HEADER HYDROLASE 23-JUL-12 4G89 TITLE CRYSTAL STRUCTURE OF K. PNEUMONIAE MTA/ADOHCY NUCLEOSIDASE IN COMPLEX TITLE 2 WITH FRAGMENTED S-ADENOSYL-L-HOMOCYSTEINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-METHYLTHIOADENOSINE/S-ADENOSYLHOMOCYSTEINE NUCLEOSIDASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MTA/SAH NUCLEOSIDASE, MTAN, 5'-METHYLTHIOADENOSINE COMPND 5 NUCLEOSIDASE, MTA NUCLEOSIDASE, S-ADENOSYLHOMOCYSTEINE NUCLEOSIDASE, COMPND 6 ADOHCY NUCLEOSIDASE, SAH NUCLEOSIDASE, SRH NUCLEOSIDASE; COMPND 7 EC: 3.2.2.9; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA PNEUMONIAE SUBSP. PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 272620; SOURCE 4 STRAIN: MGH 78578 ATCC 70072; SOURCE 5 GENE: KPN 00174, KPN78578_01730, KPN_00174, MTNN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPROEX HTB KEYWDS MIXED ALPHA/BETA, DIMER, HYDROLASE, S-ADENOSYLHOMOCYSTEINE, CLEAVAGE EXPDTA X-RAY DIFFRACTION AUTHOR G.E.NORRIS,R.L.BROWN,B.F.ANDERSON,P.C.TYLER,G.B.EVANS REVDAT 1 19-SEP-12 4G89 0 JRNL AUTH G.E.NORRIS,R.L.BROWN,B.F.ANDERSON,P.C.TYLER,G.B.EVANS JRNL TITL CRYSTAL STRUCTURE OF K. PNEUMONIAE MTA/ADOHCY NUCLEOSIDASE JRNL TITL 2 IN COMPLEX WITH FRAGMENTED S-ADENOSYL-L-HOMOCYSTEINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 24376 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) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1294 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1671 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.2630 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3450 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 278 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.34 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.70000 REMARK 3 B22 (A**2) : -1.86000 REMARK 3 B33 (A**2) : 0.75000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.89000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.222 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.186 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.145 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.606 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3598 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2335 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4883 ; 1.789 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5745 ; 1.088 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 481 ;13.554 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 144 ;38.569 ;24.861 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 605 ;17.567 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;21.974 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 581 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4104 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 689 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED 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 : B 153 B 169 REMARK 3 ORIGIN FOR THE GROUP (A): 5.7790 -3.4320 3.6890 REMARK 3 T TENSOR REMARK 3 T11: 0.1268 T22: 0.3830 REMARK 3 T33: 0.2421 T12: 0.1787 REMARK 3 T13: -0.1095 T23: -0.1341 REMARK 3 L TENSOR REMARK 3 L11: 13.6975 L22: 3.8269 REMARK 3 L33: 3.9679 L12: -2.4478 REMARK 3 L13: -3.2330 L23: -2.7119 REMARK 3 S TENSOR REMARK 3 S11: 0.2804 S12: 1.2745 S13: -0.4334 REMARK 3 S21: -0.2211 S22: -0.0635 S23: 0.4385 REMARK 3 S31: 0.0630 S32: -0.5170 S33: -0.2169 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 197 B 209 REMARK 3 ORIGIN FOR THE GROUP (A): 18.4680 -3.7240 -8.3660 REMARK 3 T TENSOR REMARK 3 T11: 0.4530 T22: 0.7761 REMARK 3 T33: 1.0906 T12: -0.1224 REMARK 3 T13: -0.5372 T23: -0.2995 REMARK 3 L TENSOR REMARK 3 L11: 73.0543 L22: 15.8495 REMARK 3 L33: 26.5133 L12: -32.1372 REMARK 3 L13: 5.4844 L23: -9.0969 REMARK 3 S TENSOR REMARK 3 S11: 3.1314 S12: 4.7909 S13: -8.2726 REMARK 3 S21: -1.1365 S22: -2.1314 S23: 3.7529 REMARK 3 S31: -0.6748 S32: 0.6521 S33: -1.0000 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4G89 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-AUG-12. REMARK 100 THE RCSB ID CODE IS RCSB073862. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-SEP-06 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 8.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : CAPILLIARY REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25670 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.44900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: S.AUREUS MTAN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.67M AMMONIUM SULPHATE, 80MM HEPES PH REMARK 280 7.5, 1.7% PEG 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 57.67300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.62100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 57.67300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 29.62100 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 ILE A -5 REMARK 465 ALA A -4 REMARK 465 SER A -3 REMARK 465 LYS A -2 REMARK 465 ILE B -5 REMARK 465 ALA B -4 REMARK 465 SER B -3 REMARK 465 LYS B -2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS B 85 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 O HOH A 486 O HOH A 497 2.02 REMARK 500 O HOH A 536 O HOH A 540 2.11 REMARK 500 O HOH B 407 O HOH B 410 2.13 REMARK 500 OE2 GLU A 209 O HOH A 515 2.19 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 A 514 O HOH B 419 4546 1.46 REMARK 500 O HOH A 544 O HOH B 382 3445 1.81 REMARK 500 O HOH A 537 O HOH A 542 4546 2.10 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 LYS B 85 CB LYS B 85 CG -0.182 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 ARG A 17 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ASP A 149 51.36 -93.49 REMARK 500 ASN A 153 43.25 -151.90 REMARK 500 SER A 155 -148.24 62.42 REMARK 500 ARG A 231 -86.81 -126.48 REMARK 500 VAL B 156 34.19 119.60 REMARK 500 LEU B 158 -25.41 111.50 REMARK 500 LYS B 160 -89.23 67.32 REMARK 500 GLN B 167 -31.08 94.50 REMARK 500 ASP B 200 70.44 -26.25 REMARK 500 GLN B 201 57.86 -96.78 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 ILE A 28 GLY A 29 -126.17 REMARK 500 GLY A 29 GLY A 30 -59.90 REMARK 500 SER B -1 MET B 1 -136.27 REMARK 500 GLY B 154 SER B 155 -76.72 REMARK 500 SER B 155 VAL B 156 -119.97 REMARK 500 VAL B 156 GLY B 157 -130.33 REMARK 500 LEU B 158 ALA B 159 123.17 REMARK 500 ALA B 159 LYS B 160 -99.91 REMARK 500 PHE B 165 PRO B 166 147.60 REMARK 500 ALA B 199 ASP B 200 -127.85 REMARK 500 ASP B 200 GLN B 201 147.09 REMARK 500 GLN B 202 SER B 203 -106.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 GLN A 201 23.8 L L OUTSIDE RANGE 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 B 365 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH B 398 DISTANCE = 7.50 ANGSTROMS REMARK 525 HOH B 399 DISTANCE = 7.43 ANGSTROMS REMARK 525 HOH B 405 DISTANCE = 6.81 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 SAH A 302 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADE A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 303 DBREF 4G89 A 1 232 UNP A6T4W3 MTNN_KLEP7 1 232 DBREF 4G89 B 1 232 UNP A6T4W3 MTNN_KLEP7 1 232 SEQADV 4G89 ILE A -5 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 ALA A -4 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 SER A -3 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 LYS A -2 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 SER A -1 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 ILE B -5 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 ALA B -4 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 SER B -3 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 LYS B -2 UNP A6T4W3 EXPRESSION TAG SEQADV 4G89 SER B -1 UNP A6T4W3 EXPRESSION TAG SEQRES 1 A 237 ILE ALA SER LYS SER MET LYS ILE GLY ILE ILE GLY ALA SEQRES 2 A 237 MET GLU GLU GLU VAL THR LEU LEU ARG ASP LYS ILE GLU SEQRES 3 A 237 ASN ARG GLN THR ILE THR ILE GLY GLY SER GLU ILE TYR SEQRES 4 A 237 THR GLY GLN LEU HIS GLY VAL ASP VAL ALA LEU LEU LYS SEQRES 5 A 237 SER GLY ILE GLY LYS VAL ALA ALA ALA MET GLY ALA THR SEQRES 6 A 237 LEU LEU LEU GLU ARG CYS GLN PRO ASP VAL ILE ILE ASN SEQRES 7 A 237 THR GLY SER ALA GLY GLY LEU ALA SER THR LEU LYS VAL SEQRES 8 A 237 GLY ASP ILE VAL VAL SER ASP GLU ALA ARG TYR HIS ASP SEQRES 9 A 237 ALA ASP VAL THR ALA PHE GLY TYR GLU TYR GLY GLN LEU SEQRES 10 A 237 PRO GLY CYS PRO ALA GLY PHE LYS ALA ASP GLU LYS LEU SEQRES 11 A 237 VAL ALA ALA ALA GLU SER CYS ILE LYS ALA LEU ASP LEU SEQRES 12 A 237 ASN ALA VAL ARG GLY LEU ILE VAL SER GLY ASP ALA PHE SEQRES 13 A 237 ILE ASN GLY SER VAL GLY LEU ALA LYS ILE ARG HIS ASN SEQRES 14 A 237 PHE PRO GLN ALA ILE ALA VAL GLU MET GLU ALA THR ALA SEQRES 15 A 237 ILE ALA HIS VAL CYS HIS ASN PHE LYS VAL PRO PHE VAL SEQRES 16 A 237 VAL VAL ARG ALA ILE SER ASP VAL ALA ASP GLN GLN SER SEQRES 17 A 237 HIS LEU SER PHE GLU GLU PHE LEU ALA VAL ALA ALA ARG SEQRES 18 A 237 GLN SER THR LEU MET VAL GLU ASN LEU VAL GLN ASN LEU SEQRES 19 A 237 ALA ARG GLY SEQRES 1 B 237 ILE ALA SER LYS SER MET LYS ILE GLY ILE ILE GLY ALA SEQRES 2 B 237 MET GLU GLU GLU VAL THR LEU LEU ARG ASP LYS ILE GLU SEQRES 3 B 237 ASN ARG GLN THR ILE THR ILE GLY GLY SER GLU ILE TYR SEQRES 4 B 237 THR GLY GLN LEU HIS GLY VAL ASP VAL ALA LEU LEU LYS SEQRES 5 B 237 SER GLY ILE GLY LYS VAL ALA ALA ALA MET GLY ALA THR SEQRES 6 B 237 LEU LEU LEU GLU ARG CYS GLN PRO ASP VAL ILE ILE ASN SEQRES 7 B 237 THR GLY SER ALA GLY GLY LEU ALA SER THR LEU LYS VAL SEQRES 8 B 237 GLY ASP ILE VAL VAL SER ASP GLU ALA ARG TYR HIS ASP SEQRES 9 B 237 ALA ASP VAL THR ALA PHE GLY TYR GLU TYR GLY GLN LEU SEQRES 10 B 237 PRO GLY CYS PRO ALA GLY PHE LYS ALA ASP GLU LYS LEU SEQRES 11 B 237 VAL ALA ALA ALA GLU SER CYS ILE LYS ALA LEU ASP LEU SEQRES 12 B 237 ASN ALA VAL ARG GLY LEU ILE VAL SER GLY ASP ALA PHE SEQRES 13 B 237 ILE ASN GLY SER VAL GLY LEU ALA LYS ILE ARG HIS ASN SEQRES 14 B 237 PHE PRO GLN ALA ILE ALA VAL GLU MET GLU ALA THR ALA SEQRES 15 B 237 ILE ALA HIS VAL CYS HIS ASN PHE LYS VAL PRO PHE VAL SEQRES 16 B 237 VAL VAL ARG ALA ILE SER ASP VAL ALA ASP GLN GLN SER SEQRES 17 B 237 HIS LEU SER PHE GLU GLU PHE LEU ALA VAL ALA ALA ARG SEQRES 18 B 237 GLN SER THR LEU MET VAL GLU ASN LEU VAL GLN ASN LEU SEQRES 19 B 237 ALA ARG GLY HET ADE A 301 10 HET SAH A 302 16 HET SO4 A 303 5 HETNAM ADE ADENINE HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM SO4 SULFATE ION FORMUL 3 ADE C5 H5 N5 FORMUL 4 SAH C14 H20 N6 O5 S FORMUL 5 SO4 O4 S 2- FORMUL 6 HOH *278(H2 O) HELIX 1 1 MET A 9 LYS A 19 1 11 HELIX 2 2 GLY A 51 GLN A 67 1 17 HELIX 3 3 VAL A 102 GLY A 106 5 5 HELIX 4 4 ASP A 122 ASP A 137 1 16 HELIX 5 5 GLY A 154 PHE A 165 1 12 HELIX 6 6 GLU A 174 LYS A 186 1 13 HELIX 7 7 GLN A 202 ARG A 231 1 30 HELIX 8 8 MET B 9 LYS B 19 1 11 HELIX 9 9 GLY B 51 GLN B 67 1 17 HELIX 10 10 VAL B 102 GLY B 106 5 5 HELIX 11 11 ASP B 122 ALA B 135 1 14 HELIX 12 12 LYS B 160 PHE B 165 1 6 HELIX 13 13 GLU B 174 LYS B 186 1 13 HELIX 14 14 SER B 206 GLY B 232 1 27 SHEET 1 A 9 GLU A 21 ILE A 28 0 SHEET 2 A 9 SER A 31 LEU A 38 -1 O THR A 35 N GLN A 24 SHEET 3 A 9 VAL A 41 LYS A 47 -1 O VAL A 41 N LEU A 38 SHEET 4 A 9 ILE A 3 GLY A 7 1 N ILE A 5 O LEU A 46 SHEET 5 A 9 VAL A 70 GLY A 79 1 O ILE A 72 N GLY A 4 SHEET 6 A 9 ALA A 168 GLU A 172 -1 O VAL A 171 N GLY A 78 SHEET 7 A 9 ALA A 140 SER A 147 1 N LEU A 144 O ILE A 169 SHEET 8 A 9 ILE A 89 TYR A 97 1 N GLU A 94 O ILE A 145 SHEET 9 A 9 PHE A 119 LYS A 120 -1 O PHE A 119 N ALA A 95 SHEET 1 B 8 GLU A 21 ILE A 28 0 SHEET 2 B 8 SER A 31 LEU A 38 -1 O THR A 35 N GLN A 24 SHEET 3 B 8 VAL A 41 LYS A 47 -1 O VAL A 41 N LEU A 38 SHEET 4 B 8 ILE A 3 GLY A 7 1 N ILE A 5 O LEU A 46 SHEET 5 B 8 VAL A 70 GLY A 79 1 O ILE A 72 N GLY A 4 SHEET 6 B 8 PHE A 189 ASP A 197 1 O ASP A 197 N GLY A 79 SHEET 7 B 8 ILE A 89 TYR A 97 -1 N VAL A 90 O ARG A 193 SHEET 8 B 8 PHE A 119 LYS A 120 -1 O PHE A 119 N ALA A 95 SHEET 1 C 9 GLU B 21 ILE B 28 0 SHEET 2 C 9 SER B 31 LEU B 38 -1 O GLN B 37 N GLU B 21 SHEET 3 C 9 VAL B 41 LYS B 47 -1 O LEU B 45 N TYR B 34 SHEET 4 C 9 LYS B 2 GLY B 7 1 N ILE B 5 O ALA B 44 SHEET 5 C 9 VAL B 70 GLY B 79 1 O ILE B 72 N GLY B 4 SHEET 6 C 9 ALA B 168 GLU B 172 -1 O VAL B 171 N GLY B 78 SHEET 7 C 9 ALA B 140 SER B 147 1 N VAL B 146 O ALA B 170 SHEET 8 C 9 ILE B 89 TYR B 97 1 N ASP B 93 O GLY B 143 SHEET 9 C 9 PHE B 119 LYS B 120 -1 O PHE B 119 N ALA B 95 SHEET 1 D 8 GLU B 21 ILE B 28 0 SHEET 2 D 8 SER B 31 LEU B 38 -1 O GLN B 37 N GLU B 21 SHEET 3 D 8 VAL B 41 LYS B 47 -1 O LEU B 45 N TYR B 34 SHEET 4 D 8 LYS B 2 GLY B 7 1 N ILE B 5 O ALA B 44 SHEET 5 D 8 VAL B 70 GLY B 79 1 O ILE B 72 N GLY B 4 SHEET 6 D 8 PHE B 189 VAL B 198 1 O ASP B 197 N GLY B 79 SHEET 7 D 8 ILE B 89 TYR B 97 -1 N VAL B 90 O ARG B 193 SHEET 8 D 8 PHE B 119 LYS B 120 -1 O PHE B 119 N ALA B 95 SITE 1 AC1 10 ALA A 77 GLY A 78 ALA A 150 PHE A 151 SITE 2 AC1 10 ILE A 152 GLU A 172 SER A 196 ASP A 197 SITE 3 AC1 10 ALA A 199 SAH A 302 SITE 1 AC2 17 ALA A 8 MET A 9 ILE A 50 SER A 76 SITE 2 AC2 17 ALA A 135 LEU A 136 PHE A 151 GLU A 172 SITE 3 AC2 17 MET A 173 GLU A 174 ARG A 193 PHE A 207 SITE 4 AC2 17 ADE A 301 HOH A 460 PHE B 105 TYR B 107 SITE 5 AC2 17 PRO B 113 SITE 1 AC3 6 GLY A 154 SER A 155 LEU A 158 ASP A 200 SITE 2 AC3 6 GLN A 201 HOH A 535 CRYST1 115.346 59.242 82.926 90.00 128.46 90.00 C 1 2 1 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 0.008670 0.000000 0.006887 0.00000 SCALE2 0.000000 0.016880 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015401 0.00000 MASTER 468 0 3 14 34 0 10 6 0 0 0 38 END