HEADER TRANSPORT PROTEIN 18-OCT-14 4V3G TITLE CRYSTAL STRUCTURE OF CYMA FROM KLEBSIELLA OXYTOCA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYMA PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CYMA; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: CLONING REGION INCLUDING HEPTAHISTIDINE TAG AT N- COMPND 7 TERMINUS SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA OXYTOCA; SOURCE 3 ORGANISM_TAXID: 571; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: C43; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: DELTA CYOABCD; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PB22 KEYWDS TRANSPORT PROTEIN, OUTER MEMBRANE CHANNEL CYCLODEXTRIN TRANSPORT BETA KEYWDS 2 BARREL MONOMER EXPDTA X-RAY DIFFRACTION AUTHOR B.VAN DEN BERG,S.P.BHAMIDIMARRI,U.KLEINEKATHOEFER,M.WINTERHALTER REVDAT 4 21-FEB-18 4V3G 1 AUTHOR JRNL REMARK REVDAT 3 24-JUN-15 4V3G 1 JRNL REVDAT 2 10-JUN-15 4V3G 1 SOURCE JRNL REVDAT 1 03-JUN-15 4V3G 0 JRNL AUTH B.VAN DEN BERG,S.PRATHYUSHA BHAMIDIMARRI, JRNL AUTH 2 J.DAHYABHAI PRAJAPATI,U.KLEINEKATHOFER,M.WINTERHALTER JRNL TITL OUTER-MEMBRANE TRANSLOCATION OF BULKY SMALL MOLECULES BY JRNL TITL 2 PASSIVE DIFFUSION. JRNL REF PROC. NATL. ACAD. SCI. V. 112 E2991 2015 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 26015567 JRNL DOI 10.1073/PNAS.1424835112 REMARK 2 REMARK 2 RESOLUTION. 2.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 2.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 32780 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1989 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 49.0076 - 6.0525 0.99 2260 149 0.2114 0.2758 REMARK 3 2 6.0525 - 4.8054 1.00 2254 141 0.1802 0.2266 REMARK 3 3 4.8054 - 4.1983 0.99 2227 144 0.1589 0.2231 REMARK 3 4 4.1983 - 3.8146 0.99 2233 142 0.1869 0.2726 REMARK 3 5 3.8146 - 3.5413 1.00 2218 141 0.1882 0.2259 REMARK 3 6 3.5413 - 3.3325 0.99 2239 141 0.1816 0.2365 REMARK 3 7 3.3325 - 3.1657 0.99 2219 142 0.1952 0.2538 REMARK 3 8 3.1657 - 3.0279 0.99 2179 140 0.2075 0.2408 REMARK 3 9 3.0279 - 2.9113 0.99 2232 139 0.2202 0.3262 REMARK 3 10 2.9113 - 2.8109 0.98 2168 147 0.2186 0.2801 REMARK 3 11 2.8109 - 2.7230 0.99 2199 143 0.2115 0.2780 REMARK 3 12 2.7230 - 2.6452 0.98 2168 144 0.2292 0.2669 REMARK 3 13 2.6452 - 2.5755 0.98 2199 148 0.2294 0.3088 REMARK 3 14 2.5755 - 2.5127 0.91 1996 128 0.2410 0.2901 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.530 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 59.32 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.009 5743 REMARK 3 ANGLE : 1.156 7704 REMARK 3 CHIRALITY : 0.039 729 REMARK 3 PLANARITY : 0.004 1005 REMARK 3 DIHEDRAL : 20.606 2145 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 -14 THROUGH 21 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.7822 10.3896 16.8052 REMARK 3 T TENSOR REMARK 3 T11: 0.4490 T22: 0.6285 REMARK 3 T33: 0.5418 T12: 0.0133 REMARK 3 T13: -0.0462 T23: -0.0756 REMARK 3 L TENSOR REMARK 3 L11: 1.1105 L22: 0.1260 REMARK 3 L33: 0.7618 L12: -0.1247 REMARK 3 L13: -0.4469 L23: -0.1865 REMARK 3 S TENSOR REMARK 3 S11: 0.0560 S12: 0.3459 S13: -0.1842 REMARK 3 S21: -0.5108 S22: 0.2636 S23: -0.3541 REMARK 3 S31: -0.1986 S32: 0.5154 S33: -0.3391 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 22 THROUGH 324 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.6502 -10.2159 14.5430 REMARK 3 T TENSOR REMARK 3 T11: 0.3807 T22: 0.4082 REMARK 3 T33: 0.4503 T12: 0.0242 REMARK 3 T13: -0.0463 T23: -0.0184 REMARK 3 L TENSOR REMARK 3 L11: 0.9876 L22: 1.4157 REMARK 3 L33: 0.7901 L12: -0.2890 REMARK 3 L13: -0.1488 L23: 0.4261 REMARK 3 S TENSOR REMARK 3 S11: -0.1407 S12: -0.1368 S13: -0.0583 REMARK 3 S21: 0.2972 S22: 0.0806 S23: -0.0094 REMARK 3 S31: 0.0586 S32: 0.0240 S33: 0.0551 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID -14 THROUGH 21 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.6701 2.7827 42.9289 REMARK 3 T TENSOR REMARK 3 T11: 1.0216 T22: 0.9256 REMARK 3 T33: 0.8364 T12: 0.0098 REMARK 3 T13: 0.1448 T23: -0.0886 REMARK 3 L TENSOR REMARK 3 L11: 0.2771 L22: 0.8989 REMARK 3 L33: 1.4202 L12: 0.4984 REMARK 3 L13: 0.0997 L23: 0.3045 REMARK 3 S TENSOR REMARK 3 S11: -0.6410 S12: -0.4577 S13: -0.2972 REMARK 3 S21: 1.0334 S22: 0.2816 S23: 0.1389 REMARK 3 S31: 0.6947 S32: -0.1698 S33: 0.2496 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 22 THROUGH 297 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.3210 17.5399 40.7189 REMARK 3 T TENSOR REMARK 3 T11: 0.5767 T22: 0.4589 REMARK 3 T33: 0.4436 T12: -0.0357 REMARK 3 T13: 0.0741 T23: -0.0235 REMARK 3 L TENSOR REMARK 3 L11: 1.5380 L22: 1.3278 REMARK 3 L33: 1.8191 L12: -0.4300 REMARK 3 L13: -0.4755 L23: -0.1758 REMARK 3 S TENSOR REMARK 3 S11: 0.0573 S12: -0.1791 S13: -0.0298 REMARK 3 S21: 0.4733 S22: -0.0107 S23: 0.1642 REMARK 3 S31: -0.3171 S32: 0.0488 S33: -0.0051 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 298 THROUGH 324 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.7217 24.1913 36.8673 REMARK 3 T TENSOR REMARK 3 T11: 0.6170 T22: 0.4791 REMARK 3 T33: 0.4546 T12: 0.0072 REMARK 3 T13: 0.0810 T23: -0.0451 REMARK 3 L TENSOR REMARK 3 L11: 1.4808 L22: 2.7380 REMARK 3 L33: 1.3181 L12: 0.0229 REMARK 3 L13: -0.6011 L23: -0.6290 REMARK 3 S TENSOR REMARK 3 S11: 0.2069 S12: -0.0955 S13: 0.2483 REMARK 3 S21: 0.3448 S22: -0.1059 S23: 0.0194 REMARK 3 S31: -0.5632 S32: 0.0224 S33: -0.1247 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 4V3G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1290062051. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9796 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32944 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 13.70 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.40 REMARK 200 R MERGE FOR SHELL (I) : 0.34000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MOLECULAR DIMENSIONS MORPHEUS 1/35 REMARK 280 OPTIMIZED, PH 8.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 52.61300 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 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 2 REMARK 465 ASP A 3 REMARK 465 GLN A 4 REMARK 465 ARG A 5 REMARK 465 GLY A 6 REMARK 465 TYR A 7 REMARK 465 LYS A 8 REMARK 465 PRO A 9 REMARK 465 GLU A 10 REMARK 465 GLU B 0 REMARK 465 ALA B 1 REMARK 465 SER B 2 REMARK 465 ASP B 3 REMARK 465 GLN B 4 REMARK 465 ARG B 5 REMARK 465 GLY B 6 REMARK 465 TYR B 7 REMARK 465 LYS B 8 REMARK 465 PRO B 9 REMARK 465 GLU B 10 REMARK 465 ASP B 11 REMARK 465 VAL B 12 REMARK 465 ALA B 13 REMARK 465 PHE B 14 REMARK 465 ASP B 15 REMARK 465 GLU B 16 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP A 11 CG OD1 OD2 REMARK 480 LYS A 45 NZ REMARK 480 LYS A 79 NZ REMARK 480 LYS A 120 CE NZ REMARK 480 LYS A 171 CE NZ REMARK 480 ASP A 233 CB CG OD1 OD2 REMARK 480 LYS A 245 CD CE NZ REMARK 480 ARG A 253 CG CD NE CZ NH1 NH2 REMARK 480 ARG A 268 NE CZ NH1 NH2 REMARK 480 GLU A 280 CG CD OE1 OE2 REMARK 480 LYS A 296 CG CD CE NZ REMARK 480 ARG A 299 NE CZ NH1 NH2 REMARK 480 HIS B -2 CB CG ND1 CD2 CE1 NE2 REMARK 480 LEU B -1 CB CG CD1 CD2 REMARK 480 LYS B 45 CE NZ REMARK 480 ASN B 104 CG OD1 ND2 REMARK 480 ASN B 150 CG OD1 ND2 REMARK 480 LYS B 163 CE NZ REMARK 480 LYS B 206 CD CE NZ REMARK 480 LYS B 215 CE NZ REMARK 480 ASP B 232 CB CG OD1 OD2 REMARK 480 ASP B 233 CB CG OD1 OD2 REMARK 480 LYS B 245 CD CE NZ REMARK 480 LYS B 249 CE NZ REMARK 480 ASP B 252 CB CG OD1 OD2 REMARK 480 ARG B 253 CG CD NE CZ NH1 NH2 REMARK 480 GLU B 280 CB CG CD OE1 OE2 REMARK 480 LYS B 296 CD CE NZ REMARK 480 ARG B 323 NE CZ NH1 NH2 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 O21 C8E B 1325 O HOH A 2005 2.09 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 GLU A 0 90.71 -62.16 REMARK 500 GLU A 85 119.77 -161.45 REMARK 500 ASN A 167 -106.83 50.66 REMARK 500 ALA A 234 -20.80 -152.93 REMARK 500 ARG A 306 143.98 -171.79 REMARK 500 LYS A 308 125.12 -175.30 REMARK 500 HIS B -2 91.08 -59.62 REMARK 500 ASN B 150 65.64 30.96 REMARK 500 ASN B 167 -110.79 57.02 REMARK 500 ALA B 234 -24.11 -153.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE (C8E): MOST DETERGENT REMARK 600 MOLECULES ARE ONLY PARTIALLY ORDERED REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 C8E A 1325 REMARK 610 C8E A 1326 REMARK 610 C8E A 1327 REMARK 610 C8E A 1328 REMARK 610 C8E A 1329 REMARK 610 C8E A 1330 REMARK 610 C8E A 1331 REMARK 610 C8E A 1332 REMARK 610 C8E A 1333 REMARK 610 C8E B 1325 REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 C8E A 1326 REMARK 615 C8E A 1329 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 14-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 15-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "BA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 14-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 15-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1325 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1326 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1327 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1328 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1329 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E B 1325 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1330 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1331 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1332 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C8E A 1333 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4V3H RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CYMA FROM KLEBSIELLA OXYTOCA REMARK 999 REMARK 999 SEQUENCE REMARK 999 METHIONINES REPLACED BY SELENO-METHIONINES DBREF 4V3G A 1 324 UNP Q48391 Q48391_KLEOX 23 346 DBREF 4V3G B 1 324 UNP Q48391 Q48391_KLEOX 23 346 SEQADV 4V3G ALA A -14 UNP Q48391 EXPRESSION TAG SEQADV 4V3G ASN A -13 UNP Q48391 EXPRESSION TAG SEQADV 4V3G VAL A -12 UNP Q48391 EXPRESSION TAG SEQADV 4V3G ARG A -11 UNP Q48391 EXPRESSION TAG SEQADV 4V3G LEU A -10 UNP Q48391 EXPRESSION TAG SEQADV 4V3G GLN A -9 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS A -8 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS A -7 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS A -6 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS A -5 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS A -4 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS A -3 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS A -2 UNP Q48391 EXPRESSION TAG SEQADV 4V3G LEU A -1 UNP Q48391 EXPRESSION TAG SEQADV 4V3G GLU A 0 UNP Q48391 EXPRESSION TAG SEQADV 4V3G ALA B -14 UNP Q48391 EXPRESSION TAG SEQADV 4V3G ASN B -13 UNP Q48391 EXPRESSION TAG SEQADV 4V3G VAL B -12 UNP Q48391 EXPRESSION TAG SEQADV 4V3G ARG B -11 UNP Q48391 EXPRESSION TAG SEQADV 4V3G LEU B -10 UNP Q48391 EXPRESSION TAG SEQADV 4V3G GLN B -9 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS B -8 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS B -7 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS B -6 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS B -5 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS B -4 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS B -3 UNP Q48391 EXPRESSION TAG SEQADV 4V3G HIS B -2 UNP Q48391 EXPRESSION TAG SEQADV 4V3G LEU B -1 UNP Q48391 EXPRESSION TAG SEQADV 4V3G GLU B 0 UNP Q48391 EXPRESSION TAG SEQRES 1 A 339 ALA ASN VAL ARG LEU GLN HIS HIS HIS HIS HIS HIS HIS SEQRES 2 A 339 LEU GLU ALA SER ASP GLN ARG GLY TYR LYS PRO GLU ASP SEQRES 3 A 339 VAL ALA PHE ASP GLU SER PHE PHE SER PHE GLY GLY HIS SEQRES 4 A 339 VAL GLY THR SER VAL GLU TYR GLU ASP LYS VAL THR ARG SEQRES 5 A 339 GLY PHE ASN ASN THR ASP LYS LYS GLU LYS THR ILE THR SEQRES 6 A 339 ASN GLU VAL PHE ASN PHE PHE TYR ASN ASN PRO GLN TRP SEQRES 7 A 339 ASN PHE MSE GLY PHE TYR SER PHE LYS ILE GLU ASN ARG SEQRES 8 A 339 GLU GLN LYS GLU PRO GLY TYR TYR GLU ASN GLU ASP GLY SEQRES 9 A 339 ILE LYS GLN LEU PHE SER LEU ASN LYS GLY HIS ASP LEU SEQRES 10 A 339 GLY ASN GLY TRP ALA THR GLY LEU ILE TYR GLU LEU GLU SEQRES 11 A 339 TYR THR ARG SER LYS VAL TYR SER PRO ASP VAL SER GLY SEQRES 12 A 339 LEU ARG LYS ASN LEU ALA GLU HIS SER ILE ARG PRO TYR SEQRES 13 A 339 LEU THR TYR TRP ASN ASN ASP TYR ASN MSE GLY PHE TYR SEQRES 14 A 339 SER ASN LEU GLU TYR LEU LEU SER LYS GLU ASP ARG ASN SEQRES 15 A 339 ALA TRP GLY LYS ARG GLN GLU GLN GLY TYR SER ALA LEU SEQRES 16 A 339 PHE LYS PRO TYR LYS ARG PHE GLY ASN TRP GLU VAL GLY SEQRES 17 A 339 VAL GLU PHE TYR TYR GLN ILE LYS THR ASN ASP GLU LYS SEQRES 18 A 339 GLN PRO ASP GLY THR ILE ASN GLU LYS SER ASP PHE ASN SEQRES 19 A 339 GLU ARG TYR ILE GLU PRO ILE VAL GLN TYR SER PHE ASP SEQRES 20 A 339 ASP ALA GLY THR LEU TYR THR ARG VAL ARG VAL GLY LYS SEQRES 21 A 339 ASN GLU THR LYS ASN THR ASP ARG SER GLY GLY GLY ASN SEQRES 22 A 339 ALA GLY ILE ASN TYR PHE LYS ASP ILE ARG LYS ALA THR SEQRES 23 A 339 VAL GLY TYR GLU GLN SER ILE GLY GLU SER TRP VAL ALA SEQRES 24 A 339 LYS ALA GLU TYR GLU TYR ALA ASN GLU VAL GLU LYS LYS SEQRES 25 A 339 SER ARG LEU SER GLY TRP GLU ALA ARG ASN LYS SER GLU SEQRES 26 A 339 LEU THR GLN HIS THR PHE TYR ALA GLN ALA LEU TYR ARG SEQRES 27 A 339 PHE SEQRES 1 B 339 ALA ASN VAL ARG LEU GLN HIS HIS HIS HIS HIS HIS HIS SEQRES 2 B 339 LEU GLU ALA SER ASP GLN ARG GLY TYR LYS PRO GLU ASP SEQRES 3 B 339 VAL ALA PHE ASP GLU SER PHE PHE SER PHE GLY GLY HIS SEQRES 4 B 339 VAL GLY THR SER VAL GLU TYR GLU ASP LYS VAL THR ARG SEQRES 5 B 339 GLY PHE ASN ASN THR ASP LYS LYS GLU LYS THR ILE THR SEQRES 6 B 339 ASN GLU VAL PHE ASN PHE PHE TYR ASN ASN PRO GLN TRP SEQRES 7 B 339 ASN PHE MSE GLY PHE TYR SER PHE LYS ILE GLU ASN ARG SEQRES 8 B 339 GLU GLN LYS GLU PRO GLY TYR TYR GLU ASN GLU ASP GLY SEQRES 9 B 339 ILE LYS GLN LEU PHE SER LEU ASN LYS GLY HIS ASP LEU SEQRES 10 B 339 GLY ASN GLY TRP ALA THR GLY LEU ILE TYR GLU LEU GLU SEQRES 11 B 339 TYR THR ARG SER LYS VAL TYR SER PRO ASP VAL SER GLY SEQRES 12 B 339 LEU ARG LYS ASN LEU ALA GLU HIS SER ILE ARG PRO TYR SEQRES 13 B 339 LEU THR TYR TRP ASN ASN ASP TYR ASN MSE GLY PHE TYR SEQRES 14 B 339 SER ASN LEU GLU TYR LEU LEU SER LYS GLU ASP ARG ASN SEQRES 15 B 339 ALA TRP GLY LYS ARG GLN GLU GLN GLY TYR SER ALA LEU SEQRES 16 B 339 PHE LYS PRO TYR LYS ARG PHE GLY ASN TRP GLU VAL GLY SEQRES 17 B 339 VAL GLU PHE TYR TYR GLN ILE LYS THR ASN ASP GLU LYS SEQRES 18 B 339 GLN PRO ASP GLY THR ILE ASN GLU LYS SER ASP PHE ASN SEQRES 19 B 339 GLU ARG TYR ILE GLU PRO ILE VAL GLN TYR SER PHE ASP SEQRES 20 B 339 ASP ALA GLY THR LEU TYR THR ARG VAL ARG VAL GLY LYS SEQRES 21 B 339 ASN GLU THR LYS ASN THR ASP ARG SER GLY GLY GLY ASN SEQRES 22 B 339 ALA GLY ILE ASN TYR PHE LYS ASP ILE ARG LYS ALA THR SEQRES 23 B 339 VAL GLY TYR GLU GLN SER ILE GLY GLU SER TRP VAL ALA SEQRES 24 B 339 LYS ALA GLU TYR GLU TYR ALA ASN GLU VAL GLU LYS LYS SEQRES 25 B 339 SER ARG LEU SER GLY TRP GLU ALA ARG ASN LYS SER GLU SEQRES 26 B 339 LEU THR GLN HIS THR PHE TYR ALA GLN ALA LEU TYR ARG SEQRES 27 B 339 PHE MODRES 4V3G MSE A 66 MET SELENOMETHIONINE MODRES 4V3G MSE A 151 MET SELENOMETHIONINE MODRES 4V3G MSE B 66 MET SELENOMETHIONINE MODRES 4V3G MSE B 151 MET SELENOMETHIONINE HET MSE A 66 8 HET MSE A 151 8 HET MSE B 66 8 HET MSE B 151 8 HET C8E A1325 15 HET C8E A1326 20 HET C8E A1327 13 HET C8E A1328 6 HET C8E A1329 18 HET C8E A1330 14 HET C8E A1331 6 HET C8E A1332 9 HET C8E A1333 7 HET C8E B1325 14 HETNAM MSE SELENOMETHIONINE HETNAM C8E (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 3 C8E 10(C16 H34 O5) FORMUL 13 HOH *52(H2 O) HELIX 1 1 ASN A -13 GLU A 0 1 14 HELIX 2 2 ALA A 13 PHE A 19 1 7 HELIX 3 3 ASN A 167 TRP A 169 5 3 HELIX 4 4 ASN B -13 HIS B -2 1 12 HELIX 5 5 ASN B 147 TYR B 149 5 3 HELIX 6 6 ASN B 167 TRP B 169 5 3 SHEET 1 AA15 GLY A 22 ARG A 37 0 SHEET 2 AA15 ASP A 43 ASN A 60 -1 O LYS A 44 N THR A 36 SHEET 3 AA15 PHE A 65 GLU A 80 -1 O PHE A 65 N ASN A 60 SHEET 4 AA15 TYR A 83 GLY A 103 -1 O TYR A 83 N GLU A 80 SHEET 5 AA15 TRP A 106 TYR A 122 -1 O TRP A 106 N LEU A 102 SHEET 6 AA15 SER A 127 ASN A 146 -1 N GLY A 128 O VAL A 121 SHEET 7 AA15 MSE A 151 ASP A 165 -1 O MSE A 151 N ASN A 146 SHEET 8 AA15 LYS A 171 PHE A 187 -1 O ARG A 172 N GLU A 164 SHEET 9 AA15 TRP A 190 LYS A 206 -1 O TRP A 190 N PHE A 187 SHEET 10 AA15 ILE A 212 SER A 230 -1 N ASN A 213 O GLU A 205 SHEET 11 AA15 THR A 236 ASN A 250 -1 O LEU A 237 N TYR A 229 SHEET 12 AA15 ASN A 262 ILE A 278 -1 O TYR A 263 N THR A 248 SHEET 13 AA15 TRP A 282 LYS A 297 -1 O TRP A 282 N ILE A 278 SHEET 14 AA15 SER A 309 PHE A 324 -1 O SER A 309 N GLU A 295 SHEET 15 AA15 GLY A 22 ARG A 37 -1 O GLY A 23 N PHE A 324 SHEET 1 BA15 GLY B 22 ARG B 37 0 SHEET 2 BA15 ASP B 43 ASN B 60 -1 O LYS B 44 N THR B 36 SHEET 3 BA15 PHE B 65 GLU B 80 -1 O PHE B 65 N ASN B 60 SHEET 4 BA15 TYR B 83 GLY B 103 -1 O TYR B 83 N GLU B 80 SHEET 5 BA15 TRP B 106 TYR B 122 -1 O TRP B 106 N LEU B 102 SHEET 6 BA15 SER B 127 ASN B 146 -1 N GLY B 128 O VAL B 121 SHEET 7 BA15 MSE B 151 ASP B 165 -1 O MSE B 151 N ASN B 146 SHEET 8 BA15 LYS B 171 PHE B 187 -1 O ARG B 172 N GLU B 164 SHEET 9 BA15 TRP B 190 LYS B 206 -1 O TRP B 190 N PHE B 187 SHEET 10 BA15 ILE B 212 SER B 230 -1 N ASN B 213 O GLU B 205 SHEET 11 BA15 THR B 236 ASN B 250 -1 O LEU B 237 N TYR B 229 SHEET 12 BA15 ASN B 262 ILE B 278 -1 O TYR B 263 N THR B 248 SHEET 13 BA15 TRP B 282 LYS B 297 -1 O TRP B 282 N ILE B 278 SHEET 14 BA15 SER B 309 PHE B 324 -1 O SER B 309 N GLU B 295 SHEET 15 BA15 GLY B 22 ARG B 37 -1 O GLY B 23 N PHE B 324 LINK C PHE A 65 N MSE A 66 1555 1555 1.34 LINK C MSE A 66 N GLY A 67 1555 1555 1.32 LINK C ASN A 150 N MSE A 151 1555 1555 1.32 LINK C MSE A 151 N GLY A 152 1555 1555 1.32 LINK C PHE B 65 N MSE B 66 1555 1555 1.34 LINK C MSE B 66 N GLY B 67 1555 1555 1.32 LINK C ASN B 150 N MSE B 151 1555 1555 1.33 LINK C MSE B 151 N GLY B 152 1555 1555 1.32 CISPEP 1 ASP A 233 ALA A 234 0 2.47 CISPEP 2 GLY A 256 GLY A 257 0 -11.77 CISPEP 3 ASP B 233 ALA B 234 0 2.18 CISPEP 4 GLY B 256 GLY B 257 0 -6.89 SITE 1 AC1 2 HIS A 314 PHE A 316 SITE 1 AC2 7 THR A 108 GLY A 109 PRO A 140 SER A 155 SITE 2 AC2 7 LEU A 157 PHE A 181 C8E A1328 SITE 1 AC3 3 LEU A 102 TRP A 106 ILE A 278 SITE 1 AC4 2 C8E A1326 TYR B 31 SITE 1 AC5 7 ILE A 90 GLN A 92 TYR A 116 ARG A 118 SITE 2 AC5 7 PHE B 21 PHE B 56 TYR B 69 SITE 1 AC6 9 PHE A 18 PHE A 21 TYR A 58 PHE A 324 SITE 2 AC6 9 HOH A2005 ILE B 90 GLN B 92 TYR B 116 SITE 3 AC6 9 ARG B 118 SITE 1 AC7 5 PHE A 14 ASP A 15 PHE A 19 ASN B 132 SITE 2 AC7 5 ASP B 165 SITE 1 AC8 1 ILE A 278 SITE 1 AC9 5 HIS A -2 HIS A -5 TRP A 145 TYR A 154 SITE 2 AC9 5 HOH A2017 SITE 1 BC1 1 TYR B 31 CRYST1 42.594 105.226 111.815 90.00 97.97 90.00 P 1 21 1 4 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 0.023477 0.000000 0.003287 0.00000 SCALE2 0.000000 0.009503 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009031 0.00000