10 20 30 40 50 60 70 80 2BL3 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 22-FEB-05 2BL3
TITLE THEORETICAL INTERACTION MODEL OF PLASMEPSIN II FROM TITLE 2 PLASMODIUM FALCIPARUM WITH A LIGAND FROM AN ECODED STATIN TITLE 3 COMBINATORIAL LIBRARY
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLASMEPSIN II; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ASPARTIC HEMOGLOBINASE II, PFAPD; COMPND 5 EC: 3.4.23.39; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: THE SUBMITTED FILE IS A COMPLEX OF COMPND 8 PLASMEPSIN II FROM PLASMODIUM FALCIPARUM WITH A LIGAND COMPND 9 FROM AN ENCODED COMBINATORIAL LIBRARY OF STATIN
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES
KEYWDS ASPARTYL PROTEASE, DIRECT PROTEIN SEQUENCING, GLYCOPROTEIN, KEYWDS 2 HYDROLASE, SIGNAL, ZYMOGEN, STATIN
EXPDTA THEORETICAL MODEL
AUTHOR S.MAHANTA,S.HAZARIKA
REVDAT 1 03-MAR-05 2BL3 0
JRNL AUTH S.MAHANTA,S.HAZARIKA JRNL TITL INTERACTION MODEL OF PLASMEPSIN II WITH A MOLECULE JRNL TITL 2 FROM STATIN COMBINATORIAL LIBRARY JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2BL3 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY EBI ON 1-MAR-2005. REMARK 100 THE EBI ID CODE IS EBI-23089.
REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: THIS MODEL WAS BUILT USING HEX DOCKING PROGRAM WHERE REMARK 220 PLASMEPSIN II WAS DOCKED WITH THE LIGANG AND THE
REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS.
REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 MET A 15 SD MET A 15 CE 0.169 REMARK 500 MET A 286 SD MET A 286 CE 0.127 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ILE A 32 N - CA - C ANGL. DEV. =-15.5 DEGREES REMARK 500 GLU A 74 N - CA - C ANGL. DEV. =-13.2 DEGREES REMARK 500 LEU A 168 N - CA - C ANGL. DEV. =-13.6 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 ASN A 3 145.21 82.47 REMARK 500 ASP A 162 -66.07 89.71 REMARK 500 PHE A 241 -42.78 71.67 REMARK 500 HIS A 276 -115.77 99.32
REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED.
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1J8J RELATED DB: PDB REMARK 900 A NEW CLASS OF SMALL NON-PEPTIDYL REMARK 900 COMPOUNDS BLOCKSPLASMODIUM FALCIPARUM DEVELOPMENT REMARK 900 IN VITRO BY INHIBITINGPLASMEPSINS REMARK 900 RELATED ID: 1LEE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMEPSIN FROM P. REMARK 900 FALCIPARUM INCOMPLEX WITH INHIBITOR RS367 REMARK 900 RELATED ID: 1LF2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMEPSIN II FROM P REMARK 900 FALCIPARUM INCOMPLEX WITH INHIBITOR RS370 REMARK 900 RELATED ID: 1LF3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMEPSIN II FROM P REMARK 900 FALCIPARUM INCOMPLEX WITH INHIBITOR EH58 REMARK 900 RELATED ID: 1LF4 RELATED DB: PDB REMARK 900 STRUCTURE OF PLASMEPSIN II REMARK 900 RELATED ID: 1M43 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PMII IN COMPLEX WITH REMARK 900 PEPSTATIN A TO2.4 A REMARK 900 RELATED ID: 1ME6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PLASMEPSIN II, AN REMARK 900 ASPARTYL PROTEASEFROM PLASMODIUM FALCIPARUM, IN REMARK 900 COMPLEX WITH A STATINE-BASED INHIBITOR REMARK 900 RELATED ID: 1PFZ RELATED DB: PDB REMARK 900 PROPLASMEPSIN II FROM PLASMODIUM FALCIPARUM REMARK 900 RELATED ID: 1SME RELATED DB: PDB REMARK 900 PLASMEPSIN II, A HEMOGLOBIN-DEGRADING ENZYME REMARK 900 FROM PLASMODIUM FALCIPARUM, IN COMPLEX WITH REMARK 900 PEPSTATIN A REMARK 900 RELATED ID: 1W6H RELATED DB: PDB REMARK 900 NOVEL PLASMEPSIN II-INHIBITOR COMPLEX REMARK 900 RELATED ID: 1W6I RELATED DB: PDB REMARK 900 PLASMEPSIN II-PEPSTATIN A COMPLEX REMARK 900 RELATED ID: 2BJU RELATED DB: PDB REMARK 900 PLASMEPSIN II COMPLEXED WITH A HIGHLY ACTIVE REMARK 900 ACHIRAL INHIBITOR
REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE HAVING THE ABOVE ACCESSION NUMBER CONTAINS REMARK 999 THE PRO PLASMEPSIN II.
DBREF 2BL3 A 1 329 UNP P46925 PLM2_PLAFA 125 453
SEQRES 1 A 329 SER SER ASN ASP ASN ILE GLU LEU VAL ASP PHE GLN ASN SEQRES 2 A 329 ILE MET PHE TYR GLY ASP ALA GLU VAL GLY ASP ASN GLN SEQRES 3 A 329 GLN PRO PHE THR PHE ILE LEU ASP THR GLY SER ALA ASN SEQRES 4 A 329 LEU TRP VAL PRO SER VAL LYS CYS THR THR ALA GLY CYS SEQRES 5 A 329 LEU THR LYS HIS LEU TYR ASP SER SER LYS SER ARG THR SEQRES 6 A 329 TYR GLU LYS ASP GLY THR LYS VAL GLU MET ASN TYR VAL SEQRES 7 A 329 SER GLY THR VAL SER GLY PHE PHE SER LYS ASP LEU VAL SEQRES 8 A 329 THR VAL GLY ASN LEU SER LEU PRO TYR LYS PHE ILE GLU SEQRES 9 A 329 VAL ILE ASP THR ASN GLY PHE GLU PRO THR TYR THR ALA SEQRES 10 A 329 SER THR PHE ASP GLY ILE LEU GLY LEU GLY TRP LYS ASP SEQRES 11 A 329 LEU SER ILE GLY SER VAL ASP PRO ILE VAL VAL GLU LEU SEQRES 12 A 329 LYS ASN GLN ASN LYS ILE GLU ASN ALA LEU PHE THR PHE SEQRES 13 A 329 TYR LEU PRO VAL HIS ASP LYS HIS THR GLY PHE LEU THR SEQRES 14 A 329 ILE GLY GLY ILE GLU GLU ARG PHE TYR GLU GLY PRO LEU SEQRES 15 A 329 THR TYR GLU LYS LEU ASN HIS ASP LEU TYR TRP GLN ILE SEQRES 16 A 329 THR LEU ASP ALA HIS VAL GLY ASN ILE SER LEU GLU LYS SEQRES 17 A 329 ALA ASN CYS ILE VAL ASP SER GLY THR SER ALA ILE THR SEQRES 18 A 329 VAL PRO THR ASP PHE LEU ASN LYS MET LEU GLN ASN LEU SEQRES 19 A 329 ASP VAL ILE LYS VAL PRO PHE LEU PRO PHE TYR VAL THR SEQRES 20 A 329 LEU CYS ASN ASN SER LYS LEU PRO THR PHE GLU PHE THR SEQRES 21 A 329 SER GLU ASN GLY LYS TYR THR LEU GLU PRO GLU TYR TYR SEQRES 22 A 329 LEU GLN HIS ILE GLU ASP VAL GLY PRO GLY LEU CYS MET SEQRES 23 A 329 LEU ASN ILE ILE GLY LEU ASP PHE PRO VAL PRO THR PHE SEQRES 24 A 329 ILE LEU GLY ASP PRO PHE MET ARG LYS TYR PHE THR VAL SEQRES 25 A 329 PHE ASP TYR ASP ASN HIS SER VAL GLY ILE ALA LEU ALA SEQRES 26 A 329 LYS LYS ASN LEU
HET OPQ A1330 82
HETNAM OPQ ((3S,4S)-4-((2S,3S)-2-(2-(NAPTHALEN-6-YL)ACETAMIDO)-3- HETNAM 2 OPQ METHYLPENTANAMIDO)-N-BUTYL-3-HYDROXY-6- HETNAM 3 OPQ METHYLHEPTANAMIDE)
FORMUL 2 OPQ C30 H45 N3 O4
HELIX 1 1 ALA A 50 LYS A 55 5 6 HELIX 2 2 ASP A 59 SER A 63 5 5 HELIX 3 3 THR A 108 GLU A 112 5 5 HELIX 4 4 THR A 114 SER A 118 5 5 HELIX 5 5 TRP A 128 SER A 132 5 5 HELIX 6 6 PRO A 138 GLN A 146 1 9 HELIX 7 7 GLU A 174 ARG A 176 5 3 HELIX 8 8 PRO A 223 GLN A 232 1 10 HELIX 9 9 GLU A 269 TYR A 273 1 5 HELIX 10 10 GLY A 302 LYS A 308 1 7
SHEET 1 AA 3 GLU A 67 ASN A 76 0 SHEET 2 AA 3 THR A 81 VAL A 93 -1 O VAL A 82 N MET A 75 SHEET 3 AA 3 MET A 15 VAL A 22 -1 O GLU A 21 N THR A 92 SHEET 1 AB 7 GLU A 67 ASN A 76 0 SHEET 2 AB 7 THR A 81 VAL A 93 -1 O VAL A 82 N MET A 75 SHEET 3 AB 7 LEU A 96 ASP A 107 -1 O LEU A 96 N VAL A 93 SHEET 4 AB 7 LEU A 40 PRO A 43 1 O LEU A 40 N ILE A 103 SHEET 5 AB 7 GLY A 122 GLY A 125 -1 O ILE A 123 N TRP A 41 SHEET 6 AB 7 GLN A 27 ASP A 34 1 O ILE A 32 N LEU A 124 SHEET 7 AB 7 MET A 15 VAL A 22 -1 O GLY A 18 N PHE A 31 SHEET 1 AC 7 LYS A 265 LEU A 268 0 SHEET 2 AC 7 PHE A 257 THR A 260 -1 O PHE A 257 N LEU A 268 SHEET 3 AC 7 GLN A 194 VAL A 201 -1 O ASP A 198 N THR A 260 SHEET 4 AC 7 ILE A 204 VAL A 213 -1 O ILE A 204 N VAL A 201 SHEET 5 AC 7 THR A 298 LEU A 301 1 O PHE A 299 N ILE A 212 SHEET 6 AC 7 ILE A 220 VAL A 222 -1 O THR A 221 N ILE A 300 SHEET 7 AC 7 ILE A 289 GLY A 291 1 O ILE A 290 N VAL A 222 SHEET 1 AD 4 VAL A 236 LYS A 238 0 SHEET 2 AD 4 TYR A 245 LEU A 248 -1 O VAL A 246 N ILE A 237 SHEET 3 AD 4 LEU A 284 LEU A 287 -1 O CYS A 285 N THR A 247 SHEET 4 AD 4 LEU A 274 HIS A 276 -1 O GLN A 275 N MET A 286
SSBOND 1 CYS A 47 CYS A 52 SSBOND 2 CYS A 249 CYS A 285
CISPEP 1 GLU A 112 PRO A 113 0 0.13
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000