HEADER ISOMERASE/RNA BINDING PROTEIN 16-AUG-05 2APO TITLE CRYSTAL STRUCTURE OF THE METHANOCOCCUS JANNASCHII CBF5 NOP10 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE TRNA PSEUDOURIDINE SYNTHASE B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TRNA PSEUDOURIDINE 55 SYNTHASE, PSI55 SYNTHASE, TRNA-URIDINE COMPND 5 ISOMERASE, TRNA PSEUDOURIDYLATE SYNTHASE; COMPND 6 EC: 5.4.99.-; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: RIBOSOME BIOGENESIS PROTEIN NOP10; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 2190; SOURCE 4 GENE: TRUB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET16B; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 12 ORGANISM_TAXID: 2190; SOURCE 13 GENE: NOP10; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: B834(DE3); SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET16B KEYWDS PROTEIN-PROTEIN COMPLEX, BOX H/ACA, SNORNP, PSEUDOURIDINE SYNTHASE, KEYWDS 2 RNA MODIFICATION, ZINC RIBBON, PUA DOMAIN, ISOMERASE-RNA BINDING KEYWDS 3 PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.HAMMA,S.L.REICHOW,G.VARANI,A.R.FERRE-D'AMARE REVDAT 4 13-NOV-24 2APO 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 2APO 1 VERSN REVDAT 2 03-JAN-06 2APO 1 JRNL REVDAT 1 15-NOV-05 2APO 0 JRNL AUTH T.HAMMA,S.L.REICHOW,G.VARANI,A.R.FERRE-D'AMARE JRNL TITL THE CBF5-NOP10 COMPLEX IS A MOLECULAR BRACKET THAT ORGANIZES JRNL TITL 2 BOX H/ACA RNPS. JRNL REF NAT.STRUCT.MOL.BIOL. V. 12 1101 2005 JRNL REFN ISSN 1545-9993 JRNL PMID 16286935 JRNL DOI 10.1038/NSMB1036 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2097768.110 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 35760 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 SET) : 0.202 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3377 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3998 REMARK 3 BIN R VALUE (WORKING SET) : 0.2610 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 431 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.014 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2792 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 175 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.72000 REMARK 3 B22 (A**2) : 5.80000 REMARK 3 B33 (A**2) : -0.08000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.82000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM SIGMAA (A) : 0.19 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.22 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 3.050 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.970 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.820 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 6.630 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.41 REMARK 3 BSOL : 63.03 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2APO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-AUG-05. REMARK 100 THE DEPOSITION ID IS D_1000034167. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.957, 0.9798 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35760 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 26.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 70.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2-PROPANOL, PEG 4000, SODIUM CITRATE, REMARK 280 POTASSIUM CHLORIDE, PH 5.8, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 295.0K 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 59.14450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.59450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.14450 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 31.59450 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: 2670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 K K A 502 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 692 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -20 REMARK 465 GLY A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 GLY A -6 REMARK 465 HIS A -5 REMARK 465 ILE A -4 REMARK 465 GLU A -3 REMARK 465 GLY A -2 REMARK 465 ARG A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 LEU A 3 REMARK 465 LEU A 4 REMARK 465 GLU A 5 REMARK 465 LYS A 6 REMARK 465 THR A 7 REMARK 465 GLN A 8 REMARK 465 GLU A 9 REMARK 465 LYS A 10 REMARK 465 LYS A 11 REMARK 465 ILE A 12 REMARK 465 ASN A 13 REMARK 465 ASP A 14 REMARK 465 LYS A 15 REMARK 465 GLU A 16 REMARK 465 PRO A 139 REMARK 465 PRO A 140 REMARK 465 LEU A 141 REMARK 465 LYS A 142 REMARK 465 ALA A 143 REMARK 465 ALA A 144 REMARK 465 VAL A 145 REMARK 465 LYS A 146 REMARK 465 ARG A 147 REMARK 465 ARG A 148 REMARK 465 LEU A 149 REMARK 465 TRP A 332 REMARK 465 LYS A 333 REMARK 465 ARG A 334 REMARK 465 LYS A 335 REMARK 465 LYS A 336 REMARK 465 MSE B 401 REMARK 465 VAL B 402 REMARK 465 LYS B 458 REMARK 465 ALA B 459 REMARK 465 GLU B 460 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 GLU A 17 CG CD OE1 OE2 REMARK 470 LYS A 38 CG CD CE NZ REMARK 470 ARG A 54 NH1 NH2 REMARK 470 LYS A 83 CD CE NZ REMARK 470 ARG A 117 CD NE CZ NH1 NH2 REMARK 470 ARG A 138 CD NE CZ NH1 NH2 REMARK 470 ARG A 150 CD NE CZ NH1 NH2 REMARK 470 LYS A 153 CE NZ REMARK 470 LYS A 181 NZ REMARK 470 GLU A 232 CD OE1 OE2 REMARK 470 ARG A 270 NE CZ NH1 NH2 REMARK 470 LYS A 299 CG CD CE NZ REMARK 470 ASP A 311 OD1 OD2 REMARK 470 LYS A 312 CD CE NZ REMARK 470 ARG A 330 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 403 CD OE1 OE2 REMARK 470 ARG B 405 CD NE CZ NH1 NH2 REMARK 470 LYS B 407 NZ REMARK 470 LYS B 411 CD CE NZ REMARK 470 LYS B 418 CD CE NZ REMARK 470 GLU B 419 CD OE1 OE2 REMARK 470 LYS B 423 CG CD CE NZ REMARK 470 GLU B 426 CG CD OE1 OE2 REMARK 470 ARG B 441 CD NE CZ NH1 NH2 REMARK 470 LYS B 444 CE NZ REMARK 470 LYS B 454 CE NZ REMARK 470 ASN B 457 CG OD1 ND2 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 CE2 TYR B 445 CE2 TYR B 445 2556 1.43 REMARK 500 CD2 TYR B 445 CE2 TYR B 445 2556 1.58 REMARK 500 CD2 TYR B 445 CD2 TYR B 445 2556 1.76 REMARK 500 CD2 TYR B 445 CZ TYR B 445 2556 2.05 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 LEU B 414 CA - CB - CG ANGL. DEV. = 15.8 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 GLU A 93 -115.53 43.30 REMARK 500 THR A 192 -135.55 -135.26 REMARK 500 GLU A 227 -66.37 -101.00 REMARK 500 LYS B 411 -62.63 -92.03 REMARK 500 LYS B 411 -62.30 -92.03 REMARK 500 CYS B 424 -81.78 -124.28 REMARK 500 CYS B 424 -77.69 -128.61 REMARK 500 ASN B 455 38.50 -85.19 REMARK 500 LYS B 456 -111.84 -144.09 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 K A 503 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 78 N REMARK 620 2 SER A 204 OG 106.2 REMARK 620 3 HOH A 614 O 65.4 93.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 502 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 165 N REMARK 620 2 LYS A 165 NZ 97.8 REMARK 620 3 LYS A 165 N 124.7 91.6 REMARK 620 4 LYS A 165 NZ 91.4 159.8 97.9 REMARK 620 5 HOH A 692 O 117.6 79.9 117.7 79.9 REMARK 620 6 HOH A 692 O 117.5 79.9 117.8 79.9 0.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 409 SG REMARK 620 2 CYS B 412 SG 91.8 REMARK 620 3 CYS B 412 SG 124.1 66.3 REMARK 620 4 CYS B 421 SG 102.6 95.8 129.0 REMARK 620 5 CYS B 424 SG 77.5 166.2 112.6 95.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 503 DBREF 2APO A 1 336 UNP Q57612 TRUB_METJA 1 336 DBREF 2APO B 401 460 UNP P81303 NOP10_METJA 1 60 SEQADV 2APO MET A -20 UNP Q57612 CLONING ARTIFACT SEQADV 2APO GLY A -19 UNP Q57612 CLONING ARTIFACT SEQADV 2APO HIS A -18 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -17 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -16 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -15 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -14 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -13 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -12 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -11 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -10 UNP Q57612 EXPRESSION TAG SEQADV 2APO HIS A -9 UNP Q57612 EXPRESSION TAG SEQADV 2APO SER A -8 UNP Q57612 CLONING ARTIFACT SEQADV 2APO SER A -7 UNP Q57612 CLONING ARTIFACT SEQADV 2APO GLY A -6 UNP Q57612 CLONING ARTIFACT SEQADV 2APO HIS A -5 UNP Q57612 CLONING ARTIFACT SEQADV 2APO ILE A -4 UNP Q57612 CLONING ARTIFACT SEQADV 2APO GLU A -3 UNP Q57612 CLONING ARTIFACT SEQADV 2APO GLY A -2 UNP Q57612 CLONING ARTIFACT SEQADV 2APO ARG A -1 UNP Q57612 CLONING ARTIFACT SEQADV 2APO HIS A 0 UNP Q57612 CLONING ARTIFACT SEQADV 2APO MSE B 401 UNP P81303 MET 1 MODIFIED RESIDUE SEQADV 2APO MSE B 404 UNP P81303 MET 4 MODIFIED RESIDUE SEQADV 2APO MSE B 406 UNP P81303 MET 6 MODIFIED RESIDUE SEQADV 2APO MSE B 448 UNP P81303 MET 48 MODIFIED RESIDUE SEQRES 1 A 357 MET GLY HIS HIS HIS HIS HIS HIS HIS HIS HIS HIS SER SEQRES 2 A 357 SER GLY HIS ILE GLU GLY ARG HIS MET ILE LEU LEU GLU SEQRES 3 A 357 LYS THR GLN GLU LYS LYS ILE ASN ASP LYS GLU GLU LEU SEQRES 4 A 357 ILE VAL LYS GLU GLU VAL GLU THR ASN TRP ASP TYR GLY SEQRES 5 A 357 CYS ASN PRO TYR GLU ARG LYS ILE GLU ASP LEU ILE LYS SEQRES 6 A 357 TYR GLY VAL VAL VAL VAL ASP LYS PRO ARG GLY PRO THR SEQRES 7 A 357 SER HIS GLU VAL SER THR TRP VAL LYS LYS ILE LEU ASN SEQRES 8 A 357 LEU ASP LYS ALA GLY HIS GLY GLY THR LEU ASP PRO LYS SEQRES 9 A 357 VAL THR GLY VAL LEU PRO VAL ALA LEU GLU ARG ALA THR SEQRES 10 A 357 LYS THR ILE PRO MET TRP HIS ILE PRO PRO LYS GLU TYR SEQRES 11 A 357 VAL CYS LEU MET HIS LEU HIS ARG ASP ALA SER GLU GLU SEQRES 12 A 357 ASP ILE LEU ARG VAL PHE LYS GLU PHE THR GLY ARG ILE SEQRES 13 A 357 TYR GLN ARG PRO PRO LEU LYS ALA ALA VAL LYS ARG ARG SEQRES 14 A 357 LEU ARG ILE ARG LYS ILE HIS GLU LEU GLU LEU LEU ASP SEQRES 15 A 357 LYS ASP GLY LYS ASP VAL LEU PHE ARG VAL LYS CYS GLN SEQRES 16 A 357 SER GLY THR TYR ILE ARG LYS LEU CYS GLU ASP ILE GLY SEQRES 17 A 357 GLU ALA LEU GLY THR SER ALA HIS MET GLN GLU LEU ARG SEQRES 18 A 357 ARG THR LYS SER GLY CYS PHE GLU GLU LYS ASP ALA VAL SEQRES 19 A 357 TYR LEU GLN ASP LEU LEU ASP ALA TYR VAL PHE TRP LYS SEQRES 20 A 357 GLU ASP GLY ASP GLU GLU GLU LEU ARG ARG VAL ILE LYS SEQRES 21 A 357 PRO MET GLU TYR GLY LEU ARG HIS LEU LYS LYS VAL VAL SEQRES 22 A 357 VAL LYS ASP SER ALA VAL ASP ALA ILE CYS HIS GLY ALA SEQRES 23 A 357 ASP VAL TYR VAL ARG GLY ILE ALA LYS LEU SER LYS GLY SEQRES 24 A 357 ILE GLY LYS GLY GLU THR VAL LEU VAL GLU THR LEU LYS SEQRES 25 A 357 GLY GLU ALA VAL ALA VAL GLY LYS ALA LEU MET ASN THR SEQRES 26 A 357 LYS GLU ILE LEU ASN ALA ASP LYS GLY VAL ALA VAL ASP SEQRES 27 A 357 VAL GLU ARG VAL TYR MET ASP ARG GLY THR TYR PRO ARG SEQRES 28 A 357 MET TRP LYS ARG LYS LYS SEQRES 1 B 60 MSE VAL GLU MSE ARG MSE LYS LYS CYS PRO LYS CYS GLY SEQRES 2 B 60 LEU TYR THR LEU LYS GLU ILE CYS PRO LYS CYS GLY GLU SEQRES 3 B 60 LYS THR VAL ILE PRO LYS PRO PRO LYS PHE SER LEU GLU SEQRES 4 B 60 ASP ARG TRP GLY LYS TYR ARG ARG MSE LEU LYS ARG ALA SEQRES 5 B 60 LEU LYS ASN LYS ASN LYS ALA GLU MODRES 2APO MSE B 404 MET SELENOMETHIONINE MODRES 2APO MSE B 406 MET SELENOMETHIONINE MODRES 2APO MSE B 448 MET SELENOMETHIONINE HET MSE B 404 8 HET MSE B 406 8 HET MSE B 448 8 HET K A 502 1 HET K A 503 1 HET ZN B 501 1 HETNAM MSE SELENOMETHIONINE HETNAM K POTASSIUM ION HETNAM ZN ZINC ION FORMUL 2 MSE 3(C5 H11 N O2 SE) FORMUL 3 K 2(K 1+) FORMUL 5 ZN ZN 2+ FORMUL 6 HOH *175(H2 O) HELIX 1 1 ASN A 33 ARG A 37 5 5 HELIX 2 2 LYS A 38 TYR A 45 1 8 HELIX 3 3 THR A 57 LEU A 69 1 13 HELIX 4 4 ARG A 94 TRP A 102 5 9 HELIX 5 5 SER A 120 THR A 132 1 13 HELIX 6 6 TYR A 178 LEU A 190 1 13 HELIX 7 7 LYS A 210 ALA A 212 5 3 HELIX 8 8 TYR A 214 GLU A 227 1 14 HELIX 9 9 GLU A 231 VAL A 237 1 7 HELIX 10 10 GLU A 242 ARG A 246 5 5 HELIX 11 11 ALA A 257 HIS A 263 1 7 HELIX 12 12 ASN A 303 ALA A 310 1 8 HELIX 13 13 TRP B 442 ASN B 455 1 14 SHEET 1 A 7 LEU A 18 VAL A 20 0 SHEET 2 A 7 ILE A 272 SER A 276 -1 O LEU A 275 N ILE A 19 SHEET 3 A 7 LYS A 249 VAL A 253 -1 N VAL A 252 O LYS A 274 SHEET 4 A 7 THR A 284 GLU A 288 1 O LEU A 286 N LYS A 249 SHEET 5 A 7 ALA A 294 ALA A 300 -1 O ALA A 296 N VAL A 287 SHEET 6 A 7 VAL A 314 VAL A 321 -1 O ASP A 317 N LYS A 299 SHEET 7 A 7 VAL A 267 TYR A 268 -1 N VAL A 267 O ALA A 315 SHEET 1 B 4 ALA A 74 HIS A 76 0 SHEET 2 B 4 THR A 85 LEU A 92 -1 O ALA A 91 N GLY A 75 SHEET 3 B 4 ALA A 194 SER A 204 1 O ARG A 201 N THR A 85 SHEET 4 B 4 PHE A 207 GLU A 208 -1 O PHE A 207 N SER A 204 SHEET 1 C 8 GLY A 133 TYR A 136 0 SHEET 2 C 8 ILE A 151 ASP A 163 -1 O ILE A 154 N GLY A 133 SHEET 3 C 8 ASP A 166 CYS A 173 -1 O LEU A 168 N ASP A 161 SHEET 4 C 8 LYS A 107 LEU A 115 -1 N LYS A 107 O CYS A 173 SHEET 5 C 8 ALA A 194 SER A 204 -1 O GLN A 197 N LEU A 112 SHEET 6 C 8 THR A 85 LEU A 92 1 N THR A 85 O ARG A 201 SHEET 7 C 8 GLY A 46 LYS A 52 -1 N GLY A 46 O LEU A 92 SHEET 8 C 8 ILE A 238 PRO A 240 -1 O LYS A 239 N VAL A 47 SHEET 1 D 2 LYS B 407 LYS B 408 0 SHEET 2 D 2 TYR B 415 THR B 416 -1 O THR B 416 N LYS B 407 SSBOND 1 CYS B 409 CYS B 424 1555 1555 2.96 LINK C GLU B 403 N MSE B 404 1555 1555 1.33 LINK C MSE B 404 N ARG B 405 1555 1555 1.33 LINK C ARG B 405 N MSE B 406 1555 1555 1.33 LINK C MSE B 406 N LYS B 407 1555 1555 1.32 LINK C ARG B 447 N MSE B 448 1555 1555 1.33 LINK C MSE B 448 N LEU B 449 1555 1555 1.33 LINK N GLY A 78 K K A 503 1555 1555 3.15 LINK N LYS A 165 K K A 502 1555 1555 3.07 LINK NZ LYS A 165 K K A 502 1555 1555 3.35 LINK N LYS A 165 K K A 502 2557 1555 3.07 LINK NZ LYS A 165 K K A 502 2557 1555 3.35 LINK OG SER A 204 K K A 503 1555 1555 2.83 LINK K K A 502 O HOH A 692 1555 1555 3.34 LINK K K A 502 O HOH A 692 1555 2557 3.34 LINK K K A 503 O HOH A 614 1555 1555 3.01 LINK SG CYS B 409 ZN ZN B 501 1555 1555 2.41 LINK SG ACYS B 412 ZN ZN B 501 1555 1555 2.43 LINK SG BCYS B 412 ZN ZN B 501 1555 1555 2.49 LINK SG CYS B 421 ZN ZN B 501 1555 1555 2.40 LINK SG BCYS B 424 ZN ZN B 501 1555 1555 2.32 SITE 1 AC1 4 CYS B 409 CYS B 412 CYS B 421 CYS B 424 SITE 1 AC2 2 GLY A 164 LYS A 165 SITE 1 AC3 4 GLY A 77 GLY A 78 SER A 204 HOH A 614 CRYST1 118.289 63.189 67.896 90.00 102.62 90.00 C 1 2 1 4 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 0.008454 0.000000 0.001893 0.00000 SCALE2 0.000000 0.015826 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015093 0.00000