HEADER LIGASE 15-JUN-11 3SGI TITLE CRYSTAL STRUCTURE OF DNA LIGASE A BRCT DOMAIN DELETED MUTANT OF TITLE 2 MYCOBACTERIUM TUBERCULOSIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POLYDEOXYRIBONUCLEOTIDE SYNTHASE [NAD+]; COMPND 5 EC: 6.5.1.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 1773; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: LIG, LIGA, MT3094, MTV012.28C, RV3014C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR,PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PQE60; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: MTULIGA1 KEYWDS NAD DEPNDENT DNA LIGASE A, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR V.KUKSHAL,R.RAVISHANKAR REVDAT 2 01-NOV-23 3SGI 1 REMARK SEQADV LINK REVDAT 1 20-JUN-12 3SGI 0 JRNL AUTH V.KUKSHAL,R.RAVISHANKAR JRNL TITL CRYSTAL STRUCTURE OF DOMAIN DELETED MUTANT OF MYCOBACTERIUM JRNL TITL 2 TUBERCULOSIS NAD+ DEPENDENT DNA LIGASE CAPTURE THE AMP JRNL TITL 3 COFACTOR IN A NEW STATE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.3 REMARK 3 NUMBER OF REFLECTIONS : 8530 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 + TEST SET) : 0.312 REMARK 3 R VALUE (WORKING SET) : 0.311 REMARK 3 FREE R VALUE : 0.322 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 435 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 630 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.08 REMARK 3 BIN R VALUE (WORKING SET) : 0.3200 REMARK 3 BIN FREE R VALUE SET COUNT : 29 REMARK 3 BIN FREE R VALUE : 0.3420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3176 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 23 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.58000 REMARK 3 B22 (A**2) : -0.88000 REMARK 3 B33 (A**2) : -1.71000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.731 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.774 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.762 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3267 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4446 ; 1.746 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 407 ; 8.518 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 158 ;33.064 ;22.785 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 520 ;23.808 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 37 ;17.617 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 498 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2531 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2031 ; 0.462 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3265 ; 0.871 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1236 ; 0.975 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1181 ; 1.819 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3SGI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000066173. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-DEC-08 REMARK 200 TEMPERATURE (KELVIN) : 295 REMARK 200 PH : 5.7 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 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : COPPER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12456 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.500 REMARK 200 RESOLUTION RANGE LOW (A) : 49.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.3 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.24000 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.74000 REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1ZAU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% PEG 8000, 0.1M MES, PH 5.7, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 26.21850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.00450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.78200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.00450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.21850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.78200 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 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 VAL A 1 REMARK 465 SER A 2 REMARK 465 SER A 3 REMARK 465 PRO A 4 REMARK 465 ASP A 5 REMARK 465 ALA A 6 REMARK 465 ASP A 7 REMARK 465 THR A 416 REMARK 465 THR A 417 REMARK 465 CYS A 418 REMARK 465 PRO A 419 REMARK 465 GLU A 420 REMARK 465 CYS A 421 REMARK 465 GLY A 422 REMARK 465 SER A 423 REMARK 465 PRO A 424 REMARK 465 LEU A 425 REMARK 465 ALA A 426 REMARK 465 PRO A 427 REMARK 465 GLU A 428 REMARK 465 LYS A 429 REMARK 465 GLU A 430 REMARK 465 GLY A 431 REMARK 465 ASP A 432 REMARK 465 ALA A 433 REMARK 465 ASP A 434 REMARK 465 ILE A 435 REMARK 465 ARG A 436 REMARK 465 CYS A 437 REMARK 465 PRO A 438 REMARK 465 ASN A 439 REMARK 465 ALA A 440 REMARK 465 ARG A 441 REMARK 465 GLY A 442 REMARK 465 CYS A 443 REMARK 465 PRO A 444 REMARK 465 GLY A 445 REMARK 465 GLN A 446 REMARK 465 LEU A 447 REMARK 465 ARG A 448 REMARK 465 GLU A 449 REMARK 465 ARG A 450 REMARK 465 VAL A 451 REMARK 465 PHE A 452 REMARK 465 HIS A 453 REMARK 465 VAL A 454 REMARK 465 ALA A 455 REMARK 465 SER A 456 REMARK 465 ARG A 457 REMARK 465 ASN A 458 REMARK 465 GLY A 459 REMARK 465 LEU A 460 REMARK 465 ASP A 461 REMARK 465 ILE A 462 REMARK 465 GLU A 463 REMARK 465 VAL A 464 REMARK 465 LEU A 465 REMARK 465 GLY A 466 REMARK 465 TYR A 467 REMARK 465 GLU A 468 REMARK 465 ALA A 469 REMARK 465 GLY A 470 REMARK 465 VAL A 471 REMARK 465 ALA A 472 REMARK 465 LEU A 473 REMARK 465 LEU A 474 REMARK 465 GLN A 475 REMARK 465 ALA A 476 REMARK 465 LYS A 477 REMARK 465 VAL A 478 REMARK 465 ILE A 479 REMARK 465 ALA A 480 REMARK 465 ASP A 481 REMARK 465 GLU A 482 REMARK 465 GLY A 483 REMARK 465 GLU A 484 REMARK 465 LEU A 485 REMARK 465 PHE A 486 REMARK 465 ALA A 487 REMARK 465 LEU A 488 REMARK 465 THR A 489 REMARK 465 GLU A 490 REMARK 465 ARG A 491 REMARK 465 ASP A 492 REMARK 465 LEU A 493 REMARK 465 LEU A 494 REMARK 465 ARG A 495 REMARK 465 THR A 496 REMARK 465 ASP A 497 REMARK 465 LEU A 498 REMARK 465 PHE A 499 REMARK 465 ARG A 500 REMARK 465 THR A 501 REMARK 465 LYS A 502 REMARK 465 ALA A 503 REMARK 465 GLY A 504 REMARK 465 GLU A 505 REMARK 465 LEU A 506 REMARK 465 SER A 507 REMARK 465 ALA A 508 REMARK 465 ASN A 509 REMARK 465 GLY A 510 REMARK 465 LYS A 511 REMARK 465 ARG A 512 REMARK 465 LEU A 513 REMARK 465 LEU A 514 REMARK 465 VAL A 515 REMARK 465 ASN A 516 REMARK 465 LEU A 517 REMARK 465 ASP A 518 REMARK 465 LYS A 519 REMARK 465 ALA A 520 REMARK 465 LYS A 521 REMARK 465 ALA A 522 REMARK 465 ALA A 523 REMARK 465 PRO A 524 REMARK 465 LEU A 525 REMARK 465 TRP A 526 REMARK 465 ARG A 527 REMARK 465 VAL A 528 REMARK 465 LEU A 529 REMARK 465 VAL A 530 REMARK 465 ALA A 531 REMARK 465 LEU A 532 REMARK 465 SER A 533 REMARK 465 ILE A 534 REMARK 465 ARG A 535 REMARK 465 HIS A 536 REMARK 465 VAL A 537 REMARK 465 GLY A 538 REMARK 465 PRO A 539 REMARK 465 THR A 540 REMARK 465 ALA A 541 REMARK 465 ALA A 542 REMARK 465 ARG A 543 REMARK 465 ALA A 544 REMARK 465 LEU A 545 REMARK 465 ALA A 546 REMARK 465 THR A 547 REMARK 465 GLU A 548 REMARK 465 PHE A 549 REMARK 465 GLY A 550 REMARK 465 SER A 551 REMARK 465 LEU A 552 REMARK 465 ASP A 553 REMARK 465 ALA A 554 REMARK 465 ILE A 555 REMARK 465 ALA A 556 REMARK 465 ALA A 557 REMARK 465 ALA A 558 REMARK 465 SER A 559 REMARK 465 THR A 560 REMARK 465 ASP A 561 REMARK 465 GLN A 562 REMARK 465 LEU A 563 REMARK 465 ALA A 564 REMARK 465 ALA A 565 REMARK 465 VAL A 566 REMARK 465 GLU A 567 REMARK 465 GLY A 568 REMARK 465 VAL A 569 REMARK 465 GLY A 570 REMARK 465 PRO A 571 REMARK 465 THR A 572 REMARK 465 ILE A 573 REMARK 465 ALA A 574 REMARK 465 ALA A 575 REMARK 465 ALA A 576 REMARK 465 VAL A 577 REMARK 465 THR A 578 REMARK 465 GLU A 579 REMARK 465 TRP A 580 REMARK 465 PHE A 581 REMARK 465 ALA A 582 REMARK 465 VAL A 583 REMARK 465 ASP A 584 REMARK 465 TRP A 585 REMARK 465 HIS A 586 REMARK 465 ARG A 587 REMARK 465 GLU A 588 REMARK 465 ILE A 589 REMARK 465 VAL A 590 REMARK 465 ASP A 591 REMARK 465 LYS A 592 REMARK 465 TRP A 593 REMARK 465 ARG A 594 REMARK 465 ALA A 595 REMARK 465 ALA A 596 REMARK 465 GLY A 597 REMARK 465 VAL A 598 REMARK 465 ARG A 599 REMARK 465 MET A 600 REMARK 465 VAL A 601 REMARK 465 ASP A 602 REMARK 465 GLU A 603 REMARK 465 ARG A 604 REMARK 465 ASP A 605 REMARK 465 GLY A 606 REMARK 465 SER A 607 REMARK 465 ARG A 608 REMARK 465 SER A 609 REMARK 465 HIS A 610 REMARK 465 HIS A 611 REMARK 465 HIS A 612 REMARK 465 HIS A 613 REMARK 465 HIS A 614 REMARK 465 HIS A 615 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 15 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 88 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 245 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 331 CG CD OE1 NE2 REMARK 470 GLU A 373 CG CD OE1 OE2 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 NZ LYS A 123 O3P AMP A 616 1.66 REMARK 500 NZ LYS A 123 O5' AMP A 616 2.08 REMARK 500 OD2 ASP A 125 OD1 ASP A 295 2.11 REMARK 500 OG1 THR A 248 CG GLN A 251 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 CZ ARG A 140 OD1 ASP A 171 4455 2.15 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 ASP A 171 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 LEU A 199 CA - CB - CG ANGL. DEV. = 14.8 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 LEU A 20 -61.10 -103.60 REMARK 500 ALA A 36 60.66 -152.94 REMARK 500 ASP A 41 -125.04 -74.23 REMARK 500 ALA A 42 117.39 61.98 REMARK 500 GLU A 46 177.54 42.25 REMARK 500 LEU A 47 86.65 -23.69 REMARK 500 LEU A 48 -8.16 175.55 REMARK 500 ARG A 49 -148.58 91.90 REMARK 500 ARG A 50 -18.68 -49.58 REMARK 500 GLN A 57 77.99 177.56 REMARK 500 GLN A 69 42.31 -177.27 REMARK 500 VAL A 71 -30.97 -151.50 REMARK 500 ALA A 74 -136.86 -123.06 REMARK 500 PHE A 76 135.37 -36.82 REMARK 500 PHE A 80 132.71 174.58 REMARK 500 VAL A 83 -134.08 -111.49 REMARK 500 ASP A 84 110.87 -172.67 REMARK 500 ARG A 88 -78.07 -2.87 REMARK 500 MET A 89 67.47 69.97 REMARK 500 ALA A 98 79.18 82.81 REMARK 500 ASP A 99 -149.47 114.88 REMARK 500 LEU A 101 178.59 49.53 REMARK 500 ALA A 102 -42.76 57.28 REMARK 500 HIS A 109 -49.56 -24.70 REMARK 500 ALA A 110 -73.41 -46.62 REMARK 500 GLU A 111 19.86 -140.91 REMARK 500 ASP A 114 71.49 -33.33 REMARK 500 ALA A 115 73.42 174.31 REMARK 500 ALA A 116 -82.62 -121.30 REMARK 500 HIS A 117 114.57 125.71 REMARK 500 GLU A 135 29.16 46.59 REMARK 500 THR A 139 -75.58 -100.48 REMARK 500 ASP A 152 74.23 -66.51 REMARK 500 THR A 159 81.03 -64.24 REMARK 500 ILE A 160 -117.33 -23.77 REMARK 500 ASP A 171 27.83 131.47 REMARK 500 ASP A 172 1.79 136.28 REMARK 500 LEU A 199 -90.64 -81.95 REMARK 500 VAL A 200 -67.27 80.76 REMARK 500 GLU A 201 -115.00 -120.12 REMARK 500 LYS A 204 -153.61 -70.33 REMARK 500 ALA A 208 -103.61 -78.58 REMARK 500 LEU A 231 148.23 64.62 REMARK 500 PHE A 244 -107.05 -158.26 REMARK 500 ARG A 245 120.83 42.24 REMARK 500 PRO A 246 -140.35 -73.27 REMARK 500 ALA A 247 -20.57 -143.60 REMARK 500 HIS A 250 13.03 -156.15 REMARK 500 GLN A 251 -99.21 50.01 REMARK 500 PRO A 262 106.67 -59.00 REMARK 500 REMARK 500 THIS ENTRY HAS 73 RAMACHANDRAN OUTLIERS. 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 ASP A 45 GLU A 46 37.39 REMARK 500 PHE A 96 THR A 97 -146.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMP A 616 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZAU RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE IN THIS STUDY IS A C-TERMINAL BRCT DOMAIN DELETED REMARK 999 MUTANT. DBREF 3SGI A 2 605 UNP P63973 DNLJ_MYCTU 2 605 SEQADV 3SGI VAL A 1 UNP P63973 EXPRESSION TAG SEQADV 3SGI GLY A 606 UNP P63973 EXPRESSION TAG SEQADV 3SGI SER A 607 UNP P63973 EXPRESSION TAG SEQADV 3SGI ARG A 608 UNP P63973 EXPRESSION TAG SEQADV 3SGI SER A 609 UNP P63973 EXPRESSION TAG SEQADV 3SGI HIS A 610 UNP P63973 EXPRESSION TAG SEQADV 3SGI HIS A 611 UNP P63973 EXPRESSION TAG SEQADV 3SGI HIS A 612 UNP P63973 EXPRESSION TAG SEQADV 3SGI HIS A 613 UNP P63973 EXPRESSION TAG SEQADV 3SGI HIS A 614 UNP P63973 EXPRESSION TAG SEQADV 3SGI HIS A 615 UNP P63973 EXPRESSION TAG SEQRES 1 A 615 VAL SER SER PRO ASP ALA ASP GLN THR ALA PRO GLU VAL SEQRES 2 A 615 LEU ARG GLN TRP GLN ALA LEU ALA GLU GLU VAL ARG GLU SEQRES 3 A 615 HIS GLN PHE ARG TYR TYR VAL ARG ASP ALA PRO ILE ILE SEQRES 4 A 615 SER ASP ALA GLU PHE ASP GLU LEU LEU ARG ARG LEU GLU SEQRES 5 A 615 ALA LEU GLU GLU GLN HIS PRO GLU LEU ARG THR PRO ASP SEQRES 6 A 615 SER PRO THR GLN LEU VAL GLY GLY ALA GLY PHE ALA THR SEQRES 7 A 615 ASP PHE GLU PRO VAL ASP HIS LEU GLU ARG MET LEU SER SEQRES 8 A 615 LEU ASP ASN ALA PHE THR ALA ASP GLU LEU ALA ALA TRP SEQRES 9 A 615 ALA GLY ARG ILE HIS ALA GLU VAL GLY ASP ALA ALA HIS SEQRES 10 A 615 TYR LEU CYS GLU LEU LYS ILE ASP GLY VAL ALA LEU SER SEQRES 11 A 615 LEU VAL TYR ARG GLU GLY ARG LEU THR ARG ALA SER THR SEQRES 12 A 615 ARG GLY ASP GLY ARG THR GLY GLU ASP VAL THR LEU ASN SEQRES 13 A 615 ALA ARG THR ILE ALA ASP VAL PRO GLU ARG LEU THR PRO SEQRES 14 A 615 GLY ASP ASP TYR PRO VAL PRO GLU VAL LEU GLU VAL ARG SEQRES 15 A 615 GLY GLU VAL PHE PHE ARG LEU ASP ASP PHE GLN ALA LEU SEQRES 16 A 615 ASN ALA SER LEU VAL GLU GLU GLY LYS ALA PRO PHE ALA SEQRES 17 A 615 ASN PRO ARG ASN SER ALA ALA GLY SER LEU ARG GLN LYS SEQRES 18 A 615 ASP PRO ALA VAL THR ALA ARG ARG ARG LEU ARG MET ILE SEQRES 19 A 615 CYS HIS GLY LEU GLY HIS VAL GLU GLY PHE ARG PRO ALA SEQRES 20 A 615 THR LEU HIS GLN ALA TYR LEU ALA LEU ARG ALA TRP GLY SEQRES 21 A 615 LEU PRO VAL SER GLU HIS THR THR LEU ALA THR ASP LEU SEQRES 22 A 615 ALA GLY VAL ARG GLU ARG ILE ASP TYR TRP GLY GLU HIS SEQRES 23 A 615 ARG HIS GLU VAL ASP HIS GLU ILE ASP GLY VAL VAL VAL SEQRES 24 A 615 LYS VAL ASP GLU VAL ALA LEU GLN ARG ARG LEU GLY SER SEQRES 25 A 615 THR SER ARG ALA PRO ARG TRP ALA ILE ALA TYR LYS TYR SEQRES 26 A 615 PRO PRO GLU GLU ALA GLN THR LYS LEU LEU ASP ILE ARG SEQRES 27 A 615 VAL ASN VAL GLY ARG THR GLY ARG ILE THR PRO PHE ALA SEQRES 28 A 615 PHE MET THR PRO VAL LYS VAL ALA GLY SER THR VAL GLY SEQRES 29 A 615 GLN ALA THR LEU HIS ASN ALA SER GLU ILE LYS ARG LYS SEQRES 30 A 615 GLY VAL LEU ILE GLY ASP THR VAL VAL ILE ARG LYS ALA SEQRES 31 A 615 GLY ASP VAL ILE PRO GLU VAL LEU GLY PRO VAL VAL GLU SEQRES 32 A 615 LEU ARG ASP GLY SER GLU ARG GLU PHE ILE MET PRO THR SEQRES 33 A 615 THR CYS PRO GLU CYS GLY SER PRO LEU ALA PRO GLU LYS SEQRES 34 A 615 GLU GLY ASP ALA ASP ILE ARG CYS PRO ASN ALA ARG GLY SEQRES 35 A 615 CYS PRO GLY GLN LEU ARG GLU ARG VAL PHE HIS VAL ALA SEQRES 36 A 615 SER ARG ASN GLY LEU ASP ILE GLU VAL LEU GLY TYR GLU SEQRES 37 A 615 ALA GLY VAL ALA LEU LEU GLN ALA LYS VAL ILE ALA ASP SEQRES 38 A 615 GLU GLY GLU LEU PHE ALA LEU THR GLU ARG ASP LEU LEU SEQRES 39 A 615 ARG THR ASP LEU PHE ARG THR LYS ALA GLY GLU LEU SER SEQRES 40 A 615 ALA ASN GLY LYS ARG LEU LEU VAL ASN LEU ASP LYS ALA SEQRES 41 A 615 LYS ALA ALA PRO LEU TRP ARG VAL LEU VAL ALA LEU SER SEQRES 42 A 615 ILE ARG HIS VAL GLY PRO THR ALA ALA ARG ALA LEU ALA SEQRES 43 A 615 THR GLU PHE GLY SER LEU ASP ALA ILE ALA ALA ALA SER SEQRES 44 A 615 THR ASP GLN LEU ALA ALA VAL GLU GLY VAL GLY PRO THR SEQRES 45 A 615 ILE ALA ALA ALA VAL THR GLU TRP PHE ALA VAL ASP TRP SEQRES 46 A 615 HIS ARG GLU ILE VAL ASP LYS TRP ARG ALA ALA GLY VAL SEQRES 47 A 615 ARG MET VAL ASP GLU ARG ASP GLY SER ARG SER HIS HIS SEQRES 48 A 615 HIS HIS HIS HIS HET AMP A 616 22 HETNAM AMP ADENOSINE MONOPHOSPHATE FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 HOH *23(H2 O) HELIX 1 1 GLU A 12 ASP A 35 1 24 HELIX 2 2 ARG A 49 GLU A 56 1 8 HELIX 3 3 GLN A 57 ARG A 62 5 6 HELIX 4 4 VAL A 153 THR A 159 1 7 HELIX 5 5 ARG A 188 ALA A 197 1 10 HELIX 6 6 ASN A 209 ARG A 219 1 11 HELIX 7 7 ALA A 224 ARG A 229 1 6 HELIX 8 8 GLN A 251 TRP A 259 1 9 HELIX 9 9 ASP A 272 ASP A 281 1 10 HELIX 10 10 HIS A 286 VAL A 290 5 5 HELIX 11 11 GLU A 303 GLY A 311 1 9 SHEET 1 A 4 ASP A 93 ALA A 95 0 SHEET 2 A 4 ALA A 320 LYS A 324 1 O ALA A 322 N ASP A 93 SHEET 3 A 4 ILE A 294 VAL A 301 -1 N VAL A 297 O TYR A 323 SHEET 4 A 4 TYR A 118 ILE A 124 -1 N LEU A 119 O LYS A 300 SHEET 1 B 4 ARG A 137 SER A 142 0 SHEET 2 B 4 VAL A 127 ARG A 134 -1 N VAL A 132 O THR A 139 SHEET 3 B 4 VAL A 178 PHE A 186 -1 O GLY A 183 N LEU A 129 SHEET 4 B 4 ARG A 232 GLU A 242 -1 O GLY A 239 N GLU A 180 SHEET 1 C 3 GLU A 329 LYS A 333 0 SHEET 2 C 3 THR A 384 ARG A 388 -1 O VAL A 385 N THR A 332 SHEET 3 C 3 GLY A 399 PRO A 400 -1 O GLY A 399 N VAL A 386 SHEET 1 D 2 ASP A 336 ILE A 337 0 SHEET 2 D 2 ALA A 351 PHE A 352 -1 O PHE A 352 N ASP A 336 SHEET 1 E 2 VAL A 356 LYS A 357 0 SHEET 2 E 2 THR A 362 VAL A 363 -1 O VAL A 363 N VAL A 356 LINK NZ LYS A 123 P AMP A 616 1555 1555 1.61 CISPEP 1 ALA A 42 GLU A 43 0 11.88 CISPEP 2 LEU A 48 ARG A 49 0 10.07 CISPEP 3 GLN A 57 HIS A 58 0 22.62 CISPEP 4 GLY A 73 ALA A 74 0 -9.53 CISPEP 5 ALA A 77 THR A 78 0 1.68 CISPEP 6 THR A 97 ALA A 98 0 2.49 CISPEP 7 GLU A 100 LEU A 101 0 21.76 CISPEP 8 ILE A 160 ALA A 161 0 -18.67 CISPEP 9 HIS A 250 GLN A 251 0 26.20 CISPEP 10 SER A 264 GLU A 265 0 -1.42 CISPEP 11 GLU A 265 HIS A 266 0 -2.35 CISPEP 12 LEU A 269 ALA A 270 0 -0.48 CISPEP 13 GLY A 391 ASP A 392 0 -3.75 SITE 1 AC1 11 GLN A 18 LEU A 92 LEU A 122 LYS A 123 SITE 2 AC1 11 ILE A 124 ARG A 144 GLU A 184 HIS A 236 SITE 3 AC1 11 VAL A 298 LYS A 324 HOH A 620 CRYST1 52.437 99.564 144.009 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 0.019071 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010044 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006944 0.00000