HEADER HYDROLASE INHIBITOR 28-SEP-00 1FYB TITLE SOLUTION STRUCTURE OF C1-T1, A TWO-DOMAIN PROTEINASE INHIBITOR DERIVED TITLE 2 FROM THE CIRCULAR PRECURSOR PROTEIN NA-PROPI FROM NICOTIANA ALATA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEINASE INHIBITOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DOMAINS 1 AND 2 (C1 AND T1) FROM THE SIX-DOMAIN PRECURSOR COMPND 5 PROTEIN NA-PROPI; COMPND 6 SYNONYM: NA-PROPI; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NICOTIANA ALATA; SOURCE 3 ORGANISM_COMMON: PERSIAN TOBACCO; SOURCE 4 ORGANISM_TAXID: 4087; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET11A KEYWDS TWO-DOMAIN PROTEIN, HYDROLASE INHIBITOR EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.J.CRAIK,H.J.SCHIRRA,M.J.SCANLON,M.A.ANDERSON REVDAT 4 23-FEB-22 1FYB 1 REMARK REVDAT 3 24-FEB-09 1FYB 1 VERSN REVDAT 2 01-APR-03 1FYB 1 JRNL REVDAT 1 21-FEB-01 1FYB 0 JRNL AUTH H.J.SCHIRRA,M.J.SCANLON,M.C.LEE,M.A.ANDERSON,D.J.CRAIK JRNL TITL THE SOLUTION STRUCTURE OF C1-T1, A TWO-DOMAIN PROTEINASE JRNL TITL 2 INHIBITOR DERIVED FROM A CIRCULAR PRECURSOR PROTEIN FROM JRNL TITL 3 NICOTIANA ALATA. JRNL REF J.MOL.BIOL. V. 306 69 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11178894 JRNL DOI 10.1006/JMBI.2000.4318 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, X-PLOR 3.851 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1193 CONSTRAINTS, 1039 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 82 REMARK 3 DIHEDRAL ANGLE RESTRAINTS, AND 72 HYDROGEN BOND DISTANCE REMARK 3 CONSTRAINTS REMARK 4 REMARK 4 1FYB COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-OCT-00. REMARK 100 THE DEPOSITION ID IS D_1000012010. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313; 313; 313 REMARK 210 PH : 5.8; 5.8; 5.8 REMARK 210 IONIC STRENGTH : 0; 0; 0 REMARK 210 PRESSURE : 1 ATM; 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 1MM C1-T1, UNLABELED; 1MM C1-T1, REMARK 210 UNLABELED; 1MM C1-T1, U-15N,13C REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX; ARX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, XEASY 1.3.7, DYANA REMARK 210 1.5, X-PLOR 3.851 REMARK 210 METHOD USED : SIMULATED ANNEALING WITH TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 4 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES AND 3D HETERONUCLEAR TECHNIQUES. REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 1 CYS A 50 CA - CB - SG ANGL. DEV. = 8.1 DEGREES REMARK 500 1 CYS A 108 CA - CB - SG ANGL. DEV. = 8.2 DEGREES REMARK 500 2 CYS A 99 CA - CB - SG ANGL. DEV. = 10.6 DEGREES REMARK 500 5 CYS A 50 CA - CB - SG ANGL. DEV. = 9.1 DEGREES REMARK 500 6 CYS A 50 CA - CB - SG ANGL. DEV. = 7.1 DEGREES REMARK 500 7 CYS A 108 CA - CB - SG ANGL. DEV. = 8.3 DEGREES REMARK 500 8 CYS A 108 CA - CB - SG ANGL. DEV. = 7.6 DEGREES REMARK 500 9 CYS A 50 CA - CB - SG ANGL. DEV. = 8.2 DEGREES REMARK 500 11 CYS A 50 CA - CB - SG ANGL. DEV. = 8.4 DEGREES REMARK 500 11 CYS A 66 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 12 CYS A 50 CA - CB - SG ANGL. DEV. = 7.5 DEGREES REMARK 500 13 CYS A 50 CA - CB - SG ANGL. DEV. = 7.1 DEGREES REMARK 500 14 CYS A 108 CA - CB - SG ANGL. DEV. = 7.8 DEGREES REMARK 500 15 CYS A 37 CA - CB - SG ANGL. DEV. = 6.8 DEGREES REMARK 500 16 CYS A 62 CA - CB - SG ANGL. DEV. = 7.2 DEGREES REMARK 500 16 CYS A 83 CA - CB - SG ANGL. DEV. = 8.2 DEGREES REMARK 500 16 CYS A 99 CA - CB - SG ANGL. DEV. = 7.3 DEGREES REMARK 500 19 CYS A 41 CA - CB - SG ANGL. DEV. = 10.0 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 1 ALA A 9 45.12 -89.22 REMARK 500 1 VAL A 24 -79.44 -127.56 REMARK 500 1 PRO A 31 75.22 -65.48 REMARK 500 1 ARG A 32 -53.43 -173.00 REMARK 500 1 THR A 38 -9.12 64.31 REMARK 500 1 ASN A 40 -177.77 47.42 REMARK 500 1 CYS A 41 119.36 48.63 REMARK 500 1 TYR A 47 -163.42 -166.23 REMARK 500 1 ARG A 52 -66.83 -152.92 REMARK 500 1 GLU A 54 8.09 -168.39 REMARK 500 1 LYS A 57 78.20 51.79 REMARK 500 1 ASN A 58 -39.82 -161.60 REMARK 500 1 ARG A 60 -73.59 7.29 REMARK 500 1 CYS A 66 -74.78 -90.65 REMARK 500 1 ALA A 67 35.57 -89.50 REMARK 500 1 VAL A 82 -77.91 -104.58 REMARK 500 1 PRO A 89 108.21 -38.58 REMARK 500 1 ALA A 94 103.29 -160.12 REMARK 500 1 PRO A 96 -5.70 -57.91 REMARK 500 1 ALA A 104 -61.32 -130.37 REMARK 500 2 LYS A 12 104.97 -48.16 REMARK 500 2 ASP A 20 -7.49 -59.69 REMARK 500 2 VAL A 24 -72.31 -128.89 REMARK 500 2 CYS A 37 -168.73 -79.96 REMARK 500 2 LEU A 39 64.66 -160.38 REMARK 500 2 ASN A 40 46.15 -88.65 REMARK 500 2 ASP A 42 88.35 -166.20 REMARK 500 2 TYR A 47 -163.07 -163.52 REMARK 500 2 LYS A 57 147.57 65.62 REMARK 500 2 ASN A 58 -78.76 64.48 REMARK 500 2 ASP A 59 166.67 61.98 REMARK 500 2 ILE A 61 85.39 -57.69 REMARK 500 2 CYS A 62 33.92 -93.26 REMARK 500 2 CYS A 66 -70.46 -89.38 REMARK 500 2 LYS A 70 86.91 -69.65 REMARK 500 2 VAL A 82 -78.38 -97.29 REMARK 500 2 PRO A 89 70.93 -67.95 REMARK 500 2 ARG A 90 -51.70 -162.88 REMARK 500 2 ASN A 98 -161.14 52.24 REMARK 500 2 CYS A 99 110.06 -36.67 REMARK 500 2 ALA A 104 -43.77 -131.78 REMARK 500 3 ARG A 2 -65.80 76.92 REMARK 500 3 CYS A 4 57.88 -140.61 REMARK 500 3 THR A 11 53.87 -153.11 REMARK 500 3 LYS A 12 -146.11 41.67 REMARK 500 3 ASP A 20 -8.01 -59.81 REMARK 500 3 VAL A 24 -71.29 -126.71 REMARK 500 3 CYS A 41 124.40 59.68 REMARK 500 3 ASP A 42 84.04 -152.33 REMARK 500 3 ALA A 46 -51.14 -125.37 REMARK 500 REMARK 500 THIS ENTRY HAS 432 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 88 PRO A 89 9 -145.12 REMARK 500 CYS A 108 PRO A 109 9 146.68 REMARK 500 CYS A 95 PRO A 96 12 148.48 REMARK 500 REMARK 500 REMARK: NULL DBREF 1FYB A 1 111 UNP Q40378 Q40378_NICAL 54 164 SEQRES 1 A 111 ASP ARG ILE CYS THR ASN CYS CYS ALA GLY THR LYS GLY SEQRES 2 A 111 CYS LYS TYR PHE SER ASP ASP GLY THR PHE VAL CYS GLU SEQRES 3 A 111 GLY GLU SER ASP PRO ARG ASN PRO LYS ALA CYS THR LEU SEQRES 4 A 111 ASN CYS ASP PRO ARG ILE ALA TYR GLY VAL CYS PRO ARG SEQRES 5 A 111 SER GLU GLU LYS LYS ASN ASP ARG ILE CYS THR ASN CYS SEQRES 6 A 111 CYS ALA GLY THR LYS GLY CYS LYS TYR PHE SER ASP ASP SEQRES 7 A 111 GLY THR PHE VAL CYS GLU GLY GLU SER ASP PRO ARG ASN SEQRES 8 A 111 PRO LYS ALA CYS PRO ARG ASN CYS ASP PRO ARG ILE ALA SEQRES 9 A 111 TYR GLY ILE CYS PRO LEU ALA SHEET 1 A 3 THR A 22 PHE A 23 0 SHEET 2 A 3 LYS A 15 SER A 18 -1 N SER A 18 O THR A 22 SHEET 3 A 3 ILE A 45 VAL A 49 -1 N ALA A 46 O PHE A 17 SHEET 1 B 3 THR A 80 GLU A 84 0 SHEET 2 B 3 LYS A 73 SER A 76 -1 O TYR A 74 N CYS A 83 SHEET 3 B 3 ILE A 103 ILE A 107 -1 N ALA A 104 O PHE A 75 SSBOND 1 CYS A 4 CYS A 41 1555 1555 2.02 SSBOND 2 CYS A 7 CYS A 25 1555 1555 2.02 SSBOND 3 CYS A 8 CYS A 37 1555 1555 2.02 SSBOND 4 CYS A 14 CYS A 50 1555 1555 2.02 SSBOND 5 CYS A 62 CYS A 99 1555 1555 2.02 SSBOND 6 CYS A 65 CYS A 83 1555 1555 2.02 SSBOND 7 CYS A 66 CYS A 95 1555 1555 2.02 SSBOND 8 CYS A 72 CYS A 108 1555 1555 2.02 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 MODEL 1