PDB Short entry for 2MMW HEADER ANTIBIOTIC 20-MAR-14 2MMW TITLE LASSO PEPTIDE BASED INTEGRIN INHIBITOR: MICROCIN J25 VARIANT WITH RGD TITLE 2 SUBSTITUTION OF GLY12-ILE13-GLY14 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MICROCIN J25; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MCCJ25; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LASSO PEPTIDE, MICROCIN J25, EPITOPE GRAFTING, PEPTIDE SCAFFOLD, KEYWDS 2 INTEGRIN INHIBITOR, ANGIOGENESIS, ANTIMICROBIAL PROTEIN, CELL KEYWDS 3 ADHESION INHIBITOR, ANTIBIOTIC EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.A.KNAPPE,U.LINNE,X.XIE,M.A.MARAHIEL REVDAT 1 14-MAY-14 2MMW 0 JRNL AUTH T.A.KNAPPE,F.MANZENRIEDER,C.MAS-MORUNO,U.LINNE,F.SASSE, JRNL AUTH 2 H.KESSLER,X.XIE,M.A.MARAHIEL JRNL TITL INTRODUCING LASSO PEPTIDES AS MOLECULAR SCAFFOLDS FOR DRUG JRNL TITL 2 DESIGN: ENGINEERING OF AN INTEGRIN ANTAGONIST. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 50 8714 2011 JRNL REFN ISSN 1433-7851 JRNL PMID 21812076 JRNL DOI 10.1002/ANIE.201102190 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA_2.1 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MMW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-14. REMARK 100 THE RCSB ID CODE IS RCSB103805. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 11.6 MM MCCJ25(RGD), METHANOL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D DQF-COSY; 2D 1H-1H TOCSY; 2D REMARK 210 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST 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 6 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 10 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 15 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 17 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 18 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.2 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 3 45.75 -146.53 REMARK 500 1 ASP A 14 -71.96 -165.23 REMARK 500 1 SER A 18 157.36 175.08 REMARK 500 1 TYR A 20 174.45 -59.17 REMARK 500 2 ALA A 3 46.16 -145.61 REMARK 500 2 ASP A 14 -70.90 -164.25 REMARK 500 2 SER A 18 156.77 171.99 REMARK 500 2 TYR A 20 175.73 -59.43 REMARK 500 3 ALA A 3 45.67 -146.99 REMARK 500 3 VAL A 11 -169.63 -102.63 REMARK 500 3 ASP A 14 -68.87 -162.67 REMARK 500 3 SER A 18 157.13 174.96 REMARK 500 4 ALA A 3 46.01 -147.62 REMARK 500 4 ARG A 12 76.47 -55.20 REMARK 500 4 ASP A 14 -61.86 -161.26 REMARK 500 4 THR A 15 145.51 -174.52 REMARK 500 4 SER A 18 155.60 170.03 REMARK 500 4 TYR A 20 172.13 -57.98 REMARK 500 5 ALA A 3 45.79 -147.52 REMARK 500 5 ASP A 14 -65.12 -160.03 REMARK 500 5 TYR A 20 174.02 -59.18 REMARK 500 6 ALA A 3 46.34 -147.20 REMARK 500 6 ASP A 14 -67.16 -160.59 REMARK 500 6 SER A 18 156.65 174.50 REMARK 500 6 TYR A 20 176.15 -58.78 REMARK 500 7 ALA A 3 45.92 -147.96 REMARK 500 7 ASP A 14 -71.81 -161.10 REMARK 500 7 TYR A 20 171.31 -59.50 REMARK 500 8 ALA A 3 44.78 -145.94 REMARK 500 8 VAL A 11 -165.70 -104.28 REMARK 500 8 ASP A 14 -64.03 -164.87 REMARK 500 8 SER A 18 156.88 175.52 REMARK 500 8 TYR A 20 174.40 -58.23 REMARK 500 9 ALA A 3 45.60 -146.34 REMARK 500 9 VAL A 11 -167.53 -101.66 REMARK 500 9 ASP A 14 -65.81 -165.16 REMARK 500 9 SER A 18 156.75 173.85 REMARK 500 10 ALA A 3 44.95 -146.12 REMARK 500 10 VAL A 11 -169.13 -101.21 REMARK 500 10 ASP A 14 -65.45 -165.63 REMARK 500 10 THR A 15 143.77 -171.00 REMARK 500 10 SER A 18 156.18 173.93 REMARK 500 10 TYR A 20 176.39 -58.46 REMARK 500 11 ALA A 3 46.01 -146.93 REMARK 500 11 VAL A 11 -169.40 -101.30 REMARK 500 11 ASP A 14 -64.70 -164.75 REMARK 500 11 THR A 15 143.20 -170.99 REMARK 500 11 SER A 18 156.56 172.80 REMARK 500 11 TYR A 20 173.07 -58.84 REMARK 500 12 ALA A 3 45.71 -147.48 REMARK 500 REMARK 500 THIS ENTRY HAS 93 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 21000 RELATED DB: BMRB DBREF 2MMW A 1 21 UNP Q9X2V7 MCJA_ECOLX 38 58 SEQADV 2MMW ARG A 12 UNP Q9X2V7 GLY 49 ENGINEERED MUTATION SEQADV 2MMW GLY A 13 UNP Q9X2V7 ILE 50 ENGINEERED MUTATION SEQADV 2MMW ASP A 14 UNP Q9X2V7 GLY 51 ENGINEERED MUTATION SEQRES 1 A 21 GLY GLY ALA GLY HIS VAL PRO GLU TYR PHE VAL ARG GLY SEQRES 2 A 21 ASP THR PRO ILE SER PHE TYR GLY LINK N GLY A 1 CD GLU A 8 1555 1555 1.35 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