK 465 THR B 273 REMARK 465 THR B 274 REMARK 465 LYS B 275 REMARK 465 LYS B 469 REMARK 465 LEU B 470 REMARK 465 SER B 471 REMARK 465 LYS B 472 REMARK 465 PRO B 473 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 GLU C 107 CG CD OE1 OE2 REMARK 470 GLU D 107 CG CD OE1 OE2 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 ASP A 316 -148.18 -162.87 REMARK 500 PRO A 366 31.17 -88.95 REMARK 500 ASN A 370 -83.10 -110.21 REMARK 500 TYR A 371 -27.28 156.37 REMARK 500 SER A 463 161.71 89.85 REMARK 500 SER A 520 130.15 172.65 REMARK 500 MET A 539 42.51 70.34 REMARK 500 ARG A 591 -36.21 -130.58 REMARK 500 ASP B 316 -147.83 -163.44 REMARK 500 PRO B 366 31.70 -89.19 REMARK 500 ASN B 370 -83.19 -108.90 REMARK 500 TYR B 371 -28.06 157.07 REMARK 500 SER B 463 161.41 89.24 REMARK 500 SER B 520 130.15 172.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 VEF C 105 -14.28 REMARK 500 VEF D 105 -14.66 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 CA A 702 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 281 OD2 REMARK 620 2 ASP A 325 OD1 160.2 REMARK 620 3 ASP A 325 OD2 148.3 50.6 REMARK 620 4 VAL A 383 O 88.7 88.9 105.9 REMARK 620 5 ASN A 386 OD1 80.3 79.9 128.5 83.3 REMARK 620 6 ILE A 388 O 86.9 91.2 83.7 167.5 84.4 REMARK 620 7 ILE A 390 O 81.8 117.5 72.4 83.4 157.9 107.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 703 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 336 OE2 REMARK 620 2 ASP A 344 OD1 97.3 REMARK 620 3 ASP A 346 OD1 89.3 80.3 REMARK 620 4 ASN A 348 OD1 178.8 82.7 89.4 REMARK 620 5 VAL A 350 O 93.1 81.5 161.9 88.1 REMARK 620 6 ASP A 353 OD1 86.3 162.8 116.6 94.0 81.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 704 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 336 OE1 REMARK 620 2 ARG A 340 O 174.4 REMARK 620 3 VAL A 343 O 90.5 94.7 REMARK 620 4 ASP A 345 OD1 82.5 96.0 82.0 REMARK 620 5 ASP A 352 OD1 94.5 87.9 88.3 169.8 REMARK 620 6 HOH A 893 O 88.4 86.5 178.6 98.7 91.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 702 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 281 OD2 REMARK 620 2 ASP B 325 OD1 158.6 REMARK 620 3 ASP B 325 OD2 148.7 51.2 REMARK 620 4 VAL B 383 O 89.0 89.4 106.7 REMARK 620 5 ASN B 386 OD1 78.8 79.8 129.2 82.3 REMARK 620 6 ILE B 388 O 85.9 90.5 83.9 166.0 84.0 REMARK 620 7 ILE B 390 O 81.4 119.6 73.8 83.9 155.9 108.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 703 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 336 OE1 REMARK 620 2 ARG B 340 O 172.9 REMARK 620 3 VAL B 343 O 91.0 95.4 REMARK 620 4 ASP B 345 OD1 81.2 96.3 85.0 REMARK 620 5 ASP B 352 OD1 93.0 90.3 87.5 170.4 REMARK 620 6 HOH B 811 O 86.8 87.0 175.8 98.2 89.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 704 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 336 OE2 REMARK 620 2 ASP B 344 OD1 98.0 REMARK 620 3 ASP B 346 OD1 89.9 81.5 REMARK 620 4 ASN B 348 OD1 177.9 83.2 88.7 REMARK 620 5 VAL B 350 O 92.9 81.5 163.0 88.9 REMARK 620 6 ASP B 353 OD1 85.3 163.0 115.3 94.0 81.6 REMARK 620 N 1 2 3 4 5 DBREF 8COY A 273 617 UNP E6Y8B9 E6Y8B9_PLAVI 273 617 DBREF 8COY B 273 617 UNP E6Y8B9 E6Y8B9_PLAVI 273 617 DBREF 8COY C 101 107 PDB 8COY 8COY 101 107 DBREF 8COY D 101 107 PDB 8COY 8COY 101 107 SEQADV 8COY SER A 361 UNP E6Y8B9 ASN 361 ENGINEERED MUTATION SEQADV 8COY SER A 432 UNP E6Y8B9 ASN 432 ENGINEERED MUTATION SEQADV 8COY SER A 445 UNP E6Y8B9 ASN 445 ENGINEERED MUTATION SEQADV 8COY SER B 361 UNP E6Y8B9 ASN 361 ENGINEERED MUTATION SEQADV 8COY SER B 432 UNP E6Y8B9 ASN 432 ENGINEERED MUTATION SEQADV 8COY SER B 445 UNP E6Y8B9 ASN 445 ENGINEERED MUTATION SEQRES 1 A 345 THR THR LYS GLY TYR LYS PHE ASN ASP GLU TYR ARG ASN SEQRES 2 A 345 LEU GLN TRP GLY LEU ASP LEU ALA ARG LEU ASP GLU THR SEQRES 3 A 345 GLN ASP LEU ILE ASN ALA ASN ARG VAL SER VAL THR LYS SEQRES 4 A 345 ILE CYS VAL ILE ASP SER GLY ILE ASP TYR ASN HIS PRO SEQRES 5 A 345 ASP LEU ARG ASN ASN ILE ASP VAL ASN VAL LYS GLU LEU SEQRES 6 A 345 HIS GLY ARG LYS GLY VAL ASP ASP ASP SER ASN GLY VAL SEQRES 7 A 345 VAL ASP ASP VAL TYR GLY ALA ASN PHE VAL SER ASN SER SEQRES 8 A 345 GLY ASP PRO MET ASP ASP ASN TYR HIS GLY THR HIS VAL SEQRES 9 A 345 SER GLY ILE ILE SER ALA VAL GLY ASN ASN GLY ILE GLY SEQRES 10 A 345 ILE VAL GLY VAL ASP GLY HIS SER LYS LEU VAL ILE CYS SEQRES 11 A 345 LYS ALA LEU ASP GLN HIS LYS LEU GLY ARG LEU GLY ASP SEQRES 12 A 345 MET PHE LYS CYS ILE ASP TYR CYS ILE SER ARG GLN ALA SEQRES 13 A 345 HIS MET ILE SER GLY SER PHE SER PHE ASP GLU TYR SER SEQRES 14 A 345 ASN ILE PHE SER ALA SER VAL GLU HIS LEU ARG SER LEU SEQRES 15 A 345 GLY ILE LEU PHE PHE VAL SER ALA SER ASN CYS ALA HIS SEQRES 16 A 345 ASP LYS LEU SER LYS PRO ASP ILE ALA LYS CYS ASP LEU SEQRES 17 A 345 ALA VAL ASN HIS ARG TYR PRO PRO ILE LEU SER LYS THR SEQRES 18 A 345 HIS ASN ASN VAL ILE ALA VAL ALA ASN LEU LYS ARG ASP SEQRES 19 A 345 LEU ASP GLU SER TYR SER LEU SER VAL ASN SER PHE TYR SEQRES 20 A 345 SER ASN ILE TYR CYS GLN LEU ALA ALA PRO GLY THR ASN SEQRES 21 A 345 ILE TYR SER THR THR PRO MET ASN ASN TYR ARG LYS LEU SEQRES 22 A 345 ASN GLY THR SER MET ALA SER PRO HIS VAL ALA ALA ILE SEQRES 23 A 345 ALA SER ILE VAL ARG SER ILE ASN PRO ASN LEU THR TYR SEQRES 24 A 345 LEU GLN ILE VAL GLU ILE LEU ARG ASN ALA ILE VAL LYS SEQRES 25 A 345 LEU PRO SER LEU THR GLU ARG VAL SER TRP GLY GLY TYR SEQRES 26 A 345 VAL ASP ILE LEU ARG ALA VAL ASN LEU ALA ILE ASP SER SEQRES 27 A 345 LYS ALA ALA PRO TYR ILE LYS SEQRES 1 B 345 THR THR LYS GLY TYR LYS PHE ASN ASP GLU TYR ARG ASN SEQRES 2 B 345 LEU GLN TRP GLY LEU ASP LEU ALA ARG LEU ASP GLU THR SEQRES 3 B 345 GLN ASP LEU ILE ASN ALA ASN ARG VAL SER VAL THR LYS SEQRES 4 B 345 ILE CYS VAL ILE ASP SER GLY ILE ASP TYR ASN HIS PRO SEQRES 5 B 345 ASP LEU ARG ASN ASN ILE ASP VAL ASN VAL LYS GLU LEU SEQRES 6 B 345 HIS GLY ARG LYS GLY VAL ASP ASP ASP SER ASN GLY VAL SEQRES 7 B 345 VAL ASP ASP VAL TYR GLY ALA ASN PHE VAL SER ASN SER SEQRES 8 B 345 GLY ASP PRO MET ASP ASP ASN TYR HIS GLY THR HIS VAL SEQRES 9 B 345 SER GLY ILE ILE SER ALA VAL GLY ASN ASN GLY ILE GLY SEQRES 10 B 345 ILE VAL GLY VAL ASP GLY HIS SER LYS LEU VAL ILE CYS SEQRES 11 B 345 LYS ALA LEU ASP GLN HIS LYS LEU GLY ARG LEU GLY ASP SEQRES 12 B 345 MET PHE LYS CYS ILE ASP TYR CYS ILE SER ARG GLN ALA SEQRES 13 B 345 HIS MET ILE SER GLY SER PHE SER PHE ASP GLU TYR SER SEQRES 14 B 345 ASN ILE PHE SER ALA SER VAL GLU HIS LEU ARG SER LEU SEQRES 15 B 345 GLY ILE LEU PHE PHE VAL SER ALA SER ASN CYS ALA HIS SEQRES 16 B 345 ASP LYS LEU SER LYS PRO ASP ILE ALA LYS CYS ASP LEU SEQRES 17 B 345 ALA VAL ASN HIS ARG TYR PRO PRO ILE LEU SER LYS THR SEQRES 18 B 345 HIS ASN ASN VAL ILE ALA VAL ALA ASN LEU LYS ARG ASP SEQRES 19 B 345 LEU ASP GLU SER TYR SER LEU SER VAL ASN SER PHE TYR SEQRES 20 B 345 SER ASN ILE TYR CYS GLN LEU ALA ALA PRO GLY THR ASN SEQRES 21 B 345 ILE TYR SER THR THR PRO MET ASN ASN TYR ARG LYS LEU SEQRES 22 B 345 ASN GLY THR SER MET ALA SER PRO HIS VAL ALA ALA ILE SEQRES 23 B 345 ALA SER ILE VAL ARG SER ILE ASN PRO ASN LEU THR TYR SEQRES 24 B 345 LEU GLN ILE VAL GLU ILE LEU ARG ASN ALA ILE VAL LYS SEQRES 25 B 345 LEU PRO SER LEU THR GLU ARG VAL SER TRP GLY GLY TYR SEQRES 26 B 345 VAL ASP ILE LEU ARG ALA VAL ASN LEU ALA ILE ASP SER SEQRES 27 B 345 LYS ALA ALA PRO TYR ILE LYS SEQRES 1 C 7 ACE ILE THR ALA VEF ASP GLU SEQRES 1 D 7 ACE ILE THR ALA VEF ASP GLU HET ACE C 101 3 HET VEF C 105 7 HET ACE D 101 3 HET VEF D 105 7 HET NAG A 701 14 HET CA A 702 1 HET CA A 703 1 HET CA A 704 1 HET SO4 A 705 5 HET NAG B 701 14 HET CA B 702 1 HET CA B 703 1 HET CA B 704 1 HET SO4 B 705 5 HETNAM ACE ACETYL GROUP HETNAM VEF (3S)-3-AZANYL-2,2-BIS(OXIDANYL)BUTANOIC ACID HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CA CALCIUM ION HETNAM SO4 SULFATE ION HETSYN VEF (3S)-3-AZANYL-2-OXIDANYLIDENE-BUTANOIC ACID HETSYN 2 VEF (PRECURSOR); (3S)-3-AMINO-2-OXOBUTANOIC ACID HETSYN 3 VEF (PRECURSOR); (2R,3S)-3-AZANYL-2-OXIDANYL-BUTANOIC ACID HETSYN 4 VEF (REACTED) 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 3 ACE 2(C2 H4 O) FORMUL 3 VEF 2(C4 H9 N O4) FORMUL 5 NAG 2(C8 H15 N O6) FORMUL 6 CA 6(CA 2+) FORMUL 9 SO4 2(O4 S 2-) FORMUL 15 HOH *490(H2 O) HELIX 1 AA1 TYR A 283 LEU A 286 5 4 HELIX 2 AA2 GLN A 287 ARG A 294 1 8 HELIX 3 AA3 LEU A 295 GLU A 297 5 3 HELIX 4 AA4 THR A 298 ARG A 306 1 9 HELIX 5 AA5 LEU A 326 ILE A 330 5 5 HELIX 6 AA6 ASN A 333 HIS A 338 1 6 HELIX 7 AA7 TYR A 371 ALA A 382 1 12 HELIX 8 AA8 ARG A 412 ARG A 426 1 15 HELIX 9 AA9 SER A 441 LEU A 454 1 14 HELIX 10 AB1 PRO A 487 THR A 493 5 7 HELIX 11 AB2 GLY A 547 ASN A 566 1 20 HELIX 12 AB3 THR A 570 ALA A 581 1 12 HELIX 13 AB4 PRO A 586 THR A 589 5 4 HELIX 14 AB5 ASP A 599 SER A 610 1 12 HELIX 15 AB6 TYR B 283 LEU B 286 5 4 HELIX 16 AB7 GLN B 287 ARG B 294 1 8 HELIX 17 AB8 LEU B 295 GLU B 297 5 3 HELIX 18 AB9 THR B 298 ARG B 306 1 9 HELIX 19 AC1 LEU B 326 ILE B 330 5 5 HELIX 20 AC2 ASN B 333 HIS B 338 1 6 HELIX 21 AC3 TYR B 371 ALA B 382 1 12 HELIX 22 AC4 ARG B 412 ARG B 426 1 15 HELIX 23 AC5 SER B 441 LEU B 454 1 14 HELIX 24 AC6 ILE B 475 ASP B 479 5 5 HELIX 25 AC7 PRO B 487 THR B 493 5 7 HELIX 26 AC8 GLY B 547 ASN B 566 1 20 HELIX 27 AC9 THR B 570 ALA B 581 1 12 HELIX 28 AD1 PRO B 586 THR B 589 5 4 HELIX 29 AD2 ASP B 599 SER B 610 1 12 SHEET 1 AA1 7 GLY A 356 ASN A 358 0 SHEET 2 AA1 7 LYS A 398 LYS A 403 1 O LYS A 403 N ALA A 357 SHEET 3 AA1 7 LYS A 311 ASP A 316 1 N VAL A 314 O VAL A 400 SHEET 4 AA1 7 MET A 430 GLY A 433 1 O MET A 430 N CYS A 313 SHEET 5 AA1 7 LEU A 457 SER A 461 1 O PHE A 459 N ILE A 431 SHEET 6 AA1 7 VAL A 497 ARG A 505 1 O ILE A 498 N VAL A 460 SHEET 7 AA1 7 TYR A 511 LEU A 513 -1 O SER A 512 N LYS A 504 SHEET 1 AA2 7 GLY A 356 ASN A 358 0 SHEET 2 AA2 7 LYS A 398 LYS A 403 1 O LYS A 403 N ALA A 357 SHEET 3 AA2 7 LYS A 311 ASP A 316 1 N VAL A 314 O VAL A 400 SHEET 4 AA2 7 MET A 430 GLY A 433 1 O MET A 430 N CYS A 313 SHEET 5 AA2 7 LEU A 457 SER A 461 1 O PHE A 459 N ILE A 431 SHEET 6 AA2 7 VAL A 497 ARG A 505 1 O ILE A 498 N VAL A 460 SHEET 7 AA2 7 LEU A 526 PRO A 529 1 O ALA A 528 N LEU A 503 SHEET 1 AA3 3 LEU A 410 GLY A 411 0 SHEET 2 AA3 3 ILE C 102 ALA C 104 -1 O ILE C 102 N GLY A 411 SHEET 3 AA3 3 PHE A 435 SER A 436 -1 N SER A 436 O THR C 103 SHEET 1 AA4 2 ILE A 533 THR A 537 0 SHEET 2 AA4 2 ASN A 541 LEU A 545 -1 O LEU A 545 N ILE A 533 SHEET 1 AA5 2 ILE A 582 LYS A 584 0 SHEET 2 AA5 2 GLY A 596 VAL A 598 -1 O TYR A 597 N VAL A 583 SHEET 1 AA6 7 GLY B 356 ASN B 358 0 SHEET 2 AA6 7 LYS B 398 LYS B 403 1 O LYS B 403 N ALA B 357 SHEET 3 AA6 7 LYS B 311 ASP B 316 1 N VAL B 314 O VAL B 400 SHEET 4 AA6 7 MET B 430 GLY B 433 1 O MET B 430 N CYS B 313 SHEET 5 AA6 7 LEU B 457 SER B 461 1 O PHE B 459 N ILE B 431 SHEET 6 AA6 7 VAL B 497 ARG B 505 1 O ILE B 498 N VAL B 460 SHEET 7 AA6 7 TYR B 511 LEU B 513 -1 O SER B 512 N LYS B 504 SHEET 1 AA7 7 GLY B 356 ASN B 358 0 SHEET 2 AA7 7 LYS B 398 LYS B 403 1 O LYS B 403 N ALA B 357 SHEET 3 AA7 7 LYS B 311 ASP B 316 1 N VAL B 314 O VAL B 400 SHEET 4 AA7 7 MET B 430 GLY B 433 1 O MET B 430 N CYS B 313 SHEET 5 AA7 7 LEU B 457 SER B 461 1 O PHE B 459 N ILE B 431 SHEET 6 AA7 7 VAL B 497 ARG B 505 1 O ILE B 498 N VAL B 460 SHEET 7 AA7 7 LEU B 526 PRO B 529 1 O ALA B 528 N LEU B 503 SHEET 1 AA8 3 LEU B 410 GLY B 411 0 SHEET 2 AA8 3 ILE D 102 ALA D 104 -1 O ILE D 102 N GLY B 411 SHEET 3 AA8 3 PHE B 435 SER B 436 -1 N SER B 436 O THR D 103 SHEET 1 AA9 2 ILE B 533 THR B 537 0 SHEET 2 AA9 2 ASN B 541 LEU B 545 -1 O LEU B 545 N ILE B 533 SHEET 1 AB1 2 ILE B 582 LYS B 584 0 SHEET 2 AB1 2 GLY B 596 VAL B 598 -1 O TYR B 597 N VAL B 583 SSBOND 1 CYS A 313 CYS A 423 1555 1555 2.03 SSBOND 2 CYS A 402 CYS A 419 1555 1555 2.07 SSBOND 3 CYS A 465 CYS A 478 1555 1555 2.04 SSBOND 4 CYS B 313 CYS B 423 1555 1555 2.02 SSBOND 5 CYS B 402 CYS B 419 1555 1555 2.06 SSBOND 6 CYS B 465 CYS B 478 1555 1555 2.04 LINK ND2 ASN A 546 C1 NAG A 701 1555 1555 1.43 LINK OG SER A 549 C2 VEF C 105 1555 1555 1.43 LINK ND2 ASN B 546 C1 NAG B 701 1555 1555 1.43 LINK OG SER B 549 C2 VEF D 105 1555 1555 1.42 LINK C ACE C 101 N ILE C 102 1555 1555 1.39 LINK C ALA C 104 N VEF C 105 1555 1555 1.34 LINK C VEF C 105 N ASP C 106 1555 1555 1.38 LINK C ACE D 101 N ILE D 102 1555 1555 1.39 LINK C ALA D 104 N VEF D 105 1555 1555 1.35 LINK C VEF D 105 N ASP D 106 1555 1555 1.37 LINK OD2 ASP A 281 CA CA A 702 1555 1555 2.31 LINK OD1 ASP A 325 CA CA A 702 1555 1555 2.36 LINK OD2 ASP A 325 CA CA A 702 1555 1555 2.70 LINK OE2 GLU A 336 CA CA A 703 1555 1555 2.25 LINK OE1 GLU A 336 CA CA A 704 1555 1555 2.36 LINK O ARG A 340 CA CA A 704 1555 1555 2.28 LINK O VAL A 343 CA CA A 704 1555 1555 2.38 LINK OD1 ASP A 344 CA CA A 703 1555 1555 2.32 LINK OD1 ASP A 345 CA CA A 704 1555 1555 2.29 LINK OD1 ASP A 346 CA CA A 703 1555 1555 2.32 LINK OD1 ASN A 348 CA CA A 703 1555 1555 2.35 LINK O VAL A 350 CA CA A 703 1555 1555 2.32 LINK OD1 ASP A 352 CA CA A 704 1555 1555 2.26 LINK OD1 ASP A 353 CA CA A 703 1555 1555 2.31 LINK O VAL A 383 CA CA A 702 1555 1555 2.28 LINK OD1 ASN A 386 CA CA A 702 1555 1555 2.47 LINK O ILE A 388 CA CA A 702 1555 1555 2.33 LINK O ILE A 390 CA CA A 702 1555 1555 2.45 LINK CA CA A 704 O HOH A 893 1555 1555 2.24 LINK OD2 ASP B 281 CA CA B 702 1555 1555 2.33 LINK OD1 ASP B 325 CA CA B 702 1555 1555 2.37 LINK OD2 ASP B 325 CA CA B 702 1555 1555 2.65 LINK OE1 GLU B 336 CA CA B 703 1555 1555 2.33 LINK OE2 GLU B 336 CA CA B 704 1555 1555 2.27 LINK O ARG B 340 CA CA B 703 1555 1555 2.36 LINK O VAL B 343 CA CA B 703 1555 1555 2.33 LINK OD1 ASP B 344 CA CA B 704 1555 1555 2.31 LINK OD1 ASP B 345 CA CA B 703 1555 1555 2.25 LINK OD1 ASP B 346 CA CA B 704 1555 1555 2.31 LINK OD1 ASN B 348 CA CA B 704 1555 1555 2.38 LINK O VAL B 350 CA CA B 704 1555 1555 2.30 LINK OD1 ASP B 352 CA CA B 703 1555 1555 2.30 LINK OD1 ASP B 353 CA CA B 704 1555 1555 2.34 LINK O VAL B 383 CA CA B 702 1555 1555 2.30 LINK OD1 ASN B 386 CA CA B 702 1555 1555 2.49 LINK O ILE B 388 CA CA B 702 1555 1555 2.35 LINK O ILE B 390 CA CA B 702 1555 1555 2.40 LINK CA CA B 703 O HOH B 811 1555 1555 2.33 CISPEP 1 TYR A 486 PRO A 487 0 0.13 CISPEP 2 TYR B 486 PRO B 487 0 -0.70 CRYST1 53.260 55.100 69.010 69.22 78.31 74.76 P 1 2 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 0.018776 -0.005115 -0.002377 0.00000 SCALE2 0.000000 0.018810 -0.006334 0.00000 SCALE3 0.000000 0.000000 0.015614 0.00000