HEADER MUCIN-BINDING PROTEIN 15-JUL-15 5CK1 TITLE SELENOMETHIONINE BT4246 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUSD HOMOLOG; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 26-642; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON VPI-5482; SOURCE 3 ORGANISM_TAXID: 226186; SOURCE 4 GENE: BT_4246; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-28A KEYWDS SUSD HOMOLOGUE, TETRA-TRICO PEPTIDE REPEAT (TPR), MUCIN-BINDING KEYWDS 2 PROTEIN, MICROBIOTA EXPDTA X-RAY DIFFRACTION AUTHOR N.M.KOROPATKIN REVDAT 1 12-OCT-16 5CK1 0 JRNL AUTH D.A.NDEH,S.NAKJANG,K.J.KWIATKOWSKI,N.M.KOROPATKIN,R.P.HIRT, JRNL AUTH 2 D.N.BOLAM JRNL TITL MECHANISTIC INSIGHT INTO MUCIN DEGRADATION BY THE HUMAN GUT JRNL TITL 2 MICROBIOTA REVEALS TARGETING OF THE GLYCOPROTEIN CORE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.84 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) : 1.84 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.83 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 65361 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1998 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 31.8317 - 4.4194 0.99 4689 153 0.1647 0.1909 REMARK 3 2 4.4194 - 3.5093 1.00 4613 142 0.1451 0.1505 REMARK 3 3 3.5093 - 3.0661 1.00 4570 146 0.1650 0.2208 REMARK 3 4 3.0661 - 2.7859 1.00 4543 146 0.1714 0.1675 REMARK 3 5 2.7859 - 2.5863 1.00 4542 139 0.1773 0.2498 REMARK 3 6 2.5863 - 2.4339 1.00 4545 140 0.1750 0.2299 REMARK 3 7 2.4339 - 2.3121 1.00 4521 146 0.1694 0.2116 REMARK 3 8 2.3121 - 2.2114 1.00 4510 139 0.1660 0.2131 REMARK 3 9 2.2114 - 2.1263 1.00 4514 149 0.1700 0.1792 REMARK 3 10 2.1263 - 2.0530 1.00 4460 143 0.1640 0.2070 REMARK 3 11 2.0530 - 1.9888 1.00 4506 140 0.1709 0.2150 REMARK 3 12 1.9888 - 1.9319 1.00 4492 135 0.1810 0.2251 REMARK 3 13 1.9319 - 1.8811 1.00 4484 155 0.1864 0.2608 REMARK 3 14 1.8811 - 1.8352 0.97 4374 125 0.2011 0.2651 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.680 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.62 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 : 0.006 4905 REMARK 3 ANGLE : 0.925 6669 REMARK 3 CHIRALITY : 0.037 678 REMARK 3 PLANARITY : 0.004 869 REMARK 3 DIHEDRAL : 12.896 1744 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 46 THROUGH 104 ) REMARK 3 ORIGIN FOR THE GROUP (A): 91.4523 46.2005 58.0710 REMARK 3 T TENSOR REMARK 3 T11: 0.0341 T22: -0.0334 REMARK 3 T33: -0.0036 T12: 0.0423 REMARK 3 T13: -0.0595 T23: 0.0410 REMARK 3 L TENSOR REMARK 3 L11: -0.0031 L22: -0.0026 REMARK 3 L33: 0.0001 L12: -0.0046 REMARK 3 L13: 0.0017 L23: -0.0031 REMARK 3 S TENSOR REMARK 3 S11: -0.0419 S12: 0.0147 S13: 0.0184 REMARK 3 S21: -0.0077 S22: -0.0170 S23: -0.0112 REMARK 3 S31: -0.0230 S32: 0.0024 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 105 THROUGH 158 ) REMARK 3 ORIGIN FOR THE GROUP (A): 89.7668 55.8324 77.9771 REMARK 3 T TENSOR REMARK 3 T11: 0.0673 T22: -0.0341 REMARK 3 T33: 0.0638 T12: 0.0598 REMARK 3 T13: -0.0795 T23: 0.0262 REMARK 3 L TENSOR REMARK 3 L11: -0.0016 L22: 0.0006 REMARK 3 L33: -0.0009 L12: 0.0002 REMARK 3 L13: -0.0028 L23: -0.0008 REMARK 3 S TENSOR REMARK 3 S11: -0.0126 S12: -0.0237 S13: 0.0168 REMARK 3 S21: 0.0201 S22: -0.0140 S23: 0.0016 REMARK 3 S31: -0.0203 S32: -0.0102 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 159 THROUGH 250 ) REMARK 3 ORIGIN FOR THE GROUP (A): 98.5015 44.8934 77.7334 REMARK 3 T TENSOR REMARK 3 T11: -0.0930 T22: -0.0131 REMARK 3 T33: -0.0917 T12: 0.0504 REMARK 3 T13: -0.1227 T23: 0.0486 REMARK 3 L TENSOR REMARK 3 L11: 0.0012 L22: -0.0045 REMARK 3 L33: 0.0018 L12: -0.0010 REMARK 3 L13: 0.0019 L23: -0.0020 REMARK 3 S TENSOR REMARK 3 S11: -0.0351 S12: -0.0162 S13: 0.0194 REMARK 3 S21: 0.0193 S22: -0.0174 S23: 0.0032 REMARK 3 S31: -0.0327 S32: 0.0043 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 251 THROUGH 576 ) REMARK 3 ORIGIN FOR THE GROUP (A): 79.4631 28.9016 60.5045 REMARK 3 T TENSOR REMARK 3 T11: 0.0551 T22: 0.0663 REMARK 3 T33: 0.0534 T12: 0.0160 REMARK 3 T13: -0.0093 T23: -0.0110 REMARK 3 L TENSOR REMARK 3 L11: 0.0085 L22: 0.0163 REMARK 3 L33: 0.0346 L12: 0.0112 REMARK 3 L13: 0.0055 L23: 0.0081 REMARK 3 S TENSOR REMARK 3 S11: -0.0075 S12: -0.0239 S13: -0.0044 REMARK 3 S21: -0.0041 S22: -0.0144 S23: 0.0002 REMARK 3 S31: -0.0002 S32: -0.0487 S33: 0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 577 THROUGH 642 ) REMARK 3 ORIGIN FOR THE GROUP (A): 99.4479 35.3148 53.5432 REMARK 3 T TENSOR REMARK 3 T11: 0.0456 T22: 0.0520 REMARK 3 T33: 0.0411 T12: -0.0010 REMARK 3 T13: -0.0058 T23: 0.0063 REMARK 3 L TENSOR REMARK 3 L11: 0.0036 L22: 0.0044 REMARK 3 L33: 0.0084 L12: 0.0017 REMARK 3 L13: -0.0061 L23: -0.0102 REMARK 3 S TENSOR REMARK 3 S11: -0.0109 S12: 0.0156 S13: -0.0077 REMARK 3 S21: -0.0021 S22: -0.0201 S23: -0.0057 REMARK 3 S31: -0.0277 S32: 0.0222 S33: -0.0000 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 5CK1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211790. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-OCT-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 : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65430 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.835 REMARK 200 RESOLUTION RANGE LOW (A) : 31.830 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.10950 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 37.4100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.21300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 13.30 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, KCL, NUCLEATION OFF OF A REMARK 280 GRAIN OF SIO2., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 58.32800 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 58.32800 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 55.39600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.86900 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 55.39600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.86900 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.32800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 55.39600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 57.86900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.32800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 55.39600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 57.86900 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 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 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 HOH A1604 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 MSE A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 SER A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 SER A 12 REMARK 465 SER A 13 REMARK 465 GLU A 14 REMARK 465 ASN A 15 REMARK 465 LEU A 16 REMARK 465 TYR A 17 REMARK 465 PHE A 18 REMARK 465 GLN A 19 REMARK 465 GLY A 20 REMARK 465 HIS A 21 REMARK 465 MSE A 22 REMARK 465 ALA A 23 REMARK 465 SER A 24 REMARK 465 ASP A 25 REMARK 465 TYR A 26 REMARK 465 LEU A 27 REMARK 465 ASP A 28 REMARK 465 VAL A 29 REMARK 465 VAL A 30 REMARK 465 PRO A 31 REMARK 465 PRO A 32 REMARK 465 GLU A 33 REMARK 465 GLN A 34 REMARK 465 PRO A 35 REMARK 465 ASN A 36 REMARK 465 ILE A 37 REMARK 465 ASP A 38 REMARK 465 ASP A 39 REMARK 465 ALA A 40 REMARK 465 MSE A 41 REMARK 465 SER A 42 REMARK 465 SER A 43 REMARK 465 PRO A 44 REMARK 465 THR A 45 REMARK 465 GLY A 127 REMARK 465 SER A 128 REMARK 465 ASP A 129 REMARK 465 ILE A 168 REMARK 465 PRO A 169 REMARK 465 MSE A 170 REMARK 465 ASP A 171 REMARK 465 THR A 172 REMARK 465 THR A 206 REMARK 465 VAL A 207 REMARK 465 THR A 208 REMARK 465 ASN A 209 REMARK 465 GLU A 210 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 A 126 O HOH A 801 2.13 REMARK 500 O HOH A 1150 O HOH A 1379 2.18 REMARK 500 O HOH A 906 O HOH A 1553 2.19 REMARK 500 O HOH A 1337 O HOH A 1416 2.19 REMARK 500 O HOH A 1237 O HOH A 1485 2.19 REMARK 500 O HOH A 1501 O HOH A 1526 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 SER A 64 -14.97 80.55 REMARK 500 ALA A 131 154.41 179.95 REMARK 500 ASN A 236 45.48 -141.30 REMARK 500 ASN A 248 44.21 -140.41 REMARK 500 THR A 284 -96.11 -110.55 REMARK 500 THR A 284 -95.93 -110.55 REMARK 500 LEU A 357 -87.75 -67.85 REMARK 500 SER A 412 -6.83 77.29 REMARK 500 THR A 440 -55.56 -121.70 REMARK 500 MSE A 457 -79.41 -132.02 REMARK 500 ASN A 466 -3.04 76.90 REMARK 500 PHE A 479 -3.46 77.14 REMARK 500 PRO A 613 41.39 -76.10 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 A1610 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A1611 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A1612 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A1613 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH A1614 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A1615 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH A1616 DISTANCE = 6.69 ANGSTROMS REMARK 525 HOH A1617 DISTANCE = 6.78 ANGSTROMS REMARK 525 HOH A1618 DISTANCE = 7.18 ANGSTROMS REMARK 525 HOH A1619 DISTANCE = 7.23 ANGSTROMS 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 CA A 704 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 331 O REMARK 620 2 ASP A 481 OD2 143.1 REMARK 620 3 THR A 496 O 131.7 80.3 REMARK 620 4 HOH A 867 O 100.8 81.5 107.8 REMARK 620 5 HOH A1124 O 72.3 72.3 151.0 77.7 REMARK 620 6 HOH A1107 O 82.8 92.0 73.4 173.0 97.9 REMARK 620 7 HOH A 955 O 78.9 136.6 70.1 78.4 137.9 108.3 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 704 DBREF 5CK1 A 25 642 UNP Q89ZX5 Q89ZX5_BACTN 25 642 SEQADV 5CK1 MSE A 2 UNP Q89ZX5 INITIATING METHIONINE SEQADV 5CK1 GLY A 3 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 SER A 4 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 SER A 5 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 HIS A 6 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 HIS A 7 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 HIS A 8 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 HIS A 9 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 HIS A 10 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 HIS A 11 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 SER A 12 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 SER A 13 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 GLU A 14 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 ASN A 15 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 LEU A 16 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 TYR A 17 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 PHE A 18 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 GLN A 19 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 GLY A 20 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 HIS A 21 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 MSE A 22 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 ALA A 23 UNP Q89ZX5 EXPRESSION TAG SEQADV 5CK1 SER A 24 UNP Q89ZX5 EXPRESSION TAG SEQRES 1 A 641 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLU SEQRES 2 A 641 ASN LEU TYR PHE GLN GLY HIS MSE ALA SER ASP TYR LEU SEQRES 3 A 641 ASP VAL VAL PRO PRO GLU GLN PRO ASN ILE ASP ASP ALA SEQRES 4 A 641 MSE SER SER PRO THR ARG ALA LEU GLY PHE LEU TYR SER SEQRES 5 A 641 CYS TYR GLY GLY VAL SER THR ASP LEU PRO SER ALA TYR SEQRES 6 A 641 LEU GLY GLU ILE ASN SER THR THR ASP GLU TYR VAL LEU SEQRES 7 A 641 PRO TYR SER TRP ASN THR ASP GLY TYR TRP GLY ALA TYR SEQRES 8 A 641 ALA PHE ASN THR ALA SER SER THR ASN GLN ASP TRP LEU SEQRES 9 A 641 TRP GLY THR THR TYR GLN TYR ILE GLY GLN CYS TYR LEU SEQRES 10 A 641 PHE LEU GLN LYS LEU GLU ASN ALA GLY SER ASP ILE ALA SEQRES 11 A 641 SER ASP ALA GLU LYS GLU GLN TRP ARG ALA GLU CYS GLN SEQRES 12 A 641 PHE LEU VAL ALA TYR TYR HIS PHE ALA THR LEU ARG ARG SEQRES 13 A 641 TYR GLY PRO ILE PRO ILE THR ASP SER TYR ILE PRO MSE SEQRES 14 A 641 ASP THR PRO THR SER GLU TYR ASN GLY ARG PHE HIS PHE SEQRES 15 A 641 ASP TYR CYS VAL ASP TRP ILE ALA ASN GLN LEU ASP GLU SEQRES 16 A 641 ALA ALA LYS VAL LEU PRO ALA ASN ARG THR VAL THR ASN SEQRES 17 A 641 GLU TRP GLY ARG ALA THR SER THR ILE ALA LYS ALA VAL SEQRES 18 A 641 LYS ALA ARG LEU LEU LEU TYR ALA ALA SER PRO LEU TRP SEQRES 19 A 641 ASN GLY SER PHE PRO TYR PRO ASN TRP GLN ASN GLU ASN SEQRES 20 A 641 PHE GLU THR PRO GLY TYR GLY LYS ALA LEU VAL SER ASN SEQRES 21 A 641 THR TYR ASP LYS SER LYS TRP GLU ARG ALA LEU ALA ALA SEQRES 22 A 641 CYS GLN GLU ALA LEU THR LEU ALA THR THR SER GLY ASP SEQRES 23 A 641 ARG GLU LEU TYR ASP ASP ASP GLU TYR TYR SER ARG GLN SEQRES 24 A 641 SER LEU ASN LEU PRO PHE VAL PRO GLY VAL ALA ASP VAL SEQRES 25 A 641 GLU ASP ASN LYS GLU PHE LEU LYS ASN VAL MSE LYS MSE SEQRES 26 A 641 ARG TYR ALA VAL SER THR ARG GLU SER GLU GLY ASN LYS SEQRES 27 A 641 GLU ILE ILE TRP GLY LEU SER ASN GLN PHE ASP PHE TYR SEQRES 28 A 641 SER ARG TYR PRO LEU ARG ILE LEU LYS LYS SER ASP GLY SEQRES 29 A 641 THR TRP HIS ALA GLY TYR SER GLY VAL SER PRO THR LEU SEQRES 30 A 641 TYR THR PHE GLU HIS PHE TYR THR ALA ASN GLY LYS LEU SEQRES 31 A 641 PRO GLU LYS ASP LEU ASP PHE THR PRO SER SER GLU TRP SEQRES 32 A 641 PHE GLU SER ALA GLY ILE SER SER ARG GLU ASP ILE ILE SEQRES 33 A 641 LYS LEU ASN VAL GLY ARG GLU PRO ARG PHE TYR ALA TRP SEQRES 34 A 641 MSE ALA PHE ASP GLY GLY ASP TYR GLY THR LYS PHE ALA SEQRES 35 A 641 ALA GLY SER PRO LEU LYS LEU GLU MSE ARG ASN SER GLU SEQRES 36 A 641 MSE HIS GLY TYR ASN PRO SER LEU PHE ASN ARG ASP HIS SEQRES 37 A 641 SER VAL THR GLY PHE LEU THR GLN LYS PHE VAL ASP PRO SEQRES 38 A 641 VAL THR GLU PHE TYR THR ALA GLY GLY SER THR SER GLY SEQRES 39 A 641 THR SER ALA PRO THR ILE LEU PHE ARG LEU ALA GLU LEU SEQRES 40 A 641 TYR LEU ASN VAL ALA GLU CYS HIS ALA ALA LEU GLY ASN SEQRES 41 A 641 THR GLN GLU ALA ILE ASP ALA LEU ASN PRO VAL ARG GLU SEQRES 42 A 641 ARG ALA GLY ILE PRO LYS LEU THR LEU ALA ASP ILE THR SEQRES 43 A 641 ASN ASN MSE THR ILE LYS ASP TRP VAL HIS ASN GLU ARG SEQRES 44 A 641 PHE VAL GLU LEU TRP ASN GLU GLY HIS ARG PHE PHE ASP SEQRES 45 A 641 VAL ARG ARG TRP ALA GLU GLY ALA LYS TYR PHE GLY ALA SEQRES 46 A 641 ASN LYS ARG GLU GLY LEU ASN ALA GLU VAL GLN SER PRO SEQRES 47 A 641 THR PHE GLU GLU PHE ASN LYS ARG THR THR VAL ASP ALA SEQRES 48 A 641 PRO TYR VAL TRP GLU ASN ARG MSE TYR LEU ASN PRO VAL SEQRES 49 A 641 PHE TYR ASN GLU VAL TYR LYS ASN PRO GLN MSE VAL GLN SEQRES 50 A 641 ALA PRO GLY TYR MODRES 5CK1 MSE A 324 MET MODIFIED RESIDUE MODRES 5CK1 MSE A 326 MET MODIFIED RESIDUE MODRES 5CK1 MSE A 431 MET MODIFIED RESIDUE MODRES 5CK1 MSE A 452 MET MODIFIED RESIDUE MODRES 5CK1 MSE A 457 MET MODIFIED RESIDUE MODRES 5CK1 MSE A 550 MET MODIFIED RESIDUE MODRES 5CK1 MSE A 620 MET MODIFIED RESIDUE MODRES 5CK1 MSE A 636 MET MODIFIED RESIDUE HET MSE A 324 8 HET MSE A 326 8 HET MSE A 431 8 HET MSE A 452 8 HET MSE A 457 8 HET MSE A 550 8 HET MSE A 620 8 HET MSE A 636 8 HET EDO A 701 4 HET EDO A 702 4 HET EDO A 703 10 HET CA A 704 1 HETNAM MSE SELENOMETHIONINE HETNAM EDO 1,2-ETHANEDIOL HETNAM CA CALCIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 EDO 3(C2 H6 O2) FORMUL 5 CA CA 2+ FORMUL 6 HOH *819(H2 O) HELIX 1 AA1 ARG A 46 TYR A 55 1 10 HELIX 2 AA2 GLY A 56 VAL A 58 5 3 HELIX 3 AA3 PRO A 80 ASP A 86 5 7 HELIX 4 AA4 TYR A 88 PHE A 94 1 7 HELIX 5 AA5 TRP A 104 ALA A 126 1 23 HELIX 6 AA6 SER A 132 GLY A 159 1 28 HELIX 7 AA7 PRO A 173 TYR A 177 5 5 HELIX 8 AA8 HIS A 182 LEU A 201 1 20 HELIX 9 AA9 THR A 215 SER A 232 1 18 HELIX 10 AB1 PRO A 233 ASN A 236 5 4 HELIX 11 AB2 LYS A 265 THR A 284 1 20 HELIX 12 AB3 GLU A 295 GLN A 300 1 6 HELIX 13 AB4 VAL A 313 ASP A 315 5 3 HELIX 14 AB5 ASN A 316 VAL A 330 1 15 HELIX 15 AB6 ARG A 333 GLY A 337 5 5 HELIX 16 AB7 THR A 377 PHE A 384 1 8 HELIX 17 AB8 PRO A 400 TRP A 404 5 5 HELIX 18 AB9 ILE A 417 VAL A 421 5 5 HELIX 19 AC1 GLU A 424 TRP A 430 1 7 HELIX 20 AC2 LEU A 464 ASP A 468 5 5 HELIX 21 AC3 LEU A 505 GLY A 520 1 16 HELIX 22 AC4 ASN A 521 ALA A 536 1 16 HELIX 23 AC5 THR A 542 ILE A 546 5 5 HELIX 24 AC6 THR A 551 LEU A 564 1 14 HELIX 25 AC7 HIS A 569 TRP A 577 1 9 HELIX 26 AC8 GLU A 579 GLY A 585 1 7 HELIX 27 AC9 THR A 600 ASN A 605 1 6 HELIX 28 AD1 GLU A 617 LEU A 622 5 6 HELIX 29 AD2 PHE A 626 ASN A 633 1 8 SHEET 1 AA1 2 TYR A 77 VAL A 78 0 SHEET 2 AA1 2 SER A 375 PRO A 376 -1 O SER A 375 N VAL A 78 SHEET 1 AA2 2 ILE A 341 LEU A 345 0 SHEET 2 AA2 2 THR A 500 ARG A 504 -1 O LEU A 502 N TRP A 343 SHEET 1 AA3 2 ARG A 358 LYS A 361 0 SHEET 2 AA3 2 TRP A 367 ALA A 369 -1 O HIS A 368 N ILE A 359 SHEET 1 AA4 2 MSE A 431 PHE A 433 0 SHEET 2 AA4 2 PHE A 474 THR A 476 -1 O LEU A 475 N ALA A 432 SHEET 1 AA5 2 ASP A 437 ALA A 443 0 SHEET 2 AA5 2 SER A 446 LYS A 449 -1 O SER A 446 N ALA A 443 SHEET 1 AA6 2 GLU A 485 PHE A 486 0 SHEET 2 AA6 2 SER A 492 THR A 493 -1 O THR A 493 N GLU A 485 SHEET 1 AA7 2 GLU A 590 GLY A 591 0 SHEET 2 AA7 2 THR A 608 THR A 609 -1 O THR A 608 N GLY A 591 LINK C VAL A 323 N MSE A 324 1555 1555 1.33 LINK C MSE A 324 N LYS A 325 1555 1555 1.34 LINK C LYS A 325 N MSE A 326 1555 1555 1.33 LINK C MSE A 326 N ARG A 327 1555 1555 1.33 LINK O SER A 331 CA CA A 704 1555 1555 2.34 LINK C TRP A 430 N MSE A 431 1555 1555 1.33 LINK C MSE A 431 N ALA A 432 1555 1555 1.33 LINK C GLU A 451 N MSE A 452 1555 1555 1.33 LINK C MSE A 452 N ARG A 453 1555 1555 1.34 LINK C GLU A 456 N MSE A 457 1555 1555 1.34 LINK C MSE A 457 N HIS A 458 1555 1555 1.33 LINK OD2 ASP A 481 CA CA A 704 1555 1555 2.43 LINK O THR A 496 CA CA A 704 1555 1555 2.35 LINK C ASN A 549 N MSE A 550 1555 1555 1.33 LINK C MSE A 550 N THR A 551 1555 1555 1.33 LINK C ARG A 619 N MSE A 620 1555 1555 1.33 LINK C MSE A 620 N TYR A 621 1555 1555 1.34 LINK C GLN A 635 N MSE A 636 1555 1555 1.33 LINK C MSE A 636 N VAL A 637 1555 1555 1.33 LINK CA CA A 704 O HOH A 867 1555 1555 2.44 LINK CA CA A 704 O HOH A1124 1555 1555 2.45 LINK CA CA A 704 O HOH A1107 1555 1555 2.36 LINK CA CA A 704 O HOH A 955 1555 1555 2.47 SITE 1 AC1 7 TYR A 241 ASP A 312 GLU A 617 ASN A 618 SITE 2 AC1 7 ARG A 619 GLY A 641 HOH A 847 SITE 1 AC2 10 PRO A 63 ARG A 156 ARG A 225 LEU A 502 SITE 2 AC2 10 GLY A 568 PHE A 572 HOH A 924 HOH A 976 SITE 3 AC2 10 HOH A 989 HOH A1193 SITE 1 AC3 7 PRO A 233 ASN A 236 GLY A 237 SER A 238 SITE 2 AC3 7 TYR A 263 HOH A 951 HOH A1045 SITE 1 AC4 7 SER A 331 ASP A 481 THR A 496 HOH A 867 SITE 2 AC4 7 HOH A 955 HOH A1107 HOH A1124 CRYST1 110.792 115.738 116.656 90.00 90.00 90.00 C 2 2 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 0.009026 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008640 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008572 0.00000