HEADER PROTEIN TRANSPORT 14-AUG-08 2ZQP TITLE CRYSTAL STRUCTURE OF SECYE TRANSLOCON FROM THERMUS THERMOPHILUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PREPROTEIN TRANSLOCASE SECY SUBUNIT; COMPND 3 CHAIN: Y; COMPND 4 FRAGMENT: RESIDUES 1-434; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PREPROTEIN TRANSLOCASE SECE SUBUNIT; COMPND 9 CHAIN: E; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PTV118N; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 10 ORGANISM_TAXID: 274; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PTV118N KEYWDS TRANSLOCON, SEC, PROTEIN-CONDUCTING-CHANNEL, MEMBRANE, PROTEIN KEYWDS 2 TRANSPORT, TRANSLOCATION, TRANSMEMBRANE, TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR T.TSUKAZAKI,O.NUREKI REVDAT 5 01-NOV-23 2ZQP 1 REMARK REVDAT 4 10-NOV-21 2ZQP 1 SEQADV REVDAT 3 24-FEB-09 2ZQP 1 VERSN REVDAT 2 21-OCT-08 2ZQP 1 JRNL REVDAT 1 14-OCT-08 2ZQP 0 JRNL AUTH T.TSUKAZAKI,H.MORI,S.FUKAI,R.ISHITANI,T.MORI,N.DOHMAE, JRNL AUTH 2 A.PEREDERINA,Y.SUGITA,D.G.VASSYLYEV,K.ITO,O.NUREKI JRNL TITL CONFORMATIONAL TRANSITION OF SEC MACHINERY INFERRED FROM JRNL TITL 2 BACTERIAL SECYE STRUCTURES JRNL REF NATURE V. 455 988 2008 JRNL REFN ISSN 0028-0836 JRNL PMID 18923527 JRNL DOI 10.1038/NATURE07421 REMARK 2 REMARK 2 RESOLUTION. 6.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 6.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 3 NUMBER OF REFLECTIONS : 2616 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) : 0.409 REMARK 3 R VALUE (WORKING SET) : 0.407 REMARK 3 FREE R VALUE : 0.445 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.500 REMARK 3 FREE R VALUE TEST SET COUNT : 123 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) : 6.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 6.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 168 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 83.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 10 REMARK 3 BIN FREE R VALUE : 0.3890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3594 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) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 368.1 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.31000 REMARK 3 B22 (A**2) : 0.31000 REMARK 3 B33 (A**2) : -0.63000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 3.246 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 4.280 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 436.011 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.783 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.729 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3680 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5009 ; 1.420 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 458 ; 7.515 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 146 ;36.285 ;22.397 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 590 ;20.689 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;20.115 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 591 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2741 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2336 ; 0.276 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2501 ; 0.323 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 171 ; 0.234 ; 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): 169 ; 0.494 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.191 ; 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): 2373 ; 0.139 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3679 ; 0.246 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1531 ; 0.255 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1330 ; 0.425 ; 4.500 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2ZQP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000028305. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 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 : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 2743 REMARK 200 RESOLUTION RANGE HIGH (A) : 6.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.4 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: THE SECYE STRUCTURE PRODUCED BY MD SIMULATION REMARK 200 USING 2ZJS STRUCTURE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28.5% PEG 3350, 0.18M NA-CITRATE, REMARK 280 0.015% OCTAETHYLENE GLYCOL MONODODECYL ETHER, 5% GLYCEROL, REMARK 280 0.0001M PEFABLOC, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 2 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,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+1/4 REMARK 290 8555 -Y,-X,-Z+3/4 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 120.28000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 180.42000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 60.14000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 120.28000 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 60.14000 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 180.42000 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: 3540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: Y, E 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: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 48200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: Y, E 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 -91.87600 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 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 LYS Y 248 REMARK 465 VAL Y 249 REMARK 465 VAL Y 250 REMARK 465 GLY Y 251 REMARK 465 GLY Y 252 REMARK 465 ARG Y 253 REMARK 465 VAL Y 254 REMARK 465 SER Y 423 REMARK 465 TYR Y 424 REMARK 465 GLU Y 425 REMARK 465 GLY Y 426 REMARK 465 PHE Y 427 REMARK 465 LEU Y 428 REMARK 465 SER Y 429 REMARK 465 ARG Y 430 REMARK 465 GLY Y 431 REMARK 465 ARG Y 432 REMARK 465 LEU Y 433 REMARK 465 ARG Y 434 REMARK 465 MET E 1 REMARK 465 PHE E 2 REMARK 465 ALA E 3 REMARK 465 ARG E 4 REMARK 465 LEU E 5 REMARK 465 ILE E 6 REMARK 465 ARG E 7 REMARK 465 TYR E 8 REMARK 465 PHE E 9 REMARK 465 GLN E 10 REMARK 465 GLU E 11 REMARK 465 LEU E 58 REMARK 465 LEU E 59 REMARK 465 ARG E 60 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 Y 422 O REMARK 470 GLY E 57 O REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ASP Y 40 N LYS Y 43 2.08 REMARK 500 O GLN Y 45 N LEU Y 48 2.15 REMARK 500 O THR Y 50 N GLY Y 54 2.16 REMARK 500 O THR Y 184 N LEU Y 186 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CB ASP Y 42 O ARG Y 208 5455 1.56 REMARK 500 CA ASP Y 42 O ARG Y 208 5455 1.66 REMARK 500 CG ASP Y 42 O ARG Y 208 5455 2.04 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 PRO Y 309 C - N - CA ANGL. DEV. = 9.9 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 PRO Y 12 18.53 -61.78 REMARK 500 PRO Y 35 -171.06 -54.64 REMARK 500 PRO Y 37 4.62 -49.89 REMARK 500 ASP Y 40 84.77 -53.41 REMARK 500 GLN Y 45 -99.80 -48.46 REMARK 500 GLU Y 46 -1.93 -44.17 REMARK 500 ARG Y 49 42.39 -99.97 REMARK 500 ALA Y 51 35.04 -70.51 REMARK 500 GLN Y 52 -30.99 -155.13 REMARK 500 LEU Y 61 -70.04 -53.44 REMARK 500 PRO Y 79 37.02 -59.54 REMARK 500 ALA Y 96 -16.50 -161.30 REMARK 500 PHE Y 134 -77.23 -98.08 REMARK 500 PRO Y 149 15.81 -67.24 REMARK 500 THR Y 184 -161.23 -51.51 REMARK 500 SER Y 185 -77.39 47.44 REMARK 500 LEU Y 197 -76.37 -118.91 REMARK 500 ILE Y 207 -4.98 -58.77 REMARK 500 VAL Y 212 -141.71 34.67 REMARK 500 GLU Y 238 156.77 176.83 REMARK 500 VAL Y 271 -64.52 -95.60 REMARK 500 PHE Y 291 76.15 -119.29 REMARK 500 PHE Y 303 -71.89 -61.97 REMARK 500 ASN Y 305 106.16 -37.89 REMARK 500 PRO Y 309 -28.88 -25.31 REMARK 500 LEU Y 317 -72.79 -39.84 REMARK 500 ALA Y 328 47.80 -152.08 REMARK 500 VAL Y 329 -61.65 -134.89 REMARK 500 PHE Y 331 40.88 -88.04 REMARK 500 THR Y 368 44.85 -78.78 REMARK 500 THR Y 389 -113.10 -97.12 REMARK 500 ILE Y 394 -25.17 -38.37 REMARK 500 SER Y 397 6.21 -68.47 REMARK 500 LEU Y 402 -32.69 -36.91 REMARK 500 VAL Y 405 -73.22 -58.42 REMARK 500 MET Y 420 37.54 -77.95 REMARK 500 LEU Y 421 -13.91 -141.67 REMARK 500 ARG E 13 60.43 -166.42 REMARK 500 ALA E 14 130.44 -36.76 REMARK 500 ALA E 17 -102.28 -79.65 REMARK 500 ARG E 24 -19.44 -151.35 REMARK 500 GLN E 26 1.47 -59.40 REMARK 500 VAL E 27 -70.83 -40.30 REMARK 500 ALA E 40 21.59 -146.96 REMARK 500 PHE E 52 23.23 -78.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ZJS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SECYE TRANSLOCON FROM THERMUS THERMOPHILUS REMARK 900 WITH A FAB FRAGMENT DBREF 2ZQP Y 1 434 UNP Q8KZP3 Q8KZP3_THETH 1 434 DBREF 2ZQP E 1 60 UNP Q8KZP4 Q8KZP4_THETH 1 60 SEQADV 2ZQP VAL Y 2 UNP Q8KZP3 LEU 2 ENGINEERED MUTATION SEQADV 2ZQP GLY Y 252 UNP Q8KZP3 ARG 252 ENGINEERED MUTATION SEQRES 1 Y 434 MET VAL LYS ALA PHE TRP SER ALA LEU GLN ILE PRO GLU SEQRES 2 Y 434 LEU ARG GLN ARG VAL LEU PHE THR LEU LEU VAL LEU ALA SEQRES 3 Y 434 ALA TYR ARG LEU GLY ALA PHE ILE PRO THR PRO GLY VAL SEQRES 4 Y 434 ASP LEU ASP LYS ILE GLN GLU PHE LEU ARG THR ALA GLN SEQRES 5 Y 434 GLY GLY VAL PHE GLY ILE ILE ASN LEU PHE SER GLY GLY SEQRES 6 Y 434 ASN PHE GLU ARG PHE SER ILE PHE ALA LEU GLY ILE MET SEQRES 7 Y 434 PRO TYR ILE THR ALA ALA ILE ILE MET GLN ILE LEU VAL SEQRES 8 Y 434 THR VAL VAL PRO ALA LEU GLU LYS LEU SER LYS GLU GLY SEQRES 9 Y 434 GLU GLU GLY ARG ARG ILE ILE ASN GLN TYR THR ARG ILE SEQRES 10 Y 434 GLY GLY ILE ALA LEU GLY ALA PHE GLN GLY PHE PHE LEU SEQRES 11 Y 434 ALA THR ALA PHE LEU GLY ALA GLU GLY GLY ARG PHE LEU SEQRES 12 Y 434 LEU PRO GLY TRP SER PRO GLY PRO PHE PHE TRP PHE VAL SEQRES 13 Y 434 VAL VAL VAL THR GLN VAL ALA GLY ILE ALA LEU LEU LEU SEQRES 14 Y 434 TRP MET ALA GLU ARG ILE THR GLU TYR GLY ILE GLY ASN SEQRES 15 Y 434 GLY THR SER LEU ILE ILE PHE ALA GLY ILE VAL VAL GLU SEQRES 16 Y 434 TRP LEU PRO GLN ILE LEU ARG THR ILE GLY LEU ILE ARG SEQRES 17 Y 434 THR GLY GLU VAL ASN LEU VAL ALA PHE LEU PHE PHE LEU SEQRES 18 Y 434 ALA PHE ILE VAL LEU ALA PHE ALA GLY MET ALA ALA VAL SEQRES 19 Y 434 GLN GLN ALA GLU ARG ARG ILE PRO VAL GLN TYR ALA ARG SEQRES 20 Y 434 LYS VAL VAL GLY GLY ARG VAL TYR GLY GLY GLN ALA THR SEQRES 21 Y 434 TYR ILE PRO ILE LYS LEU ASN ALA ALA GLY VAL ILE PRO SEQRES 22 Y 434 ILE ILE PHE ALA ALA ALA ILE LEU GLN ILE PRO ILE PHE SEQRES 23 Y 434 LEU ALA ALA PRO PHE GLN ASP ASN PRO VAL LEU GLN GLY SEQRES 24 Y 434 ILE ALA ASN PHE PHE ASN PRO THR ARG PRO SER GLY LEU SEQRES 25 Y 434 PHE ILE GLU VAL LEU LEU VAL ILE LEU PHE THR TYR VAL SEQRES 26 Y 434 TYR THR ALA VAL GLN PHE ASP PRO LYS ARG ILE ALA GLU SEQRES 27 Y 434 SER LEU ARG GLU TYR GLY GLY PHE ILE PRO GLY ILE ARG SEQRES 28 Y 434 PRO GLY GLU PRO THR VAL LYS PHE LEU GLU HIS ILE VAL SEQRES 29 Y 434 SER ARG LEU THR LEU TRP GLY ALA LEU PHE LEU GLY LEU SEQRES 30 Y 434 VAL THR LEU LEU PRO GLN ILE ILE GLN ASN LEU THR GLY SEQRES 31 Y 434 ILE HIS SER ILE ALA PHE SER GLY ILE GLY LEU LEU ILE SEQRES 32 Y 434 VAL VAL GLY VAL ALA LEU ASP THR LEU ARG GLN VAL GLU SEQRES 33 Y 434 SER GLN LEU MET LEU ARG SER TYR GLU GLY PHE LEU SER SEQRES 34 Y 434 ARG GLY ARG LEU ARG SEQRES 1 E 60 MET PHE ALA ARG LEU ILE ARG TYR PHE GLN GLU ALA ARG SEQRES 2 E 60 ALA GLU LEU ALA ARG VAL THR TRP PRO THR ARG GLU GLN SEQRES 3 E 60 VAL VAL GLU GLY THR GLN ALA ILE LEU LEU PHE THR LEU SEQRES 4 E 60 ALA PHE MET VAL ILE LEU GLY LEU TYR ASP THR VAL PHE SEQRES 5 E 60 ARG PHE LEU ILE GLY LEU LEU ARG HELIX 1 1 LYS Y 3 LEU Y 9 1 7 HELIX 2 2 GLU Y 13 ALA Y 32 1 20 HELIX 3 3 ASP Y 40 LEU Y 48 5 9 HELIX 4 4 GLY Y 53 VAL Y 55 5 3 HELIX 5 5 PHE Y 56 GLY Y 64 1 9 HELIX 6 6 ILE Y 85 LEU Y 90 1 6 HELIX 7 7 ALA Y 96 GLU Y 103 1 8 HELIX 8 8 GLY Y 104 GLY Y 107 5 4 HELIX 9 9 ARG Y 108 GLN Y 126 1 19 HELIX 10 10 GLN Y 126 ALA Y 131 1 6 HELIX 11 11 PHE Y 134 GLY Y 139 1 6 HELIX 12 12 GLY Y 150 ALA Y 163 1 14 HELIX 13 13 GLY Y 164 GLY Y 179 1 16 HELIX 14 14 ASN Y 182 VAL Y 194 1 13 HELIX 15 15 LEU Y 197 GLY Y 210 1 14 HELIX 16 16 VAL Y 215 GLN Y 236 1 22 HELIX 17 17 VAL Y 271 LEU Y 281 1 11 HELIX 18 18 GLN Y 282 LEU Y 287 1 6 HELIX 19 19 VAL Y 296 PHE Y 304 1 9 HELIX 20 20 ARG Y 308 THR Y 327 1 20 HELIX 21 21 PHE Y 331 LEU Y 340 1 10 HELIX 22 22 ARG Y 366 GLN Y 386 1 21 HELIX 23 23 SER Y 393 SER Y 397 5 5 HELIX 24 24 LEU Y 401 MET Y 420 1 20 HELIX 25 25 GLN E 26 GLN E 32 1 7 HELIX 26 26 GLN E 32 PHE E 37 1 6 HELIX 27 27 PHE E 41 PHE E 52 1 12 SHEET 1 A 2 GLN Y 244 TYR Y 245 0 SHEET 2 A 2 GLY Y 345 PHE Y 346 -1 O PHE Y 346 N GLN Y 244 CRYST1 91.876 91.876 240.560 90.00 90.00 90.00 P 43 2 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 0.010884 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010884 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004157 0.00000