HEADER VIRAL PROTEIN 05-JAN-16 5HD9 TITLE CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF THE DNA PACKAGING ATPASE TITLE 2 FROM BACTERIOPHAGE PHI29 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENCAPSIDATION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN (UNP RESIDUES 4-197); COMPND 5 SYNONYM: LATE PROTEIN GP16; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS PHAGE PHI29; SOURCE 3 ORGANISM_TAXID: 10756; SOURCE 4 GENE: 16, GP16; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ASCE FOLD, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.C.MORAIS,H.MAO,E.REYES-ALDRETE REVDAT 6 16-OCT-24 5HD9 1 REMARK REVDAT 5 25-DEC-19 5HD9 1 REMARK REVDAT 4 22-NOV-17 5HD9 1 REMARK REVDAT 3 13-SEP-17 5HD9 1 REMARK REVDAT 2 16-MAR-16 5HD9 1 JRNL REVDAT 1 09-MAR-16 5HD9 0 JRNL AUTH H.MAO,M.SAHA,E.REYES-ALDRETE,M.B.SHERMAN,M.WOODSON,R.ATZ, JRNL AUTH 2 S.GRIMES,P.J.JARDINE,M.C.MORAIS JRNL TITL STRUCTURAL AND MOLECULAR BASIS FOR COORDINATION IN A VIRAL JRNL TITL 2 DNA PACKAGING MOTOR. JRNL REF CELL REP V. 14 2017 2016 JRNL REFN ESSN 2211-1247 JRNL PMID 26904950 JRNL DOI 10.1016/J.CELREP.2016.01.058 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 12941 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1294 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 35.6123 - 4.0365 0.97 1396 157 0.1671 0.1951 REMARK 3 2 4.0365 - 3.2045 0.99 1338 149 0.1507 0.1684 REMARK 3 3 3.2045 - 2.7997 0.99 1313 146 0.1746 0.2175 REMARK 3 4 2.7997 - 2.5438 1.00 1312 145 0.1895 0.2207 REMARK 3 5 2.5438 - 2.3615 1.00 1288 143 0.1912 0.2469 REMARK 3 6 2.3615 - 2.2223 0.99 1303 145 0.1724 0.2144 REMARK 3 7 2.2223 - 2.1110 0.98 1271 140 0.1711 0.2339 REMARK 3 8 2.1110 - 2.0191 0.97 1260 139 0.1827 0.2400 REMARK 3 9 2.0191 - 1.9414 0.92 1166 130 0.1982 0.2500 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.19 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 : 0.004 1648 REMARK 3 ANGLE : 0.942 2234 REMARK 3 CHIRALITY : 0.037 237 REMARK 3 PLANARITY : 0.004 290 REMARK 3 DIHEDRAL : 13.844 611 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 4 THROUGH 28 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4460 14.6241 14.7197 REMARK 3 T TENSOR REMARK 3 T11: 0.1416 T22: 0.1379 REMARK 3 T33: 0.1411 T12: 0.0067 REMARK 3 T13: -0.0139 T23: 0.0460 REMARK 3 L TENSOR REMARK 3 L11: 7.0820 L22: 2.1840 REMARK 3 L33: 3.2480 L12: 0.9580 REMARK 3 L13: 2.3838 L23: -0.0451 REMARK 3 S TENSOR REMARK 3 S11: -0.1472 S12: -0.0157 S13: 0.0616 REMARK 3 S21: 0.0641 S22: 0.0543 S23: -0.2161 REMARK 3 S31: 0.1446 S32: 0.3792 S33: 0.0594 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 29 THROUGH 45 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.9515 10.2554 26.2028 REMARK 3 T TENSOR REMARK 3 T11: 0.0965 T22: 0.1120 REMARK 3 T33: 0.1879 T12: -0.0145 REMARK 3 T13: -0.0199 T23: 0.0069 REMARK 3 L TENSOR REMARK 3 L11: 6.3953 L22: 2.1150 REMARK 3 L33: 3.1866 L12: -2.1399 REMARK 3 L13: -4.3322 L23: 1.8958 REMARK 3 S TENSOR REMARK 3 S11: 0.0306 S12: -0.0340 S13: 0.1599 REMARK 3 S21: -0.1708 S22: -0.0323 S23: -0.0272 REMARK 3 S31: -0.2648 S32: 0.2063 S33: 0.0360 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 46 THROUGH 66 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.0511 -2.2990 21.5591 REMARK 3 T TENSOR REMARK 3 T11: 0.1274 T22: 0.0902 REMARK 3 T33: 0.1596 T12: 0.0018 REMARK 3 T13: 0.0480 T23: 0.0283 REMARK 3 L TENSOR REMARK 3 L11: 1.3773 L22: 3.1257 REMARK 3 L33: 3.8849 L12: 0.3027 REMARK 3 L13: 0.5021 L23: 0.7575 REMARK 3 S TENSOR REMARK 3 S11: -0.0598 S12: 0.0316 S13: -0.2219 REMARK 3 S21: -0.3606 S22: 0.0682 S23: -0.2725 REMARK 3 S31: 0.3336 S32: 0.2439 S33: -0.0143 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 67 THROUGH 89 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.1406 0.7817 32.0649 REMARK 3 T TENSOR REMARK 3 T11: 0.1066 T22: 0.2095 REMARK 3 T33: 0.1944 T12: -0.0122 REMARK 3 T13: 0.0120 T23: 0.0361 REMARK 3 L TENSOR REMARK 3 L11: 3.9410 L22: 3.8359 REMARK 3 L33: 3.4922 L12: 0.9447 REMARK 3 L13: -0.3008 L23: -0.0476 REMARK 3 S TENSOR REMARK 3 S11: -0.0620 S12: -0.2497 S13: -0.3020 REMARK 3 S21: -0.0330 S22: -0.0014 S23: -0.4683 REMARK 3 S31: 0.0469 S32: 0.5826 S33: -0.0032 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 90 THROUGH 156 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.3967 2.6746 18.5091 REMARK 3 T TENSOR REMARK 3 T11: 0.1350 T22: 0.1309 REMARK 3 T33: 0.1459 T12: -0.0257 REMARK 3 T13: -0.0173 T23: 0.0047 REMARK 3 L TENSOR REMARK 3 L11: 3.7304 L22: 2.4272 REMARK 3 L33: 3.7026 L12: 0.6060 REMARK 3 L13: 0.3708 L23: -1.1839 REMARK 3 S TENSOR REMARK 3 S11: -0.0372 S12: 0.1489 S13: -0.1154 REMARK 3 S21: -0.2760 S22: 0.1553 S23: 0.1196 REMARK 3 S31: 0.3302 S32: -0.2210 S33: -0.0787 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 157 THROUGH 170 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.5843 6.6472 4.3422 REMARK 3 T TENSOR REMARK 3 T11: 0.2252 T22: 0.2176 REMARK 3 T33: 0.1036 T12: -0.0282 REMARK 3 T13: 0.0051 T23: 0.0365 REMARK 3 L TENSOR REMARK 3 L11: 7.9680 L22: 4.9491 REMARK 3 L33: 6.0188 L12: -2.7932 REMARK 3 L13: 0.9466 L23: -1.0284 REMARK 3 S TENSOR REMARK 3 S11: 0.0860 S12: 0.8438 S13: 0.1870 REMARK 3 S21: -0.6040 S22: -0.1203 S23: -0.1271 REMARK 3 S31: 0.4907 S32: -0.0492 S33: -0.0454 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 171 THROUGH 197 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.6562 16.8028 6.0792 REMARK 3 T TENSOR REMARK 3 T11: 0.1674 T22: 0.1497 REMARK 3 T33: 0.1693 T12: -0.0443 REMARK 3 T13: -0.0341 T23: 0.0301 REMARK 3 L TENSOR REMARK 3 L11: 8.7090 L22: 2.8827 REMARK 3 L33: 2.1710 L12: 0.1580 REMARK 3 L13: -0.5697 L23: 0.1402 REMARK 3 S TENSOR REMARK 3 S11: -0.3146 S12: -0.0404 S13: 0.0194 REMARK 3 S21: -0.0678 S22: 0.1373 S23: -0.1575 REMARK 3 S31: -0.2258 S32: 0.3734 S33: 0.1714 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 5HD9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000216554. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CAMD REMARK 200 BEAMLINE : GCPCC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97941 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000, PRECOGNITION REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12985 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 35.606 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.8 M SODIUM ACETATE TRIHYDRATE, PH REMARK 280 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K 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 16.55150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.50850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.41750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.50850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 16.55150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 18.41750 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 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 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 ALA A 25 HD21 ASN A 158 1.47 REMARK 500 HZ2 LYS A 90 O HOH A 217 1.57 REMARK 500 O HOH A 344 O HOH A 360 1.91 REMARK 500 O ASP A 142 O HOH A 201 2.07 REMARK 500 O HOH A 212 O HOH A 345 2.08 REMARK 500 O SER A 106 O HOH A 202 2.11 REMARK 500 O HOH A 205 O HOH A 241 2.15 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 OH TYR A 32 O HOH A 201 1655 2.14 REMARK 500 O HOH A 253 O HOH A 351 3545 2.15 REMARK 500 O HOH A 285 O HOH A 343 3545 2.17 REMARK 500 O HOH A 220 O HOH A 269 4555 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 ILE A 28 -70.28 152.75 REMARK 500 ASN A 111 51.12 -148.26 REMARK 500 VAL A 160 50.29 -146.52 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 LYS A 124 ASP A 125 -148.49 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 A 367 DISTANCE = 5.91 ANGSTROMS DBREF 5HD9 A 4 197 UNP P11014 VG16_BPPH2 4 197 SEQRES 1 A 194 SER LEU PHE TYR ASN PRO GLN LYS MSE LEU SER TYR ASP SEQRES 2 A 194 ARG ILE LEU ASN PHE VAL ILE GLY ALA ARG GLY ILE GLY SEQRES 3 A 194 LYS SER TYR ALA MSE LYS VAL TYR PRO ILE ASN ARG PHE SEQRES 4 A 194 ILE LYS TYR GLY GLU GLN PHE ILE TYR VAL ARG ARG TYR SEQRES 5 A 194 LYS PRO GLU LEU ALA LYS VAL SER ASN TYR PHE ASN ASP SEQRES 6 A 194 VAL ALA GLN GLU PHE PRO ASP HIS GLU LEU VAL VAL LYS SEQRES 7 A 194 GLY ARG ARG PHE TYR ILE ASP GLY LYS LEU ALA GLY TRP SEQRES 8 A 194 ALA ILE PRO LEU SER VAL TRP GLN SER GLU LYS SER ASN SEQRES 9 A 194 ALA TYR PRO ASN VAL SER THR ILE VAL PHE ASP GLU PHE SEQRES 10 A 194 ILE ARG GLU LYS ASP ASN SER ASN TYR ILE PRO ASN GLU SEQRES 11 A 194 VAL SER ALA LEU LEU ASN LEU MSE ASP THR VAL PHE ARG SEQRES 12 A 194 ASN ARG GLU ARG VAL ARG CYS ILE CYS LEU SER ASN ALA SEQRES 13 A 194 VAL SER VAL VAL ASN PRO TYR PHE LEU PHE PHE ASN LEU SEQRES 14 A 194 VAL PRO ASP VAL ASN LYS ARG PHE ASN VAL TYR ASP ASP SEQRES 15 A 194 ALA LEU ILE GLU ILE PRO ASP SER LEU ASP PHE SER MODRES 5HD9 MSE A 12 MET MODIFIED RESIDUE MODRES 5HD9 MSE A 34 MET MODIFIED RESIDUE MODRES 5HD9 MSE A 141 MET MODIFIED RESIDUE HET MSE A 12 17 HET MSE A 34 17 HET MSE A 141 17 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 3(C5 H11 N O2 SE) FORMUL 2 HOH *167(H2 O) HELIX 1 AA1 PRO A 9 TYR A 15 1 7 HELIX 2 AA2 ILE A 28 GLY A 46 1 19 HELIX 3 AA3 TYR A 55 ALA A 60 5 6 HELIX 4 AA4 LYS A 61 PHE A 73 5 13 HELIX 5 AA5 VAL A 100 LYS A 105 1 6 HELIX 6 AA6 ASN A 132 PHE A 145 1 14 HELIX 7 AA7 ASN A 164 ASN A 171 1 8 SHEET 1 AA1 9 LEU A 78 LYS A 81 0 SHEET 2 AA1 9 ARG A 84 ILE A 87 -1 O TYR A 86 N VAL A 79 SHEET 3 AA1 9 LYS A 90 PRO A 97 -1 O GLY A 93 N PHE A 85 SHEET 4 AA1 9 GLN A 48 ARG A 53 1 N TYR A 51 O TRP A 94 SHEET 5 AA1 9 VAL A 112 ASP A 118 1 O VAL A 116 N VAL A 52 SHEET 6 AA1 9 ARG A 152 LEU A 156 1 O ILE A 154 N ILE A 115 SHEET 7 AA1 9 LEU A 19 VAL A 22 1 N ASN A 20 O CYS A 155 SHEET 8 AA1 9 ALA A 186 GLU A 189 1 O LEU A 187 N PHE A 21 SHEET 9 AA1 9 PHE A 180 VAL A 182 -1 N ASN A 181 O ILE A 188 LINK C LYS A 11 N MSE A 12 1555 1555 1.33 LINK C MSE A 12 N LEU A 13 1555 1555 1.33 LINK C ALA A 33 N MSE A 34 1555 1555 1.33 LINK C MSE A 34 N LYS A 35 1555 1555 1.33 LINK C LEU A 140 N MSE A 141 1555 1555 1.33 LINK C MSE A 141 N ASP A 142 1555 1555 1.33 CISPEP 1 GLU A 123 LYS A 124 0 -18.88 CRYST1 33.103 36.835 139.017 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 0.030209 0.000000 0.000000 0.00000 SCALE2 0.000000 0.027148 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007193 0.00000