HEADER BIOSYNTHETIC PROTEIN 20-MAY-13 3WBJ TITLE CRYSTAL STRUCTURE ANALYSIS OF EUKARYOTIC TRANSLATION INITIATION FACTOR TITLE 2 5B STRUCTURE II COMPND MOL_ID: 1; COMPND 2 MOLECULE: EUKARYOTIC TRANSLATION INITIATION FACTOR 5B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 401-855; COMPND 5 SYNONYM: EIF-5B, TRANSLATION INITIATION FACTOR IF-2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: FUN12, YAL035W; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: B834-CODONPLUS(DE3)-RIL; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PDBHT2 KEYWDS FLEXIBLE, EUKARYOTIC TRANSLATION INITIATION, EIF1A, BIOSYNTHETIC KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.ZHENG,R.YAMAMOTO,T.OSE,J.YU,I.TANAKA,M.YAO REVDAT 4 30-OCT-24 3WBJ 1 REMARK REVDAT 3 08-NOV-23 3WBJ 1 SEQADV REVDAT 2 04-FEB-15 3WBJ 1 JRNL REVDAT 1 19-NOV-14 3WBJ 0 JRNL AUTH A.ZHENG,J.YU,R.YAMAMOTO,T.OSE,I.TANAKA,M.YAO JRNL TITL X-RAY STRUCTURES OF EIF5B AND THE EIF5B-EIF1A COMPLEX: THE JRNL TITL 2 CONFORMATIONAL FLEXIBILITY OF EIF5B IS RESTRICTED ON THE JRNL TITL 3 RIBOSOME BY INTERACTION WITH EIF1A JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 3090 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 25478828 JRNL DOI 10.1107/S1399004714021476 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.39 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.030 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 25766 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.180 REMARK 3 FREE R VALUE TEST SET COUNT : 1851 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 44.3996 - 5.8633 1.00 2021 161 0.2213 0.2668 REMARK 3 2 5.8633 - 4.6555 1.00 1908 135 0.2024 0.2456 REMARK 3 3 4.6555 - 4.0675 1.00 1867 136 0.1789 0.1938 REMARK 3 4 4.0675 - 3.6958 1.00 1858 151 0.2038 0.2776 REMARK 3 5 3.6958 - 3.4310 1.00 1820 152 0.2129 0.2263 REMARK 3 6 3.4310 - 3.2288 1.00 1831 146 0.2217 0.2407 REMARK 3 7 3.2288 - 3.0671 1.00 1835 128 0.2315 0.2916 REMARK 3 8 3.0671 - 2.9336 1.00 1796 155 0.2401 0.3020 REMARK 3 9 2.9336 - 2.8207 1.00 1833 122 0.2278 0.2720 REMARK 3 10 2.8207 - 2.7234 1.00 1819 133 0.2324 0.2552 REMARK 3 11 2.7234 - 2.6383 1.00 1782 158 0.2417 0.2953 REMARK 3 12 2.6383 - 2.5629 1.00 1790 142 0.2397 0.2766 REMARK 3 13 2.5629 - 2.4954 0.97 1755 132 0.2385 0.3077 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.005 3527 REMARK 3 ANGLE : 0.938 4758 REMARK 3 CHIRALITY : 0.032 558 REMARK 3 PLANARITY : 0.004 607 REMARK 3 DIHEDRAL : 14.472 1336 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 1:95) REMARK 3 ORIGIN FOR THE GROUP (A): 50.5119 -19.1693 3.6174 REMARK 3 T TENSOR REMARK 3 T11: 0.3192 T22: 0.2431 REMARK 3 T33: 0.2489 T12: 0.0684 REMARK 3 T13: 0.0129 T23: 0.0174 REMARK 3 L TENSOR REMARK 3 L11: 1.0716 L22: 1.5692 REMARK 3 L33: 1.9915 L12: 0.3955 REMARK 3 L13: -0.1522 L23: 0.2712 REMARK 3 S TENSOR REMARK 3 S11: 0.0002 S12: -0.1406 S13: 0.0328 REMARK 3 S21: 0.1857 S22: 0.0708 S23: 0.0858 REMARK 3 S31: -0.3245 S32: -0.3063 S33: -0.0475 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 96:239) REMARK 3 ORIGIN FOR THE GROUP (A): 61.8731 -17.0090 -2.1971 REMARK 3 T TENSOR REMARK 3 T11: 0.2824 T22: 0.1563 REMARK 3 T33: 0.2504 T12: 0.0296 REMARK 3 T13: -0.0274 T23: -0.0147 REMARK 3 L TENSOR REMARK 3 L11: 0.9694 L22: 1.9563 REMARK 3 L33: 1.0350 L12: -0.2055 REMARK 3 L13: -0.1556 L23: -0.2747 REMARK 3 S TENSOR REMARK 3 S11: -0.0288 S12: -0.0832 S13: 0.1336 REMARK 3 S21: 0.0790 S22: 0.0259 S23: -0.2369 REMARK 3 S31: -0.1438 S32: 0.0444 S33: 0.0247 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 240:354) REMARK 3 ORIGIN FOR THE GROUP (A): 50.4278 -22.0736 28.3731 REMARK 3 T TENSOR REMARK 3 T11: 0.4335 T22: 0.3239 REMARK 3 T33: 0.2827 T12: 0.1141 REMARK 3 T13: 0.0808 T23: 0.0275 REMARK 3 L TENSOR REMARK 3 L11: 1.8413 L22: 2.5993 REMARK 3 L33: 2.7292 L12: 0.1999 REMARK 3 L13: 0.4665 L23: 0.2541 REMARK 3 S TENSOR REMARK 3 S11: -0.0650 S12: -0.1698 S13: -0.0456 REMARK 3 S21: 0.3803 S22: 0.1130 S23: 0.1538 REMARK 3 S31: -0.2600 S32: -0.4468 S33: -0.0524 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 355:435) REMARK 3 ORIGIN FOR THE GROUP (A): 69.6832 -4.1607 29.4324 REMARK 3 T TENSOR REMARK 3 T11: 0.9021 T22: 0.2981 REMARK 3 T33: 0.4111 T12: -0.0280 REMARK 3 T13: -0.0947 T23: -0.0246 REMARK 3 L TENSOR REMARK 3 L11: 1.4765 L22: 3.1388 REMARK 3 L33: 2.4591 L12: 0.3909 REMARK 3 L13: -0.0054 L23: -0.1381 REMARK 3 S TENSOR REMARK 3 S11: 0.2492 S12: -0.3588 S13: 0.2284 REMARK 3 S21: 1.0546 S22: -0.1262 S23: -0.3033 REMARK 3 S31: -0.6460 S32: 0.0035 S33: -0.0750 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 436:455) REMARK 3 ORIGIN FOR THE GROUP (A): 81.3836 2.4933 22.5339 REMARK 3 T TENSOR REMARK 3 T11: 0.6963 T22: 0.4546 REMARK 3 T33: 0.5485 T12: -0.1861 REMARK 3 T13: -0.1352 T23: -0.0118 REMARK 3 L TENSOR REMARK 3 L11: 5.1826 L22: 1.8850 REMARK 3 L33: 1.1756 L12: 2.4102 REMARK 3 L13: 1.3453 L23: 0.4103 REMARK 3 S TENSOR REMARK 3 S11: -0.2115 S12: 0.2928 S13: -0.0152 REMARK 3 S21: -0.0386 S22: 0.0713 S23: -0.2827 REMARK 3 S31: -0.5291 S32: 0.9187 S33: 0.1195 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 3WBJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000096127. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.2 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) : 0.979 REMARK 200 MONOCHROMATOR : ROTATED-INCLINED DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR , SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47589 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.490 REMARK 200 RESOLUTION RANGE LOW (A) : 44.393 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 23.33 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 35.0700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.52000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.260 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: PDB ENTRY 3WBI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL PH 8.0, 40% PEG 400, REMARK 280 0.2M LI2SO4, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K, PH REMARK 280 8.2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.08667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 112.17333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 84.13000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 140.21667 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 28.04333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 56.08667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 112.17333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 140.21667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 84.13000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 28.04333 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 A 586 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 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 GLY A 79 REMARK 465 HIS A 80 REMARK 465 GLU A 81 REMARK 465 THR A 273 REMARK 465 ARG A 285 REMARK 465 GLU A 286 REMARK 465 LEU A 287 REMARK 465 ARG A 288 REMARK 465 LEU A 289 REMARK 465 LYS A 290 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 O GLY A 90 NZ LYS A 122 12545 2.08 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 401 CD - CE - NZ ANGL. DEV. = 15.6 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 ASN A 29 107.68 -44.64 REMARK 500 LYS A 131 36.69 74.10 REMARK 500 PHE A 243 -25.54 -140.28 REMARK 500 MET A 375 32.73 -94.90 REMARK 500 LYS A 376 4.36 55.99 REMARK 500 ALA A 402 83.12 -168.90 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 GLU A 452 GLU A 453 149.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WBI RELATED DB: PDB REMARK 900 RELATED ID: 3WBK RELATED DB: PDB DBREF 3WBJ A 1 455 UNP P39730 IF2P_YEAST 401 855 SEQADV 3WBJ GLY A -3 UNP P39730 EXPRESSION TAG SEQADV 3WBJ SER A -2 UNP P39730 EXPRESSION TAG SEQADV 3WBJ HIS A -1 UNP P39730 EXPRESSION TAG SEQADV 3WBJ MET A 0 UNP P39730 EXPRESSION TAG SEQRES 1 A 459 GLY SER HIS MET LYS ASP LEU ARG SER PRO ILE CYS CYS SEQRES 2 A 459 ILE LEU GLY HIS VAL ASP THR GLY LYS THR LYS LEU LEU SEQRES 3 A 459 ASP LYS ILE ARG GLN THR ASN VAL GLN GLY GLY GLU ALA SEQRES 4 A 459 GLY GLY ILE THR GLN GLN ILE GLY ALA THR TYR PHE PRO SEQRES 5 A 459 ILE ASP ALA ILE LYS ALA LYS THR LYS VAL MET ALA GLU SEQRES 6 A 459 TYR GLU LYS GLN THR PHE ASP VAL PRO GLY LEU LEU VAL SEQRES 7 A 459 ILE ASP THR PRO GLY HIS GLU SER PHE SER ASN LEU ARG SEQRES 8 A 459 SER ARG GLY SER SER LEU CYS ASN ILE ALA ILE LEU VAL SEQRES 9 A 459 ILE ASP ILE MET HIS GLY LEU GLU GLN GLN THR ILE GLU SEQRES 10 A 459 SER ILE LYS LEU LEU ARG ASP ARG LYS ALA PRO PHE VAL SEQRES 11 A 459 VAL ALA LEU ASN LYS ILE ASP ARG LEU TYR ASP TRP LYS SEQRES 12 A 459 ALA ILE PRO ASN ASN SER PHE ARG ASP SER PHE ALA LYS SEQRES 13 A 459 GLN SER ARG ALA VAL GLN GLU GLU PHE GLN SER ARG TYR SEQRES 14 A 459 SER LYS ILE GLN LEU GLU LEU ALA GLU GLN GLY LEU ASN SEQRES 15 A 459 SER GLU LEU TYR PHE GLN ASN LYS ASN MET SER LYS TYR SEQRES 16 A 459 VAL SER ILE VAL PRO THR SER ALA VAL THR GLY GLU GLY SEQRES 17 A 459 VAL PRO ASP LEU LEU TRP LEU LEU LEU GLU LEU THR GLN SEQRES 18 A 459 LYS ARG MET SER LYS GLN LEU MET TYR LEU SER HIS VAL SEQRES 19 A 459 GLU ALA THR ILE LEU GLU VAL LYS VAL VAL GLU GLY PHE SEQRES 20 A 459 GLY THR THR ILE ASP VAL ILE LEU SER ASN GLY TYR LEU SEQRES 21 A 459 ARG GLU GLY ASP ARG ILE VAL LEU CYS GLY MET ASN GLY SEQRES 22 A 459 PRO ILE VAL THR ASN ILE ARG ALA LEU LEU THR PRO GLN SEQRES 23 A 459 PRO LEU ARG GLU LEU ARG LEU LYS SER GLU TYR VAL HIS SEQRES 24 A 459 HIS LYS GLU VAL LYS ALA ALA LEU GLY VAL LYS ILE ALA SEQRES 25 A 459 ALA ASN ASP LEU GLU LYS ALA VAL SER GLY SER ARG LEU SEQRES 26 A 459 LEU VAL VAL GLY PRO GLU ASP ASP GLU ASP GLU LEU MET SEQRES 27 A 459 ASP ASP VAL MET ASP ASP LEU THR GLY LEU LEU ASP SER SEQRES 28 A 459 VAL ASP THR THR GLY LYS GLY VAL VAL VAL GLN ALA SER SEQRES 29 A 459 THR LEU GLY SER LEU GLU ALA LEU LEU ASP PHE LEU LYS SEQRES 30 A 459 ASP MET LYS ILE PRO VAL MET SER ILE GLY LEU GLY PRO SEQRES 31 A 459 VAL TYR LYS ARG ASP VAL MET LYS ALA SER THR MET LEU SEQRES 32 A 459 GLU LYS ALA PRO GLU TYR ALA VAL MET LEU CYS PHE ASP SEQRES 33 A 459 VAL LYS VAL ASP LYS GLU ALA GLU GLN TYR ALA GLU GLN SEQRES 34 A 459 GLU GLY ILE LYS ILE PHE ASN ALA ASP VAL ILE TYR HIS SEQRES 35 A 459 LEU PHE ASP SER PHE THR ALA TYR GLN GLU LYS LEU LEU SEQRES 36 A 459 GLU GLU ARG ARG FORMUL 2 HOH *112(H2 O) HELIX 1 1 GLY A 17 GLN A 27 1 11 HELIX 2 2 ILE A 49 THR A 56 1 8 HELIX 3 3 LYS A 57 ALA A 60 5 4 HELIX 4 4 GLU A 108 ARG A 121 1 14 HELIX 5 5 LYS A 131 LEU A 135 5 5 HELIX 6 6 SER A 145 LYS A 152 1 8 HELIX 7 7 SER A 154 GLN A 175 1 22 HELIX 8 8 PHE A 183 ASN A 185 5 3 HELIX 9 9 GLY A 204 MET A 220 1 17 HELIX 10 10 MET A 220 MET A 225 1 6 HELIX 11 11 ASP A 329 ASP A 346 1 18 HELIX 12 12 THR A 361 MET A 375 1 15 HELIX 13 13 TYR A 388 MET A 393 1 6 HELIX 14 14 LYS A 394 LEU A 399 5 6 HELIX 15 15 ALA A 402 TYR A 405 5 4 HELIX 16 16 ASP A 416 GLU A 426 1 11 HELIX 17 17 VAL A 435 LEU A 451 1 17 SHEET 1 A 8 THR A 39 GLN A 40 0 SHEET 2 A 8 ALA A 44 PRO A 48 -1 O TYR A 46 N THR A 39 SHEET 3 A 8 GLY A 71 ILE A 75 -1 O LEU A 72 N PHE A 47 SHEET 4 A 8 ILE A 7 GLY A 12 1 N CYS A 8 O LEU A 73 SHEET 5 A 8 ILE A 96 ASP A 102 1 O VAL A 100 N LEU A 11 SHEET 6 A 8 PHE A 125 ASN A 130 1 O VAL A 126 N LEU A 99 SHEET 7 A 8 VAL A 192 PRO A 196 1 O VAL A 195 N VAL A 127 SHEET 8 A 8 SER A 179 LEU A 181 1 N GLU A 180 O ILE A 194 SHEET 1 B 2 ASN A 29 VAL A 30 0 SHEET 2 B 2 GLY A 33 GLU A 34 -1 O GLY A 33 N VAL A 30 SHEET 1 C 5 GLU A 231 VAL A 240 0 SHEET 2 C 5 GLY A 244 ASN A 253 -1 O THR A 246 N LYS A 238 SHEET 3 C 5 LEU A 303 ALA A 309 -1 O ILE A 307 N ILE A 247 SHEET 4 C 5 ILE A 275 PRO A 281 -1 N ARG A 276 O ALA A 308 SHEET 5 C 5 TYR A 293 HIS A 296 -1 O VAL A 294 N THR A 280 SHEET 1 D 2 TYR A 255 ARG A 257 0 SHEET 2 D 2 GLU A 298 LYS A 300 -1 O VAL A 299 N LEU A 256 SHEET 1 E 2 ILE A 262 LEU A 264 0 SHEET 2 E 2 LEU A 321 VAL A 323 -1 O LEU A 322 N VAL A 263 SHEET 1 F 4 VAL A 379 LEU A 384 0 SHEET 2 F 4 VAL A 355 ALA A 359 1 N VAL A 355 O MET A 380 SHEET 3 F 4 VAL A 407 PHE A 411 1 O LEU A 409 N VAL A 356 SHEET 4 F 4 LYS A 429 ALA A 433 1 O PHE A 431 N CYS A 410 SSBOND 1 CYS A 9 CYS A 94 1555 1555 2.09 CISPEP 1 ALA A 301 ALA A 302 0 1.00 CRYST1 120.690 120.690 168.260 90.00 90.00 120.00 P 61 2 2 12 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 0.008286 0.004784 0.000000 0.00000 SCALE2 0.000000 0.009567 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005943 0.00000