HEADER HYDROLASE/DNA 26-MAY-10 3N78 TITLE SGRAI BOUND TO SECONDARY SITE DNA AND MG(II) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SGRAIR RESTRICTION ENZYME; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.1.21.4; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*AP*GP*TP*CP*CP*AP*CP*CP*GP*GP*GP*GP*GP*AP*CP*T)- COMPND 9 3'); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*AP*GP*TP*CP*CP*CP*CP*CP*GP*GP*TP*GP*GP*AP*CP*T)- COMPND 14 3'); COMPND 15 CHAIN: D; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES GRISEUS; SOURCE 3 ORGANISM_TAXID: 1911; SOURCE 4 GENE: SGRA1R, SGRAIR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ER2566; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 MOL_ID: 3; SOURCE 11 SYNTHETIC: YES KEYWDS RESTRICTION ENDONUCLEASE, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.C.HORTON,E.J.LITTLE,P.W.DUNTEN REVDAT 2 09-FEB-11 3N78 1 JRNL REVDAT 1 24-NOV-10 3N78 0 JRNL AUTH E.J.LITTLE,P.W.DUNTEN,J.BITINAITE,N.C.HORTON JRNL TITL NEW CLUES IN THE ALLOSTERIC ACTIVATION OF DNA CLEAVAGE BY JRNL TITL 2 SGRAI: STRUCTURES OF SGRAI BOUND TO CLEAVED PRIMARY-SITE DNA JRNL TITL 3 AND UNCLEAVED SECONDARY-SITE DNA. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 67 67 2011 JRNL REFN ISSN 0907-4449 JRNL PMID 21206063 JRNL DOI 10.1107/S0907444910047785 REMARK 2 REMARK 2 RESOLUTION. 2.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6_289) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 19834 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.281 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 960 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 50.3560 - 5.6409 0.97 2840 140 0.1682 0.2246 REMARK 3 2 5.6409 - 4.4782 0.98 2729 150 0.1552 0.2643 REMARK 3 3 4.4782 - 3.9124 0.99 2721 145 0.1601 0.2249 REMARK 3 4 3.9124 - 3.5548 0.98 2712 129 0.1834 0.2706 REMARK 3 5 3.5548 - 3.3001 0.97 2648 142 0.2013 0.2940 REMARK 3 6 3.3001 - 3.1055 0.96 2641 125 0.2263 0.3608 REMARK 3 7 3.1055 - 2.9500 0.96 2583 129 0.2369 0.3623 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 30.34 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.460 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.930 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.40000 REMARK 3 B22 (A**2) : -8.08060 REMARK 3 B33 (A**2) : 15.48060 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 6192 REMARK 3 ANGLE : 1.347 8567 REMARK 3 CHIRALITY : 0.076 947 REMARK 3 PLANARITY : 0.005 1002 REMARK 3 DIHEDRAL : 21.783 2319 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3N78 COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUN-10. REMARK 100 THE RCSB ID CODE IS RCSB059467. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, DOUBLE REMARK 200 CRYSTAL MONOCHROMATOR, TOROID REMARK 200 FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19842 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.950 REMARK 200 RESOLUTION RANGE LOW (A) : 84.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.11400 REMARK 200 R SYM (I) : 0.11400 REMARK 200 FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.39200 REMARK 200 R SYM FOR SHELL (I) : 0.39200 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 TO 21% PEG 4K, 0.1 M HEPES BUFFER, REMARK 280 0.15-0.20 M NACL, 0.05 M MGCL2, PH 7.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 54.39700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 66.50100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 54.39700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 66.50100 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 300 REMARK: AUTHORS STATE THAT THE ENZYME IS DIMERIC, AND IS BOUND TO REMARK 300 ONE DUPLEX OF DNA. 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -82.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 GLU A 301 REMARK 465 GLY A 302 REMARK 465 LYS B 177 REMARK 465 ASP B 178 REMARK 465 ARG B 303 REMARK 465 SER B 304 REMARK 465 ALA B 305 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 11 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 29 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 88 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 131 CD NE CZ NH1 NH2 REMARK 470 ARG A 303 NE CZ NH1 NH2 REMARK 470 ARG A 324 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 29 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 30 CG OD1 REMARK 470 ARG B 88 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 301 CG CD OE1 OE2 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 O HOH A 341 O HOH C 66 2.18 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 PHE A 83 CG PHE A 83 CD2 -0.204 REMARK 500 PHE A 83 CG PHE A 83 CD1 -0.156 REMARK 500 PHE A 83 CD1 PHE A 83 CE1 -0.263 REMARK 500 PHE A 83 CE1 PHE A 83 CZ -0.292 REMARK 500 PHE A 83 CZ PHE A 83 CE2 -0.254 REMARK 500 PHE A 83 CE2 PHE A 83 CD2 -0.260 REMARK 500 PHE A 83 C PHE A 83 O -0.157 REMARK 500 ASP A 85 C ASP A 85 O -0.137 REMARK 500 PRO B 282 CB PRO B 282 CG -0.350 REMARK 500 PRO B 282 CG PRO B 282 CD -0.328 REMARK 500 PRO B 282 C PRO B 282 O -0.162 REMARK 500 GLU B 283 CB GLU B 283 CG -0.181 REMARK 500 GLU B 283 CG GLU B 283 CD -0.259 REMARK 500 GLU B 283 CD GLU B 283 OE1 -0.152 REMARK 500 GLU B 283 CD GLU B 283 OE2 -0.185 REMARK 500 GLU B 283 CA GLU B 283 C -0.162 REMARK 500 GLU B 283 C GLU B 283 O -0.188 REMARK 500 DG C 10 O3' DG C 10 C3' -0.036 REMARK 500 DC D 8 O3' DC D 8 C3' -0.059 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 A 84 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP A 85 CB - CG - OD2 ANGL. DEV. = 7.8 DEGREES REMARK 500 PRO A 162 C - N - CA ANGL. DEV. = 10.6 DEGREES REMARK 500 PRO B 282 CA - N - CD ANGL. DEV. = -10.9 DEGREES REMARK 500 DA C 2 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DG C 3 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT C 4 N3 - C4 - O4 ANGL. DEV. = 3.9 DEGREES REMARK 500 DC C 5 N1 - C2 - O2 ANGL. DEV. = -3.9 DEGREES REMARK 500 DG C 11 O4' - C1' - N9 ANGL. DEV. = -6.6 DEGREES REMARK 500 DC C 16 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT C 17 C3' - C2' - C1' ANGL. DEV. = -5.8 DEGREES REMARK 500 DG D 3 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DT D 4 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC D 5 C3' - C2' - C1' ANGL. DEV. = -7.8 DEGREES REMARK 500 DC D 5 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC D 8 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DG D 10 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT D 12 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DT D 12 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG D 14 O4' - C1' - N9 ANGL. DEV. = 5.2 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 ALA A 26 56.45 -118.08 REMARK 500 ARG A 29 109.00 -46.19 REMARK 500 ALA A 55 -139.55 -121.62 REMARK 500 GLU A 73 -59.25 -29.94 REMARK 500 ARG A 84 -120.82 67.53 REMARK 500 ALA A 115 -80.20 -57.72 REMARK 500 SER A 119 -85.70 -46.48 REMARK 500 VAL A 122 -78.13 -103.21 REMARK 500 ARG A 127 144.02 -34.94 REMARK 500 SER A 140 122.22 179.74 REMARK 500 ARG A 142 -3.08 -55.89 REMARK 500 ASN A 149 103.76 -53.00 REMARK 500 GLU A 170 -79.50 -59.37 REMARK 500 PHE A 171 -64.47 -25.43 REMARK 500 LYS A 177 27.17 -70.56 REMARK 500 ASP A 178 18.90 -159.47 REMARK 500 SER A 185 -116.78 -105.92 REMARK 500 THR A 186 148.11 -171.37 REMARK 500 GLU A 197 5.31 -63.66 REMARK 500 GLU A 202 -70.70 -62.87 REMARK 500 MET A 203 -35.71 -29.35 REMARK 500 ALA A 281 88.37 -175.93 REMARK 500 MET A 334 41.24 -76.19 REMARK 500 GLU A 335 -63.36 -95.64 REMARK 500 ILE B 7 -78.60 -54.04 REMARK 500 GLU B 8 -54.19 -22.33 REMARK 500 ASN B 12 3.82 -65.09 REMARK 500 ALA B 14 172.57 -50.22 REMARK 500 THR B 16 3.88 -67.14 REMARK 500 ARG B 18 136.94 -36.51 REMARK 500 ILE B 23 17.30 -147.29 REMARK 500 ALA B 26 47.04 -176.99 REMARK 500 ALA B 38 88.82 -64.16 REMARK 500 LEU B 43 -82.34 -62.54 REMARK 500 ALA B 44 -78.47 -11.78 REMARK 500 PHE B 54 -0.48 -144.85 REMARK 500 ALA B 55 -154.47 -104.03 REMARK 500 PHE B 83 49.50 -144.13 REMARK 500 SER B 91 -51.17 -21.15 REMARK 500 ALA B 115 -74.15 -46.11 REMARK 500 GLU B 124 -158.42 -78.59 REMARK 500 ARG B 127 157.54 -49.16 REMARK 500 SER B 128 40.55 -149.14 REMARK 500 SER B 140 148.08 -175.33 REMARK 500 SER B 153 -0.85 99.00 REMARK 500 PRO B 162 -70.42 -45.82 REMARK 500 GLU B 163 -19.96 -43.31 REMARK 500 ILE B 168 33.93 -68.98 REMARK 500 GLU B 169 -52.38 -146.46 REMARK 500 LEU B 175 42.33 -163.16 REMARK 500 REMARK 500 THIS ENTRY HAS 57 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 352 DISTANCE = 5.60 ANGSTROMS REMARK 525 HOH A 356 DISTANCE = 5.43 ANGSTROMS REMARK 525 HOH B 367 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH B 377 DISTANCE = 6.04 ANGSTROMS 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 MG B 1 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 188 OD2 REMARK 620 2 DC C 8 OP1 79.7 REMARK 620 3 DC D 8 OP1 79.7 0.0 REMARK 620 4 PHE B 241 O 93.9 140.4 140.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 340 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 188 OD2 REMARK 620 2 PHE A 241 O 95.1 REMARK 620 3 DC C 8 OP1 87.4 149.4 REMARK 620 4 DC D 8 OP1 87.4 149.4 0.0 REMARK 620 5 HOH A 367 O 72.0 56.1 96.4 96.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 340 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3N7B RELATED DB: PDB REMARK 900 RELATED ID: 3DW9 RELATED DB: PDB REMARK 900 RELATED ID: 3DVO RELATED DB: PDB REMARK 900 RELATED ID: 3DGP RELATED DB: PDB DBREF 3N78 A 2 339 UNP Q9F6L0 Q9F6L0_STRGR 2 339 DBREF 3N78 B 2 339 UNP Q9F6L0 Q9F6L0_STRGR 2 339 DBREF 3N78 C 2 17 PDB 3N78 3N78 2 17 DBREF 3N78 D 2 17 PDB 3N78 3N78 2 17 SEQADV 3N78 ASP A 63 UNP Q9F6L0 ASN 63 ENGINEERED MUTATION SEQADV 3N78 ASP B 63 UNP Q9F6L0 ASN 63 ENGINEERED MUTATION SEQRES 1 A 338 PRO PHE THR TYR SER ILE GLU ALA THR ARG ASN LEU ALA SEQRES 2 A 338 THR THR GLU ARG CYS ILE GLN ASP ILE ARG ASN ALA PRO SEQRES 3 A 338 VAL ARG ASN ARG SER THR GLN PHE GLN LEU ALA GLN GLN SEQRES 4 A 338 ASN MET LEU ALA TYR THR PHE GLY GLU VAL ILE PRO GLY SEQRES 5 A 338 PHE ALA SER ALA GLY ILE ASN GLY MET ASP TYR ARG ASP SEQRES 6 A 338 VAL ILE GLY ARG PRO VAL GLU ASN ALA VAL THR GLU GLY SEQRES 7 A 338 THR HIS PHE PHE ARG ASP ASP PHE ARG VAL ASP SER ASN SEQRES 8 A 338 ALA LYS ALA LYS VAL ALA GLY ASP ILE PHE GLU ILE VAL SEQRES 9 A 338 SER SER ALA VAL MET TRP ASN CYS ALA ALA ARG TRP ASN SEQRES 10 A 338 SER LEU MET VAL GLY GLU GLY TRP ARG SER GLN PRO ARG SEQRES 11 A 338 TYR SER ARG PRO THR LEU SER PRO SER PRO ARG ARG GLN SEQRES 12 A 338 VAL ALA VAL LEU ASN LEU PRO ARG SER PHE ASP TRP VAL SEQRES 13 A 338 SER LEU LEU VAL PRO GLU SER GLN GLU VAL ILE GLU GLU SEQRES 14 A 338 PHE ARG ALA GLY LEU ARG LYS ASP GLY LEU GLY LEU PRO SEQRES 15 A 338 THR SER THR PRO ASP LEU ALA VAL VAL VAL LEU PRO GLU SEQRES 16 A 338 GLU PHE GLN ASN ASP GLU MET TRP ARG GLU GLU ILE ALA SEQRES 17 A 338 GLY LEU THR ARG PRO ASN GLN ILE LEU LEU SER GLY ALA SEQRES 18 A 338 TYR GLN ARG LEU GLN GLY ARG VAL GLN PRO GLY GLU ILE SEQRES 19 A 338 SER LEU ALA VAL ALA PHE LYS ARG SER LEU ARG SER ASP SEQRES 20 A 338 ARG LEU TYR GLN PRO LEU TYR GLU ALA ASN VAL MET GLN SEQRES 21 A 338 LEU LEU LEU GLU GLY LYS LEU GLY ALA PRO LYS VAL GLU SEQRES 22 A 338 PHE GLU VAL HIS THR LEU ALA PRO GLU GLY THR ASN ALA SEQRES 23 A 338 PHE VAL THR TYR GLU ALA ALA SER LEU TYR GLY LEU ALA SEQRES 24 A 338 GLU GLY ARG SER ALA VAL HIS ARG ALA ILE ARG GLU LEU SEQRES 25 A 338 TYR VAL PRO PRO THR ALA ALA ASP LEU ALA ARG ARG PHE SEQRES 26 A 338 PHE ALA PHE LEU ASN GLU ARG MET GLU LEU VAL ASN GLY SEQRES 1 B 338 PRO PHE THR TYR SER ILE GLU ALA THR ARG ASN LEU ALA SEQRES 2 B 338 THR THR GLU ARG CYS ILE GLN ASP ILE ARG ASN ALA PRO SEQRES 3 B 338 VAL ARG ASN ARG SER THR GLN PHE GLN LEU ALA GLN GLN SEQRES 4 B 338 ASN MET LEU ALA TYR THR PHE GLY GLU VAL ILE PRO GLY SEQRES 5 B 338 PHE ALA SER ALA GLY ILE ASN GLY MET ASP TYR ARG ASP SEQRES 6 B 338 VAL ILE GLY ARG PRO VAL GLU ASN ALA VAL THR GLU GLY SEQRES 7 B 338 THR HIS PHE PHE ARG ASP ASP PHE ARG VAL ASP SER ASN SEQRES 8 B 338 ALA LYS ALA LYS VAL ALA GLY ASP ILE PHE GLU ILE VAL SEQRES 9 B 338 SER SER ALA VAL MET TRP ASN CYS ALA ALA ARG TRP ASN SEQRES 10 B 338 SER LEU MET VAL GLY GLU GLY TRP ARG SER GLN PRO ARG SEQRES 11 B 338 TYR SER ARG PRO THR LEU SER PRO SER PRO ARG ARG GLN SEQRES 12 B 338 VAL ALA VAL LEU ASN LEU PRO ARG SER PHE ASP TRP VAL SEQRES 13 B 338 SER LEU LEU VAL PRO GLU SER GLN GLU VAL ILE GLU GLU SEQRES 14 B 338 PHE ARG ALA GLY LEU ARG LYS ASP GLY LEU GLY LEU PRO SEQRES 15 B 338 THR SER THR PRO ASP LEU ALA VAL VAL VAL LEU PRO GLU SEQRES 16 B 338 GLU PHE GLN ASN ASP GLU MET TRP ARG GLU GLU ILE ALA SEQRES 17 B 338 GLY LEU THR ARG PRO ASN GLN ILE LEU LEU SER GLY ALA SEQRES 18 B 338 TYR GLN ARG LEU GLN GLY ARG VAL GLN PRO GLY GLU ILE SEQRES 19 B 338 SER LEU ALA VAL ALA PHE LYS ARG SER LEU ARG SER ASP SEQRES 20 B 338 ARG LEU TYR GLN PRO LEU TYR GLU ALA ASN VAL MET GLN SEQRES 21 B 338 LEU LEU LEU GLU GLY LYS LEU GLY ALA PRO LYS VAL GLU SEQRES 22 B 338 PHE GLU VAL HIS THR LEU ALA PRO GLU GLY THR ASN ALA SEQRES 23 B 338 PHE VAL THR TYR GLU ALA ALA SER LEU TYR GLY LEU ALA SEQRES 24 B 338 GLU GLY ARG SER ALA VAL HIS ARG ALA ILE ARG GLU LEU SEQRES 25 B 338 TYR VAL PRO PRO THR ALA ALA ASP LEU ALA ARG ARG PHE SEQRES 26 B 338 PHE ALA PHE LEU ASN GLU ARG MET GLU LEU VAL ASN GLY SEQRES 1 C 16 DA DG DT DC DC DA DC DC DG DG DG DG DG SEQRES 2 C 16 DA DC DT SEQRES 1 D 16 DA DG DT DC DC DC DC DC DG DG DT DG DG SEQRES 2 D 16 DA DC DT HET MG A 340 1 HET MG B 1 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG 2(MG 2+) FORMUL 7 HOH *79(H2 O) HELIX 1 1 SER A 6 ASN A 12 1 7 HELIX 2 2 ALA A 38 GLY A 48 1 11 HELIX 3 3 SER A 56 GLY A 61 1 6 HELIX 4 4 ASP A 63 GLY A 69 1 7 HELIX 5 5 GLY A 69 ARG A 84 1 16 HELIX 6 6 ASP A 90 VAL A 122 1 33 HELIX 7 7 SER A 140 ARG A 143 5 4 HELIX 8 8 ASP A 155 LEU A 160 5 6 HELIX 9 9 VAL A 161 LYS A 177 1 17 HELIX 10 10 PRO A 195 GLN A 199 5 5 HELIX 11 11 GLU A 202 GLU A 206 5 5 HELIX 12 12 THR A 212 GLN A 227 1 16 HELIX 13 13 GLN A 231 GLY A 233 5 3 HELIX 14 14 ARG A 246 ARG A 249 5 4 HELIX 15 15 LEU A 250 GLY A 269 1 20 HELIX 16 16 THR A 285 TYR A 291 1 7 HELIX 17 17 LEU A 296 ALA A 300 5 5 HELIX 18 18 THR A 318 MET A 334 1 17 HELIX 19 19 SER B 6 ASN B 12 1 7 HELIX 20 20 GLN B 39 GLY B 48 1 10 HELIX 21 21 SER B 56 GLY B 61 1 6 HELIX 22 22 ASP B 63 GLY B 69 1 7 HELIX 23 23 GLY B 69 PHE B 83 1 15 HELIX 24 24 ASP B 90 GLY B 123 1 34 HELIX 25 25 SER B 140 ARG B 143 5 4 HELIX 26 26 ASP B 155 LEU B 160 5 6 HELIX 27 27 VAL B 161 GLY B 174 1 14 HELIX 28 28 PRO B 195 GLN B 199 5 5 HELIX 29 29 THR B 212 GLN B 227 1 16 HELIX 30 30 GLN B 231 GLY B 233 5 3 HELIX 31 31 ARG B 246 ARG B 249 5 4 HELIX 32 32 LEU B 250 LYS B 267 1 18 HELIX 33 33 THR B 285 TYR B 291 1 7 HELIX 34 34 LEU B 296 GLU B 301 5 6 HELIX 35 35 THR B 318 MET B 334 1 17 SHEET 1 A 2 ILE A 20 ASP A 22 0 SHEET 2 A 2 PHE A 35 LEU A 37 -1 O GLN A 36 N GLN A 21 SHEET 1 B 5 VAL A 145 ASN A 149 0 SHEET 2 B 5 LEU A 189 VAL A 193 -1 O ALA A 190 N LEU A 148 SHEET 3 B 5 ILE A 235 PHE A 241 -1 O LEU A 237 N VAL A 191 SHEET 4 B 5 PHE A 275 HIS A 278 1 O GLU A 276 N ALA A 238 SHEET 5 B 5 LEU A 313 TYR A 314 1 O TYR A 314 N VAL A 277 SHEET 1 C 2 ILE B 20 ASP B 22 0 SHEET 2 C 2 PHE B 35 LEU B 37 -1 O GLN B 36 N GLN B 21 SHEET 1 D 5 VAL B 145 ASN B 149 0 SHEET 2 D 5 LEU B 189 VAL B 193 -1 O VAL B 192 N ALA B 146 SHEET 3 D 5 ILE B 235 PHE B 241 -1 O SER B 236 N VAL B 191 SHEET 4 D 5 PHE B 275 HIS B 278 1 O GLU B 276 N ALA B 238 SHEET 5 D 5 ILE B 310 TYR B 314 1 O TYR B 314 N VAL B 277 LINK OD2 ASP B 188 MG MG B 1 1555 1555 2.10 LINK OD2 ASP A 188 MG MG A 340 1555 1555 2.10 LINK O PHE A 241 MG MG A 340 1555 1555 2.10 LINK OP1A DC C 8 MG MG B 1 1555 1555 2.11 LINK OP1B DC D 8 MG MG B 1 1555 1555 2.11 LINK O PHE B 241 MG MG B 1 1555 1555 2.11 LINK OP1B DC C 8 MG MG A 340 1555 1555 2.11 LINK OP1A DC D 8 MG MG A 340 1555 1555 2.11 LINK MG MG A 340 O HOH A 367 1555 1555 2.99 CISPEP 1 GLN A 129 PRO A 130 0 -12.61 CISPEP 2 GLN B 129 PRO B 130 0 -3.15 SITE 1 AC1 5 ASP A 188 PHE A 241 HOH A 367 DC C 8 SITE 2 AC1 5 DC D 8 SITE 1 AC2 4 ASP B 188 PHE B 241 DC C 8 DC D 8 CRYST1 108.794 133.002 64.623 90.00 90.00 90.00 P 21 21 2 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 0.009192 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007519 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015474 0.00000 MASTER 442 0 2 35 14 0 3 6 0 0 0 56 END