HEADER HYDROLASE 09-MAR-17 5NE5 TITLE CRYSTAL STRUCTURE OF FAMILY 47 ALPHA-1,2-MANNOSIDASE FROM CAULOBACTER TITLE 2 K31 STRAIN IN COMPLEX WITH KIFUNENSINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: MANNOSYL-OLIGOSACCHARIDE 1,2-ALPHA-MANNOSIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.113; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAULOBACTER SP.; SOURCE 3 ORGANISM_TAXID: 366602; SOURCE 4 STRAIN: K31; SOURCE 5 GENE: CAUL_4035; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS MANNOSIDASE GLYCOSIDASE HYDROLYSIS INHIBITOR, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.MALES,G.J.DAVIES REVDAT 5 08-MAY-24 5NE5 1 LINK REVDAT 4 30-AUG-17 5NE5 1 REMARK REVDAT 3 16-AUG-17 5NE5 1 JRNL REVDAT 2 24-MAY-17 5NE5 1 JRNL REVDAT 1 29-MAR-17 5NE5 0 JRNL AUTH A.MALES,L.RAICH,S.J.WILLIAMS,C.ROVIRA,G.J.DAVIES JRNL TITL CONFORMATIONAL ANALYSIS OF THE MANNOSIDASE INHIBITOR JRNL TITL 2 KIFUNENSINE: A QUANTUM MECHANICAL AND STRUCTURAL APPROACH. JRNL REF CHEMBIOCHEM V. 18 1496 2017 JRNL REFN ESSN 1439-7633 JRNL PMID 28493500 JRNL DOI 10.1002/CBIC.201700166 REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 183575 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) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.152 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 9277 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) : 1.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 12941 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE SET COUNT : 708 REMARK 3 BIN FREE R VALUE : 0.2470 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3427 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 418 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 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): 0.025 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.025 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.979 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3779 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3432 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5184 ; 1.872 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7957 ; 3.671 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 497 ; 6.275 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 189 ;33.574 ;23.016 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 616 ;12.023 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;18.668 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 551 ; 0.119 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4318 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 876 ; 0.020 ; 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): 1795 ; 1.166 ; 0.928 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1794 ; 1.134 ; 0.926 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2259 ; 1.631 ; 1.401 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5NE5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1200003934. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9282 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 183579 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 36.230 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.88000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PH 6.5, 0.2 M AMMONIUM REMARK 280 ACETATE, 22% (W/V) POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 72.46150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 41.83567 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 16.86433 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 72.46150 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 41.83567 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 16.86433 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 72.46150 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 41.83567 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 16.86433 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 83.67133 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 33.72867 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 83.67133 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 33.72867 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 83.67133 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 33.72867 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL 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 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 24 REMARK 465 ALA A 25 REMARK 465 SER A 26 REMARK 465 GLU A 27 REMARK 465 THR A 28 REMARK 465 THR A 29 REMARK 465 VAL A 462 REMARK 465 LEU A 463 REMARK 465 GLU A 464 REMARK 465 HIS A 465 REMARK 465 HIS A 466 REMARK 465 HIS A 467 REMARK 465 HIS A 468 REMARK 465 HIS A 469 REMARK 465 HIS A 470 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 222 CG CD CE NZ REMARK 470 ARG A 357 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 461 CG CD CE NZ 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 GLN A 326 CD GLN A 326 OE1 0.141 REMARK 500 ARG A 460 CZ ARG A 460 NH1 0.091 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 ASP A 276 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 LEU A 310 CB - CG - CD1 ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG A 384 NE - CZ - NH2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 398 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 460 NE - CZ - NH2 ANGL. DEV. = -7.7 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 ALA A 55 26.61 -140.71 REMARK 500 ASP A 178 90.09 68.18 REMARK 500 THR A 181 -161.20 -109.18 REMARK 500 ASP A 245 -95.48 -123.87 REMARK 500 TYR A 247 -2.35 74.37 REMARK 500 ALA A 248 -28.74 -148.53 REMARK 500 ASP A 249 -70.40 -26.72 REMARK 500 ASP A 417 -155.82 -86.93 REMARK 500 GLU A 427 -86.47 -94.92 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 NA A 505 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 84 O REMARK 620 2 ASP A 87 OD1 99.7 REMARK 620 3 SER A 426 OG 87.7 99.0 REMARK 620 4 ASN A 454 OD1 161.3 98.8 91.7 REMARK 620 5 HOH A 758 O 94.0 81.1 178.2 86.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 503 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 253 OE2 REMARK 620 2 GLU A 253 OE2 30.3 REMARK 620 3 HOH A 602 O 125.4 95.4 REMARK 620 4 HOH A 611 O 65.5 93.3 161.9 REMARK 620 5 HOH A 626 O 91.7 94.4 86.7 108.5 REMARK 620 6 HOH A 698 O 109.1 100.6 76.4 86.4 158.3 REMARK 620 7 HOH A 761 O 147.8 175.1 85.7 87.1 80.9 84.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 502 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 451 O REMARK 620 2 THR A 451 OG1 73.3 REMARK 620 3 KIF A 501 O3 72.2 122.7 REMARK 620 4 KIF A 501 O2 94.4 74.1 64.6 REMARK 620 5 HOH A 618 O 140.7 68.2 137.2 82.8 REMARK 620 6 HOH A 627 O 86.0 145.7 73.7 135.8 122.7 REMARK 620 7 HOH A 667 O 148.9 135.0 79.4 84.7 70.2 73.7 REMARK 620 8 HOH A 734 O 85.8 77.1 142.1 149.8 78.3 74.4 110.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue KIF A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BTB A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 505 DBREF 5NE5 A 27 462 UNP B0SWV2 B0SWV2_CAUSK 27 462 SEQADV 5NE5 MET A 24 UNP B0SWV2 INITIATING METHIONINE SEQADV 5NE5 ALA A 25 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 SER A 26 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 LEU A 463 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 GLU A 464 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 HIS A 465 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 HIS A 466 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 HIS A 467 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 HIS A 468 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 HIS A 469 UNP B0SWV2 EXPRESSION TAG SEQADV 5NE5 HIS A 470 UNP B0SWV2 EXPRESSION TAG SEQRES 1 A 447 MET ALA SER GLU THR THR PRO GLU ASP TRP LYS ALA LEU SEQRES 2 A 447 ALA ALA ASP VAL ARG SER GLU PHE GLN TRP ALA TRP GLN SEQRES 3 A 447 GLY TYR VAL ALA LYS ALA TRP GLY LYS ASP GLU ILE ASN SEQRES 4 A 447 PRO VAL SER GLY THR SER ARG SER PHE PHE ILE GLU GLY SEQRES 5 A 447 HIS ASP LEU GLY LEU SER LEU VAL GLU ALA LEU ASP THR SEQRES 6 A 447 LEU TRP ILE MET GLY LEU ASP ALA GLU PHE GLN ALA GLY SEQRES 7 A 447 VAL ASP TRP VAL LYS ALA ASN LEU SER PHE ASP VAL ASP SEQRES 8 A 447 GLY ASN ALA GLN VAL PHE GLU THR ASN ILE ARG LEU VAL SEQRES 9 A 447 GLY GLY LEU LEU SER ALA HIS LEU ALA SER GLY ASP PRO SEQRES 10 A 447 VAL LEU LEU ALA LYS ALA ARG ASP LEU ALA ASP ARG LEU SEQRES 11 A 447 ALA LYS ALA PHE GLU ALA SER PRO HIS GLY LEU PRO TRP SEQRES 12 A 447 ARG TYR VAL ASN LEU ARG THR GLY ALA VAL SER ASP PRO SEQRES 13 A 447 GLU THR ASN LEU ALA GLU ILE GLY THR TYR LEU SER GLU SEQRES 14 A 447 PHE GLY VAL LEU SER GLN LEU THR GLY GLU ARG LYS TYR SEQRES 15 A 447 PHE ASP MET ALA LYS ARG ALA MET ARG HIS THR LEU ASP SEQRES 16 A 447 ARG ARG SER LYS ILE GLY LEU MET ALA ALA ASN ILE HIS SEQRES 17 A 447 ALA MET THR GLY ALA PHE THR SER ARG ASN ALA SER ILE SEQRES 18 A 447 ASP VAL TYR ALA ASP SER PHE TYR GLU TYR LEU TRP ASP SEQRES 19 A 447 ALA TRP ALA LEU PHE GLY ASP GLU ASP CYS LYS ARG TRP SEQRES 20 A 447 ALA VAL GLU CYS VAL ASP ALA GLN LEU ALA HIS GLN ALA SEQRES 21 A 447 LYS ARG TYR ASP GLY ARG LEU TRP PHE PRO MET VAL ASP SEQRES 22 A 447 PHE GLU THR GLY ALA VAL THR GLY THR ALA GLN SER GLU SEQRES 23 A 447 LEU ALA ALA TYR TYR ALA GLY LEU LEU GLY GLN VAL GLY SEQRES 24 A 447 ARG LYS ALA GLN GLY ASP ASP TYR LEU ALA SER PHE THR SEQRES 25 A 447 TYR LEU GLN ALA THR PHE GLY VAL ILE PRO GLU SER ILE SEQRES 26 A 447 ASP VAL THR THR GLY GLN PRO ARG ARG LYS HIS THR GLY SEQRES 27 A 447 LEU ARG PRO GLU TYR PRO ASP ALA CYS LEU ASN LEU TRP SEQRES 28 A 447 LEU ILE ASP ARG ASP PRO ARG TYR ARG ARG LEU ALA ALA SEQRES 29 A 447 ILE HIS TYR ARG GLU MET LYS ALA THR SER ARG ALA ALA SEQRES 30 A 447 PHE GLY TYR THR ALA LEU LYS ASP ILE THR THR ARG PRO SEQRES 31 A 447 MET THR GLN ASP ASP ASN CYS PRO GLY TYR TRP TRP SER SEQRES 32 A 447 GLU GLN MET LYS TYR TYR TYR LEU LEU PHE SER ASP THR SEQRES 33 A 447 PRO ARG ILE ASP TYR GLY GLN LEU GLN LEU SER THR GLU SEQRES 34 A 447 ALA ASN VAL LEU ARG GLY PHE ARG LYS VAL LEU GLU HIS SEQRES 35 A 447 HIS HIS HIS HIS HIS HET KIF A 501 16 HET CA A 502 1 HET CA A 503 1 HET BTB A 504 14 HET NA A 505 1 HETNAM KIF KIFUNENSINE HETNAM CA CALCIUM ION HETNAM BTB 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL- HETNAM 2 BTB PROPANE-1,3-DIOL HETNAM NA SODIUM ION HETSYN BTB BIS-TRIS BUFFER FORMUL 2 KIF C8 H12 N2 O6 FORMUL 3 CA 2(CA 2+) FORMUL 5 BTB C8 H19 N O5 FORMUL 6 NA NA 1+ FORMUL 7 HOH *418(H2 O) HELIX 1 AA1 ASP A 32 ALA A 55 1 24 HELIX 2 AA2 GLY A 79 MET A 92 1 14 HELIX 3 AA3 LEU A 94 LEU A 109 1 16 HELIX 4 AA4 VAL A 119 GLY A 138 1 20 HELIX 5 AA5 ASP A 139 ALA A 159 1 21 HELIX 6 AA6 LEU A 183 GLY A 187 1 5 HELIX 7 AA7 TYR A 189 GLY A 201 1 13 HELIX 8 AA8 ARG A 203 ASP A 218 1 16 HELIX 9 AA9 ALA A 248 GLY A 263 1 16 HELIX 10 AB1 ASP A 264 GLN A 282 1 19 HELIX 11 AB2 ALA A 312 VAL A 321 1 10 HELIX 12 AB3 ARG A 323 GLY A 342 1 20 HELIX 13 AB4 PRO A 364 ARG A 378 1 15 HELIX 14 AB5 ASP A 379 SER A 397 1 19 HELIX 15 AB6 PRO A 421 GLU A 427 1 7 HELIX 16 AB7 GLU A 427 ASP A 438 1 12 SHEET 1 AA1 2 GLU A 60 ASN A 62 0 SHEET 2 AA1 2 THR A 67 ARG A 69 -1 O THR A 67 N ASN A 62 SHEET 1 AA2 3 ASN A 116 GLN A 118 0 SHEET 2 AA2 3 TYR A 168 ASN A 170 -1 O VAL A 169 N ALA A 117 SHEET 3 AA2 3 VAL A 176 SER A 177 -1 O SER A 177 N TYR A 168 SHEET 1 AA3 2 GLU A 180 ASN A 182 0 SHEET 2 AA3 2 ASN A 229 HIS A 231 -1 O ILE A 230 N THR A 181 SHEET 1 AA4 2 ASN A 241 ALA A 242 0 SHEET 2 AA4 2 VAL A 295 ASP A 296 -1 O VAL A 295 N ALA A 242 SHEET 1 AA5 2 LYS A 284 TYR A 286 0 SHEET 2 AA5 2 ARG A 289 TRP A 291 -1 O TRP A 291 N LYS A 284 SHEET 1 AA6 2 ALA A 306 SER A 308 0 SHEET 2 AA6 2 SER A 347 ASP A 349 -1 O ILE A 348 N GLN A 307 SHEET 1 AA7 2 ARG A 398 ALA A 399 0 SHEET 2 AA7 2 GLY A 402 TYR A 403 -1 O GLY A 402 N ALA A 399 SHEET 1 AA8 2 LEU A 406 ASP A 408 0 SHEET 2 AA8 2 THR A 415 GLN A 416 -1 O THR A 415 N LYS A 407 SHEET 1 AA9 2 GLN A 448 LEU A 449 0 SHEET 2 AA9 2 VAL A 455 ARG A 457 -1 O LEU A 456 N GLN A 448 LINK O GLU A 84 NA NA A 505 1555 1555 2.53 LINK OD1 ASP A 87 NA NA A 505 1555 1555 2.52 LINK OE2AGLU A 253 CA CA A 503 1555 1555 2.49 LINK OE2BGLU A 253 CA CA A 503 1555 1555 2.36 LINK OG SER A 426 NA NA A 505 1555 1555 2.72 LINK O THR A 451 CA CA A 502 1555 1555 2.48 LINK OG1 THR A 451 CA CA A 502 1555 1555 2.52 LINK OD1 ASN A 454 NA NA A 505 1555 1555 2.53 LINK O3 KIF A 501 CA CA A 502 1555 1555 2.52 LINK O2 KIF A 501 CA CA A 502 1555 1555 2.49 LINK CA CA A 502 O HOH A 618 1555 1555 2.58 LINK CA CA A 502 O HOH A 627 1555 1555 2.48 LINK CA CA A 502 O HOH A 667 1555 1555 2.37 LINK CA CA A 502 O HOH A 734 1555 1555 2.44 LINK CA CA A 503 O HOH A 602 1555 1555 2.43 LINK CA CA A 503 O HOH A 611 1555 1555 2.25 LINK CA CA A 503 O HOH A 626 1555 1555 2.37 LINK CA CA A 503 O HOH A 698 1555 1555 2.42 LINK CA CA A 503 O HOH A 761 1555 1555 2.32 LINK NA NA A 505 O HOH A 758 1555 1555 2.67 CISPEP 1 ARG A 412 PRO A 413 0 -3.03 SITE 1 AC1 17 ASP A 249 LEU A 310 ARG A 363 PRO A 364 SITE 2 AC1 17 GLU A 365 TYR A 423 GLU A 427 THR A 451 SITE 3 AC1 17 GLU A 452 CA A 502 BTB A 504 HOH A 604 SITE 4 AC1 17 HOH A 606 HOH A 627 HOH A 644 HOH A 782 SITE 5 AC1 17 HOH A 857 SITE 1 AC2 6 THR A 451 KIF A 501 HOH A 618 HOH A 627 SITE 2 AC2 6 HOH A 667 HOH A 734 SITE 1 AC3 7 GLU A 253 TYR A 313 HOH A 602 HOH A 611 SITE 2 AC3 7 HOH A 626 HOH A 698 HOH A 761 SITE 1 AC4 8 GLN A 118 GLU A 121 GLU A 185 TYR A 247 SITE 2 AC4 8 KIF A 501 HOH A 604 HOH A 606 HOH A 782 SITE 1 AC5 5 GLU A 84 ASP A 87 SER A 426 ASN A 454 SITE 2 AC5 5 HOH A 758 CRYST1 144.923 144.923 50.593 90.00 90.00 120.00 H 3 9 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 0.006900 0.003984 0.000000 0.00000 SCALE2 0.000000 0.007968 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019765 0.00000