HEADER REPLICATION/RNA 06-APR-00 1EQQ TITLE SINGLE STRANDED DNA BINDING PROTEIN AND SSDNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*(5MU)P*(5MU)P*(5MU))-3'; COMPND 3 CHAIN: M, N; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: SINGLE STRANDED DNA BINDING PROTEIN; COMPND 7 CHAIN: A, B, C, D; COMPND 8 SYNONYM: SSB, HELIX-DESTABILIZING PROTEIN; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 5 ORGANISM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BETA BARREL, PROTEIN-DNA COMPLEX, REPLICATION-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.MATSUMOTO,Y.MORIMOTO,N.SHIBATA,N.YASUOKA,N.SHIMAMOTO REVDAT 5 07-FEB-24 1EQQ 1 LINK REVDAT 4 04-APR-18 1EQQ 1 REMARK REVDAT 3 24-FEB-09 1EQQ 1 VERSN REVDAT 2 30-SEP-03 1EQQ 3 CRYST1 SCALE1 SCALE2 SCALE3 REVDAT 2 2 3 REMARK REVDAT 1 23-SEP-03 1EQQ 0 JRNL AUTH T.MATSUMOTO,Y.MORIMOTO,N.SHIBATA,T.KINEBUCHI,N.SHIMAMOTO, JRNL AUTH 2 T.TSUKIHARA,N.YASUOKA JRNL TITL ROLES OF FUNCTIONAL LOOPS AND THE C-TERMINAL SEGMENT OF A JRNL TITL 2 SINGLE-STRANDED DNA BINDING PROTEIN ELUCIDATED BY X-RAY JRNL TITL 3 STRUCTURE ANALYSIS JRNL REF J.BIOCHEM.(TOKYO) V. 127 329 2000 JRNL REFN ISSN 0021-924X JRNL PMID 10731701 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 82.5 REMARK 3 NUMBER OF REFLECTIONS : 7284 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.339 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 360 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3593 REMARK 3 NUCLEIC ACID ATOMS : 78 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 66 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 15.39600 REMARK 3 B22 (A**2) : -19.67200 REMARK 3 B33 (A**2) : 4.27600 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.49000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.176 REMARK 3 BOND ANGLES (DEGREES) : 3.160 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1EQQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-APR-00. REMARK 100 THE DEPOSITION ID IS D_1000010827. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-99 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 10 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.7000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.0000 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: NULL REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, PH 9.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP AT 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 50.85700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.23650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 50.85700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.23650 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: M, N, A, B, C, D 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 5MU N 901 REMARK 465 5MU N 902 REMARK 465 MET A 0 REMARK 465 ARG A 115 REMARK 465 GLN A 116 REMARK 465 GLY A 117 REMARK 465 GLY A 118 REMARK 465 GLY A 119 REMARK 465 ALA A 120 REMARK 465 PRO A 121 REMARK 465 ALA A 122 REMARK 465 GLY A 123 REMARK 465 GLY A 124 REMARK 465 ASN A 125 REMARK 465 ILE A 126 REMARK 465 GLY A 127 REMARK 465 GLY A 128 REMARK 465 GLY A 129 REMARK 465 GLN A 130 REMARK 465 PRO A 131 REMARK 465 GLN A 132 REMARK 465 GLY A 133 REMARK 465 GLY A 134 REMARK 465 TRP A 135 REMARK 465 GLY A 136 REMARK 465 GLN A 137 REMARK 465 PRO A 138 REMARK 465 GLN A 139 REMARK 465 GLN A 140 REMARK 465 PRO A 141 REMARK 465 GLN A 142 REMARK 465 GLY A 143 REMARK 465 GLY A 144 REMARK 465 ASN A 145 REMARK 465 GLN A 146 REMARK 465 PHE A 147 REMARK 465 SER A 148 REMARK 465 GLY A 149 REMARK 465 GLY A 150 REMARK 465 ALA A 151 REMARK 465 GLN A 152 REMARK 465 SER A 153 REMARK 465 ARG A 154 REMARK 465 PRO A 155 REMARK 465 GLN A 156 REMARK 465 GLN A 157 REMARK 465 SER A 158 REMARK 465 ALA A 159 REMARK 465 PRO A 160 REMARK 465 ALA A 161 REMARK 465 ALA A 162 REMARK 465 PRO A 163 REMARK 465 SER A 164 REMARK 465 ASN A 165 REMARK 465 GLU A 166 REMARK 465 PRO A 167 REMARK 465 PRO A 168 REMARK 465 MET A 169 REMARK 465 ASP A 170 REMARK 465 PHE A 171 REMARK 465 ASP A 172 REMARK 465 ASP A 173 REMARK 465 ASP A 174 REMARK 465 ILE A 175 REMARK 465 PRO A 176 REMARK 465 PHE A 177 REMARK 465 MET B 200 REMARK 465 PRO B 321 REMARK 465 ALA B 322 REMARK 465 GLY B 323 REMARK 465 GLY B 324 REMARK 465 ASN B 325 REMARK 465 ILE B 326 REMARK 465 GLY B 327 REMARK 465 GLY B 328 REMARK 465 GLY B 329 REMARK 465 GLN B 330 REMARK 465 PRO B 331 REMARK 465 GLN B 332 REMARK 465 GLY B 333 REMARK 465 GLY B 334 REMARK 465 TRP B 335 REMARK 465 GLY B 336 REMARK 465 GLN B 337 REMARK 465 PRO B 338 REMARK 465 GLN B 339 REMARK 465 GLN B 340 REMARK 465 PRO B 341 REMARK 465 GLN B 342 REMARK 465 GLY B 343 REMARK 465 GLY B 344 REMARK 465 ASN B 345 REMARK 465 GLN B 346 REMARK 465 PHE B 347 REMARK 465 SER B 348 REMARK 465 GLY B 349 REMARK 465 GLY B 350 REMARK 465 ALA B 351 REMARK 465 GLN B 352 REMARK 465 SER B 353 REMARK 465 ARG B 354 REMARK 465 PRO B 355 REMARK 465 GLN B 356 REMARK 465 GLN B 357 REMARK 465 SER B 358 REMARK 465 ALA B 359 REMARK 465 PRO B 360 REMARK 465 ALA B 361 REMARK 465 ALA B 362 REMARK 465 PRO B 363 REMARK 465 SER B 364 REMARK 465 ASN B 365 REMARK 465 GLU B 366 REMARK 465 PRO B 367 REMARK 465 PRO B 368 REMARK 465 MET B 369 REMARK 465 ASP B 370 REMARK 465 PHE B 371 REMARK 465 ASP B 372 REMARK 465 ASP B 373 REMARK 465 ASP B 374 REMARK 465 ILE B 375 REMARK 465 PRO B 376 REMARK 465 PHE B 377 REMARK 465 MET C 400 REMARK 465 ARG C 515 REMARK 465 GLN C 516 REMARK 465 GLY C 517 REMARK 465 GLY C 518 REMARK 465 GLY C 519 REMARK 465 ALA C 520 REMARK 465 PRO C 521 REMARK 465 ALA C 522 REMARK 465 GLY C 523 REMARK 465 GLY C 524 REMARK 465 ASN C 525 REMARK 465 ILE C 526 REMARK 465 GLY C 527 REMARK 465 GLY C 528 REMARK 465 GLY C 529 REMARK 465 GLN C 530 REMARK 465 PRO C 531 REMARK 465 GLN C 532 REMARK 465 GLY C 533 REMARK 465 GLY C 534 REMARK 465 TRP C 535 REMARK 465 GLY C 536 REMARK 465 GLN C 537 REMARK 465 PRO C 538 REMARK 465 GLN C 539 REMARK 465 GLN C 540 REMARK 465 PRO C 541 REMARK 465 GLN C 542 REMARK 465 GLY C 543 REMARK 465 GLY C 544 REMARK 465 ASN C 545 REMARK 465 GLN C 546 REMARK 465 PHE C 547 REMARK 465 SER C 548 REMARK 465 GLY C 549 REMARK 465 GLY C 550 REMARK 465 ALA C 551 REMARK 465 GLN C 552 REMARK 465 SER C 553 REMARK 465 ARG C 554 REMARK 465 PRO C 555 REMARK 465 GLN C 556 REMARK 465 GLN C 557 REMARK 465 SER C 558 REMARK 465 ALA C 559 REMARK 465 PRO C 560 REMARK 465 ALA C 561 REMARK 465 ALA C 562 REMARK 465 PRO C 563 REMARK 465 SER C 564 REMARK 465 ASN C 565 REMARK 465 GLU C 566 REMARK 465 PRO C 567 REMARK 465 PRO C 568 REMARK 465 MET C 569 REMARK 465 ASP C 570 REMARK 465 PHE C 571 REMARK 465 ASP C 572 REMARK 465 ASP C 573 REMARK 465 ASP C 574 REMARK 465 ILE C 575 REMARK 465 PRO C 576 REMARK 465 PHE C 577 REMARK 465 MET D 600 REMARK 465 GLY D 717 REMARK 465 GLY D 718 REMARK 465 GLY D 719 REMARK 465 ALA D 720 REMARK 465 PRO D 721 REMARK 465 ALA D 722 REMARK 465 GLY D 723 REMARK 465 GLY D 724 REMARK 465 ASN D 725 REMARK 465 ILE D 726 REMARK 465 GLY D 727 REMARK 465 GLY D 728 REMARK 465 GLY D 729 REMARK 465 GLN D 730 REMARK 465 PRO D 731 REMARK 465 GLN D 732 REMARK 465 GLY D 733 REMARK 465 GLY D 734 REMARK 465 TRP D 735 REMARK 465 GLY D 736 REMARK 465 GLN D 737 REMARK 465 PRO D 738 REMARK 465 GLN D 739 REMARK 465 GLN D 740 REMARK 465 PRO D 741 REMARK 465 GLN D 742 REMARK 465 GLY D 743 REMARK 465 GLY D 744 REMARK 465 ASN D 745 REMARK 465 GLN D 746 REMARK 465 PHE D 747 REMARK 465 SER D 748 REMARK 465 GLY D 749 REMARK 465 GLY D 750 REMARK 465 ALA D 751 REMARK 465 GLN D 752 REMARK 465 SER D 753 REMARK 465 ARG D 754 REMARK 465 PRO D 755 REMARK 465 GLN D 756 REMARK 465 GLN D 757 REMARK 465 SER D 758 REMARK 465 ALA D 759 REMARK 465 PRO D 760 REMARK 465 ALA D 761 REMARK 465 ALA D 762 REMARK 465 PRO D 763 REMARK 465 SER D 764 REMARK 465 ASN D 765 REMARK 465 GLU D 766 REMARK 465 PRO D 767 REMARK 465 PRO D 768 REMARK 465 MET D 769 REMARK 465 ASP D 770 REMARK 465 PHE D 771 REMARK 465 ASP D 772 REMARK 465 ASP D 773 REMARK 465 ASP D 774 REMARK 465 ILE D 775 REMARK 465 PRO D 776 REMARK 465 PHE D 777 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 GLU B 253 O HOH B 1540 2.16 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 ARG A 56 CD - NE - CZ ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG A 56 NE - CZ - NH1 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 56 NE - CZ - NH2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG B 256 CD - NE - CZ ANGL. DEV. = 9.6 DEGREES REMARK 500 ARG B 256 NE - CZ - NH1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG B 256 NE - CZ - NH2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG C 456 CD - NE - CZ ANGL. DEV. = 9.7 DEGREES REMARK 500 ARG C 456 NE - CZ - NH1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG C 456 NE - CZ - NH2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG D 656 CD - NE - CZ ANGL. DEV. = 9.9 DEGREES REMARK 500 ARG D 656 NE - CZ - NH1 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG D 656 NE - CZ - NH2 ANGL. DEV. = 6.4 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 SER A 2 27.28 163.70 REMARK 500 ARG A 3 -87.52 -121.76 REMARK 500 ARG A 21 156.68 166.98 REMARK 500 ASN A 25 -13.84 69.37 REMARK 500 TRP A 40 56.11 -174.37 REMARK 500 ASP A 42 129.40 139.44 REMARK 500 LYS A 43 101.11 51.33 REMARK 500 ALA A 44 -119.63 -163.35 REMARK 500 THR A 45 -23.76 -162.49 REMARK 500 MET A 48 154.35 64.27 REMARK 500 LYS A 49 58.89 -179.72 REMARK 500 ASP A 90 -161.73 -67.03 REMARK 500 GLN A 91 34.74 -70.34 REMARK 500 SER A 92 -81.48 170.68 REMARK 500 ASN A 104 -68.89 59.53 REMARK 500 VAL A 105 -15.41 -46.84 REMARK 500 MET A 111 -167.03 -110.51 REMARK 500 ARG B 203 -116.63 -146.42 REMARK 500 ALA B 228 132.22 -18.06 REMARK 500 TRP B 240 145.12 169.35 REMARK 500 GLU B 250 103.45 -170.85 REMARK 500 ASP B 290 -160.51 -66.84 REMARK 500 GLN B 291 35.27 -71.82 REMARK 500 SER B 292 -79.43 170.59 REMARK 500 ASN B 304 -68.15 60.56 REMARK 500 VAL B 305 -15.93 -47.50 REMARK 500 ARG B 315 88.15 64.20 REMARK 500 GLN B 316 -166.62 -124.27 REMARK 500 SER C 402 29.62 -170.67 REMARK 500 ARG C 403 -127.56 -151.03 REMARK 500 GLN C 416 163.31 170.21 REMARK 500 ASP C 417 145.60 -33.69 REMARK 500 MET C 423 151.59 -37.68 REMARK 500 PRO C 424 -56.41 -16.27 REMARK 500 TRP C 440 152.16 169.40 REMARK 500 LYS C 443 3.31 -50.71 REMARK 500 ALA C 444 -58.12 -144.98 REMARK 500 MET C 448 55.90 -93.27 REMARK 500 ASP C 490 -161.63 -67.83 REMARK 500 GLN C 491 35.54 -71.02 REMARK 500 SER C 492 -80.66 170.28 REMARK 500 ASN C 504 -68.66 59.78 REMARK 500 VAL C 505 -13.53 -47.85 REMARK 500 LEU C 512 -91.03 176.99 REMARK 500 ARG D 603 -36.28 -133.30 REMARK 500 PRO D 618 -163.60 -44.05 REMARK 500 GLU D 619 88.54 -165.78 REMARK 500 ASN D 625 -32.81 -38.43 REMARK 500 ASP D 642 -149.31 -153.52 REMARK 500 LYS D 643 -6.28 -162.20 REMARK 500 REMARK 500 THIS ENTRY HAS 59 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QVC RELATED DB: PDB DBREF 1EQQ A 1 177 UNP P02339 SSB_ECOLI 1 177 DBREF 1EQQ B 201 377 UNP P02339 SSB_ECOLI 1 177 DBREF 1EQQ C 401 577 UNP P02339 SSB_ECOLI 1 177 DBREF 1EQQ D 601 777 UNP P02339 SSB_ECOLI 1 177 DBREF 1EQQ M 801 803 PDB 1EQQ 1EQQ 801 803 DBREF 1EQQ N 900 902 PDB 1EQQ 1EQQ 900 902 SEQRES 1 M 3 5MU 5MU 5MU SEQRES 1 N 3 5MU 5MU 5MU SEQRES 1 A 178 MET ALA SER ARG GLY VAL ASN LYS VAL ILE LEU VAL GLY SEQRES 2 A 178 ASN LEU GLY GLN ASP PRO GLU VAL ARG TYR MET PRO ASN SEQRES 3 A 178 GLY GLY ALA VAL ALA ASN ILE THR LEU ALA THR SER GLU SEQRES 4 A 178 SER TRP ARG ASP LYS ALA THR GLY GLU MET LYS GLU GLN SEQRES 5 A 178 THR GLU TRP HIS ARG VAL VAL LEU PHE GLY LYS LEU ALA SEQRES 6 A 178 GLU VAL ALA SER GLU TYR LEU ARG LYS GLY SER GLN VAL SEQRES 7 A 178 TYR ILE GLU GLY GLN LEU ARG THR ARG LYS TRP THR ASP SEQRES 8 A 178 GLN SER GLY GLN ASP ARG TYR THR THR GLU VAL VAL VAL SEQRES 9 A 178 ASN VAL GLY GLY THR MET GLN MET LEU GLY GLY ARG GLN SEQRES 10 A 178 GLY GLY GLY ALA PRO ALA GLY GLY ASN ILE GLY GLY GLY SEQRES 11 A 178 GLN PRO GLN GLY GLY TRP GLY GLN PRO GLN GLN PRO GLN SEQRES 12 A 178 GLY GLY ASN GLN PHE SER GLY GLY ALA GLN SER ARG PRO SEQRES 13 A 178 GLN GLN SER ALA PRO ALA ALA PRO SER ASN GLU PRO PRO SEQRES 14 A 178 MET ASP PHE ASP ASP ASP ILE PRO PHE SEQRES 1 B 178 MET ALA SER ARG GLY VAL ASN LYS VAL ILE LEU VAL GLY SEQRES 2 B 178 ASN LEU GLY GLN ASP PRO GLU VAL ARG TYR MET PRO ASN SEQRES 3 B 178 GLY GLY ALA VAL ALA ASN ILE THR LEU ALA THR SER GLU SEQRES 4 B 178 SER TRP ARG ASP LYS ALA THR GLY GLU MET LYS GLU GLN SEQRES 5 B 178 THR GLU TRP HIS ARG VAL VAL LEU PHE GLY LYS LEU ALA SEQRES 6 B 178 GLU VAL ALA SER GLU TYR LEU ARG LYS GLY SER GLN VAL SEQRES 7 B 178 TYR ILE GLU GLY GLN LEU ARG THR ARG LYS TRP THR ASP SEQRES 8 B 178 GLN SER GLY GLN ASP ARG TYR THR THR GLU VAL VAL VAL SEQRES 9 B 178 ASN VAL GLY GLY THR MET GLN MET LEU GLY GLY ARG GLN SEQRES 10 B 178 GLY GLY GLY ALA PRO ALA GLY GLY ASN ILE GLY GLY GLY SEQRES 11 B 178 GLN PRO GLN GLY GLY TRP GLY GLN PRO GLN GLN PRO GLN SEQRES 12 B 178 GLY GLY ASN GLN PHE SER GLY GLY ALA GLN SER ARG PRO SEQRES 13 B 178 GLN GLN SER ALA PRO ALA ALA PRO SER ASN GLU PRO PRO SEQRES 14 B 178 MET ASP PHE ASP ASP ASP ILE PRO PHE SEQRES 1 C 178 MET ALA SER ARG GLY VAL ASN LYS VAL ILE LEU VAL GLY SEQRES 2 C 178 ASN LEU GLY GLN ASP PRO GLU VAL ARG TYR MET PRO ASN SEQRES 3 C 178 GLY GLY ALA VAL ALA ASN ILE THR LEU ALA THR SER GLU SEQRES 4 C 178 SER TRP ARG ASP LYS ALA THR GLY GLU MET LYS GLU GLN SEQRES 5 C 178 THR GLU TRP HIS ARG VAL VAL LEU PHE GLY LYS LEU ALA SEQRES 6 C 178 GLU VAL ALA SER GLU TYR LEU ARG LYS GLY SER GLN VAL SEQRES 7 C 178 TYR ILE GLU GLY GLN LEU ARG THR ARG LYS TRP THR ASP SEQRES 8 C 178 GLN SER GLY GLN ASP ARG TYR THR THR GLU VAL VAL VAL SEQRES 9 C 178 ASN VAL GLY GLY THR MET GLN MET LEU GLY GLY ARG GLN SEQRES 10 C 178 GLY GLY GLY ALA PRO ALA GLY GLY ASN ILE GLY GLY GLY SEQRES 11 C 178 GLN PRO GLN GLY GLY TRP GLY GLN PRO GLN GLN PRO GLN SEQRES 12 C 178 GLY GLY ASN GLN PHE SER GLY GLY ALA GLN SER ARG PRO SEQRES 13 C 178 GLN GLN SER ALA PRO ALA ALA PRO SER ASN GLU PRO PRO SEQRES 14 C 178 MET ASP PHE ASP ASP ASP ILE PRO PHE SEQRES 1 D 178 MET ALA SER ARG GLY VAL ASN LYS VAL ILE LEU VAL GLY SEQRES 2 D 178 ASN LEU GLY GLN ASP PRO GLU VAL ARG TYR MET PRO ASN SEQRES 3 D 178 GLY GLY ALA VAL ALA ASN ILE THR LEU ALA THR SER GLU SEQRES 4 D 178 SER TRP ARG ASP LYS ALA THR GLY GLU MET LYS GLU GLN SEQRES 5 D 178 THR GLU TRP HIS ARG VAL VAL LEU PHE GLY LYS LEU ALA SEQRES 6 D 178 GLU VAL ALA SER GLU TYR LEU ARG LYS GLY SER GLN VAL SEQRES 7 D 178 TYR ILE GLU GLY GLN LEU ARG THR ARG LYS TRP THR ASP SEQRES 8 D 178 GLN SER GLY GLN ASP ARG TYR THR THR GLU VAL VAL VAL SEQRES 9 D 178 ASN VAL GLY GLY THR MET GLN MET LEU GLY GLY ARG GLN SEQRES 10 D 178 GLY GLY GLY ALA PRO ALA GLY GLY ASN ILE GLY GLY GLY SEQRES 11 D 178 GLN PRO GLN GLY GLY TRP GLY GLN PRO GLN GLN PRO GLN SEQRES 12 D 178 GLY GLY ASN GLN PHE SER GLY GLY ALA GLN SER ARG PRO SEQRES 13 D 178 GLN GLN SER ALA PRO ALA ALA PRO SER ASN GLU PRO PRO SEQRES 14 D 178 MET ASP PHE ASP ASP ASP ILE PRO PHE MODRES 1EQQ 5MU M 801 U 5-METHYLURIDINE 5'-MONOPHOSPHATE MODRES 1EQQ 5MU M 802 U 5-METHYLURIDINE 5'-MONOPHOSPHATE MODRES 1EQQ 5MU M 803 U 5-METHYLURIDINE 5'-MONOPHOSPHATE MODRES 1EQQ 5MU N 900 U 5-METHYLURIDINE 5'-MONOPHOSPHATE HET 5MU M 801 18 HET 5MU M 802 21 HET 5MU M 803 21 HET 5MU N 900 18 HETNAM 5MU 5-METHYLURIDINE 5'-MONOPHOSPHATE FORMUL 1 5MU 4(C10 H15 N2 O9 P) FORMUL 7 HOH *66(H2 O) HELIX 1 1 PHE A 60 LEU A 71 1 12 HELIX 2 2 GLY B 261 LEU B 271 1 11 HELIX 3 3 GLY C 461 LEU C 471 1 11 HELIX 4 4 PHE D 660 LEU D 671 1 12 SHEET 1 A 2 TYR A 22 MET A 23 0 SHEET 2 A 2 GLY A 27 ALA A 28 -1 N GLY A 27 O MET A 23 SHEET 1 B 2 GLU B 238 ARG B 241 0 SHEET 2 B 2 MET B 248 GLN B 251 -1 N LYS B 249 O TRP B 240 SHEET 1 C 2 GLU C 438 SER C 439 0 SHEET 2 C 2 GLU C 450 GLN C 451 -1 O GLN C 451 N GLU C 438 SHEET 1 D 2 GLU D 638 TRP D 640 0 SHEET 2 D 2 LYS D 649 GLN D 651 -1 O LYS D 649 N TRP D 640 LINK O3' 5MU M 801 P 5MU M 802 1555 1555 1.61 LINK O3' 5MU M 802 P 5MU M 803 1555 1555 1.60 CISPEP 1 MET B 223 PRO B 224 0 0.28 CRYST1 101.714 60.473 94.733 90.00 112.60 90.00 C 1 2 1 16 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 0.009831 0.000000 0.004093 0.00000 SCALE2 0.000000 0.016536 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011434 0.00000 HETATM 1 N1 5MU M 801 9.498 -7.257 11.883 1.00 73.95 N HETATM 2 C2 5MU M 801 10.112 -6.924 10.695 1.00 73.95 C HETATM 3 N3 5MU M 801 10.578 -5.638 10.629 1.00 72.74 N HETATM 4 C4 5MU M 801 10.512 -4.676 11.609 1.00 72.77 C HETATM 5 C5 5MU M 801 9.885 -5.095 12.841 1.00 73.10 C HETATM 6 C5M 5MU M 801 9.807 -4.127 13.980 1.00 73.94 C HETATM 7 C6 5MU M 801 9.405 -6.345 12.912 1.00 73.08 C HETATM 8 O2 5MU M 801 10.239 -7.706 9.769 1.00 75.16 O HETATM 9 O4 5MU M 801 10.965 -3.558 11.393 1.00 72.57 O HETATM 10 C1' 5MU M 801 8.944 -8.631 12.015 1.00 74.45 C HETATM 11 C2' 5MU M 801 9.524 -9.441 13.178 1.00 74.51 C HETATM 12 O2' 5MU M 801 9.533 -10.815 12.842 1.00 73.17 O HETATM 13 C3' 5MU M 801 8.536 -9.106 14.287 1.00 74.86 C HETATM 14 C4' 5MU M 801 7.215 -9.093 13.537 1.00 74.41 C HETATM 15 O3' 5MU M 801 8.530 -10.056 15.351 1.00 75.19 O HETATM 16 O4' 5MU M 801 7.547 -8.528 12.244 1.00 74.01 O HETATM 17 C5' 5MU M 801 6.142 -8.242 14.163 1.00 75.78 C HETATM 18 O5' 5MU M 801 6.567 -6.878 14.250 1.00 76.63 O HETATM 19 N1 5MU M 802 8.707 -3.115 18.329 1.00 91.25 N HETATM 20 C2 5MU M 802 8.850 -2.413 19.512 1.00 91.73 C HETATM 21 N3 5MU M 802 8.026 -1.318 19.629 1.00 92.38 N HETATM 22 C4 5MU M 802 7.089 -0.872 18.714 1.00 92.44 C HETATM 23 C5 5MU M 802 6.977 -1.667 17.510 1.00 92.43 C HETATM 24 C5M 5MU M 802 5.985 -1.266 16.466 1.00 92.79 C HETATM 25 C6 5MU M 802 7.776 -2.736 17.383 1.00 92.21 C HETATM 26 O2 5MU M 802 9.637 -2.730 20.391 1.00 91.43 O HETATM 27 O4 5MU M 802 6.427 0.135 18.957 1.00 92.32 O HETATM 28 C1' 5MU M 802 9.593 -4.268 18.070 1.00 88.26 C HETATM 29 C2' 5MU M 802 9.834 -5.218 19.247 1.00 86.72 C HETATM 30 O2' 5MU M 802 11.209 -5.522 19.334 1.00 87.44 O HETATM 31 C3' 5MU M 802 8.996 -6.426 18.854 1.00 85.62 C HETATM 32 C4' 5MU M 802 9.081 -6.420 17.341 1.00 83.63 C HETATM 33 O3' 5MU M 802 9.595 -7.619 19.340 1.00 87.31 O HETATM 34 O4' 5MU M 802 9.070 -5.018 16.990 1.00 85.32 O HETATM 35 C5' 5MU M 802 7.942 -7.123 16.659 1.00 80.31 C HETATM 36 O5' 5MU M 802 7.811 -8.446 17.174 1.00 77.16 O HETATM 37 P 5MU M 802 8.886 -9.579 16.849 1.00 75.05 P HETATM 38 OP1 5MU M 802 10.231 -8.951 16.831 1.00 74.72 O HETATM 39 OP2 5MU M 802 8.623 -10.723 17.763 1.00 73.80 O HETATM 40 N1 5MU M 803 8.582 -11.583 25.096 1.00 87.40 N HETATM 41 C2 5MU M 803 9.023 -12.688 25.787 1.00 88.41 C HETATM 42 N3 5MU M 803 8.744 -13.889 25.184 1.00 87.84 N HETATM 43 C4 5MU M 803 8.082 -14.087 23.989 1.00 87.42 C HETATM 44 C5 5MU M 803 7.642 -12.882 23.320 1.00 86.63 C HETATM 45 C5M 5MU M 803 6.910 -12.994 22.021 1.00 86.59 C HETATM 46 C6 5MU M 803 7.910 -11.709 23.900 1.00 86.64 C HETATM 47 O2 5MU M 803 9.615 -12.616 26.852 1.00 89.81 O HETATM 48 O4 5MU M 803 7.910 -15.227 23.571 1.00 87.60 O HETATM 49 C1' 5MU M 803 8.848 -10.249 25.661 1.00 87.13 C HETATM 50 C2' 5MU M 803 10.277 -9.783 25.399 1.00 86.92 C HETATM 51 O2' 5MU M 803 10.591 -8.784 26.346 1.00 86.08 O HETATM 52 C3' 5MU M 803 10.128 -9.238 23.988 1.00 87.08 C HETATM 53 C4' 5MU M 803 8.793 -8.514 24.071 1.00 87.27 C HETATM 54 O3' 5MU M 803 11.190 -8.427 23.468 1.00 85.95 O HETATM 55 O4' 5MU M 803 8.009 -9.323 24.991 1.00 87.52 O HETATM 56 C5' 5MU M 803 8.037 -8.449 22.770 1.00 87.58 C HETATM 57 O5' 5MU M 803 8.891 -8.009 21.723 1.00 88.36 O HETATM 58 P 5MU M 803 8.742 -8.615 20.258 1.00 88.74 P HETATM 59 OP1 5MU M 803 9.378 -9.961 20.216 1.00 86.99 O HETATM 60 OP2 5MU M 803 7.320 -8.458 19.851 1.00 88.89 O TER 61 5MU M 803 HETATM 62 N1 5MU N 900 23.070 15.863 11.523 1.00 48.64 N HETATM 63 C2 5MU N 900 21.875 15.692 12.171 1.00 48.96 C HETATM 64 N3 5MU N 900 21.921 15.892 13.523 1.00 47.59 N HETATM 65 C4 5MU N 900 23.014 16.243 14.276 1.00 47.40 C HETATM 66 C5 5MU N 900 24.245 16.411 13.533 1.00 48.37 C HETATM 67 C5M 5MU N 900 25.494 16.799 14.263 1.00 48.71 C HETATM 68 C6 5MU N 900 24.210 16.211 12.211 1.00 47.95 C HETATM 69 O2 5MU N 900 20.847 15.389 11.595 1.00 52.29 O HETATM 70 O4 5MU N 900 22.892 16.387 15.486 1.00 47.49 O HETATM 71 C1' 5MU N 900 23.096 15.664 10.058 1.00 49.37 C HETATM 72 C2' 5MU N 900 22.733 16.931 9.278 1.00 48.94 C HETATM 73 O2' 5MU N 900 22.145 16.594 8.035 1.00 47.88 O HETATM 74 C3' 5MU N 900 24.103 17.568 9.110 1.00 49.92 C HETATM 75 C4' 5MU N 900 24.993 16.357 8.855 1.00 51.20 C HETATM 76 O3' 5MU N 900 24.131 18.574 8.094 1.00 50.74 O HETATM 77 O4' 5MU N 900 24.419 15.309 9.686 1.00 51.00 O HETATM 78 C5' 5MU N 900 26.470 16.523 9.182 1.00 52.29 C HETATM 79 O5' 5MU N 900 26.784 16.777 10.574 1.00 52.96 O TER 80 5MU N 900