HEADER HYDROLASE/DNA 13-AUG-08 3E54 TITLE ARCHAEAL INTRON-ENCODED HOMING ENDONUCLEASE I-VDI141I COMPLEXED WITH TITLE 2 DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RRNA INTRON-ENCODED ENDONUCLEASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: HOMING ENDONUCLEASE I-VDI141I; COMPND 5 EC: 3.1.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'- COMPND 10 D(*DCP*DTP*DGP*DAP*DCP*DTP*DCP*DTP*DCP*DTP*DTP*DAP*DA)-3'); COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: I-VDI141I DNA TARGET SITE; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: DNA (5'-D(P*DGP*DGP*DTP*DAP*DGP*DCP*DCP*DAP*DA)-3'); COMPND 16 CHAIN: D; COMPND 17 ENGINEERED: YES; COMPND 18 OTHER_DETAILS: I-VDI141I DNA TARGET SITE; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: DNA (5'- COMPND 21 D(*DTP*DTP*DGP*DGP*DCP*DTP*DAP*DCP*DCP*DTP*DTP*DAP*DA)-3'); COMPND 22 CHAIN: E; COMPND 23 ENGINEERED: YES; COMPND 24 OTHER_DETAILS: I-VDI141I DNA TARGET SITE; COMPND 25 MOL_ID: 5; COMPND 26 MOLECULE: DNA (5'-D(P*DGP*DAP*DGP*DAP*DGP*DTP*DCP*DAP*DG)-3'); COMPND 27 CHAIN: F; COMPND 28 ENGINEERED: YES; COMPND 29 OTHER_DETAILS: I-VDI141I DNA TARGET SITE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VULCANISAETA DISTRIBUTA; SOURCE 3 ORGANISM_TAXID: 164451; SOURCE 4 STRAIN: IC-141; SOURCE 5 GENE: 23S RRNA INTRON (VDI141.L1927); SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS (DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PVDII65M/I107M-10; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 MOL_ID: 4; SOURCE 16 SYNTHETIC: YES; SOURCE 17 MOL_ID: 5; SOURCE 18 SYNTHETIC: YES KEYWDS PROTEIN-DNA COMPLEX, LAGLIDADG, HOMING, ENDONUCLEASE, DNA KEYWDS 2 RECOGNITION, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.NOMURA,Y.NOMURA,D.SUSSMAN,B.L.STODDARD REVDAT 2 12-MAR-14 3E54 1 REMARK VERSN REVDAT 1 30-DEC-08 3E54 0 JRNL AUTH N.NOMURA,Y.NOMURA,D.SUSSMAN,D.KLEIN,B.L.STODDARD JRNL TITL RECOGNITION OF A COMMON RDNA TARGET SITE IN ARCHAEA AND JRNL TITL 2 EUKARYA BY ANALOGOUS LAGLIDADG AND HIS-CYS BOX HOMING JRNL TITL 3 ENDONUCLEASES JRNL REF NUCLEIC ACIDS RES. V. 36 6988 2008 JRNL REFN ISSN 0305-1048 JRNL PMID 18984620 JRNL DOI 10.1093/NAR/GKN846 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2019520.670 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 18252 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 SET) : 0.231 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1798 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2645 REMARK 3 BIN R VALUE (WORKING SET) : 0.3090 REMARK 3 BIN FREE R VALUE : 0.3630 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 310 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2610 REMARK 3 NUCLEIC ACID ATOMS : 898 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 113 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.13000 REMARK 3 B22 (A**2) : 6.13000 REMARK 3 B33 (A**2) : -12.25000 REMARK 3 B12 (A**2) : -1.58000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM SIGMAA (A) : 0.33 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.42 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.500 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.070 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 4.280 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 5.830 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 6.230 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.070 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 36.99 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : ETOH.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : ETOH.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3E54 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-AUG-08. REMARK 100 THE RCSB ID CODE IS RCSB048886. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-APR-06 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 : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97911, 0.97945 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23652 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.320 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 22.400 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 21.40 REMARK 200 R MERGE FOR SHELL (I) : 0.25200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 9% ETHANOL, 100MM MGCL2, 100MM HEPES- REMARK 280 NAOH, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 299K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.63667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 145.27333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 108.95500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 181.59167 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 36.31833 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -106.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, E, C, F 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 1 REMARK 465 VAL A 2 REMARK 465 HIS A 3 REMARK 465 ARG A 163 REMARK 465 ASN A 164 REMARK 465 VAL A 165 REMARK 465 SER A 166 REMARK 465 THR A 167 REMARK 465 SER A 168 REMARK 465 LEU A 169 REMARK 465 MET B 201 REMARK 465 VAL B 202 REMARK 465 HIS B 203 REMARK 465 ARG B 363 REMARK 465 ASN B 364 REMARK 465 VAL B 365 REMARK 465 SER B 366 REMARK 465 THR B 367 REMARK 465 SER B 368 REMARK 465 LEU B 369 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 OP1 DA C 502 MG MG C 703 1.59 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 GLU A 66 CD GLU A 66 OE1 -0.085 REMARK 500 GLU A 66 CD GLU A 66 OE2 -0.104 REMARK 500 GLU B 266 CD GLU B 266 OE1 -0.088 REMARK 500 GLU B 266 CD GLU B 266 OE2 -0.115 REMARK 500 GLU B 266 C GLU B 266 O -0.126 REMARK 500 DG F 614 P DG F 614 OP3 -0.082 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 GLU A 66 OE1 - CD - OE2 ANGL. DEV. = -9.3 DEGREES REMARK 500 GLU B 266 OE1 - CD - OE2 ANGL. DEV. = -9.2 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 95 -39.41 -39.25 REMARK 500 ILE A 99 -61.66 -102.14 REMARK 500 ASN B 248 94.11 -69.97 REMARK 500 ALA B 254 -70.39 -59.70 REMARK 500 ILE B 299 -63.83 -105.23 REMARK 500 REMARK 500 REMARK: NULL 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 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH D 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH E 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH F 802 DBREF 3E54 A 1 169 UNP Q6L703 Q6L703_9CREN 1 169 DBREF 3E54 B 201 369 UNP Q6L703 Q6L703_9CREN 1 169 DBREF 3E54 C 490 502 PDB 3E54 3E54 490 502 DBREF 3E54 D 503 511 PDB 3E54 3E54 503 511 DBREF 3E54 E 601 613 PDB 3E54 3E54 601 613 DBREF 3E54 F 614 622 PDB 3E54 3E54 614 622 SEQADV 3E54 MET A 65 UNP Q6L703 ILE 65 ENGINEERED SEQADV 3E54 MET A 107 UNP Q6L703 ILE 107 ENGINEERED SEQADV 3E54 MET B 265 UNP Q6L703 ILE 65 ENGINEERED SEQADV 3E54 MET B 307 UNP Q6L703 ILE 107 ENGINEERED SEQRES 1 A 169 MET VAL HIS GLU GLU ASP PHE LYS GLU GLY TYR ILE LEU SEQRES 2 A 169 GLY PHE ILE GLU ALA GLU GLY SER PHE SER VAL SER ILE SEQRES 3 A 169 LYS PHE GLN ARG ASP VAL PHE GLY GLY VAL ARG LEU ASP SEQRES 4 A 169 PRO VAL PHE SER ILE THR GLN LYS ASN ARG GLU VAL LEU SEQRES 5 A 169 GLU ALA ILE LYS GLU HIS LEU GLY ILE GLY ARG ILE MET SEQRES 6 A 169 GLU LYS ALA GLY GLN PRO ASN THR TYR VAL TYR VAL VAL SEQRES 7 A 169 ASP ASN PHE ASN GLU LEU VAL LYS LEU ILE ASN PHE LEU SEQRES 8 A 169 ASN LYS TYR ALA ASP PHE MET ILE VAL LYS LYS ARG GLN SEQRES 9 A 169 PHE LEU MET PHE ARG GLU ILE ALA ASN GLY LEU VAL ASN SEQRES 10 A 169 GLY GLU HIS LEU HIS ILE ASN GLY LEU LYS ARG LEU VAL SEQRES 11 A 169 LYS LEU ALA TYR GLU LEU THR LYS GLU SER GLU LYS GLY SEQRES 12 A 169 TYR ARG LYS TYR ASP LEU ASN HIS VAL LEU SER ILE ILE SEQRES 13 A 169 ASP LYS TRP ASP LEU GLY ARG ASN VAL SER THR SER LEU SEQRES 1 B 169 MET VAL HIS GLU GLU ASP PHE LYS GLU GLY TYR ILE LEU SEQRES 2 B 169 GLY PHE ILE GLU ALA GLU GLY SER PHE SER VAL SER ILE SEQRES 3 B 169 LYS PHE GLN ARG ASP VAL PHE GLY GLY VAL ARG LEU ASP SEQRES 4 B 169 PRO VAL PHE SER ILE THR GLN LYS ASN ARG GLU VAL LEU SEQRES 5 B 169 GLU ALA ILE LYS GLU HIS LEU GLY ILE GLY ARG ILE MET SEQRES 6 B 169 GLU LYS ALA GLY GLN PRO ASN THR TYR VAL TYR VAL VAL SEQRES 7 B 169 ASP ASN PHE ASN GLU LEU VAL LYS LEU ILE ASN PHE LEU SEQRES 8 B 169 ASN LYS TYR ALA ASP PHE MET ILE VAL LYS LYS ARG GLN SEQRES 9 B 169 PHE LEU MET PHE ARG GLU ILE ALA ASN GLY LEU VAL ASN SEQRES 10 B 169 GLY GLU HIS LEU HIS ILE ASN GLY LEU LYS ARG LEU VAL SEQRES 11 B 169 LYS LEU ALA TYR GLU LEU THR LYS GLU SER GLU LYS GLY SEQRES 12 B 169 TYR ARG LYS TYR ASP LEU ASN HIS VAL LEU SER ILE ILE SEQRES 13 B 169 ASP LYS TRP ASP LEU GLY ARG ASN VAL SER THR SER LEU SEQRES 1 C 13 DC DT DG DA DC DT DC DT DC DT DT DA DA SEQRES 1 D 9 DG DG DT DA DG DC DC DA DA SEQRES 1 E 13 DT DT DG DG DC DT DA DC DC DT DT DA DA SEQRES 1 F 9 DG DA DG DA DG DT DC DA DG HET MG A 702 1 HET MG A 704 1 HET MG B 701 1 HET MG B 705 1 HET MG C 703 1 HET EOH D 801 3 HET EOH E 803 3 HET EOH F 802 3 HETNAM MG MAGNESIUM ION HETNAM EOH ETHANOL FORMUL 7 MG 5(MG 2+) FORMUL 12 EOH 3(C2 H6 O) FORMUL 15 HOH *113(H2 O) HELIX 1 1 GLU A 5 GLU A 19 1 15 HELIX 2 2 VAL A 32 GLY A 34 5 3 HELIX 3 3 ASN A 48 GLY A 60 1 13 HELIX 4 4 ASN A 80 LYS A 93 1 14 HELIX 5 5 TYR A 94 MET A 98 5 5 HELIX 6 6 LYS A 101 ASN A 117 1 17 HELIX 7 7 GLY A 118 LEU A 121 5 4 HELIX 8 8 HIS A 122 SER A 140 1 19 HELIX 9 9 ASP A 148 LEU A 161 1 14 HELIX 10 10 GLU B 204 GLU B 219 1 16 HELIX 11 11 VAL B 232 VAL B 236 5 5 HELIX 12 12 ASN B 248 GLY B 260 1 13 HELIX 13 13 ASN B 280 ALA B 295 1 16 HELIX 14 14 LYS B 301 ASN B 317 1 17 HELIX 15 15 GLY B 318 LEU B 321 5 4 HELIX 16 16 HIS B 322 SER B 340 1 19 HELIX 17 17 ASP B 348 GLY B 362 1 15 SHEET 1 A 4 GLY A 20 PHE A 28 0 SHEET 2 A 4 VAL A 36 GLN A 46 -1 O VAL A 41 N SER A 23 SHEET 3 A 4 TYR A 74 VAL A 78 -1 O TYR A 76 N ILE A 44 SHEET 4 A 4 ARG A 63 GLU A 66 -1 N ARG A 63 O VAL A 77 SHEET 1 B 4 GLY B 220 LYS B 227 0 SHEET 2 B 4 ARG B 237 GLN B 246 -1 O VAL B 241 N SER B 223 SHEET 3 B 4 TYR B 274 VAL B 278 -1 O TYR B 276 N ILE B 244 SHEET 4 B 4 ARG B 263 GLU B 266 -1 N ARG B 263 O VAL B 277 SITE 1 AC1 5 GLU A 19 ALA B 218 DG D 503 EOH D 801 SITE 2 AC1 5 DA E 613 SITE 1 AC2 2 ASP A 39 DA C 493 SITE 1 AC3 6 GLU A 19 GLU B 219 DA C 502 DG D 503 SITE 2 AC3 6 DA E 613 DG F 614 SITE 1 AC4 2 ASP B 239 DG E 604 SITE 1 AC5 5 ALA A 18 GLU B 219 GLN B 246 DA C 502 SITE 2 AC5 5 DG F 614 SITE 1 AC6 4 MG A 702 LYS B 301 DG D 503 DA E 612 SITE 1 AC7 2 DT C 500 DT E 611 SITE 1 AC8 2 LYS A 101 DG F 614 CRYST1 66.580 66.580 217.910 90.00 90.00 120.00 P 61 12 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 0.015020 0.008672 0.000000 0.00000 SCALE2 0.000000 0.017343 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004589 0.00000 MASTER 367 0 8 17 8 0 11 6 0 0 0 30 END