HEADER TRANSLATION 26-AUG-13 3J4J TITLE MODEL OF FULL-LENGTH T. THERMOPHILUS TRANSLATION INITIATION FACTOR 2 TITLE 2 REFINED AGAINST ITS CRYO-EM DENSITY FROM A 30S INITIATION COMPLEX MAP COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSLATION INITIATION FACTOR IF-2; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8 / ATCC 27634 / DSM 579; SOURCE 5 GENE: INFB, TTHA0699; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IF2, GTP-BINDING PROTEIN, FMET-TRNA BINDING, RIBOSOME BINDING, KEYWDS 2 TRANSLATION EXPDTA ELECTRON MICROSCOPY AUTHOR A.SIMONETTI,S.MARZI,I.M.L.BILLAS,A.TSAI,A.FABBRETTI,A.MYASNIKOV, AUTHOR 2 P.ROBLIN,A.C.VAIANA,I.HAZEMANN,D.EILER,T.A.STEITZ,J.D.PUGLISI, AUTHOR 3 C.O.GUALERZI,B.P.KLAHOLZ REVDAT 4 21-FEB-24 3J4J 1 SEQADV REVDAT 3 18-JUL-18 3J4J 1 REMARK REVDAT 2 09-OCT-13 3J4J 1 JRNL REVDAT 1 25-SEP-13 3J4J 0 JRNL AUTH A.SIMONETTI,S.MARZI,I.M.BILLAS,A.TSAI,A.FABBRETTI, JRNL AUTH 2 A.G.MYASNIKOV,P.ROBLIN,A.C.VAIANA,I.HAZEMANN,D.EILER, JRNL AUTH 3 T.A.STEITZ,J.D.PUGLISI,C.O.GUALERZI,B.P.KLAHOLZ JRNL TITL INVOLVEMENT OF PROTEIN IF2 N DOMAIN IN RIBOSOMAL SUBUNIT JRNL TITL 2 JOINING REVEALED FROM ARCHITECTURE AND FUNCTION OF THE JRNL TITL 3 FULL-LENGTH INITIATION FACTOR. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 15656 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 24029017 JRNL DOI 10.1073/PNAS.1309578110 REMARK 2 REMARK 2 RESOLUTION. 11.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : DIREX, EMAN, IMAGIC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : FLEXIBLE FIT REMARK 3 REFINEMENT TARGET : CROSS-CORRELATION COEFFICIENT REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : METHOD--CROSS-CORRELATION GRADIENT BASED REMARK 3 REFINEMENT PROTOCOL--FLEXIBLE FITTING, DYNAMIC ELASTIC NETWORK REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : 1.920 REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 11.50 REMARK 3 NUMBER OF PARTICLES : 13000 REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 3J4J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000160241. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : VITREOUS ICE (CRYO EM) REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : T. THERMOPHILUS 30S INITIATION REMARK 245 COMPLEX WITH 30S, FMET-TRNA, REMARK 245 IF2-GTP, IF1, AND MRNA; REMARK 245 INITIATION FACTOR 2 REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.50 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : VITRIFICATION CARRIED OUT IN REMARK 245 LIQUID ETHANE REMARK 245 SAMPLE BUFFER : 10 MM HEPES, PH 7.5, 70 MM REMARK 245 NH4CL, 30 MM KCL, 8 MM REMARK 245 MAGNESIUM ACETATE, 1 MM DTT REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 09-OCT-11 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 70.00 REMARK 245 MICROSCOPE MODEL : FEI TECNAI F30 REMARK 245 DETECTOR TYPE : FEI EAGLE (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : -1500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : -3500.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 150.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 59000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 150 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 TYR A 7 CE1 TYR A 7 CZ 0.085 REMARK 500 ARG A 97 CZ ARG A 97 NH2 -0.082 REMARK 500 HIS A 109 CG HIS A 109 CD2 0.057 REMARK 500 TYR A 206 CE1 TYR A 206 CZ 0.080 REMARK 500 ARG A 289 CZ ARG A 289 NH2 -0.079 REMARK 500 ARG A 343 CZ ARG A 343 NH2 -0.081 REMARK 500 ARG A 353 CZ ARG A 353 NH2 -0.094 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LYS A 3 C - N - CA ANGL. DEV. = 17.9 DEGREES REMARK 500 VAL A 4 CA - CB - CG1 ANGL. DEV. = 12.1 DEGREES REMARK 500 ARG A 5 NE - CZ - NH2 ANGL. DEV. = 5.3 DEGREES REMARK 500 TYR A 7 CA - CB - CG ANGL. DEV. = 11.9 DEGREES REMARK 500 TYR A 7 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 TYR A 7 CB - CG - CD1 ANGL. DEV. = 7.2 DEGREES REMARK 500 TYR A 7 CG - CD1 - CE1 ANGL. DEV. = 7.1 DEGREES REMARK 500 TYR A 7 CZ - CE2 - CD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 LEU A 9 CB - CG - CD1 ANGL. DEV. = 11.4 DEGREES REMARK 500 GLY A 14 C - N - CA ANGL. DEV. = 13.7 DEGREES REMARK 500 GLU A 16 O - C - N ANGL. DEV. = -13.2 DEGREES REMARK 500 LEU A 23 O - C - N ANGL. DEV. = 9.8 DEGREES REMARK 500 LEU A 24 CB - CG - CD2 ANGL. DEV. = 10.4 DEGREES REMARK 500 ASP A 25 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 HIS A 34 CE1 - NE2 - CD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 HIS A 34 CG - CD2 - NE2 ANGL. DEV. = -8.7 DEGREES REMARK 500 GLU A 39 OE1 - CD - OE2 ANGL. DEV. = -11.2 DEGREES REMARK 500 ASP A 42 CB - CG - OD1 ANGL. DEV. = 7.3 DEGREES REMARK 500 VAL A 46 CA - CB - CG1 ANGL. DEV. = 13.4 DEGREES REMARK 500 VAL A 46 CA - CB - CG2 ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG A 47 NH1 - CZ - NH2 ANGL. DEV. = -7.3 DEGREES REMARK 500 ARG A 47 NE - CZ - NH1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG A 54 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 GLU A 58 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 GLU A 58 CG - CD - OE2 ANGL. DEV. = 13.0 DEGREES REMARK 500 GLU A 63 OE1 - CD - OE2 ANGL. DEV. = -11.1 DEGREES REMARK 500 GLU A 64 OE1 - CD - OE2 ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG A 65 NE - CZ - NH1 ANGL. DEV. = 8.0 DEGREES REMARK 500 ARG A 65 NE - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ARG A 66 NE - CZ - NH1 ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 66 NE - CZ - NH2 ANGL. DEV. = -6.4 DEGREES REMARK 500 LYS A 67 O - C - N ANGL. DEV. = -10.8 DEGREES REMARK 500 PRO A 70 C - N - CA ANGL. DEV. = 13.8 DEGREES REMARK 500 PRO A 70 O - C - N ANGL. DEV. = -9.7 DEGREES REMARK 500 ARG A 71 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 72 N - CA - CB ANGL. DEV. = -12.3 DEGREES REMARK 500 ARG A 72 CD - NE - CZ ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG A 72 NE - CZ - NH1 ANGL. DEV. = 15.1 DEGREES REMARK 500 ARG A 72 NE - CZ - NH2 ANGL. DEV. = -10.3 DEGREES REMARK 500 ARG A 72 CA - C - O ANGL. DEV. = -12.9 DEGREES REMARK 500 PRO A 73 CA - C - N ANGL. DEV. = 18.1 DEGREES REMARK 500 PRO A 74 CA - N - CD ANGL. DEV. = -9.2 DEGREES REMARK 500 PRO A 74 N - CA - CB ANGL. DEV. = 8.3 DEGREES REMARK 500 PRO A 74 N - CD - CG ANGL. DEV. = 12.5 DEGREES REMARK 500 VAL A 75 CA - CB - CG1 ANGL. DEV. = 11.1 DEGREES REMARK 500 VAL A 76 CA - CB - CG2 ANGL. DEV. = 12.0 DEGREES REMARK 500 ASP A 83 CB - CG - OD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 LEU A 89 CB - CG - CD1 ANGL. DEV. = 11.1 DEGREES REMARK 500 LEU A 89 CB - CG - CD2 ANGL. DEV. = 10.8 DEGREES REMARK 500 LEU A 90 O - C - N ANGL. DEV. = -10.1 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 251 ANGLE DEVIATIONS. 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 SER A 36 152.27 -49.56 REMARK 500 LEU A 60 21.88 -78.04 REMARK 500 PRO A 70 162.07 -24.56 REMARK 500 ARG A 71 138.96 -32.13 REMARK 500 PRO A 73 -102.72 27.17 REMARK 500 VAL A 75 -163.86 -61.95 REMARK 500 ALA A 99 -6.73 -48.34 REMARK 500 GLU A 100 -81.32 -89.94 REMARK 500 THR A 107 45.05 37.65 REMARK 500 GLU A 131 -13.69 25.74 REMARK 500 ALA A 132 6.86 33.96 REMARK 500 ALA A 141 -29.53 -37.30 REMARK 500 ILE A 157 62.72 -62.52 REMARK 500 LYS A 169 -73.03 -29.05 REMARK 500 ALA A 217 33.20 -72.24 REMARK 500 LYS A 218 -35.10 -149.49 REMARK 500 THR A 219 -76.63 -63.74 REMARK 500 ASN A 244 -44.16 -135.43 REMARK 500 ALA A 245 140.41 -25.29 REMARK 500 GLU A 253 167.66 177.23 REMARK 500 LYS A 255 -166.97 -170.66 REMARK 500 GLU A 283 1.64 -66.47 REMARK 500 ASP A 293 -164.91 -105.92 REMARK 500 GLU A 349 -75.03 -18.48 REMARK 500 GLU A 350 -16.29 -45.83 REMARK 500 ALA A 356 -129.58 -93.98 REMARK 500 THR A 357 -103.09 69.95 REMARK 500 MET A 358 -40.68 -18.41 REMARK 500 ALA A 359 78.51 10.19 REMARK 500 ALA A 360 -78.93 -84.53 REMARK 500 LEU A 361 -135.84 -144.11 REMARK 500 ALA A 363 54.47 1.85 REMARK 500 ALA A 364 -8.24 74.72 REMARK 500 MET A 365 37.22 -76.74 REMARK 500 ALA A 366 -7.69 -142.77 REMARK 500 ALA A 370 -0.04 -6.55 REMARK 500 LYS A 371 39.91 -150.13 REMARK 500 GLN A 382 14.75 -58.33 REMARK 500 THR A 396 93.00 -49.31 REMARK 500 THR A 397 -88.95 -121.26 REMARK 500 ASP A 399 -35.75 -0.11 REMARK 500 ALA A 406 121.45 -33.45 REMARK 500 PRO A 412 151.08 -43.94 REMARK 500 PRO A 435 -169.37 -65.33 REMARK 500 ARG A 463 -73.89 -33.90 REMARK 500 ASN A 464 -59.76 -6.78 REMARK 500 LYS A 467 83.51 -67.05 REMARK 500 ALA A 469 -117.17 41.31 REMARK 500 TYR A 474 -2.60 39.08 REMARK 500 GLU A 476 36.11 -81.52 REMARK 500 REMARK 500 THIS ENTRY HAS 69 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 72 PRO A 73 119.94 REMARK 500 PRO A 74 VAL A 75 -132.04 REMARK 500 ALA A 99 GLU A 100 -143.52 REMARK 500 GLU A 102 ALA A 103 -31.14 REMARK 500 ALA A 103 GLY A 104 -37.83 REMARK 500 HIS A 130 GLU A 131 -117.86 REMARK 500 THR A 134 THR A 135 138.29 REMARK 500 GLN A 138 ARG A 139 34.89 REMARK 500 LYS A 142 VAL A 143 -146.89 REMARK 500 ASP A 145 ILE A 146 145.21 REMARK 500 ALA A 173 LYS A 174 142.97 REMARK 500 THR A 219 GLY A 220 -144.51 REMARK 500 ASN A 244 ALA A 245 148.58 REMARK 500 GLU A 348 GLU A 349 144.82 REMARK 500 ALA A 359 ALA A 360 140.97 REMARK 500 LEU A 361 LEU A 362 149.71 REMARK 500 LEU A 362 ALA A 363 -137.94 REMARK 500 GLY A 369 ALA A 370 -138.04 REMARK 500 LEU A 375 ILE A 376 147.04 REMARK 500 ALA A 379 ASP A 380 139.48 REMARK 500 GLN A 382 GLY A 383 -144.80 REMARK 500 GLY A 383 SER A 384 131.10 REMARK 500 GLU A 476 GLU A 477 -148.82 REMARK 500 LEU A 479 GLY A 480 143.86 REMARK 500 GLY A 480 GLN A 481 94.92 REMARK 500 PHE A 488 ARG A 489 143.71 REMARK 500 ASP A 550 GLY A 551 145.44 REMARK 500 GLU A 568 VAL A 569 -115.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 239 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SER A 36 -11.24 REMARK 500 GLU A 40 -13.51 REMARK 500 ARG A 47 17.60 REMARK 500 VAL A 50 -13.81 REMARK 500 ALA A 61 -18.29 REMARK 500 LYS A 67 20.48 REMARK 500 LEU A 69 18.61 REMARK 500 ARG A 71 -22.25 REMARK 500 PRO A 74 15.27 REMARK 500 VAL A 75 -22.81 REMARK 500 VAL A 76 -10.10 REMARK 500 ILE A 78 13.79 REMARK 500 GLY A 80 -20.61 REMARK 500 HIS A 81 -15.46 REMARK 500 ASP A 83 -17.58 REMARK 500 GLY A 85 -24.44 REMARK 500 LEU A 90 20.55 REMARK 500 SER A 96 -11.21 REMARK 500 ALA A 99 20.60 REMARK 500 ALA A 103 -17.61 REMARK 500 THR A 107 12.89 REMARK 500 LYS A 116 18.69 REMARK 500 THR A 117 -12.56 REMARK 500 VAL A 122 -14.70 REMARK 500 GLY A 129 22.31 REMARK 500 ALA A 132 -16.92 REMARK 500 THR A 134 -17.60 REMARK 500 ILE A 136 12.96 REMARK 500 ARG A 137 14.67 REMARK 500 ARG A 139 -12.58 REMARK 500 GLY A 140 -12.37 REMARK 500 ALA A 141 16.90 REMARK 500 ILE A 146 19.34 REMARK 500 ALA A 147 15.43 REMARK 500 ASP A 154 -13.05 REMARK 500 ASP A 155 -10.37 REMARK 500 GLY A 156 16.44 REMARK 500 ILE A 157 20.65 REMARK 500 THR A 161 -14.75 REMARK 500 ALA A 166 -19.07 REMARK 500 HIS A 167 23.98 REMARK 500 LYS A 169 16.45 REMARK 500 ALA A 170 -16.85 REMARK 500 ALA A 171 -13.48 REMARK 500 GLY A 172 -13.67 REMARK 500 LYS A 174 21.26 REMARK 500 LEU A 175 16.65 REMARK 500 ILE A 179 11.06 REMARK 500 GLN A 186 -18.40 REMARK 500 GLU A 204 -17.88 REMARK 500 REMARK 500 THIS ENTRY HAS 148 MAIN CHAIN PLANARITY DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4B3X RELATED DB: PDB REMARK 900 BACTERIAL TRANSLATION INITIATION FACTOR IF2 (1-363), APO FORM REMARK 900 RELATED ID: 4B48 RELATED DB: PDB REMARK 900 BACTERIAL TRANSLATION INITIATION FACTOR IF2 (1-363), COMPLEX WITH REMARK 900 GTP REMARK 900 RELATED ID: 1D1N RELATED DB: PDB REMARK 900 STRUCTURE OF THE FMET-TRNA(FMET)-BINDING DOMAIN OF B. REMARK 900 STEAROTHERMOPHILUS INITIATION FACTOR IF2 REMARK 900 RELATED ID: 4KJZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS IF2, APO AND GDP-BOUND REMARK 900 FORMS (2-474) REMARK 900 RELATED ID: EMD-2448 RELATED DB: EMDB DBREF 3J4J A 1 569 UNP P48515 IF2_THET8 1 569 SEQADV 3J4J ALA A 354 UNP P48515 ARG 354 CONFLICT SEQADV 3J4J ALA A 356 UNP P48515 ARG 356 CONFLICT SEQADV 3J4J ALA A 360 UNP P48515 GLU 360 CONFLICT SEQADV 3J4J ALA A 363 UNP P48515 ARG 363 CONFLICT SEQADV 3J4J ALA A 366 UNP P48515 GLN 366 CONFLICT SEQADV 3J4J ALA A 370 UNP P48515 ARG 370 CONFLICT SEQADV 3J4J ALA A 395 UNP P48515 GLU 395 CONFLICT SEQADV 3J4J THR A 396 UNP P48515 SER 396 CONFLICT SEQADV 3J4J ALA A 406 UNP P48515 LEU 406 CONFLICT SEQADV 3J4J ALA A 469 UNP P48515 GLN 469 CONFLICT SEQRES 1 A 569 MET ALA LYS VAL ARG ILE TYR GLN LEU ALA LYS GLU LEU SEQRES 2 A 569 GLY MET GLU THR GLN GLU LEU LEU GLU LEU LEU ASP GLN SEQRES 3 A 569 MET GLY VAL ALA TYR LYS SER HIS ALA SER THR LEU GLU SEQRES 4 A 569 GLU LYS ASP ALA GLU ALA VAL ARG GLU LEU VAL LYS GLU SEQRES 5 A 569 GLN ARG GLY LEU GLN GLU LYS LEU ALA GLU GLU GLU ARG SEQRES 6 A 569 ARG LYS SER LEU PRO ARG ARG PRO PRO VAL VAL VAL ILE SEQRES 7 A 569 MET GLY HIS VAL ASP HIS GLY LYS THR THR LEU LEU ASP SEQRES 8 A 569 TYR LEU ARG LYS SER ARG ILE ALA GLU LYS GLU ALA GLY SEQRES 9 A 569 GLY ILE THR GLN HIS VAL GLY ALA PHE GLU VAL LYS THR SEQRES 10 A 569 PRO GLN GLY THR VAL VAL PHE ILE ASP THR PRO GLY HIS SEQRES 11 A 569 GLU ALA PHE THR THR ILE ARG GLN ARG GLY ALA LYS VAL SEQRES 12 A 569 ALA ASP ILE ALA VAL ILE VAL ILE ALA ALA ASP ASP GLY SEQRES 13 A 569 ILE MET PRO GLN THR GLU GLU ALA ILE ALA HIS ALA LYS SEQRES 14 A 569 ALA ALA GLY ALA LYS LEU ILE PHE ALA ILE ASN LYS ILE SEQRES 15 A 569 ASP LEU PRO GLN ALA ASP PRO GLU LYS VAL LYS ARG GLN SEQRES 16 A 569 LEU MET GLU ARG GLY PHE VAL PRO GLU GLU TYR GLY GLY SEQRES 17 A 569 ASP ALA ILE VAL ILE PRO ILE SER ALA LYS THR GLY GLN SEQRES 18 A 569 GLY VAL GLN ASP LEU LEU GLU MET ILE LEU LEU LEU ALA SEQRES 19 A 569 GLU LEU GLU ASP TYR ARG ALA ASP PRO ASN ALA GLU PRO SEQRES 20 A 569 ARG GLY VAL ILE LEU GLU SER LYS LEU ASP LYS GLN ALA SEQRES 21 A 569 GLY ILE ILE ALA ASN MET LEU VAL GLN GLU GLY THR PHE SEQRES 22 A 569 ARG VAL GLY ASP TYR VAL VAL ALA GLY GLU ALA TYR GLY SEQRES 23 A 569 ARG ILE ARG ALA MET MET ASP ALA ASP GLY ASN GLN ARG SEQRES 24 A 569 LYS GLU ALA GLY PRO GLY SER ALA VAL GLN VAL LEU GLY SEQRES 25 A 569 PHE GLN GLU LEU PRO HIS ALA GLY ASP VAL VAL GLU TRP SEQRES 26 A 569 VAL PRO ASP LEU GLU ALA ALA LYS GLU ILE ALA GLU GLU SEQRES 27 A 569 ARG LYS GLU GLU ARG LYS ALA ARG GLU GLU GLU GLU LYS SEQRES 28 A 569 ALA ARG ALA PRO ALA THR MET ALA ALA LEU LEU ALA ALA SEQRES 29 A 569 MET ALA GLU GLU GLY ALA LYS GLU LEU ASN LEU ILE LEU SEQRES 30 A 569 ARG ALA ASP THR GLN GLY SER LEU GLU ALA ILE GLN HIS SEQRES 31 A 569 ILE LEU ALA ARG ALA THR THR GLU ASP VAL LYS ILE ASN SEQRES 32 A 569 ILE LEU ALA ALA GLN VAL GLY ALA PRO THR GLU SER ASP SEQRES 33 A 569 VAL LEU LEU ALA GLN THR ALA ASN ALA ALA ILE LEU ALA SEQRES 34 A 569 PHE GLY VAL ASN PRO PRO GLY SER VAL LYS LYS LYS ALA SEQRES 35 A 569 GLU GLU LYS GLY VAL LEU LEU LYS THR PHE ARG ILE ILE SEQRES 36 A 569 TYR ASP LEU VAL ASP GLU VAL ARG ASN MET VAL LYS GLY SEQRES 37 A 569 ALA ARG GLU PRO GLN TYR LYS GLU GLU VAL LEU GLY GLN SEQRES 38 A 569 ALA GLU VAL ARG ALA ILE PHE ARG LEU PRO THR GLY LYS SEQRES 39 A 569 GLN VAL ALA GLY CYS MET VAL THR GLN GLY ARG ILE PRO SEQRES 40 A 569 ARG ASN ALA GLU VAL ARG VAL LEU ARG ASP GLY GLN VAL SEQRES 41 A 569 ILE TRP GLN GLY ARG ILE ALA SER LEU LYS ARG PHE LYS SEQRES 42 A 569 GLU ASP VAL ARG GLU VAL ALA GLN GLY TYR GLU CYS GLY SEQRES 43 A 569 ILE GLY LEU ASP GLY PHE ASP ASP PHE ARG GLU GLY ASP SEQRES 44 A 569 VAL ILE GLU ALA PHE GLN MET VAL GLU VAL HELIX 1 1 ARG A 5 GLY A 14 1 10 HELIX 2 2 GLU A 16 GLY A 28 1 13 HELIX 3 3 GLU A 39 ARG A 66 1 28 HELIX 4 4 GLY A 85 ARG A 97 1 13 HELIX 5 5 MET A 158 ALA A 170 1 13 HELIX 6 6 ASP A 188 GLU A 198 1 11 HELIX 7 7 PRO A 203 GLY A 207 5 5 HELIX 8 8 GLY A 222 GLU A 237 1 16 HELIX 9 9 ASP A 328 GLU A 350 1 23 HELIX 10 10 THR A 381 THR A 396 1 16 HELIX 11 11 SER A 415 ALA A 423 1 9 HELIX 12 12 PRO A 435 GLY A 446 1 12 HELIX 13 13 ILE A 454 ARG A 463 1 10 HELIX 14 14 ASN A 464 VAL A 466 5 3 SHEET 1 A 2 ALA A 112 LYS A 116 0 SHEET 2 A 2 THR A 121 ILE A 125 -1 O PHE A 124 N PHE A 113 SHEET 1 B 3 VAL A 148 ALA A 152 0 SHEET 2 B 3 ILE A 176 ASN A 180 1 O ILE A 176 N ILE A 149 SHEET 3 B 3 ILE A 211 PRO A 214 1 O ILE A 213 N ILE A 179 SHEET 1 C 7 ARG A 248 ASP A 257 0 SHEET 2 C 7 GLY A 261 GLU A 270 -1 O ILE A 263 N LYS A 255 SHEET 3 C 7 ALA A 307 PHE A 313 -1 O VAL A 308 N MET A 266 SHEET 4 C 7 ALA A 284 ASP A 293 -1 N MET A 292 O GLN A 309 SHEET 5 C 7 TYR A 278 ALA A 281 -1 N ALA A 281 O ALA A 284 SHEET 6 C 7 VAL A 322 GLU A 324 -1 O GLU A 324 N VAL A 280 SHEET 7 C 7 ARG A 248 ASP A 257 -1 N GLY A 249 O VAL A 323 SHEET 1 D 2 PHE A 273 ARG A 274 0 SHEET 2 D 2 GLU A 301 ALA A 302 -1 O ALA A 302 N PHE A 273 SHEET 1 E 3 ILE A 404 LEU A 405 0 SHEET 2 E 3 LEU A 375 LEU A 377 1 N LEU A 375 O LEU A 405 SHEET 3 E 3 ALA A 426 LEU A 428 1 O ALA A 426 N ILE A 376 SHEET 1 F 7 VAL A 520 ARG A 525 0 SHEET 2 F 7 GLU A 511 LEU A 515 -1 N VAL A 512 O GLY A 524 SHEET 3 F 7 ILE A 561 PHE A 564 -1 O GLU A 562 N ARG A 513 SHEET 4 F 7 GLY A 480 VAL A 484 -1 N ALA A 482 O ILE A 561 SHEET 5 F 7 ALA A 497 VAL A 501 -1 O MET A 500 N GLU A 483 SHEET 6 F 7 GLY A 546 GLY A 548 -1 O ILE A 547 N ALA A 497 SHEET 7 F 7 SER A 528 LYS A 530 -1 N LYS A 530 O GLY A 546 CISPEP 1 ALA A 2 LYS A 3 0 29.13 CISPEP 2 PRO A 73 PRO A 74 0 -20.45 CISPEP 3 GLY A 104 GLY A 105 0 25.64 CISPEP 4 PRO A 128 GLY A 129 0 7.53 CISPEP 5 ARG A 139 GLY A 140 0 2.41 CISPEP 6 ALA A 352 ARG A 353 0 12.79 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000