3KL4 - Header Asymmetric Unit

HEADER HYDROLASE 06-NOV-09 3KL4

TITLE RECOGNITION OF A SIGNAL PEPTIDE BY THE SIGNAL RECOGNITION PARTICLE

COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL RECOGNITION 54 KDA PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 2-432; COMPND 5 SYNONYM: SRP54; COMPND 6 EC: 3.6.5.4; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: SIGNAL PEPTIDE OF YEAST DIPEPTIDYL AMINOPEPTIDASE B; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: UNP RESIDUES 26-51; COMPND 12 SYNONYM: DPAP B, YSCV; COMPND 13 EC: 3.4.14.-; COMPND 14 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SULFOLOBUS SOLFATARICUS; SOURCE 3 ORGANISM_TAXID: 273057; SOURCE 4 STRAIN: P2; SOURCE 5 GENE: SRP54, SSO0971; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 13 ORGANISM_TAXID: 4932; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3)PLYSS; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET15B

KEYWDS SIGNAL RECOGNITION PARTICLE, SRP, SRP54, FFH, SIGNAL SEQUENCE, SIGNAL KEYWDS 2 PEPTIDE, GTP-BINDING, NUCLEOTIDE-BINDING, RIBONUCLEOPROTEIN, RNA- KEYWDS 3 BINDING, SIGNAL-ANCHOR, TRANSMEMBRANE, HYDROLASE

EXPDTA X-RAY DIFFRACTION

AUTHOR C.Y.JANDA,K.NAGAI,J.LI,C.OUBRIDGE

REVDAT 4 25-SEP-13 3KL4 1 REMARK REVDAT 3 13-JUL-11 3KL4 1 VERSN REVDAT 2 02-JUN-10 3KL4 1 JRNL REVDAT 1 31-MAR-10 3KL4 0

JRNL AUTH C.Y.JANDA,J.LI,C.OUBRIDGE,H.HERNANDEZ,C.V.ROBINSON,K.NAGAI JRNL TITL RECOGNITION OF A SIGNAL PEPTIDE BY THE SIGNAL RECOGNITION JRNL TITL 2 PARTICLE. JRNL REF NATURE V. 465 507 2010 JRNL REFN ISSN 0028-0836 JRNL PMID 20364120 JRNL DOI 10.1038/NATURE08870

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.J.KEENAN,D.M.FREYMANN,P.WALTER,R.M.STROUD REMARK 1 TITL CRYSTAL STRUCTURE OF THE SIGNAL SEQUENCE BINDING SUBUNIT OF REMARK 1 TITL 2 THE SIGNAL RECOGNITION PARTICLE. REMARK 1 REF CELL(CAMBRIDGE,MASS.) V. 94 181 1998 REMARK 1 REFN ISSN 0092-8674 REMARK 1 PMID 9695947 REMARK 1 REFERENCE 2 REMARK 1 AUTH K.R.ROSENDAL,K.WILD,G.MONTOYA,I.SINNING REMARK 1 TITL CRYSTAL STRUCTURE OF THE COMPLETE CORE OF ARCHAEAL SIGNAL REMARK 1 TITL 2 RECOGNITION PARTICLE AND IMPLICATIONS FOR INTERDOMAIN REMARK 1 TITL 3 COMMUNICATION. REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 100 14701 2003 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 14657338 REMARK 1 DOI 10.1073/PNAS.2436132100 REMARK 1 REFERENCE 3 REMARK 1 AUTH R.T.BATEY,R.P.RAMBO,L.LUCAST,B.RHA,J.A.DOUDNA REMARK 1 TITL CRYSTAL STRUCTURE OF THE RIBONUCLEOPROTEIN CORE OF THE REMARK 1 TITL 2 SIGNAL RECOGNITION PARTICLE. REMARK 1 REF SCIENCE V. 287 1232 2000 REMARK 1 REFN ISSN 0036-8075 REMARK 1 PMID 10678824 REMARK 1 REFERENCE 4 REMARK 1 AUTH G.MONTOYA,K.KAAT,R.MOLL,G.SCHAFER,I.SINNING REMARK 1 TITL THE CRYSTAL STRUCTURE OF THE CONSERVED GTPASE OF SRP54 FROM REMARK 1 TITL 2 THE ARCHAEON ACIDIANUS AMBIVALENS AND ITS COMPARISON WITH REMARK 1 TITL 3 RELATED STRUCTURES SUGGESTS A MODEL FOR THE SRP-SRP RECEPTOR REMARK 1 TITL 4 COMPLEX. REMARK 1 REF STRUCTURE V. 8 515 2000 REMARK 1 REFN ISSN 0969-2126 REMARK 1 PMID 10801496 REMARK 1 REFERENCE 5 REMARK 1 AUTH M.HALIC,M.BLAU,T.BECKER,T.MIELKE,M.R.POOL,K.WILD,I.SINNING, REMARK 1 AUTH 2 R.BECKMANN REMARK 1 TITL FOLLOWING THE SIGNAL SEQUENCE FROM RIBOSOMAL TUNNEL EXIT TO REMARK 1 TITL 2 SIGNAL RECOGNITION PARTICLE. REMARK 1 REF NATURE V. 444 507 2006 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 17086193 REMARK 1 DOI 10.1038/NATURE05326

REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.42 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 7640 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) : 0.301 REMARK 3 FREE R VALUE : 0.322 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 392 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.63 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 696 REMARK 3 BIN R VALUE (WORKING SET) : 0.3282 REMARK 3 BIN FREE R VALUE : 0.3676 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 40 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3385 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 103.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 151.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -6.55200 REMARK 3 B22 (A**2) : -6.55200 REMARK 3 B33 (A**2) : 13.10400 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.53 REMARK 3 ESD FROM SIGMAA (A) : 0.46 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) : 0.70 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.65 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.014 REMARK 3 BOND ANGLES (DEGREES) : 1.62 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.12 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.17 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.798 ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.260 ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : 2.702 ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.480 ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 3KL4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-NOV-09. REMARK 100 THE RCSB ID CODE IS RCSB056127.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-06; 23-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : ESRF; ESRF REMARK 200 BEAMLINE : ID14-1; ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934; 1.0065, 1.0090, 0.9185 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE (220); DOUBLE REMARK 200 CRYSTAL, SI(111) OR SI(311) REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210; ADSC QUANTUM REMARK 200 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7683 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 58.420 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 26.700 REMARK 200 R MERGE (I) : 0.08100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 29.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 27.10 REMARK 200 R MERGE FOR SHELL (I) : 0.76200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5-7 % PEG 4000, 100 MM BIS-TRIS, 100 REMARK 280 MM NACL, 5-50 MM MG(OAC)2, 2 % POLYPROPYLENE GLYCOL P400. REMARK 280 CRYSTALS WERE OBTAINED BY SEEDING, PH 5.5, VAPOR DIFFUSION, REMARK 280 TEMPERATURE 295K

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 66.63150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.94150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.94150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 33.31575 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.94150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.94150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 99.94725 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.94150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.94150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 33.31575 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.94150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.94150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 99.94725 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 66.63150 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYMMETRIC UNIT.

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: 970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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 MET A 0 REMARK 465 GLU A 308 REMARK 465 GLU A 309 REMARK 465 TYR A 310 REMARK 465 ASP A 311 REMARK 465 LYS A 312 REMARK 465 ILE A 313 REMARK 465 GLN A 314 REMARK 465 LYS A 315 REMARK 465 LYS A 316 REMARK 465 MET A 317 REMARK 465 GLU A 318 REMARK 465 ASP A 319 REMARK 465 VAL A 320 REMARK 465 MET A 321 REMARK 465 GLU A 322 REMARK 465 GLY A 323 REMARK 465 LYS A 324 REMARK 465 GLY A 325 REMARK 465 LYS A 326 REMARK 465 ALA B 433 REMARK 465 ARG B 434 REMARK 465 SER B 435 REMARK 465 GLY B 436 REMARK 465 SER B 437 REMARK 465 GLY B 438 REMARK 465 SER B 439 REMARK 465 GLY B 440 REMARK 465 SER B 441 REMARK 465 GLY B 442 REMARK 465 SER B 443 REMARK 465 LYS B 444 REMARK 465 LEU B 445 REMARK 465 ILE B 446 REMARK 465 ARG B 447 REMARK 465 VAL B 448 REMARK 465 HIS B 470 REMARK 465 HIS B 471 REMARK 465 HIS B 472 REMARK 465 HIS B 473 REMARK 465 HIS B 474

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 432 CA C O CB CG CD CE REMARK 470 LYS A 432 NZ REMARK 470 HIS B 469 CA C O CB CG ND1 CD2 REMARK 470 HIS B 469 CE1 NE2

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 A 301 CA - CB - CG ANGL. DEV. = 14.2 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 VAL A 63 18.08 52.37 REMARK 500 VAL A 74 -71.69 -55.55 REMARK 500 VAL A 90 -6.80 -56.99 REMARK 500 THR A 93 -83.66 -110.16 REMARK 500 ASP A 141 -71.30 -48.97 REMARK 500 GLN A 161 7.99 51.57 REMARK 500 ALA A 167 -70.67 -59.23 REMARK 500 GLU A 195 -120.18 61.13 REMARK 500 GLU A 204 -70.01 -68.31 REMARK 500 LYS A 210 70.51 52.56 REMARK 500 ALA A 220 0.35 -64.10 REMARK 500 ALA A 226 -16.16 -40.21 REMARK 500 PRO A 238 -7.47 -58.81 REMARK 500 ILE A 239 71.62 -114.08 REMARK 500 LYS A 246 27.50 49.38 REMARK 500 SER A 258 -37.91 -39.33 REMARK 500 THR A 272 39.66 -144.59 REMARK 500 LYS A 275 172.84 -57.10 REMARK 500 ARG A 290 -29.03 -38.74 REMARK 500 MET A 294 -76.37 -34.22 REMARK 500 LEU A 329 -13.98 -48.66 REMARK 500 GLN A 335 -71.74 -59.16 REMARK 500 MET A 342 -134.38 58.43 REMARK 500 PRO A 353 67.45 -68.10 REMARK 500 ILE A 357 -55.67 -120.84 REMARK 500 PRO A 362 -9.82 -57.70 REMARK 500 SER A 383 6.73 -68.43 REMARK 500 GLU A 390 -72.63 -83.85 REMARK 500 ASN A 393 2.13 -69.51 REMARK 500 MET A 430 22.54 -78.93 REMARK 500 TRP B 457 -72.56 -74.48 REMARK 500 LEU B 463 20.67 -62.69 REMARK 500 SER B 465 -7.67 -56.37 REMARK 500 REMARK 500 REMARK: NULL

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2FFH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SIGNAL SEQUENCE BINDING SUBUNIT OF REMARK 900 THE SIGNAL RECOGNITION PARTICLE. REMARK 900 RELATED ID: 1QZX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLETE CORE OF ARCHAEAL SIGNAL REMARK 900 RECOGNITION PARTICLE AND IMPLICATIONS FOR INTERDOMAIN REMARK 900 COMMUNICATION. REMARK 900 RELATED ID: 1QZW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLETE CORE OF ARCHAEAL SIGNAL REMARK 900 RECOGNITION PARTICLE AND IMPLICATIONS FOR INTERDOMAIN REMARK 900 COMMUNICATION. REMARK 900 RELATED ID: 1DUL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE RIBONUCLEOPROTEIN CORE OF THE REMARK 900 SIGNAL RECOGNITION PARTICLE. REMARK 900 RELATED ID: 1J8M RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF THE CONSERVED GTPASE OF SRP54 FROM REMARK 900 THE ARCHAEON ACIDIANUS AMBIVALENS AND ITS COMPARISON WITH REMARK 900 RELATED STRUCTURES SUGGESTS A MODEL FOR THE SRP-SRP REMARK 900 RECEPTOR COMPLEX. REMARK 900 RELATED ID: 2J28 RELATED DB: PDB REMARK 900 FOLLOWING THE SIGNAL SEQUENCE FROM RIBOSOMAL TUNNEL EXIT TO REMARK 900 SIGNAL RECOGNITION PARTICLE.

DBREF 3KL4 A 2 432 UNP Q97ZE7 SRP54_SULSO 2 432 DBREF 3KL4 B 444 469 UNP P18962 DAP2_YEAST 26 51

SEQADV 3KL4 MET A 0 UNP Q97ZE7 EXPRESSION TAG SEQADV 3KL4 GLY A 1 UNP Q97ZE7 EXPRESSION TAG SEQADV 3KL4 ALA B 433 UNP P18962 LINKER SEQADV 3KL4 ARG B 434 UNP P18962 LINKER SEQADV 3KL4 SER B 435 UNP P18962 LINKER SEQADV 3KL4 GLY B 436 UNP P18962 LINKER SEQADV 3KL4 SER B 437 UNP P18962 LINKER SEQADV 3KL4 GLY B 438 UNP P18962 LINKER SEQADV 3KL4 SER B 439 UNP P18962 LINKER SEQADV 3KL4 GLY B 440 UNP P18962 LINKER SEQADV 3KL4 SER B 441 UNP P18962 LINKER SEQADV 3KL4 GLY B 442 UNP P18962 LINKER SEQADV 3KL4 SER B 443 UNP P18962 LINKER SEQADV 3KL4 HIS B 470 UNP P18962 EXPRESSION TAG SEQADV 3KL4 HIS B 471 UNP P18962 EXPRESSION TAG SEQADV 3KL4 HIS B 472 UNP P18962 EXPRESSION TAG SEQADV 3KL4 HIS B 473 UNP P18962 EXPRESSION TAG SEQADV 3KL4 HIS B 474 UNP P18962 EXPRESSION TAG

SEQRES 1 A 433 MET GLY LEU GLU ASN ILE ARG ASP ALA VAL ARG LYS PHE SEQRES 2 A 433 LEU THR GLY SER THR PRO TYR GLU LYS ALA VAL ASP GLU SEQRES 3 A 433 PHE ILE LYS ASP LEU GLN LYS SER LEU ILE SER SER ASP SEQRES 4 A 433 VAL ASN VAL LYS LEU VAL PHE SER LEU THR ALA LYS ILE SEQRES 5 A 433 LYS GLU ARG LEU ASN LYS GLU LYS PRO PRO SER VAL LEU SEQRES 6 A 433 GLU ARG LYS GLU TRP PHE ILE SER ILE VAL TYR ASP GLU SEQRES 7 A 433 LEU SER LYS LEU PHE GLY GLY ASP LYS GLU PRO ASN VAL SEQRES 8 A 433 ASN PRO THR LYS LEU PRO PHE ILE ILE MET LEU VAL GLY SEQRES 9 A 433 VAL GLN GLY SER GLY LYS THR THR THR ALA GLY LYS LEU SEQRES 10 A 433 ALA TYR PHE TYR LYS LYS ARG GLY TYR LYS VAL GLY LEU SEQRES 11 A 433 VAL ALA ALA ASP VAL TYR ARG PRO ALA ALA TYR ASP GLN SEQRES 12 A 433 LEU LEU GLN LEU GLY ASN GLN ILE GLY VAL GLN VAL TYR SEQRES 13 A 433 GLY GLU PRO ASN ASN GLN ASN PRO ILE GLU ILE ALA LYS SEQRES 14 A 433 LYS GLY VAL ASP ILE PHE VAL LYS ASN LYS MET ASP ILE SEQRES 15 A 433 ILE ILE VAL ASP THR ALA GLY ARG HIS GLY TYR GLY GLU SEQRES 16 A 433 GLU THR LYS LEU LEU GLU GLU MET LYS GLU MET TYR ASP SEQRES 17 A 433 VAL LEU LYS PRO ASP ASP VAL ILE LEU VAL ILE ASP ALA SEQRES 18 A 433 SER ILE GLY GLN LYS ALA TYR ASP LEU ALA SER ARG PHE SEQRES 19 A 433 HIS GLN ALA SER PRO ILE GLY SER VAL ILE ILE THR LYS SEQRES 20 A 433 MET ASP GLY THR ALA LYS GLY GLY GLY ALA LEU SER ALA SEQRES 21 A 433 VAL VAL ALA THR GLY ALA THR ILE LYS PHE ILE GLY THR SEQRES 22 A 433 GLY GLU LYS ILE ASP GLU LEU GLU THR PHE ASN ALA LYS SEQRES 23 A 433 ARG PHE VAL SER ARG ILE LEU GLY MET GLY ASP ILE GLU SEQRES 24 A 433 SER ILE LEU GLU LYS VAL LYS GLY LEU GLU GLU TYR ASP SEQRES 25 A 433 LYS ILE GLN LYS LYS MET GLU ASP VAL MET GLU GLY LYS SEQRES 26 A 433 GLY LYS LEU THR LEU ARG ASP VAL TYR ALA GLN ILE ILE SEQRES 27 A 433 ALA LEU ARG LYS MET GLY PRO LEU SER LYS VAL LEU GLN SEQRES 28 A 433 HIS ILE PRO GLY LEU GLY ILE MET LEU PRO THR PRO SER SEQRES 29 A 433 GLU ASP GLN LEU LYS ILE GLY GLU GLU LYS ILE ARG ARG SEQRES 30 A 433 TRP LEU ALA ALA LEU ASN SER MET THR TYR LYS GLU LEU SEQRES 31 A 433 GLU ASN PRO ASN ILE ILE ASP LYS SER ARG MET ARG ARG SEQRES 32 A 433 ILE ALA GLU GLY SER GLY LEU GLU VAL GLU GLU VAL ARG SEQRES 33 A 433 GLU LEU LEU GLU TRP TYR ASN ASN MET ASN ARG LEU LEU SEQRES 34 A 433 LYS MET VAL LYS SEQRES 1 B 42 ALA ARG SER GLY SER GLY SER GLY SER GLY SER LYS LEU SEQRES 2 B 42 ILE ARG VAL GLY ILE ILE LEU VAL LEU LEU ILE TRP GLY SEQRES 3 B 42 THR VAL LEU LEU LEU LYS SER ILE PRO HIS HIS HIS HIS SEQRES 4 B 42 HIS HIS HIS

HELIX 1 1 ASN A 4 LEU A 13 1 10 HELIX 2 2 PRO A 18 SER A 37 1 20 HELIX 3 3 ASN A 40 GLU A 58 1 19 HELIX 4 4 GLU A 65 GLY A 83 1 19 HELIX 5 5 GLY A 108 ARG A 123 1 16 HELIX 6 6 ARG A 136 GLN A 149 1 14 HELIX 7 7 ASN A 162 PHE A 174 1 13 HELIX 8 8 THR A 196 LYS A 210 1 15 HELIX 9 9 SER A 221 LYS A 225 5 5 HELIX 10 10 ALA A 226 SER A 237 1 12 HELIX 11 11 LYS A 246 THR A 250 5 5 HELIX 12 12 LYS A 252 GLY A 264 1 13 HELIX 13 13 ASN A 283 GLY A 293 1 11 HELIX 14 14 GLY A 295 LEU A 307 1 13 HELIX 15 15 THR A 328 MET A 342 1 15 HELIX 16 16 SER A 346 HIS A 351 5 6 HELIX 17 17 PRO A 362 ILE A 369 1 8 HELIX 18 18 ARG A 376 SER A 383 1 8 HELIX 19 19 ASN A 391 ILE A 395 5 5 HELIX 20 20 ASP A 396 GLY A 408 1 13 HELIX 21 21 GLU A 410 MET A 430 1 21 HELIX 22 22 ILE B 451 ILE B 456 1 6 HELIX 23 23 THR B 459 ILE B 466 5 8

SHEET 1 A 8 VAL A 154 TYR A 155 0 SHEET 2 A 8 VAL A 127 ALA A 132 1 N ALA A 131 O TYR A 155 SHEET 3 A 8 ILE A 181 THR A 186 1 O ILE A 183 N VAL A 130 SHEET 4 A 8 PHE A 97 LEU A 101 1 N ILE A 99 O VAL A 184 SHEET 5 A 8 ASP A 213 ASP A 219 1 O ASP A 213 N MET A 100 SHEET 6 A 8 GLY A 240 THR A 245 1 O ILE A 243 N ILE A 218 SHEET 7 A 8 THR A 266 GLY A 271 1 O THR A 266 N VAL A 242 SHEET 8 A 8 LEU A 279 THR A 281 -1 O GLU A 280 N ILE A 270

CISPEP 1 LEU A 95 PRO A 96 0 -0.24

CRYST1 91.883 91.883 133.263 90.00 90.00 90.00 P 41 21 2 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 0.010883 0.000000 0.000000 0.00000

SCALE2 0.000000 0.010883 0.000000 0.00000

SCALE3 0.000000 0.000000 0.007504 0.00000