HEADER RNA BINDING PROTEIN 03-MAR-15 4YJ1 TITLE CRYSTAL STRUCTURE OF T. BRUCEI MRB1590-ADP BOUND TO POLY-U RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 50-665; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI BRUCEI (STRAIN 927/4 SOURCE 3 GUTAT10.1); SOURCE 4 ORGANISM_TAXID: 185431; SOURCE 5 STRAIN: 927/4 GUTAT10.1; SOURCE 6 GENE: TB927.3.1590; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS KRNA EDITING, KASP, MRB1, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.A.SCHUMACHER REVDAT 3 28-FEB-24 4YJ1 1 JRNL REMARK LINK REVDAT 2 26-AUG-15 4YJ1 1 JRNL REVDAT 1 12-AUG-15 4YJ1 0 JRNL AUTH P.L.SHAW,N.M.MCADAMS,M.A.HAST,M.L.AMMERMAN,L.K.READ, JRNL AUTH 2 M.A.SCHUMACHER JRNL TITL STRUCTURES OF THE T. BRUCEI KRNA EDITING FACTOR MRB1590 JRNL TITL 2 REVEAL UNIQUE RNA-BINDING PORE MOTIF CONTAINED WITHIN AN JRNL TITL 3 ABC-ATPASE FOLD. JRNL REF NUCLEIC ACIDS RES. V. 43 7096 2015 JRNL REFN ESSN 1362-4962 JRNL PMID 26117548 JRNL DOI 10.1093/NAR/GKV647 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 70357 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 3547 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 41.8501 - 4.4122 1.00 7290 367 0.1710 0.1795 REMARK 3 2 4.4122 - 3.5026 0.99 7026 371 0.1498 0.1789 REMARK 3 3 3.5026 - 3.0600 0.98 6898 356 0.1796 0.2146 REMARK 3 4 3.0600 - 2.7803 0.97 6754 382 0.1730 0.2049 REMARK 3 5 2.7803 - 2.5811 0.96 6665 377 0.1762 0.2081 REMARK 3 6 2.5811 - 2.4289 0.95 6583 327 0.1767 0.2318 REMARK 3 7 2.4289 - 2.3073 0.94 6517 338 0.1811 0.2196 REMARK 3 8 2.3073 - 2.2068 0.93 6418 355 0.1819 0.2180 REMARK 3 9 2.2068 - 2.1219 0.92 6375 363 0.1962 0.2319 REMARK 3 10 2.1219 - 2.0500 0.91 6284 311 0.2197 0.2579 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.77 REMARK 3 K_SOL : 0.38 REMARK 3 B_SOL : 42.93 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.000 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.45100 REMARK 3 B22 (A**2) : -3.45100 REMARK 3 B33 (A**2) : 6.90200 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.020 4699 REMARK 3 ANGLE : 1.905 6377 REMARK 3 CHIRALITY : 0.115 730 REMARK 3 PLANARITY : 0.008 840 REMARK 3 DIHEDRAL : 14.740 1738 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4YJ1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAR-15. REMARK 100 THE DEPOSITION ID IS D_1000207553. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAR-13 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 : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70357 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 41.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, MAGNESIUM CHLORIDE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 107.71650 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 50.07350 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 107.71650 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 50.07350 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 107.71650 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 50.07350 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 107.71650 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 50.07350 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 107.71650 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 50.07350 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 107.71650 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 50.07350 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 107.71650 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 50.07350 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 107.71650 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 107.71650 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 50.07350 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: 6370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.0 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 BIOMT1 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 MG MG A 703 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 804 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 881 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 908 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 915 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 917 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 GLN A 177 REMARK 465 GLN A 178 REMARK 465 LYS A 179 REMARK 465 SER A 180 REMARK 465 GLY A 181 REMARK 465 MET A 182 REMARK 465 ALA A 496 REMARK 465 LEU A 497 REMARK 465 ASN A 498 REMARK 465 PRO A 499 REMARK 465 PRO A 500 REMARK 465 ARG A 528 REMARK 465 GLY A 529 REMARK 465 ARG A 530 REMARK 465 GLU A 531 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 HD1 HIS A 317 H ALA A 475 1.21 REMARK 500 HE ARG A 191 O HOH A 1211 1.38 REMARK 500 HB3 ARG A 525 O HOH A 827 1.46 REMARK 500 HE ARG A 324 O HOH A 801 1.49 REMARK 500 C GLU A 578 HD3 PRO A 579 1.57 REMARK 500 O GLU A 578 HD3 PRO A 579 1.59 REMARK 500 C GLU A 578 CD PRO A 579 1.76 REMARK 500 O HOH A 1281 O HOH A 1282 1.84 REMARK 500 O HOH A 1250 O HOH A 1291 1.84 REMARK 500 O HOH A 1122 O HOH A 1159 1.89 REMARK 500 OE2 GLU A 584 O HOH A 1276 1.95 REMARK 500 O HOH A 907 O HOH A 1317 1.96 REMARK 500 O HOH A 1251 O HOH A 1268 2.04 REMARK 500 O HOH A 1127 O HOH A 1176 2.05 REMARK 500 N GLN A 183 O HOH A 1290 2.05 REMARK 500 O HOH A 1254 O HOH A 1255 2.07 REMARK 500 O HOH A 1263 O HOH A 1280 2.09 REMARK 500 O HOH A 857 O HOH A 897 2.09 REMARK 500 O HOH A 1167 O HOH A 1320 2.09 REMARK 500 O THR A 665 O HOH A 1212 2.10 REMARK 500 OE1 GLN A 281 O HOH A 1256 2.12 REMARK 500 O HOH A 1034 O HOH A 1110 2.13 REMARK 500 O HOH A 1234 O HOH A 1235 2.13 REMARK 500 NE ARG A 324 O HOH A 801 2.14 REMARK 500 O ARG A 606 O HOH A 1218 2.14 REMARK 500 O HOH A 1085 O HOH A 1187 2.16 REMARK 500 O HOH A 1013 O HOH A 1318 2.17 REMARK 500 O HOH A 1215 O HOH A 1243 2.18 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 HOH A 874 O HOH A 874 15545 1.69 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 ARG A 149 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 VAL A 242 CG1 - CB - CG2 ANGL. DEV. = -12.1 DEGREES REMARK 500 PRO A 579 C - N - CA ANGL. DEV. = 57.2 DEGREES REMARK 500 PRO A 579 C - N - CD ANGL. DEV. = -51.7 DEGREES REMARK 500 PRO A 579 CA - N - CD ANGL. DEV. = -9.9 DEGREES REMARK 500 ARG A 640 NE - CZ - NH1 ANGL. DEV. = 4.1 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 SER A 161 -165.90 -77.94 REMARK 500 ASP A 345 126.40 -39.66 REMARK 500 GLU A 354 60.86 -154.64 REMARK 500 ARG A 356 -2.42 81.71 REMARK 500 ASP A 384 77.43 -160.76 REMARK 500 SER A 546 -120.56 47.62 REMARK 500 PRO A 579 -79.17 132.77 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 A 702 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 320 OG REMARK 620 2 ADP A 701 O1B 111.0 REMARK 620 3 ADP A 701 O3B 56.4 54.7 REMARK 620 4 HOH A 821 O 75.7 112.3 95.1 REMARK 620 5 HOH A 831 O 81.6 75.8 71.8 157.3 REMARK 620 6 HOH A 844 O 73.9 154.1 125.2 93.6 80.0 REMARK 620 7 HOH A 868 O 176.4 65.3 120.0 105.9 96.8 109.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 703 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 830 O REMARK 620 2 HOH A 830 O 178.4 REMARK 620 3 HOH A 835 O 93.4 86.6 REMARK 620 4 HOH A 835 O 86.6 93.4 175.7 REMARK 620 5 HOH A 915 O 90.8 90.8 92.2 92.2 REMARK 620 6 HOH A 915 O 90.8 90.8 92.2 92.2 0.0 REMARK 620 7 HOH A 917 O 89.2 89.2 87.8 87.8 180.0 180.0 REMARK 620 8 HOH A 917 O 89.2 89.2 87.8 87.8 180.0 180.0 0.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 703 DBREF 4YJ1 A 50 665 UNP Q57ZF2 Q57ZF2_TRYB2 50 665 SEQADV 4YJ1 A UNP Q57ZF2 ARG 525 DELETION SEQRES 1 A 615 GLY PHE SER PRO LEU MET ASP PHE PHE HIS SER VAL GLU SEQRES 2 A 615 GLY ARG ASN TYR GLY GLU LEU ARG SER LEU THR ASN GLU SEQRES 3 A 615 THR TYR GLN ILE SER GLU ASN VAL ARG CYS THR PHE LEU SEQRES 4 A 615 SER ILE GLN SER ASP PRO PHE ALA PRO GLY SER GLN VAL SEQRES 5 A 615 ARG LEU VAL CYS PRO CYS THR PHE SER LEU GLU LYS VAL SEQRES 6 A 615 LEU GLN THR THR ASP LEU ALA ALA ALA ASN PRO CYS ARG SEQRES 7 A 615 ARG VAL ALA ALA GLU ASP PHE ILE LEU ARG SER PHE HIS SEQRES 8 A 615 ALA GLY TYR ARG ASN GLY ILE PRO ARG ARG THR SER GLY SEQRES 9 A 615 ALA VAL GLN VAL LEU ARG PRO SER GLN HIS VAL LEU GLU SEQRES 10 A 615 ARG SER THR VAL GLY LEU VAL LYS ALA HIS GLN GLN LYS SEQRES 11 A 615 SER GLY MET GLN ALA GLU ILE GLU ILE PHE ALA ARG VAL SEQRES 12 A 615 LYS LEU PRO GLY HIS GLY ARG ARG ILE ASP GLY HIS GLY SEQRES 13 A 615 ALA ILE ASP ILE PHE TYR ASN GLU LEU VAL PRO LEU LEU SEQRES 14 A 615 GLU GLN CYS VAL VAL GLY LEU ASN GLU GLU ASP LEU HIS SEQRES 15 A 615 GLN HIS VAL ILE CYS VAL HIS ASP GLN GLU VAL LEU ARG SEQRES 16 A 615 SER ASN LEU LEU GLY ALA GLY TYR VAL ALA PHE VAL ALA SEQRES 17 A 615 ASN GLY ALA ILE LEU PRO ARG ASP ALA GLY ASN SER ASP SEQRES 18 A 615 LYS PRO LEU ARG ASP ASN ALA VAL PRO PHE GLN SER PRO SEQRES 19 A 615 LYS SER LEU GLU CYS SER PHE THR LEU PRO HIS SER GLY SEQRES 20 A 615 LYS THR ILE THR GLY MET GLY LEU PRO PRO GLY LEU THR SEQRES 21 A 615 LEU ILE ALA GLY GLY GLY PHE HIS GLY LYS SER THR LEU SEQRES 22 A 615 LEU ARG ALA LEU GLU VAL GLY ILE TYR ASN HIS VAL PRO SEQRES 23 A 615 ASP ASP GLY ARG THR TYR VAL VAL VAL ASP PRO THR ALA SEQRES 24 A 615 VAL LYS ILE ARG ALA GLU ASP ARG ARG SER VAL HIS GLY SEQRES 25 A 615 VAL ASP ILE SER PRO PHE ILE ASN ASN LEU PRO PHE GLY SEQRES 26 A 615 LYS THR THR ASN PHE PHE VAL THR ALA ASP ALA SER GLY SEQRES 27 A 615 SER THR SER GLN ALA ALA ASN ILE MET GLU ALA LEU GLU SEQRES 28 A 615 LEU GLY SER GLN LEU LEU LEU LEU ASP GLU ASP THR CYS SEQRES 29 A 615 ALA THR ASN LEU MET TYR ARG ASP ALA LEU MET GLN MET SEQRES 30 A 615 LEU VAL PRO ARG ALA GLN GLU PRO ILE THR PRO PHE VAL SEQRES 31 A 615 GLU ARG VAL ALA ASP LEU SER GLN ASN HIS GLY VAL SER SEQRES 32 A 615 SER ILE MET VAL ILE GLY GLY SER GLY GLN TYR PHE PRO SEQRES 33 A 615 GLN ALA ARG VAL VAL LEU VAL MET ASN ALA TYR GLN ILE SEQRES 34 A 615 SER ASP CYS THR LYS GLU ALA LYS GLU ILE ALA SER ASN SEQRES 35 A 615 SER SER LEU PRO ALA LEU ASN PRO PRO GLY ASP THR ALA SEQRES 36 A 615 SER VAL PHE ILE PRO ASP VAL ASN ARG CYS PHE ASP PRO SEQRES 37 A 615 ASP GLY SER PHE THR THR VAL ARG ARG ARG GLY ARG GLU SEQRES 38 A 615 GLY THR LYS VAL SER GLY ILE GLY THR GLU SER ILE ARG SEQRES 39 A 615 PHE SER GLU GLU THR ILE ASP LEU SER MET VAL GLU GLN SEQRES 40 A 615 ILE VAL GLU GLU GLY GLN VAL ASN ALA ILE ALA GLN CYS SEQRES 41 A 615 LEU ALA LEU LEU TYR ASP GLY GLU PRO ARG ILE VAL PRO SEQRES 42 A 615 GLU MET THR THR LYS GLY GLY ALA LEU THR GLN LEU PRO SEQRES 43 A 615 SER PRO GLY GLY VAL CYS GLU ILE GLN ARG GLY LYS PHE SEQRES 44 A 615 ASN SER ASN PHE SER SER MET ILE ALA GLY CYS CYS SER SEQRES 45 A 615 HIS GLN HIS ASP LYS ARG LEU GLU LEU ARG THR PRO SER SEQRES 46 A 615 CYS TYR LEU PRO ARG GLY PHE THR SER ALA THR ARG HIS SEQRES 47 A 615 ILE GLU ILE GLY ALA ALA LEU ASN ARG LEU ARG THR LEU SEQRES 48 A 615 ARG THR VAL THR HET ADP A 701 39 HET MG A 702 1 HET MG A 703 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *521(H2 O) HELIX 1 AA1 SER A 52 VAL A 61 1 10 HELIX 2 AA2 ASN A 65 THR A 73 5 9 HELIX 3 AA3 SER A 110 GLN A 116 1 7 HELIX 4 AA4 ASP A 119 ALA A 123 5 5 HELIX 5 AA5 ASN A 124 ASN A 145 1 22 HELIX 6 AA6 ASP A 202 GLU A 213 1 12 HELIX 7 AA7 GLU A 213 VAL A 222 1 10 HELIX 8 AA8 ASN A 226 LEU A 247 1 22 HELIX 9 AA9 LEU A 248 GLY A 251 5 4 HELIX 10 AB1 PRO A 283 SER A 285 5 3 HELIX 11 AB2 GLY A 318 VAL A 328 1 11 HELIX 12 AB3 GLY A 329 TYR A 331 5 3 HELIX 13 AB4 VAL A 334 GLY A 338 5 5 HELIX 14 AB5 LEU A 371 LYS A 375 5 5 HELIX 15 AB6 SER A 386 LEU A 401 1 16 HELIX 16 AB7 ASP A 411 CYS A 413 5 3 HELIX 17 AB8 ALA A 414 TYR A 419 1 6 HELIX 18 AB9 ASP A 421 VAL A 428 1 8 HELIX 19 AC1 PRO A 429 GLU A 433 5 5 HELIX 20 AC2 PRO A 437 GLU A 440 5 4 HELIX 21 AC3 ARG A 441 GLY A 450 1 10 HELIX 22 AC4 CYS A 481 ASN A 491 1 11 HELIX 23 AC5 ASP A 516 ARG A 526 1 11 HELIX 24 AC6 GLU A 560 GLU A 578 1 19 HELIX 25 AC7 ARG A 580 LEU A 592 1 13 HELIX 26 AC8 SER A 611 LYS A 627 1 17 HELIX 27 AC9 ARG A 647 LEU A 658 1 12 SHEET 1 AA1 5 THR A 76 SER A 80 0 SHEET 2 AA1 5 VAL A 83 PHE A 87 -1 O CYS A 85 N TYR A 77 SHEET 3 AA1 5 SER A 99 PRO A 106 -1 O ARG A 102 N THR A 86 SHEET 4 AA1 5 ALA A 184 VAL A 192 -1 O ILE A 188 N LEU A 103 SHEET 5 AA1 5 VAL A 155 GLN A 156 -1 N GLN A 156 O ARG A 191 SHEET 1 AA2 5 THR A 76 SER A 80 0 SHEET 2 AA2 5 VAL A 83 PHE A 87 -1 O CYS A 85 N TYR A 77 SHEET 3 AA2 5 SER A 99 PRO A 106 -1 O ARG A 102 N THR A 86 SHEET 4 AA2 5 ALA A 184 VAL A 192 -1 O ILE A 188 N LEU A 103 SHEET 5 AA2 5 VAL A 170 LYS A 174 -1 N VAL A 173 O GLU A 185 SHEET 1 AA3 2 GLY A 196 HIS A 197 0 SHEET 2 AA3 2 ARG A 200 ILE A 201 -1 O ARG A 200 N HIS A 197 SHEET 1 AA4 4 GLU A 287 LEU A 292 0 SHEET 2 AA4 4 LYS A 297 LEU A 304 -1 O LYS A 297 N LEU A 292 SHEET 3 AA4 4 ALA A 254 ALA A 257 -1 N ALA A 254 O LEU A 304 SHEET 4 AA4 4 VAL A 342 VAL A 344 -1 O VAL A 343 N PHE A 255 SHEET 1 AA5 6 VAL A 349 ILE A 351 0 SHEET 2 AA5 6 LEU A 405 ASP A 409 1 O LEU A 407 N ILE A 351 SHEET 3 AA5 6 SER A 452 VAL A 456 1 O VAL A 456 N LEU A 408 SHEET 4 AA5 6 LEU A 308 GLY A 313 1 N THR A 309 O SER A 453 SHEET 5 AA5 6 VAL A 469 ASN A 474 1 O LEU A 471 N LEU A 310 SHEET 6 AA5 6 GLN A 477 ASP A 480 -1 O GLN A 477 N ASN A 474 SHEET 1 AA6 2 VAL A 359 VAL A 362 0 SHEET 2 AA6 2 PHE A 380 THR A 382 -1 O THR A 382 N VAL A 359 SHEET 1 AA7 2 CYS A 514 PHE A 515 0 SHEET 2 AA7 2 THR A 663 VAL A 664 -1 O VAL A 664 N CYS A 514 SHEET 1 AA8 3 VAL A 535 ILE A 538 0 SHEET 2 AA8 3 SER A 542 PHE A 545 -1 O SER A 542 N ILE A 538 SHEET 3 AA8 3 GLU A 548 ASP A 551 -1 O GLU A 548 N PHE A 545 SHEET 1 AA9 2 GLN A 594 PRO A 596 0 SHEET 2 AA9 2 CYS A 602 ILE A 604 -1 O GLU A 603 N LEU A 595 LINK OG SER A 320 MG MG A 702 1555 1555 2.69 LINK O1B ADP A 701 MG MG A 702 1555 1555 2.87 LINK O3B ADP A 701 MG MG A 702 1555 1555 2.51 LINK MG MG A 702 O HOH A 821 1555 1555 2.58 LINK MG MG A 702 O HOH A 831 1555 1555 2.28 LINK MG MG A 702 O HOH A 844 1555 1555 1.86 LINK MG MG A 702 O HOH A 868 1555 1555 2.54 LINK MG MG A 703 O HOH A 830 1555 1555 2.14 LINK MG MG A 703 O HOH A 830 1555 8555 2.14 LINK MG MG A 703 O HOH A 835 1555 1555 2.18 LINK MG MG A 703 O HOH A 835 1555 8555 2.18 LINK MG MG A 703 O HOH A 915 1555 1555 2.11 LINK MG MG A 703 O HOH A 915 1555 8555 2.11 LINK MG MG A 703 O HOH A 917 1555 1555 2.54 LINK MG MG A 703 O HOH A 917 1555 8555 2.54 SITE 1 AC1 19 PRO A 263 LEU A 273 ASN A 276 ALA A 277 SITE 2 AC1 19 VAL A 278 GLY A 314 GLY A 315 PHE A 316 SITE 3 AC1 19 HIS A 317 GLY A 318 LYS A 319 SER A 320 SITE 4 AC1 19 THR A 321 TYR A 476 MG A 702 HOH A 831 SITE 5 AC1 19 HOH A 868 HOH A 876 HOH A1033 SITE 1 AC2 6 SER A 320 ADP A 701 HOH A 821 HOH A 831 SITE 2 AC2 6 HOH A 844 HOH A 868 SITE 1 AC3 4 HOH A 830 HOH A 835 HOH A 915 HOH A 917 CRYST1 215.433 215.433 100.147 90.00 90.00 90.00 I 4 2 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 0.004642 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004642 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009985 0.00000