HEADER OXIDOREDUCTASE 07-OCT-15 5E4R TITLE CRYSTAL STRUCTURE OF DOMAIN-DUPLICATED SYNTHETIC CLASS II KETOL-ACID TITLE 2 REDUCTOISOMERASE 2IA_KARI-DD COMPND MOL_ID: 1; COMPND 2 MOLECULE: KETOL-ACID REDUCTOISOMERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-335,189-335; COMPND 5 SYNONYM: ACETOHYDROXY-ACID ISOMEROREDUCTASE,ALPHA-KETO-BETA- COMPND 6 HYDROXYLACYL REDUCTOISOMERASE; COMPND 7 EC: 1.1.1.86; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: IGNISPHAERA AGGREGANS (STRAIN DSM 17230 / JCM SOURCE 3 13409 / AQ1.S1); SOURCE 4 ORGANISM_TAXID: 583356; SOURCE 5 STRAIN: DSM 17230 / JCM 13409 / AQ1.S1; SOURCE 6 GENE: ILVC, IGAG_1561; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET22B(+) KEYWDS KETOL-ACID REDUCTIOSOMERASE, PROTEIN KNOT, PSUEDODIMER, PROTEIN KEYWDS 2 ENGINEERING, CHIMERA PROTEIN, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.K.B.CAHN,S.BRINKMANN-CHEN,A.R.BULLER,F.H.ARNOLD REVDAT 4 27-SEP-23 5E4R 1 JRNL REMARK LINK REVDAT 3 06-JUL-16 5E4R 1 JRNL REVDAT 2 30-DEC-15 5E4R 1 JRNL REVDAT 1 23-DEC-15 5E4R 0 JRNL AUTH J.K.CAHN,S.BRINKMANN-CHEN,A.R.BULLER,F.H.ARNOLD JRNL TITL ARTIFICIAL DOMAIN DUPLICATION REPLICATES EVOLUTIONARY JRNL TITL 2 HISTORY OF KETOL-ACID REDUCTOISOMERASES. JRNL REF PROTEIN SCI. V. 25 1241 2016 JRNL REFN ESSN 1469-896X JRNL PMID 26644020 JRNL DOI 10.1002/PRO.2852 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0069 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 103.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 55302 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) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2862 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) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4000 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE SET COUNT : 232 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3617 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 69 REMARK 3 SOLVENT ATOMS : 237 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.40000 REMARK 3 B22 (A**2) : 0.40000 REMARK 3 B33 (A**2) : -0.80000 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): 0.100 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.096 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.206 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3893 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3794 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5261 ; 1.128 ; 1.995 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8732 ; 0.647 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 592 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4312 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 847 ; 0.002 ; 0.020 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): 1928 ; 2.582 ; 2.046 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1927 ; 2.577 ; 2.043 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2412 ; 3.371 ; 3.041 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 476 REMARK 3 ORIGIN FOR THE GROUP (A): 22.9951 45.5650 -0.8893 REMARK 3 T TENSOR REMARK 3 T11: 0.0241 T22: 0.0573 REMARK 3 T33: 0.0249 T12: -0.0199 REMARK 3 T13: 0.0120 T23: 0.0124 REMARK 3 L TENSOR REMARK 3 L11: 0.2727 L22: 0.1867 REMARK 3 L33: 0.5904 L12: -0.0834 REMARK 3 L13: -0.2133 L23: -0.1598 REMARK 3 S TENSOR REMARK 3 S11: 0.0547 S12: -0.0264 S13: 0.0663 REMARK 3 S21: -0.0512 S22: 0.0035 S23: -0.0375 REMARK 3 S31: 0.0226 S32: -0.0549 S33: -0.0582 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5E4R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1000214354. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : LIQUID NITROGEN-COOLED DOUBLE REMARK 200 CRYSTAL K-B FOCUSING MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59315 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.922 REMARK 200 RESOLUTION RANGE LOW (A) : 103.882 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 10.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08100 REMARK 200 FOR THE DATA SET : 19.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 0.60800 REMARK 200 R SYM FOR SHELL (I) : 0.60800 REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 4XDZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M SODIUM FORMATE, PH 4.6, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+1/4 REMARK 290 8555 -Y,-X,-Z+3/4 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 71.03700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 106.55550 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 35.51850 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 71.03700 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 35.51850 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 106.55550 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 824 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 835 LIES ON A SPECIAL POSITION. 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 LYS A 330 REMARK 465 GLN A 331 REMARK 465 ILE A 332 REMARK 465 SER A 333 REMARK 465 SER A 334 REMARK 465 HIS A 335 REMARK 465 GLU A 336 REMARK 465 THR A 337 REMARK 465 ASP A 338 REMARK 465 LYS A 477 REMARK 465 GLN A 478 REMARK 465 ILE A 479 REMARK 465 SER A 480 REMARK 465 SER A 481 REMARK 465 HIS A 482 REMARK 465 LEU A 483 REMARK 465 GLU A 484 REMARK 465 HIS A 485 REMARK 465 HIS A 486 REMARK 465 HIS A 487 REMARK 465 HIS A 488 REMARK 465 HIS A 489 REMARK 465 HIS A 490 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 LYS A 16 CG CD CE NZ REMARK 470 ARG A 49 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 63 CG CD CE NZ REMARK 470 GLU A 118 CG CD OE1 OE2 REMARK 470 LYS A 121 CD CE NZ REMARK 470 GLU A 222 CG CD OE1 OE2 REMARK 470 LYS A 304 CE NZ REMARK 470 GLU A 310 CG CD OE1 OE2 REMARK 470 LYS A 320 CG CD CE NZ REMARK 470 LEU A 339 CG CD1 CD2 REMARK 470 LYS A 411 CG CD CE NZ REMARK 470 LYS A 423 CG CD CE NZ REMARK 470 ARG A 430 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 440 CG CD CE NZ 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 CE2 TYR A 257 OE2 GLU A 437 1.62 REMARK 500 OE2 GLU A 216 NH2 ARG A 419 1.81 REMARK 500 CB LYS A 440 O HOH A 807 2.11 REMARK 500 O LYS A 440 CG ARG A 444 2.14 REMARK 500 CE MET A 472 O HOH A 747 2.18 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 CD1 ILE A 424 CD1 ILE A 424 8664 2.08 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 TYR A 25 55.32 -142.79 REMARK 500 SER A 182 -158.54 -145.53 REMARK 500 ILE A 198 -52.03 -135.63 REMARK 500 ARG A 474 106.98 -49.54 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 ILE A 429 -10.44 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 A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 191 OD2 REMARK 620 2 GLU A 195 OE1 87.4 REMARK 620 3 40E A 504 O2 91.9 90.6 REMARK 620 4 40E A 504 O11 175.4 92.2 83.5 REMARK 620 5 HOH A 683 O 94.4 88.9 173.7 90.2 REMARK 620 6 HOH A 775 O 89.8 176.0 92.4 90.8 88.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 503 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 191 OD1 REMARK 620 2 40E A 504 O2 90.7 REMARK 620 3 HOH A 601 O 162.3 93.6 REMARK 620 4 HOH A 627 O 93.2 167.5 86.2 REMARK 620 5 HOH A 638 O 83.2 85.4 114.2 83.3 REMARK 620 6 HOH A 675 O 82.2 98.5 80.2 93.7 164.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 40E A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 506 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE MOLECULE IS A CHIMERA COMPOSED OF ~1.5 COPIES OF THE I. REMARK 999 AGGREGANS KARI, SO THE 145 RESIDUES AT THE C-TERMINAL ARE ALSO FROM REMARK 999 THAT PROTEIN (AND MATCH THE 145 RESIDUES BEFORE THEM). DBREF 5E4R A 1 335 UNP E0SRA9 E0SRA9_IGNAA 1 335 DBREF 5E4R A 336 482 UNP E0SRA9 E0SRA9_IGNAA 336 482 SEQADV 5E4R LEU A 483 UNP E0SRA9 EXPRESSION TAG SEQADV 5E4R GLU A 484 UNP E0SRA9 EXPRESSION TAG SEQADV 5E4R HIS A 485 UNP E0SRA9 EXPRESSION TAG SEQADV 5E4R HIS A 486 UNP E0SRA9 EXPRESSION TAG SEQADV 5E4R HIS A 487 UNP E0SRA9 EXPRESSION TAG SEQADV 5E4R HIS A 488 UNP E0SRA9 EXPRESSION TAG SEQADV 5E4R HIS A 489 UNP E0SRA9 EXPRESSION TAG SEQADV 5E4R HIS A 490 UNP E0SRA9 EXPRESSION TAG SEQRES 1 A 490 MET ALA LYS ILE TYR LYS ASP GLU ASP ILE SER LEU GLU SEQRES 2 A 490 PRO ILE LYS ASN LYS THR ILE ALA ILE LEU GLY TYR GLY SEQRES 3 A 490 SER GLN GLY ARG ALA TRP ALA LEU ASN LEU ARG ASP SER SEQRES 4 A 490 GLY LEU ASN VAL VAL VAL GLY LEU GLU ARG GLN GLY ASP SEQRES 5 A 490 SER TRP ARG ARG ALA ILE ASP ASP GLY PHE LYS PRO MET SEQRES 6 A 490 TYR THR LYS ASP ALA VAL ALA ILE ALA ASP ILE ILE VAL SEQRES 7 A 490 PHE LEU VAL PRO ASP MET VAL GLN LYS SER LEU TRP LEU SEQRES 8 A 490 ASN SER VAL LYS ASP PHE MET LYS LYS GLY ALA ASP LEU SEQRES 9 A 490 VAL PHE ALA HIS GLY PHE ASN ILE HIS PHE LYS ILE ILE SEQRES 10 A 490 GLU PRO PRO LYS ASP SER ASP VAL TYR MET ILE ALA PRO SEQRES 11 A 490 LYS SER PRO GLY PRO ILE VAL ARG ARG SER TYR GLU MET SEQRES 12 A 490 GLY GLY GLY VAL PRO ALA LEU VAL ALA VAL TYR GLN ASN SEQRES 13 A 490 VAL SER GLY GLU ALA LEU GLN LYS ALA LEU ALA ILE ALA SEQRES 14 A 490 LYS GLY ILE GLY CYS ALA ARG ALA GLY VAL ILE GLU SER SEQRES 15 A 490 THR PHE LYS GLU GLU THR GLU THR ASP LEU PHE GLY GLU SEQRES 16 A 490 GLN VAL ILE LEU VAL GLY GLY ILE MET GLU LEU ILE LYS SEQRES 17 A 490 ALA SER PHE GLU THR LEU VAL GLU GLU GLY TYR GLN PRO SEQRES 18 A 490 GLU VAL ALA TYR PHE GLU THR VAL ASN GLU LEU LYS LEU SEQRES 19 A 490 ILE VAL ASP LEU ILE TYR GLU LYS GLY LEU THR GLY MET SEQRES 20 A 490 LEU ARG ALA VAL SER ASP THR ALA LYS TYR GLY GLY ILE SEQRES 21 A 490 THR VAL GLY LYS PHE ILE ILE ASP LYS SER VAL ARG ASP SEQRES 22 A 490 LYS MET LYS ILE VAL LEU GLU ARG ILE ARG SER GLY GLU SEQRES 23 A 490 PHE ALA ARG GLU TRP ILE LYS GLU TYR GLU ARG GLY MET SEQRES 24 A 490 PRO THR VAL PHE LYS GLU LEU SER GLU LEU GLU GLY SER SEQRES 25 A 490 THR ILE GLU THR VAL GLY ARG LYS LEU ARG GLU MET MET SEQRES 26 A 490 PHE ARG GLY MET LYS GLN ILE SER SER HIS GLU THR ASP SEQRES 27 A 490 LEU PHE GLY GLU GLN VAL ILE LEU VAL GLY GLY ILE MET SEQRES 28 A 490 GLU LEU ILE LYS ALA SER PHE GLU THR LEU VAL GLU GLU SEQRES 29 A 490 GLY TYR GLN PRO GLU VAL ALA TYR PHE GLU THR VAL ASN SEQRES 30 A 490 GLU LEU LYS LEU ILE VAL ASP LEU ILE TYR GLU LYS GLY SEQRES 31 A 490 LEU THR GLY MET LEU ARG ALA VAL SER ASP THR ALA LYS SEQRES 32 A 490 TYR GLY GLY ILE THR VAL GLY LYS PHE ILE ILE ASP LYS SEQRES 33 A 490 SER VAL ARG ASP LYS MET LYS ILE VAL LEU GLU ARG ILE SEQRES 34 A 490 ARG SER GLY GLU PHE ALA ARG GLU TRP ILE LYS GLU TYR SEQRES 35 A 490 GLU ARG GLY MET PRO THR VAL PHE LYS GLU LEU SER GLU SEQRES 36 A 490 LEU GLU GLY SER THR ILE GLU THR VAL GLY ARG LYS LEU SEQRES 37 A 490 ARG GLU MET MET PHE ARG GLY MET LYS GLN ILE SER SER SEQRES 38 A 490 HIS LEU GLU HIS HIS HIS HIS HIS HIS HET NAP A 501 48 HET MG A 502 1 HET MG A 503 1 HET 40E A 504 9 HET EDO A 505 4 HET GOL A 506 6 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM MG MAGNESIUM ION HETNAM 40E OXO(PROPAN-2-YLAMINO)ACETIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NAP C21 H28 N7 O17 P3 FORMUL 3 MG 2(MG 2+) FORMUL 5 40E C5 H9 N O3 FORMUL 6 EDO C2 H6 O2 FORMUL 7 GOL C3 H8 O3 FORMUL 8 HOH *237(H2 O) HELIX 1 AA1 LYS A 6 ILE A 10 5 5 HELIX 2 AA2 LEU A 12 LYS A 16 5 5 HELIX 3 AA3 GLY A 26 SER A 39 1 14 HELIX 4 AA4 GLY A 51 ASP A 60 1 10 HELIX 5 AA5 THR A 67 ALA A 74 1 8 HELIX 6 AA6 PRO A 82 MET A 84 5 3 HELIX 7 AA7 VAL A 85 VAL A 94 1 10 HELIX 8 AA8 GLY A 109 PHE A 114 1 6 HELIX 9 AA9 PRO A 133 MET A 143 1 11 HELIX 10 AB1 GLU A 160 ILE A 172 1 13 HELIX 11 AB2 GLY A 173 ALA A 177 5 5 HELIX 12 AB3 THR A 183 ILE A 198 1 16 HELIX 13 AB4 VAL A 200 GLU A 217 1 18 HELIX 14 AB5 GLN A 220 ALA A 250 1 31 HELIX 15 AB6 SER A 252 ILE A 267 1 16 HELIX 16 AB7 ASP A 268 SER A 284 1 17 HELIX 17 AB8 GLY A 285 ARG A 297 1 13 HELIX 18 AB9 MET A 299 SER A 312 1 14 HELIX 19 AC1 SER A 312 ARG A 327 1 16 HELIX 20 AC2 PHE A 340 GLY A 365 1 26 HELIX 21 AC3 GLN A 367 VAL A 376 1 10 HELIX 22 AC4 VAL A 376 VAL A 398 1 23 HELIX 23 AC5 SER A 399 ILE A 414 1 16 HELIX 24 AC6 ASP A 415 SER A 431 1 17 HELIX 25 AC7 GLY A 432 ARG A 444 1 13 HELIX 26 AC8 MET A 446 GLY A 458 1 13 HELIX 27 AC9 SER A 459 ARG A 474 1 16 SHEET 1 AA1 9 ILE A 4 TYR A 5 0 SHEET 2 AA1 9 VAL A 179 GLU A 181 -1 O VAL A 179 N TYR A 5 SHEET 3 AA1 9 ALA A 149 GLN A 155 1 N VAL A 151 O ILE A 180 SHEET 4 AA1 9 VAL A 125 PRO A 130 -1 N ALA A 129 O LEU A 150 SHEET 5 AA1 9 ASP A 103 PHE A 106 1 N PHE A 106 O ILE A 128 SHEET 6 AA1 9 ILE A 76 PHE A 79 1 N PHE A 79 O VAL A 105 SHEET 7 AA1 9 THR A 19 LEU A 23 1 N ALA A 21 O ILE A 76 SHEET 8 AA1 9 ASN A 42 LEU A 47 1 O ASN A 42 N ILE A 20 SHEET 9 AA1 9 MET A 65 TYR A 66 1 O MET A 65 N VAL A 45 LINK OD2 ASP A 191 MG MG A 502 1555 1555 2.06 LINK OD1 ASP A 191 MG MG A 503 1555 1555 2.00 LINK OE1 GLU A 195 MG MG A 502 1555 1555 2.10 LINK MG MG A 502 O2 40E A 504 1555 1555 2.06 LINK MG MG A 502 O11 40E A 504 1555 1555 2.04 LINK MG MG A 502 O HOH A 683 1555 1555 2.05 LINK MG MG A 502 O HOH A 775 1555 1555 2.15 LINK MG MG A 503 O2 40E A 504 1555 1555 1.99 LINK MG MG A 503 O HOH A 601 1555 1555 2.25 LINK MG MG A 503 O HOH A 627 1555 1555 2.01 LINK MG MG A 503 O HOH A 638 1555 1555 2.29 LINK MG MG A 503 O HOH A 675 1555 1555 2.05 SITE 1 AC1 35 GLY A 24 TYR A 25 GLY A 26 SER A 27 SITE 2 AC1 35 GLN A 28 LEU A 47 SER A 53 LEU A 80 SITE 3 AC1 35 VAL A 81 PRO A 82 ASP A 83 VAL A 85 SITE 4 AC1 35 GLN A 86 ALA A 107 HIS A 108 SER A 132 SITE 5 AC1 35 PRO A 133 GLY A 134 ALA A 397 VAL A 398 SITE 6 AC1 35 SER A 399 40E A 504 EDO A 505 HOH A 613 SITE 7 AC1 35 HOH A 641 HOH A 670 HOH A 672 HOH A 686 SITE 8 AC1 35 HOH A 704 HOH A 709 HOH A 712 HOH A 728 SITE 9 AC1 35 HOH A 751 HOH A 775 HOH A 802 SITE 1 AC2 6 ASP A 191 GLU A 195 MG A 503 40E A 504 SITE 2 AC2 6 HOH A 683 HOH A 775 SITE 1 AC3 7 ASP A 191 MG A 502 40E A 504 HOH A 601 SITE 2 AC3 7 HOH A 627 HOH A 638 HOH A 675 SITE 1 AC4 15 PRO A 133 ASP A 191 GLU A 195 GLU A 378 SITE 2 AC4 15 VAL A 398 SER A 399 ALA A 402 NAP A 501 SITE 3 AC4 15 MG A 502 MG A 503 HOH A 601 HOH A 638 SITE 4 AC4 15 HOH A 675 HOH A 683 HOH A 775 SITE 1 AC5 9 LEU A 23 GLY A 46 LEU A 47 GLU A 48 SITE 2 AC5 9 THR A 67 VAL A 81 LEU A 89 NAP A 501 SITE 3 AC5 9 HOH A 728 SITE 1 AC6 5 ASP A 7 LEU A 12 LYS A 170 ARG A 176 SITE 2 AC6 5 HOH A 676 CRYST1 103.882 103.882 142.074 90.00 90.00 90.00 P 43 2 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 0.009626 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009626 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007039 0.00000