HEADER HYDROLASE/HYDROLASE INHIBITOR 27-JUN-11 3SLZ TITLE THE CRYSTAL STRUCTURE OF XMRV PROTEASE COMPLEXED WITH TL-3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAG-PRO-POL POLYPROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 533-657; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DG-75 MURINE LEUKEMIA VIRUS; SOURCE 3 ORGANISM_TAXID: 114654; SOURCE 4 GENE: GAG-POL; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)TONA PRARE; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PDEST-521 KEYWDS BETA SHEET AND DIMER, PROTEASE, PEPTIDE INHIBITOR, TL-3 PEPSTATINA, KEYWDS 2 VIRUS, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.LI,A.GUSTCHINA,A.WLODAWER REVDAT 3 04-APR-12 3SLZ 1 JRNL REVDAT 2 26-OCT-11 3SLZ 1 TITLE REVDAT 1 12-OCT-11 3SLZ 0 JRNL AUTH M.LI,A.GUSTCHINA,K.MATUZ,J.TOZSER,S.NAMWONG,N.E.GOLDFARB, JRNL AUTH 2 B.M.DUNN,A.WLODAWER JRNL TITL STRUCTURAL AND BIOCHEMICAL CHARACTERIZATION OF THE INHIBITOR JRNL TITL 2 COMPLEXES OF XENOTROPIC MURINE LEUKEMIA VIRUS-RELATED VIRUS JRNL TITL 3 PROTEASE. JRNL REF FEBS J. V. 278 4413 2011 JRNL REFN ISSN 1742-464X JRNL PMID 21951660 JRNL DOI 10.1111/J.1742-4658.2011.08364.X REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0104 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 41344 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.600 REMARK 3 FREE R VALUE TEST SET COUNT : 1095 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2867 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.3280 REMARK 3 BIN FREE R VALUE SET COUNT : 75 REMARK 3 BIN FREE R VALUE : 0.3850 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1738 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 85 REMARK 3 SOLVENT ATOMS : 207 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.26000 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.065 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.039 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.964 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.963 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2011 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2726 ; 1.765 ; 2.042 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 234 ; 7.537 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 74 ;25.437 ;23.649 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 312 ;14.247 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;13.600 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 294 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1503 ; 0.010 ; 0.022 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1180 ; 2.612 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1913 ; 4.008 ; 3.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 831 ; 3.569 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 811 ; 5.187 ; 3.000 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3SLZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUL-11. REMARK 100 THE RCSB ID CODE IS RCSB066366. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARCCD 300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42500 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05000 REMARK 200 FOR THE DATA SET : 42.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.43800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.770 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.5M NAFORMAT, PH 5.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 23.24150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.86600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.77300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.86600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.24150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.77300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 THR A 1 REMARK 465 LEU A 2 REMARK 465 GLY A 3 REMARK 465 ASP A 4 REMARK 465 GLN A 5 REMARK 465 GLY A 6 REMARK 465 GLY A 7 REMARK 465 GLN A 8 REMARK 465 GLY A 9 REMARK 465 GLN A 10 REMARK 465 LEU A 125 REMARK 465 MET B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 THR B 1 REMARK 465 LEU B 2 REMARK 465 GLY B 3 REMARK 465 ASP B 4 REMARK 465 GLN B 5 REMARK 465 GLY B 6 REMARK 465 GLY B 7 REMARK 465 GLN B 8 REMARK 465 GLY B 9 REMARK 465 GLN B 10 REMARK 465 LEU B 125 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 CE1 HIS A 37 O HOH A 261 1.47 REMARK 500 O HOH B 170 O HOH B 171 1.84 REMARK 500 O HOH B 156 O HOH B 244 1.85 REMARK 500 OD2 ASP A 49 O HOH A 132 1.98 REMARK 500 ND1 HIS A 37 O HOH A 261 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OD1 ASP A 49 O HOH B 171 2455 1.38 REMARK 500 CG ASP A 49 O HOH B 171 2455 2.03 REMARK 500 REMARK 500 REMARK: NULL 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),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS B 88 CB CYS B 88 SG -0.105 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 ARG B 17 NE - CZ - NH1 ANGL. DEV. = 3.8 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 ASN A 43 56.31 39.06 REMARK 500 LEU B 122 109.01 -58.24 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 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE 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: (10X,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 VAL A 124 24.3 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 130 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE B 107 O REMARK 620 2 GLY B 109 O 98.3 REMARK 620 3 GLY B 111 O 97.9 91.8 REMARK 620 4 HOH B 179 O 91.1 169.0 81.2 REMARK 620 5 HOH B 157 O 103.3 93.8 157.0 89.5 REMARK 620 N 1 2 3 4 REMARK 630 REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: BENZYL [(1S,4S,7S,8R,9R,10S,13S,16S)-7,10-DIBENZYL- REMARK 630 8,9-DIHYDROXY-1,16-DIMETHYL-4,13-BIS(1-METHYLETHYL)-2,5,12,15,18- REMARK 630 PENTAOXO-20-PHENYL-19-OXA-3,6,11,14,17-PENTAAZAICOS-1-YL]CARBAMATE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 3TL A 126 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: PHQ ALA VAL PHL PHL VAL ALA PHQ REMARK 630 DETAILS: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3TL A 126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A 127 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A 128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 127 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT B 129 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 130 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NR6 RELATED DB: PDB REMARK 900 RELATED ID: 3SM1 RELATED DB: PDB REMARK 900 RELATED ID: 3SM2 RELATED DB: PDB DBREF 3SLZ A 1 125 UNP Q9E7M1 Q9E7M1_9GAMR 533 657 DBREF 3SLZ B 1 125 UNP Q9E7M1 Q9E7M1_9GAMR 533 657 SEQADV 3SLZ MET A -6 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS A -5 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS A -4 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS A -3 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS A -2 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS A -1 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS A 0 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ MET B -6 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS B -5 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS B -4 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS B -3 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS B -2 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS B -1 UNP Q9E7M1 EXPRESSION TAG SEQADV 3SLZ HIS B 0 UNP Q9E7M1 EXPRESSION TAG SEQRES 1 A 132 MET HIS HIS HIS HIS HIS HIS THR LEU GLY ASP GLN GLY SEQRES 2 A 132 GLY GLN GLY GLN GLU PRO PRO PRO GLU PRO ARG ILE THR SEQRES 3 A 132 LEU LYS VAL GLY GLY GLN PRO VAL THR PHE LEU VAL ASP SEQRES 4 A 132 THR GLY ALA GLN HIS SER VAL LEU THR GLN ASN PRO GLY SEQRES 5 A 132 PRO LEU SER ASP LYS SER ALA TRP VAL GLN GLY ALA THR SEQRES 6 A 132 GLY GLY LYS ARG TYR ARG TRP THR THR ASP ARG LYS VAL SEQRES 7 A 132 HIS LEU ALA THR GLY LYS VAL THR HIS SER PHE LEU HIS SEQRES 8 A 132 VAL PRO ASP CYS PRO TYR PRO LEU LEU GLY ARG ASP LEU SEQRES 9 A 132 LEU THR LYS LEU LYS ALA GLN ILE HIS PHE GLU GLY SER SEQRES 10 A 132 GLY ALA GLN VAL VAL GLY PRO MET GLY GLN PRO LEU GLN SEQRES 11 A 132 VAL LEU SEQRES 1 B 132 MET HIS HIS HIS HIS HIS HIS THR LEU GLY ASP GLN GLY SEQRES 2 B 132 GLY GLN GLY GLN GLU PRO PRO PRO GLU PRO ARG ILE THR SEQRES 3 B 132 LEU LYS VAL GLY GLY GLN PRO VAL THR PHE LEU VAL ASP SEQRES 4 B 132 THR GLY ALA GLN HIS SER VAL LEU THR GLN ASN PRO GLY SEQRES 5 B 132 PRO LEU SER ASP LYS SER ALA TRP VAL GLN GLY ALA THR SEQRES 6 B 132 GLY GLY LYS ARG TYR ARG TRP THR THR ASP ARG LYS VAL SEQRES 7 B 132 HIS LEU ALA THR GLY LYS VAL THR HIS SER PHE LEU HIS SEQRES 8 B 132 VAL PRO ASP CYS PRO TYR PRO LEU LEU GLY ARG ASP LEU SEQRES 9 B 132 LEU THR LYS LEU LYS ALA GLN ILE HIS PHE GLU GLY SER SEQRES 10 B 132 GLY ALA GLN VAL VAL GLY PRO MET GLY GLN PRO LEU GLN SEQRES 11 B 132 VAL LEU HET 3TL A 126 132 HET FMT A 127 3 HET FMT A 128 3 HET FMT B 126 6 HET FMT B 127 3 HET FMT B 128 3 HET FMT B 129 3 HET NA B 130 1 HETNAM 3TL BENZYL [(1S,4S,7S,8R,9R,10S,13S,16S)-7,10-DIBENZYL-8,9- HETNAM 2 3TL DIHYDROXY-1,16-DIMETHYL-4,13-BIS(1-METHYLETHYL)-2,5, HETNAM 3 3TL 12,15,18-PENTAOXO-20-PHENYL-19-OXA-3,6,11,14,17- HETNAM 4 3TL PENTAAZAICOS-1-YL]CARBAMATE HETNAM FMT FORMIC ACID HETNAM NA SODIUM ION HETSYN 3TL TL-3, C2 SYMMETRIC INHIBITOR FORMUL 3 3TL C50 H64 N6 O10 FORMUL 4 FMT 6(C H2 O2) FORMUL 10 NA NA 1+ FORMUL 11 HOH *207(H2 O) HELIX 1 1 GLY A 94 LYS A 102 1 9 HELIX 2 2 GLY B 94 LYS B 102 1 9 SHEET 1 A 3 ARG A 17 VAL A 22 0 SHEET 2 A 3 GLN A 25 VAL A 31 -1 O PHE A 29 N ILE A 18 SHEET 3 A 3 LEU A 92 LEU A 93 1 O LEU A 93 N LEU A 30 SHEET 1 B 4 VAL A 39 LEU A 40 0 SHEET 2 B 4 LEU A 83 HIS A 84 1 O LEU A 83 N LEU A 40 SHEET 3 B 4 GLY A 60 THR A 66 -1 N ARG A 64 O HIS A 84 SHEET 4 B 4 LEU A 47 GLN A 55 -1 N VAL A 54 O LYS A 61 SHEET 1 C 2 ARG A 69 LEU A 73 0 SHEET 2 C 2 GLY A 76 HIS A 80 -1 O VAL A 78 N VAL A 71 SHEET 1 D 4 GLY A 111 VAL A 115 0 SHEET 2 D 4 GLN A 104 GLU A 108 -1 N HIS A 106 O GLN A 113 SHEET 3 D 4 GLN B 104 HIS B 106 -1 O ILE B 105 N ILE A 105 SHEET 4 D 4 GLN B 113 VAL B 115 -1 O GLN B 113 N HIS B 106 SHEET 1 E 3 ARG B 17 VAL B 22 0 SHEET 2 E 3 GLN B 25 VAL B 31 -1 O PHE B 29 N ILE B 18 SHEET 3 E 3 LEU B 92 LEU B 93 1 O LEU B 93 N LEU B 30 SHEET 1 F 2 VAL B 39 LEU B 40 0 SHEET 2 F 2 LEU B 83 HIS B 84 1 O LEU B 83 N LEU B 40 SHEET 1 G 2 LEU B 47 GLN B 55 0 SHEET 2 G 2 GLY B 60 THR B 66 -1 O LYS B 61 N VAL B 54 SHEET 1 H 2 ARG B 69 HIS B 72 0 SHEET 2 H 2 LYS B 77 HIS B 80 -1 O VAL B 78 N VAL B 71 LINK O PHE B 107 NA NA B 130 1555 1555 2.20 LINK O GLY B 109 NA NA B 130 1555 1555 2.25 LINK O GLY B 111 NA NA B 130 1555 1555 2.60 LINK NA NA B 130 O HOH B 179 1555 1555 2.15 LINK NA NA B 130 O HOH B 157 1555 1555 2.28 CISPEP 1 GLU A 15 PRO A 16 0 -3.89 CISPEP 2 GLU B 15 PRO B 16 0 -1.84 SITE 1 AC1 34 ASP A 32 GLY A 34 GLN A 36 HIS A 37 SITE 2 AC1 34 PRO A 46 ALA A 52 TRP A 53 VAL A 54 SITE 3 AC1 34 GLN A 55 GLY A 56 ALA A 57 TRP A 65 SITE 4 AC1 34 THR A 67 PRO A 89 TYR A 90 LEU A 92 SITE 5 AC1 34 HOH A 130 HOH A 163 HOH A 185 ASP B 32 SITE 6 AC1 34 GLY B 34 ALA B 35 GLN B 36 HIS B 37 SITE 7 AC1 34 TRP B 53 VAL B 54 GLN B 55 GLY B 56 SITE 8 AC1 34 ALA B 57 TRP B 65 PRO B 89 TYR B 90 SITE 9 AC1 34 LEU B 92 FMT B 129 SITE 1 AC2 5 HIS A 37 HIS A 80 SER A 81 HOH A 183 SITE 2 AC2 5 HOH A 261 SITE 1 AC3 8 SER A 48 THR A 66 THR A 67 ASP A 68 SITE 2 AC3 8 SER A 81 HOH A 148 HOH A 195 HOH A 251 SITE 1 AC4 5 GLY A 45 HOH A 189 HIS B 37 HIS B 80 SITE 2 AC4 5 SER B 81 SITE 1 AC5 4 GLY B 111 NA B 130 HOH B 157 HOH B 220 SITE 1 AC6 6 LEU B 40 THR B 41 GLN B 42 PRO B 91 SITE 2 AC6 6 HOH B 142 HOH B 227 SITE 1 AC7 4 3TL A 126 TRP B 53 HOH B 185 HOH B 215 SITE 1 AC8 6 PHE B 107 GLY B 109 GLY B 111 FMT B 127 SITE 2 AC8 6 HOH B 157 HOH B 179 CRYST1 46.483 65.546 69.732 90.00 90.00 90.00 P 21 21 21 8 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 0.021513 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015256 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014341 0.00000