HEADER TRANSLATION, TOXIN 01-SEP-11 3TND TITLE CRYSTAL STRUCTURE OF SHIGELLA FLEXNERI VAPBC TOXIN-ANTITOXIN COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA(FMET)-SPECIFIC ENDONUCLEASE VAPC; COMPND 3 CHAIN: A, C, E, G; COMPND 4 SYNONYM: RNASE VAPC, TOXIN VAPC; COMPND 5 EC: 3.1.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ANTITOXIN VAPB; COMPND 9 CHAIN: B, D, F, H; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHIGELLA FLEXNERI; SOURCE 3 ORGANISM_TAXID: 623; SOURCE 4 STRAIN: 2A; SOURCE 5 GENE: CP0245, MVPA, STBORF2, VAPC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: C41 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PKW812HB; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SHIGELLA FLEXNERI; SOURCE 13 ORGANISM_TAXID: 623; SOURCE 14 STRAIN: 2A; SOURCE 15 GENE: CP0246, MVPT, VAPB; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: C41 (DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PKW812HB KEYWDS PIN DOMAIN, SPOVT/ABRB-LIKE DOMAIN, RIBONUCLEASE, DNA-BINDING, KEYWDS 2 TRANSLATION, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR C.DIENEMANN,A.BOGGILD,K.S.WINTHER,K.GERDES,D.E.BRODERSEN REVDAT 5 28-FEB-24 3TND 1 REMARK SEQADV LINK REVDAT 4 07-MAR-18 3TND 1 REMARK REVDAT 3 21-DEC-11 3TND 1 JRNL REVDAT 2 16-NOV-11 3TND 1 JRNL REVDAT 1 02-NOV-11 3TND 0 JRNL AUTH C.DIENEMANN,A.BOGGILD,K.S.WINTHER,K.GERDES,D.E.BRODERSEN JRNL TITL CRYSTAL STRUCTURE OF THE VAPBC TOXIN-ANTITOXIN COMPLEX FROM JRNL TITL 2 SHIGELLA FLEXNERI REVEALS A HETERO-OCTAMERIC DNA-BINDING JRNL TITL 3 ASSEMBLY. JRNL REF J.MOL.BIOL. V. 414 713 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 22037005 JRNL DOI 10.1016/J.JMB.2011.10.024 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.62 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 38932 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.580 REMARK 3 FREE R VALUE TEST SET COUNT : 1783 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 39.6193 - 6.3407 1.00 3190 153 0.1959 0.2291 REMARK 3 2 6.3407 - 5.0360 1.00 2966 141 0.1851 0.2012 REMARK 3 3 5.0360 - 4.4004 1.00 2897 138 0.1417 0.2062 REMARK 3 4 4.4004 - 3.9985 1.00 2881 138 0.1385 0.1984 REMARK 3 5 3.9985 - 3.7121 1.00 2860 137 0.1622 0.2245 REMARK 3 6 3.7121 - 3.4934 1.00 2824 135 0.1747 0.2356 REMARK 3 7 3.4934 - 3.3185 1.00 2814 136 0.1919 0.2625 REMARK 3 8 3.3185 - 3.1741 1.00 2804 134 0.1981 0.2521 REMARK 3 9 3.1741 - 3.0520 1.00 2768 133 0.1991 0.2673 REMARK 3 10 3.0520 - 2.9467 1.00 2798 136 0.2081 0.2785 REMARK 3 11 2.9467 - 2.8546 1.00 2781 133 0.2229 0.2912 REMARK 3 12 2.8546 - 2.7730 1.00 2773 134 0.2685 0.3806 REMARK 3 13 2.7730 - 2.7000 1.00 2793 135 0.2897 0.3964 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.72 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 52.56 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.780 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.75650 REMARK 3 B22 (A**2) : 5.75650 REMARK 3 B33 (A**2) : -11.51310 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 : 0.005 6430 REMARK 3 ANGLE : 0.838 8691 REMARK 3 CHIRALITY : 0.056 970 REMARK 3 PLANARITY : 0.003 1131 REMARK 3 DIHEDRAL : 15.439 2401 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 3TND COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-SEP-11. REMARK 100 THE DEPOSITION ID IS D_1000067684. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-11; 20-MAY-11 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : ESRF; MAX II REMARK 200 BEAMLINE : ID23-1; I911-2 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.94645; 1.04002 REMARK 200 MONOCHROMATOR : SILICON (111) CHANNEL-CUT; BENT REMARK 200 SI (111) CRYSTAL, HORIZONTALLY REMARK 200 FOCUSING REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R; MAR CCD 165 REMARK 200 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43720 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS, 1M AMMONIUM SULPHATE, REMARK 280 0.5% (V/V) PEG 3350, PH 5.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 183.03000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 366.06000 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 274.54500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 457.57500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 91.51500 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 183.03000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 366.06000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 457.57500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 274.54500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 91.51500 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 26700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -242.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F, G, H 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 H 95 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 MET B 1A REMARK 465 HIS B 1B REMARK 465 HIS B 1C REMARK 465 HIS B 1D REMARK 465 HIS B 1E REMARK 465 HIS B 1F REMARK 465 MET B 69 REMARK 465 GLN B 70 REMARK 465 GLU B 71 REMARK 465 ARG B 72 REMARK 465 GLU B 73 REMARK 465 SER B 74 REMARK 465 PHE B 75 REMARK 465 MET D 1A REMARK 465 HIS D 1B REMARK 465 HIS D 1C REMARK 465 HIS D 1D REMARK 465 HIS D 1E REMARK 465 HIS D 1F REMARK 465 MET D 69 REMARK 465 GLN D 70 REMARK 465 GLU D 71 REMARK 465 ARG D 72 REMARK 465 GLU D 73 REMARK 465 SER D 74 REMARK 465 PHE D 75 REMARK 465 MET F 1A REMARK 465 HIS F 1B REMARK 465 HIS F 1C REMARK 465 HIS F 1D REMARK 465 HIS F 1E REMARK 465 HIS F 1F REMARK 465 HIS F 1G REMARK 465 GLY F 68 REMARK 465 MET F 69 REMARK 465 GLN F 70 REMARK 465 GLU F 71 REMARK 465 ARG F 72 REMARK 465 GLU F 73 REMARK 465 SER F 74 REMARK 465 PHE F 75 REMARK 465 MET H 1A REMARK 465 HIS H 1B REMARK 465 HIS H 1C REMARK 465 HIS H 1D REMARK 465 HIS H 1E REMARK 465 HIS H 1F REMARK 465 HIS H 1G REMARK 465 MET H 69 REMARK 465 GLN H 70 REMARK 465 GLU H 71 REMARK 465 ARG H 72 REMARK 465 GLU H 73 REMARK 465 SER H 74 REMARK 465 PHE H 75 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 THR B 4 O HOH B 164 1.88 REMARK 500 O ALA C 76 O HOH C 183 1.97 REMARK 500 O1 SO4 G 133 O HOH G 145 2.04 REMARK 500 O HOH B 122 O HOH B 170 2.05 REMARK 500 OG1 THR G 114 O HOH G 159 2.06 REMARK 500 OH TYR A 45 OE2 GLU B 65 2.07 REMARK 500 O ASN A 116 O HOH A 173 2.08 REMARK 500 OH TYR C 72 O HOH C 183 2.10 REMARK 500 OG1 THR C 80 O HOH C 183 2.11 REMARK 500 O HOH C 149 O HOH D 124 2.16 REMARK 500 OE1 GLU G 86 O HOH G 143 2.16 REMARK 500 NE ARG A 25 O HOH A 164 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 VAL B 20 1.93 -152.45 REMARK 500 PHE B 60 102.94 -46.10 REMARK 500 LYS C 3 -39.08 -130.62 REMARK 500 LYS C 18 58.56 35.38 REMARK 500 LYS D 27 -14.15 -140.19 REMARK 500 PHE D 60 113.96 -39.60 REMARK 500 THR E 117 -26.31 73.04 REMARK 500 GLU E 129 127.91 -171.84 REMARK 500 PHE F 6 -165.18 -126.19 REMARK 500 PRO F 17 149.08 -39.54 REMARK 500 PRO F 23 155.54 -49.68 REMARK 500 ASP F 52 -70.45 -69.10 REMARK 500 SER F 57 150.57 -46.82 REMARK 500 PHE F 60 108.67 -53.90 REMARK 500 SER G 50 -173.60 -54.85 REMARK 500 ASN G 116 58.53 -98.92 REMARK 500 ARG H 10 -10.34 89.91 REMARK 500 VAL H 26 96.73 -47.82 REMARK 500 HIS H 54 151.11 -40.73 REMARK 500 PHE H 60 107.80 -47.46 REMARK 500 PRO H 67 170.27 -55.04 REMARK 500 REMARK 500 REMARK: NULL 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 NA B 82 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 171 O REMARK 620 2 HOH B 121 O 159.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D 82 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 149 O REMARK 620 2 HOH D 124 O 41.6 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 SO4 A 133 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 82 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 83 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA D 82 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 83 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 84 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 E 133 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 F 82 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 G 133 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 H 82 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 H 83 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 H 84 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 H 85 DBREF 3TND A 1 132 UNP O06662 VAPC_SHIFL 1 132 DBREF 3TND B 2 75 UNP O06663 VAPB_SHIFL 2 75 DBREF 3TND C 1 132 UNP O06662 VAPC_SHIFL 1 132 DBREF 3TND D 2 75 UNP O06663 VAPB_SHIFL 2 75 DBREF 3TND E 1 132 UNP O06662 VAPC_SHIFL 1 132 DBREF 3TND F 2 75 UNP O06663 VAPB_SHIFL 2 75 DBREF 3TND G 1 132 UNP O06662 VAPC_SHIFL 1 132 DBREF 3TND H 2 75 UNP O06663 VAPB_SHIFL 2 75 SEQADV 3TND MET B 1A UNP O06663 EXPRESSION TAG SEQADV 3TND HIS B 1B UNP O06663 EXPRESSION TAG SEQADV 3TND HIS B 1C UNP O06663 EXPRESSION TAG SEQADV 3TND HIS B 1D UNP O06663 EXPRESSION TAG SEQADV 3TND HIS B 1E UNP O06663 EXPRESSION TAG SEQADV 3TND HIS B 1F UNP O06663 EXPRESSION TAG SEQADV 3TND HIS B 1G UNP O06663 EXPRESSION TAG SEQADV 3TND MET D 1A UNP O06663 EXPRESSION TAG SEQADV 3TND HIS D 1B UNP O06663 EXPRESSION TAG SEQADV 3TND HIS D 1C UNP O06663 EXPRESSION TAG SEQADV 3TND HIS D 1D UNP O06663 EXPRESSION TAG SEQADV 3TND HIS D 1E UNP O06663 EXPRESSION TAG SEQADV 3TND HIS D 1F UNP O06663 EXPRESSION TAG SEQADV 3TND HIS D 1G UNP O06663 EXPRESSION TAG SEQADV 3TND MET F 1A UNP O06663 EXPRESSION TAG SEQADV 3TND HIS F 1B UNP O06663 EXPRESSION TAG SEQADV 3TND HIS F 1C UNP O06663 EXPRESSION TAG SEQADV 3TND HIS F 1D UNP O06663 EXPRESSION TAG SEQADV 3TND HIS F 1E UNP O06663 EXPRESSION TAG SEQADV 3TND HIS F 1F UNP O06663 EXPRESSION TAG SEQADV 3TND HIS F 1G UNP O06663 EXPRESSION TAG SEQADV 3TND MET H 1A UNP O06663 EXPRESSION TAG SEQADV 3TND HIS H 1B UNP O06663 EXPRESSION TAG SEQADV 3TND HIS H 1C UNP O06663 EXPRESSION TAG SEQADV 3TND HIS H 1D UNP O06663 EXPRESSION TAG SEQADV 3TND HIS H 1E UNP O06663 EXPRESSION TAG SEQADV 3TND HIS H 1F UNP O06663 EXPRESSION TAG SEQADV 3TND HIS H 1G UNP O06663 EXPRESSION TAG SEQRES 1 A 132 MET LEU LYS PHE MET LEU ASP THR ASN ILE CYS ILE PHE SEQRES 2 A 132 THR ILE LYS ASN LYS PRO ALA SER VAL ARG GLU ARG PHE SEQRES 3 A 132 ASN LEU ASN GLN GLY LYS MET CYS ILE SER SER VAL THR SEQRES 4 A 132 LEU MET GLU LEU ILE TYR GLY ALA GLU LYS SER GLN MET SEQRES 5 A 132 PRO GLU ARG ASN LEU ALA VAL ILE GLU GLY PHE VAL SER SEQRES 6 A 132 ARG ILE ASP VAL LEU ASP TYR ASP ALA ALA ALA ALA THR SEQRES 7 A 132 HIS THR GLY GLN ILE ARG ALA GLU LEU ALA ARG GLN GLY SEQRES 8 A 132 ARG PRO VAL GLY PRO PHE ASP GLN MET ILE ALA GLY HIS SEQRES 9 A 132 ALA ARG SER ARG GLY LEU ILE ILE VAL THR ASN ASN THR SEQRES 10 A 132 ARG GLU PHE GLU ARG VAL GLY GLY LEU ARG THR GLU ASP SEQRES 11 A 132 TRP SER SEQRES 1 B 81 MET HIS HIS HIS HIS HIS HIS GLU THR THR VAL PHE LEU SEQRES 2 B 81 SER ASN ARG SER GLN ALA VAL ARG LEU PRO LYS ALA VAL SEQRES 3 B 81 ALA LEU PRO GLU ASN VAL LYS ARG VAL GLU VAL ILE ALA SEQRES 4 B 81 VAL GLY ARG THR ARG ILE ILE THR PRO ALA GLY GLU THR SEQRES 5 B 81 TRP ASP GLU TRP PHE ASP GLY HIS SER VAL SER THR ASP SEQRES 6 B 81 PHE MET ASP ASN ARG GLU GLN PRO GLY MET GLN GLU ARG SEQRES 7 B 81 GLU SER PHE SEQRES 1 C 132 MET LEU LYS PHE MET LEU ASP THR ASN ILE CYS ILE PHE SEQRES 2 C 132 THR ILE LYS ASN LYS PRO ALA SER VAL ARG GLU ARG PHE SEQRES 3 C 132 ASN LEU ASN GLN GLY LYS MET CYS ILE SER SER VAL THR SEQRES 4 C 132 LEU MET GLU LEU ILE TYR GLY ALA GLU LYS SER GLN MET SEQRES 5 C 132 PRO GLU ARG ASN LEU ALA VAL ILE GLU GLY PHE VAL SER SEQRES 6 C 132 ARG ILE ASP VAL LEU ASP TYR ASP ALA ALA ALA ALA THR SEQRES 7 C 132 HIS THR GLY GLN ILE ARG ALA GLU LEU ALA ARG GLN GLY SEQRES 8 C 132 ARG PRO VAL GLY PRO PHE ASP GLN MET ILE ALA GLY HIS SEQRES 9 C 132 ALA ARG SER ARG GLY LEU ILE ILE VAL THR ASN ASN THR SEQRES 10 C 132 ARG GLU PHE GLU ARG VAL GLY GLY LEU ARG THR GLU ASP SEQRES 11 C 132 TRP SER SEQRES 1 D 81 MET HIS HIS HIS HIS HIS HIS GLU THR THR VAL PHE LEU SEQRES 2 D 81 SER ASN ARG SER GLN ALA VAL ARG LEU PRO LYS ALA VAL SEQRES 3 D 81 ALA LEU PRO GLU ASN VAL LYS ARG VAL GLU VAL ILE ALA SEQRES 4 D 81 VAL GLY ARG THR ARG ILE ILE THR PRO ALA GLY GLU THR SEQRES 5 D 81 TRP ASP GLU TRP PHE ASP GLY HIS SER VAL SER THR ASP SEQRES 6 D 81 PHE MET ASP ASN ARG GLU GLN PRO GLY MET GLN GLU ARG SEQRES 7 D 81 GLU SER PHE SEQRES 1 E 132 MET LEU LYS PHE MET LEU ASP THR ASN ILE CYS ILE PHE SEQRES 2 E 132 THR ILE LYS ASN LYS PRO ALA SER VAL ARG GLU ARG PHE SEQRES 3 E 132 ASN LEU ASN GLN GLY LYS MET CYS ILE SER SER VAL THR SEQRES 4 E 132 LEU MET GLU LEU ILE TYR GLY ALA GLU LYS SER GLN MET SEQRES 5 E 132 PRO GLU ARG ASN LEU ALA VAL ILE GLU GLY PHE VAL SER SEQRES 6 E 132 ARG ILE ASP VAL LEU ASP TYR ASP ALA ALA ALA ALA THR SEQRES 7 E 132 HIS THR GLY GLN ILE ARG ALA GLU LEU ALA ARG GLN GLY SEQRES 8 E 132 ARG PRO VAL GLY PRO PHE ASP GLN MET ILE ALA GLY HIS SEQRES 9 E 132 ALA ARG SER ARG GLY LEU ILE ILE VAL THR ASN ASN THR SEQRES 10 E 132 ARG GLU PHE GLU ARG VAL GLY GLY LEU ARG THR GLU ASP SEQRES 11 E 132 TRP SER SEQRES 1 F 81 MET HIS HIS HIS HIS HIS HIS GLU THR THR VAL PHE LEU SEQRES 2 F 81 SER ASN ARG SER GLN ALA VAL ARG LEU PRO LYS ALA VAL SEQRES 3 F 81 ALA LEU PRO GLU ASN VAL LYS ARG VAL GLU VAL ILE ALA SEQRES 4 F 81 VAL GLY ARG THR ARG ILE ILE THR PRO ALA GLY GLU THR SEQRES 5 F 81 TRP ASP GLU TRP PHE ASP GLY HIS SER VAL SER THR ASP SEQRES 6 F 81 PHE MET ASP ASN ARG GLU GLN PRO GLY MET GLN GLU ARG SEQRES 7 F 81 GLU SER PHE SEQRES 1 G 132 MET LEU LYS PHE MET LEU ASP THR ASN ILE CYS ILE PHE SEQRES 2 G 132 THR ILE LYS ASN LYS PRO ALA SER VAL ARG GLU ARG PHE SEQRES 3 G 132 ASN LEU ASN GLN GLY LYS MET CYS ILE SER SER VAL THR SEQRES 4 G 132 LEU MET GLU LEU ILE TYR GLY ALA GLU LYS SER GLN MET SEQRES 5 G 132 PRO GLU ARG ASN LEU ALA VAL ILE GLU GLY PHE VAL SER SEQRES 6 G 132 ARG ILE ASP VAL LEU ASP TYR ASP ALA ALA ALA ALA THR SEQRES 7 G 132 HIS THR GLY GLN ILE ARG ALA GLU LEU ALA ARG GLN GLY SEQRES 8 G 132 ARG PRO VAL GLY PRO PHE ASP GLN MET ILE ALA GLY HIS SEQRES 9 G 132 ALA ARG SER ARG GLY LEU ILE ILE VAL THR ASN ASN THR SEQRES 10 G 132 ARG GLU PHE GLU ARG VAL GLY GLY LEU ARG THR GLU ASP SEQRES 11 G 132 TRP SER SEQRES 1 H 81 MET HIS HIS HIS HIS HIS HIS GLU THR THR VAL PHE LEU SEQRES 2 H 81 SER ASN ARG SER GLN ALA VAL ARG LEU PRO LYS ALA VAL SEQRES 3 H 81 ALA LEU PRO GLU ASN VAL LYS ARG VAL GLU VAL ILE ALA SEQRES 4 H 81 VAL GLY ARG THR ARG ILE ILE THR PRO ALA GLY GLU THR SEQRES 5 H 81 TRP ASP GLU TRP PHE ASP GLY HIS SER VAL SER THR ASP SEQRES 6 H 81 PHE MET ASP ASN ARG GLU GLN PRO GLY MET GLN GLU ARG SEQRES 7 H 81 GLU SER PHE HET SO4 A 133 5 HET NA B 82 1 HET SO4 B 83 5 HET NA D 82 1 HET SO4 D 83 5 HET SO4 D 84 5 HET SO4 E 133 5 HET SO4 F 82 5 HET SO4 G 133 5 HET SO4 H 82 5 HET SO4 H 83 5 HET SO4 H 84 5 HET SO4 H 85 5 HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION FORMUL 9 SO4 11(O4 S 2-) FORMUL 10 NA 2(NA 1+) FORMUL 22 HOH *205(H2 O) HELIX 1 1 ASP A 7 LYS A 18 1 12 HELIX 2 2 PRO A 19 GLN A 30 1 12 HELIX 3 3 SER A 37 LYS A 49 1 13 HELIX 4 4 MET A 52 ARG A 66 1 15 HELIX 5 5 ASP A 73 GLY A 91 1 19 HELIX 6 6 GLY A 95 ARG A 108 1 14 HELIX 7 7 THR A 117 ARG A 122 1 6 HELIX 8 10 ASP C 7 LYS C 18 1 12 HELIX 9 11 PRO C 19 ASN C 29 1 11 HELIX 10 12 SER C 37 LYS C 49 1 13 HELIX 11 13 MET C 52 SER C 65 1 14 HELIX 12 14 ASP C 73 ARG C 89 1 17 HELIX 13 15 GLY C 95 ARG C 108 1 14 HELIX 14 16 ASN C 116 GLU C 121 1 6 HELIX 15 19 ASP E 7 LYS E 18 1 12 HELIX 16 20 PRO E 19 GLN E 30 1 12 HELIX 17 21 SER E 37 SER E 50 1 14 HELIX 18 22 MET E 52 ARG E 66 1 15 HELIX 19 23 ASP E 73 GLN E 90 1 18 HELIX 20 24 GLY E 95 ARG E 108 1 14 HELIX 21 25 GLU E 119 VAL E 123 5 5 HELIX 22 28 ASP G 7 LYS G 18 1 12 HELIX 23 29 PRO G 19 GLN G 30 1 12 HELIX 24 30 SER G 37 LYS G 49 1 13 HELIX 25 31 MET G 52 SER G 65 1 14 HELIX 26 32 ASP G 73 ARG G 89 1 17 HELIX 27 33 GLY G 95 ARG G 108 1 14 HELIX 28 34 ASN G 116 GLU G 121 1 6 SHEET 1 A 5 ASP A 68 LEU A 70 0 SHEET 2 A 5 MET A 33 SER A 36 1 N ILE A 35 O LEU A 70 SHEET 3 A 5 PHE A 4 LEU A 6 1 N LEU A 6 O CYS A 34 SHEET 4 A 5 ILE A 111 THR A 114 1 O ILE A 111 N MET A 5 SHEET 5 A 5 THR A 128 ASP A 130 1 O GLU A 129 N THR A 114 SHEET 1 C 5 ASP C 68 LEU C 70 0 SHEET 2 C 5 MET C 33 SER C 36 1 N ILE C 35 O LEU C 70 SHEET 3 C 5 PHE C 4 LEU C 6 1 N LEU C 6 O CYS C 34 SHEET 4 C 5 ILE C 111 THR C 114 1 O ILE C 111 N MET C 5 SHEET 5 C 5 THR C 128 ASP C 130 1 O GLU C 129 N THR C 114 SHEET 1 D 5 ASP E 68 LEU E 70 0 SHEET 2 D 5 MET E 33 SER E 36 1 N ILE E 35 O ASP E 68 SHEET 3 D 5 PHE E 4 LEU E 6 1 N LEU E 6 O CYS E 34 SHEET 4 D 5 ILE E 111 THR E 114 1 O ILE E 111 N MET E 5 SHEET 5 D 5 THR E 128 ASP E 130 1 O GLU E 129 N THR E 114 SHEET 1 G 5 ASP G 68 LEU G 70 0 SHEET 2 G 5 MET G 33 SER G 36 1 N ILE G 35 O ASP G 68 SHEET 3 G 5 PHE G 4 LEU G 6 1 N LEU G 6 O CYS G 34 SHEET 4 G 5 ILE G 111 THR G 114 1 O ILE G 111 N MET G 5 SHEET 5 G 5 THR G 128 ASP G 130 1 O GLU G 129 N THR G 114 LINK O HOH A 171 NA NA B 82 1555 1555 3.17 LINK NA NA B 82 O HOH B 121 1555 1555 2.82 LINK O HOH C 149 NA NA D 82 1555 1555 3.06 LINK NA NA D 82 O HOH D 124 1555 1555 3.02 SITE 1 AC1 4 LYS A 49 HOH A 150 HOH A 170 GLU B 65 SITE 1 AC2 1 HOH B 121 SITE 1 AC3 4 ARG B 15 PRO B 17 LYS B 18 SER D 11 SITE 1 AC4 3 HOH C 149 GLN D 66 HOH D 124 SITE 1 AC5 4 SER B 11 ARG D 15 PRO D 17 LYS D 18 SITE 1 AC6 3 ARG D 15 THR F 3 THR F 4 SITE 1 AC7 3 ARG E 55 SER F 57 THR F 58 SITE 1 AC8 3 ARG F 15 PRO F 17 LYS F 18 SITE 1 AC9 4 LEU C 126 GLY G 125 LEU G 126 HOH G 145 SITE 1 BC1 5 ARG B 15 ARG F 28 THR H 3 THR H 4 SITE 2 BC1 5 ARG H 15 SITE 1 BC2 4 SER F 11 ARG H 15 PRO H 17 LYS H 18 SITE 1 BC3 4 LYS G 49 ASN H 63 HOH H 99 HOH H 113 SITE 1 BC4 4 ARG G 55 HIS H 54 SER H 55 HOH H 114 CRYST1 91.403 91.403 549.090 90.00 90.00 120.00 P 61 2 2 48 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 0.010941 0.006317 0.000000 0.00000 SCALE2 0.000000 0.012633 0.000000 0.00000 SCALE3 0.000000 0.000000 0.001821 0.00000