1O0J - Header Asymmetric Unit

HEADER HYDROLASE 21-FEB-03 1O0J

TITLE HUMAN T-CELL LEUKEMIA VIRUS TYPE I PROTEASE (HTLV-I) WITH TITLE 2 BOUND CAPSID/NUCLEOCAPSID (CA/NC) SUBSTRATE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.4.23.-; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CAPSID/NUCLEOCAPSID (CA/NC) JUNCTION PEPTIDE; COMPND 7 CHAIN: C; COMPND 8 OTHER_DETAILS: CAPSID/NUCLEOCAPSID CLEAVAGE SITE

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN T-CELL LEUKEMIA VIRUS TYPE I; SOURCE 3 ORGANISM_COMMON: VIRUS; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: HUMAN T-LYMPHOTROPIC VIRUS 1; SOURCE 6 ORGANISM_COMMON: VIRUS

KEYWDS HTLV-I, PROTEASE, STRUCTURE, CAPSID, NUCLEOCAPSID

EXPDTA THEORETICAL MODEL

AUTHOR K.DENNISON,B.E.HERGER,S.B.SHUKER

REVDAT 2 24-AUG-04 1O0J 1 JRNL REVDAT 1 01-APR-03 1O0J 0

JRNL AUTH B.E.HERGER,V.L.MARIANI,K.DENNISON,S.B.SHUKER JRNL TITL THE 10 C-TERMINAL RESIDUES OF HTLV-I PROTEASE ARE JRNL TITL 2 NOT NECESSARY FOR ENZYMATIC ACTIVITY. JRNL REF BIOCHEM.BIOPHYS.RES.COMM. V. 320 1306 2004 JRNL REFN ASTM BBRCA9 US ISSN 0006-291X

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.WU,J.M.ADOMAT,T.W.RIDKY,J.M.LOUIS,F.LEIS, REMARK 1 AUTH 2 R.W.HARRISON,I.T.WEBER REMARK 1 TITL STRUCTURAL BASIS FOR SPECIFICITY OF RETROVIRAL REMARK 1 TITL 2 PROTEASES REMARK 1 REF BIOCHEMISTRY V. 37 4518 1998 REMARK 1 REFN ASTM BICHAW US ISSN 0006-2960 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.FISER,R.K.DO,A.SALI REMARK 1 TITL MODELING OF LOOPS IN PROTEIN STRUCTURES REMARK 1 REF PROTEIN SCI. V. 9 1753 2000 REMARK 1 REFN ASTM PRCIEI US ISSN 0961-8368 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.A.MARTI-RENOM,A.C.STUART,A.FISER,R.SANCHEZ, REMARK 1 AUTH 2 F.MELO,A.SALI REMARK 1 TITL COMPARATIVE PROTEIN STRUCTURE MODELING OF GENES REMARK 1 TITL 2 AND GENOMES REMARK 1 REF ANNU.REV.BIOPHYS.BIOMOL. V. 29 291 2000 REMARK 1 REF 2 STRUCT. REMARK 1 REFN ASTM ABBSE4 US ISSN 1056-8700 REMARK 1 REFERENCE 4 REMARK 1 AUTH A.SALI,T.L.BLUNDELL REMARK 1 TITL COMPARATIVE PROTEIN MODELING BY SATISFACTION OF REMARK 1 TITL 2 SPATIAL RESTRAINTS REMARK 1 REF J.MOL.BIOL. V. 234 779 1993 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 1O0J COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-MAR-2003. REMARK 100 THE RCSB ID CODE IS RCSB018422.

REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: THE COORDINATES IN THIS ENTRY REPRESENT A MODEL REMARK 220 STRUCTURE. THE MODEL WAS GENERATED BASED ON THE CRYSTAL REMARK 220 STRUCTURE OF RSV PROTEASE WITH COMPLEX (PROTEASE/ REMARK 220 INHIBITOR) (PROTEIN DATA BANK ENTRY 1BAI) (J.WU ET AL REMARK 220 REFERENCE) ENERGY MINIMIZATIONS WERE PERFORMED WITH REMARK 220 MOLECULAR OPERATING ENVIRONMENT (CHEMICAL COMPUTING REMARK 220 GROUP, INC). THIS MODEL CONSISTS OF A PSEUDO SYMMETRIC REMARK 220 PROTEASE DIMER AND THE CAPSID/NUCLEOCAPSID SUBSTRATE. REMARK 220 THE TWO PROTEASE SUBUNITS HAVE BEEN ASSIGNED THE CHAIN REMARK 220 INDICATORS *A* AND *B*. THE CA/NC SUBSTRATE HAS BEEN REMARK 220 ASSIGNED THE CHAIN INDICATOR *C*.

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 LEU C 4 C LEU C 4 O 0.180 REMARK 500 VAL C 5 C VAL C 5 O 0.192 REMARK 500 VAL C 6 C VAL C 6 O 0.170 REMARK 500 GLU C 7 C GLU C 7 O 0.192 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 VAL C 5 C - N - CA ANGL. DEV. =-57.3 DEGREES REMARK 500 VAL C 5 O - C - N ANGL. DEV. =-36.9 DEGREES REMARK 500 VAL C 6 C - N - CA ANGL. DEV. =-36.7 DEGREES REMARK 500 VAL C 6 O - C - N ANGL. DEV. =-34.2 DEGREES REMARK 500 GLU C 7 C - N - CA ANGL. DEV. =-35.6 DEGREES REMARK 500 GLU C 7 O - C - N ANGL. DEV. =-32.4 DEGREES REMARK 500 PRO C 8 C - N - CA ANGL. DEV. =-33.6 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 53 68.41 113.43 REMARK 500 VAL A 56 -103.37 -157.45 REMARK 500 LEU A 78 -169.95 123.21 REMARK 500 LEU B 51 118.22 130.21 REMARK 500 LYS B 52 -149.61 161.02 REMARK 500 ALA B 59 -163.86 124.62 REMARK 500 LEU B 78 -163.60 127.94 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 59 GLY A 60 104.44 REMARK 500 ASP A 65 HIS A 66 124.39 REMARK 500 LEU A 91 VAL A 92 145.28 REMARK 500 VAL A 92 ASP A 93 147.08 REMARK 500 ASN A 96 ASN A 97 148.08 REMARK 500 ILE B 42 ALA B 43 143.12 REMARK 500 ALA B 43 LEU B 44 -146.08 REMARK 500 SER B 47 ASN B 48 -148.82 REMARK 500 GLY B 60 GLY B 61 -136.76 REMARK 500 VAL B 92 ASP B 93 140.60 REMARK 500 ASN B 97 TRP B 98 142.38 REMARK 500 TRP B 98 ALA B 99 149.39 REMARK 500 THR C 1 LYS C 2 -145.25 REMARK 500 LEU C 4 VAL C 5 -139.75 REMARK 500 VAL C 5 VAL C 6 139.90 REMARK 500 VAL C 6 GLU C 7 136.16 REMARK 500 GLU C 7 PRO C 8 114.23

DBREF 1O0J A 1 115 UNP P10274 VPRT_HTL1A 33 147 DBREF 1O0J B 1 115 UNP P10274 VPRT_HTL1A 33 147 DBREF 1O0J C 1 8 PIR S06073 S06073 341 348

SEQADV 1O0J GLU C 7 PIR S06073 GLN 347 CONFLICT

SEQRES 1 A 115 PRO VAL ILE PRO LEU ASP PRO ALA ARG ARG PRO VAL ILE SEQRES 2 A 115 LYS ALA GLN VAL ASP THR GLN THR SER HIS PRO LYS THR SEQRES 3 A 115 ILE GLU ALA LEU LEU ASP THR GLY ALA ASP MET THR VAL SEQRES 4 A 115 LEU PRO ILE ALA LEU PHE SER SER ASN THR PRO LEU LYS SEQRES 5 A 115 ASN THR SER VAL LEU GLY ALA GLY GLY GLN THR GLN ASP SEQRES 6 A 115 HIS PHE LYS LEU THR SER LEU PRO VAL LEU ILE ARG LEU SEQRES 7 A 115 PRO PHE ARG THR THR PRO ILE VAL LEU THR SER CYS LEU SEQRES 8 A 115 VAL ASP THR LYS ASN ASN TRP ALA ILE ILE GLY ARG ASP SEQRES 9 A 115 ALA LEU GLN GLN CYS GLN GLY VAL LEU TYR LEU SEQRES 1 B 115 PRO VAL ILE PRO LEU ASP PRO ALA ARG ARG PRO VAL ILE SEQRES 2 B 115 LYS ALA GLN VAL ASP THR GLN THR SER HIS PRO LYS THR SEQRES 3 B 115 ILE GLU ALA LEU LEU ASP THR GLY ALA ASP MET THR VAL SEQRES 4 B 115 LEU PRO ILE ALA LEU PHE SER SER ASN THR PRO LEU LYS SEQRES 5 B 115 ASN THR SER VAL LEU GLY ALA GLY GLY GLN THR GLN ASP SEQRES 6 B 115 HIS PHE LYS LEU THR SER LEU PRO VAL LEU ILE ARG LEU SEQRES 7 B 115 PRO PHE ARG THR THR PRO ILE VAL LEU THR SER CYS LEU SEQRES 8 B 115 VAL ASP THR LYS ASN ASN TRP ALA ILE ILE GLY ARG ASP SEQRES 9 B 115 ALA LEU GLN GLN CYS GLN GLY VAL LEU TYR LEU SEQRES 1 C 8 THR LYS VAL LEU VAL VAL GLU PRO

HELIX 1 1 GLY A 102 GLN A 110 1 9 HELIX 2 2 GLY B 102 CYS B 109 1 8

SHEET 1 A 2 ILE A 3 PRO A 4 0 SHEET 2 A 2 VAL B 112 LEU B 113 -1 O LEU B 113 N ILE A 3 SHEET 1 B 3 ILE A 27 LEU A 30 0 SHEET 2 B 3 VAL A 12 ALA A 15 -1 N ILE A 13 O ALA A 29 SHEET 3 B 3 VAL A 74 LEU A 75 -1 O LEU A 75 N LYS A 14 SHEET 1 C 3 VAL A 39 PRO A 41 0 SHEET 2 C 3 CYS A 90 VAL A 92 1 O CYS A 90 N LEU A 40 SHEET 3 C 3 GLN A 64 ASP A 65 -1 N GLN A 64 O LEU A 91 SHEET 1 D 2 THR A 70 LEU A 72 0 SHEET 2 D 2 ILE A 85 LEU A 87 -1 O ILE A 85 N LEU A 72 SHEET 1 E 2 VAL A 112 LEU A 113 0 SHEET 2 E 2 ILE B 3 PRO B 4 -1 O ILE B 3 N LEU A 113 SHEET 1 F 4 LYS B 25 LEU B 30 0 SHEET 2 F 4 VAL B 12 THR B 19 -1 N ILE B 13 O ALA B 29 SHEET 3 F 4 THR B 70 LEU B 72 -1 O SER B 71 N ASP B 18 SHEET 4 F 4 ILE B 85 LEU B 87 -1 O ILE B 85 N LEU B 72 SHEET 1 G 3 LYS B 25 LEU B 30 0 SHEET 2 G 3 VAL B 12 THR B 19 -1 N ILE B 13 O ALA B 29 SHEET 3 G 3 VAL B 74 LEU B 75 -1 O LEU B 75 N LYS B 14 SHEET 1 H 2 VAL B 39 LEU B 40 0 SHEET 2 H 2 CYS B 90 LEU B 91 1 O CYS B 90 N LEU B 40

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