HEADER LIGASE 18-JUL-17 5Y0Q TITLE CRYSTAL STRUCTURE OF BSTMCAL BOUND WITH AMPCPP COMPND MOL_ID: 1; COMPND 2 MOLECULE: UPF0348 PROTEIN B4417_3650; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THE GENE WAS CLONED INTO PET15B WITH NDEI AND XHOI COMPND 6 SITE, AND EXPRESSED AS A N-TERMINALLY HIS-TAGGED PROTEIN. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: B4417_3650; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ACETATE LIGASE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR S.YAMASHITA,K.TOMITA REVDAT 3 22-NOV-23 5Y0Q 1 REMARK REVDAT 2 26-DEC-18 5Y0Q 1 HEADER KEYWDS JRNL REVDAT 1 18-JUL-18 5Y0Q 0 JRNL AUTH T.TANIGUCHI,K.MIYAUCHI,Y.SAKAGUCHI,S.YAMASHITA,A.SOMA, JRNL AUTH 2 K.TOMITA,T.SUZUKI JRNL TITL ACETATE-DEPENDENT TRNA ACETYLATION REQUIRED FOR DECODING JRNL TITL 2 FIDELITY IN PROTEIN SYNTHESIS. JRNL REF NAT. CHEM. BIOL. V. 14 1010 2018 JRNL REFN ESSN 1552-4469 JRNL PMID 30150682 JRNL DOI 10.1038/S41589-018-0119-Z REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 58350 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2919 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 48.9738 - 5.6956 0.95 2988 158 0.1413 0.1914 REMARK 3 2 5.6956 - 4.5218 0.95 2856 150 0.1401 0.1756 REMARK 3 3 4.5218 - 3.9505 0.95 2832 149 0.1474 0.1587 REMARK 3 4 3.9505 - 3.5894 0.95 2774 146 0.1832 0.2358 REMARK 3 5 3.5894 - 3.3322 0.95 2811 148 0.2061 0.2493 REMARK 3 6 3.3322 - 3.1358 0.95 2779 146 0.2361 0.3065 REMARK 3 7 3.1358 - 2.9788 0.95 2741 145 0.2482 0.3025 REMARK 3 8 2.9788 - 2.8491 0.95 2771 145 0.2635 0.2966 REMARK 3 9 2.8491 - 2.7394 0.95 2755 145 0.2656 0.3152 REMARK 3 10 2.7394 - 2.6449 0.95 2752 145 0.2671 0.3500 REMARK 3 11 2.6449 - 2.5622 0.95 2775 146 0.2708 0.3277 REMARK 3 12 2.5622 - 2.4890 0.95 2721 143 0.2967 0.3127 REMARK 3 13 2.4890 - 2.4235 0.95 2719 144 0.3011 0.3653 REMARK 3 14 2.4235 - 2.3643 0.95 2762 145 0.2936 0.3393 REMARK 3 15 2.3643 - 2.3106 0.95 2743 144 0.3076 0.3519 REMARK 3 16 2.3106 - 2.2614 0.95 2708 143 0.3259 0.3771 REMARK 3 17 2.2614 - 2.2162 0.95 2753 145 0.3346 0.3553 REMARK 3 18 2.2162 - 2.1744 0.95 2728 143 0.3334 0.3553 REMARK 3 19 2.1744 - 2.1355 0.95 2695 142 0.3515 0.3529 REMARK 3 20 2.1355 - 2.0993 0.95 2761 146 0.3617 0.3629 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.960 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.55 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: 0.5000 REMARK 3 OPERATOR: -K,-H,-L REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 6614 REMARK 3 ANGLE : 1.186 8948 REMARK 3 CHIRALITY : 0.044 992 REMARK 3 PLANARITY : 0.005 1124 REMARK 3 DIHEDRAL : 16.677 2480 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:105) REMARK 3 ORIGIN FOR THE GROUP (A): 17.8167 -7.7767 -56.9364 REMARK 3 T TENSOR REMARK 3 T11: 0.7737 T22: 0.6441 REMARK 3 T33: 0.2121 T12: 0.1974 REMARK 3 T13: -0.0064 T23: -0.0337 REMARK 3 L TENSOR REMARK 3 L11: 2.4182 L22: 0.8940 REMARK 3 L33: 2.5371 L12: -0.3949 REMARK 3 L13: 1.4638 L23: -0.2522 REMARK 3 S TENSOR REMARK 3 S11: 0.0038 S12: 0.2356 S13: 0.0030 REMARK 3 S21: -0.5705 S22: -0.1232 S23: -0.0073 REMARK 3 S31: -0.8587 S32: -0.5085 S33: 0.0747 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 106:153) REMARK 3 ORIGIN FOR THE GROUP (A): 45.6769 -2.8603 -63.3505 REMARK 3 T TENSOR REMARK 3 T11: 1.0363 T22: 0.5933 REMARK 3 T33: 0.3493 T12: 0.0079 REMARK 3 T13: -0.0019 T23: 0.1075 REMARK 3 L TENSOR REMARK 3 L11: 8.2414 L22: 4.0186 REMARK 3 L33: 9.4805 L12: 2.2161 REMARK 3 L13: 5.8730 L23: 3.6113 REMARK 3 S TENSOR REMARK 3 S11: 0.3746 S12: 0.7648 S13: -0.4707 REMARK 3 S21: -0.3348 S22: 0.2032 S23: -0.6359 REMARK 3 S31: 2.1899 S32: 0.4621 S33: -0.5582 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 154:414) REMARK 3 ORIGIN FOR THE GROUP (A): 20.5270 -5.9177 -45.3687 REMARK 3 T TENSOR REMARK 3 T11: 0.5734 T22: 0.5182 REMARK 3 T33: 0.2316 T12: 0.1028 REMARK 3 T13: 0.0302 T23: 0.0227 REMARK 3 L TENSOR REMARK 3 L11: 1.1881 L22: 1.3966 REMARK 3 L33: 4.5003 L12: 0.2457 REMARK 3 L13: 0.3004 L23: 0.8165 REMARK 3 S TENSOR REMARK 3 S11: -0.0127 S12: 0.0592 S13: 0.0570 REMARK 3 S21: -0.3781 S22: -0.0140 S23: 0.0543 REMARK 3 S31: -0.9637 S32: -0.3802 S33: 0.0477 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 1:105) REMARK 3 ORIGIN FOR THE GROUP (A): 24.5670 -0.9815 3.9591 REMARK 3 T TENSOR REMARK 3 T11: 0.5584 T22: 0.8395 REMARK 3 T33: 0.2477 T12: 0.1694 REMARK 3 T13: -0.0159 T23: -0.0112 REMARK 3 L TENSOR REMARK 3 L11: 0.9952 L22: 1.3958 REMARK 3 L33: 2.5499 L12: -0.3838 REMARK 3 L13: -0.5358 L23: 0.2893 REMARK 3 S TENSOR REMARK 3 S11: -0.1644 S12: -0.5740 S13: -0.0283 REMARK 3 S21: 0.3216 S22: -0.0201 S23: 0.1244 REMARK 3 S31: -0.5903 S32: -0.9729 S33: 0.1567 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN B AND RESID 106:153) REMARK 3 ORIGIN FOR THE GROUP (A): 19.7184 -29.2045 10.5039 REMARK 3 T TENSOR REMARK 3 T11: 0.4556 T22: 0.8099 REMARK 3 T33: 0.4331 T12: 0.1783 REMARK 3 T13: -0.0285 T23: 0.0235 REMARK 3 L TENSOR REMARK 3 L11: 2.3000 L22: 8.5015 REMARK 3 L33: 5.7746 L12: 4.3159 REMARK 3 L13: 2.4073 L23: 4.0014 REMARK 3 S TENSOR REMARK 3 S11: 0.6072 S12: -0.1757 S13: -0.4384 REMARK 3 S21: 0.5055 S22: -0.0962 S23: -0.8145 REMARK 3 S31: 0.5155 S32: 0.8168 S33: -0.4682 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN B AND RESID 154:414) REMARK 3 ORIGIN FOR THE GROUP (A): 22.6593 -3.9132 -7.4344 REMARK 3 T TENSOR REMARK 3 T11: 0.4009 T22: 0.6002 REMARK 3 T33: 0.2250 T12: 0.0716 REMARK 3 T13: 0.0024 T23: 0.0171 REMARK 3 L TENSOR REMARK 3 L11: 1.2913 L22: 1.6202 REMARK 3 L33: 3.2616 L12: 0.2080 REMARK 3 L13: 0.3638 L23: 0.2510 REMARK 3 S TENSOR REMARK 3 S11: -0.0605 S12: -0.2237 S13: 0.0607 REMARK 3 S21: 0.0560 S22: 0.0321 S23: 0.0810 REMARK 3 S31: -0.3319 S32: -0.6989 S33: 0.0410 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 5Y0Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-JUL-17. REMARK 100 THE DEPOSITION ID IS D_1300002658. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-DEC-14 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58350 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.16 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.4800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 12.89 REMARK 200 R MERGE FOR SHELL (I) : 1.81300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 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: 5Y0N REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS-HCL, PEG400, KCL, MGCL2, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 33.99750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 105.83600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.00650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 105.83600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.99750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.00650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 PRO A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 SER A 189 REMARK 465 SER A 190 REMARK 465 ASP A 191 REMARK 465 TYR A 192 REMARK 465 HIS A 193 REMARK 465 ASP A 194 REMARK 465 ALA A 195 REMARK 465 ASP A 196 REMARK 465 LEU A 197 REMARK 465 PRO A 198 REMARK 465 GLU A 199 REMARK 465 GLY A 200 REMARK 465 GLU A 201 REMARK 465 VAL A 415 REMARK 465 MET B -18 REMARK 465 GLY B -17 REMARK 465 SER B -16 REMARK 465 SER B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 SER B -8 REMARK 465 SER B -7 REMARK 465 GLY B -6 REMARK 465 LEU B -5 REMARK 465 VAL B -4 REMARK 465 PRO B -3 REMARK 465 ARG B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 SER B 189 REMARK 465 SER B 190 REMARK 465 ASP B 191 REMARK 465 TYR B 192 REMARK 465 HIS B 193 REMARK 465 ASP B 194 REMARK 465 ALA B 195 REMARK 465 ASP B 196 REMARK 465 LEU B 197 REMARK 465 PRO B 198 REMARK 465 GLU B 199 REMARK 465 GLY B 200 REMARK 465 GLU B 201 REMARK 465 VAL B 415 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 ALA B 143 OG SER B 147 2.08 REMARK 500 O HOH A 1127 O HOH A 1130 2.11 REMARK 500 O HIS A 400 O HOH A 1101 2.13 REMARK 500 O ARG A 285 O HOH A 1102 2.13 REMARK 500 O LEU B 60 O HOH B 1101 2.15 REMARK 500 OG SER B 51 O HOH B 1102 2.16 REMARK 500 O ARG B 301 NH1 ARG B 306 2.17 REMARK 500 OH TYR A 334 OD2 ASP A 374 2.18 REMARK 500 O PRO B 109 OG1 THR B 113 2.19 REMARK 500 O ALA B 145 OG SER B 148 2.19 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 NH1 ARG A 264 OE1 GLU B 153 4545 2.19 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 11 68.35 -119.13 REMARK 500 GLN A 217 -12.45 70.62 REMARK 500 SER A 361 -63.48 -109.82 REMARK 500 GLN A 410 74.53 58.05 REMARK 500 HIS B 40 -51.90 -130.01 REMARK 500 LEU B 150 -8.89 68.18 REMARK 500 THR B 152 -177.30 -65.88 REMARK 500 ALA B 155 -115.92 55.92 REMARK 500 LEU B 156 71.48 47.58 REMARK 500 SER B 361 -67.29 -109.05 REMARK 500 TYR B 398 -73.92 -121.69 REMARK 500 GLN B 410 73.84 48.53 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 ASP A 408 GLU A 409 -126.93 REMARK 500 GLU B 409 GLN B 410 149.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue APC A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue APC B 1001 DBREF1 5Y0Q A 1 415 UNP A0A164SIT4_BACIU DBREF2 5Y0Q A A0A164SIT4 1 415 DBREF1 5Y0Q B 1 415 UNP A0A164SIT4_BACIU DBREF2 5Y0Q B A0A164SIT4 1 415 SEQADV 5Y0Q MET A -18 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q GLY A -17 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER A -16 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER A -15 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS A -14 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS A -13 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS A -12 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS A -11 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS A -10 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS A -9 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER A -8 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER A -7 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q GLY A -6 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q LEU A -5 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q VAL A -4 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q PRO A -3 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q ARG A -2 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q GLY A -1 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER A 0 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q MET B -18 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q GLY B -17 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER B -16 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER B -15 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS B -14 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS B -13 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS B -12 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS B -11 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS B -10 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q HIS B -9 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER B -8 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER B -7 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q GLY B -6 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q LEU B -5 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q VAL B -4 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q PRO B -3 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q ARG B -2 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q GLY B -1 UNP A0A164SIT EXPRESSION TAG SEQADV 5Y0Q SER B 0 UNP A0A164SIT EXPRESSION TAG SEQRES 1 A 434 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 434 LEU VAL PRO ARG GLY SER MET LYS ALA VAL GLY LEU VAL SEQRES 3 A 434 VAL GLU TYR ASN PRO PHE HIS ASN GLY HIS LEU TYR HIS SEQRES 4 A 434 ALA GLN THR ALA LYS LEU GLN THR GLY CYS ASP THR ALA SEQRES 5 A 434 VAL ALA VAL MET SER GLY HIS PHE LEU GLN ARG GLY GLU SEQRES 6 A 434 PRO ALA VAL VAL SER LYS TRP ALA ARG THR LYS MET ALA SEQRES 7 A 434 LEU GLN SER GLY VAL ASP LEU VAL ILE GLU LEU PRO TYR SEQRES 8 A 434 LEU TYR ALA VAL GLN LYS ALA ASP ILE PHE ALA ARG GLY SEQRES 9 A 434 SER VAL SER ILE LEU ASN GLU LEU GLU CYS GLU ALA LEU SEQRES 10 A 434 PHE PHE GLY SER GLU ASN GLY ASP ILE LYS PRO PHE LEU SEQRES 11 A 434 GLU THR ALA GLN LEU ILE ASP GLU HIS LYS HIS ILE LEU SEQRES 12 A 434 ASN ASP ARG ILE LYS GLU GLU LEU LYS LYS GLY ALA SER SEQRES 13 A 434 TYR PRO ALA ALA ALA ALA ILE ALA PHE SER SER ILE LEU SEQRES 14 A 434 HIS THR GLU SER ALA LEU ASP LEU SER LYS PRO ASN ASN SEQRES 15 A 434 ILE LEU GLY TYR GLN TYR VAL THR SER ILE LEU THR GLY SEQRES 16 A 434 GLY TYR PRO MET LYS PRO TYR THR THR ALA ARG ILE SER SEQRES 17 A 434 SER ASP TYR HIS ASP ALA ASP LEU PRO GLU GLY GLU ASN SEQRES 18 A 434 HIS ILE ALA SER ALA THR SER ILE ARG LYS ALA MET ILE SEQRES 19 A 434 GLY GLN ASN LEU GLU ALA CYS LEU ARG PHE LEU PRO ALA SEQRES 20 A 434 ALA SER ALA ARG GLU LEU ALA ALA TYR ARG LYS SER PHE SEQRES 21 A 434 GLY LEU TRP HIS THR PRO GLU SER TYR PHE SER TYR LEU SEQRES 22 A 434 LYS TYR SER LEU SER THR VAL THR ALA ARG GLU LEU GLN SEQRES 23 A 434 GLN VAL TYR GLU VAL GLU GLU GLY LEU GLU HIS ARG ILE SEQRES 24 A 434 ILE ARG SER ILE ARG LYS SER SER SER TYR GLN GLU PHE SEQRES 25 A 434 MET GLU LEU LEU LYS THR LYS ARG TYR THR TRP THR ARG SEQRES 26 A 434 LEU GLN ARG MET ASN THR HIS ILE LEU THR ARG THR LYS SEQRES 27 A 434 LYS GLN ASP MET GLN LYS LEU LEU ASP ASN ASP LYS ALA SEQRES 28 A 434 PRO TYR ILE ARG LEU LEU GLY MET THR LYS LYS GLY GLN SEQRES 29 A 434 ALA TYR LEU SER GLU LYS LYS LYS ALA LEU SER VAL PRO SEQRES 30 A 434 LEU VAL SER LYS LEU SER SER PHE SER HIS PRO ALA LEU SEQRES 31 A 434 ASP LEU ASP VAL LYS ALA SER ARG ILE TYR SER LEU PRO SEQRES 32 A 434 ILE GLU GLU PRO LEU ARG THR GLU PHE ASP LEU GLN GLU SEQRES 33 A 434 TYR GLY HIS ALA PRO ILE ARG TYR ASP GLU ASP GLU GLN SEQRES 34 A 434 HIS PHE LEU ASN VAL SEQRES 1 B 434 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 434 LEU VAL PRO ARG GLY SER MET LYS ALA VAL GLY LEU VAL SEQRES 3 B 434 VAL GLU TYR ASN PRO PHE HIS ASN GLY HIS LEU TYR HIS SEQRES 4 B 434 ALA GLN THR ALA LYS LEU GLN THR GLY CYS ASP THR ALA SEQRES 5 B 434 VAL ALA VAL MET SER GLY HIS PHE LEU GLN ARG GLY GLU SEQRES 6 B 434 PRO ALA VAL VAL SER LYS TRP ALA ARG THR LYS MET ALA SEQRES 7 B 434 LEU GLN SER GLY VAL ASP LEU VAL ILE GLU LEU PRO TYR SEQRES 8 B 434 LEU TYR ALA VAL GLN LYS ALA ASP ILE PHE ALA ARG GLY SEQRES 9 B 434 SER VAL SER ILE LEU ASN GLU LEU GLU CYS GLU ALA LEU SEQRES 10 B 434 PHE PHE GLY SER GLU ASN GLY ASP ILE LYS PRO PHE LEU SEQRES 11 B 434 GLU THR ALA GLN LEU ILE ASP GLU HIS LYS HIS ILE LEU SEQRES 12 B 434 ASN ASP ARG ILE LYS GLU GLU LEU LYS LYS GLY ALA SER SEQRES 13 B 434 TYR PRO ALA ALA ALA ALA ILE ALA PHE SER SER ILE LEU SEQRES 14 B 434 HIS THR GLU SER ALA LEU ASP LEU SER LYS PRO ASN ASN SEQRES 15 B 434 ILE LEU GLY TYR GLN TYR VAL THR SER ILE LEU THR GLY SEQRES 16 B 434 GLY TYR PRO MET LYS PRO TYR THR THR ALA ARG ILE SER SEQRES 17 B 434 SER ASP TYR HIS ASP ALA ASP LEU PRO GLU GLY GLU ASN SEQRES 18 B 434 HIS ILE ALA SER ALA THR SER ILE ARG LYS ALA MET ILE SEQRES 19 B 434 GLY GLN ASN LEU GLU ALA CYS LEU ARG PHE LEU PRO ALA SEQRES 20 B 434 ALA SER ALA ARG GLU LEU ALA ALA TYR ARG LYS SER PHE SEQRES 21 B 434 GLY LEU TRP HIS THR PRO GLU SER TYR PHE SER TYR LEU SEQRES 22 B 434 LYS TYR SER LEU SER THR VAL THR ALA ARG GLU LEU GLN SEQRES 23 B 434 GLN VAL TYR GLU VAL GLU GLU GLY LEU GLU HIS ARG ILE SEQRES 24 B 434 ILE ARG SER ILE ARG LYS SER SER SER TYR GLN GLU PHE SEQRES 25 B 434 MET GLU LEU LEU LYS THR LYS ARG TYR THR TRP THR ARG SEQRES 26 B 434 LEU GLN ARG MET ASN THR HIS ILE LEU THR ARG THR LYS SEQRES 27 B 434 LYS GLN ASP MET GLN LYS LEU LEU ASP ASN ASP LYS ALA SEQRES 28 B 434 PRO TYR ILE ARG LEU LEU GLY MET THR LYS LYS GLY GLN SEQRES 29 B 434 ALA TYR LEU SER GLU LYS LYS LYS ALA LEU SER VAL PRO SEQRES 30 B 434 LEU VAL SER LYS LEU SER SER PHE SER HIS PRO ALA LEU SEQRES 31 B 434 ASP LEU ASP VAL LYS ALA SER ARG ILE TYR SER LEU PRO SEQRES 32 B 434 ILE GLU GLU PRO LEU ARG THR GLU PHE ASP LEU GLN GLU SEQRES 33 B 434 TYR GLY HIS ALA PRO ILE ARG TYR ASP GLU ASP GLU GLN SEQRES 34 B 434 HIS PHE LEU ASN VAL HET APC A1001 31 HET APC B1001 31 HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE FORMUL 3 APC 2(C11 H18 N5 O12 P3) FORMUL 5 HOH *67(H2 O) HELIX 1 AA1 HIS A 14 GLY A 29 1 16 HELIX 2 AA2 SER A 51 GLN A 61 1 11 HELIX 3 AA3 PRO A 71 VAL A 76 1 6 HELIX 4 AA4 LYS A 78 LEU A 93 1 16 HELIX 5 AA5 ILE A 107 LYS A 134 1 28 HELIX 6 AA6 SER A 137 HIS A 151 1 15 HELIX 7 AA7 LYS A 160 GLY A 177 1 18 HELIX 8 AA8 SER A 206 GLY A 216 1 11 HELIX 9 AA9 CYS A 222 LEU A 226 5 5 HELIX 10 AB1 PRO A 227 GLY A 242 1 16 HELIX 11 AB2 THR A 246 SER A 249 5 4 HELIX 12 AB3 TYR A 250 LEU A 258 1 9 HELIX 13 AB4 THR A 262 GLN A 268 1 7 HELIX 14 AB5 GLY A 275 SER A 287 1 13 HELIX 15 AB6 SER A 289 LYS A 298 1 10 HELIX 16 AB7 THR A 303 ARG A 317 1 15 HELIX 17 AB8 LYS A 319 ASN A 329 1 11 HELIX 18 AB9 THR A 341 LYS A 352 1 12 HELIX 19 AC1 LYS A 362 PHE A 366 5 5 HELIX 20 AC2 HIS A 368 SER A 382 1 15 HELIX 21 AC3 PRO A 388 HIS A 400 1 13 HELIX 22 AC4 HIS B 14 THR B 28 1 15 HELIX 23 AC5 SER B 51 GLN B 61 1 11 HELIX 24 AC6 PRO B 71 VAL B 76 1 6 HELIX 25 AC7 LYS B 78 LEU B 93 1 16 HELIX 26 AC8 ILE B 107 LYS B 134 1 28 HELIX 27 AC9 SER B 137 SER B 147 1 11 HELIX 28 AD1 LYS B 160 GLY B 177 1 18 HELIX 29 AD2 SER B 206 GLY B 216 1 11 HELIX 30 AD3 LEU B 219 PHE B 225 5 7 HELIX 31 AD4 PRO B 227 GLY B 242 1 16 HELIX 32 AD5 PRO B 247 SER B 249 5 3 HELIX 33 AD6 TYR B 250 THR B 260 1 11 HELIX 34 AD7 THR B 262 GLN B 267 1 6 HELIX 35 AD8 GLY B 275 SER B 287 1 13 HELIX 36 AD9 SER B 289 LYS B 298 1 10 HELIX 37 AE1 THR B 303 ARG B 317 1 15 HELIX 38 AE2 LYS B 319 ASP B 328 1 10 HELIX 39 AE3 THR B 341 LYS B 352 1 12 HELIX 40 AE4 LYS B 353 LEU B 355 5 3 HELIX 41 AE5 LYS B 362 PHE B 366 5 5 HELIX 42 AE6 HIS B 368 SER B 382 1 15 HELIX 43 AE7 PRO B 388 ASP B 394 1 7 SHEET 1 AA1 7 LYS A 181 ALA A 186 0 SHEET 2 AA1 7 ALA A 97 SER A 102 1 N LEU A 98 O TYR A 183 SHEET 3 AA1 7 ALA A 3 VAL A 8 1 N GLY A 5 O PHE A 99 SHEET 4 AA1 7 THR A 32 SER A 38 1 O THR A 32 N VAL A 4 SHEET 5 AA1 7 LEU A 66 LEU A 70 1 O LEU A 70 N MET A 37 SHEET 6 AA1 7 ILE A 335 MET A 340 -1 O GLY A 339 N VAL A 67 SHEET 7 AA1 7 LEU A 359 VAL A 360 1 O VAL A 360 N LEU A 337 SHEET 1 AA2 8 LYS A 181 ALA A 186 0 SHEET 2 AA2 8 ALA A 97 SER A 102 1 N LEU A 98 O TYR A 183 SHEET 3 AA2 8 ALA A 3 VAL A 8 1 N GLY A 5 O PHE A 99 SHEET 4 AA2 8 THR A 32 SER A 38 1 O THR A 32 N VAL A 4 SHEET 5 AA2 8 LEU A 66 LEU A 70 1 O LEU A 70 N MET A 37 SHEET 6 AA2 8 ILE A 335 MET A 340 -1 O GLY A 339 N VAL A 67 SHEET 7 AA2 8 ILE A 403 ASP A 406 1 O ILE A 403 N LEU A 338 SHEET 8 AA2 8 HIS A 411 PHE A 412 -1 O HIS A 411 N ASP A 406 SHEET 1 AA3 7 LYS B 181 ALA B 186 0 SHEET 2 AA3 7 ALA B 97 SER B 102 1 N LEU B 98 O TYR B 183 SHEET 3 AA3 7 ALA B 3 VAL B 8 1 N GLY B 5 O ALA B 97 SHEET 4 AA3 7 THR B 32 SER B 38 1 O VAL B 34 N LEU B 6 SHEET 5 AA3 7 LEU B 66 LEU B 70 1 O LEU B 66 N ALA B 35 SHEET 6 AA3 7 ILE B 335 MET B 340 -1 O GLY B 339 N VAL B 67 SHEET 7 AA3 7 LEU B 359 VAL B 360 1 O VAL B 360 N ILE B 335 SHEET 1 AA4 8 LYS B 181 ALA B 186 0 SHEET 2 AA4 8 ALA B 97 SER B 102 1 N LEU B 98 O TYR B 183 SHEET 3 AA4 8 ALA B 3 VAL B 8 1 N GLY B 5 O ALA B 97 SHEET 4 AA4 8 THR B 32 SER B 38 1 O VAL B 34 N LEU B 6 SHEET 5 AA4 8 LEU B 66 LEU B 70 1 O LEU B 66 N ALA B 35 SHEET 6 AA4 8 ILE B 335 MET B 340 -1 O GLY B 339 N VAL B 67 SHEET 7 AA4 8 ILE B 403 ASP B 406 1 O TYR B 405 N MET B 340 SHEET 8 AA4 8 HIS B 411 PHE B 412 -1 O HIS B 411 N ASP B 406 CISPEP 1 ASN A 11 PRO A 12 0 -7.09 CISPEP 2 SER A 154 ALA A 155 0 -8.04 CISPEP 3 GLU A 387 PRO A 388 0 -3.79 CISPEP 4 ASN B 11 PRO B 12 0 -6.82 CISPEP 5 GLU B 387 PRO B 388 0 -0.03 SITE 1 AC1 17 VAL A 7 VAL A 8 GLU A 9 TYR A 10 SITE 2 AC1 17 GLY A 16 HIS A 17 TYR A 19 HIS A 20 SITE 3 AC1 17 PHE A 100 GLY A 101 ASN A 162 ARG A 187 SITE 4 AC1 17 ILE A 188 ILE A 204 ALA A 207 THR A 208 SITE 5 AC1 17 HOH A1125 SITE 1 AC2 13 GLU B 9 HIS B 14 GLY B 16 HIS B 17 SITE 2 AC2 13 ARG B 44 GLY B 101 ASN B 162 ALA B 186 SITE 3 AC2 13 ARG B 187 ILE B 188 SER B 206 ALA B 207 SITE 4 AC2 13 HOH B1106 CRYST1 67.995 68.013 211.672 90.00 90.00 90.00 P 21 21 21 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 0.014707 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014703 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004724 0.00000