HEADER TRANSFERASE 16-JUL-19 6KHR TITLE STRUCTURE OF GLYCINAMIDE-RNASE-TRANSFORMYLASE T FROM MYCOBACTERIUM TITLE 2 TUBERCULOSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: FORMATE-DEPENDENT PHOSPHORIBOSYLGLYCINAMIDE COMPND 3 FORMYLTRANSFERASE; COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS H37RV; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: PURT, RV0389; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PURINE SALVAG PATHWAY, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.CHEN,J.WANG REVDAT 3 22-NOV-23 6KHR 1 REMARK REVDAT 2 15-JAN-20 6KHR 1 JRNL REMARK REVDAT 1 18-DEC-19 6KHR 0 JRNL AUTH C.CHEN,Z.LIU,L.LIU,J.WANG,Q.JIN JRNL TITL STRUCTURAL CHARACTERIZATION OF JRNL TITL 2 GLYCINAMIDE-RNASE-TRANSFORMYLASE T FROMMYCOBACTERIUM JRNL TITL 3 TUBERCULOSIS. JRNL REF EMERG MICROBES INFECT V. 9 58 2020 JRNL REFN ESSN 2222-1751 JRNL PMID 31894729 JRNL DOI 10.1080/22221751.2019.1707716 REMARK 2 REMARK 2 RESOLUTION. 2.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14RC3_3206 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) : 2.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 23243 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) : 0.217 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 1137 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 48.7190 - 5.5691 0.99 2941 139 0.2346 0.2388 REMARK 3 2 5.5691 - 4.4213 0.99 2787 147 0.1948 0.1975 REMARK 3 3 4.4213 - 3.8627 1.00 2768 155 0.1977 0.2309 REMARK 3 4 3.8627 - 3.5096 1.00 2783 115 0.2109 0.2575 REMARK 3 5 3.5096 - 3.2582 1.00 2770 138 0.2203 0.2479 REMARK 3 6 3.2582 - 3.0661 1.00 2703 165 0.2231 0.3065 REMARK 3 7 3.0661 - 2.9126 1.00 2758 131 0.2483 0.2519 REMARK 3 8 2.9126 - 2.7860 0.96 2596 147 0.2518 0.3344 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) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.220 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 63.71 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 44.3701 -14.0443 -8.2524 REMARK 3 T TENSOR REMARK 3 T11: 0.2639 T22: 0.3314 REMARK 3 T33: 0.2882 T12: -0.0512 REMARK 3 T13: -0.0096 T23: 0.0067 REMARK 3 L TENSOR REMARK 3 L11: 0.1569 L22: 1.6491 REMARK 3 L33: 0.6547 L12: -0.4512 REMARK 3 L13: -0.1291 L23: 0.7046 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: 0.0518 S13: 0.0059 REMARK 3 S21: -0.0945 S22: -0.1155 S23: 0.1000 REMARK 3 S31: -0.0693 S32: -0.0177 S33: 0.0763 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 6KHR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-JUL-19. REMARK 100 THE DEPOSITION ID IS D_1300012850. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23300 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.786 REMARK 200 RESOLUTION RANGE LOW (A) : 48.719 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 8.900 REMARK 200 R MERGE (I) : 0.26600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.40 REMARK 200 R MERGE FOR SHELL (I) : 0.87400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.700 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: 1EYZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.06 M SODIUM ACETATE, PH4.6, 6.0% REMARK 280 PEG4000, 32% GLYCEROL., VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 49.56400 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 99.12800 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 99.12800 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 49.56400 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: 3040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -0.500000 0.866025 0.000000 103.13200 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 VAL A 2 REMARK 465 ILE A 3 REMARK 465 ASP A 4 REMARK 465 GLY A 5 REMARK 465 TRP A 6 REMARK 465 THR A 7 REMARK 465 GLU A 8 REMARK 465 GLU A 9 REMARK 465 GLN A 10 REMARK 465 HIS A 11 REMARK 465 GLU A 12 REMARK 465 PRO A 13 REMARK 465 THR A 14 REMARK 465 VAL A 15 REMARK 465 ARG A 16 REMARK 465 HIS A 17 REMARK 465 GLU A 18 REMARK 465 ARG A 19 REMARK 465 PRO A 20 REMARK 465 ALA A 21 REMARK 465 ALA A 22 REMARK 465 PRO A 23 REMARK 465 GLN A 24 REMARK 465 ASP A 25 REMARK 465 VAL A 26 REMARK 465 ALA A 111 REMARK 465 ASP A 112 REMARK 465 GLY A 113 REMARK 465 ALA A 175 REMARK 465 GLY A 176 REMARK 465 VAL A 177 REMARK 465 ALA A 178 REMARK 465 GLY A 179 REMARK 465 GLN A 180 REMARK 465 ASN A 189 REMARK 465 GLU A 190 REMARK 465 VAL A 191 REMARK 465 GLU A 192 REMARK 465 PRO A 193 REMARK 465 ALA A 194 REMARK 465 TRP A 195 REMARK 465 GLN A 196 REMARK 465 ARG A 197 REMARK 465 ALA A 198 REMARK 465 PRO A 205 REMARK 465 GLN A 206 REMARK 465 THR A 207 REMARK 465 GLY A 208 REMARK 465 GLY A 209 REMARK 465 VAL A 210 REMARK 465 SER A 211 REMARK 465 PRO A 352A REMARK 465 ASP A 352B REMARK 465 HIS A 352C REMARK 465 THR A 352D REMARK 465 ALA A 352E REMARK 465 GLY A 352F REMARK 465 ARG A 352G REMARK 465 ALA A 352H REMARK 465 ALA A 352I REMARK 465 VAL A 352J REMARK 465 GLY A 352K REMARK 465 ALA A 352L REMARK 465 ALA A 352M REMARK 465 VAL A 414 REMARK 465 PRO A 415 REMARK 465 ASP A 416 REMARK 465 SER A 417 REMARK 465 ARG A 418 REMARK 465 GLU A 419 REMARK 465 MET B 1 REMARK 465 VAL B 2 REMARK 465 ILE B 3 REMARK 465 ASP B 4 REMARK 465 GLY B 5 REMARK 465 TRP B 6 REMARK 465 THR B 7 REMARK 465 GLU B 8 REMARK 465 GLU B 9 REMARK 465 GLN B 10 REMARK 465 HIS B 11 REMARK 465 GLU B 12 REMARK 465 PRO B 13 REMARK 465 THR B 14 REMARK 465 VAL B 15 REMARK 465 ARG B 16 REMARK 465 HIS B 17 REMARK 465 GLU B 18 REMARK 465 ARG B 19 REMARK 465 PRO B 20 REMARK 465 ALA B 21 REMARK 465 ALA B 22 REMARK 465 PRO B 23 REMARK 465 GLN B 24 REMARK 465 ASP B 25 REMARK 465 VAL B 26 REMARK 465 ASP B 112 REMARK 465 GLY B 113 REMARK 465 GLU B 114 REMARK 465 SER B 154 REMARK 465 LEU B 155 REMARK 465 GLY B 156 REMARK 465 GLU B 157 REMARK 465 LEU B 158 REMARK 465 GLN B 159 REMARK 465 ALA B 160 REMARK 465 VAL B 161 REMARK 465 ALA B 162 REMARK 465 VAL B 163 REMARK 465 HIS B 164 REMARK 465 ALA B 165 REMARK 465 GLY B 166 REMARK 465 PHE B 167 REMARK 465 PRO B 168 REMARK 465 ALA B 175 REMARK 465 GLY B 176 REMARK 465 VAL B 177 REMARK 465 ALA B 178 REMARK 465 GLY B 179 REMARK 465 GLN B 180 REMARK 465 GLY B 181 REMARK 465 SER B 182 REMARK 465 SER B 183 REMARK 465 VAL B 184 REMARK 465 VAL B 185 REMARK 465 ALA B 186 REMARK 465 GLY B 187 REMARK 465 PRO B 188 REMARK 465 ASN B 189 REMARK 465 GLU B 190 REMARK 465 VAL B 191 REMARK 465 GLU B 192 REMARK 465 PRO B 193 REMARK 465 ALA B 194 REMARK 465 TRP B 195 REMARK 465 GLN B 196 REMARK 465 ARG B 197 REMARK 465 ALA B 198 REMARK 465 ALA B 199 REMARK 465 GLY B 200 REMARK 465 HIS B 201 REMARK 465 GLN B 202 REMARK 465 VAL B 203 REMARK 465 GLN B 204 REMARK 465 PRO B 205 REMARK 465 GLN B 206 REMARK 465 THR B 207 REMARK 465 GLY B 208 REMARK 465 GLY B 209 REMARK 465 VAL B 210 REMARK 465 SER B 211 REMARK 465 PRO B 352A REMARK 465 ASP B 352B REMARK 465 HIS B 352C REMARK 465 THR B 352D REMARK 465 ALA B 352E REMARK 465 GLY B 352F REMARK 465 ARG B 352G REMARK 465 ALA B 352H REMARK 465 ALA B 352I REMARK 465 VAL B 352J REMARK 465 GLY B 352K REMARK 465 ALA B 352L REMARK 465 ALA B 352M REMARK 465 VAL B 414 REMARK 465 PRO B 415 REMARK 465 ASP B 416 REMARK 465 SER B 417 REMARK 465 ARG B 418 REMARK 465 GLU B 419 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 136 CG CD NE CZ NH1 NH2 REMARK 470 SER A 154 OG REMARK 470 GLU A 157 CG CD OE1 OE2 REMARK 470 ARG B 136 CG CD NE CZ NH1 NH2 REMARK 470 PHE B 149 CG CD1 CD2 CE1 CE2 CZ 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 OD2 ASP A 299 OD1 ASP B 253 1.80 REMARK 500 OD1 ASN B 352 O HOH B 501 1.85 REMARK 500 O GLY B 133 O HOH B 502 1.89 REMARK 500 OD1 ASP A 299 OD1 ASP B 253 1.93 REMARK 500 NE ARG A 279 O HOH A 501 1.94 REMARK 500 CG ASP A 299 OD1 ASP B 253 1.95 REMARK 500 O PRO B 310 O HOH B 503 1.95 REMARK 500 O ASN B 352 O HOH B 504 1.97 REMARK 500 O GLY A 335 O HOH A 502 2.05 REMARK 500 CG ASN B 352 O HOH B 501 2.10 REMARK 500 N PHE A 243 O HOH A 503 2.10 REMARK 500 O ALA A 311 O HOH A 504 2.12 REMARK 500 O PHE A 303 O HOH A 505 2.12 REMARK 500 OE2 GLU B 300 OH TYR B 302 2.15 REMARK 500 O THR B 371 O HOH B 505 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 O PRO A 236 O GLY B 143 5554 1.86 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 36 C PRO A 37 N 0.154 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO A 37 C - N - CA ANGL. DEV. = 12.2 DEGREES REMARK 500 ASN A 121 CB - CA - C ANGL. DEV. = -14.4 DEGREES REMARK 500 ASP A 299 CB - CA - C ANGL. DEV. = -16.1 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 THR A 74 98.73 -66.37 REMARK 500 THR A 76 37.20 -76.68 REMARK 500 GLN A 89 71.47 58.79 REMARK 500 ASP A 253 -70.97 -32.42 REMARK 500 ALA A 254 41.32 -84.27 REMARK 500 PHE A 384 21.08 -140.93 REMARK 500 ALA B 35 -156.56 -94.10 REMARK 500 GLN B 89 71.58 58.65 REMARK 500 ALA B 252 -165.43 -111.70 REMARK 500 PHE B 384 -164.49 -125.57 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 PHE B 384 GLY B 385 96.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 519 DISTANCE = 6.14 ANGSTROMS DBREF 6KHR A 3 419 UNP P95197 P95197_MYCTU 2 419 DBREF 6KHR B 3 419 UNP P95197 P95197_MYCTU 2 419 SEQADV 6KHR MET A 1 UNP P95197 INITIATING METHIONINE SEQADV 6KHR VAL A 2 UNP P95197 EXPRESSION TAG SEQADV 6KHR MET B 1 UNP P95197 INITIATING METHIONINE SEQADV 6KHR VAL B 2 UNP P95197 EXPRESSION TAG SEQRES 1 A 420 MET VAL ILE ASP GLY TRP THR GLU GLU GLN HIS GLU PRO SEQRES 2 A 420 THR VAL ARG HIS GLU ARG PRO ALA ALA PRO GLN ASP VAL SEQRES 3 A 420 ARG ARG VAL MET LEU LEU GLY SER ALA GLU PRO SER ARG SEQRES 4 A 420 GLU LEU ALA ILE ALA LEU GLN GLY LEU GLY ALA GLU VAL SEQRES 5 A 420 ILE ALA VAL ASP GLY TYR VAL GLY ALA PRO ALA HIS ARG SEQRES 6 A 420 ILE ALA ASP GLN SER VAL VAL VAL THR MET THR ASP ALA SEQRES 7 A 420 GLU GLU LEU THR ALA VAL ILE ARG ARG LEU GLN PRO ASP SEQRES 8 A 420 PHE LEU VAL THR VAL THR ALA ALA VAL SER VAL ASP ALA SEQRES 9 A 420 LEU ASP ALA VAL GLU GLN ALA ASP GLY GLU CYS THR GLU SEQRES 10 A 420 LEU VAL PRO ASN ALA ARG ALA VAL ARG CYS THR ALA ASP SEQRES 11 A 420 ARG GLU GLY LEU ARG ARG LEU ALA ALA ASP GLN LEU GLY SEQRES 12 A 420 LEU PRO THR ALA PRO PHE TRP PHE VAL GLY SER LEU GLY SEQRES 13 A 420 GLU LEU GLN ALA VAL ALA VAL HIS ALA GLY PHE PRO LEU SEQRES 14 A 420 LEU VAL SER PRO VAL ALA GLY VAL ALA GLY GLN GLY SER SEQRES 15 A 420 SER VAL VAL ALA GLY PRO ASN GLU VAL GLU PRO ALA TRP SEQRES 16 A 420 GLN ARG ALA ALA GLY HIS GLN VAL GLN PRO GLN THR GLY SEQRES 17 A 420 GLY VAL SER PRO ARG VAL CYS ALA GLU SER VAL VAL GLU SEQRES 18 A 420 ILE GLU PHE LEU VAL THR MET ILE VAL VAL CYS SER GLN SEQRES 19 A 420 GLY PRO ASN GLY PRO LEU ILE GLU PHE CYS ALA PRO ILE SEQRES 20 A 420 GLY HIS ARG ASP ALA ASP ALA GLY GLU LEU GLU SER TRP SEQRES 21 A 420 GLN PRO GLN LYS LEU SER THR ALA ALA LEU ASP ALA ALA SEQRES 22 A 420 LYS SER ILE ALA ALA ARG ILE VAL LYS ALA LEU GLY GLY SEQRES 23 A 420 ARG GLY VAL PHE GLY VAL GLU LEU MET ILE ASN GLY ASP SEQRES 24 A 420 GLU VAL TYR PHE ALA ASP VAL THR VAL CYS PRO ALA GLY SEQRES 25 A 420 SER ALA TRP VAL THR VAL ARG SER GLN ARG LEU SER VAL SEQRES 26 A 420 PHE GLU LEU GLN ALA ARG ALA ILE LEU GLY LEU ALA VAL SEQRES 27 A 420 ASP THR LEU MET ILE SER PRO GLY ALA ALA ARG VAL ILE SEQRES 28 A 420 ASN PRO ASP HIS THR ALA GLY ARG ALA ALA VAL GLY ALA SEQRES 29 A 420 ALA PRO PRO ALA ASP ALA LEU THR GLY ALA LEU GLY VAL SEQRES 30 A 420 PRO GLU SER ASP VAL VAL ILE PHE GLY ARG GLY LEU GLY SEQRES 31 A 420 VAL ALA LEU ALA THR ALA PRO GLU VAL ALA ILE ALA ARG SEQRES 32 A 420 GLU ARG ALA ARG GLU VAL ALA SER ARG LEU ASN VAL PRO SEQRES 33 A 420 ASP SER ARG GLU SEQRES 1 B 420 MET VAL ILE ASP GLY TRP THR GLU GLU GLN HIS GLU PRO SEQRES 2 B 420 THR VAL ARG HIS GLU ARG PRO ALA ALA PRO GLN ASP VAL SEQRES 3 B 420 ARG ARG VAL MET LEU LEU GLY SER ALA GLU PRO SER ARG SEQRES 4 B 420 GLU LEU ALA ILE ALA LEU GLN GLY LEU GLY ALA GLU VAL SEQRES 5 B 420 ILE ALA VAL ASP GLY TYR VAL GLY ALA PRO ALA HIS ARG SEQRES 6 B 420 ILE ALA ASP GLN SER VAL VAL VAL THR MET THR ASP ALA SEQRES 7 B 420 GLU GLU LEU THR ALA VAL ILE ARG ARG LEU GLN PRO ASP SEQRES 8 B 420 PHE LEU VAL THR VAL THR ALA ALA VAL SER VAL ASP ALA SEQRES 9 B 420 LEU ASP ALA VAL GLU GLN ALA ASP GLY GLU CYS THR GLU SEQRES 10 B 420 LEU VAL PRO ASN ALA ARG ALA VAL ARG CYS THR ALA ASP SEQRES 11 B 420 ARG GLU GLY LEU ARG ARG LEU ALA ALA ASP GLN LEU GLY SEQRES 12 B 420 LEU PRO THR ALA PRO PHE TRP PHE VAL GLY SER LEU GLY SEQRES 13 B 420 GLU LEU GLN ALA VAL ALA VAL HIS ALA GLY PHE PRO LEU SEQRES 14 B 420 LEU VAL SER PRO VAL ALA GLY VAL ALA GLY GLN GLY SER SEQRES 15 B 420 SER VAL VAL ALA GLY PRO ASN GLU VAL GLU PRO ALA TRP SEQRES 16 B 420 GLN ARG ALA ALA GLY HIS GLN VAL GLN PRO GLN THR GLY SEQRES 17 B 420 GLY VAL SER PRO ARG VAL CYS ALA GLU SER VAL VAL GLU SEQRES 18 B 420 ILE GLU PHE LEU VAL THR MET ILE VAL VAL CYS SER GLN SEQRES 19 B 420 GLY PRO ASN GLY PRO LEU ILE GLU PHE CYS ALA PRO ILE SEQRES 20 B 420 GLY HIS ARG ASP ALA ASP ALA GLY GLU LEU GLU SER TRP SEQRES 21 B 420 GLN PRO GLN LYS LEU SER THR ALA ALA LEU ASP ALA ALA SEQRES 22 B 420 LYS SER ILE ALA ALA ARG ILE VAL LYS ALA LEU GLY GLY SEQRES 23 B 420 ARG GLY VAL PHE GLY VAL GLU LEU MET ILE ASN GLY ASP SEQRES 24 B 420 GLU VAL TYR PHE ALA ASP VAL THR VAL CYS PRO ALA GLY SEQRES 25 B 420 SER ALA TRP VAL THR VAL ARG SER GLN ARG LEU SER VAL SEQRES 26 B 420 PHE GLU LEU GLN ALA ARG ALA ILE LEU GLY LEU ALA VAL SEQRES 27 B 420 ASP THR LEU MET ILE SER PRO GLY ALA ALA ARG VAL ILE SEQRES 28 B 420 ASN PRO ASP HIS THR ALA GLY ARG ALA ALA VAL GLY ALA SEQRES 29 B 420 ALA PRO PRO ALA ASP ALA LEU THR GLY ALA LEU GLY VAL SEQRES 30 B 420 PRO GLU SER ASP VAL VAL ILE PHE GLY ARG GLY LEU GLY SEQRES 31 B 420 VAL ALA LEU ALA THR ALA PRO GLU VAL ALA ILE ALA ARG SEQRES 32 B 420 GLU ARG ALA ARG GLU VAL ALA SER ARG LEU ASN VAL PRO SEQRES 33 B 420 ASP SER ARG GLU FORMUL 3 HOH *34(H2 O) HELIX 1 AA1 ALA A 35 LEU A 48 1 14 HELIX 2 AA2 ALA A 61 ALA A 67 1 7 HELIX 3 AA3 ASP A 77 GLN A 89 1 13 HELIX 4 AA4 SER A 101 GLN A 110 1 10 HELIX 5 AA5 ASN A 121 ASP A 130 1 10 HELIX 6 AA6 ASP A 130 ASP A 140 1 11 HELIX 7 AA7 SER A 154 GLY A 166 1 13 HELIX 8 AA8 SER A 266 GLY A 285 1 20 HELIX 9 AA9 ALA A 311 TRP A 315 5 5 HELIX 10 AB1 VAL A 316 GLN A 321 1 6 HELIX 11 AB2 SER A 324 GLY A 335 1 12 HELIX 12 AB3 PRO A 366 LEU A 374 1 9 HELIX 13 AB4 GLU A 397 ASN A 413 1 17 HELIX 14 AB5 ALA B 35 LEU B 48 1 14 HELIX 15 AB6 ALA B 61 ALA B 67 1 7 HELIX 16 AB7 ASP B 77 GLN B 89 1 13 HELIX 17 AB8 SER B 101 ALA B 111 1 11 HELIX 18 AB9 ASN B 121 ASP B 130 1 10 HELIX 19 AC1 ASP B 130 ASP B 140 1 11 HELIX 20 AC2 ASP B 253 GLY B 255 5 3 HELIX 21 AC3 SER B 266 GLY B 285 1 20 HELIX 22 AC4 ALA B 311 TRP B 315 5 5 HELIX 23 AC5 VAL B 316 GLN B 321 1 6 HELIX 24 AC6 SER B 324 GLY B 335 1 12 HELIX 25 AC7 PRO B 366 LEU B 374 1 9 HELIX 26 AC8 GLU B 397 ASN B 413 1 17 SHEET 1 AA1 5 GLN A 69 VAL A 72 0 SHEET 2 AA1 5 GLU A 51 ASP A 56 1 N ALA A 54 O GLN A 69 SHEET 3 AA1 5 ARG A 28 LEU A 32 1 N LEU A 31 O ILE A 53 SHEET 4 AA1 5 PHE A 92 THR A 95 1 O VAL A 94 N LEU A 32 SHEET 5 AA1 5 GLU A 117 LEU A 118 1 O GLU A 117 N LEU A 93 SHEET 1 AA2 3 PHE A 149 VAL A 152 0 SHEET 2 AA2 3 VAL A 214 GLU A 217 -1 O ALA A 216 N TRP A 150 SHEET 3 AA2 3 SER A 172 PRO A 173 -1 N SER A 172 O CYS A 215 SHEET 1 AA3 4 GLY A 238 PHE A 243 0 SHEET 2 AA3 4 PHE A 224 GLY A 235 -1 N GLY A 235 O GLY A 238 SHEET 3 AA3 4 GLY A 288 ASN A 297 -1 O PHE A 290 N VAL A 230 SHEET 4 AA3 4 GLU A 300 THR A 307 -1 O ASP A 305 N GLU A 293 SHEET 1 AA4 7 GLY A 238 PHE A 243 0 SHEET 2 AA4 7 PHE A 224 GLY A 235 -1 N GLY A 235 O GLY A 238 SHEET 3 AA4 7 ILE A 247 ALA A 252 -1 O ILE A 247 N THR A 227 SHEET 4 AA4 7 GLU A 256 GLN A 261 -1 O GLU A 256 N ALA A 252 SHEET 5 AA4 7 GLY A 346 ILE A 351 -1 O ALA A 348 N SER A 259 SHEET 6 AA4 7 GLY A 389 THR A 394 -1 O ALA A 391 N ARG A 349 SHEET 7 AA4 7 SER A 379 ILE A 383 -1 N ASP A 380 O LEU A 392 SHEET 1 AA5 5 GLN B 69 VAL B 72 0 SHEET 2 AA5 5 GLU B 51 ASP B 56 1 N ALA B 54 O GLN B 69 SHEET 3 AA5 5 ARG B 28 LEU B 32 1 N LEU B 31 O ILE B 53 SHEET 4 AA5 5 PHE B 92 THR B 95 1 O VAL B 94 N LEU B 32 SHEET 5 AA5 5 GLU B 117 LEU B 118 1 O GLU B 117 N LEU B 93 SHEET 1 AA6 3 PHE B 149 VAL B 152 0 SHEET 2 AA6 3 VAL B 214 GLU B 217 -1 O ALA B 216 N TRP B 150 SHEET 3 AA6 3 LEU B 170 PRO B 173 -1 N SER B 172 O CYS B 215 SHEET 1 AA7 4 GLY B 238 PHE B 243 0 SHEET 2 AA7 4 PHE B 224 GLY B 235 -1 N GLY B 235 O GLY B 238 SHEET 3 AA7 4 GLY B 288 ASN B 297 -1 O PHE B 290 N VAL B 230 SHEET 4 AA7 4 GLU B 300 THR B 307 -1 O ASP B 305 N GLU B 293 SHEET 1 AA8 7 GLY B 238 PHE B 243 0 SHEET 2 AA8 7 PHE B 224 GLY B 235 -1 N GLY B 235 O GLY B 238 SHEET 3 AA8 7 ILE B 247 ASP B 251 -1 O ILE B 247 N THR B 227 SHEET 4 AA8 7 LEU B 257 GLN B 261 -1 O GLU B 258 N ARG B 250 SHEET 5 AA8 7 GLY B 346 ILE B 351 -1 O ALA B 348 N SER B 259 SHEET 6 AA8 7 GLY B 389 THR B 394 -1 O ALA B 391 N ARG B 349 SHEET 7 AA8 7 SER B 379 ILE B 383 -1 N ASP B 380 O LEU B 392 CISPEP 1 VAL A 119 PRO A 120 0 13.33 CISPEP 2 PHE A 167 PRO A 168 0 -3.58 CISPEP 3 GLN A 261 PRO A 262 0 -0.87 CISPEP 4 VAL B 119 PRO B 120 0 5.88 CISPEP 5 GLN B 261 PRO B 262 0 -0.65 CRYST1 103.132 103.132 148.692 90.00 90.00 120.00 P 31 2 1 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 0.009696 0.005598 0.000000 0.00000 SCALE2 0.000000 0.011196 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006725 0.00000