HEADER RNA BINDING PROTEIN, TRANSPORT PROTEIN 30-JUN-08 3DM5 TITLE STRUCTURES OF SRP54 AND SRP19, THE TWO PROTEINS ASSEMBLING THE TITLE 2 RIBONUCLEIC CORE OF THE SIGNAL RECOGNITION PARTICLE FROM THE ARCHAEON TITLE 3 PYROCOCCUS FURIOSUS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL RECOGNITION 54 KDA PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SRP54; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 2261; SOURCE 4 STRAIN: DSM3638; SOURCE 5 GENE: SRP54, PF1731; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) ROSETTA2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET 28B KEYWDS PROTEIN-RNA, SIGNAL RECOGNITION PARTICLE, SRP-GTPASE, PROTEIN KEYWDS 2 TARGETING, CYTOPLASM, GTP-BINDING, NUCLEOTIDE-BINDING, KEYWDS 3 RIBONUCLEOPROTEIN, RNA-BINDING, RNA BINDING PROTEIN, TRANSPORT KEYWDS 4 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.F.EGEA,J.NAPETSCHNIG,P.WALTER,R.M.STROUD REVDAT 4 21-FEB-24 3DM5 1 REMARK REVDAT 3 25-OCT-17 3DM5 1 REMARK REVDAT 2 24-FEB-09 3DM5 1 VERSN REVDAT 1 04-NOV-08 3DM5 0 JRNL AUTH P.F.EGEA,J.NAPETSCHNIG,P.WALTER,R.M.STROUD JRNL TITL STRUCTURES OF SRP54 AND SRP19, THE TWO PROTEINS THAT JRNL TITL 2 ORGANIZE THE RIBONUCLEIC CORE OF THE SIGNAL RECOGNITION JRNL TITL 3 PARTICLE FROM PYROCOCCUS FURIOSUS. JRNL REF PLOS ONE V. 3 E3528 2008 JRNL REFN ESSN 1932-6203 JRNL PMID 18953414 JRNL DOI 10.1371/JOURNAL.PONE.0003528 REMARK 2 REMARK 2 RESOLUTION. 2.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.74 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 52652 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 64.7600 - 6.0400 0.98 0 152 0.2192 0.2418 REMARK 3 2 6.0400 - 4.8000 1.00 0 147 0.1938 0.2238 REMARK 3 3 4.8000 - 4.1900 1.00 0 144 0.1533 0.1971 REMARK 3 4 2.7200 - 2.6400 0.99 0 141 0.2866 0.3168 REMARK 3 5 2.6400 - 2.5700 0.99 0 140 0.2946 0.3107 REMARK 3 6 2.5700 - 2.5100 0.98 3517 139 0.3102 0.3625 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.38 REMARK 3 B_SOL : 62.72 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 40.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.86670 REMARK 3 B22 (A**2) : -3.86670 REMARK 3 B33 (A**2) : 7.73330 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 6580 REMARK 3 ANGLE : 1.168 8874 REMARK 3 CHIRALITY : 0.070 1024 REMARK 3 PLANARITY : 0.006 1120 REMARK 3 DIHEDRAL : 18.932 2478 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3DM5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048210. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUN-05 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 5.0 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) : 1.11589 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53350 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.510 REMARK 200 RESOLUTION RANGE LOW (A) : 64.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : 0.05600 REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.76300 REMARK 200 R SYM FOR SHELL (I) : 0.76300 REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0-1.3M LITHIUM SULFATE, 100MM NA REMARK 280 ACETATE, PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 63.50450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 63.50450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 93.41800 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 63.50450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 63.50450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 93.41800 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 63.50450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.50450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 93.41800 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 63.50450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.50450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 93.41800 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 23220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 70960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -338.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -127.00900 REMARK 350 BIOMT3 2 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: 9100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -148.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -127.00900 REMARK 350 BIOMT3 2 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: 9180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -141.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -127.00900 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 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: 5 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 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 HOH B 558 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 LEU A 346 REMARK 465 LYS A 347 REMARK 465 GLN A 348 REMARK 465 ILE A 349 REMARK 465 LEU A 350 REMARK 465 ARG A 351 REMARK 465 MET A 352 REMARK 465 ILE A 353 REMARK 465 PRO A 354 REMARK 465 GLY A 355 REMARK 465 LEU A 356 REMARK 465 GLY A 357 REMARK 465 TYR A 358 REMARK 465 SER A 359 REMARK 465 LEU A 360 REMARK 465 PRO A 361 REMARK 465 ASP A 362 REMARK 465 ASP A 363 REMARK 465 VAL A 364 REMARK 465 ARG A 436 REMARK 465 LEU A 437 REMARK 465 ALA A 438 REMARK 465 ARG A 439 REMARK 465 ARG A 440 REMARK 465 PHE A 441 REMARK 465 GLY A 442 REMARK 465 MET A 443 REMARK 465 GLU B 203 REMARK 465 LEU B 346 REMARK 465 LYS B 347 REMARK 465 GLN B 348 REMARK 465 ILE B 349 REMARK 465 LEU B 350 REMARK 465 ARG B 351 REMARK 465 MET B 352 REMARK 465 ILE B 353 REMARK 465 PRO B 354 REMARK 465 GLY B 355 REMARK 465 LEU B 356 REMARK 465 GLY B 357 REMARK 465 TYR B 358 REMARK 465 SER B 359 REMARK 465 LEU B 360 REMARK 465 PRO B 361 REMARK 465 ASP B 362 REMARK 465 ASP B 363 REMARK 465 VAL B 364 REMARK 465 ILE B 365 REMARK 465 SER B 435 REMARK 465 ARG B 436 REMARK 465 LEU B 437 REMARK 465 ALA B 438 REMARK 465 ARG B 439 REMARK 465 ARG B 440 REMARK 465 PHE B 441 REMARK 465 GLY B 442 REMARK 465 MET B 443 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 29 CG CD CE NZ REMARK 470 LYS A 64 CG CD CE NZ REMARK 470 LYS A 97 CG CD CE NZ REMARK 470 GLN A 109 CG CD OE1 NE2 REMARK 470 GLN A 163 CG CD OE1 NE2 REMARK 470 LYS A 165 CG CD CE NZ REMARK 470 LYS A 172 CG CD CE NZ REMARK 470 PHE A 178 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 203 CG CD OE1 OE2 REMARK 470 LYS A 277 CG CD CE NZ REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 LYS A 327 CG CD CE NZ REMARK 470 ILE A 367 CG1 CG2 CD1 REMARK 470 LYS A 399 CG CD CE NZ REMARK 470 LYS A 410 CG CD CE NZ REMARK 470 GLU A 414 CG CD OE1 OE2 REMARK 470 ARG A 420 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 424 CG CD CE NZ REMARK 470 LYS A 427 CG CD CE NZ REMARK 470 LYS A 431 CG CD CE NZ REMARK 470 ARG A 432 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 433 CG CD OE1 NE2 REMARK 470 LEU A 434 CG CD1 CD2 REMARK 470 LYS B 64 CG CD CE NZ REMARK 470 GLN B 109 CG CD OE1 NE2 REMARK 470 PRO B 162 CG CD REMARK 470 PHE B 178 CG CD1 CD2 CE1 CE2 CZ REMARK 470 HIS B 194 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 198 CG CD CE NZ REMARK 470 GLU B 202 CG CD OE1 OE2 REMARK 470 LYS B 307 CG CD CE NZ REMARK 470 LYS B 327 CG CD CE NZ REMARK 470 SER B 408 OG REMARK 470 LYS B 410 CG CD CE NZ REMARK 470 GLU B 414 CG CD OE1 OE2 REMARK 470 ARG B 420 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 424 CG CD CE NZ REMARK 470 LYS B 427 CG CD CE NZ REMARK 470 ASN B 430 CG OD1 ND2 REMARK 470 LYS B 431 CG CD CE NZ REMARK 470 ARG B 432 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 433 CG CD OE1 NE2 REMARK 470 LEU B 434 CG CD1 CD2 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 ARG B 193 N CA C O CB CG CD REMARK 480 ARG B 193 NE CZ NH1 NH2 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 VAL A 2 87.97 65.40 REMARK 500 LEU A 3 -38.30 64.11 REMARK 500 ASP A 4 -91.35 52.01 REMARK 500 THR A 89 -54.19 68.29 REMARK 500 LYS A 99 -146.92 -63.13 REMARK 500 PRO A 100 106.59 -34.63 REMARK 500 ASN A 161 81.94 -175.04 REMARK 500 PRO A 162 -8.90 -47.32 REMARK 500 LYS A 342 39.64 -96.46 REMARK 500 GLU A 391 -38.96 -33.54 REMARK 500 ASN A 394 -165.28 -73.91 REMARK 500 THR A 407 -165.74 -124.09 REMARK 500 SER A 428 63.94 -113.86 REMARK 500 ASN A 430 -29.02 -32.35 REMARK 500 GLN A 433 -156.13 -162.05 REMARK 500 LEU A 434 112.43 -166.63 REMARK 500 ASP B 4 -93.70 5.46 REMARK 500 PRO B 66 170.34 -50.45 REMARK 500 THR B 89 -54.43 82.58 REMARK 500 LYS B 97 -49.18 -132.97 REMARK 500 LYS B 99 -174.92 -67.76 REMARK 500 PRO B 100 89.94 -9.09 REMARK 500 PRO B 162 -5.13 -58.58 REMARK 500 HIS B 212 72.62 47.49 REMARK 500 ARG B 341 0.39 -70.00 REMARK 500 ILE B 367 -31.55 -145.32 REMARK 500 ASN B 394 -164.90 -57.69 REMARK 500 GLN B 421 -77.36 -57.80 REMARK 500 LYS B 431 25.92 -63.94 REMARK 500 ARG B 432 45.55 -102.03 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 SO4 A 444 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 444 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 445 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 445 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 446 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 447 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 448 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 446 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 447 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 448 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DLU RELATED DB: PDB REMARK 900 STRUCTURE OF THE PROTEIN SRP19 FROM PYROCOCCUS FURIOSUS. MONOCLINIC REMARK 900 CRYSTAL FORM REMARK 900 RELATED ID: 3DLV RELATED DB: PDB REMARK 900 STRUCTURE OF THE PROTEIN SRP19 FROM PYROCOCCUS FURIOSUS. REMARK 900 ORTHORHOMBIC CRYSTAL FORM DBREF 3DM5 A 1 443 UNP Q8U070 SRP54_PYRFU 1 443 DBREF 3DM5 B 1 443 UNP Q8U070 SRP54_PYRFU 1 443 SEQRES 1 A 443 MET VAL LEU ASP ASN LEU GLY LYS ALA LEU ALA ASN THR SEQRES 2 A 443 LEU LYS LYS ILE ALA ARG ALA SER SER VAL ASP GLU ALA SEQRES 3 A 443 LEU ILE LYS GLU LEU VAL ARG ASP ILE GLN ARG ALA LEU SEQRES 4 A 443 ILE GLN ALA ASP VAL ASN VAL ARG LEU VAL LEU GLN LEU SEQRES 5 A 443 THR ARG GLU ILE GLN ARG ARG ALA LEU GLU GLU LYS PRO SEQRES 6 A 443 PRO ALA GLY ILE SER LYS LYS GLU HIS ILE ILE LYS ILE SEQRES 7 A 443 VAL TYR GLU GLU LEU THR LYS PHE LEU GLY THR GLU ALA SEQRES 8 A 443 LYS PRO ILE GLU ILE LYS GLU LYS PRO THR ILE LEU LEU SEQRES 9 A 443 MET VAL GLY ILE GLN GLY SER GLY LYS THR THR THR VAL SEQRES 10 A 443 ALA LYS LEU ALA ARG TYR PHE GLN LYS ARG GLY TYR LYS SEQRES 11 A 443 VAL GLY VAL VAL CYS SER ASP THR TRP ARG PRO GLY ALA SEQRES 12 A 443 TYR HIS GLN LEU ARG GLN LEU LEU ASP ARG TYR HIS ILE SEQRES 13 A 443 GLU VAL PHE GLY ASN PRO GLN GLU LYS ASP ALA ILE LYS SEQRES 14 A 443 LEU ALA LYS GLU GLY VAL ASP TYR PHE LYS SER LYS GLY SEQRES 15 A 443 VAL ASP ILE ILE ILE VAL ASP THR ALA GLY ARG HIS LYS SEQRES 16 A 443 GLU ASP LYS ALA LEU ILE GLU GLU MET LYS GLN ILE SER SEQRES 17 A 443 ASN VAL ILE HIS PRO HIS GLU VAL ILE LEU VAL ILE ASP SEQRES 18 A 443 GLY THR ILE GLY GLN GLN ALA TYR ASN GLN ALA LEU ALA SEQRES 19 A 443 PHE LYS GLU ALA THR PRO ILE GLY SER ILE ILE VAL THR SEQRES 20 A 443 LYS LEU ASP GLY SER ALA LYS GLY GLY GLY ALA LEU SER SEQRES 21 A 443 ALA VAL ALA ALA THR GLY ALA PRO ILE LYS PHE ILE GLY SEQRES 22 A 443 THR GLY GLU LYS ILE ASP ASP ILE GLU PRO PHE ASP PRO SEQRES 23 A 443 PRO ARG PHE VAL SER ARG LEU LEU GLY LEU GLY ASP ILE SEQRES 24 A 443 GLN GLY LEU LEU GLU LYS PHE LYS GLU LEU GLU LYS GLU SEQRES 25 A 443 VAL GLU ILE LYS GLU GLU ASP ILE GLU ARG PHE LEU ARG SEQRES 26 A 443 GLY LYS PHE THR LEU LYS ASP MET TYR ALA GLN LEU GLU SEQRES 27 A 443 ALA MET ARG LYS MET GLY PRO LEU LYS GLN ILE LEU ARG SEQRES 28 A 443 MET ILE PRO GLY LEU GLY TYR SER LEU PRO ASP ASP VAL SEQRES 29 A 443 ILE SER ILE GLY GLU GLU ARG LEU LYS LYS PHE LYS VAL SEQRES 30 A 443 ILE MET ASP SER MET THR GLU GLU GLU LEU LEU ASN PRO SEQRES 31 A 443 GLU ILE ILE ASN TYR SER ARG ILE LYS ARG ILE ALA ARG SEQRES 32 A 443 GLY SER GLY THR SER THR LYS ASP VAL LYS GLU LEU LEU SEQRES 33 A 443 ASP GLN TYR ARG GLN MET LYS LYS LEU PHE LYS SER MET SEQRES 34 A 443 ASN LYS ARG GLN LEU SER ARG LEU ALA ARG ARG PHE GLY SEQRES 35 A 443 MET SEQRES 1 B 443 MET VAL LEU ASP ASN LEU GLY LYS ALA LEU ALA ASN THR SEQRES 2 B 443 LEU LYS LYS ILE ALA ARG ALA SER SER VAL ASP GLU ALA SEQRES 3 B 443 LEU ILE LYS GLU LEU VAL ARG ASP ILE GLN ARG ALA LEU SEQRES 4 B 443 ILE GLN ALA ASP VAL ASN VAL ARG LEU VAL LEU GLN LEU SEQRES 5 B 443 THR ARG GLU ILE GLN ARG ARG ALA LEU GLU GLU LYS PRO SEQRES 6 B 443 PRO ALA GLY ILE SER LYS LYS GLU HIS ILE ILE LYS ILE SEQRES 7 B 443 VAL TYR GLU GLU LEU THR LYS PHE LEU GLY THR GLU ALA SEQRES 8 B 443 LYS PRO ILE GLU ILE LYS GLU LYS PRO THR ILE LEU LEU SEQRES 9 B 443 MET VAL GLY ILE GLN GLY SER GLY LYS THR THR THR VAL SEQRES 10 B 443 ALA LYS LEU ALA ARG TYR PHE GLN LYS ARG GLY TYR LYS SEQRES 11 B 443 VAL GLY VAL VAL CYS SER ASP THR TRP ARG PRO GLY ALA SEQRES 12 B 443 TYR HIS GLN LEU ARG GLN LEU LEU ASP ARG TYR HIS ILE SEQRES 13 B 443 GLU VAL PHE GLY ASN PRO GLN GLU LYS ASP ALA ILE LYS SEQRES 14 B 443 LEU ALA LYS GLU GLY VAL ASP TYR PHE LYS SER LYS GLY SEQRES 15 B 443 VAL ASP ILE ILE ILE VAL ASP THR ALA GLY ARG HIS LYS SEQRES 16 B 443 GLU ASP LYS ALA LEU ILE GLU GLU MET LYS GLN ILE SER SEQRES 17 B 443 ASN VAL ILE HIS PRO HIS GLU VAL ILE LEU VAL ILE ASP SEQRES 18 B 443 GLY THR ILE GLY GLN GLN ALA TYR ASN GLN ALA LEU ALA SEQRES 19 B 443 PHE LYS GLU ALA THR PRO ILE GLY SER ILE ILE VAL THR SEQRES 20 B 443 LYS LEU ASP GLY SER ALA LYS GLY GLY GLY ALA LEU SER SEQRES 21 B 443 ALA VAL ALA ALA THR GLY ALA PRO ILE LYS PHE ILE GLY SEQRES 22 B 443 THR GLY GLU LYS ILE ASP ASP ILE GLU PRO PHE ASP PRO SEQRES 23 B 443 PRO ARG PHE VAL SER ARG LEU LEU GLY LEU GLY ASP ILE SEQRES 24 B 443 GLN GLY LEU LEU GLU LYS PHE LYS GLU LEU GLU LYS GLU SEQRES 25 B 443 VAL GLU ILE LYS GLU GLU ASP ILE GLU ARG PHE LEU ARG SEQRES 26 B 443 GLY LYS PHE THR LEU LYS ASP MET TYR ALA GLN LEU GLU SEQRES 27 B 443 ALA MET ARG LYS MET GLY PRO LEU LYS GLN ILE LEU ARG SEQRES 28 B 443 MET ILE PRO GLY LEU GLY TYR SER LEU PRO ASP ASP VAL SEQRES 29 B 443 ILE SER ILE GLY GLU GLU ARG LEU LYS LYS PHE LYS VAL SEQRES 30 B 443 ILE MET ASP SER MET THR GLU GLU GLU LEU LEU ASN PRO SEQRES 31 B 443 GLU ILE ILE ASN TYR SER ARG ILE LYS ARG ILE ALA ARG SEQRES 32 B 443 GLY SER GLY THR SER THR LYS ASP VAL LYS GLU LEU LEU SEQRES 33 B 443 ASP GLN TYR ARG GLN MET LYS LYS LEU PHE LYS SER MET SEQRES 34 B 443 ASN LYS ARG GLN LEU SER ARG LEU ALA ARG ARG PHE GLY SEQRES 35 B 443 MET HET SO4 A 444 5 HET SO4 A 445 5 HET SO4 A 446 5 HET SO4 A 447 5 HET SO4 A 448 5 HET SO4 A 449 5 HET ACT A 450 4 HET GDP A 501 28 HET SO4 B 444 5 HET SO4 B 445 5 HET SO4 B 446 5 HET SO4 B 447 5 HET SO4 B 448 5 HET ACT B 449 4 HET GDP B 501 28 HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 3 SO4 11(O4 S 2-) FORMUL 9 ACT 2(C2 H3 O2 1-) FORMUL 10 GDP 2(C10 H15 N5 O11 P2) FORMUL 18 HOH *142(H2 O) HELIX 1 1 ASP A 4 ALA A 20 1 17 HELIX 2 2 ASP A 24 ALA A 42 1 19 HELIX 3 3 ASN A 45 GLU A 63 1 19 HELIX 4 4 SER A 70 LEU A 87 1 18 HELIX 5 5 GLY A 112 LYS A 126 1 15 HELIX 6 6 PRO A 141 ASP A 152 1 12 HELIX 7 7 ARG A 153 HIS A 155 5 3 HELIX 8 8 ASP A 166 LYS A 181 1 16 HELIX 9 9 ASP A 197 HIS A 212 1 16 HELIX 10 10 THR A 223 GLN A 226 5 4 HELIX 11 11 GLN A 227 ALA A 238 1 12 HELIX 12 12 LYS A 254 ALA A 264 1 11 HELIX 13 13 ASP A 285 LEU A 294 1 10 HELIX 14 14 ASP A 298 LYS A 311 1 14 HELIX 15 15 GLU A 312 ARG A 325 1 14 HELIX 16 16 THR A 329 LYS A 342 1 14 HELIX 17 17 GLY A 368 ASP A 380 1 13 HELIX 18 18 THR A 383 ASN A 389 1 7 HELIX 19 19 PRO A 390 ILE A 393 5 4 HELIX 20 20 ASN A 394 GLY A 406 1 13 HELIX 21 21 SER A 408 SER A 428 1 21 HELIX 22 22 LEU B 3 ARG B 19 1 17 HELIX 23 23 ASP B 24 ALA B 42 1 19 HELIX 24 24 ASN B 45 GLU B 62 1 18 HELIX 25 25 SER B 70 LEU B 87 1 18 HELIX 26 26 GLY B 112 LYS B 126 1 15 HELIX 27 27 GLY B 142 ASP B 152 1 11 HELIX 28 28 ARG B 153 HIS B 155 5 3 HELIX 29 29 ASP B 166 LYS B 181 1 16 HELIX 30 30 ASP B 197 GLU B 202 1 6 HELIX 31 31 MET B 204 HIS B 212 1 9 HELIX 32 32 THR B 223 GLN B 226 5 4 HELIX 33 33 GLN B 227 ALA B 238 1 12 HELIX 34 34 LYS B 254 ALA B 264 1 11 HELIX 35 35 ASP B 285 GLY B 295 1 11 HELIX 36 36 ASP B 298 LYS B 311 1 14 HELIX 37 37 GLU B 312 ARG B 325 1 14 HELIX 38 38 THR B 329 ARG B 341 1 13 HELIX 39 39 GLU B 369 ASP B 380 1 12 HELIX 40 40 THR B 383 ASN B 389 1 7 HELIX 41 41 PRO B 390 ILE B 393 5 4 HELIX 42 42 TYR B 395 GLY B 406 1 12 HELIX 43 43 SER B 408 SER B 428 1 21 SHEET 1 A 8 GLU A 157 PHE A 159 0 SHEET 2 A 8 VAL A 131 CYS A 135 1 N CYS A 135 O PHE A 159 SHEET 3 A 8 ILE A 185 ASP A 189 1 O ASP A 189 N VAL A 134 SHEET 4 A 8 THR A 101 VAL A 106 1 N MET A 105 O VAL A 188 SHEET 5 A 8 GLU A 215 ASP A 221 1 O ILE A 217 N LEU A 104 SHEET 6 A 8 GLY A 242 THR A 247 1 O THR A 247 N ILE A 220 SHEET 7 A 8 ILE A 269 GLY A 273 1 O GLY A 273 N VAL A 246 SHEET 8 A 8 ILE A 281 PRO A 283 -1 O GLU A 282 N ILE A 272 SHEET 1 B 8 GLU B 157 GLY B 160 0 SHEET 2 B 8 VAL B 131 SER B 136 1 N CYS B 135 O PHE B 159 SHEET 3 B 8 ILE B 185 THR B 190 1 O ASP B 189 N VAL B 134 SHEET 4 B 8 THR B 101 GLY B 107 1 N LEU B 103 O VAL B 188 SHEET 5 B 8 GLU B 215 ASP B 221 1 O ILE B 217 N LEU B 104 SHEET 6 B 8 GLY B 242 THR B 247 1 O THR B 247 N ILE B 220 SHEET 7 B 8 ILE B 269 GLY B 273 1 O LYS B 270 N ILE B 244 SHEET 8 B 8 ILE B 281 PRO B 283 -1 O GLU B 282 N ILE B 272 CISPEP 1 GLY A 344 PRO A 345 0 1.45 CISPEP 2 GLY B 344 PRO B 345 0 -0.37 SITE 1 AC1 3 LYS A 126 ARG A 127 ASP A 380 SITE 1 AC2 3 LYS B 126 ARG B 127 ASP B 380 SITE 1 AC3 2 ARG A 288 ARG A 292 SITE 1 AC4 2 ARG A 148 HIS B 145 SITE 1 AC5 2 HIS A 145 ARG B 148 SITE 1 AC6 3 ARG A 33 GLN B 227 ASN B 230 SITE 1 AC7 2 ASP A 197 LYS A 198 SITE 1 AC8 2 LYS B 72 LYS B 311 SITE 1 AC9 3 GLN A 227 ASN A 230 ARG B 33 SITE 1 BC1 2 SER B 70 LYS B 71 SITE 1 BC2 16 GLY A 110 SER A 111 GLY A 112 LYS A 113 SITE 2 BC2 16 THR A 114 THR A 115 LYS A 119 ARG A 140 SITE 3 BC2 16 GLN A 146 LYS A 248 ASP A 250 GLY A 273 SITE 4 BC2 16 THR A 274 GLY A 275 GLU A 276 GLU B 276 SITE 1 BC3 16 GLU A 276 GLY B 110 SER B 111 GLY B 112 SITE 2 BC3 16 LYS B 113 THR B 114 THR B 115 LYS B 119 SITE 3 BC3 16 ARG B 140 GLN B 146 LYS B 248 ASP B 250 SITE 4 BC3 16 GLY B 273 THR B 274 GLY B 275 GLU B 276 CRYST1 127.009 127.009 186.836 90.00 90.00 90.00 P 42 21 2 16 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 0.007873 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007873 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005352 0.00000