HEADER DE NOVO PROTEIN 15-MAY-03 1PBZ TITLE DE NOVO DESIGNED PEPTIDE-METALLOPORPHYRIN COMPLEX, SOLUTION TITLE 2 STRUCTURE CAVEAT 1PBZ INCORRECT CHIRALITY AT SOME CA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DE NOVO DESIGNED CYCLIC PEPTIDE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: COMPLEXED WITH METALLOPORPHYRIN SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SYNTHESIZED BY SOLID STATE METHODS KEYWDS PEPTIDE; METALLOPORPHYRIN; HEME; DE NOVO DESIGN, DE NOVO KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 14 AUTHOR J.WANG,M.M.ROSENBLATT,K.S.SUSLICK REVDAT 2 24-FEB-09 1PBZ 1 VERSN REVDAT 1 09-DEC-03 1PBZ 0 JRNL AUTH M.M.ROSENBLATT,J.WANG,K.S.SUSLICK JRNL TITL DE NOVO DESIGNED CYCLIC-PEPTIDE HEME COMPLEXES JRNL REF PROC.NATL.ACAD.SCI.USA V. 100 13140 2003 JRNL REFN ISSN 0027-8424 JRNL PMID 14595023 JRNL DOI 10.1073/PNAS.2231273100 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 98 REMARK 3 AUTHORS : ACCELRYS, INC REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PBZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-MAY-03. REMARK 100 THE RCSB ID CODE IS RCSB019221. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 277 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 50 MM POTASSIUM PHOSPHATE, 10 REMARK 210 MM POTASSIUM CHLORIDE REMARK 210 PRESSURE : 1ATM REMARK 210 SAMPLE CONTENTS : 3MM CYCLIC PEPTIDE REMARK 210 METALLOPORPHYRIN COMPLEX REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 14 REMARK 210 CONFORMERS, SELECTION CRITERIA : NO RESTRAINT VIOLATIONS REMARK 210 GREATER THAN 0.3 ANGSTROMS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: IONIC_STRENGTH: 50MM PRESSURE: 1 ATM SOLVENT SYSTEM: REMARK 210 AQUEOUS THE STRUCTURE WAS DETERMINED USING 2D HOMONUCLEAR REMARK 210 METHODS (WUTHRICH, 1986) FOR RESONANCE ASSIGNMENTS GENERATION REMARK 210 OF DISTANCE RESTRAINTS. 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 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 DISTANCE REMARK 500 N NH2 A 18 O4 PC3 A 20 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 GLY B 16 CA - C - N ANGL. DEV. = -13.4 DEGREES REMARK 500 2 CYS A 17 N - CA - CB ANGL. DEV. = -12.7 DEGREES REMARK 500 2 ALA B 15 CB - CA - C ANGL. DEV. = 11.2 DEGREES REMARK 500 7 HIS B 9 CB - CA - C ANGL. DEV. = 12.4 DEGREES REMARK 500 8 CYS A 17 N - CA - CB ANGL. DEV. = -13.9 DEGREES REMARK 500 8 ALA B 15 N - CA - CB ANGL. DEV. = -8.4 DEGREES REMARK 500 9 HIS B 9 CB - CA - C ANGL. DEV. = 12.4 DEGREES REMARK 500 9 ALA B 13 N - CA - CB ANGL. DEV. = -8.6 DEGREES REMARK 500 10 HIS B 9 CB - CA - C ANGL. DEV. = 12.4 DEGREES REMARK 500 10 ALA B 10 N - CA - CB ANGL. DEV. = -9.0 DEGREES REMARK 500 11 CYS A 1 N - CA - CB ANGL. DEV. = -14.7 DEGREES REMARK 500 11 ALA A 13 N - CA - CB ANGL. DEV. = -9.0 DEGREES REMARK 500 11 CYS A 17 N - CA - CB ANGL. DEV. = -13.9 DEGREES REMARK 500 11 HIS B 9 CB - CA - C ANGL. DEV. = 13.3 DEGREES REMARK 500 11 ALA B 13 N - CA - CB ANGL. DEV. = -9.1 DEGREES REMARK 500 11 ALA B 15 N - CA - CB ANGL. DEV. = -13.3 DEGREES REMARK 500 13 GLY A 16 CA - C - N ANGL. DEV. = -14.2 DEGREES REMARK 500 13 CYS B 1 N - CA - CB ANGL. DEV. = -13.9 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 12 -73.09 -63.29 REMARK 500 1 ALA A 13 -30.44 -31.94 REMARK 500 1 GLU A 14 -70.77 -74.21 REMARK 500 1 ALA B 12 -71.89 -56.35 REMARK 500 1 ALA B 13 -9.59 -45.72 REMARK 500 1 ALA B 15 56.07 -91.53 REMARK 500 2 ALA A 12 -79.42 -60.81 REMARK 500 2 ALA A 13 -39.07 -22.29 REMARK 500 2 GLU A 14 -70.40 -80.62 REMARK 500 2 ALA B 12 -70.07 -46.22 REMARK 500 2 ALA B 15 -122.13 -85.21 REMARK 500 3 ALA A 12 -78.11 -56.99 REMARK 500 3 ALA A 13 -24.84 -35.17 REMARK 500 3 GLU A 14 -71.26 -80.48 REMARK 500 3 ALA B 13 -30.81 -33.71 REMARK 500 3 GLU B 14 -92.46 -84.38 REMARK 500 4 ALA A 12 -78.11 -56.99 REMARK 500 4 ALA A 13 -24.84 -35.17 REMARK 500 4 GLU A 14 -71.26 -80.48 REMARK 500 4 ALA B 13 -30.81 -33.71 REMARK 500 4 GLU B 14 -92.46 -84.38 REMARK 500 5 ALA A 12 -70.05 -66.25 REMARK 500 5 ALA A 13 -30.09 -33.76 REMARK 500 5 GLU A 14 -75.43 -73.44 REMARK 500 5 ALA B 12 -75.27 -52.90 REMARK 500 5 ALA B 13 0.32 -49.30 REMARK 500 5 GLU B 14 -63.17 -97.07 REMARK 500 5 ALA B 15 56.19 -100.17 REMARK 500 6 ALA A 12 -75.07 -56.89 REMARK 500 6 ALA A 13 -41.21 -24.93 REMARK 500 6 ALA B 13 -34.99 -32.39 REMARK 500 6 GLU B 14 -73.65 -69.26 REMARK 500 7 ALA A 13 -31.54 -32.37 REMARK 500 7 ALA B 12 -73.54 -49.82 REMARK 500 7 ALA B 13 -26.71 -36.88 REMARK 500 7 GLU B 14 -77.67 -79.26 REMARK 500 8 ALA A 13 -30.63 -33.83 REMARK 500 8 GLU A 14 -74.21 -74.86 REMARK 500 8 ALA B 12 -77.07 -48.91 REMARK 500 8 ALA B 13 -6.60 -47.45 REMARK 500 8 GLU B 14 -63.86 -90.13 REMARK 500 8 ALA B 15 59.50 -101.05 REMARK 500 9 ALA A 12 -74.16 -63.15 REMARK 500 9 ALA A 13 -33.42 -27.65 REMARK 500 9 ALA B 12 -79.66 -53.46 REMARK 500 9 ALA B 13 -1.75 -46.96 REMARK 500 9 GLU B 14 -60.92 -100.17 REMARK 500 9 ALA B 15 56.67 -100.22 REMARK 500 10 ALA A 12 -74.02 -55.46 REMARK 500 10 ALA A 13 -14.25 -42.18 REMARK 500 10 ALA A 15 57.18 -93.46 REMARK 500 10 ALA B 13 -33.00 -31.26 REMARK 500 10 GLU B 14 -78.12 -76.48 REMARK 500 11 ALA A 12 -75.03 -63.46 REMARK 500 11 ALA A 13 -11.75 -41.72 REMARK 500 11 GLU A 14 -69.46 -100.42 REMARK 500 11 ALA B 12 -68.23 -26.62 REMARK 500 11 ALA B 15 64.80 -3.78 REMARK 500 12 ALA A 13 -32.68 -30.81 REMARK 500 12 GLU A 14 -70.36 -74.69 REMARK 500 12 ALA B 12 -76.78 -61.63 REMARK 500 12 ALA B 13 -37.47 -24.78 REMARK 500 13 ALA A 12 -75.40 -59.01 REMARK 500 13 ALA A 13 -13.53 -41.59 REMARK 500 13 ALA A 15 55.70 -91.96 REMARK 500 13 ALA B 13 -28.65 -34.78 REMARK 500 13 GLU B 14 -72.06 -73.81 REMARK 500 14 ALA A 12 -77.44 -60.00 REMARK 500 14 ALA A 13 -38.92 -22.30 REMARK 500 14 GLU A 14 -86.70 -77.10 REMARK 500 14 ALA B 12 -70.09 -60.70 REMARK 500 14 ALA B 13 -32.49 -31.88 REMARK 500 14 GLU B 14 -72.08 -76.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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: (11X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 2 CYS A 17 110.6 ALPHA-CARBON REMARK 500 3 ALA B 15 124.1 ALPHA-CARBON REMARK 500 4 ALA B 15 124.1 ALPHA-CARBON REMARK 500 8 CYS A 17 110.4 ALPHA-CARBON REMARK 500 11 CYS A 1 115.5 ALPHA-CARBON REMARK 500 11 CYS A 17 110.2 ALPHA-CARBON REMARK 500 13 CYS B 1 114.7 ALPHA-CARBON REMARK 500 14 ALA A 15 124.1 ALPHA-CARBON REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 9 PC3 A 20 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PC3 A 20 DBREF 1PBZ A 0 18 PDB 1PBZ 1PBZ 0 18 DBREF 1PBZ B 0 18 PDB 1PBZ 1PBZ 0 18 SEQRES 1 A 19 ACE CYS GLY ALA GLU ALA ALA LYS ALA HIS ALA LYS ALA SEQRES 2 A 19 ALA GLU ALA GLY CYS NH2 SEQRES 1 B 19 ACE CYS GLY ALA GLU ALA ALA LYS ALA HIS ALA LYS ALA SEQRES 2 B 19 ALA GLU ALA GLY CYS NH2 HET ACE A 0 6 HET NH2 A 18 3 HET ACE B 0 6 HET NH2 B 18 3 HET PC3 A 20 81 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP HETNAM PC3 COPROPORPHYRIN I CONTAINING CO(III) FORMUL 1 ACE 2(C2 H4 O) FORMUL 1 NH2 2(H2 N) FORMUL 3 PC3 C36 H36 CO N4 O8 HELIX 1 1 GLY A 2 GLY A 16 1 15 HELIX 2 2 GLY B 2 ALA B 15 1 14 SSBOND 1 CYS A 1 CYS B 1 1555 1555 2.00 SSBOND 2 CYS A 17 CYS B 17 1555 1555 2.01 LINK CO3 PC3 A 20 NE2 HIS A 9 1555 1555 2.24 LINK CO3 PC3 A 20 NE2 HIS B 9 1555 1555 2.27 LINK C ACE A 0 N CYS A 1 1555 1555 1.33 LINK C CYS A 17 N NH2 A 18 1555 1555 1.32 LINK C ACE B 0 N CYS B 1 1555 1555 1.33 LINK C CYS B 17 N NH2 B 18 1555 1555 1.32 SITE 1 AC1 10 CYS A 1 ALA A 5 HIS A 9 ALA A 12 SITE 2 AC1 10 CYS A 17 NH2 A 18 CYS B 1 ALA B 8 SITE 3 AC1 10 HIS B 9 CYS B 17 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 222 0 5 2 0 0 3 6 0 0 0 4 END