HEADER SUGAR BINDING PROTEIN, TOXIN 23-APR-15 4ZGH TITLE STRUCTURE OF SUGAR BINDING PROTEIN PNEUMOLYSIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PNEUMOLYSIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 2-470; COMPND 5 SYNONYM: THIOL-ACTIVATED CYTOLYSIN; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 373153; SOURCE 4 STRAIN: D39 / NCTC 7466; SOURCE 5 GENE: PLY, SPD_1726; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PQE-30 KEYWDS BETA-CFT, TOXIN, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.W.PARKER,S.C.FEIL,C.MORTON REVDAT 4 27-SEP-23 4ZGH 1 REMARK REVDAT 3 13-FEB-19 4ZGH 1 SOURCE REVDAT 2 22-NOV-17 4ZGH 1 REMARK SHEET REVDAT 1 09-MAR-16 4ZGH 0 JRNL AUTH S.L.LAWRENCE,S.C.FEIL,C.J.MORTON,A.J.FARRAND,T.D.MULHERN, JRNL AUTH 2 M.A.GORMAN,K.R.WADE,R.K.TWETEN,M.W.PARKER JRNL TITL CRYSTAL STRUCTURE OF STREPTOCOCCUS PNEUMONIAE PNEUMOLYSIN JRNL TITL 2 PROVIDES KEY INSIGHTS INTO EARLY STEPS OF PORE FORMATION. JRNL REF SCI REP V. 5 14352 2015 JRNL REFN ESSN 2045-2322 JRNL PMID 26403197 JRNL DOI 10.1038/SREP14352 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.910 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 17450 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.307 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 1577 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 42.5176 - 6.4438 1.00 2700 130 0.1840 0.2384 REMARK 3 2 6.4438 - 5.1174 1.00 2723 142 0.1996 0.3734 REMARK 3 3 5.1174 - 4.4714 1.00 2743 162 0.1590 0.2884 REMARK 3 4 4.4714 - 4.0629 1.00 2630 164 0.1814 0.3164 REMARK 3 5 4.0629 - 3.7719 1.00 2779 136 0.1855 0.3000 REMARK 3 6 3.7719 - 3.5496 1.00 2571 161 0.1970 0.3043 REMARK 3 7 3.5496 - 3.3719 1.00 2865 118 0.2124 0.3156 REMARK 3 8 3.3719 - 3.2252 1.00 2683 143 0.2239 0.2991 REMARK 3 9 3.2252 - 3.1011 1.00 2595 140 0.2386 0.2966 REMARK 3 10 3.1011 - 2.9941 1.00 2832 150 0.2665 0.3735 REMARK 3 11 2.9941 - 2.9000 0.95 2600 131 0.2990 0.3907 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) : 0.470 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.46 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 : 0.022 3849 REMARK 3 ANGLE : 1.955 5212 REMARK 3 CHIRALITY : 0.082 591 REMARK 3 PLANARITY : 0.010 671 REMARK 3 DIHEDRAL : 21.361 1412 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 -2:67 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.2196 15.4922 -51.7535 REMARK 3 T TENSOR REMARK 3 T11: 0.6342 T22: 0.6788 REMARK 3 T33: 0.5498 T12: 0.1393 REMARK 3 T13: 0.0134 T23: -0.0947 REMARK 3 L TENSOR REMARK 3 L11: -0.0037 L22: 1.9673 REMARK 3 L33: 0.5043 L12: -0.2912 REMARK 3 L13: -0.0912 L23: 1.6680 REMARK 3 S TENSOR REMARK 3 S11: 0.1252 S12: 0.2812 S13: -0.2543 REMARK 3 S21: -0.4853 S22: -0.1769 S23: -0.1010 REMARK 3 S31: -0.1443 S32: -0.2488 S33: 0.0001 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 68:252 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.2285 7.2659 -36.0319 REMARK 3 T TENSOR REMARK 3 T11: 0.3090 T22: 0.4531 REMARK 3 T33: 0.4786 T12: -0.0613 REMARK 3 T13: -0.0316 T23: -0.1209 REMARK 3 L TENSOR REMARK 3 L11: 1.1203 L22: 3.1753 REMARK 3 L33: 1.6435 L12: -0.7669 REMARK 3 L13: -0.2478 L23: 1.0078 REMARK 3 S TENSOR REMARK 3 S11: 0.0577 S12: 0.2120 S13: -0.3833 REMARK 3 S21: -0.1330 S22: -0.0174 S23: -0.1386 REMARK 3 S31: 0.2728 S32: -0.2710 S33: 0.0056 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 253:281 ) REMARK 3 ORIGIN FOR THE GROUP (A): -10.1387 -14.8034 -62.2358 REMARK 3 T TENSOR REMARK 3 T11: 1.2584 T22: 1.0788 REMARK 3 T33: 0.9204 T12: 0.1727 REMARK 3 T13: 0.0035 T23: -0.2167 REMARK 3 L TENSOR REMARK 3 L11: 0.1600 L22: 0.1314 REMARK 3 L33: 0.0244 L12: 0.1462 REMARK 3 L13: -0.0248 L23: -0.0063 REMARK 3 S TENSOR REMARK 3 S11: -0.5674 S12: 0.1677 S13: -0.5245 REMARK 3 S21: 0.2318 S22: -0.0673 S23: 0.3458 REMARK 3 S31: 0.2247 S32: -0.2858 S33: -0.0012 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 282:329 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.6854 -9.8837 -44.0038 REMARK 3 T TENSOR REMARK 3 T11: 0.8540 T22: 0.6661 REMARK 3 T33: 0.8304 T12: -0.0165 REMARK 3 T13: -0.0636 T23: -0.1674 REMARK 3 L TENSOR REMARK 3 L11: 0.2533 L22: 0.4914 REMARK 3 L33: 0.3723 L12: 0.1732 REMARK 3 L13: -0.3256 L23: -0.1793 REMARK 3 S TENSOR REMARK 3 S11: -0.1820 S12: -0.2497 S13: -0.4202 REMARK 3 S21: -0.2403 S22: 0.4816 S23: -0.5457 REMARK 3 S31: 1.2723 S32: 0.5675 S33: -0.0029 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 330:361 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.3096 10.0247 -53.3389 REMARK 3 T TENSOR REMARK 3 T11: 0.8546 T22: 0.1812 REMARK 3 T33: 0.5292 T12: 0.1066 REMARK 3 T13: 0.0556 T23: -0.2210 REMARK 3 L TENSOR REMARK 3 L11: 0.0400 L22: 0.3961 REMARK 3 L33: 0.3119 L12: -0.4396 REMARK 3 L13: -0.4114 L23: 0.6816 REMARK 3 S TENSOR REMARK 3 S11: 0.3487 S12: 0.6584 S13: -0.0365 REMARK 3 S21: -0.8232 S22: -0.2749 S23: -0.2536 REMARK 3 S31: -0.0317 S32: -0.1578 S33: -0.0426 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN A AND RESID 362:470 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.0169 -17.3354 -97.3910 REMARK 3 T TENSOR REMARK 3 T11: 0.5584 T22: 0.3800 REMARK 3 T33: 0.4426 T12: -0.0699 REMARK 3 T13: 0.0893 T23: -0.0797 REMARK 3 L TENSOR REMARK 3 L11: 1.1487 L22: 1.7216 REMARK 3 L33: 0.8347 L12: 0.5284 REMARK 3 L13: 0.1540 L23: -0.3509 REMARK 3 S TENSOR REMARK 3 S11: 0.1873 S12: -0.1448 S13: 0.3221 REMARK 3 S21: 0.1537 S22: 0.0649 S23: 0.0923 REMARK 3 S31: -0.5654 S32: 0.1763 S33: 0.0038 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 4ZGH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-MAY-15. REMARK 100 THE DEPOSITION ID IS D_1000209224. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-SEP-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.953 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.4, XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17539 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 44.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.15700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.69300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.1 REMARK 200 STARTING MODEL: PDB ENTRY 1HVN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 8000, 10% GLYCEROL, 10% REMARK 280 ETHYLENE GLYCOL, 100 MM HEPES BUFFER, 5 MM POTASSIUM GOLD REMARK 280 CYANIDE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 12.42850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 110.22100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 66.80950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 110.22100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 12.42850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 66.80950 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 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 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 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 HZ1 LYS A 162 OE2 GLU A 170 1.50 REMARK 500 O VAL A 307 H VAL A 310 1.57 REMARK 500 O VAL A 307 N VAL A 310 2.11 REMARK 500 O PHE A 169 OG1 THR A 172 2.12 REMARK 500 O PRO A 296 NH2 ARG A 301 2.12 REMARK 500 O GLN A 275 N GLU A 277 2.15 REMARK 500 OG SER A 157 OE1 GLU A 159 2.17 REMARK 500 O LEU A 106 N SER A 108 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ALA A 74 CA ALA A 74 CB -0.128 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 16 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 LEU A 113 CA - CB - CG ANGL. DEV. = 13.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 HIS A -1 -62.82 81.37 REMARK 500 ASN A 3 -36.03 -39.15 REMARK 500 ILE A 28 -8.29 -162.93 REMARK 500 GLU A 29 130.40 70.29 REMARK 500 ARG A 31 -0.25 65.45 REMARK 500 PHE A 32 -100.86 72.00 REMARK 500 ILE A 33 -152.29 39.05 REMARK 500 LYS A 34 -113.48 73.07 REMARK 500 GLU A 35 -173.03 70.55 REMARK 500 GLN A 38 -133.80 -76.57 REMARK 500 PRO A 40 -75.28 -125.54 REMARK 500 GLU A 42 153.08 165.90 REMARK 500 ILE A 46 -104.43 -72.44 REMARK 500 GLU A 47 115.24 87.41 REMARK 500 THR A 63 59.72 -115.76 REMARK 500 ALA A 64 -156.30 -136.99 REMARK 500 THR A 65 -46.21 -175.76 REMARK 500 LEU A 70 64.60 -111.45 REMARK 500 ASN A 86 66.27 -155.36 REMARK 500 LEU A 106 -16.92 -165.00 REMARK 500 ALA A 107 -57.72 31.94 REMARK 500 SER A 108 -44.69 -135.15 REMARK 500 SER A 111 36.35 -95.27 REMARK 500 LYS A 133 0.06 -68.17 REMARK 500 TYR A 138 -169.09 -171.51 REMARK 500 ASN A 142 -165.28 -160.50 REMARK 500 HIS A 156 -32.79 178.10 REMARK 500 SER A 167 10.06 -49.54 REMARK 500 GLU A 170 -71.04 -25.40 REMARK 500 LYS A 171 -8.98 -57.33 REMARK 500 ASN A 174 -19.92 -32.50 REMARK 500 ASP A 177 96.78 54.21 REMARK 500 VAL A 183 -15.43 -141.97 REMARK 500 GLN A 189 133.26 65.94 REMARK 500 SER A 229 -50.63 -143.96 REMARK 500 ALA A 230 -61.16 126.35 REMARK 500 LYS A 255 13.13 -144.37 REMARK 500 PHE A 263 -76.37 -47.89 REMARK 500 GLU A 264 -42.08 -28.34 REMARK 500 VAL A 270 70.65 -64.17 REMARK 500 LYS A 271 46.04 -144.19 REMARK 500 GLN A 275 -136.27 61.80 REMARK 500 THR A 276 -56.52 28.30 REMARK 500 GLU A 277 162.51 -41.45 REMARK 500 LYS A 279 33.56 -73.60 REMARK 500 GLN A 280 -21.25 -146.23 REMARK 500 ASP A 295 -91.73 86.06 REMARK 500 SER A 297 134.64 -22.62 REMARK 500 SER A 298 -72.33 160.15 REMARK 500 ASP A 308 41.20 17.06 REMARK 500 REMARK 500 THIS ENTRY HAS 71 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 307 ASP A 308 -146.02 REMARK 500 THR A 405 ALA A 406 146.16 REMARK 500 REMARK 500 REMARK: NULL 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 AUC A 508 REMARK 610 AUC A 509 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 AUC A 509 AU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 428 SG REMARK 620 2 AUC A 509 C2 139.0 REMARK 620 N 1 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AUC A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AUC A 509 DBREF 4ZGH A 2 470 UNP Q04IN8 TACY_STRP2 2 470 SEQADV 4ZGH HIS A -6 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH HIS A -5 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH HIS A -4 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH HIS A -3 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH HIS A -2 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH HIS A -1 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH GLY A 0 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH SER A 1 UNP Q04IN8 EXPRESSION TAG SEQADV 4ZGH SER A 56 UNP Q04IN8 ASN 56 ENGINEERED MUTATION SEQADV 4ZGH ARG A 208 UNP Q04IN8 LYS 208 ENGINEERED MUTATION SEQADV 4ZGH ASP A 311 UNP Q04IN8 GLU 311 ENGINEERED MUTATION SEQRES 1 A 477 HIS HIS HIS HIS HIS HIS GLY SER ALA ASN LYS ALA VAL SEQRES 2 A 477 ASN ASP PHE ILE LEU ALA MET ASN TYR ASP LYS LYS LYS SEQRES 3 A 477 LEU LEU THR HIS GLN GLY GLU SER ILE GLU ASN ARG PHE SEQRES 4 A 477 ILE LYS GLU GLY ASN GLN LEU PRO ASP GLU PHE VAL VAL SEQRES 5 A 477 ILE GLU ARG LYS LYS ARG SER LEU SER THR SER THR SER SEQRES 6 A 477 ASP ILE SER VAL THR ALA THR ASN ASP SER ARG LEU TYR SEQRES 7 A 477 PRO GLY ALA LEU LEU VAL VAL ASP GLU THR LEU LEU GLU SEQRES 8 A 477 ASN ASN PRO THR LEU LEU ALA VAL ASP ARG ALA PRO MET SEQRES 9 A 477 THR TYR SER ILE ASP LEU PRO GLY LEU ALA SER SER ASP SEQRES 10 A 477 SER PHE LEU GLN VAL GLU ASP PRO SER ASN SER SER VAL SEQRES 11 A 477 ARG GLY ALA VAL ASN ASP LEU LEU ALA LYS TRP HIS GLN SEQRES 12 A 477 ASP TYR GLY GLN VAL ASN ASN VAL PRO ALA ARG MET GLN SEQRES 13 A 477 TYR GLU LYS ILE THR ALA HIS SER MET GLU GLN LEU LYS SEQRES 14 A 477 VAL LYS PHE GLY SER ASP PHE GLU LYS THR GLY ASN SER SEQRES 15 A 477 LEU ASP ILE ASP PHE ASN SER VAL HIS SER GLY GLU LYS SEQRES 16 A 477 GLN ILE GLN ILE VAL ASN PHE LYS GLN ILE TYR TYR THR SEQRES 17 A 477 VAL SER VAL ASP ALA VAL ARG ASN PRO GLY ASP VAL PHE SEQRES 18 A 477 GLN ASP THR VAL THR VAL GLU ASP LEU LYS GLN ARG GLY SEQRES 19 A 477 ILE SER ALA GLU ARG PRO LEU VAL TYR ILE SER SER VAL SEQRES 20 A 477 ALA TYR GLY ARG GLN VAL TYR LEU LYS LEU GLU THR THR SEQRES 21 A 477 SER LYS SER ASP GLU VAL GLU ALA ALA PHE GLU ALA LEU SEQRES 22 A 477 ILE LYS GLY VAL LYS VAL ALA PRO GLN THR GLU TRP LYS SEQRES 23 A 477 GLN ILE LEU ASP ASN THR GLU VAL LYS ALA VAL ILE LEU SEQRES 24 A 477 GLY GLY ASP PRO SER SER GLY ALA ARG VAL VAL THR GLY SEQRES 25 A 477 LYS VAL ASP MET VAL ASP ASP LEU ILE GLN GLU GLY SER SEQRES 26 A 477 ARG PHE THR ALA ASP HIS PRO GLY LEU PRO ILE SER TYR SEQRES 27 A 477 THR THR SER PHE LEU ARG ASP ASN VAL VAL ALA THR PHE SEQRES 28 A 477 GLN ASN SER THR ASP TYR VAL GLU THR LYS VAL THR ALA SEQRES 29 A 477 TYR ARG ASN GLY ASP LEU LEU LEU ASP HIS SER GLY ALA SEQRES 30 A 477 TYR VAL ALA GLN TYR TYR ILE THR TRP ASP GLU LEU SER SEQRES 31 A 477 TYR ASP HIS GLN GLY LYS GLU VAL LEU THR PRO LYS ALA SEQRES 32 A 477 TRP ASP ARG ASN GLY GLN ASP LEU THR ALA HIS PHE THR SEQRES 33 A 477 THR SER ILE PRO LEU LYS GLY ASN VAL ARG ASN LEU SER SEQRES 34 A 477 VAL LYS ILE ARG GLU CYS THR GLY LEU ALA TRP GLU TRP SEQRES 35 A 477 TRP ARG THR VAL TYR GLU LYS THR ASP LEU PRO LEU VAL SEQRES 36 A 477 ARG LYS ARG THR ILE SER ILE TRP GLY THR THR LEU TYR SEQRES 37 A 477 PRO GLN VAL GLU ASP LYS VAL GLU ASN HET EDO A 501 10 HET EDO A 502 10 HET EDO A 503 10 HET EDO A 504 10 HET EDO A 505 10 HET PEG A 506 17 HET PEG A 507 17 HET AUC A 508 3 HET AUC A 509 2 HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM AUC GOLD (I) CYANIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO 5(C2 H6 O2) FORMUL 7 PEG 2(C4 H10 O3) FORMUL 9 AUC 2(C2 AU N2) FORMUL 11 HOH *29(H2 O) HELIX 1 AA1 GLY A 0 MET A 13 1 14 HELIX 2 AA2 ASP A 79 GLU A 84 1 6 HELIX 3 AA3 SER A 119 GLN A 136 1 18 HELIX 4 AA4 MET A 158 GLY A 166 1 9 HELIX 5 AA5 THR A 172 LEU A 176 5 5 HELIX 6 AA6 ASN A 209 PHE A 214 5 6 HELIX 7 AA7 THR A 219 GLN A 225 1 7 HELIX 8 AA8 VAL A 259 LYS A 268 1 10 HELIX 9 AA9 GLU A 277 THR A 285 1 9 SHEET 1 AA1 3 THR A 22 GLN A 24 0 SHEET 2 AA1 3 PHE A 344 TYR A 350 1 O SER A 347 N HIS A 23 SHEET 3 AA1 3 ARG A 51 THR A 57 -1 N THR A 57 O PHE A 344 SHEET 1 AA2 6 ARG A 301 VAL A 303 0 SHEET 2 AA2 6 GLU A 286 GLY A 293 -1 N VAL A 290 O VAL A 303 SHEET 3 AA2 6 LEU A 234 THR A 252 -1 N GLN A 245 O GLY A 293 SHEET 4 AA2 6 ILE A 190 VAL A 204 -1 N PHE A 195 O VAL A 246 SHEET 5 AA2 6 MET A 97 ILE A 101 -1 N SER A 100 O SER A 203 SHEET 6 AA2 6 PHE A 112 VAL A 115 -1 O VAL A 115 N MET A 97 SHEET 1 AA3 4 ILE A 60 SER A 61 0 SHEET 2 AA3 4 LEU A 327 PHE A 335 -1 O TYR A 331 N ILE A 60 SHEET 3 AA3 4 LEU A 234 THR A 252 -1 N ALA A 241 O SER A 330 SHEET 4 AA3 4 LEU A 75 VAL A 77 -1 N LEU A 76 O VAL A 235 SHEET 1 AA4 4 LEU A 75 VAL A 77 0 SHEET 2 AA4 4 LEU A 234 THR A 252 -1 O VAL A 235 N LEU A 76 SHEET 3 AA4 4 ILE A 190 VAL A 204 -1 N PHE A 195 O VAL A 246 SHEET 4 AA4 4 ARG A 147 THR A 154 -1 N ILE A 153 O ILE A 192 SHEET 1 AA5 4 ARG A 147 THR A 154 0 SHEET 2 AA5 4 ILE A 190 VAL A 204 -1 O ILE A 192 N ILE A 153 SHEET 3 AA5 4 MET A 97 ILE A 101 -1 N SER A 100 O SER A 203 SHEET 4 AA5 4 PHE A 112 VAL A 115 -1 O VAL A 115 N MET A 97 SHEET 1 AA6 4 PHE A 408 PRO A 413 0 SHEET 2 AA6 4 ASP A 362 GLY A 369 -1 N HIS A 367 O PHE A 408 SHEET 3 AA6 4 LYS A 450 GLY A 457 1 O ARG A 451 N LEU A 364 SHEET 4 AA6 4 PRO A 462 LYS A 467 -1 O LYS A 467 N THR A 452 SHEET 1 AA7 4 VAL A 391 ALA A 396 0 SHEET 2 AA7 4 ALA A 373 SER A 383 -1 N TRP A 379 O LYS A 395 SHEET 3 AA7 4 VAL A 418 CYS A 428 -1 O ARG A 419 N ASP A 380 SHEET 4 AA7 4 TRP A 436 LYS A 442 -1 O VAL A 439 N ILE A 425 LINK SG CYS A 428 AU AUC A 509 1555 1555 2.72 SITE 1 AC1 6 TYR A 71 ALA A 91 VAL A 92 ARG A 94 SITE 2 AC1 6 PRO A 118 ARG A 208 SITE 1 AC2 3 HIS A -2 GLN A 215 ASP A 216 SITE 1 AC3 2 THR A 458 THR A 459 SITE 1 AC4 2 ASN A 209 ASP A 212 SITE 1 AC5 3 TYR A 15 LYS A 17 LYS A 18 SITE 1 AC6 5 HIS A -1 TRP A 456 GLY A 457 TYR A 461 SITE 2 AC6 5 GLN A 463 SITE 1 AC7 3 ASP A 403 AUC A 508 AUC A 509 SITE 1 AC8 4 CYS A 428 GLY A 430 PEG A 507 AUC A 509 SITE 1 AC9 4 CYS A 428 TYR A 461 PEG A 507 AUC A 508 CRYST1 24.857 133.619 220.442 90.00 90.00 90.00 P 21 21 21 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 0.040230 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007484 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004536 0.00000