PDB Short entry for 1IU3 HEADER REPLICATION INHIBITOR/DNA 26-FEB-02 1IU3 TITLE CRYSTAL STRUCTURE OF THE E.COLI SEQA PROTEIN COMPLEXED WITH TITLE 2 HEMIMETHYLATED DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*AP*AP*GP*GP*AP*TP*CP*CP*AP*A)-3'; COMPND 3 CHAIN: A, D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*TP*TP*GP*GP*AP*TP*CP*CP*TP*T)-3'; COMPND 7 CHAIN: B, E; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: SEQA PROTEIN; COMPND 11 CHAIN: C, F; COMPND 12 FRAGMENT: DNA BINDING DOMAIN, RESIDUES 71-181; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 7 ORGANISM_TAXID: 562; SOURCE 8 GENE: SEQA; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 EXPRESSION_SYSTEM_STRAIN: DH5A; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PGEX-6P1 KEYWDS PROTEIN-DNA COMPLEX, RECOGNITION OF HEMIMETHYLATED DNA, RIKEN KEYWDS 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, STRUCTURAL KEYWDS 3 GENOMICS, REPLICATION INHIBITOR-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.FUJIKAWA,H.KURUMIZAKA,O.NUREKI,Y.TANAKA,M.YAMAZOE,S.HIRAGA, AUTHOR 2 S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 27-DEC-23 1IU3 1 SEQADV REVDAT 3 24-FEB-09 1IU3 1 VERSN REVDAT 2 24-FEB-04 1IU3 1 JRNL REVDAT 1 17-JUN-03 1IU3 0 JRNL AUTH N.FUJIKAWA,H.KURUMIZAKA,O.NUREKI,Y.TANAKA,M.YAMAZOE, JRNL AUTH 2 S.HIRAGA,S.YOKOYAMA JRNL TITL STRUCTURAL AND BIOCHEMICAL ANALYSES OF HEMIMETHYLATED DNA JRNL TITL 2 BINDING BY THE SEQA PROTEIN. JRNL REF NUCLEIC ACIDS RES. V. 32 82 2004 JRNL REFN ISSN 0305-1048 JRNL PMID 14704346 JRNL DOI 10.1093/NAR/GKH173 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 16586 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.286 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 816 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.05 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.5230 REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1816 REMARK 3 NUCLEIC ACID ATOMS : 808 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 131 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) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.41 REMARK 3 ESD FROM SIGMAA (A) : 0.69 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) : 0.54 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.82 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.032 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.82 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.669 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1IU3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-MAR-02. REMARK 100 THE DEPOSITION ID IS D_1000005276. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-01; 01-JAN-01 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : SPRING-8; SPRING-8 REMARK 200 BEAMLINE : BL41XU; BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979713; REMARK 200 0.9798,0.9800,0.9742,0.9839 REMARK 200 MONOCHROMATOR : ROTATED-INCLINED FIXED EXIT REMARK 200 DOUBLE CRYSTAL; ROTATED-INCLINED REMARK 200 FIXED EXIT DOUBLE CRYSTAL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH; MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16587 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 41.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 76.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES-NA, TRI-SODIUM CITRATE REMARK 280 DIHYDRATE, GLYCEROL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-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 -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 0.00000 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 0.00000 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 0.00000 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 0.00000 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 0.00000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 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: HEXAMERIC 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 GLY C 1 REMARK 465 GLY F 1 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 ASN F 68 O HOH F 119 2.10 REMARK 500 CB CYS C 113 O HOH C 174 2.16 REMARK 500 N3 DG E 213 O HOH E 101 2.17 REMARK 500 O GLY C 77 O HOH C 144 2.17 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 N3 DA D 201 N3 DA D 201 10665 1.03 REMARK 500 N3 DA D 201 C4 DA D 201 10665 2.05 REMARK 500 C2 DA D 201 N3 DA D 201 10665 2.08 REMARK 500 C1' DA D 201 N9 DA D 201 10665 2.16 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 DG A 204 O3' DG A 204 C3' -0.061 REMARK 500 DG A 204 N3 DG A 204 C4 -0.053 REMARK 500 DG A 204 C5 DG A 204 N7 -0.045 REMARK 500 DG A 204 C8 DG A 204 N9 -0.045 REMARK 500 DG A 204 N9 DG A 204 C4 -0.058 REMARK 500 DT B 211 O3' DT B 212 P 0.077 REMARK 500 DA B 215 N1 DA B 215 C2 -0.058 REMARK 500 SER C 5 CB SER C 5 OG 0.096 REMARK 500 GLU C 9 CG GLU C 9 CD 0.110 REMARK 500 GLU C 15 CG GLU C 15 CD 0.090 REMARK 500 TYR C 16 CE1 TYR C 16 CZ -0.084 REMARK 500 TYR C 16 CZ TYR C 16 CE2 -0.125 REMARK 500 VAL C 23 CB VAL C 23 CG2 -0.176 REMARK 500 GLU C 43 CG GLU C 43 CD 0.095 REMARK 500 VAL C 75 CA VAL C 75 CB 0.249 REMARK 500 PRO C 76 CB PRO C 76 CG 0.308 REMARK 500 TYR C 80 CB TYR C 80 CG -0.097 REMARK 500 CYS C 92 CB CYS C 92 SG -0.126 REMARK 500 ALA C 106 CA ALA C 106 CB -0.132 REMARK 500 VAL F 75 CA VAL F 75 CB 0.132 REMARK 500 PRO F 76 CA PRO F 76 C 0.130 REMARK 500 CYS F 113 CB CYS F 113 SG 0.156 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 DA A 202 O5' - P - OP1 ANGL. DEV. = -6.6 DEGREES REMARK 500 DA A 202 C5' - C4' - C3' ANGL. DEV. = -10.9 DEGREES REMARK 500 DG A 203 O5' - P - OP1 ANGL. DEV. = 11.4 DEGREES REMARK 500 DG A 203 O5' - P - OP2 ANGL. DEV. = -12.3 DEGREES REMARK 500 DG A 204 O5' - P - OP2 ANGL. DEV. = -6.0 DEGREES REMARK 500 DA A 205 O3' - P - OP1 ANGL. DEV. = 7.9 DEGREES REMARK 500 DA A 205 C5' - C4' - C3' ANGL. DEV. = -15.8 DEGREES REMARK 500 DT B 211 N1 - C1' - C2' ANGL. DEV. = 9.8 DEGREES REMARK 500 DT B 211 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DT B 212 O5' - P - OP1 ANGL. DEV. = -8.1 DEGREES REMARK 500 DG B 213 O3' - P - OP1 ANGL. DEV. = 8.5 DEGREES REMARK 500 DC B 217 C3' - C2' - C1' ANGL. DEV. = -4.9 DEGREES REMARK 500 DC B 217 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC B 218 C3' - C2' - C1' ANGL. DEV. = -5.9 DEGREES REMARK 500 DA D 201 N9 - C1' - C2' ANGL. DEV. = 11.6 DEGREES REMARK 500 DA D 201 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA D 202 O5' - P - OP2 ANGL. DEV. = -10.9 DEGREES REMARK 500 DT E 212 O5' - P - OP1 ANGL. DEV. = -6.0 DEGREES REMARK 500 LEU C 11 CA - CB - CG ANGL. DEV. = 17.1 DEGREES REMARK 500 LEU C 11 CB - CG - CD2 ANGL. DEV. = -12.4 DEGREES REMARK 500 VAL C 23 CB - CA - C ANGL. DEV. = -14.3 DEGREES REMARK 500 ARG C 25 NE - CZ - NH1 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG C 25 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ASN C 68 N - CA - C ANGL. DEV. = 16.7 DEGREES REMARK 500 GLN C 69 N - CA - C ANGL. DEV. = -18.0 DEGREES REMARK 500 THR C 70 N - CA - C ANGL. DEV. = -22.4 DEGREES REMARK 500 LYS C 71 C - N - CA ANGL. DEV. = -16.2 DEGREES REMARK 500 LYS C 73 CA - C - O ANGL. DEV. = 13.7 DEGREES REMARK 500 LYS C 73 CA - C - N ANGL. DEV. = -16.8 DEGREES REMARK 500 HIS C 74 N - CA - C ANGL. DEV. = 19.1 DEGREES REMARK 500 VAL C 75 C - N - CA ANGL. DEV. = -16.5 DEGREES REMARK 500 VAL C 75 N - CA - C ANGL. DEV. = -19.7 DEGREES REMARK 500 PRO C 76 C - N - CA ANGL. DEV. = -17.2 DEGREES REMARK 500 PRO C 76 C - N - CD ANGL. DEV. = -31.1 DEGREES REMARK 500 PRO C 76 N - CA - CB ANGL. DEV. = -7.8 DEGREES REMARK 500 VAL C 82 CB - CA - C ANGL. DEV. = -11.8 DEGREES REMARK 500 ARG F 21 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASN F 68 N - CA - C ANGL. DEV. = 18.2 DEGREES REMARK 500 THR F 70 N - CA - C ANGL. DEV. = -20.7 DEGREES REMARK 500 PRO F 76 C - N - CA ANGL. DEV. = -11.6 DEGREES REMARK 500 VAL F 82 CB - CA - C ANGL. DEV. = -13.3 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 SER C 13 148.60 -34.25 REMARK 500 GLN C 19 133.07 -34.34 REMARK 500 LYS C 65 -76.24 -60.07 REMARK 500 PRO C 72 103.63 -25.37 REMARK 500 VAL C 75 139.49 -177.12 REMARK 500 THR C 78 -156.22 -128.37 REMARK 500 ASN C 85 81.59 -68.57 REMARK 500 CYS C 92 -73.27 -66.53 REMARK 500 GLN F 19 126.24 -32.53 REMARK 500 LEU F 36 -73.05 -79.86 REMARK 500 ALA F 57 166.29 178.39 REMARK 500 LYS F 65 -85.95 -58.86 REMARK 500 PRO F 72 98.14 -47.13 REMARK 500 HIS F 74 -86.20 -43.97 REMARK 500 PRO F 76 -74.10 -51.96 REMARK 500 THR F 78 -148.00 -121.78 REMARK 500 GLN F 103 48.27 73.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DA A 205 0.07 SIDE CHAIN REMARK 500 DA A 210 0.05 SIDE CHAIN REMARK 500 DT B 211 0.13 SIDE CHAIN REMARK 500 DC B 217 0.08 SIDE CHAIN REMARK 500 DT B 220 0.08 SIDE CHAIN REMARK 500 DA D 205 0.10 SIDE CHAIN REMARK 500 DA D 210 0.06 SIDE CHAIN REMARK 500 DT E 211 0.08 SIDE CHAIN REMARK 500 DT E 216 0.11 SIDE CHAIN REMARK 500 DT E 219 0.09 SIDE CHAIN REMARK 500 TYR C 80 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 VAL C 75 14.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TRT001000146.1 RELATED DB: TARGETDB DBREF 1IU3 C 6 116 UNP P36658 SEQA_ECOLI 71 181 DBREF 1IU3 F 6 116 UNP P36658 SEQA_ECOLI 71 181 DBREF 1IU3 A 201 210 PDB 1IU3 1IU3 201 210 DBREF 1IU3 B 211 220 PDB 1IU3 1IU3 211 220 DBREF 1IU3 D 201 210 PDB 1IU3 1IU3 201 210 DBREF 1IU3 E 211 220 PDB 1IU3 1IU3 211 220 SEQADV 1IU3 GLY C 1 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 PRO C 2 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 LEU C 3 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 GLY C 4 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 SER C 5 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 GLY F 1 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 PRO F 2 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 LEU F 3 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 GLY F 4 UNP P36658 CLONING ARTIFACT SEQADV 1IU3 SER F 5 UNP P36658 CLONING ARTIFACT SEQRES 1 A 10 DA DA DG DG DA DT DC DC DA DA SEQRES 1 B 10 DT DT DG DG DA DT DC DC DT DT SEQRES 1 D 10 DA DA DG DG DA DT DC DC DA DA SEQRES 1 E 10 DT DT DG DG DA DT DC DC DT DT SEQRES 1 C 116 GLY PRO LEU GLY SER ALA MET ARG GLU LEU LEU LEU SER SEQRES 2 C 116 ASP GLU TYR ALA GLU GLN LYS ARG ALA VAL ASN ARG PHE SEQRES 3 C 116 MET LEU LEU LEU SER THR LEU TYR SER LEU ASP ALA GLN SEQRES 4 C 116 ALA PHE ALA GLU ALA THR GLU SER LEU HIS GLY ARG THR SEQRES 5 C 116 ARG VAL TYR PHE ALA ALA ASP GLU GLN THR LEU LEU LYS SEQRES 6 C 116 ASN GLY ASN GLN THR LYS PRO LYS HIS VAL PRO GLY THR SEQRES 7 C 116 PRO TYR TRP VAL ILE THR ASN THR ASN THR GLY ARG LYS SEQRES 8 C 116 CYS SER MET ILE GLU HIS ILE MET GLN SER MET GLN PHE SEQRES 9 C 116 PRO ALA GLU LEU ILE GLU LYS VAL CYS GLY THR ILE SEQRES 1 F 116 GLY PRO LEU GLY SER ALA MET ARG GLU LEU LEU LEU SER SEQRES 2 F 116 ASP GLU TYR ALA GLU GLN LYS ARG ALA VAL ASN ARG PHE SEQRES 3 F 116 MET LEU LEU LEU SER THR LEU TYR SER LEU ASP ALA GLN SEQRES 4 F 116 ALA PHE ALA GLU ALA THR GLU SER LEU HIS GLY ARG THR SEQRES 5 F 116 ARG VAL TYR PHE ALA ALA ASP GLU GLN THR LEU LEU LYS SEQRES 6 F 116 ASN GLY ASN GLN THR LYS PRO LYS HIS VAL PRO GLY THR SEQRES 7 F 116 PRO TYR TRP VAL ILE THR ASN THR ASN THR GLY ARG LYS SEQRES 8 F 116 CYS SER MET ILE GLU HIS ILE MET GLN SER MET GLN PHE SEQRES 9 F 116 PRO ALA GLU LEU ILE GLU LYS VAL CYS GLY THR ILE FORMUL 7 HOH *131(H2 O) HELIX 1 1 GLY C 4 SER C 13 1 10 HELIX 2 2 SER C 13 GLN C 19 1 7 HELIX 3 3 ARG C 21 ASP C 37 1 17 HELIX 4 4 ASP C 37 SER C 47 1 11 HELIX 5 5 ASP C 59 ASN C 66 1 8 HELIX 6 6 ASN C 87 MET C 102 1 16 HELIX 7 7 PRO C 105 ILE C 116 1 12 HELIX 8 8 GLY F 4 SER F 13 1 10 HELIX 9 9 SER F 13 GLN F 19 1 7 HELIX 10 10 ARG F 21 ASP F 37 1 17 HELIX 11 11 ASP F 37 SER F 47 1 11 HELIX 12 12 ASP F 59 ASN F 66 1 8 HELIX 13 13 ASN F 87 SER F 101 1 15 HELIX 14 14 PRO F 105 ILE F 116 1 12 SHEET 1 A 2 PHE C 56 ALA C 57 0 SHEET 2 A 2 TRP C 81 VAL C 82 -1 O TRP C 81 N ALA C 57 SHEET 1 B 2 PHE F 56 ALA F 57 0 SHEET 2 B 2 TRP F 81 VAL F 82 -1 O TRP F 81 N ALA F 57 CRYST1 152.595 152.595 119.355 90.00 90.00 120.00 P 6 2 2 24 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 0.006553 0.003784 0.000000 0.00000 SCALE2 0.000000 0.007567 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008378 0.00000