10 20 30 40 50 60 70 80 1HVP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE(ACID PROTEINASE) 14-MAR-89 1HVP
TITLE MOLECULAR MODELING OF THE HIV-1 PROTEASE AND ITS SUBSTRATE TITLE 2 BINDING SITE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 PROTEASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE:; COMPND 7 CHAIN: S; COMPND 8 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HIV-1 RETROVIRUS (STRAIN BH10); SOURCE 3 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 4 MOL_ID: 2
KEYWDS HYDROLASE(ACID PROTEINASE)
EXPDTA THEORETICAL MODEL
AUTHOR I.T.WEBER
REVDAT 5 15-JAN-95 1HVP 1 COMPND EXPDTA REVDAT 4 15-APR-92 1HVP 1 SEQRES REVDAT 3 15-APR-90 1HVP 1 SITE REVDAT 2 15-OCT-89 1HVP 1 HEADER REVDAT 1 19-APR-89 1HVP 0
JRNL AUTH I.T.WEBER,M.MILLER,M.JASKOLSKI,J.LEIS,A.M.SKALKA, JRNL AUTH 2 A.WLODAWER JRNL TITL MOLECULAR MODELING OF THE HIV-1 PROTEASE AND ITS JRNL TITL 2 SUBSTRATE BINDING SITE. JRNL REF SCIENCE V. 243 928 1989 JRNL REFN ASTM SCIEAS US ISSN 0036-8075
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.MILLER,M.JASKOLSKI,J.K.M.RAO,J.LEIS,A.WLODAWER REMARK 1 TITL CRYSTAL STRUCTURE OF A RETROVIRAL PROTEASE PROVES REMARK 1 TITL 2 RELATIONSHIP TO ASPARTIC PROTEASE FAMILY REMARK 1 REF NATURE V. 337 576 1989 REMARK 1 REFN ASTM NATUAS UK ISSN 0028-0836 REMARK 1 REFERENCE 2 REMARK 1 AUTH K.SUGUNA,R.R.BOTT,E.A.PADLAN,E.SUBRAMANIAN, REMARK 1 AUTH 2 S.SHERIFF,G.H.COHEN,D.R.DAVIES REMARK 1 TITL STRUCTURE AND REFINEMENT AT 1.8 ANGSTROMS REMARK 1 TITL 2 RESOLUTION OF THE ASPARTIC PROTEINASE FROM REMARK 1 TITL 3 RHIZOPUS CHINENSIS REMARK 1 REF J.MOL.BIOL. V. 196 877 1987 REMARK 1 REFN ASTM JMOBAK UK ISSN 0022-2836
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 1HVP COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998
REMARK 5 REMARK 5 THE COORDINATES WERE ONLY REFINED USING FRODO REFI WHERE REMARK 5 THE SEQUENCE DIFFERED IN THE RSV AND HIV PROTEASES. THE REMARK 5 COORDINATES HAVE NOT BEEN COMPLETELY REGULARIZED AND SOME REMARK 5 OF THE GEOMETRY IS NON-STANDARD. THIS MODEL IS MEANT TO REMARK 5 BE MORE QUALITATIVE THAN EXACT.
REMARK 6 REMARK 6 THESE COORDINATES ARE NON-EXPERIMENTAL. THE CRYST1 REMARK 6 RECORD AND SCALE TRANSFORMATION GIVEN BELOW ARE OBVIOUSLY REMARK 6 MEANINGLESS BUT MUST BE INCLUDED TO MEET PROTEIN DATA BANK REMARK 6 SPECIFICATIONS.
REMARK 7 REMARK 7 THE TWO CHAINS ARE IDENTICAL EXCEPT FOR THE FLAPS WHICH REMARK 7 WERE MOVED INTO SLIGHTLY DIFFERENT POSITIONS IN ORDER TO REMARK 7 INTERACT WITH THE SUBSTRATE.
REMARK 8 REMARK 8 THE CATALYTIC ASPARTIC ACIDS ARE RESIDUES ASP A 25 AND REMARK 8 ASP B 25. THE RESIDUES COMPRISING THE CATALYTIC SITE ARE REMARK 8 PRESENTED ON *SITE* RECORDS BELOW.
REMARK 9 REMARK 9 CORRECTION. STANDARDIZE HEADER RECORD. 15-OCT-89.
REMARK 10 REMARK 10 CORRECTION. CORRECT RECORD NUMBER ON SITE RECORD BELOW. REMARK 10 15-APR-90.
REMARK 11 REMARK 11 CORRECTION. CORRECT NUMBER OF RESIDUES FOR CHAIN S ON REMARK 11 SEQRES RECORD. 15-APR-92.
REMARK 12 REMARK 12 CORRECTION. REVISE THEORETICAL MODEL INFORMATION ON COMPND REMARK 12 RECORD. ADD EXPDTA RECORD. 15-JAN-95.
REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: NULL
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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI REMARK 500 O GLY A 51 CG2 VAL S 7 1.45 REMARK 500 CG2 ILE B 50 N SER S 1 1.78 REMARK 500 NH1 ARG B 8 CG1 VAL S 7 1.91 REMARK 500 CD2 HIS A 69 CZ PHE B 99 1.92 REMARK 500 N ILE B 54 OD1 ASN S 3 1.98 REMARK 500 CE1 TYR A 59 CG2 VAL A 77 2.04 REMARK 500 NE2 HIS A 69 CE2 PHE B 99 2.05 REMARK 500 CE1 TYR B 59 CG2 VAL B 77 2.05 REMARK 500 CD1 LEU A 38 OH TYR A 59 2.06 REMARK 500 CD1 LEU B 38 OH TYR B 59 2.06 REMARK 500 CD1 ILE B 54 CD2 LEU B 76 2.08 REMARK 500 CD1 ILE A 54 CD2 LEU A 76 2.09 REMARK 500 O ILE A 66 N GLY A 68 2.16 REMARK 500 O ILE B 66 N GLY B 68 2.16 REMARK 500 O ILE B 15 N GLY B 17 2.18 REMARK 500 O ILE A 15 N GLY A 17 2.19 REMARK 500 O GLY B 51 CA GLN S 2 2.19 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 LEU A 33 CB LEU A 33 CG -0.210 REMARK 500 LEU A 33 CG LEU A 33 CD1 0.290 REMARK 500 LEU A 33 CG LEU A 33 CD2 0.208 REMARK 500 VAL A 56 C ARG A 57 N 0.239 REMARK 500 LEU B 33 CB LEU B 33 CG -0.212 REMARK 500 LEU B 33 CG LEU B 33 CD1 0.301 REMARK 500 LEU B 33 CG LEU B 33 CD2 0.214 REMARK 500 VAL B 56 C ARG B 57 N 0.224 REMARK 500 ASN S 3 C TYR S 4 N 0.221 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 GLU A 34 N - CA - CB ANGL. DEV. = 35.0 DEGREES REMARK 500 GLU B 34 N - CA - CB ANGL. DEV. = 34.6 DEGREES REMARK 500 VAL B 56 CA - C - N ANGL. DEV. =-24.3 DEGREES REMARK 500 TYR S 4 C - N - CA ANGL. DEV. =-28.9 DEGREES
DBREF 1HVP A 1 99 UNP P03366 POL_HV1B1 69 167 DBREF 1HVP B 1 99 UNP P03366 POL_HV1B1 69 167
SEQRES 1 A 99 PRO GLN ILE THR LEU TRP GLN ARG PRO LEU VAL THR ILE SEQRES 2 A 99 LYS ILE GLY GLY GLN LEU LYS GLU ALA LEU LEU ASP THR SEQRES 3 A 99 GLY ALA ASP ASP THR VAL LEU GLU GLU MET SER LEU PRO SEQRES 4 A 99 GLY ARG TRP LYS PRO LYS MET ILE GLY GLY ILE GLY GLY SEQRES 5 A 99 PHE ILE LYS VAL ARG GLN TYR ASP GLN ILE LEU ILE GLU SEQRES 6 A 99 ILE CYS GLY HIS LYS ALA ILE GLY THR VAL LEU VAL GLY SEQRES 7 A 99 PRO THR PRO VAL ASN ILE ILE GLY ARG ASN LEU LEU THR SEQRES 8 A 99 GLN ILE GLY CYS THR LEU ASN PHE SEQRES 1 B 99 PRO GLN ILE THR LEU TRP GLN ARG PRO LEU VAL THR ILE SEQRES 2 B 99 LYS ILE GLY GLY GLN LEU LYS GLU ALA LEU LEU ASP THR SEQRES 3 B 99 GLY ALA ASP ASP THR VAL LEU GLU GLU MET SER LEU PRO SEQRES 4 B 99 GLY ARG TRP LYS PRO LYS MET ILE GLY GLY ILE GLY GLY SEQRES 5 B 99 PHE ILE LYS VAL ARG GLN TYR ASP GLN ILE LEU ILE GLU SEQRES 6 B 99 ILE CYS GLY HIS LYS ALA ILE GLY THR VAL LEU VAL GLY SEQRES 7 B 99 PRO THR PRO VAL ASN ILE ILE GLY ARG ASN LEU LEU THR SEQRES 8 B 99 GLN ILE GLY CYS THR LEU ASN PHE SEQRES 1 S 7 SER GLN ASN TYR PRO ILE VAL
HELIX 1 H1A GLU A 34 SER A 37 1 4 HELIX 2 H2A GLY A 86 GLY A 94 1 9 HELIX 3 H1B GLU B 34 SER B 37 1 4 HELIX 4 H2B GLY B 86 GLY B 94 1 9
SHEET 1 S1A 5 GLY A 17 THR A 26 0 SHEET 2 S1A 5 PRO A 9 GLY A 16 -1 SHEET 3 S1A 5 ILE A 54 CYS A 67 -1 SHEET 4 S1A 5 GLY A 68 GLY A 78 -1 SHEET 5 S1A 5 LYS A 43 MET A 46 -1 SHEET 1 S1B 5 GLY B 17 THR B 26 0 SHEET 2 S1B 5 PRO B 9 GLY B 16 -1 SHEET 3 S1B 5 ILE B 54 CYS B 67 -1 SHEET 4 S1B 5 GLY B 68 GLY B 78 -1 SHEET 5 S1B 5 LYS B 43 MET B 46 -1 SHEET 1 S2 4 PRO A 1 ILE A 3 0 SHEET 2 S2 4 GLY B 94 PHE B 99 -1 SHEET 3 S2 4 GLY A 94 PHE A 99 -1 SHEET 4 S2 4 PRO B 1 ILE B 3 -1
SITE 1 CAT 6 ASP A 25 THR A 26 GLY A 27 ASP B 25 SITE 2 CAT 6 THR B 26 GLY B 27
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