HEADER TRANSFERASE 27-JAN-15 4XVO TITLE L,D-TRANSPEPTIDASE FROM MYCOBACTERIUM SMEGMATIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: L,D-TRANSPEPTIDASE; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: UNP RESIDUES 71-290; COMPND 5 SYNONYM: ERFK/YBIS/YCFS/YNHG FAMILY PROTEIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS; SOURCE 3 ORGANISM_TAXID: 246196; SOURCE 4 STRAIN: ATCC 700084 / MC(2)155; SOURCE 5 GENE: MSMEI_3449; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG68 KEYWDS L, D-TRANSPEPTIDASE, MYCOBACTERIUM, STRUCTURAL GENOMICS, PSI-BIOLOGY, KEYWDS 2 MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,R.WU,M.ENDRES,A.JOACHIMIAK,MIDWEST CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (MCSG) REVDAT 3 25-DEC-19 4XVO 1 REMARK REVDAT 2 27-SEP-17 4XVO 1 SOURCE KEYWDS REMARK REVDAT 1 11-FEB-15 4XVO 0 JRNL AUTH J.OSIPIUK,R.WU,M.ENDRES,A.JOACHIMIAK, JRNL AUTH 2 MIDWEST CENTER FOR STRUCTURAL GENOMICS (MCSG) JRNL TITL L,D-TRANSPEPTIDASE FROM MYCOBACTERIUM SMEGMATIS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.28 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 47775 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 2410 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 42.2865 - 6.6337 0.99 2907 128 0.1997 0.1899 REMARK 3 2 6.6337 - 5.2685 1.00 2801 157 0.1853 0.2015 REMARK 3 3 5.2685 - 4.6035 1.00 2761 151 0.1464 0.1871 REMARK 3 4 4.6035 - 4.1830 0.99 2725 158 0.1473 0.1813 REMARK 3 5 4.1830 - 3.8834 1.00 2751 114 0.1666 0.2251 REMARK 3 6 3.8834 - 3.6546 0.99 2722 160 0.1880 0.2161 REMARK 3 7 3.6546 - 3.4716 0.99 2640 209 0.2095 0.2790 REMARK 3 8 3.4716 - 3.3206 0.99 2728 127 0.2159 0.2800 REMARK 3 9 3.3206 - 3.1928 0.99 2674 140 0.2302 0.2867 REMARK 3 10 3.1928 - 3.0826 0.99 2722 119 0.2280 0.3184 REMARK 3 11 3.0826 - 2.9863 0.98 2666 146 0.2727 0.2996 REMARK 3 12 2.9863 - 2.9009 0.97 2620 147 0.2824 0.3879 REMARK 3 13 2.9009 - 2.8246 0.97 2650 159 0.2569 0.3507 REMARK 3 14 2.8246 - 2.7557 0.97 2658 112 0.2411 0.2735 REMARK 3 15 2.7557 - 2.6931 0.96 2644 105 0.2308 0.2233 REMARK 3 16 2.6931 - 2.6358 0.96 2570 156 0.2563 0.3122 REMARK 3 17 2.6358 - 2.5830 0.79 2126 122 0.2650 0.2966 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) : 0.310 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.610 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.90 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 : 0.003 5184 REMARK 3 ANGLE : 0.725 7136 REMARK 3 CHIRALITY : 0.047 803 REMARK 3 PLANARITY : 0.003 923 REMARK 3 DIHEDRAL : 12.256 1842 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 43 THROUGH 128 ) REMARK 3 ORIGIN FOR THE GROUP (A): 60.3435 32.4914 28.3855 REMARK 3 T TENSOR REMARK 3 T11: 0.5152 T22: 0.1420 REMARK 3 T33: 0.4485 T12: -0.5453 REMARK 3 T13: 0.0901 T23: 0.0568 REMARK 3 L TENSOR REMARK 3 L11: 0.0595 L22: 0.0333 REMARK 3 L33: 0.0454 L12: 0.0348 REMARK 3 L13: -0.0067 L23: -0.0237 REMARK 3 S TENSOR REMARK 3 S11: 0.1165 S12: -0.0440 S13: 0.2949 REMARK 3 S21: 0.0613 S22: 0.0622 S23: 0.0937 REMARK 3 S31: -0.1624 S32: 0.0836 S33: 0.1648 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 129 THROUGH 259 ) REMARK 3 ORIGIN FOR THE GROUP (A): 52.0262 12.4544 10.3624 REMARK 3 T TENSOR REMARK 3 T11: 0.4219 T22: 0.1305 REMARK 3 T33: 0.1740 T12: -0.0997 REMARK 3 T13: 0.0148 T23: 0.0461 REMARK 3 L TENSOR REMARK 3 L11: 0.0569 L22: 0.1261 REMARK 3 L33: 0.3178 L12: -0.0094 REMARK 3 L13: 0.1297 L23: -0.0273 REMARK 3 S TENSOR REMARK 3 S11: -0.0659 S12: 0.0633 S13: 0.1022 REMARK 3 S21: -0.2257 S22: -0.1857 S23: -0.0608 REMARK 3 S31: 0.1062 S32: 0.0688 S33: -0.2106 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 43 THROUGH 128 ) REMARK 3 ORIGIN FOR THE GROUP (A): 81.4139 4.0010 63.3870 REMARK 3 T TENSOR REMARK 3 T11: -0.1164 T22: 0.7213 REMARK 3 T33: 0.4622 T12: 0.0411 REMARK 3 T13: 0.0658 T23: -0.0372 REMARK 3 L TENSOR REMARK 3 L11: 0.0397 L22: 0.0585 REMARK 3 L33: 0.1706 L12: 0.0320 REMARK 3 L13: 0.0131 L23: -0.0547 REMARK 3 S TENSOR REMARK 3 S11: 0.1013 S12: -0.1097 S13: 0.2027 REMARK 3 S21: 0.0178 S22: 0.0387 S23: -0.2913 REMARK 3 S31: -0.0244 S32: 0.1595 S33: 0.1238 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 129 THROUGH 259 ) REMARK 3 ORIGIN FOR THE GROUP (A): 59.9255 1.2089 45.3731 REMARK 3 T TENSOR REMARK 3 T11: 0.1090 T22: 0.4603 REMARK 3 T33: 0.1684 T12: -0.0599 REMARK 3 T13: 0.0507 T23: 0.0058 REMARK 3 L TENSOR REMARK 3 L11: 0.1577 L22: 0.1426 REMARK 3 L33: 0.3143 L12: 0.0760 REMARK 3 L13: 0.0172 L23: -0.1540 REMARK 3 S TENSOR REMARK 3 S11: -0.2259 S12: 0.1522 S13: -0.0062 REMARK 3 S21: -0.1805 S22: 0.0001 S23: -0.1118 REMARK 3 S31: 0.1288 S32: -0.0569 S33: -0.1938 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 43 THROUGH 106 ) REMARK 3 ORIGIN FOR THE GROUP (A): 68.9565 -30.1863 96.5497 REMARK 3 T TENSOR REMARK 3 T11: 0.5003 T22: 0.0866 REMARK 3 T33: 0.4890 T12: 0.4382 REMARK 3 T13: 0.0528 T23: -0.0639 REMARK 3 L TENSOR REMARK 3 L11: 0.0470 L22: 0.0093 REMARK 3 L33: 0.0715 L12: 0.0058 REMARK 3 L13: -0.0487 L23: -0.0209 REMARK 3 S TENSOR REMARK 3 S11: 0.0414 S12: -0.0396 S13: -0.0738 REMARK 3 S21: 0.0390 S22: 0.1088 S23: -0.2671 REMARK 3 S31: 0.1218 S32: 0.0787 S33: 0.1662 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 107 THROUGH 259 ) REMARK 3 ORIGIN FOR THE GROUP (A): 55.1873 -12.9874 83.6571 REMARK 3 T TENSOR REMARK 3 T11: 0.3653 T22: 0.2001 REMARK 3 T33: 0.1756 T12: 0.2176 REMARK 3 T13: 0.0608 T23: -0.0501 REMARK 3 L TENSOR REMARK 3 L11: 0.1782 L22: 0.1199 REMARK 3 L33: 0.0769 L12: -0.0745 REMARK 3 L13: -0.0974 L23: 0.0557 REMARK 3 S TENSOR REMARK 3 S11: -0.0793 S12: 0.2815 S13: -0.1086 REMARK 3 S21: 0.0485 S22: -0.0527 S23: -0.0329 REMARK 3 S31: 0.0453 S32: -0.1096 S33: -0.1854 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 4XVO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000206381. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47865 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.70 REMARK 200 R MERGE FOR SHELL (I) : 0.96900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.940 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 77.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1M SODIUM/POTASSIUM PHOSPHATE BUFFER, REMARK 280 PH 5.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 104.95600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 104.95600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 46.19500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 80.02350 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.19500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 80.02350 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 104.95600 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.19500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 80.02350 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 104.95600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.19500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 80.02350 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: BIOLOGICAL UNIT IS THE SAME AS ASYMMETRIC UNIT REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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: 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: 3 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: C 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 SER A 37 REMARK 465 ASN A 38 REMARK 465 ALA A 39 REMARK 465 ALA A 40 REMARK 465 VAL A 41 REMARK 465 SER A 42 REMARK 465 SER B 37 REMARK 465 ASN B 38 REMARK 465 ALA B 39 REMARK 465 ALA B 40 REMARK 465 VAL B 41 REMARK 465 SER B 42 REMARK 465 SER C 37 REMARK 465 ASN C 38 REMARK 465 ALA C 39 REMARK 465 ALA C 40 REMARK 465 VAL C 41 REMARK 465 SER C 42 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 73 -63.89 -90.55 REMARK 500 ALA A 91 49.79 -88.48 REMARK 500 ALA A 174 109.51 -58.78 REMARK 500 THR B 73 -63.82 -94.79 REMARK 500 ALA B 91 44.34 -89.11 REMARK 500 ALA B 174 109.16 -58.11 REMARK 500 TYR B 227 -54.91 -123.45 REMARK 500 THR C 73 -65.51 -93.54 REMARK 500 ALA C 91 32.99 -88.31 REMARK 500 TYR C 227 -54.73 -121.47 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 PO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 C 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MCSG-APC110730 RELATED DB: TARGETTRACK DBREF 4XVO A 40 259 UNP I7G323 I7G323_MYCS2 71 290 DBREF 4XVO B 40 259 UNP I7G323 I7G323_MYCS2 71 290 DBREF 4XVO C 40 259 UNP I7G323 I7G323_MYCS2 71 290 SEQADV 4XVO SER A 37 UNP I7G323 EXPRESSION TAG SEQADV 4XVO ASN A 38 UNP I7G323 EXPRESSION TAG SEQADV 4XVO ALA A 39 UNP I7G323 EXPRESSION TAG SEQADV 4XVO SER B 37 UNP I7G323 EXPRESSION TAG SEQADV 4XVO ASN B 38 UNP I7G323 EXPRESSION TAG SEQADV 4XVO ALA B 39 UNP I7G323 EXPRESSION TAG SEQADV 4XVO SER C 37 UNP I7G323 EXPRESSION TAG SEQADV 4XVO ASN C 38 UNP I7G323 EXPRESSION TAG SEQADV 4XVO ALA C 39 UNP I7G323 EXPRESSION TAG SEQRES 1 A 223 SER ASN ALA ALA VAL SER THR PRO VAL GLU VAL ALA GLN SEQRES 2 A 223 VAL GLU PRO ALA ALA GLY ALA VAL VAL GLY VAL ALA HIS SEQRES 3 A 223 PRO VAL THR VAL ARG PHE ALA GLU PRO VAL THR ASP ARG SEQRES 4 A 223 ARG SER ALA GLU ARG SER LEU ARG ILE ALA SER THR ASP SEQRES 5 A 223 THR SER ALA GLY ARG PHE ARG TRP PRO GLU ALA ALA VAL SEQRES 6 A 223 MSE GLU TRP THR PRO ASP GLU PHE TRP PRO ALA HIS SER SEQRES 7 A 223 THR ILE SER LEU SER VAL GLY GLY VAL LYS THR SER PHE SEQRES 8 A 223 ASN THR GLY ALA GLU VAL LEU GLY VAL ALA ASP ILE ASP SEQRES 9 A 223 ALA HIS THR PHE THR VAL SER VAL ASP GLY GLU VAL LEU SEQRES 10 A 223 ARG LYS MSE PRO ALA SER MSE GLY LYS PRO LYS PHE PRO SEQRES 11 A 223 THR PRO ARG GLY THR PHE THR ALA LEU ALA LYS GLU PRO SEQRES 12 A 223 VAL VAL VAL MSE ASP SER ARG THR ILE GLY ILE PRO LEU SEQRES 13 A 223 SER ASP PRO GLU GLY TYR LYS LEU THR VAL ASN HIS ALA SEQRES 14 A 223 VAL ARG VAL THR TRP GLY GLY VAL TYR VAL HIS SER ALA SEQRES 15 A 223 PRO TRP SER VAL GLY SER GLN GLY TYR ALA ASN VAL SER SEQRES 16 A 223 HIS GLY CYS ILE ASN LEU SER PRO ASP ASN ALA ALA TRP SEQRES 17 A 223 TYR TYR ASP MSE VAL SER VAL GLY ASP PRO ILE ILE VAL SEQRES 18 A 223 GLN ALA SEQRES 1 B 223 SER ASN ALA ALA VAL SER THR PRO VAL GLU VAL ALA GLN SEQRES 2 B 223 VAL GLU PRO ALA ALA GLY ALA VAL VAL GLY VAL ALA HIS SEQRES 3 B 223 PRO VAL THR VAL ARG PHE ALA GLU PRO VAL THR ASP ARG SEQRES 4 B 223 ARG SER ALA GLU ARG SER LEU ARG ILE ALA SER THR ASP SEQRES 5 B 223 THR SER ALA GLY ARG PHE ARG TRP PRO GLU ALA ALA VAL SEQRES 6 B 223 MSE GLU TRP THR PRO ASP GLU PHE TRP PRO ALA HIS SER SEQRES 7 B 223 THR ILE SER LEU SER VAL GLY GLY VAL LYS THR SER PHE SEQRES 8 B 223 ASN THR GLY ALA GLU VAL LEU GLY VAL ALA ASP ILE ASP SEQRES 9 B 223 ALA HIS THR PHE THR VAL SER VAL ASP GLY GLU VAL LEU SEQRES 10 B 223 ARG LYS MSE PRO ALA SER MSE GLY LYS PRO LYS PHE PRO SEQRES 11 B 223 THR PRO ARG GLY THR PHE THR ALA LEU ALA LYS GLU PRO SEQRES 12 B 223 VAL VAL VAL MSE ASP SER ARG THR ILE GLY ILE PRO LEU SEQRES 13 B 223 SER ASP PRO GLU GLY TYR LYS LEU THR VAL ASN HIS ALA SEQRES 14 B 223 VAL ARG VAL THR TRP GLY GLY VAL TYR VAL HIS SER ALA SEQRES 15 B 223 PRO TRP SER VAL GLY SER GLN GLY TYR ALA ASN VAL SER SEQRES 16 B 223 HIS GLY CYS ILE ASN LEU SER PRO ASP ASN ALA ALA TRP SEQRES 17 B 223 TYR TYR ASP MSE VAL SER VAL GLY ASP PRO ILE ILE VAL SEQRES 18 B 223 GLN ALA SEQRES 1 C 223 SER ASN ALA ALA VAL SER THR PRO VAL GLU VAL ALA GLN SEQRES 2 C 223 VAL GLU PRO ALA ALA GLY ALA VAL VAL GLY VAL ALA HIS SEQRES 3 C 223 PRO VAL THR VAL ARG PHE ALA GLU PRO VAL THR ASP ARG SEQRES 4 C 223 ARG SER ALA GLU ARG SER LEU ARG ILE ALA SER THR ASP SEQRES 5 C 223 THR SER ALA GLY ARG PHE ARG TRP PRO GLU ALA ALA VAL SEQRES 6 C 223 MSE GLU TRP THR PRO ASP GLU PHE TRP PRO ALA HIS SER SEQRES 7 C 223 THR ILE SER LEU SER VAL GLY GLY VAL LYS THR SER PHE SEQRES 8 C 223 ASN THR GLY ALA GLU VAL LEU GLY VAL ALA ASP ILE ASP SEQRES 9 C 223 ALA HIS THR PHE THR VAL SER VAL ASP GLY GLU VAL LEU SEQRES 10 C 223 ARG LYS MSE PRO ALA SER MSE GLY LYS PRO LYS PHE PRO SEQRES 11 C 223 THR PRO ARG GLY THR PHE THR ALA LEU ALA LYS GLU PRO SEQRES 12 C 223 VAL VAL VAL MSE ASP SER ARG THR ILE GLY ILE PRO LEU SEQRES 13 C 223 SER ASP PRO GLU GLY TYR LYS LEU THR VAL ASN HIS ALA SEQRES 14 C 223 VAL ARG VAL THR TRP GLY GLY VAL TYR VAL HIS SER ALA SEQRES 15 C 223 PRO TRP SER VAL GLY SER GLN GLY TYR ALA ASN VAL SER SEQRES 16 C 223 HIS GLY CYS ILE ASN LEU SER PRO ASP ASN ALA ALA TRP SEQRES 17 C 223 TYR TYR ASP MSE VAL SER VAL GLY ASP PRO ILE ILE VAL SEQRES 18 C 223 GLN ALA MODRES 4XVO MSE A 102 MET MODIFIED RESIDUE MODRES 4XVO MSE A 156 MET MODIFIED RESIDUE MODRES 4XVO MSE A 160 MET MODIFIED RESIDUE MODRES 4XVO MSE A 183 MET MODIFIED RESIDUE MODRES 4XVO MSE A 248 MET MODIFIED RESIDUE MODRES 4XVO MSE B 102 MET MODIFIED RESIDUE MODRES 4XVO MSE B 156 MET MODIFIED RESIDUE MODRES 4XVO MSE B 160 MET MODIFIED RESIDUE MODRES 4XVO MSE B 183 MET MODIFIED RESIDUE MODRES 4XVO MSE B 248 MET MODIFIED RESIDUE MODRES 4XVO MSE C 102 MET MODIFIED RESIDUE MODRES 4XVO MSE C 156 MET MODIFIED RESIDUE MODRES 4XVO MSE C 160 MET MODIFIED RESIDUE MODRES 4XVO MSE C 183 MET MODIFIED RESIDUE MODRES 4XVO MSE C 248 MET MODIFIED RESIDUE HET MSE A 102 13 HET MSE A 156 8 HET MSE A 160 8 HET MSE A 183 8 HET MSE A 248 13 HET MSE B 102 13 HET MSE B 156 8 HET MSE B 160 8 HET MSE B 183 8 HET MSE B 248 13 HET MSE C 102 13 HET MSE C 156 8 HET MSE C 160 8 HET MSE C 183 8 HET MSE C 248 13 HET PO4 A 501 5 HET PO4 A 502 5 HET PO4 B 301 5 HET PO4 C 301 5 HETNAM MSE SELENOMETHIONINE HETNAM PO4 PHOSPHATE ION FORMUL 1 MSE 15(C5 H11 N O2 SE) FORMUL 4 PO4 4(O4 P 3-) FORMUL 8 HOH *174(H2 O) HELIX 1 AA1 ASP A 74 SER A 81 1 8 HELIX 2 AA2 ARG A 186 GLY A 189 5 4 HELIX 3 AA3 PRO A 219 VAL A 222 5 4 HELIX 4 AA4 SER A 238 VAL A 249 1 12 HELIX 5 AA5 ASP B 74 SER B 81 1 8 HELIX 6 AA6 ARG B 186 GLY B 189 5 4 HELIX 7 AA7 PRO B 219 VAL B 222 5 4 HELIX 8 AA8 SER B 238 VAL B 249 1 12 HELIX 9 AA9 ASP C 74 SER C 81 1 8 HELIX 10 AB1 ASP C 88 SER C 90 5 3 HELIX 11 AB2 ARG C 186 GLY C 189 5 4 HELIX 12 AB3 PRO C 219 VAL C 222 5 4 HELIX 13 AB4 SER C 238 VAL C 249 1 12 SHEET 1 AA1 4 VAL A 47 GLU A 51 0 SHEET 2 AA1 4 VAL A 64 PHE A 68 -1 O ARG A 67 N GLN A 49 SHEET 3 AA1 4 VAL A 101 PRO A 106 -1 O MSE A 102 N VAL A 66 SHEET 4 AA1 4 GLY A 92 ARG A 95 -1 N ARG A 95 O GLU A 103 SHEET 1 AA2 4 VAL A 57 VAL A 58 0 SHEET 2 AA2 4 LYS A 124 THR A 129 1 O ASN A 128 N VAL A 58 SHEET 3 AA2 4 THR A 115 VAL A 120 -1 N ILE A 116 O PHE A 127 SHEET 4 AA2 4 LEU A 82 ILE A 84 -1 N ARG A 83 O SER A 119 SHEET 1 AA3 5 GLU A 151 PRO A 157 0 SHEET 2 AA3 5 THR A 143 VAL A 148 -1 N PHE A 144 O MSE A 156 SHEET 3 AA3 5 VAL A 133 ASP A 138 -1 N ASP A 138 O THR A 143 SHEET 4 AA3 5 PRO A 254 GLN A 258 1 O ILE A 256 N GLY A 135 SHEET 5 AA3 5 GLY A 170 THR A 173 -1 N PHE A 172 O ILE A 255 SHEET 1 AA4 4 ALA A 176 ASP A 184 0 SHEET 2 AA4 4 LYS A 199 ARG A 207 -1 O VAL A 202 N VAL A 181 SHEET 3 AA4 4 TYR A 214 SER A 217 -1 O VAL A 215 N VAL A 206 SHEET 4 AA4 4 ILE A 235 LEU A 237 1 O ILE A 235 N TYR A 214 SHEET 1 AA5 4 VAL B 47 GLU B 51 0 SHEET 2 AA5 4 VAL B 64 PHE B 68 -1 O ARG B 67 N GLN B 49 SHEET 3 AA5 4 VAL B 101 PRO B 106 -1 O MSE B 102 N VAL B 66 SHEET 4 AA5 4 GLY B 92 ARG B 95 -1 N ARG B 95 O GLU B 103 SHEET 1 AA6 4 VAL B 57 VAL B 58 0 SHEET 2 AA6 4 VAL B 123 THR B 129 1 O ASN B 128 N VAL B 58 SHEET 3 AA6 4 THR B 115 VAL B 120 -1 N ILE B 116 O PHE B 127 SHEET 4 AA6 4 LEU B 82 ILE B 84 -1 N ARG B 83 O SER B 119 SHEET 1 AA7 5 GLU B 151 PRO B 157 0 SHEET 2 AA7 5 THR B 143 VAL B 148 -1 N PHE B 144 O MSE B 156 SHEET 3 AA7 5 VAL B 133 ASP B 138 -1 N ASP B 138 O THR B 143 SHEET 4 AA7 5 PRO B 254 GLN B 258 1 O ILE B 256 N GLY B 135 SHEET 5 AA7 5 GLY B 170 THR B 173 -1 N PHE B 172 O ILE B 255 SHEET 1 AA8 4 ALA B 176 ASP B 184 0 SHEET 2 AA8 4 LYS B 199 ARG B 207 -1 O ALA B 205 N GLU B 178 SHEET 3 AA8 4 TYR B 214 SER B 217 -1 O VAL B 215 N VAL B 206 SHEET 4 AA8 4 ILE B 235 LEU B 237 1 O ILE B 235 N TYR B 214 SHEET 1 AA9 4 VAL C 47 GLU C 51 0 SHEET 2 AA9 4 VAL C 64 PHE C 68 -1 O ARG C 67 N GLN C 49 SHEET 3 AA9 4 VAL C 101 PRO C 106 -1 O MSE C 102 N VAL C 66 SHEET 4 AA9 4 GLY C 92 GLU C 98 -1 N ARG C 95 O GLU C 103 SHEET 1 AB1 4 VAL C 57 VAL C 58 0 SHEET 2 AB1 4 VAL C 123 THR C 129 1 O ASN C 128 N VAL C 58 SHEET 3 AB1 4 THR C 115 VAL C 120 -1 N ILE C 116 O PHE C 127 SHEET 4 AB1 4 LEU C 82 ILE C 84 -1 N ARG C 83 O SER C 119 SHEET 1 AB2 5 GLU C 151 PRO C 157 0 SHEET 2 AB2 5 THR C 143 VAL C 148 -1 N PHE C 144 O MSE C 156 SHEET 3 AB2 5 VAL C 133 ASP C 138 -1 N ASP C 138 O THR C 143 SHEET 4 AB2 5 PRO C 254 GLN C 258 1 O ILE C 256 N GLY C 135 SHEET 5 AB2 5 GLY C 170 THR C 173 -1 N PHE C 172 O ILE C 255 SHEET 1 AB3 4 ALA C 176 ASP C 184 0 SHEET 2 AB3 4 LYS C 199 ARG C 207 -1 O VAL C 202 N VAL C 181 SHEET 3 AB3 4 TYR C 214 SER C 217 -1 O VAL C 215 N VAL C 206 SHEET 4 AB3 4 ILE C 235 LEU C 237 1 O ILE C 235 N TYR C 214 LINK C VAL A 101 N MSE A 102 1555 1555 1.33 LINK C MSE A 102 N GLU A 103 1555 1555 1.33 LINK C LYS A 155 N MSE A 156 1555 1555 1.33 LINK C MSE A 156 N PRO A 157 1555 1555 1.34 LINK C SER A 159 N MSE A 160 1555 1555 1.33 LINK C MSE A 160 N GLY A 161 1555 1555 1.33 LINK C VAL A 182 N MSE A 183 1555 1555 1.33 LINK C MSE A 183 N ASP A 184 1555 1555 1.33 LINK C ASP A 247 N MSE A 248 1555 1555 1.33 LINK C MSE A 248 N VAL A 249 1555 1555 1.33 LINK C VAL B 101 N MSE B 102 1555 1555 1.33 LINK C MSE B 102 N GLU B 103 1555 1555 1.33 LINK C LYS B 155 N MSE B 156 1555 1555 1.33 LINK C MSE B 156 N PRO B 157 1555 1555 1.34 LINK C SER B 159 N MSE B 160 1555 1555 1.33 LINK C MSE B 160 N GLY B 161 1555 1555 1.33 LINK C VAL B 182 N MSE B 183 1555 1555 1.33 LINK C MSE B 183 N ASP B 184 1555 1555 1.33 LINK C ASP B 247 N MSE B 248 1555 1555 1.33 LINK C MSE B 248 N VAL B 249 1555 1555 1.33 LINK C VAL C 101 N MSE C 102 1555 1555 1.33 LINK C MSE C 102 N GLU C 103 1555 1555 1.33 LINK C LYS C 155 N MSE C 156 1555 1555 1.33 LINK C MSE C 156 N PRO C 157 1555 1555 1.34 LINK C SER C 159 N MSE C 160 1555 1555 1.33 LINK C MSE C 160 N GLY C 161 1555 1555 1.33 LINK C VAL C 182 N MSE C 183 1555 1555 1.33 LINK C MSE C 183 N ASP C 184 1555 1555 1.33 LINK C ASP C 247 N MSE C 248 1555 1555 1.33 LINK C MSE C 248 N VAL C 249 1555 1555 1.33 CISPEP 1 GLU A 51 PRO A 52 0 1.14 CISPEP 2 GLU B 51 PRO B 52 0 0.41 CISPEP 3 GLU C 51 PRO C 52 0 1.20 SITE 1 AC1 7 TYR A 198 HIS A 216 SER A 231 HIS A 232 SITE 2 AC1 7 GLY A 233 CYS A 234 ASN A 236 SITE 1 AC2 4 ARG A 186 LEU A 192 SER A 193 HOH A 650 SITE 1 AC3 8 TYR B 198 HIS B 216 SER B 231 HIS B 232 SITE 2 AC3 8 GLY B 233 CYS B 234 ASN B 236 HOH B 453 SITE 1 AC4 7 TYR C 198 HIS C 216 SER C 231 HIS C 232 SITE 2 AC4 7 GLY C 233 CYS C 234 ASN C 236 CRYST1 92.390 160.047 209.912 90.00 90.00 90.00 C 2 2 21 24 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 0.010824 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006248 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004764 0.00000