10 20 30 40 50 60 70 80 2QOJ - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE/DNA 20-JUL-07 2QOJ
TITLE COEVOLUTION OF A HOMING ENDONUCLEASE AND ITS HOST TARGET TITLE 2 SEQUENCE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTRON-ENCODED DNA ENDONUCLEASE I-ANII; COMPND 3 CHAIN: Z; COMPND 4 SYNONYM: MRNA MATURASE BI1, COB INTRON PROTEIN; COMPND 5 EC: 3.1.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: I-ANII DNA TARGET SEQ1; COMPND 9 CHAIN: X; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: I-ANII DNA TARGET SEQ2; COMPND 13 CHAIN: Y; COMPND 14 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EMERICELLA NIDULANS; SOURCE 3 ORGANISM_COMMON: ASPERGILLUS NIDULANS; SOURCE 4 GENE: I-ANII; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 MOL_ID: 3; SOURCE 9 SYNTHETIC: YES
KEYWDS LAGLIDADG HOMING ENDONUCLEASE, I-ANII, HYDROLASE, INTRON KEYWDS 2 HOMING, MITOCHONDRION, MRNA PROCESSING, MRNA SPLICING, KEYWDS 3 HYDROLASE/DNA COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR M.SCALLEY-KIM,A.MCCONNELL SMITH,B.L.STODDARD
REVDAT 2 24-FEB-09 2QOJ 1 VERSN REVDAT 1 11-NOV-08 2QOJ 0
JRNL AUTH M.SCALLEY-KIM,A.MCCONNELL-SMITH,B.L.STODDARD JRNL TITL COEVOLUTION OF A HOMING ENDONUCLEASE AND ITS HOST JRNL TITL 2 TARGET SEQUENCE. JRNL REF J.MOL.BIOL. V. 372 1305 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17720189 JRNL DOI 10.1016/J.JMB.2007.07.052
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 3 NUMBER OF REFLECTIONS : 15421 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) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 778 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.47 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1088 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 78.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 53 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2085 REMARK 3 NUCLEIC ACID ATOMS : 1210 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 46 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.01000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.936 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.353 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.205 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.455 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.922 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.870 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3482 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4950 ; 1.753 ; 2.414 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 253 ; 8.585 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 92 ;39.126 ;23.696 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 414 ;19.131 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;15.992 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 557 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2165 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1355 ; 0.219 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2192 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 146 ; 0.173 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.004 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 31 ; 0.234 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.669 ; 0.200 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): 1307 ; 0.772 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2049 ; 1.236 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2917 ; 1.534 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2901 ; 2.364 ; 4.500 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 : 1.40 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 REMARK 3 RIDING POSITIONS
REMARK 4 REMARK 4 2QOJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-AUG-07. REMARK 100 THE RCSB ID CODE IS RCSB043857.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-00 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 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) : 0.9794 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) 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 : 20093 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 29.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.840 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.47 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.14000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 36.35050 REMARK 290 SMTRY3 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -89.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: Z, Y, X 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 DG X 399 REMARK 465 DC X 400 REMARK 465 DT Y 531
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 Z 632 O HOH Z 633 1.51 REMARK 500 O THR Z 196 N CYS Z 198 2.04 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 O HOH Z 610 O HOH Z 630 2545 1.29 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 X 406 O3' DG X 406 C3' -0.037 REMARK 500 DC Y 523 O3' DC Y 523 C3' -0.051 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 ASN Z 62 N - CA - C ANGL. DEV. = 17.4 DEGREES REMARK 500 DG X 401 O4' - C1' - N9 ANGL. DEV. = -6.5 DEGREES REMARK 500 DC X 404 O4' - C4' - C3' ANGL. DEV. = -3.1 DEGREES REMARK 500 DC X 404 C1' - O4' - C4' ANGL. DEV. = -6.4 DEGREES REMARK 500 DC X 404 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT X 405 N3 - C2 - O2 ANGL. DEV. = -3.7 DEGREES REMARK 500 DG X 406 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG X 409 O4' - C1' - N9 ANGL. DEV. = 6.0 DEGREES REMARK 500 DG X 409 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DA X 410 O4' - C1' - N9 ANGL. DEV. = 5.4 DEGREES REMARK 500 DG X 411 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DT X 415 O4' - C1' - N1 ANGL. DEV. = -4.5 DEGREES REMARK 500 DC X 416 C3' - C2' - C1' ANGL. DEV. = -4.8 DEGREES REMARK 500 DC X 416 N1 - C1' - C2' ANGL. DEV. = 8.8 DEGREES REMARK 500 DT X 417 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT X 419 O4' - C1' - N1 ANGL. DEV. = 4.1 DEGREES REMARK 500 DA X 423 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA X 424 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG X 425 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC X 428 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 DA X 429 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC Y 502 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DG Y 501 C3' - O3' - P ANGL. DEV. = 8.4 DEGREES REMARK 500 DT Y 505 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DT Y 506 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DT Y 507 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 DA Y 510 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG Y 513 O4' - C1' - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 DA Y 514 C3' - O3' - P ANGL. DEV. = 7.3 DEGREES REMARK 500 DA Y 516 N1 - C2 - N3 ANGL. DEV. = -3.3 DEGREES REMARK 500 DC Y 517 O5' - C5' - C4' ANGL. DEV. = -6.3 DEGREES REMARK 500 DC Y 517 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC Y 518 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT Y 519 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 DC Y 520 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DC Y 521 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DC Y 523 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA Y 524 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG Y 525 C3' - C2' - C1' ANGL. DEV. = -4.9 DEGREES REMARK 500 DG Y 525 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG Y 529 O4' - C1' - N9 ANGL. DEV. = 4.7 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 Z 2 170.86 4.00 REMARK 500 TYR Z 27 -157.58 -129.31 REMARK 500 ARG Z 61 82.53 24.44 REMARK 500 ASN Z 62 -12.81 -37.65 REMARK 500 ILE Z 164 -61.32 -98.74 REMARK 500 ALA Z 165 94.30 72.48 REMARK 500 ASN Z 197 35.38 -11.69 REMARK 500 THR Z 204 -38.44 -148.71 REMARK 500 PRO Z 251 -151.13 -87.59 REMARK 500 SER Z 252 -168.56 158.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG Z 61 ASN Z 62 -120.07 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 MG Z 603 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC X 416 OP1 REMARK 620 2 GLY Z 15 O 176.5 REMARK 620 3 GLU Z 148 OE2 88.6 94.7 REMARK 620 4 DC Y 517 OP2 93.8 84.8 131.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG Z 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT X 417 OP2 REMARK 620 2 ALA Z 147 O 77.5 REMARK 620 3 DA Y 516 OP1 123.7 158.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG Z 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA Y 516 O3' REMARK 620 2 DC Y 517 OP2 70.3 REMARK 620 N 1
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG Z 601 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG Z 602 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG Z 603
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P8K RELATED DB: PDB
DBREF 2QOJ Z 3 254 UNP P03880 ANI1_EMENI 237 488
SEQADV 2QOJ GLY Z 1 UNP P03880 EXPRESSION TAG SEQADV 2QOJ SER Z 2 UNP P03880 EXPRESSION TAG SEQADV 2QOJ ARG Z 61 UNP P03880 ILE 295 ENGINEERED
SEQRES 1 Z 254 GLY SER ASP LEU THR TYR ALA TYR LEU VAL GLY LEU PHE SEQRES 2 Z 254 GLU GLY ASP GLY TYR PHE SER ILE THR LYS LYS GLY LYS SEQRES 3 Z 254 TYR LEU THR TYR GLU LEU GLY ILE GLU LEU SER ILE LYS SEQRES 4 Z 254 ASP VAL GLN LEU ILE TYR LYS ILE LYS LYS ILE LEU GLY SEQRES 5 Z 254 ILE GLY ILE VAL SER PHE ARG LYS ARG ASN GLU ILE GLU SEQRES 6 Z 254 MSE VAL ALA LEU ARG ILE ARG ASP LYS ASN HIS LEU LYS SEQRES 7 Z 254 SER PHE ILE LEU PRO ILE PHE GLU LYS TYR PRO MSE PHE SEQRES 8 Z 254 SER ASN LYS GLN TYR ASP TYR LEU ARG PHE ARG ASN ALA SEQRES 9 Z 254 LEU LEU SER GLY ILE ILE SER LEU GLU ASP LEU PRO ASP SEQRES 10 Z 254 TYR THR ARG SER ASP GLU PRO LEU ASN SER ILE GLU SER SEQRES 11 Z 254 ILE ILE ASN THR SER TYR PHE SER ALA TRP LEU VAL GLY SEQRES 12 Z 254 PHE ILE GLU ALA GLU GLY CYS PHE SER VAL TYR LYS LEU SEQRES 13 Z 254 ASN LYS ASP ASP ASP TYR LEU ILE ALA SER PHE ASP ILE SEQRES 14 Z 254 ALA GLN ARG ASP GLY ASP ILE LEU ILE SER ALA ILE ARG SEQRES 15 Z 254 LYS TYR LEU SER PHE THR THR LYS VAL TYR LEU ASP LYS SEQRES 16 Z 254 THR ASN CYS SER LYS LEU LYS VAL THR SER VAL ARG SER SEQRES 17 Z 254 VAL GLU ASN ILE ILE LYS PHE LEU GLN ASN ALA PRO VAL SEQRES 18 Z 254 LYS LEU LEU GLY ASN LYS LYS LEU GLN TYR LEU LEU TRP SEQRES 19 Z 254 LEU LYS GLN LEU ARG LYS ILE SER ARG TYR SER GLU LYS SEQRES 20 Z 254 ILE LYS ILE PRO SER ASN TYR SEQRES 1 X 31 DG DC DG DC DG DC DT DG DA DG DG DA DG SEQRES 2 X 31 DG DT DT DT DC DT DC DT DG DT DA DA DA SEQRES 3 X 31 DG DC DG DC DA SEQRES 1 Y 31 DG DC DG DC DT DT DT DA DC DA DG DA DG SEQRES 2 Y 31 DA DA DA DC DC DT DC DC DT DC DA DG DC SEQRES 3 Y 31 DG DC DG DC DT
MODRES 2QOJ MSE Z 66 MET SELENOMETHIONINE MODRES 2QOJ MSE Z 90 MET SELENOMETHIONINE
HET MSE Z 66 8 HET MSE Z 90 8 HET MG Z 601 1 HET MG Z 602 1 HET MG Z 603 1
HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION
FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 4 MG 3(MG 2+) FORMUL 7 HOH *46(H2 O)
HELIX 1 1 LEU Z 4 ASP Z 16 1 13 HELIX 2 2 ASP Z 40 GLY Z 52 1 13 HELIX 3 3 ASP Z 73 TYR Z 88 1 16 HELIX 4 4 ASN Z 93 GLY Z 108 1 16 HELIX 5 5 SER Z 127 ASN Z 133 1 7 HELIX 6 6 TYR Z 136 GLU Z 148 1 13 HELIX 7 7 GLY Z 174 LEU Z 185 1 12 HELIX 8 8 SER Z 205 ALA Z 219 1 15 HELIX 9 9 GLY Z 225 ARG Z 239 1 15 HELIX 10 10 ILE Z 241 GLU Z 246 1 6
SHEET 1 A 4 GLY Z 17 LYS Z 24 0 SHEET 2 A 4 TYR Z 27 SER Z 37 -1 O THR Z 29 N THR Z 22 SHEET 3 A 4 MSE Z 66 ILE Z 71 -1 O VAL Z 67 N LEU Z 36 SHEET 4 A 4 ILE Z 55 ARG Z 59 -1 N ILE Z 55 O ARG Z 70 SHEET 1 B 4 GLY Z 149 SER Z 152 0 SHEET 2 B 4 SER Z 166 ARG Z 172 -1 O SER Z 166 N SER Z 152 SHEET 3 B 4 CYS Z 198 VAL Z 203 -1 O VAL Z 203 N PHE Z 167 SHEET 4 B 4 TYR Z 192 LEU Z 193 -1 N TYR Z 192 O LYS Z 200
LINK OP1 DC X 416 MG MG Z 603 1555 1555 2.12 LINK OP2 DT X 417 MG MG Z 602 1555 1555 2.25 LINK O GLY Z 15 MG MG Z 603 1555 1555 2.06 LINK O ALA Z 147 MG MG Z 602 1555 1555 2.27 LINK OE2 GLU Z 148 MG MG Z 603 1555 1555 1.99 LINK C GLU Z 65 N MSE Z 66 1555 1555 1.33 LINK C MSE Z 66 N VAL Z 67 1555 1555 1.33 LINK C PRO Z 89 N MSE Z 90 1555 1555 1.33 LINK C MSE Z 90 N PHE Z 91 1555 1555 1.33 LINK OP1 DA Y 516 MG MG Z 602 1555 1555 2.28 LINK O3' DA Y 516 MG MG Z 601 1555 1555 2.47 LINK OP2 DC Y 517 MG MG Z 601 1555 1555 2.03 LINK OP2 DC Y 517 MG MG Z 603 1555 1555 2.22
SITE 1 AC1 8 DC X 416 DT X 417 DA Y 516 DC Y 517 SITE 2 AC1 8 GLY Z 15 ASP Z 16 GLU Z 148 MG Z 603 SITE 1 AC2 5 DT X 417 HOH Y 1 DA Y 516 ASP Z 16 SITE 2 AC2 5 ALA Z 147 SITE 1 AC3 5 DC X 416 DC Y 517 GLY Z 15 GLU Z 148 SITE 2 AC3 5 MG Z 601
CRYST1 60.353 72.701 61.100 90.00 103.88 90.00 P 1 21 1 2
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 0.016569 0.000000 0.004094 0.00000
SCALE2 0.000000 0.013755 0.000000 0.00000
SCALE3 0.000000 0.000000 0.016859 0.00000