HEADER DE NOVO PROTEIN 06-APR-17 5VF1 TITLE X-RAY CRYSTALLOGRAPHIC STRUCTURE OF A GIANT DOUBLE-WALLED PEPTIDE TITLE 2 NANOTUBE FORMED BY A MACROCYCLIC BETA-SHEET CONTAINING ABETA16-22 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORN-LYS-LEU-VAL-PHI-PHE-ALA-GLU-ORN-GLU-ALA-PHE-MEA-VAL- COMPND 3 LEU-LYS; COMPND 4 CHAIN: A, B, C, D, E, F; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606 KEYWDS AMYLOID-BETA, MACROCYCLIC PEPTIDE, NANOTUBE, DE NOVO PEPTIDE DESIGN, KEYWDS 2 DE NOVO PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.H.CHEN,K.A.CORRO,S.P.LE,J.S.NOWICK REVDAT 4 27-NOV-19 5VF1 1 REMARK REVDAT 3 27-SEP-17 5VF1 1 REMARK REVDAT 2 05-JUL-17 5VF1 1 JRNL REVDAT 1 21-JUN-17 5VF1 0 JRNL AUTH K.H.CHEN,K.A.CORRO,S.P.LE,J.S.NOWICK JRNL TITL X-RAY CRYSTALLOGRAPHIC STRUCTURE OF A GIANT DOUBLE-WALLED JRNL TITL 2 PEPTIDE NANOTUBE FORMED BY A MACROCYCLIC BETA-SHEET JRNL TITL 3 CONTAINING A BETA 16-22. JRNL REF J. AM. CHEM. SOC. V. 139 8102 2017 JRNL REFN ESSN 1520-5126 JRNL PMID 28598147 JRNL DOI 10.1021/JACS.7B03890 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 14394 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1443 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 19.8402 - 4.5084 1.00 1307 141 0.2265 0.2910 REMARK 3 2 4.5084 - 3.5854 1.00 1291 147 0.1848 0.2320 REMARK 3 3 3.5854 - 3.1342 1.00 1301 147 0.1955 0.2330 REMARK 3 4 3.1342 - 2.8485 1.00 1288 146 0.2014 0.2467 REMARK 3 5 2.8485 - 2.6448 1.00 1290 148 0.2254 0.3076 REMARK 3 6 2.6448 - 2.4892 1.00 1284 141 0.2507 0.3509 REMARK 3 7 2.4892 - 2.3648 1.00 1316 142 0.2415 0.2978 REMARK 3 8 2.3648 - 2.2620 1.00 1279 140 0.2466 0.3078 REMARK 3 9 2.2620 - 2.1750 1.00 1297 149 0.2618 0.3025 REMARK 3 10 2.1750 - 2.1000 1.00 1298 142 0.2769 0.3067 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.500 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) : 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 : 0.009 852 REMARK 3 ANGLE : 1.445 1122 REMARK 3 CHIRALITY : 0.059 120 REMARK 3 PLANARITY : 0.005 126 REMARK 3 DIHEDRAL : 22.645 534 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 1 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.2324 44.2124 20.5362 REMARK 3 T TENSOR REMARK 3 T11: 0.2624 T22: 0.3483 REMARK 3 T33: 0.2247 T12: 0.0696 REMARK 3 T13: -0.0339 T23: 0.0423 REMARK 3 L TENSOR REMARK 3 L11: 4.3940 L22: 8.1165 REMARK 3 L33: 8.4981 L12: -1.5789 REMARK 3 L13: 1.7757 L23: -5.4090 REMARK 3 S TENSOR REMARK 3 S11: -0.2165 S12: -0.3163 S13: 0.0455 REMARK 3 S21: 0.4467 S22: -0.0141 S23: -0.2676 REMARK 3 S31: 0.0473 S32: 0.5082 S33: 0.2319 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.8045 54.5718 2.9616 REMARK 3 T TENSOR REMARK 3 T11: 0.5322 T22: 0.6678 REMARK 3 T33: 0.5056 T12: 0.0946 REMARK 3 T13: 0.0185 T23: 0.1368 REMARK 3 L TENSOR REMARK 3 L11: 6.7216 L22: 2.8931 REMARK 3 L33: 3.7508 L12: -3.5267 REMARK 3 L13: 3.6804 L23: -3.0920 REMARK 3 S TENSOR REMARK 3 S11: 0.2442 S12: 1.5269 S13: 1.4275 REMARK 3 S21: -0.3872 S22: -0.4089 S23: -0.1705 REMARK 3 S31: -0.8079 S32: -0.0588 S33: 0.1225 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.8101 49.4388 7.1258 REMARK 3 T TENSOR REMARK 3 T11: 0.3428 T22: 0.4755 REMARK 3 T33: 0.3238 T12: -0.0277 REMARK 3 T13: -0.0120 T23: -0.0143 REMARK 3 L TENSOR REMARK 3 L11: 8.7298 L22: 4.5833 REMARK 3 L33: 6.0897 L12: 6.1478 REMARK 3 L13: 7.2047 L23: 5.1861 REMARK 3 S TENSOR REMARK 3 S11: -0.1733 S12: -0.1281 S13: -0.5801 REMARK 3 S21: -0.2086 S22: 0.2352 S23: 0.0473 REMARK 3 S31: -0.3003 S32: -0.6108 S33: -0.2837 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7849 52.3575 24.3066 REMARK 3 T TENSOR REMARK 3 T11: 0.4417 T22: 0.8011 REMARK 3 T33: 0.3683 T12: 0.0783 REMARK 3 T13: 0.0353 T23: 0.1515 REMARK 3 L TENSOR REMARK 3 L11: 6.1562 L22: 6.3107 REMARK 3 L33: 6.7217 L12: 1.7560 REMARK 3 L13: 6.3667 L23: 2.1449 REMARK 3 S TENSOR REMARK 3 S11: 0.6096 S12: 0.5937 S13: -0.4104 REMARK 3 S21: -0.0699 S22: -0.0305 S23: -0.0675 REMARK 3 S31: -0.4467 S32: -0.1253 S33: -0.2888 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 1 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.8793 37.4964 11.9315 REMARK 3 T TENSOR REMARK 3 T11: 0.3714 T22: 0.5339 REMARK 3 T33: 0.3895 T12: 0.0316 REMARK 3 T13: -0.1228 T23: 0.0126 REMARK 3 L TENSOR REMARK 3 L11: 7.0648 L22: 9.3952 REMARK 3 L33: 3.0483 L12: -6.1207 REMARK 3 L13: -3.9187 L23: 1.9435 REMARK 3 S TENSOR REMARK 3 S11: -0.2219 S12: 0.0525 S13: -0.4581 REMARK 3 S21: 0.5424 S22: 0.0236 S23: -0.1290 REMARK 3 S31: 0.0999 S32: -0.0455 S33: 0.1640 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'F' AND (RESID 1 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7269 32.7937 15.5504 REMARK 3 T TENSOR REMARK 3 T11: 0.3676 T22: 0.4660 REMARK 3 T33: 0.3677 T12: 0.0342 REMARK 3 T13: -0.1386 T23: 0.0595 REMARK 3 L TENSOR REMARK 3 L11: 2.2703 L22: 5.9722 REMARK 3 L33: 4.1531 L12: -0.7539 REMARK 3 L13: -0.2431 L23: -0.5260 REMARK 3 S TENSOR REMARK 3 S11: -0.2425 S12: 0.4478 S13: 0.3361 REMARK 3 S21: 0.1437 S22: 0.2182 S23: -0.1640 REMARK 3 S31: -0.0143 S32: 0.2840 S33: 0.0829 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 5VF1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-APR-17. REMARK 100 THE DEPOSITION ID IS D_1000227240. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-16 REMARK 200 TEMPERATURE (KELVIN) : 130 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14394 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 19.839 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.05179 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.7800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.14820 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.540 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: HEXAGONAL POINTED PRISM REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS AT PH 5.5, 0.2 M REMARK 280 AMMONIUM ACETATE, AND 45% V/V 2-METHYL-2,4-PENTANEDIOL, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 296K 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 9.98600 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 19.97200 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 14.97900 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 24.96500 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 4.99300 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 9.98600 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 19.97200 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 24.96500 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 14.97900 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 4.99300 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: 144-MERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -29.95800 REMARK 350 BIOMT1 3 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 9.98600 REMARK 350 BIOMT1 4 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 -19.97200 REMARK 350 BIOMT1 5 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 5 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 19.97200 REMARK 350 BIOMT1 6 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 -9.98600 REMARK 350 BIOMT1 7 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 14.97900 REMARK 350 BIOMT1 8 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 0.000000 1.000000 -14.97900 REMARK 350 BIOMT1 9 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 9 0.000000 0.000000 1.000000 24.96500 REMARK 350 BIOMT1 10 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 10 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 10 0.000000 0.000000 1.000000 -4.99300 REMARK 350 BIOMT1 11 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 11 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 11 0.000000 0.000000 1.000000 4.99300 REMARK 350 BIOMT1 12 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 12 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 12 0.000000 0.000000 1.000000 -24.96500 REMARK 350 BIOMT1 13 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 13 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 13 0.000000 0.000000 -1.000000 9.98600 REMARK 350 BIOMT1 14 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 14 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 14 0.000000 0.000000 -1.000000 39.94400 REMARK 350 BIOMT1 15 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 15 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 16 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 16 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 16 0.000000 0.000000 -1.000000 29.95800 REMARK 350 BIOMT1 17 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 17 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 17 0.000000 0.000000 -1.000000 19.97200 REMARK 350 BIOMT1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 18 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 18 0.000000 0.000000 -1.000000 49.93000 REMARK 350 BIOMT1 19 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 19 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 19 0.000000 0.000000 -1.000000 24.96500 REMARK 350 BIOMT1 20 0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 20 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 20 0.000000 0.000000 -1.000000 54.92300 REMARK 350 BIOMT1 21 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 21 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 21 0.000000 0.000000 -1.000000 14.97900 REMARK 350 BIOMT1 22 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 22 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 22 0.000000 0.000000 -1.000000 44.93700 REMARK 350 BIOMT1 23 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 23 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 23 0.000000 0.000000 -1.000000 4.99300 REMARK 350 BIOMT1 24 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 24 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 24 0.000000 0.000000 -1.000000 34.95100 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 B 108 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 107 LIES ON A SPECIAL POSITION. 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 HZ2 LYS D 16 O HOH D 102 1.49 REMARK 500 O LEU A 3 H2 ORN B 1 1.50 REMARK 500 OE2 GLU F 8 O HOH F 101 1.92 REMARK 500 O LEU D 3 O HOH D 101 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH E 103 O HOH F 102 6555 1.96 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 ORN D 1 CA - C - N ANGL. DEV. = -15.7 DEGREES REMARK 500 ORN E 1 CA - C - N ANGL. DEV. = -14.2 DEGREES REMARK 500 LYS E 2 C - N - CA ANGL. DEV. = 15.8 DEGREES 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 ORN C 1 LYS C 2 -139.75 REMARK 500 ORN F 1 LYS F 2 -136.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ORN C 1 16.63 REMARK 500 ORN D 1 18.38 REMARK 500 ORN E 1 17.73 REMARK 500 ORN F 1 15.53 REMARK 500 REMARK 500 REMARK: NULL DBREF 5VF1 A 1 16 PDB 5VF1 5VF1 1 16 DBREF 5VF1 B 1 16 PDB 5VF1 5VF1 1 16 DBREF 5VF1 C 1 16 PDB 5VF1 5VF1 1 16 DBREF 5VF1 D 1 16 PDB 5VF1 5VF1 1 16 DBREF 5VF1 E 1 16 PDB 5VF1 5VF1 1 16 DBREF 5VF1 F 1 16 PDB 5VF1 5VF1 1 16 SEQRES 1 A 16 ORN LYS LEU VAL PHI PHE ALA GLU ORN GLU ALA PHE MEA SEQRES 2 A 16 VAL LEU LYS SEQRES 1 B 16 ORN LYS LEU VAL PHI PHE ALA GLU ORN GLU ALA PHE MEA SEQRES 2 B 16 VAL LEU LYS SEQRES 1 C 16 ORN LYS LEU VAL PHI PHE ALA GLU ORN GLU ALA PHE MEA SEQRES 2 C 16 VAL LEU LYS SEQRES 1 D 16 ORN LYS LEU VAL PHI PHE ALA GLU ORN GLU ALA PHE MEA SEQRES 2 D 16 VAL LEU LYS SEQRES 1 E 16 ORN LYS LEU VAL PHI PHE ALA GLU ORN GLU ALA PHE MEA SEQRES 2 E 16 VAL LEU LYS SEQRES 1 F 16 ORN LYS LEU VAL PHI PHE ALA GLU ORN GLU ALA PHE MEA SEQRES 2 F 16 VAL LEU LYS HET ORN A 1 19 HET PHI A 5 20 HET ORN A 9 19 HET MEA A 13 23 HET ORN B 1 19 HET PHI B 5 20 HET ORN B 9 19 HET MEA B 13 23 HET ORN C 1 19 HET PHI C 5 20 HET ORN C 9 19 HET MEA C 13 23 HET ORN D 1 19 HET PHI D 5 20 HET ORN D 9 19 HET MEA D 13 23 HET ORN E 1 19 HET PHI E 5 20 HET ORN E 9 19 HET MEA E 13 23 HET ORN F 1 19 HET PHI F 5 20 HET ORN F 9 19 HET MEA F 13 23 HETNAM ORN L-ORNITHINE HETNAM PHI IODO-PHENYLALANINE HETNAM MEA N-METHYLPHENYLALANINE FORMUL 1 ORN 12(C5 H12 N2 O2) FORMUL 1 PHI 6(C9 H10 I N O2) FORMUL 1 MEA 6(C10 H13 N O2) FORMUL 7 HOH *37(H2 O) SHEET 1 AA1 4 LYS A 2 ALA A 7 0 SHEET 2 AA1 4 ALA A 11 LYS A 16 -1 O VAL A 14 N VAL A 4 SHEET 3 AA1 4 ALA D 11 LYS D 16 -1 O MEA D 13 N LEU A 15 SHEET 4 AA1 4 LYS D 2 ALA D 7 -1 N VAL D 4 O VAL D 14 SHEET 1 AA2 4 LYS B 2 ALA B 7 0 SHEET 2 AA2 4 ALA B 11 LYS B 16 -1 O LYS B 16 N LYS B 2 SHEET 3 AA2 4 ALA C 11 LYS C 16 -1 O LEU C 15 N MEA B 13 SHEET 4 AA2 4 LYS C 2 ALA C 7 -1 N VAL C 4 O VAL C 14 SHEET 1 AA3 4 LYS E 2 ALA E 7 0 SHEET 2 AA3 4 ALA E 11 LYS E 16 -1 O PHE E 12 N PHE E 6 SHEET 3 AA3 4 ALA F 11 LYS F 16 -1 O LEU F 15 N LEU E 15 SHEET 4 AA3 4 LYS F 2 ALA F 7 -1 N PHE F 6 O PHE F 12 LINK NE ORN A 1 C LYS A 16 1555 1555 1.37 LINK C ORN A 1 N LYS A 2 1555 1555 1.33 LINK C VAL A 4 N PHI A 5 1555 1555 1.32 LINK C PHI A 5 N PHE A 6 1555 1555 1.32 LINK C GLU A 8 NE ORN A 9 1555 1555 1.38 LINK C ORN A 9 N GLU A 10 1555 1555 1.38 LINK C PHE A 12 N MEA A 13 1555 1555 1.34 LINK C MEA A 13 N VAL A 14 1555 1555 1.33 LINK NE ORN B 1 C LYS B 16 1555 1555 1.38 LINK C ORN B 1 N LYS B 2 1555 1555 1.33 LINK C VAL B 4 N PHI B 5 1555 1555 1.33 LINK C PHI B 5 N PHE B 6 1555 1555 1.32 LINK C GLU B 8 NE ORN B 9 1555 1555 1.38 LINK C ORN B 9 N GLU B 10 1555 1555 1.37 LINK C PHE B 12 N MEA B 13 1555 1555 1.34 LINK C MEA B 13 N VAL B 14 1555 1555 1.33 LINK NE ORN C 1 C LYS C 16 1555 1555 1.38 LINK C ORN C 1 N LYS C 2 1555 1555 1.33 LINK C VAL C 4 N PHI C 5 1555 1555 1.32 LINK C PHI C 5 N PHE C 6 1555 1555 1.33 LINK C GLU C 8 NE ORN C 9 1555 1555 1.37 LINK C ORN C 9 N GLU C 10 1555 1555 1.37 LINK C PHE C 12 N MEA C 13 1555 1555 1.34 LINK C MEA C 13 N VAL C 14 1555 1555 1.33 LINK NE ORN D 1 C LYS D 16 1555 1555 1.37 LINK C ORN D 1 N LYS D 2 1555 1555 1.33 LINK C VAL D 4 N PHI D 5 1555 1555 1.33 LINK C PHI D 5 N PHE D 6 1555 1555 1.33 LINK C GLU D 8 NE ORN D 9 1555 1555 1.38 LINK C ORN D 9 N GLU D 10 1555 1555 1.37 LINK C PHE D 12 N MEA D 13 1555 1555 1.34 LINK C MEA D 13 N VAL D 14 1555 1555 1.33 LINK NE ORN E 1 C LYS E 16 1555 1555 1.38 LINK C ORN E 1 N LYS E 2 1555 1555 1.33 LINK C VAL E 4 N PHI E 5 1555 1555 1.33 LINK C PHI E 5 N PHE E 6 1555 1555 1.33 LINK C GLU E 8 NE ORN E 9 1555 1555 1.38 LINK C ORN E 9 N GLU E 10 1555 1555 1.37 LINK C PHE E 12 N MEA E 13 1555 1555 1.33 LINK C MEA E 13 N VAL E 14 1555 1555 1.32 LINK NE ORN F 1 C LYS F 16 1555 1555 1.38 LINK C ORN F 1 N LYS F 2 1555 1555 1.33 LINK C VAL F 4 N PHI F 5 1555 1555 1.33 LINK C PHI F 5 N PHE F 6 1555 1555 1.33 LINK C GLU F 8 NE ORN F 9 1555 1555 1.37 LINK C ORN F 9 N GLU F 10 1555 1555 1.37 LINK C PHE F 12 N MEA F 13 1555 1555 1.33 LINK C MEA F 13 N VAL F 14 1555 1555 1.33 CRYST1 121.220 121.220 29.958 90.00 90.00 120.00 P 61 2 2 72 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 0.008249 0.004763 0.000000 0.00000 SCALE2 0.000000 0.009526 0.000000 0.00000 SCALE3 0.000000 0.000000 0.033381 0.00000 HETATM 1 N ORN A 1 21.227 53.727 9.174 1.00 48.57 N ANISOU 1 N ORN A 1 5231 6843 6381 -563 -475 1599 N HETATM 2 CA ORN A 1 22.070 52.768 9.870 1.00 45.44 C ANISOU 2 CA ORN A 1 4694 6627 5943 -455 -383 1570 C HETATM 3 CB ORN A 1 22.747 53.424 11.042 1.00 55.85 C ANISOU 3 CB ORN A 1 5879 7853 7487 -681 -640 1612 C HETATM 4 CG ORN A 1 21.815 54.083 12.070 1.00 46.74 C ANISOU 4 CG ORN A 1 5019 6336 6406 -756 -888 1321 C HETATM 5 CD ORN A 1 22.702 54.777 13.143 1.00 44.55 C ANISOU 5 CD ORN A 1 4708 5936 6285 -1015 -1217 1378 C HETATM 6 NE ORN A 1 22.567 54.114 14.429 1.00 37.69 N ANISOU 6 NE ORN A 1 3988 5030 5304 -889 -1276 1117 N HETATM 7 C ORN A 1 21.223 51.487 10.286 1.00 34.10 C ANISOU 7 C ORN A 1 3488 5140 4329 -220 -300 1247 C HETATM 8 O ORN A 1 20.492 50.978 9.438 1.00 34.68 O ANISOU 8 O ORN A 1 3752 5199 4224 -105 -213 1178 O HETATM 9 H1 ORN A 1 21.758 54.424 8.646 1.00 58.29 H HETATM 10 H2 ORN A 1 20.622 54.264 9.800 1.00 58.29 H HETATM 11 H3 ORN A 1 20.598 53.294 8.493 1.00 58.29 H HETATM 12 HA ORN A 1 22.800 52.430 9.129 1.00 54.52 H HETATM 13 HB2 ORN A 1 23.335 52.661 11.572 1.00 67.02 H HETATM 14 HB3 ORN A 1 23.414 54.209 10.659 1.00 67.02 H HETATM 15 HG2 ORN A 1 21.197 53.314 12.548 1.00 56.09 H HETATM 16 HG3 ORN A 1 21.175 54.823 11.577 1.00 56.09 H HETATM 17 HD2 ORN A 1 23.747 54.715 12.827 1.00 53.47 H HETATM 18 HD3 ORN A 1 22.388 55.820 13.243 1.00 53.47 H HETATM 19 HE1 ORN A 1 22.315 54.711 15.214 1.00 45.23 H