HEADER TRANSFERASE 29-MAR-05 1Z85 TITLE CRYSTAL STRUCTURE OF A PREDICTED RNA METHYLTRANSFERASE (TM1380) FROM TITLE 2 THERMOTOGA MARITIMA MSB8 AT 2.12 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN TM1380; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 243274; SOURCE 4 STRAIN: MSB8; SOURCE 5 GENE: TM1380; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS ALPHA/BETA KNOT FOLD, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI, KEYWDS 3 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 25-JAN-23 1Z85 1 REMARK SEQADV LINK REVDAT 5 13-JUL-11 1Z85 1 VERSN REVDAT 4 23-MAR-11 1Z85 1 HEADER TITLE KEYWDS REVDAT 3 24-FEB-09 1Z85 1 VERSN REVDAT 2 03-MAY-05 1Z85 1 REMARK REVDAT 1 12-APR-05 1Z85 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF HYPOTHETICAL PROTEIN (TM1380) FROM JRNL TITL 2 THERMOTOGA MARITIMA AT 2.12 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 31467 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1677 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) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2294 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3331 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 291 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.98000 REMARK 3 B22 (A**2) : -1.28000 REMARK 3 B33 (A**2) : -0.70000 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): 0.171 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.163 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.128 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.171 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3387 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3227 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4558 ; 1.644 ; 1.973 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7472 ; 0.909 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 423 ; 6.862 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 137 ;32.747 ;23.942 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 632 ;15.776 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;18.195 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 540 ; 0.142 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3679 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 675 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 561 ; 0.200 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3000 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1622 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2108 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 186 ; 0.154 ; 0.200 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): 6 ; 0.181 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 27 ; 0.366 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 17 ; 0.193 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2215 ; 2.409 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 876 ; 0.628 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3422 ; 3.478 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1350 ; 6.212 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1136 ; 7.934 ;11.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 2 A 222 6 REMARK 3 1 B 2 B 222 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 3176 ; 0.600 ; 5.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 3176 ; 3.280 ;10.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 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 68 REMARK 3 ORIGIN FOR THE GROUP (A): 9.3941 36.3113 7.9061 REMARK 3 T TENSOR REMARK 3 T11: -0.2074 T22: -0.1247 REMARK 3 T33: -0.0774 T12: 0.0588 REMARK 3 T13: 0.0013 T23: 0.0310 REMARK 3 L TENSOR REMARK 3 L11: 0.8485 L22: 1.9121 REMARK 3 L33: 4.6544 L12: -0.4901 REMARK 3 L13: 1.4656 L23: -0.4129 REMARK 3 S TENSOR REMARK 3 S11: 0.1388 S12: 0.1379 S13: -0.1324 REMARK 3 S21: -0.1826 S22: -0.1988 S23: -0.1692 REMARK 3 S31: 0.2005 S32: 0.4510 S33: 0.0601 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 : A 69 A 222 REMARK 3 ORIGIN FOR THE GROUP (A): -0.0988 61.6323 20.3397 REMARK 3 T TENSOR REMARK 3 T11: -0.1966 T22: -0.1593 REMARK 3 T33: -0.1079 T12: -0.0270 REMARK 3 T13: -0.0488 T23: -0.0149 REMARK 3 L TENSOR REMARK 3 L11: 1.5851 L22: 1.3950 REMARK 3 L33: 2.1040 L12: -0.5822 REMARK 3 L13: -0.2534 L23: 0.4752 REMARK 3 S TENSOR REMARK 3 S11: -0.1057 S12: -0.1475 S13: 0.1441 REMARK 3 S21: 0.0824 S22: -0.0673 S23: -0.0219 REMARK 3 S31: -0.1062 S32: -0.0233 S33: 0.1731 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 68 REMARK 3 ORIGIN FOR THE GROUP (A): 8.3006 93.6604 -2.5422 REMARK 3 T TENSOR REMARK 3 T11: 0.3001 T22: -0.0270 REMARK 3 T33: 0.2258 T12: 0.1916 REMARK 3 T13: -0.0423 T23: -0.0098 REMARK 3 L TENSOR REMARK 3 L11: 5.3866 L22: 8.5008 REMARK 3 L33: 9.4162 L12: -4.6495 REMARK 3 L13: 2.0125 L23: 0.4787 REMARK 3 S TENSOR REMARK 3 S11: 0.6008 S12: -0.0111 S13: 0.3346 REMARK 3 S21: -1.2614 S22: -0.5477 S23: 0.8890 REMARK 3 S31: -0.9542 S32: -0.6416 S33: -0.0531 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 69 B 222 REMARK 3 ORIGIN FOR THE GROUP (A): 24.2387 73.0493 12.1580 REMARK 3 T TENSOR REMARK 3 T11: -0.1461 T22: -0.1265 REMARK 3 T33: -0.1300 T12: -0.0431 REMARK 3 T13: 0.0219 T23: -0.0075 REMARK 3 L TENSOR REMARK 3 L11: 2.4043 L22: 1.9902 REMARK 3 L33: 3.4608 L12: 0.1883 REMARK 3 L13: -1.4105 L23: 0.1923 REMARK 3 S TENSOR REMARK 3 S11: 0.0182 S12: -0.3805 S13: -0.0264 REMARK 3 S21: 0.3007 S22: -0.1070 S23: 0.0982 REMARK 3 S31: 0.0678 S32: 0.2835 S33: 0.0888 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. DENSITY FOR LOOP B155-160 IS POOR. REMARK 4 REMARK 4 1Z85 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAR-05. REMARK 100 THE DEPOSITION ID IS D_1000032418. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979694,1.019775,0.979478 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : KOHZU: DOUBLE CRYSTAL SI(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33166 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 REMARK 200 RESOLUTION RANGE LOW (A) : 29.320 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.51800 REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M LICL, 20.0% PEG-6000, 0.1M TRIS REMARK 280 PH 8.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, TEMPERATURE 277K 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 32.82600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.13200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.23650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.13200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.82600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.23650 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 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: 2520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 32.82600 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 123.70950 REMARK 350 BIOMT3 2 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 MSE A -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MSE A 1 REMARK 465 ASP A 156 REMARK 465 ALA A 157 REMARK 465 SER A 158 REMARK 465 SER A 196 REMARK 465 LEU A 197 REMARK 465 GLY A 198 REMARK 465 LYS A 199 REMARK 465 LYS A 200 REMARK 465 ILE A 201 REMARK 465 MSE B -11 REMARK 465 GLY B -10 REMARK 465 SER B -9 REMARK 465 ASP B -8 REMARK 465 LYS B -7 REMARK 465 ILE B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 MSE B 1 REMARK 465 SER B 196 REMARK 465 LEU B 197 REMARK 465 GLY B 198 REMARK 465 LYS B 199 REMARK 465 LYS B 200 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 ARG A 28 CZ NH1 NH2 REMARK 470 LYS A 30 CE NZ REMARK 470 GLN A 129 CD OE1 NE2 REMARK 470 LYS A 137 CE NZ REMARK 470 GLN A 159 CG CD OE1 NE2 REMARK 470 ASN A 160 CG OD1 ND2 REMARK 470 GLU A 167 CD OE1 OE2 REMARK 470 LYS A 183 CD CE NZ REMARK 470 HIS B 3 ND1 CD2 CE1 NE2 REMARK 470 ILE B 15 CD1 REMARK 470 ARG B 28 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 31 CG CD OE1 OE2 REMARK 470 LYS B 53 CD CE NZ REMARK 470 LYS B 54 CG CD CE NZ REMARK 470 LYS B 55 CG CD CE NZ REMARK 470 LYS B 69 CG CD CE NZ REMARK 470 GLU B 70 CG CD OE1 OE2 REMARK 470 GLN B 129 CD OE1 NE2 REMARK 470 LYS B 143 CE NZ REMARK 470 GLN B 159 CB CG CD OE1 NE2 REMARK 470 ASP B 163 CG OD1 OD2 REMARK 470 ILE B 170 CD1 REMARK 470 GLU B 182 CD OE1 OE2 REMARK 470 GLU B 186 CG CD OE1 OE2 REMARK 470 ARG B 189 CD NE CZ NH1 NH2 REMARK 470 ILE B 201 CD1 REMARK 470 ARG B 203 NE CZ NH1 NH2 REMARK 470 LYS B 218 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 GLU B 85 CB GLU B 85 CG 0.121 REMARK 500 GLU B 85 CG GLU B 85 CD 0.094 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 124 NE - CZ - NH1 ANGL. DEV. = 3.6 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 ARG A 28 35.33 72.19 REMARK 500 ASN A 160 24.81 41.32 REMARK 500 SER A 191 -0.72 -141.86 REMARK 500 ARG B 203 129.03 -37.19 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 GLN A 159 ASN A 160 -144.59 REMARK 500 ASN A 160 LEU A 161 142.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 225 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 226 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 225 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 283241 RELATED DB: TARGETDB DBREF 1Z85 A 1 222 UNP Q9X1A0 Q9X1A0_THEMA 1 222 DBREF 1Z85 B 1 222 UNP Q9X1A0 Q9X1A0_THEMA 1 222 SEQADV 1Z85 MSE A -11 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 GLY A -10 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 SER A -9 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 ASP A -8 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 LYS A -7 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 ILE A -6 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS A -5 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS A -4 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS A -3 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS A -2 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS A -1 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS A 0 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 MSE A 1 UNP Q9X1A0 MET 1 MODIFIED RESIDUE SEQADV 1Z85 MSE A 24 UNP Q9X1A0 MET 24 MODIFIED RESIDUE SEQADV 1Z85 MSE B -11 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 GLY B -10 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 SER B -9 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 ASP B -8 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 LYS B -7 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 ILE B -6 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS B -5 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS B -4 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS B -3 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS B -2 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS B -1 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 HIS B 0 UNP Q9X1A0 EXPRESSION TAG SEQADV 1Z85 MSE B 1 UNP Q9X1A0 MET 1 MODIFIED RESIDUE SEQADV 1Z85 MSE B 24 UNP Q9X1A0 MET 24 MODIFIED RESIDUE SEQRES 1 A 234 MSE GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MSE SEQRES 2 A 234 PRO HIS LEU PHE TYR GLY THR ALA GLN ASN GLY GLU VAL SEQRES 3 A 234 ILE PHE ASP GLU ARG GLU ALA HIS HIS MSE ARG VAL VAL SEQRES 4 A 234 ARG LEU LYS GLU GLY ASP VAL ILE GLU ALA THR ASP GLY SEQRES 5 A 234 ASN GLY PHE SER TYR THR CYS ILE LEU LYS SER LEU LYS SEQRES 6 A 234 LYS LYS THR ALA ALA ALA LYS ILE VAL LYS VAL GLU GLU SEQRES 7 A 234 LYS GLU LYS GLU PRO THR GLU LYS LEU SER VAL VAL VAL SEQRES 8 A 234 PRO ILE GLY ARG TRP GLU ARG THR ARG PHE LEU ILE GLU SEQRES 9 A 234 LYS CYS VAL GLU LEU GLY VAL ASP GLU ILE PHE PHE HIS SEQRES 10 A 234 LYS PHE GLU ARG SER GLN HIS GLU ILE SER LEU ASP LYS SEQRES 11 A 234 ALA LYS ILE VAL VAL ARG GLU ALA ALA LYS GLN CYS LYS SEQRES 12 A 234 ARG TYR LEU PHE PRO LYS VAL SER PHE LEU GLU LYS LEU SEQRES 13 A 234 GLU PHE SER GLY ASN VAL ILE THR LEU ASP LEU ASP ALA SEQRES 14 A 234 SER GLN ASN LEU LEU ASP ALA ASN LEU GLU GLY SER ILE SEQRES 15 A 234 THR VAL VAL VAL GLY PRO GLU GLY GLY PHE SER GLU LYS SEQRES 16 A 234 GLU ARG GLU LEU LEU ARG SER SER THR THR ILE VAL SER SEQRES 17 A 234 LEU GLY LYS LYS ILE LEU ARG PHE GLU THR ALA ALA ILE SEQRES 18 A 234 LEU THR VAL GLY TYR ILE ALA LEU LYS LYS GLN LYS ILE SEQRES 1 B 234 MSE GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MSE SEQRES 2 B 234 PRO HIS LEU PHE TYR GLY THR ALA GLN ASN GLY GLU VAL SEQRES 3 B 234 ILE PHE ASP GLU ARG GLU ALA HIS HIS MSE ARG VAL VAL SEQRES 4 B 234 ARG LEU LYS GLU GLY ASP VAL ILE GLU ALA THR ASP GLY SEQRES 5 B 234 ASN GLY PHE SER TYR THR CYS ILE LEU LYS SER LEU LYS SEQRES 6 B 234 LYS LYS THR ALA ALA ALA LYS ILE VAL LYS VAL GLU GLU SEQRES 7 B 234 LYS GLU LYS GLU PRO THR GLU LYS LEU SER VAL VAL VAL SEQRES 8 B 234 PRO ILE GLY ARG TRP GLU ARG THR ARG PHE LEU ILE GLU SEQRES 9 B 234 LYS CYS VAL GLU LEU GLY VAL ASP GLU ILE PHE PHE HIS SEQRES 10 B 234 LYS PHE GLU ARG SER GLN HIS GLU ILE SER LEU ASP LYS SEQRES 11 B 234 ALA LYS ILE VAL VAL ARG GLU ALA ALA LYS GLN CYS LYS SEQRES 12 B 234 ARG TYR LEU PHE PRO LYS VAL SER PHE LEU GLU LYS LEU SEQRES 13 B 234 GLU PHE SER GLY ASN VAL ILE THR LEU ASP LEU ASP ALA SEQRES 14 B 234 SER GLN ASN LEU LEU ASP ALA ASN LEU GLU GLY SER ILE SEQRES 15 B 234 THR VAL VAL VAL GLY PRO GLU GLY GLY PHE SER GLU LYS SEQRES 16 B 234 GLU ARG GLU LEU LEU ARG SER SER THR THR ILE VAL SER SEQRES 17 B 234 LEU GLY LYS LYS ILE LEU ARG PHE GLU THR ALA ALA ILE SEQRES 18 B 234 LEU THR VAL GLY TYR ILE ALA LEU LYS LYS GLN LYS ILE MODRES 1Z85 MSE A 24 MET SELENOMETHIONINE MODRES 1Z85 MSE B 24 MET SELENOMETHIONINE HET MSE A 24 8 HET MSE B 24 8 HET CL A 223 1 HET CL A 224 1 HET EDO A 225 4 HET CL B 223 1 HET CL B 224 1 HET CL B 225 1 HET CL B 226 1 HETNAM MSE SELENOMETHIONINE HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 3 CL 6(CL 1-) FORMUL 5 EDO C2 H6 O2 FORMUL 10 HOH *291(H2 O) HELIX 1 1 ASP A 17 VAL A 27 1 11 HELIX 2 2 ARG A 83 LEU A 97 1 15 HELIX 3 3 SER A 115 LYS A 131 1 17 HELIX 4 4 SER A 181 THR A 192 1 12 HELIX 5 5 ARG A 203 LYS A 219 1 17 HELIX 6 6 ASP B 17 VAL B 27 1 11 HELIX 7 7 ARG B 83 LEU B 97 1 15 HELIX 8 8 SER B 115 LYS B 131 1 17 HELIX 9 9 SER B 181 SER B 190 1 10 HELIX 10 10 ARG B 203 LYS B 219 1 17 SHEET 1 A 6 PHE A 5 TYR A 6 0 SHEET 2 A 6 VAL A 34 THR A 38 1 O THR A 38 N PHE A 5 SHEET 3 A 6 PHE A 43 LEU A 52 -1 O CYS A 47 N ILE A 35 SHEET 4 A 6 ALA A 57 GLU A 66 -1 O VAL A 62 N THR A 46 SHEET 5 A 6 GLU A 13 PHE A 16 -1 N VAL A 14 O ALA A 59 SHEET 6 A 6 THR A 8 GLN A 10 -1 N GLN A 10 O GLU A 13 SHEET 1 B 6 LYS A 137 PHE A 140 0 SHEET 2 B 6 GLU A 101 HIS A 105 1 N PHE A 104 O SER A 139 SHEET 3 B 6 LEU A 75 PRO A 80 1 N VAL A 79 O PHE A 103 SHEET 4 B 6 ILE A 170 VAL A 174 1 O VAL A 172 N VAL A 78 SHEET 5 B 6 ASN A 149 LEU A 153 1 N LEU A 153 O VAL A 173 SHEET 6 B 6 THR A 193 ILE A 194 1 O THR A 193 N THR A 152 SHEET 1 C 6 LEU B 4 TYR B 6 0 SHEET 2 C 6 VAL B 34 THR B 38 1 O GLU B 36 N PHE B 5 SHEET 3 C 6 PHE B 43 LEU B 52 -1 O TYR B 45 N ALA B 37 SHEET 4 C 6 ALA B 57 GLU B 66 -1 O VAL B 62 N THR B 46 SHEET 5 C 6 GLU B 13 PHE B 16 -1 N VAL B 14 O ALA B 59 SHEET 6 C 6 THR B 8 GLN B 10 -1 N GLN B 10 O GLU B 13 SHEET 1 D 6 LYS B 137 PHE B 140 0 SHEET 2 D 6 GLU B 101 HIS B 105 1 N PHE B 104 O SER B 139 SHEET 3 D 6 LEU B 75 PRO B 80 1 N VAL B 79 O PHE B 103 SHEET 4 D 6 ILE B 170 VAL B 174 1 O VAL B 172 N VAL B 78 SHEET 5 D 6 ASN B 149 LEU B 153 1 N ILE B 151 O THR B 171 SHEET 6 D 6 THR B 193 VAL B 195 1 O THR B 193 N THR B 152 LINK C HIS A 23 N MSE A 24 1555 1555 1.31 LINK C MSE A 24 N ARG A 25 1555 1555 1.33 LINK C HIS B 23 N MSE B 24 1555 1555 1.33 LINK C MSE B 24 N ARG B 25 1555 1555 1.33 SITE 1 AC1 2 ARG A 19 LEU B 116 SITE 1 AC2 3 PRO B 176 GLU B 177 HOH B 229 SITE 1 AC3 4 GLY A 82 PRO A 176 GLU A 177 HOH A 237 SITE 1 AC4 5 HOH A 263 HOH A 267 TRP B 84 GLU B 85 SITE 2 AC4 5 HOH B 266 SITE 1 AC5 2 ARG A 124 HOH A 276 SITE 1 AC6 3 HOH A 243 SER B 115 LYS B 118 SITE 1 AC7 7 TYR A 6 THR A 8 ILE A 15 PHE A 16 SITE 2 AC7 7 ASP A 17 GLU A 20 HOH A 345 CRYST1 65.652 82.473 106.264 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 0.015230 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012130 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009410 0.00000