HEADER HYDROLASE INHIBITOR 12-MAR-13 2M5X TITLE NOVEL METHOD OF PROTEIN PURIFICATION FOR STRUCTURAL RESEARCH. EXAMPLE TITLE 2 OF ULTRA HIGH RESOLUTION STRUCTURE OF SPI-2 INHIBITOR BY X-RAY AND TITLE 3 NMR SPECTROSCOPY. COMPND MOL_ID: 1; COMPND 2 MOLECULE: SILK PROTEASE INHIBITOR 2; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLERIA MELLONELLA; SOURCE 3 ORGANISM_COMMON: GREATER WAX MOTH; SOURCE 4 ORGANISM_TAXID: 7137; SOURCE 5 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PPICZALFAB KEYWDS SERINE PROTEASE INHIBITOR, KAZAL FAMILY, SPI-2, HYDROLASE INHIBITOR EXPDTA SOLUTION NMR NUMMDL 17 AUTHOR M.LENARCIC ZIVKOVIC,A.DVORNYK,B.KLUDKIEWICZ,E.KOPERA,W.ZAGORSKI- AUTHOR 2 OSTOJA,K.GRZELAK,I.ZHUKOV,W.BAL REVDAT 4 30-OCT-24 2M5X 1 REMARK REVDAT 3 14-JUN-23 2M5X 1 SEQADV REVDAT 2 25-FEB-15 2M5X 1 JRNL REVDAT 1 12-MAR-14 2M5X 0 JRNL AUTH E.KOPERA,W.BAL,M.LENARCIC ZIVKOVIC,A.DVORNYK,B.KLUDKIEWICZ, JRNL AUTH 2 K.GRZELAK,I.ZHUKOV,W.ZAGORSKI-OSTOJA,M.JASKOLSKI,S.KRZYWDA JRNL TITL ATOMIC RESOLUTION STRUCTURE OF A PROTEIN PREPARED BY JRNL TITL 2 NON-ENZYMATIC HIS-TAG REMOVAL. CRYSTALLOGRAPHIC AND NMR JRNL TITL 3 STUDY OF GMSPI-2 INHIBITOR. JRNL REF PLOS ONE V. 9 06936 2014 JRNL REFN ESSN 1932-6203 JRNL PMID 25233114 JRNL DOI 10.1371/JOURNAL.PONE.0106936 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.3 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2M5X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000103249. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM GMSPI 2, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : UNIFORM NMR SYSTEM REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 17 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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 ASP A 34 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 4 ASP A 10 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 4 ASP A 16 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 5 ASP A 10 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 5 ASP A 16 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 9 ASP A 34 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 10 ASP A 34 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 12 ASP A 16 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 14 ASP A 16 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 16 ASP A 34 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 17 ASP A 34 CB - CG - OD2 ANGL. DEV. = 5.6 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 2 -138.52 -149.71 REMARK 500 1 ASP A 34 -58.85 -128.37 REMARK 500 2 ALA A 2 -157.45 -160.91 REMARK 500 2 VAL A 4 -41.73 -138.25 REMARK 500 2 ASP A 34 -58.91 -126.03 REMARK 500 3 TRP A 9 108.39 -57.41 REMARK 500 4 TRP A 9 105.38 -58.78 REMARK 500 5 ALA A 2 -138.51 53.87 REMARK 500 5 ALA A 3 -80.28 -75.19 REMARK 500 5 VAL A 4 -37.62 -138.25 REMARK 500 5 ASP A 34 -59.15 -122.38 REMARK 500 6 ASP A 34 -59.10 -124.36 REMARK 500 8 ALA A 2 -81.80 -143.44 REMARK 500 8 ASP A 34 -55.17 -121.51 REMARK 500 9 TRP A 9 105.34 -48.13 REMARK 500 9 ASP A 34 -58.15 -126.51 REMARK 500 10 TRP A 9 103.90 -51.10 REMARK 500 10 ASP A 34 -57.38 -125.64 REMARK 500 11 THR A 7 25.15 -79.03 REMARK 500 11 ASP A 34 -58.83 -122.92 REMARK 500 12 VAL A 4 -34.40 -137.75 REMARK 500 12 TRP A 9 109.93 -58.58 REMARK 500 12 ASP A 34 -53.34 -129.98 REMARK 500 13 ALA A 2 -157.75 -161.36 REMARK 500 13 ALA A 3 -76.38 -65.31 REMARK 500 13 VAL A 4 -48.27 -138.33 REMARK 500 13 ASP A 34 -58.71 -120.91 REMARK 500 14 VAL A 4 -34.97 -138.24 REMARK 500 14 TRP A 9 108.98 -58.98 REMARK 500 14 ASP A 34 -59.19 -130.65 REMARK 500 16 TRP A 9 107.77 -48.85 REMARK 500 16 ASP A 34 -58.93 -125.09 REMARK 500 17 TRP A 9 108.62 -59.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4HGU RELATED DB: PDB REMARK 900 RELATED ID: 19085 RELATED DB: BMRB DBREF 2M5X A 3 39 UNP Q968S7 Q968S7_GALME 22 58 SEQADV 2M5X GLU A 1 UNP Q968S7 EXPRESSION TAG SEQADV 2M5X ALA A 2 UNP Q968S7 EXPRESSION TAG SEQADV 2M5X LEU A 40 UNP Q968S7 EXPRESSION TAG SEQRES 1 A 40 GLU ALA ALA VAL CYS THR THR GLU TRP ASP PRO VAL CYS SEQRES 2 A 40 GLY LYS ASP GLY LYS THR TYR SER ASN LEU CYS TRP LEU SEQRES 3 A 40 ASN GLU ALA GLY VAL GLY LEU ASP HIS GLU GLY GLU CYS SEQRES 4 A 40 LEU HELIX 1 1 ASN A 22 GLY A 30 1 9 SHEET 1 A 3 THR A 19 TYR A 20 0 SHEET 2 A 3 VAL A 12 GLY A 14 -1 N VAL A 12 O TYR A 20 SHEET 3 A 3 LEU A 33 GLU A 36 -1 O HIS A 35 N CYS A 13 SSBOND 1 CYS A 5 CYS A 24 1555 1555 2.03 SSBOND 2 CYS A 13 CYS A 39 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