HEADER TRANSFERASE 24-DEC-19 6VDC TITLE POL DOMAIN OF POL1 FROM M. SMEGMATIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE I; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 304-908; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOLICIBACTERIUM SMEGMATIS; SOURCE 3 ORGANISM_TAXID: 1772; SOURCE 4 GENE: POLA, MSMEI_3749; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS MYCOBACTERIA, DNA POLYMERASE, APOENZYME, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.SHUMAN,Y.GOLDGUR,S.GHOSH REVDAT 4 11-OCT-23 6VDC 1 REMARK REVDAT 3 15-APR-20 6VDC 1 JRNL REVDAT 2 19-FEB-20 6VDC 1 JRNL REVDAT 1 12-FEB-20 6VDC 0 JRNL AUTH S.GHOSH,Y.GOLDGUR,S.SHUMAN JRNL TITL MYCOBACTERIAL DNA POLYMERASE I: ACTIVITIES AND CRYSTAL JRNL TITL 2 STRUCTURES OF THE POL DOMAIN AS APOENZYME AND IN COMPLEX JRNL TITL 3 WITH A DNA PRIMER-TEMPLATE AND OF THE FULL-LENGTH JRNL TITL 4 FEN/EXO-POL ENZYME. JRNL REF NUCLEIC ACIDS RES. V. 48 3165 2020 JRNL REFN ESSN 1362-4962 JRNL PMID 32034423 JRNL DOI 10.1093/NAR/GKAA075 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.83 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 28056 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.170 REMARK 3 FREE R VALUE TEST SET COUNT : 3815 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 45.8300 - 7.1975 0.97 1804 144 0.2083 0.2132 REMARK 3 2 7.1975 - 5.7163 0.98 1802 139 0.2238 0.2388 REMARK 3 3 5.7163 - 4.9948 1.00 1855 145 0.2090 0.2346 REMARK 3 4 4.9948 - 4.5385 0.99 1814 139 0.1836 0.2365 REMARK 3 5 4.5385 - 4.2135 0.99 1844 139 0.1856 0.2617 REMARK 3 6 4.2135 - 3.9652 0.99 1833 138 0.1956 0.2623 REMARK 3 7 3.9652 - 3.7667 1.00 1829 144 0.2088 0.2643 REMARK 3 8 3.7667 - 3.6028 0.97 1810 147 0.2176 0.2886 REMARK 3 9 3.6028 - 3.4642 0.98 1778 133 0.2173 0.2604 REMARK 3 10 3.4642 - 3.3447 1.00 1844 146 0.2289 0.2659 REMARK 3 11 3.3447 - 3.2401 1.00 1849 150 0.2341 0.2910 REMARK 3 12 3.2401 - 3.1475 1.00 1827 139 0.2468 0.2897 REMARK 3 13 3.1475 - 3.0647 1.00 1853 144 0.2339 0.3259 REMARK 3 14 3.0647 - 2.9899 1.00 1841 141 0.2396 0.3191 REMARK 3 15 2.9899 - 2.9220 0.99 1828 145 0.2383 0.2558 REMARK 3 16 2.9220 - 2.8598 1.00 1835 139 0.2347 0.2975 REMARK 3 17 2.8598 - 2.8026 1.00 1849 138 0.2572 0.3893 REMARK 3 18 2.8026 - 2.7497 1.00 1872 145 0.2440 0.2953 REMARK 3 19 2.7497 - 2.7006 1.00 1829 141 0.2415 0.2834 REMARK 3 20 2.7006 - 2.6548 1.00 1860 145 0.2506 0.2436 REMARK 3 21 2.6548 - 2.6120 1.00 1823 139 0.2558 0.3003 REMARK 3 22 2.6120 - 2.5718 1.00 1838 142 0.2606 0.3551 REMARK 3 23 2.5718 - 2.5340 0.99 1843 139 0.2588 0.3451 REMARK 3 24 2.5340 - 2.4983 0.98 1797 141 0.2812 0.3467 REMARK 3 25 2.4983 - 2.4646 0.98 1814 136 0.2607 0.3173 REMARK 3 26 2.4646 - 2.4326 0.99 1858 143 0.2686 0.3282 REMARK 3 27 2.4326 - 2.4022 0.96 1739 134 0.2953 0.3470 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) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.58 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 6VDC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1000246206. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-OCT-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28069 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 4UQG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM CHLORIDE, 20% PEG3350, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 75.17400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 75.17400 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 31.29550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 75.47550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.29550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 75.47550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 75.17400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.29550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 75.47550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 75.17400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.29550 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 75.47550 REMARK 290 SMTRY3 8 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: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 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 PHE A 304 REMARK 465 GLU A 305 REMARK 465 THR A 306 REMARK 465 LEU A 307 REMARK 465 VAL A 308 REMARK 465 ALA A 309 REMARK 465 VAL A 310 REMARK 465 GLU A 311 REMARK 465 PRO A 312 REMARK 465 GLU A 313 REMARK 465 VAL A 314 REMARK 465 GLU A 315 REMARK 465 HIS A 316 REMARK 465 GLY A 317 REMARK 465 PHE A 318 REMARK 465 ASP A 319 REMARK 465 VAL A 320 REMARK 465 ARG A 321 REMARK 465 ALA A 453 REMARK 465 GLU A 454 REMARK 465 THR A 455 REMARK 465 PRO A 456 REMARK 465 GLU A 457 REMARK 465 GLN A 458 REMARK 465 GLN A 459 REMARK 465 GLN A 460 REMARK 465 LEU A 461 REMARK 465 SER A 462 REMARK 465 LEU A 463 REMARK 465 LEU A 464 REMARK 465 ASP A 465 REMARK 465 ASP A 466 REMARK 465 SER A 467 REMARK 465 ASP A 468 REMARK 465 ALA A 546 REMARK 465 GLU A 547 REMARK 465 ALA A 548 REMARK 465 ALA A 549 REMARK 465 TYR A 550 REMARK 465 SER A 551 REMARK 465 VAL A 552 REMARK 465 ILE A 553 REMARK 465 GLY A 554 REMARK 465 LYS A 555 REMARK 465 GLN A 556 REMARK 465 ILE A 557 REMARK 465 ASN A 558 REMARK 465 LEU A 559 REMARK 465 GLY A 560 REMARK 465 SER A 561 REMARK 465 PRO A 562 REMARK 465 LYS A 563 REMARK 465 GLN A 564 REMARK 465 LEU A 565 REMARK 465 GLN A 566 REMARK 465 ALA A 567 REMARK 465 VAL A 568 REMARK 465 LEU A 569 REMARK 465 PHE A 570 REMARK 465 ASP A 571 REMARK 465 GLU A 572 REMARK 465 LEU A 573 REMARK 465 GLU A 574 REMARK 465 MET A 575 REMARK 465 PRO A 576 REMARK 465 LYS A 577 REMARK 465 THR A 578 REMARK 465 LYS A 579 REMARK 465 LYS A 580 REMARK 465 THR A 581 REMARK 465 LYS A 582 REMARK 465 THR A 583 REMARK 465 GLY A 584 REMARK 465 TYR A 585 REMARK 465 THR A 586 REMARK 465 THR A 587 REMARK 465 ASP A 588 REMARK 465 ALA A 589 REMARK 465 ASP A 590 REMARK 465 ALA A 591 REMARK 465 LEU A 592 REMARK 465 GLN A 593 REMARK 465 SER A 594 REMARK 465 LEU A 595 REMARK 465 PHE A 596 REMARK 465 GLU A 597 REMARK 465 LYS A 598 REMARK 465 THR A 599 REMARK 465 GLY A 600 REMARK 465 HIS A 601 REMARK 465 ILE A 725 REMARK 465 ASP A 726 REMARK 465 TYR A 745 REMARK 465 GLY A 746 REMARK 465 LEU A 747 REMARK 465 SER A 748 REMARK 465 ALA A 749 REMARK 465 TYR A 750 REMARK 465 GLY A 751 REMARK 465 LEU A 752 REMARK 465 ALA A 753 REMARK 465 GLN A 754 REMARK 465 GLN A 755 REMARK 465 LEU A 756 REMARK 465 LYS A 757 REMARK 465 ILE A 758 REMARK 465 SER A 759 REMARK 465 THR A 760 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 OD2 ASP A 367 MN MN A 1001 1.63 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 LEU A 878 CA - CB - CG ANGL. DEV. = 15.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 HIS A 448 42.54 38.17 REMARK 500 MET A 508 -56.72 -122.52 REMARK 500 ASP A 630 8.19 -69.95 REMARK 500 ILE A 659 -64.05 -106.35 REMARK 500 ARG A 733 8.84 -67.69 REMARK 500 PHE A 774 73.54 -101.62 REMARK 500 SER A 810 4.13 -67.93 REMARK 500 ILE A 827 -60.19 -97.44 REMARK 500 HIS A 860 -73.32 -18.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 859 HIS A 860 -130.01 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 MN A1001 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 337 NE2 REMARK 620 2 ASP A 369 OD2 95.8 REMARK 620 3 HOH A1102 O 77.9 73.9 REMARK 620 4 HOH A1152 O 90.8 160.8 90.0 REMARK 620 5 HOH A1177 O 154.4 84.3 77.6 82.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 1001 DBREF 6VDC A 304 908 UNP I7G3P9 I7G3P9_MYCS2 304 908 SEQRES 1 A 605 PHE GLU THR LEU VAL ALA VAL GLU PRO GLU VAL GLU HIS SEQRES 2 A 605 GLY PHE ASP VAL ARG GLY ARG ALA LEU GLU PRO GLY GLU SEQRES 3 A 605 LEU ALA ALA TRP LEU SER GLU HIS SER LEU GLY SER ARG SEQRES 4 A 605 PHE GLY VAL ALA VAL VAL GLY THR HIS LYS ALA TYR ASP SEQRES 5 A 605 ALA ASP ALA THR ALA LEU ALA ILE VAL ALA ALA ASP GLY SEQRES 6 A 605 ASP GLY ARG TYR ILE ASP THR SER THR LEU THR PRO GLU SEQRES 7 A 605 ASP GLU ALA ALA LEU ALA SER TRP LEU ALA ASP PRO GLY SEQRES 8 A 605 PRO PRO LYS ALA LEU HIS GLU ALA LYS LEU ALA MET HIS SEQRES 9 A 605 ASP LEU ALA GLY ARG GLY TRP THR LEU ARG GLY VAL THR SEQRES 10 A 605 SER ASP THR ALA LEU ALA ALA TYR LEU VAL ARG PRO GLY SEQRES 11 A 605 GLN ARG SER PHE THR LEU ASP ASP LEU ALA VAL ARG TYR SEQRES 12 A 605 LEU HIS ARG GLU LEU ARG ALA GLU THR PRO GLU GLN GLN SEQRES 13 A 605 GLN LEU SER LEU LEU ASP ASP SER ASP GLY VAL ASP GLU SEQRES 14 A 605 GLN ALA VAL GLN THR VAL ILE LEU ARG ALA CYS ALA VAL SEQRES 15 A 605 LEU ASP LEU ALA ASP ALA LEU ASP GLN GLU LEU ALA ARG SEQRES 16 A 605 ILE ASP SER LEU SER LEU LEU SER ARG MET GLU LEU PRO SEQRES 17 A 605 VAL GLN ARG THR LEU ALA GLU MET GLU HIS ALA GLY ILE SEQRES 18 A 605 ALA VAL ASP LEU GLY MET LEU GLU GLN LEU GLN SER GLU SEQRES 19 A 605 PHE ALA ASP GLN ILE ARG ASP ALA ALA GLU ALA ALA TYR SEQRES 20 A 605 SER VAL ILE GLY LYS GLN ILE ASN LEU GLY SER PRO LYS SEQRES 21 A 605 GLN LEU GLN ALA VAL LEU PHE ASP GLU LEU GLU MET PRO SEQRES 22 A 605 LYS THR LYS LYS THR LYS THR GLY TYR THR THR ASP ALA SEQRES 23 A 605 ASP ALA LEU GLN SER LEU PHE GLU LYS THR GLY HIS PRO SEQRES 24 A 605 PHE LEU GLN HIS LEU LEU ALA HIS ARG ASP ALA THR ARG SEQRES 25 A 605 LEU LYS VAL THR VAL ASP GLY LEU LEU ASN SER VAL ALA SEQRES 26 A 605 SER ASP GLY ARG ILE HIS THR THR PHE ASN GLN THR ILE SEQRES 27 A 605 ALA ALA THR GLY ARG LEU SER SER THR GLU PRO ASN LEU SEQRES 28 A 605 GLN ASN ILE PRO ILE ARG THR GLU ALA GLY ARG ARG ILE SEQRES 29 A 605 ARG ASP ALA PHE VAL VAL GLY GLU GLY TYR ALA GLU LEU SEQRES 30 A 605 MET THR ALA ASP TYR SER GLN ILE GLU MET ARG ILE MET SEQRES 31 A 605 ALA HIS LEU SER ARG ASP ALA GLY LEU ILE GLU ALA PHE SEQRES 32 A 605 ASN THR GLY GLU ASP LEU HIS SER PHE VAL ALA SER ARG SEQRES 33 A 605 ALA PHE SER VAL PRO ILE ASP GLU VAL THR PRO GLU LEU SEQRES 34 A 605 ARG ARG ARG VAL LYS ALA MET SER TYR GLY LEU ALA TYR SEQRES 35 A 605 GLY LEU SER ALA TYR GLY LEU ALA GLN GLN LEU LYS ILE SEQRES 36 A 605 SER THR GLU GLU ALA LYS VAL GLN MET GLU GLN TYR PHE SEQRES 37 A 605 ASP ARG PHE GLY GLY VAL ARG ASP TYR LEU ARG ASP VAL SEQRES 38 A 605 VAL ASP GLN ALA ARG LYS ASP GLY TYR THR SER THR VAL SEQRES 39 A 605 LEU GLY ARG ARG ARG TYR LEU PRO GLU LEU ASP SER SER SEQRES 40 A 605 ASN ARG GLN VAL ARG GLU ALA ALA GLU ARG ALA ALA LEU SEQRES 41 A 605 ASN ALA PRO ILE GLN GLY SER ALA ALA ASP ILE ILE LYS SEQRES 42 A 605 VAL ALA MET ILE ASN VAL ASP GLN ALA ILE LYS ASP ALA SEQRES 43 A 605 GLY LEU ARG SER ARG ILE LEU LEU GLN VAL HIS ASP GLU SEQRES 44 A 605 LEU LEU PHE GLU VAL SER GLU GLY GLU GLN GLY GLU LEU SEQRES 45 A 605 GLU GLN LEU VAL ARG GLU HIS MET GLY ASN ALA TYR PRO SEQRES 46 A 605 LEU ASP VAL PRO LEU GLU VAL SER VAL GLY TYR GLY ARG SEQRES 47 A 605 SER TRP ASP ALA ALA ALA HIS HET MN A1001 1 HETNAM MN MANGANESE (II) ION FORMUL 2 MN MN 2+ FORMUL 3 HOH *81(H2 O) HELIX 1 AA1 GLU A 329 SER A 338 1 10 HELIX 2 AA2 THR A 379 ASP A 392 1 14 HELIX 3 AA3 GLU A 401 GLY A 411 1 11 HELIX 4 AA4 THR A 423 ARG A 431 1 9 HELIX 5 AA5 THR A 438 HIS A 448 1 11 HELIX 6 AA6 ASP A 471 ARG A 498 1 28 HELIX 7 AA7 SER A 501 MET A 508 1 8 HELIX 8 AA8 MET A 508 GLY A 523 1 16 HELIX 9 AA9 ASP A 527 ASP A 540 1 14 HELIX 10 AB1 PHE A 603 VAL A 627 1 25 HELIX 11 AB2 THR A 661 ALA A 670 1 10 HELIX 12 AB3 GLN A 687 ARG A 698 1 12 HELIX 13 AB4 ASP A 699 GLY A 709 1 11 HELIX 14 AB5 ASP A 711 SER A 722 1 12 HELIX 15 AB6 GLU A 731 MET A 739 1 9 HELIX 16 AB7 LYS A 764 ASP A 772 1 9 HELIX 17 AB8 PHE A 774 GLY A 792 1 19 HELIX 18 AB9 PRO A 805 SER A 809 5 5 HELIX 19 AC1 ASN A 811 ALA A 849 1 39 HELIX 20 AC2 GLU A 871 ASN A 885 1 15 HELIX 21 AC3 SER A 902 HIS A 908 1 7 SHEET 1 AA1 6 ARG A 323 ALA A 324 0 SHEET 2 AA1 6 GLY A 370 ASP A 374 1 O TYR A 372 N ARG A 323 SHEET 3 AA1 6 ALA A 358 VAL A 364 -1 N LEU A 361 O ILE A 373 SHEET 4 AA1 6 PHE A 343 GLY A 349 -1 N VAL A 348 O ALA A 360 SHEET 5 AA1 6 LYS A 397 LEU A 399 1 O ALA A 398 N VAL A 345 SHEET 6 AA1 6 VAL A 419 ASP A 422 1 O THR A 420 N LYS A 397 SHEET 1 AA2 2 ILE A 524 ALA A 525 0 SHEET 2 AA2 2 ARG A 632 ILE A 633 -1 O ILE A 633 N ILE A 524 SHEET 1 AA3 2 THR A 636 ASN A 638 0 SHEET 2 AA3 2 SER A 648 THR A 650 -1 O SER A 648 N ASN A 638 SHEET 1 AA4 4 ARG A 854 VAL A 859 0 SHEET 2 AA4 4 GLU A 862 VAL A 867 -1 O GLU A 862 N VAL A 859 SHEET 3 AA4 4 GLU A 679 TYR A 685 -1 N MET A 681 O PHE A 865 SHEET 4 AA4 4 VAL A 895 GLY A 900 -1 O GLY A 900 N LEU A 680 SHEET 1 AA5 2 TYR A 793 SER A 795 0 SHEET 2 AA5 2 ARG A 801 TYR A 803 -1 O ARG A 802 N THR A 794 LINK NE2 HIS A 337 MN MN A1001 1555 1555 2.30 LINK OD2 ASP A 369 MN MN A1001 1555 1555 2.35 LINK MN MN A1001 O HOH A1102 1555 1555 2.23 LINK MN MN A1001 O HOH A1152 1555 1555 2.55 LINK MN MN A1001 O HOH A1177 1555 1555 2.80 CISPEP 1 GLU A 651 PRO A 652 0 5.64 SITE 1 AC1 7 GLU A 336 HIS A 337 ASP A 367 ASP A 369 SITE 2 AC1 7 HOH A1102 HOH A1152 HOH A1177 CRYST1 62.591 150.951 150.348 90.00 90.00 90.00 C 2 2 21 8 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 0.015977 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006625 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006651 0.00000