HEADER HYDROLASE 14-FEB-15 4Y7D TITLE ALPHA/BETA HYDROLASE FOLD PROTEIN FROM NAKAMURELLA MULTIPARTITA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA/BETA HYDROLASE FOLD PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NAKAMURELLA MULTIPARTITA (STRAIN ATCC 700099 / SOURCE 3 DSM 44233 / JCM 9543 / Y-104); SOURCE 4 ORGANISM_TAXID: 479431; SOURCE 5 STRAIN: ATCC 700099 / DSM 44233 / JCM 9543 / Y-104; SOURCE 6 GENE: NAMU_0557; 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: PMCSG73 KEYWDS ALPHA/BETA HYDROLASE, STRUCTURAL GENOMICS, APC103603, MIDWEST CENTER KEYWDS 2 FOR STRUCTURAL GENOMICS, PSI-BIOLOGY, MCSG, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.E.CUFF,J.OSIPIUK,J.HOLOWICKI,M.ENDRES,A.JOACHIMIAK,MIDWEST CENTER AUTHOR 2 FOR STRUCTURAL GENOMICS (MCSG) REVDAT 3 25-DEC-19 4Y7D 1 REMARK REVDAT 2 27-SEP-17 4Y7D 1 SOURCE KEYWDS REMARK REVDAT 1 25-FEB-15 4Y7D 0 JRNL AUTH M.E.CUFF,J.OSIPIUK,J.HOLOWICKI,M.ENDRES,A.JOACHIMIAK JRNL TITL ALPHA/BETA HYDROLASE FOLD PROTEIN FROM NAKAMURELLA JRNL TITL 2 MULTIPARTITA. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.68 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 1.68 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 69609 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) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3581 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) : 1.68 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4787 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.26 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE SET COUNT : 249 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4267 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 724 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.69000 REMARK 3 B22 (A**2) : 2.99000 REMARK 3 B33 (A**2) : -1.30000 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): 0.086 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.088 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.068 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.154 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.967 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4643 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4442 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6358 ; 1.619 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10227 ; 0.844 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 644 ; 5.574 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 216 ;33.267 ;22.407 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 694 ;13.978 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 51 ;16.105 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 705 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5459 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1102 ; 0.001 ; 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): 2382 ; 1.063 ; 1.421 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2381 ; 1.055 ; 1.420 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2993 ; 1.653 ; 2.127 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 : 2 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 11 A 502 REMARK 3 ORIGIN FOR THE GROUP (A): 25.8905 31.8112 69.2672 REMARK 3 T TENSOR REMARK 3 T11: 0.0956 T22: 0.0420 REMARK 3 T33: 0.0594 T12: -0.0135 REMARK 3 T13: 0.0130 T23: -0.0199 REMARK 3 L TENSOR REMARK 3 L11: 1.2377 L22: 0.5916 REMARK 3 L33: 1.2884 L12: -0.0897 REMARK 3 L13: -0.2929 L23: -0.1902 REMARK 3 S TENSOR REMARK 3 S11: 0.0644 S12: -0.1171 S13: 0.0238 REMARK 3 S21: 0.0042 S22: -0.0489 S23: -0.1202 REMARK 3 S31: -0.0832 S32: 0.0657 S33: -0.0155 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 11 B 502 REMARK 3 ORIGIN FOR THE GROUP (A): 34.1380 21.2859 27.2678 REMARK 3 T TENSOR REMARK 3 T11: 0.0913 T22: 0.0165 REMARK 3 T33: 0.0377 T12: 0.0052 REMARK 3 T13: 0.0009 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 0.9646 L22: 1.3393 REMARK 3 L33: 1.4337 L12: -0.0633 REMARK 3 L13: 0.3799 L23: -0.8440 REMARK 3 S TENSOR REMARK 3 S11: -0.0011 S12: 0.1185 S13: 0.0131 REMARK 3 S21: -0.0546 S22: -0.0003 S23: -0.0422 REMARK 3 S31: 0.0410 S32: 0.0555 S33: 0.0014 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 4Y7D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000206991. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73782 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.680 REMARK 200 RESOLUTION RANGE LOW (A) : 36.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.68 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.63600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PORPANE -NAOH BUFFER, REMARK 280 1.2 M DL-MALIC ACID, PH 7.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 33.70200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.26800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.69700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.26800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.70200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.69700 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 101.10600 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 75.39400 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 63.26800 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 MSE A 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 SER A 4 REMARK 465 GLU A 5 REMARK 465 ALA A 6 REMARK 465 SER A 7 REMARK 465 ARG A 8 REMARK 465 ASP A 9 REMARK 465 GLU A 10 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 MSE B 1 REMARK 465 ALA B 2 REMARK 465 THR B 3 REMARK 465 SER B 4 REMARK 465 GLU B 5 REMARK 465 ALA B 6 REMARK 465 SER B 7 REMARK 465 ARG B 8 REMARK 465 ASP B 9 REMARK 465 GLU B 10 REMARK 465 GLY B 299 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 A 826 O HOH A 957 1.99 REMARK 500 NH1 ARG A 122 O HOH A 922 2.02 REMARK 500 OE2 GLU A 266 O HOH A 601 2.04 REMARK 500 O HOH B 648 O HOH B 680 2.07 REMARK 500 O HOH A 662 O HOH A 954 2.11 REMARK 500 O ARG B 226 O HOH B 601 2.14 REMARK 500 NE2 HIS B 182 O HOH B 602 2.14 REMARK 500 O HOH A 762 O HOH A 957 2.15 REMARK 500 O HOH B 709 O HOH B 885 2.15 REMARK 500 OD2 ASP B 195 O HOH B 603 2.15 REMARK 500 OD2 ASP B 80 O HOH B 604 2.16 REMARK 500 O HOH A 790 O HOH A 888 2.17 REMARK 500 O HOH B 832 O HOH B 961 2.17 REMARK 500 O HOH A 623 O HOH A 625 2.19 REMARK 500 O HOH A 792 O HOH A 911 2.19 REMARK 500 O HOH B 771 O HOH B 949 2.19 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 44 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP B 44 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG B 65 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 153 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ASP B 228 CB - CG - OD1 ANGL. DEV. = 6.3 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 PHE A 69 -122.30 45.81 REMARK 500 PHE A 69 -121.35 44.13 REMARK 500 SER A 104 -124.72 60.13 REMARK 500 ALA A 128 57.69 34.96 REMARK 500 ASP A 228 -72.01 -89.04 REMARK 500 PHE B 69 -122.92 50.88 REMARK 500 SER B 104 -126.21 63.07 REMARK 500 ALA B 128 58.60 37.67 REMARK 500 ASP B 228 -83.84 -86.07 REMARK 500 ASP B 228 -80.85 -88.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 942 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH B 825 DISTANCE = 6.80 ANGSTROMS REMARK 525 HOH B 935 DISTANCE = 5.89 ANGSTROMS 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 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 173 O REMARK 620 2 GLY A 176 O 83.6 REMARK 620 3 HOH A 798 O 83.5 71.5 REMARK 620 4 HOH A 909 O 175.6 100.8 97.1 REMARK 620 5 HOH A 847 O 86.8 170.3 108.1 88.9 REMARK 620 6 HOH A 910 O 86.1 93.7 162.8 94.2 85.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 173 O REMARK 620 2 GLY B 176 O 84.6 REMARK 620 3 HOH B 818 O 82.8 72.9 REMARK 620 4 HOH B 874 O 86.5 169.4 100.5 REMARK 620 5 HOH B 937 O 172.9 97.4 104.4 92.1 REMARK 620 6 HOH B 938 O 86.3 90.7 161.1 94.3 86.8 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 CL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MCSG-APC103603 RELATED DB: TARGETTRACK DBREF 4Y7D A 1 299 UNP C8X7A4 C8X7A4_NAKMY 1 299 DBREF 4Y7D B 1 299 UNP C8X7A4 C8X7A4_NAKMY 1 299 SEQADV 4Y7D SER A -2 UNP C8X7A4 EXPRESSION TAG SEQADV 4Y7D ASN A -1 UNP C8X7A4 EXPRESSION TAG SEQADV 4Y7D ALA A 0 UNP C8X7A4 EXPRESSION TAG SEQADV 4Y7D SER B -2 UNP C8X7A4 EXPRESSION TAG SEQADV 4Y7D ASN B -1 UNP C8X7A4 EXPRESSION TAG SEQADV 4Y7D ALA B 0 UNP C8X7A4 EXPRESSION TAG SEQRES 1 A 302 SER ASN ALA MSE ALA THR SER GLU ALA SER ARG ASP GLU SEQRES 2 A 302 SER VAL GLN THR VAL SER THR ALA ARG GLY GLU VAL ASP SEQRES 3 A 302 CYS VAL ILE VAL GLY ALA GLY PRO PRO VAL LEU VAL VAL SEQRES 4 A 302 HIS GLY SER PRO GLY GLY HIS ASP ALA GLY LEU ALA MSE SEQRES 5 A 302 ALA ARG PHE LEU VAL ALA GLU GLY LEU ARG ALA ILE VAL SEQRES 6 A 302 VAL ASP ARG PRO GLY TYR PHE GLY THR PRO LEU GLY SER SEQRES 7 A 302 GLY VAL THR PRO ASP GLU GLN ALA GLU LEU TYR ALA ALA SEQRES 8 A 302 LEU PHE ASP ALA LEU GLY LEU ALA ALA ALA GLY VAL LEU SEQRES 9 A 302 CYS TRP SER GLY GLY GLY PRO SER SER TYR ARG LEU ALA SEQRES 10 A 302 ALA ARG HIS PRO ASP ARG VAL ARG ALA LEU VAL SER VAL SEQRES 11 A 302 ALA ALA VAL SER HIS ARG TYR HIS PHE ASP GLY GLU LYS SEQRES 12 A 302 GLY ALA GLU LYS VAL LEU MSE GLY THR GLY LEU GLY ARG SEQRES 13 A 302 ARG MSE LEU GLN LEU MSE ALA ALA HIS THR PRO GLU LYS SEQRES 14 A 302 LEU VAL SER ALA THR ILE ALA ALA GLU GLY HIS LEU SER SEQRES 15 A 302 LYS GLU HIS VAL ALA GLU ARG VAL ALA GLN ILE MSE ALA SEQRES 16 A 302 ASP PRO ASP LYS GLU ARG PHE THR LEU GLU LEU ALA VAL SEQRES 17 A 302 SER ALA ASN HIS SER GLY PRO ARG LYS ALA GLY PHE ASP SEQRES 18 A 302 ASN ASP MSE ASP GLN PHE ALA ARG ILE ASP SER LEU GLU SEQRES 19 A 302 LEU ASP ARG ILE THR ALA PRO THR LEU VAL VAL SER GLY SEQRES 20 A 302 THR ALA ASP SER ASP VAL ASP PRO GLU PHE SER ARG PHE SEQRES 21 A 302 ALA ALA ALA GLN ILE ALA GLY SER GLU LEU VAL HIS LEU SEQRES 22 A 302 ASP ALA GLY THR HIS LEU ALA PHE TRP VAL HIS PRO ASP SEQRES 23 A 302 SER GLY PRO VAL ARG ARG ARG ALA ALA GLU LEU LEU ARG SEQRES 24 A 302 ALA GLY GLY SEQRES 1 B 302 SER ASN ALA MSE ALA THR SER GLU ALA SER ARG ASP GLU SEQRES 2 B 302 SER VAL GLN THR VAL SER THR ALA ARG GLY GLU VAL ASP SEQRES 3 B 302 CYS VAL ILE VAL GLY ALA GLY PRO PRO VAL LEU VAL VAL SEQRES 4 B 302 HIS GLY SER PRO GLY GLY HIS ASP ALA GLY LEU ALA MSE SEQRES 5 B 302 ALA ARG PHE LEU VAL ALA GLU GLY LEU ARG ALA ILE VAL SEQRES 6 B 302 VAL ASP ARG PRO GLY TYR PHE GLY THR PRO LEU GLY SER SEQRES 7 B 302 GLY VAL THR PRO ASP GLU GLN ALA GLU LEU TYR ALA ALA SEQRES 8 B 302 LEU PHE ASP ALA LEU GLY LEU ALA ALA ALA GLY VAL LEU SEQRES 9 B 302 CYS TRP SER GLY GLY GLY PRO SER SER TYR ARG LEU ALA SEQRES 10 B 302 ALA ARG HIS PRO ASP ARG VAL ARG ALA LEU VAL SER VAL SEQRES 11 B 302 ALA ALA VAL SER HIS ARG TYR HIS PHE ASP GLY GLU LYS SEQRES 12 B 302 GLY ALA GLU LYS VAL LEU MSE GLY THR GLY LEU GLY ARG SEQRES 13 B 302 ARG MSE LEU GLN LEU MSE ALA ALA HIS THR PRO GLU LYS SEQRES 14 B 302 LEU VAL SER ALA THR ILE ALA ALA GLU GLY HIS LEU SER SEQRES 15 B 302 LYS GLU HIS VAL ALA GLU ARG VAL ALA GLN ILE MSE ALA SEQRES 16 B 302 ASP PRO ASP LYS GLU ARG PHE THR LEU GLU LEU ALA VAL SEQRES 17 B 302 SER ALA ASN HIS SER GLY PRO ARG LYS ALA GLY PHE ASP SEQRES 18 B 302 ASN ASP MSE ASP GLN PHE ALA ARG ILE ASP SER LEU GLU SEQRES 19 B 302 LEU ASP ARG ILE THR ALA PRO THR LEU VAL VAL SER GLY SEQRES 20 B 302 THR ALA ASP SER ASP VAL ASP PRO GLU PHE SER ARG PHE SEQRES 21 B 302 ALA ALA ALA GLN ILE ALA GLY SER GLU LEU VAL HIS LEU SEQRES 22 B 302 ASP ALA GLY THR HIS LEU ALA PHE TRP VAL HIS PRO ASP SEQRES 23 B 302 SER GLY PRO VAL ARG ARG ARG ALA ALA GLU LEU LEU ARG SEQRES 24 B 302 ALA GLY GLY MODRES 4Y7D MSE A 49 MET MODIFIED RESIDUE MODRES 4Y7D MSE A 147 MET MODIFIED RESIDUE MODRES 4Y7D MSE A 155 MET MODIFIED RESIDUE MODRES 4Y7D MSE A 159 MET MODIFIED RESIDUE MODRES 4Y7D MSE A 191 MET MODIFIED RESIDUE MODRES 4Y7D MSE A 221 MET MODIFIED RESIDUE MODRES 4Y7D MSE B 49 MET MODIFIED RESIDUE MODRES 4Y7D MSE B 147 MET MODIFIED RESIDUE MODRES 4Y7D MSE B 155 MET MODIFIED RESIDUE MODRES 4Y7D MSE B 159 MET MODIFIED RESIDUE MODRES 4Y7D MSE B 191 MET MODIFIED RESIDUE MODRES 4Y7D MSE B 221 MET MODIFIED RESIDUE HET MSE A 49 8 HET MSE A 147 8 HET MSE A 155 8 HET MSE A 159 8 HET MSE A 191 8 HET MSE A 221 8 HET MSE B 49 8 HET MSE B 147 8 HET MSE B 155 8 HET MSE B 159 8 HET MSE B 191 8 HET MSE B 221 13 HET CL A 501 1 HET NA A 502 1 HET CL B 501 1 HET NA B 502 1 HETNAM MSE SELENOMETHIONINE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 3 CL 2(CL 1-) FORMUL 4 NA 2(NA 1+) FORMUL 7 HOH *724(H2 O) HELIX 1 AA1 GLY A 42 GLU A 56 1 15 HELIX 2 AA2 PRO A 72 GLY A 76 5 5 HELIX 3 AA3 THR A 78 LEU A 93 1 16 HELIX 4 AA4 GLY A 106 HIS A 117 1 12 HELIX 5 AA5 LYS A 140 THR A 149 1 10 HELIX 6 AA6 THR A 149 THR A 163 1 15 HELIX 7 AA7 THR A 163 GLU A 175 1 13 HELIX 8 AA8 SER A 179 ALA A 192 1 14 HELIX 9 AA9 ASP A 193 ALA A 207 1 15 HELIX 10 AB1 SER A 210 PRO A 212 5 3 HELIX 11 AB2 ARG A 213 ALA A 225 1 13 HELIX 12 AB3 GLU A 231 ILE A 235 5 5 HELIX 13 AB4 ASP A 251 ILE A 262 1 12 HELIX 14 AB5 LEU A 276 HIS A 281 1 6 HELIX 15 AB6 SER A 284 ALA A 297 1 14 HELIX 16 AB7 GLY B 42 GLU B 56 1 15 HELIX 17 AB8 PRO B 72 GLY B 76 5 5 HELIX 18 AB9 THR B 78 GLY B 94 1 17 HELIX 19 AC1 GLY B 106 HIS B 117 1 12 HELIX 20 AC2 GLY B 141 THR B 149 1 9 HELIX 21 AC3 THR B 149 THR B 163 1 15 HELIX 22 AC4 THR B 163 GLU B 175 1 13 HELIX 23 AC5 SER B 179 ALA B 192 1 14 HELIX 24 AC6 ASP B 193 ALA B 207 1 15 HELIX 25 AC7 SER B 210 PRO B 212 5 3 HELIX 26 AC8 ARG B 213 ALA B 225 1 13 HELIX 27 AC9 GLU B 231 ILE B 235 5 5 HELIX 28 AD1 ASP B 251 ILE B 262 1 12 HELIX 29 AD2 LEU B 276 HIS B 281 1 6 HELIX 30 AD3 SER B 284 GLY B 298 1 15 SHEET 1 AA1 8 GLN A 13 THR A 17 0 SHEET 2 AA1 8 GLY A 20 GLY A 28 -1 O VAL A 22 N VAL A 15 SHEET 3 AA1 8 ARG A 59 VAL A 63 -1 O ALA A 60 N VAL A 27 SHEET 4 AA1 8 PRO A 32 VAL A 36 1 N VAL A 33 O ILE A 61 SHEET 5 AA1 8 ALA A 98 TRP A 103 1 O GLY A 99 N LEU A 34 SHEET 6 AA1 8 VAL A 121 VAL A 127 1 O VAL A 125 N VAL A 100 SHEET 7 AA1 8 THR A 239 GLY A 244 1 O LEU A 240 N SER A 126 SHEET 8 AA1 8 GLU A 266 LEU A 270 1 O GLU A 266 N VAL A 241 SHEET 1 AA2 8 GLN B 13 VAL B 15 0 SHEET 2 AA2 8 VAL B 22 GLY B 28 -1 O VAL B 22 N VAL B 15 SHEET 3 AA2 8 ARG B 59 VAL B 63 -1 O VAL B 62 N VAL B 25 SHEET 4 AA2 8 PRO B 32 VAL B 36 1 N VAL B 33 O ILE B 61 SHEET 5 AA2 8 ALA B 98 TRP B 103 1 O GLY B 99 N LEU B 34 SHEET 6 AA2 8 VAL B 121 VAL B 127 1 O VAL B 127 N CYS B 102 SHEET 7 AA2 8 THR B 239 GLY B 244 1 O LEU B 240 N SER B 126 SHEET 8 AA2 8 GLU B 266 LEU B 270 1 O GLU B 266 N VAL B 241 LINK C ALA A 48 N MSE A 49 1555 1555 1.33 LINK C MSE A 49 N ALA A 50 1555 1555 1.34 LINK C LEU A 146 N MSE A 147 1555 1555 1.34 LINK C MSE A 147 N GLY A 148 1555 1555 1.33 LINK C ARG A 154 N MSE A 155 1555 1555 1.33 LINK C MSE A 155 N LEU A 156 1555 1555 1.33 LINK C LEU A 158 N MSE A 159 1555 1555 1.33 LINK C MSE A 159 N ALA A 160 1555 1555 1.32 LINK O ALA A 173 NA NA A 502 1555 1555 2.33 LINK O GLY A 176 NA NA A 502 1555 1555 2.32 LINK C ILE A 190 N MSE A 191 1555 1555 1.33 LINK C MSE A 191 N ALA A 192 1555 1555 1.34 LINK C ASP A 220 N MSE A 221 1555 1555 1.32 LINK C MSE A 221 N ASP A 222 1555 1555 1.32 LINK C ALA B 48 N MSE B 49 1555 1555 1.33 LINK C MSE B 49 N ALA B 50 1555 1555 1.34 LINK C LEU B 146 N MSE B 147 1555 1555 1.33 LINK C MSE B 147 N GLY B 148 1555 1555 1.33 LINK C ARG B 154 N MSE B 155 1555 1555 1.32 LINK C MSE B 155 N LEU B 156 1555 1555 1.33 LINK C LEU B 158 N MSE B 159 1555 1555 1.33 LINK C MSE B 159 N ALA B 160 1555 1555 1.32 LINK O ALA B 173 NA NA B 502 1555 1555 2.24 LINK O GLY B 176 NA NA B 502 1555 1555 2.38 LINK C ILE B 190 N MSE B 191 1555 1555 1.32 LINK C MSE B 191 N ALA B 192 1555 1555 1.35 LINK C ASP B 220 N MSE B 221 1555 1555 1.32 LINK C MSE B 221 N ASP B 222 1555 1555 1.33 LINK NA NA A 502 O HOH A 798 1555 1555 2.71 LINK NA NA A 502 O HOH A 909 1555 1555 2.44 LINK NA NA A 502 O HOH A 847 1555 1555 2.43 LINK NA NA A 502 O HOH A 910 1555 1555 2.56 LINK NA NA B 502 O HOH B 818 1555 1555 2.92 LINK NA NA B 502 O HOH B 874 1555 1555 2.34 LINK NA NA B 502 O HOH B 937 1555 1555 2.48 LINK NA NA B 502 O HOH B 938 1555 1555 2.39 CISPEP 1 SER A 39 PRO A 40 0 -6.64 CISPEP 2 SER B 39 PRO B 40 0 -9.38 SITE 1 AC1 3 ARG A 186 THR A 274 ALA A 277 SITE 1 AC2 6 ALA A 173 GLY A 176 HOH A 798 HOH A 847 SITE 2 AC2 6 HOH A 909 HOH A 910 SITE 1 AC3 3 ARG B 186 THR B 274 ALA B 277 SITE 1 AC4 6 ALA B 173 GLY B 176 HOH B 818 HOH B 874 SITE 2 AC4 6 HOH B 937 HOH B 938 CRYST1 67.404 75.394 126.536 90.00 90.00 90.00 P 21 21 21 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 0.014836 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013264 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007903 0.00000