PDB Short entry for 2YGT HEADER TOXIN 20-APR-11 2YGT TITLE CLOSTRIDIUM PERFRINGENS DELTA-TOXIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DELTA TOXIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 29-318; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM PERFRINGENS; SOURCE 3 ORGANISM_TAXID: 1502; SOURCE 4 STRAIN: CP24-03; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: CODONPLUS RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS TOXIN, BETA-PORE-FORMING TOXIN, HAEMOLYSIN, ENTEROTOXIN EXPDTA X-RAY DIFFRACTION AUTHOR J.HUYET,C.E.NAYLOR,M.GIBERT,M.R.POPOFF,A.K.BASAK REVDAT 5 20-DEC-23 2YGT 1 REMARK LINK REVDAT 4 06-MAR-19 2YGT 1 REMARK REVDAT 3 27-APR-16 2YGT 1 JRNL REVDAT 2 10-JUL-13 2YGT 1 JRNL REVDAT 1 16-MAY-12 2YGT 0 JRNL AUTH J.HUYET,C.E.NAYLOR,C.G.SAVVA,M.GIBERT,M.R.POPOFF,A.K.BASAK JRNL TITL STRUCTURAL INSIGHTS INTO CLOSTRIDIUM PERFRINGENS DELTA TOXIN JRNL TITL 2 PORE FORMATION. JRNL REF PLOS ONE V. 8 66673 2013 JRNL REFN ESSN 1932-6203 JRNL PMID 23805259 JRNL DOI 10.1371/JOURNAL.PONE.0066673 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.HUYET,M.GILBERT,M.R.POPOFF,A.BASAK REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY DIFFRACTION STUDIES OF REMARK 1 TITL 2 DELTA-TOXIN FROM CLOSTRIDIUM PERFRINGENS. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 67 369 2011 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 21393845 REMARK 1 DOI 10.1107/S1744309110054187 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.500 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 13409 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 664 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 58.4938 - 4.1036 1.00 2708 117 0.1746 0.1969 REMARK 3 2 4.1036 - 3.2572 1.00 2533 150 0.1496 0.1834 REMARK 3 3 3.2572 - 2.8455 1.00 2518 135 0.1722 0.2533 REMARK 3 4 2.8455 - 2.5853 1.00 2516 133 0.1845 0.2712 REMARK 3 5 2.5853 - 2.4000 1.00 2470 129 0.1906 0.2679 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 : 0.37 REMARK 3 B_SOL : 48.67 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.780 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.800 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.91410 REMARK 3 B22 (A**2) : -2.38990 REMARK 3 B33 (A**2) : -1.52420 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 : 0.008 2239 REMARK 3 ANGLE : 0.772 3035 REMARK 3 CHIRALITY : 0.052 345 REMARK 3 PLANARITY : 0.002 387 REMARK 3 DIHEDRAL : 15.930 781 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 9:21 REMARK 3 ORIGIN FOR THE GROUP (A): 5.7810 17.4970 54.2287 REMARK 3 T TENSOR REMARK 3 T11: 0.3542 T22: 0.3127 REMARK 3 T33: 0.1452 T12: -0.0179 REMARK 3 T13: 0.0576 T23: 0.1210 REMARK 3 L TENSOR REMARK 3 L11: -0.1330 L22: 0.0335 REMARK 3 L33: 0.0886 L12: -0.0543 REMARK 3 L13: -0.0532 L23: 0.0041 REMARK 3 S TENSOR REMARK 3 S11: 0.0446 S12: -0.2002 S13: -0.0847 REMARK 3 S21: -0.0640 S22: 0.4968 S23: 0.3317 REMARK 3 S31: 0.0437 S32: -0.5425 S33: -0.0005 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 22:26 REMARK 3 ORIGIN FOR THE GROUP (A): 15.0337 21.1528 61.5772 REMARK 3 T TENSOR REMARK 3 T11: 0.4320 T22: 0.7048 REMARK 3 T33: 0.2960 T12: -0.0104 REMARK 3 T13: 0.0632 T23: -0.0760 REMARK 3 L TENSOR REMARK 3 L11: 0.0070 L22: 0.0247 REMARK 3 L33: 0.0496 L12: 0.0173 REMARK 3 L13: 0.0011 L23: -0.0006 REMARK 3 S TENSOR REMARK 3 S11: -0.1159 S12: -0.4933 S13: -0.2536 REMARK 3 S21: 0.3338 S22: -0.1254 S23: -0.1046 REMARK 3 S31: 0.0071 S32: -0.0812 S33: -0.0024 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESID 27:134 REMARK 3 ORIGIN FOR THE GROUP (A): 14.5707 13.5701 31.4892 REMARK 3 T TENSOR REMARK 3 T11: 0.1126 T22: 0.0945 REMARK 3 T33: 0.0972 T12: 0.0079 REMARK 3 T13: -0.0351 T23: -0.0270 REMARK 3 L TENSOR REMARK 3 L11: 0.4730 L22: 0.4076 REMARK 3 L33: 1.1665 L12: -0.3163 REMARK 3 L13: -0.1928 L23: 0.2044 REMARK 3 S TENSOR REMARK 3 S11: 0.0236 S12: 0.0287 S13: -0.0016 REMARK 3 S21: 0.0169 S22: -0.0224 S23: 0.0273 REMARK 3 S31: -0.0234 S32: 0.0392 S33: -0.0001 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESID 135:142 REMARK 3 ORIGIN FOR THE GROUP (A): 20.1106 5.1563 46.1435 REMARK 3 T TENSOR REMARK 3 T11: 0.6585 T22: 0.1219 REMARK 3 T33: 0.5907 T12: 0.0503 REMARK 3 T13: -0.0058 T23: -0.0556 REMARK 3 L TENSOR REMARK 3 L11: -0.0604 L22: -0.1346 REMARK 3 L33: 0.1067 L12: 0.0158 REMARK 3 L13: 0.0409 L23: -0.1213 REMARK 3 S TENSOR REMARK 3 S11: 0.1042 S12: 0.0412 S13: -0.1113 REMARK 3 S21: 0.7806 S22: -0.2082 S23: 0.1993 REMARK 3 S31: 0.1617 S32: 0.0105 S33: -0.0068 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN A AND RESID 143:257 REMARK 3 ORIGIN FOR THE GROUP (A): 17.9599 2.7388 22.1850 REMARK 3 T TENSOR REMARK 3 T11: 0.0945 T22: 0.0950 REMARK 3 T33: 0.0934 T12: 0.0100 REMARK 3 T13: -0.0382 T23: -0.0172 REMARK 3 L TENSOR REMARK 3 L11: 0.6933 L22: 0.7353 REMARK 3 L33: 1.1482 L12: -0.1535 REMARK 3 L13: -0.4811 L23: 0.8298 REMARK 3 S TENSOR REMARK 3 S11: -0.0350 S12: 0.1015 S13: -0.0404 REMARK 3 S21: -0.0916 S22: -0.1175 S23: 0.1839 REMARK 3 S31: -0.0122 S32: -0.0184 S33: -0.0047 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN A AND RESID 258:290 REMARK 3 ORIGIN FOR THE GROUP (A): 12.4761 13.6911 20.8594 REMARK 3 T TENSOR REMARK 3 T11: 0.2201 T22: 0.0777 REMARK 3 T33: 0.0683 T12: 0.0374 REMARK 3 T13: -0.0339 T23: 0.0470 REMARK 3 L TENSOR REMARK 3 L11: 0.6804 L22: 0.3788 REMARK 3 L33: 0.5128 L12: -0.0032 REMARK 3 L13: -0.0537 L23: 0.1170 REMARK 3 S TENSOR REMARK 3 S11: 0.1361 S12: 0.0500 S13: 0.1317 REMARK 3 S21: -0.4903 S22: -0.0142 S23: -0.1249 REMARK 3 S31: -0.4992 S32: 0.0054 S33: 0.1610 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 2YGT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-APR-11. REMARK 100 THE DEPOSITION ID IS D_1290047939. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : SI(111) CUT CRYSTAL REMARK 200 OPTICS : MIRROR 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 : 13432 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 113.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.40 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 10.60 REMARK 200 R MERGE FOR SHELL (I) : 0.69000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1PVL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6.6 MG/ML PROTEIN AGAINST 25-30% PEG REMARK 280 550 25 MM ZNSO4, 100 MM MES-NAOH PH 6.0, AT 293K. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -X+1/2,Y+1/2,-Z REMARK 290 4555 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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 56.46600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.83200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 56.46600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.83200 REMARK 290 SMTRY3 4 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 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 C2 IMD A1293 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2217 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 GLY A -1 REMARK 465 SER A 0 REMARK 465 ASN A 1 REMARK 465 ASP A 2 REMARK 465 LEU A 3 REMARK 465 GLY A 4 REMARK 465 SER A 5 REMARK 465 LYS A 6 REMARK 465 SER A 7 REMARK 465 GLU A 8 REMARK 465 HIS A 292 REMARK 465 HIS A 293 REMARK 465 HIS A 294 REMARK 465 HIS A 295 REMARK 465 HIS A 296 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ILE A 9 CG1 CG2 CD1 REMARK 470 ARG A 10 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 11 CE NZ REMARK 470 GLU A 12 CD OE1 OE2 REMARK 470 ASN A 14 CG OD1 ND2 REMARK 470 GLN A 22 CD OE1 NE2 REMARK 470 ASN A 24 CG OD1 ND2 REMARK 470 LYS A 39 CG CD CE NZ REMARK 470 ASN A 41 ND2 REMARK 470 LYS A 43 CE NZ REMARK 470 LYS A 66 CD CE NZ REMARK 470 LYS A 74 CD CE NZ REMARK 470 LYS A 80 CG CD CE NZ REMARK 470 LYS A 96 CD CE NZ REMARK 470 LYS A 118 CD CE NZ REMARK 470 LYS A 137 CG CD CE NZ REMARK 470 LEU A 140 CG CD1 CD2 REMARK 470 ASN A 143 CG OD1 ND2 REMARK 470 ARG A 179 NE CZ NH1 NH2 REMARK 470 LYS A 238 CD CE NZ REMARK 470 LYS A 270 CD CE NZ REMARK 470 LYS A 276 CE NZ REMARK 470 HIS A 291 CA C O CB CG ND1 CD2 REMARK 470 HIS A 291 CE1 NE2 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 ASN A 14 58.97 -159.84 REMARK 500 ASN A 24 -18.67 75.08 REMARK 500 ASN A 113 -117.90 45.07 REMARK 500 SER A 139 -158.76 64.50 REMARK 500 LEU A 140 76.83 -110.14 REMARK 500 GLN A 154 54.61 -150.61 REMARK 500 ALA A 176 -69.87 -105.95 REMARK 500 SER A 224 72.95 -113.35 REMARK 500 ASP A 258 -85.04 -101.51 REMARK 500 ASP A 268 -76.77 -147.50 REMARK 500 SER A 290 -63.96 74.44 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 A2026 DISTANCE = 6.13 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 ZN A1297 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 34 OD2 REMARK 620 2 ASP A 34 OD1 55.7 REMARK 620 3 IMD A1293 N1 86.5 125.5 REMARK 620 4 IMD A1293 N3 87.5 125.9 1.1 REMARK 620 5 IMD A1293 N1 92.1 127.3 6.4 5.3 REMARK 620 6 HOH A2219 O 149.1 98.8 97.9 96.7 91.4 REMARK 620 7 HOH A3001 O 91.7 103.3 116.8 117.3 119.8 112.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1291 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 52 OD1 REMARK 620 2 HIS A 284 NE2 105.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1292 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 164 OD2 REMARK 620 2 GLU A 177 OE2 83.8 REMARK 620 3 HOH A2080 O 171.5 88.2 REMARK 620 4 HOH A2082 O 92.1 164.0 96.4 REMARK 620 5 HOH A2134 O 88.9 78.3 92.0 86.2 REMARK 620 6 HOH A2141 O 83.9 95.4 94.2 99.5 171.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1292 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IMD A 1293 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1294 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1295 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1297 DBREF 2YGT A 1 290 UNP B8QGZ7 B8QGZ7_CLOPE 29 318 SEQADV 2YGT GLY A -1 UNP B8QGZ7 EXPRESSION TAG SEQADV 2YGT SER A 0 UNP B8QGZ7 EXPRESSION TAG SEQADV 2YGT HIS A 291 UNP B8QGZ7 EXPRESSION TAG SEQADV 2YGT HIS A 292 UNP B8QGZ7 EXPRESSION TAG SEQADV 2YGT HIS A 293 UNP B8QGZ7 EXPRESSION TAG SEQADV 2YGT HIS A 294 UNP B8QGZ7 EXPRESSION TAG SEQADV 2YGT HIS A 295 UNP B8QGZ7 EXPRESSION TAG SEQADV 2YGT HIS A 296 UNP B8QGZ7 EXPRESSION TAG SEQRES 1 A 298 GLY SER ASN ASP LEU GLY SER LYS SER GLU ILE ARG LYS SEQRES 2 A 298 GLU GLU ASN GLY ASN VAL THR ILE ILE THR GLN ASN ASN SEQRES 3 A 298 LYS GLN ILE ARG LYS TYR SER SER THR ASP SER ALA THR SEQRES 4 A 298 THR LYS SER ASN SER LYS ILE THR VAL ASP ALA SER PHE SEQRES 5 A 298 VAL ASP ASP LYS PHE SER SER GLU MET THR THR ILE ILE SEQRES 6 A 298 SER LEU LYS GLY PHE ILE PRO SER GLY ARG LYS ILE PHE SEQRES 7 A 298 ALA LEU SER LYS TYR ARG GLY VAL MET ARG TRP PRO ILE SEQRES 8 A 298 LYS TYR MET VAL ASP LEU LYS ASN ASN SER LEU ASP SER SEQRES 9 A 298 SER VAL LYS ILE VAL ASP SER VAL PRO LYS ASN THR ILE SEQRES 10 A 298 SER THR LYS GLU VAL ASN ASN THR ILE SER TYR SER ILE SEQRES 11 A 298 GLY GLY GLY ILE ASP THR SER ASN LYS ALA SER LEU ASN SEQRES 12 A 298 ALA ASN TYR ALA VAL SER LYS SER ILE SER TYR VAL GLN SEQRES 13 A 298 PRO ASP TYR ASN THR ILE GLN THR ASN ASP THR ASN SER SEQRES 14 A 298 ILE ALA SER TRP ASN THR GLU PHE ALA GLU THR ARG ASP SEQRES 15 A 298 GLY TYR ASN VAL ASN SER TRP ASN ILE VAL TYR GLY ASN SEQRES 16 A 298 GLN MET PHE MET ARG SER ARG TYR SER GLY THR SER THR SEQRES 17 A 298 THR ASN PHE THR PRO ASP TYR GLN LEU SER SER LEU ILE SEQRES 18 A 298 THR GLY GLY PHE SER PRO ASN PHE GLY VAL VAL LEU THR SEQRES 19 A 298 ALA PRO ASN GLY THR LYS LYS SER GLN ILE GLU ILE SER SEQRES 20 A 298 LEU LYS ARG GLU ILE ASN SER TYR HIS ILE ALA TRP ASP SEQRES 21 A 298 THR GLU TRP GLN GLY ARG ASN TYR PRO ASP SER LYS ILE SEQRES 22 A 298 GLU GLU THR VAL LYS PHE GLU LEU ASP TRP GLU LYS HIS SEQRES 23 A 298 THR ILE ARG GLN ILE SER HIS HIS HIS HIS HIS HIS HET ZN A1291 1 HET ZN A1292 1 HET IMD A1293 5 HET GOL A1294 6 HET GOL A1295 6 HET GOL A1296 6 HET ZN A1297 1 HETNAM ZN ZINC ION HETNAM IMD IMIDAZOLE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN 3(ZN 2+) FORMUL 4 IMD C3 H5 N2 1+ FORMUL 5 GOL 3(C3 H8 O3) FORMUL 9 HOH *224(H2 O) HELIX 1 1 SER A 99 SER A 103 5 5 HELIX 2 2 PRO A 211 LEU A 215 5 5 HELIX 3 3 SER A 216 GLY A 221 1 6 SHEET 1 AA 6 ARG A 10 GLU A 13 0 SHEET 2 AA 6 VAL A 17 GLN A 22 -1 O ILE A 19 N GLU A 12 SHEET 3 AA 6 LYS A 25 THR A 37 -1 O LYS A 25 N GLN A 22 SHEET 4 AA 6 LYS A 43 ASP A 52 -1 O ILE A 44 N ALA A 36 SHEET 5 AA 6 MET A 59 PRO A 70 -1 O THR A 60 N VAL A 51 SHEET 6 AA 6 GLY A 222 PHE A 223 -1 O PHE A 223 N ILE A 69 SHEET 1 AB 7 ARG A 10 GLU A 13 0 SHEET 2 AB 7 VAL A 17 GLN A 22 -1 O ILE A 19 N GLU A 12 SHEET 3 AB 7 LYS A 25 THR A 37 -1 O LYS A 25 N GLN A 22 SHEET 4 AB 7 LYS A 43 ASP A 52 -1 O ILE A 44 N ALA A 36 SHEET 5 AB 7 MET A 59 PRO A 70 -1 O THR A 60 N VAL A 51 SHEET 6 AB 7 ASN A 226 ALA A 233 -1 O PHE A 227 N LEU A 65 SHEET 7 AB 7 LYS A 105 VAL A 110 -1 O LYS A 105 N THR A 232 SHEET 1 AC 2 GLY A 222 PHE A 223 0 SHEET 2 AC 2 MET A 59 PRO A 70 -1 O ILE A 69 N PHE A 223 SHEET 1 AD 2 LYS A 74 ALA A 77 0 SHEET 2 AD 2 ARG A 82 ASN A 97 1 O VAL A 84 N PHE A 76 SHEET 1 AE 7 THR A 114 ILE A 115 0 SHEET 2 AE 7 TYR A 157 ASP A 164 -1 O THR A 159 N ILE A 115 SHEET 3 AE 7 ILE A 168 PHE A 175 -1 O SER A 170 N THR A 162 SHEET 4 AE 7 ARG A 82 ASN A 97 -1 O ILE A 89 N PHE A 175 SHEET 5 AE 7 LYS A 239 TRP A 257 -1 O GLU A 243 N LYS A 96 SHEET 6 AE 7 TRP A 261 ASP A 280 -1 O GLN A 262 N ALA A 256 SHEET 7 AE 7 THR A 285 ILE A 289 -1 O THR A 285 N ASP A 280 SHEET 1 AF 5 THR A 114 ILE A 115 0 SHEET 2 AF 5 TYR A 157 ASP A 164 -1 O THR A 159 N ILE A 115 SHEET 3 AF 5 ILE A 168 PHE A 175 -1 O SER A 170 N THR A 162 SHEET 4 AF 5 ARG A 82 ASN A 97 -1 O ILE A 89 N PHE A 175 SHEET 5 AF 5 LYS A 74 ALA A 77 1 O LYS A 74 N ARG A 86 SHEET 1 AG 3 ILE A 132 SER A 135 0 SHEET 2 AG 3 GLU A 119 TYR A 126 -1 O THR A 123 N SER A 135 SHEET 3 AG 3 VAL A 146 VAL A 153 -1 O VAL A 146 N TYR A 126 LINK OD2 ASP A 34 ZN ZN A1297 2565 1555 2.49 LINK OD1 ASP A 34 ZN ZN A1297 2565 1555 2.20 LINK OD1 ASP A 52 ZN ZN A1291 1555 1555 2.23 LINK OD2 ASP A 164 ZN ZN A1292 1555 1555 2.23 LINK OE2 GLU A 177 ZN ZN A1292 3556 1555 2.19 LINK NE2 HIS A 284 ZN ZN A1291 1555 1555 2.29 LINK ZN ZN A1292 O HOH A2080 1555 1555 2.41 LINK ZN ZN A1292 O HOH A2082 1555 1555 2.46 LINK ZN ZN A1292 O HOH A2134 1555 1555 2.32 LINK ZN ZN A1292 O HOH A2141 1555 3556 2.65 LINK N1 IMD A1293 ZN ZN A1297 2565 1555 1.87 LINK N3 IMD A1293 ZN ZN A1297 1555 1555 1.85 LINK N1 IMD A1293 ZN ZN A1297 1555 2565 1.87 LINK ZN ZN A1297 O HOH A2219 1555 1555 2.27 LINK ZN ZN A1297 O HOH A3001 1555 1555 2.44 CISPEP 1 VAL A 110 PRO A 111 0 1.83 CISPEP 2 SER A 139 LEU A 140 0 -3.35 SITE 1 AC1 4 ASP A 52 TRP A 281 HIS A 284 HOH A2220 SITE 1 AC2 6 ASP A 164 GLU A 177 HOH A2080 HOH A2082 SITE 2 AC2 6 HOH A2134 HOH A2141 SITE 1 AC3 5 ASP A 34 ARG A 287 GLN A 288 ZN A1297 SITE 2 AC3 5 HOH A2219 SITE 1 AC4 5 LYS A 54 GLY A 203 TRP A 257 TRP A 261 SITE 2 AC4 5 HOH A2221 SITE 1 AC5 6 SER A 199 ARG A 200 TYR A 201 SER A 202 SITE 2 AC5 6 HOH A2159 HOH A2222 SITE 1 AC6 10 ILE A 106 ASP A 164 THR A 165 ASN A 166 SITE 2 AC6 10 GLU A 177 ASN A 183 HOH A2126 HOH A2128 SITE 3 AC6 10 HOH A2141 HOH A2223 SITE 1 AC7 4 ASP A 34 IMD A1293 HOH A2219 HOH A3001 CRYST1 112.932 49.664 58.477 90.00 90.00 90.00 P 21 21 2 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 0.008855 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020135 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017101 0.00000