HEADER TRANSLATION 02-JUN-14 4TN1 TITLE TRANSLATION INITIATION FACTOR EIF5B (517-858) MUTANT D533R FROM C. TITLE 2 THERMOPHILUM, BOUND TO GTPGAMMAS COMPND MOL_ID: 1; COMPND 2 MOLECULE: EIF5B; COMPND 3 CHAIN: B, A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: G DOMAIN AND DOMAIN II SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHAETOMIUM THERMOPHILUM; SOURCE 3 ORGANISM_TAXID: 209285; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VARIANT: ROSETTA2; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS TRANSLATION, TRANSLATION FACTOR, GTPASE, INITIATION, RIBOSOME EXPDTA X-RAY DIFFRACTION AUTHOR B.KUHLE,R.FICNER REVDAT 6 20-DEC-23 4TN1 1 LINK REVDAT 5 20-FEB-19 4TN1 1 REMARK LINK REVDAT 4 24-FEB-16 4TN1 1 AUTHOR REVDAT 3 24-DEC-14 4TN1 1 DBREF REVDAT 2 19-NOV-14 4TN1 1 JRNL REVDAT 1 24-SEP-14 4TN1 0 JRNL AUTH B.KUHLE,R.FICNER JRNL TITL A MONOVALENT CATION ACTS AS STRUCTURAL AND CATALYTIC JRNL TITL 2 COFACTOR IN TRANSLATIONAL GTPASES. JRNL REF EMBO J. V. 33 2547 2014 JRNL REFN ESSN 1460-2075 JRNL PMID 25225612 JRNL DOI 10.15252/EMBJ.201488517 REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1690) 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) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 21700 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1085 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 47.5050 - 5.4975 1.00 2753 145 0.2001 0.2270 REMARK 3 2 5.4975 - 4.3645 1.00 2622 138 0.1704 0.2178 REMARK 3 3 4.3645 - 3.8130 1.00 2575 136 0.1820 0.2368 REMARK 3 4 3.8130 - 3.4645 1.00 2561 135 0.2027 0.2629 REMARK 3 5 3.4645 - 3.2163 1.00 2538 133 0.2343 0.2954 REMARK 3 6 3.2163 - 3.0267 1.00 2533 134 0.2474 0.2991 REMARK 3 7 3.0267 - 2.8751 1.00 2538 132 0.2677 0.3756 REMARK 3 8 2.8751 - 2.7500 0.99 2495 132 0.2898 0.3763 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) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.470 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 58.35 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.48 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 5302 REMARK 3 ANGLE : 1.031 7164 REMARK 3 CHIRALITY : 0.040 820 REMARK 3 PLANARITY : 0.005 919 REMARK 3 DIHEDRAL : 16.370 2028 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 517 THROUGH 535 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.5648 -31.7505 -14.8006 REMARK 3 T TENSOR REMARK 3 T11: 0.3217 T22: 0.3858 REMARK 3 T33: 0.4290 T12: 0.0608 REMARK 3 T13: -0.0604 T23: -0.0637 REMARK 3 L TENSOR REMARK 3 L11: 5.6542 L22: 1.5144 REMARK 3 L33: 2.2547 L12: 1.2340 REMARK 3 L13: 2.9098 L23: 0.4152 REMARK 3 S TENSOR REMARK 3 S11: -0.4661 S12: 0.9380 S13: 0.9225 REMARK 3 S21: 0.0082 S22: 0.3315 S23: -0.3321 REMARK 3 S31: 0.2128 S32: 0.6281 S33: -0.1969 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 536 THROUGH 753 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.2789 -26.0972 -14.8406 REMARK 3 T TENSOR REMARK 3 T11: 0.4603 T22: 0.2917 REMARK 3 T33: 0.5654 T12: 0.0269 REMARK 3 T13: 0.0445 T23: -0.0358 REMARK 3 L TENSOR REMARK 3 L11: 4.8743 L22: 2.0041 REMARK 3 L33: 1.5407 L12: -1.4370 REMARK 3 L13: -0.9306 L23: 0.8052 REMARK 3 S TENSOR REMARK 3 S11: 0.0350 S12: -0.2656 S13: 1.0078 REMARK 3 S21: 0.1351 S22: 0.1252 S23: -0.3460 REMARK 3 S31: -0.3268 S32: -0.0525 S33: -0.1271 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 754 THROUGH 846 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.1821 -45.7542 -22.3360 REMARK 3 T TENSOR REMARK 3 T11: 0.3684 T22: 0.3338 REMARK 3 T33: 0.3143 T12: -0.0164 REMARK 3 T13: -0.0008 T23: -0.0360 REMARK 3 L TENSOR REMARK 3 L11: 3.1707 L22: 4.4719 REMARK 3 L33: 2.3858 L12: 0.0710 REMARK 3 L13: -0.8296 L23: -1.3546 REMARK 3 S TENSOR REMARK 3 S11: 0.0610 S12: 0.0915 S13: 0.0596 REMARK 3 S21: -0.1629 S22: 0.1528 S23: -0.3166 REMARK 3 S31: -0.1352 S32: -0.0908 S33: -0.2067 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 516 THROUGH 535 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.7400 -64.1395 -39.3854 REMARK 3 T TENSOR REMARK 3 T11: 0.2657 T22: 0.7620 REMARK 3 T33: 0.3649 T12: -0.0267 REMARK 3 T13: 0.0028 T23: -0.1542 REMARK 3 L TENSOR REMARK 3 L11: 1.4205 L22: 1.0846 REMARK 3 L33: 2.4033 L12: 0.2348 REMARK 3 L13: 0.0150 L23: 0.4688 REMARK 3 S TENSOR REMARK 3 S11: 0.1093 S12: 0.2559 S13: -0.1032 REMARK 3 S21: -0.0400 S22: -0.4508 S23: 0.4797 REMARK 3 S31: 0.3100 S32: -0.1854 S33: 0.0276 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 536 THROUGH 652 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.8547 -57.9595 -36.7583 REMARK 3 T TENSOR REMARK 3 T11: 0.2802 T22: 0.7339 REMARK 3 T33: 0.3344 T12: -0.1375 REMARK 3 T13: 0.0258 T23: -0.0726 REMARK 3 L TENSOR REMARK 3 L11: 2.3769 L22: 2.0076 REMARK 3 L33: 1.2589 L12: 0.2967 REMARK 3 L13: 0.3658 L23: -0.2731 REMARK 3 S TENSOR REMARK 3 S11: -0.0746 S12: 0.0862 S13: 0.1008 REMARK 3 S21: -0.0704 S22: 0.0000 S23: -0.0472 REMARK 3 S31: -0.0384 S32: -0.5981 S33: 0.1040 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 653 THROUGH 735 ) REMARK 3 ORIGIN FOR THE GROUP (A): -43.0432 -54.5461 -40.7057 REMARK 3 T TENSOR REMARK 3 T11: 0.3910 T22: 1.3015 REMARK 3 T33: 0.5891 T12: -0.0191 REMARK 3 T13: -0.0296 T23: -0.1562 REMARK 3 L TENSOR REMARK 3 L11: 1.6389 L22: 1.1215 REMARK 3 L33: 0.9713 L12: 0.7954 REMARK 3 L13: -0.0342 L23: -0.0063 REMARK 3 S TENSOR REMARK 3 S11: 0.1256 S12: 0.4507 S13: 0.1278 REMARK 3 S21: -0.1351 S22: -0.2981 S23: 0.6640 REMARK 3 S31: -0.2241 S32: -1.2107 S33: 0.1702 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 736 THROUGH 757 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.7314 -69.5017 -42.7757 REMARK 3 T TENSOR REMARK 3 T11: 0.4531 T22: 0.5663 REMARK 3 T33: 0.3298 T12: -0.1341 REMARK 3 T13: 0.1025 T23: 0.0156 REMARK 3 L TENSOR REMARK 3 L11: 3.6166 L22: 1.9788 REMARK 3 L33: 1.7497 L12: 1.2496 REMARK 3 L13: 1.5575 L23: 0.3585 REMARK 3 S TENSOR REMARK 3 S11: 0.1720 S12: -0.1220 S13: -0.6854 REMARK 3 S21: -0.0824 S22: 0.0662 S23: -0.4081 REMARK 3 S31: 0.4612 S32: -0.4407 S33: 0.1355 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 758 THROUGH 845 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.2406 -70.4430 -31.8495 REMARK 3 T TENSOR REMARK 3 T11: 0.4022 T22: 0.4562 REMARK 3 T33: 0.3849 T12: -0.1241 REMARK 3 T13: 0.0074 T23: 0.0128 REMARK 3 L TENSOR REMARK 3 L11: 3.9426 L22: 2.9381 REMARK 3 L33: 2.4847 L12: -0.4907 REMARK 3 L13: -1.0532 L23: -0.1929 REMARK 3 S TENSOR REMARK 3 S11: 0.1191 S12: -0.4833 S13: -0.0927 REMARK 3 S21: 0.1564 S22: -0.1165 S23: -0.0600 REMARK 3 S31: 0.2077 S32: -0.0701 S33: -0.0344 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN A REMARK 3 SELECTION : CHAIN B REMARK 3 ATOM PAIRS NUMBER : 3062 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4TN1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1000201891. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAY-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS, XSCALE REMARK 200 DATA SCALING SOFTWARE : XSCALE 2.5.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21704 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.3500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.56800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4NCN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES, PEG 8000, NAOAC, PH 6.7, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 59.90000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 57.84500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 57.84500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 29.95000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 57.84500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 57.84500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 89.85000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 57.84500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.84500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 29.95000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 57.84500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.84500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 89.85000 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 59.90000 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 300 REMARK: THE BIOLOGICAL UNIT IS A MONOMER. THERE ARE 2 FRAGMENTS OF REMARK 300 THE BIOLOGICAL UNIT IN THE ASYMMETRIC UNIT (CHAINS A & B) 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: 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 REMARK 350 BIOMOLECULE: 2 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 400 REMARK 400 COMPOUND REMARK 400 THE ACCESSION NUMBER ON NCBI FOR THE CORRESPONDING GENE IS XP_ REMARK 400 006693439 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 B 514 REMARK 465 HIS B 515 REMARK 465 MET B 516 REMARK 465 ASP B 847 REMARK 465 GLU B 848 REMARK 465 GLU B 849 REMARK 465 GLU B 850 REMARK 465 LEU B 851 REMARK 465 GLU B 852 REMARK 465 GLU B 853 REMARK 465 GLU B 854 REMARK 465 VAL B 855 REMARK 465 GLU B 856 REMARK 465 SER B 857 REMARK 465 ASP B 858 REMARK 465 GLY A 514 REMARK 465 HIS A 515 REMARK 465 ASP A 846 REMARK 465 ASP A 847 REMARK 465 GLU A 848 REMARK 465 GLU A 849 REMARK 465 GLU A 850 REMARK 465 LEU A 851 REMARK 465 GLU A 852 REMARK 465 GLU A 853 REMARK 465 GLU A 854 REMARK 465 VAL A 855 REMARK 465 GLU A 856 REMARK 465 SER A 857 REMARK 465 ASP A 858 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 B 518 CD CE NZ REMARK 470 LYS A 518 CD CE NZ REMARK 470 LYS A 704 CD CE NZ REMARK 470 ARG A 708 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 845 OD1 OD2 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 SG CYS B 527 CB CYS B 612 1.77 REMARK 500 O HIS B 531 OG1 THR B 534 1.97 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 SG CYS B 783 SG CYS A 783 3445 1.44 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 PHE A 601 54.99 -99.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 902 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 537 OG1 REMARK 620 2 THR B 557 OG1 87.3 REMARK 620 3 GSP B 901 O3G 175.6 88.3 REMARK 620 4 GSP B 901 O2B 95.6 157.7 88.7 REMARK 620 5 HOH B1029 O 84.9 72.3 94.6 86.0 REMARK 620 6 HOH B1030 O 81.6 96.0 98.0 106.3 162.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 902 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 537 OG1 REMARK 620 2 THR A 557 OG1 98.7 REMARK 620 3 GSP A 901 O3G 169.6 89.1 REMARK 620 4 GSP A 901 O2B 86.5 173.0 86.3 REMARK 620 5 HOH A1015 O 88.1 88.9 99.0 86.6 REMARK 620 6 HOH A1016 O 83.4 91.5 89.5 93.7 171.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GSP B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GSP A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 902 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4TMT RELATED DB: PDB REMARK 900 RELATED ID: 4TMV RELATED DB: PDB REMARK 900 RELATED ID: 4TMW RELATED DB: PDB REMARK 900 RELATED ID: 4TMX RELATED DB: PDB REMARK 900 RELATED ID: 4TMZ RELATED DB: PDB DBREF 4TN1 A 514 858 PDB 4TN1 4TN1 514 858 DBREF 4TN1 B 514 858 PDB 4TN1 4TN1 514 858 SEQRES 1 B 345 GLY HIS MET ASN LYS ASP ASN LEU ARG SER PRO ILE CYS SEQRES 2 B 345 CYS ILE LEU GLY HIS VAL ARG THR GLY LYS THR LYS LEU SEQRES 3 B 345 LEU ASP LYS ILE ARG GLN THR ASN VAL GLN GLU GLY GLU SEQRES 4 B 345 ALA GLY GLY ILE THR GLN GLN ILE GLY ALA THR TYR PHE SEQRES 5 B 345 PRO VAL GLU ALA ILE LYS GLN LYS THR ALA VAL VAL ASN SEQRES 6 B 345 LYS ASP GLY LYS PHE GLU PHE LYS VAL PRO GLY LEU LEU SEQRES 7 B 345 ILE ILE ASP THR PRO GLY HIS GLU SER PHE SER ASN LEU SEQRES 8 B 345 ARG SER ARG GLY SER SER LEU CYS ASN ILE ALA ILE LEU SEQRES 9 B 345 VAL VAL ASP ILE MET HIS GLY LEU GLU PRO GLN THR ILE SEQRES 10 B 345 GLU SER LEU ARG LEU LEU ARG GLU ARG LYS THR PRO PHE SEQRES 11 B 345 VAL VAL ALA LEU ASN LYS ILE ASP ARG LEU TYR GLY TRP SEQRES 12 B 345 LYS LYS ILE GLU ASN ASN GLY PHE ARG GLU SER PHE ALA SEQRES 13 B 345 LEU GLN ASN LYS ALA VAL GLN ASN GLU PHE ARG ASN ARG SEQRES 14 B 345 LEU ASP GLN VAL LYS LEU GLN PHE ALA GLU GLN GLY PHE SEQRES 15 B 345 ASN SER GLU LEU PHE TYR GLU ASN LYS ASN PHE ALA ARG SEQRES 16 B 345 TYR VAL SER LEU VAL PRO THR SER ALA HIS THR GLY GLU SEQRES 17 B 345 GLY ILE PRO ASP MET LEU LYS LEU ILE VAL GLN LEU CYS SEQRES 18 B 345 GLN GLU ARG MET ALA SER SER LEU MET TYR LEU SER GLU SEQRES 19 B 345 LEU GLN ALA THR VAL LEU GLU VAL LYS ALA ILE GLU GLY SEQRES 20 B 345 PHE GLY VAL THR ILE ASP VAL ILE LEU SER ASN GLY ILE SEQRES 21 B 345 LEU ARG GLU GLY ASP ARG ILE VAL LEU CYS GLY LEU GLU SEQRES 22 B 345 GLY PRO ILE LYS THR ASN ILE ARG ALA LEU LEU THR PRO SEQRES 23 B 345 ALA PRO MET ARG GLU LEU ARG ILE LYS GLY GLN TYR ILE SEQRES 24 B 345 HIS HIS LYS GLU VAL LYS ALA ALA GLN GLY VAL LYS ILE SEQRES 25 B 345 SER ALA PRO GLY LEU GLU GLY ALA ILE ALA GLY SER ARG SEQRES 26 B 345 LEU LEU VAL VAL GLY PRO ASP ASP ASP GLU GLU GLU LEU SEQRES 27 B 345 GLU GLU GLU VAL GLU SER ASP SEQRES 1 A 345 GLY HIS MET ASN LYS ASP ASN LEU ARG SER PRO ILE CYS SEQRES 2 A 345 CYS ILE LEU GLY HIS VAL ARG THR GLY LYS THR LYS LEU SEQRES 3 A 345 LEU ASP LYS ILE ARG GLN THR ASN VAL GLN GLU GLY GLU SEQRES 4 A 345 ALA GLY GLY ILE THR GLN GLN ILE GLY ALA THR TYR PHE SEQRES 5 A 345 PRO VAL GLU ALA ILE LYS GLN LYS THR ALA VAL VAL ASN SEQRES 6 A 345 LYS ASP GLY LYS PHE GLU PHE LYS VAL PRO GLY LEU LEU SEQRES 7 A 345 ILE ILE ASP THR PRO GLY HIS GLU SER PHE SER ASN LEU SEQRES 8 A 345 ARG SER ARG GLY SER SER LEU CYS ASN ILE ALA ILE LEU SEQRES 9 A 345 VAL VAL ASP ILE MET HIS GLY LEU GLU PRO GLN THR ILE SEQRES 10 A 345 GLU SER LEU ARG LEU LEU ARG GLU ARG LYS THR PRO PHE SEQRES 11 A 345 VAL VAL ALA LEU ASN LYS ILE ASP ARG LEU TYR GLY TRP SEQRES 12 A 345 LYS LYS ILE GLU ASN ASN GLY PHE ARG GLU SER PHE ALA SEQRES 13 A 345 LEU GLN ASN LYS ALA VAL GLN ASN GLU PHE ARG ASN ARG SEQRES 14 A 345 LEU ASP GLN VAL LYS LEU GLN PHE ALA GLU GLN GLY PHE SEQRES 15 A 345 ASN SER GLU LEU PHE TYR GLU ASN LYS ASN PHE ALA ARG SEQRES 16 A 345 TYR VAL SER LEU VAL PRO THR SER ALA HIS THR GLY GLU SEQRES 17 A 345 GLY ILE PRO ASP MET LEU LYS LEU ILE VAL GLN LEU CYS SEQRES 18 A 345 GLN GLU ARG MET ALA SER SER LEU MET TYR LEU SER GLU SEQRES 19 A 345 LEU GLN ALA THR VAL LEU GLU VAL LYS ALA ILE GLU GLY SEQRES 20 A 345 PHE GLY VAL THR ILE ASP VAL ILE LEU SER ASN GLY ILE SEQRES 21 A 345 LEU ARG GLU GLY ASP ARG ILE VAL LEU CYS GLY LEU GLU SEQRES 22 A 345 GLY PRO ILE LYS THR ASN ILE ARG ALA LEU LEU THR PRO SEQRES 23 A 345 ALA PRO MET ARG GLU LEU ARG ILE LYS GLY GLN TYR ILE SEQRES 24 A 345 HIS HIS LYS GLU VAL LYS ALA ALA GLN GLY VAL LYS ILE SEQRES 25 A 345 SER ALA PRO GLY LEU GLU GLY ALA ILE ALA GLY SER ARG SEQRES 26 A 345 LEU LEU VAL VAL GLY PRO ASP ASP ASP GLU GLU GLU LEU SEQRES 27 A 345 GLU GLU GLU VAL GLU SER ASP HET GSP B 901 32 HET MG B 902 1 HET GSP A 901 32 HET MG A 902 1 HETNAM GSP 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 GSP 2(C10 H16 N5 O13 P3 S) FORMUL 4 MG 2(MG 2+) FORMUL 7 HOH *48(H2 O) HELIX 1 AA1 GLY B 535 GLN B 545 1 11 HELIX 2 AA2 ASN B 547 GLU B 552 1 6 HELIX 3 AA3 ALA B 553 ILE B 556 5 4 HELIX 4 AA4 VAL B 567 THR B 574 1 8 HELIX 5 AA5 ALA B 575 ASN B 578 5 4 HELIX 6 AA6 PHE B 601 CYS B 612 1 12 HELIX 7 AA7 GLU B 626 ARG B 639 1 14 HELIX 8 AA8 LYS B 649 LEU B 653 5 5 HELIX 9 AA9 GLY B 663 GLN B 671 1 9 HELIX 10 AB1 ASN B 672 GLN B 693 1 22 HELIX 11 AB2 TYR B 701 ASN B 703 5 3 HELIX 12 AB3 GLY B 722 ARG B 737 1 16 HELIX 13 AB4 ALA B 739 TYR B 744 5 6 HELIX 14 AB5 GLY A 535 GLN A 545 1 11 HELIX 15 AB6 ASN A 547 GLU A 552 1 6 HELIX 16 AB7 ALA A 553 ILE A 556 5 4 HELIX 17 AB8 VAL A 567 THR A 574 1 8 HELIX 18 AB9 ALA A 575 ASN A 578 5 4 HELIX 19 AC1 PHE A 601 CYS A 612 1 12 HELIX 20 AC2 GLU A 626 ARG A 639 1 14 HELIX 21 AC3 LYS A 649 LEU A 653 5 5 HELIX 22 AC4 GLY A 663 GLN A 671 1 9 HELIX 23 AC5 ASN A 672 GLN A 693 1 22 HELIX 24 AC6 GLY A 722 GLU A 736 1 15 HELIX 25 AC7 ALA A 739 TYR A 744 5 6 SHEET 1 AA1 7 GLY B 561 PRO B 566 0 SHEET 2 AA1 7 GLY B 589 ASP B 594 -1 O ILE B 592 N THR B 563 SHEET 3 AA1 7 ILE B 525 GLY B 530 1 N CYS B 526 O ILE B 593 SHEET 4 AA1 7 ILE B 614 ASP B 620 1 O VAL B 618 N LEU B 529 SHEET 5 AA1 7 PHE B 643 ASN B 648 1 O ALA B 646 N VAL B 619 SHEET 6 AA1 7 VAL B 710 PRO B 714 1 O VAL B 713 N VAL B 645 SHEET 7 AA1 7 SER B 697 LEU B 699 1 N GLU B 698 O VAL B 710 SHEET 1 AA2 8 PRO B 788 ASN B 792 0 SHEET 2 AA2 8 ARG B 779 CYS B 783 -1 N LEU B 782 O ILE B 789 SHEET 3 AA2 8 ARG B 838 VAL B 842 -1 O VAL B 842 N ARG B 779 SHEET 4 AA2 8 GLN B 749 ILE B 758 -1 N ALA B 750 O LEU B 839 SHEET 5 AA2 8 GLY B 762 ASN B 771 -1 O ILE B 768 N THR B 751 SHEET 6 AA2 8 GLN B 821 SER B 826 -1 O VAL B 823 N VAL B 767 SHEET 7 AA2 8 ALA B 795 THR B 798 -1 N LEU B 797 O LYS B 824 SHEET 8 AA2 8 ILE B 812 HIS B 814 -1 O HIS B 814 N LEU B 796 SHEET 1 AA3 2 ILE B 773 ARG B 775 0 SHEET 2 AA3 2 GLU B 816 LYS B 818 -1 O VAL B 817 N LEU B 774 SHEET 1 AA4 7 GLY A 561 PRO A 566 0 SHEET 2 AA4 7 GLY A 589 ASP A 594 -1 O ILE A 592 N THR A 563 SHEET 3 AA4 7 ILE A 525 GLY A 530 1 N CYS A 526 O LEU A 591 SHEET 4 AA4 7 ILE A 614 ASP A 620 1 O ILE A 616 N CYS A 527 SHEET 5 AA4 7 PHE A 643 ASN A 648 1 O ALA A 646 N VAL A 619 SHEET 6 AA4 7 VAL A 710 PRO A 714 1 O VAL A 713 N VAL A 645 SHEET 7 AA4 7 SER A 697 LEU A 699 1 N GLU A 698 O VAL A 710 SHEET 1 AA5 8 PRO A 788 ASN A 792 0 SHEET 2 AA5 8 ARG A 779 CYS A 783 -1 N LEU A 782 O ILE A 789 SHEET 3 AA5 8 ARG A 838 VAL A 841 -1 O LEU A 840 N VAL A 781 SHEET 4 AA5 8 GLN A 749 ALA A 757 -1 N ALA A 750 O LEU A 839 SHEET 5 AA5 8 VAL A 763 ASN A 771 -1 O ILE A 768 N THR A 751 SHEET 6 AA5 8 GLN A 821 SER A 826 -1 O VAL A 823 N VAL A 767 SHEET 7 AA5 8 ALA A 795 PRO A 799 -1 N LEU A 797 O LYS A 824 SHEET 8 AA5 8 TYR A 811 HIS A 813 -1 O ILE A 812 N THR A 798 SHEET 1 AA6 2 ILE A 773 ARG A 775 0 SHEET 2 AA6 2 GLU A 816 LYS A 818 -1 O VAL A 817 N LEU A 774 SSBOND 1 CYS B 527 CYS B 612 1555 1555 2.24 LINK OG1 THR B 537 MG MG B 902 1555 1555 1.94 LINK OG1 THR B 557 MG MG B 902 1555 1555 2.34 LINK O3G GSP B 901 MG MG B 902 1555 1555 1.91 LINK O2B GSP B 901 MG MG B 902 1555 1555 1.88 LINK MG MG B 902 O HOH B1029 1555 1555 2.18 LINK MG MG B 902 O HOH B1030 1555 1555 1.99 LINK OG1 THR A 537 MG MG A 902 1555 1555 1.92 LINK OG1 THR A 557 MG MG A 902 1555 1555 2.05 LINK O3G GSP A 901 MG MG A 902 1555 1555 1.89 LINK O2B GSP A 901 MG MG A 902 1555 1555 2.17 LINK MG MG A 902 O HOH A1015 1555 1555 2.05 LINK MG MG A 902 O HOH A1016 1555 1555 2.18 CISPEP 1 ALA B 819 ALA B 820 0 0.50 CISPEP 2 ALA A 819 ALA A 820 0 1.48 SITE 1 AC1 20 VAL B 532 ARG B 533 THR B 534 GLY B 535 SITE 2 AC1 20 LYS B 536 THR B 537 LYS B 538 GLN B 549 SITE 3 AC1 20 THR B 557 GLY B 597 ASN B 648 LYS B 649 SITE 4 AC1 20 ASP B 651 ARG B 652 SER B 716 ALA B 717 SITE 5 AC1 20 HIS B 718 MG B 902 HOH B1029 HOH B1030 SITE 1 AC2 5 THR B 537 THR B 557 GSP B 901 HOH B1029 SITE 2 AC2 5 HOH B1030 SITE 1 AC3 20 VAL A 532 ARG A 533 THR A 534 GLY A 535 SITE 2 AC3 20 LYS A 536 THR A 537 LYS A 538 GLN A 549 SITE 3 AC3 20 THR A 557 GLY A 597 ASN A 648 LYS A 649 SITE 4 AC3 20 ASP A 651 ARG A 652 SER A 716 ALA A 717 SITE 5 AC3 20 HIS A 718 MG A 902 HOH A1015 HOH A1016 SITE 1 AC4 5 THR A 537 THR A 557 GSP A 901 HOH A1015 SITE 2 AC4 5 HOH A1016 CRYST1 115.690 115.690 119.800 90.00 90.00 90.00 P 41 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 0.008644 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008644 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008347 0.00000