HEADER DNA BINDING PROTEIN 29-AUG-24 9DF9 TITLE THERMOCOCCUS GAMMATOLERANS DNA LIGASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POLYDEOXYRIBONUCLEOTIDE SYNTHASE [ATP/NAD(+)]; COMPND 5 EC: 6.5.1.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS GAMMATOLERANS; SOURCE 3 ORGANISM_TAXID: 187878; SOURCE 4 GENE: LIG, TGAM_1718; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS DNA LIGASE, COMPLEX AMP, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.X.QUINTANA-ARMAS,E.RUDINO-PINERA,C.CARDONA-FELIX,E.FLORES-HERNANDEZ REVDAT 1 18-MAR-26 9DF9 0 JRNL AUTH A.X.QUINTANA-ARMAS,E.RUDINO-PINERA,C.CARDONA-FELIX, JRNL AUTH 2 E.FLORES-HERNANDEZ JRNL TITL UNVEILING STRUCTURAL INTERMEDIARIES OF THE LIGATION JRNL TITL 2 MECHANISM AND CONSERVED MOBILITY PATTERNS IN ATP-DEPENDENT JRNL TITL 3 DNA LIGASES JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.66 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 15867 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.250 REMARK 3 R VALUE (WORKING SET) : 0.248 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.750 REMARK 3 FREE R VALUE TEST SET COUNT : 753 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 38.6600 - 5.1300 1.00 3147 164 0.2095 0.2514 REMARK 3 2 5.1300 - 4.0700 1.00 3020 150 0.2439 0.2805 REMARK 3 3 4.0700 - 3.5600 1.00 3004 158 0.2808 0.3423 REMARK 3 4 3.5600 - 3.2300 1.00 2988 132 0.3530 0.3816 REMARK 3 5 3.2300 - 3.0000 1.00 2955 149 0.4004 0.4280 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.750 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 42.950 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 116.0 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 131.4 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 : 0.017 NULL REMARK 3 ANGLE : 1.598 NULL REMARK 3 CHIRALITY : 0.073 669 REMARK 3 PLANARITY : 0.025 772 REMARK 3 DIHEDRAL : 10.370 618 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 9DF9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-SEP-24. REMARK 100 THE DEPOSITION ID IS D_1000287528. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUL-24 REMARK 200 TEMPERATURE (KELVIN) : 291 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 X 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15884 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.350 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.55 REMARK 200 R MERGE FOR SHELL (I) : 1.44600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.630 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 8000, 200 MM MGCL2, 175 MM REMARK 280 TRIS-HCL PH 7, [9MG/ML PROTEIN], MICROBATCH, TEMPERATURE 291K 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 38.50000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.55500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.70000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.55500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.50000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.70000 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 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 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 GLU A 73 CG CD OE1 OE2 REMARK 470 LYS A 74 CB CG CD CE NZ REMARK 470 ILE A 77 CG1 CG2 CD1 REMARK 470 LYS A 78 CD CE NZ REMARK 470 VAL A 80 CG1 CG2 REMARK 470 SER A 81 OG REMARK 470 THR A 84 OG1 CG2 REMARK 470 LYS A 89 CG CD CE NZ REMARK 470 GLU A 90 CG CD OE1 OE2 REMARK 470 VAL A 105 CG1 CG2 REMARK 470 LEU A 109 CG CD1 CD2 REMARK 470 GLN A 114 CG CD OE1 NE2 REMARK 470 SER A 116 OG REMARK 470 GLU A 160 CG CD OE1 OE2 REMARK 470 LYS A 163 CE NZ REMARK 470 ILE A 165 CG1 CG2 CD1 REMARK 470 LYS A 212 CG CD CE NZ REMARK 470 SER A 223 OG REMARK 470 ILE A 233 CD1 REMARK 470 LEU A 248 CG CD1 CD2 REMARK 470 ILE A 249 CG2 REMARK 470 TYR A 278 OH REMARK 470 SER A 288 OG REMARK 470 ARG A 329 NH1 NH2 REMARK 470 ARG A 331 NE CZ NH1 NH2 REMARK 470 ARG A 332 CZ NH1 NH2 REMARK 470 LYS A 333 CB CG CD CE NZ REMARK 470 MET A 339 CG SD CE REMARK 470 ARG A 371 NH2 REMARK 470 LYS A 427 CG CD CE NZ REMARK 470 SER A 469 OG REMARK 470 LYS A 492 CE NZ REMARK 470 LYS A 495 CE NZ REMARK 470 GLU A 543 CG CD OE1 OE2 REMARK 470 LYS A 545 CG CD CE NZ REMARK 470 SER A 546 OG 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 260 O HOH A 701 1.97 REMARK 500 OG SER A 299 O GLU A 377 2.11 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 NH2 ARG A 328 O GLY A 449 4455 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 LYS A 125 CE LYS A 125 NZ 0.181 REMARK 500 GLU A 217 CB GLU A 217 CG 0.124 REMARK 500 LYS A 260 CB LYS A 260 CG 0.191 REMARK 500 GLU A 291 CG GLU A 291 CD 0.149 REMARK 500 GLU A 291 CD GLU A 291 OE1 0.126 REMARK 500 GLU A 291 CD GLU A 291 OE2 0.108 REMARK 500 TYR A 465 CB TYR A 465 CG 0.098 REMARK 500 TYR A 465 CG TYR A 465 CD2 0.136 REMARK 500 TYR A 465 CG TYR A 465 CD1 0.134 REMARK 500 TYR A 465 CD1 TYR A 465 CE1 0.125 REMARK 500 TYR A 465 CE1 TYR A 465 CZ 0.129 REMARK 500 TYR A 465 CZ TYR A 465 CE2 0.190 REMARK 500 TYR A 465 CE2 TYR A 465 CD2 0.145 REMARK 500 VAL A 473 CB VAL A 473 CG1 0.146 REMARK 500 ARG A 542 CZ ARG A 542 NH1 0.090 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 MET A 436 CA - CB - CG ANGL. DEV. = 16.0 DEGREES REMARK 500 ILE A 553 CA - CB - CG1 ANGL. DEV. = 11.9 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 ARG A 22 -72.89 -76.91 REMARK 500 ARG A 23 -40.66 -27.35 REMARK 500 VAL A 60 -60.42 -109.75 REMARK 500 GLU A 90 -15.52 -49.41 REMARK 500 SER A 94 -10.42 -46.65 REMARK 500 GLU A 103 -79.18 -63.57 REMARK 500 ARG A 113 -119.26 62.47 REMARK 500 LYS A 115 23.42 -73.09 REMARK 500 PHE A 117 -88.43 176.99 REMARK 500 PHE A 118 -77.57 56.57 REMARK 500 GLN A 120 133.66 88.45 REMARK 500 PRO A 121 -116.98 -85.12 REMARK 500 LEU A 122 105.91 -164.96 REMARK 500 SER A 142 -92.24 47.30 REMARK 500 LYS A 146 -72.37 -42.61 REMARK 500 MET A 155 -18.57 -41.34 REMARK 500 ARG A 167 -18.39 -41.54 REMARK 500 MET A 173 108.24 -56.49 REMARK 500 MET A 173 103.23 -56.49 REMARK 500 LEU A 216 -71.47 -95.99 REMARK 500 ILE A 227 93.71 -51.03 REMARK 500 MET A 251 18.17 -67.22 REMARK 500 GLU A 291 -63.61 -22.72 REMARK 500 ALA A 295 -14.14 -43.15 REMARK 500 LYS A 297 -36.81 -38.43 REMARK 500 ALA A 298 -85.89 -57.41 REMARK 500 PRO A 322 108.55 -52.32 REMARK 500 PHE A 323 -19.02 -42.57 REMARK 500 LYS A 342 -72.24 -46.49 REMARK 500 ASP A 362 46.69 -101.51 REMARK 500 LYS A 364 140.16 -38.05 REMARK 500 SER A 379 -167.55 -76.50 REMARK 500 LEU A 406 13.17 -66.60 REMARK 500 ILE A 419 -159.62 -114.03 REMARK 500 ARG A 425 52.48 -107.13 REMARK 500 PRO A 434 -144.82 -110.67 REMARK 500 THR A 435 -119.66 -105.49 REMARK 500 MET A 436 -88.66 -130.32 REMARK 500 ASN A 438 -164.32 67.63 REMARK 500 ILE A 444 -166.29 -121.03 REMARK 500 ALA A 446 -155.74 -110.42 REMARK 500 ARG A 453 30.95 -90.29 REMARK 500 SER A 459 59.83 21.22 REMARK 500 ALA A 464 -137.33 -82.07 REMARK 500 TYR A 465 -37.83 -146.31 REMARK 500 PRO A 467 94.76 -54.23 REMARK 500 GLU A 468 -67.74 -151.27 REMARK 500 VAL A 475 16.28 -144.94 REMARK 500 ILE A 499 -101.06 -123.31 REMARK 500 GLU A 501 40.39 -68.15 REMARK 500 REMARK 500 THIS ENTRY HAS 68 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 112 0.16 SIDE CHAIN REMARK 500 ARG A 113 0.17 SIDE CHAIN REMARK 500 ARG A 280 0.07 SIDE CHAIN REMARK 500 ARG A 281 0.20 SIDE CHAIN REMARK 500 ARG A 542 0.17 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 9DF9 A 12 564 UNP C5A7K8 C5A7K8_THEGJ 1 553 SEQADV 9DF9 VAL A 51 UNP C5A7K8 ILE 40 CONFLICT SEQADV 9DF9 GLN A 158 UNP C5A7K8 GLY 147 CONFLICT SEQADV 9DF9 ALA A 398 UNP C5A7K8 GLU 387 CONFLICT SEQRES 1 A 553 MET ARG TYR SER GLU LEU ALA GLU LEU TYR ARG ARG LEU SEQRES 2 A 553 GLU LYS THR THR LEU LYS THR LEU LYS THR LYS PHE VAL SEQRES 3 A 553 ALA ASP PHE LEU LYS LYS THR PRO ASP ASP LEU LEU GLU SEQRES 4 A 553 VAL VAL PRO TYR LEU ILE LEU GLY LYS VAL PHE PRO ASP SEQRES 5 A 553 TRP ASP GLU ARG GLU LEU GLY VAL GLY GLU LYS LEU LEU SEQRES 6 A 553 ILE LYS ALA VAL SER MET ALA THR GLY VAL PRO GLU LYS SEQRES 7 A 553 GLU ILE GLU ASN SER ILE LYS ASP THR GLY ASP LEU GLY SEQRES 8 A 553 GLU SER VAL ALA LEU ALA LEU LYS LYS ARG ARG GLN LYS SEQRES 9 A 553 SER PHE PHE SER GLN PRO LEU THR ILE LYS ARG VAL TYR SEQRES 10 A 553 ASN THR PHE VAL LYS VAL ALA GLU ALA SER GLY GLU GLY SEQRES 11 A 553 SER GLN ASP ARG LYS MET LYS TYR LEU ALA ASN LEU PHE SEQRES 12 A 553 MET ASP ALA GLN PRO GLU GLU GLY LYS TYR ILE ALA ARG SEQRES 13 A 553 THR VAL LEU GLY THR MET ARG THR GLY VAL ALA GLU GLY SEQRES 14 A 553 ILE LEU ARG ASP ALA ILE ALA GLU ALA PHE LYS VAL LYS SEQRES 15 A 553 VAL GLU LEU VAL GLU ARG ALA TYR MET LEU THR SER ASP SEQRES 16 A 553 PHE GLY TYR VAL ALA LYS ILE ALA LYS LEU GLU GLY ASN SEQRES 17 A 553 GLU GLY LEU SER LYS VAL SER ILE GLN ILE GLY LYS PRO SEQRES 18 A 553 ILE ARG PRO MET LEU ALA GLN ASN ALA ALA SER VAL LYS SEQRES 19 A 553 ASP ALA LEU ILE GLU MET GLY GLY GLU ALA ALA PHE GLU SEQRES 20 A 553 ILE LYS TYR ASP GLY ALA ARG VAL GLN VAL HIS ARG ASP SEQRES 21 A 553 GLY ASP LYS VAL ILE ILE TYR SER ARG ARG LEU GLU ASN SEQRES 22 A 553 VAL THR ARG SER ILE PRO GLU ILE VAL GLU ALA VAL LYS SEQRES 23 A 553 ALA SER LEU LYS PRO SER LYS VAL ILE VAL GLU GLY GLU SEQRES 24 A 553 LEU VAL ALA VAL GLY GLU ASN GLY ARG PRO ARG PRO PHE SEQRES 25 A 553 GLN TYR VAL LEU ARG ARG PHE ARG ARG LYS TYR ASN ILE SEQRES 26 A 553 GLU GLU MET ILE GLU LYS ILE PRO LEU GLU LEU ASN LEU SEQRES 27 A 553 PHE ASP ILE LEU TYR VAL ASN GLY GLU SER LEU ILE ASP SEQRES 28 A 553 THR LYS PHE THR GLU ARG ARG LYS ARG LEU GLU GLU SER SEQRES 29 A 553 VAL GLU GLU SER ASP LYS ILE LYS LEU ALA GLU GLN LEU SEQRES 30 A 553 VAL THR LYS LYS VAL ASP GLU ALA GLU ALA PHE TYR LYS SEQRES 31 A 553 ARG ALA LEU GLU LEU GLY HIS GLU GLY LEU MET ALA LYS SEQRES 32 A 553 ARG LEU ASP ALA ILE TYR GLU PRO GLY ASN ARG GLY LYS SEQRES 33 A 553 LYS TRP LEU LYS ILE LYS PRO THR MET GLU ASN LEU ASP SEQRES 34 A 553 LEU VAL ILE ILE GLY ALA GLU TRP GLY GLU GLY ARG ARG SEQRES 35 A 553 ALA HIS LEU LEU GLY SER PHE LEU VAL GLY ALA TYR ASP SEQRES 36 A 553 PRO GLU SER GLY GLU PHE VAL PRO VAL GLY LYS VAL GLY SEQRES 37 A 553 SER GLY PHE THR ASP GLU ASP LEU VAL GLU PHE THR LYS SEQRES 38 A 553 MET LEU LYS PRO LEU ILE ILE ARG GLU GLU GLY LYS PHE SEQRES 39 A 553 VAL GLU ILE GLU PRO LYS VAL VAL ILE GLU VAL THR TYR SEQRES 40 A 553 GLN GLU ILE GLN LYS SER PRO LYS TYR LYS SER GLY PHE SEQRES 41 A 553 ALA LEU ARG PHE PRO ARG TYR VAL ALA LEU ARG GLU ASP SEQRES 42 A 553 LYS SER PRO GLU GLU ALA ASP THR ILE GLU ARG VAL ALA SEQRES 43 A 553 GLN LEU TYR GLU LEU GLN GLU HET AMP A 601 35 HETNAM AMP ADENOSINE MONOPHOSPHATE FORMUL 2 AMP C10 H14 N5 O7 P FORMUL 3 HOH *(H2 O) HELIX 1 AA1 ARG A 13 THR A 27 1 15 HELIX 2 AA2 LEU A 29 THR A 44 1 16 HELIX 3 AA3 ASP A 47 GLU A 50 5 4 HELIX 4 AA4 VAL A 51 GLY A 58 1 8 HELIX 5 AA5 GLY A 72 GLY A 85 1 14 HELIX 6 AA6 PRO A 87 GLY A 99 1 13 HELIX 7 AA7 ASP A 100 LEU A 109 1 10 HELIX 8 AA8 THR A 123 ALA A 137 1 15 HELIX 9 AA9 GLN A 143 MET A 155 1 13 HELIX 10 AB1 GLN A 158 LEU A 170 1 13 HELIX 11 AB2 ALA A 178 PHE A 190 1 13 HELIX 12 AB3 LYS A 193 SER A 205 1 13 HELIX 13 AB4 ASP A 206 LYS A 224 1 19 HELIX 14 AB5 SER A 243 MET A 251 1 9 HELIX 15 AB6 VAL A 285 SER A 288 5 4 HELIX 16 AB7 ILE A 289 LEU A 300 1 12 HELIX 17 AB8 PHE A 323 ARG A 332 1 10 HELIX 18 AB9 ASN A 335 ILE A 343 1 9 HELIX 19 AC1 ILE A 361 THR A 363 5 3 HELIX 20 AC2 LYS A 364 VAL A 376 1 13 HELIX 21 AC3 ASP A 394 LEU A 406 1 13 HELIX 22 AC4 GLU A 450 ALA A 454 5 5 HELIX 23 AC5 GLU A 485 LEU A 494 1 10 HELIX 24 AC6 THR A 552 LEU A 562 1 11 SHEET 1 AA1 5 GLN A 239 ASN A 240 0 SHEET 2 AA1 5 TRP A 429 ILE A 432 1 N TRP A 429 O GLN A 239 SHEET 3 AA1 5 GLY A 410 LYS A 414 -1 N LEU A 411 O ILE A 432 SHEET 4 AA1 5 ALA A 255 LYS A 260 -1 N ALA A 256 O LYS A 414 SHEET 5 AA1 5 GLN A 387 THR A 390 -1 O LEU A 388 N PHE A 257 SHEET 1 AA2 5 LYS A 274 SER A 279 0 SHEET 2 AA2 5 ALA A 264 ASP A 271 -1 N HIS A 269 O ILE A 276 SHEET 3 AA2 5 LYS A 304 ALA A 313 -1 O VAL A 307 N VAL A 268 SHEET 4 AA2 5 LEU A 345 VAL A 355 -1 O LEU A 353 N ILE A 306 SHEET 5 AA2 5 GLU A 358 SER A 359 -1 O GLU A 358 N VAL A 355 SHEET 1 AA3 5 LYS A 274 SER A 279 0 SHEET 2 AA3 5 ALA A 264 ASP A 271 -1 N HIS A 269 O ILE A 276 SHEET 3 AA3 5 LYS A 304 ALA A 313 -1 O VAL A 307 N VAL A 268 SHEET 4 AA3 5 LEU A 345 VAL A 355 -1 O LEU A 353 N ILE A 306 SHEET 5 AA3 5 ILE A 382 LEU A 384 1 O LYS A 383 N LEU A 349 SHEET 1 AA4 5 PRO A 474 LYS A 477 0 SHEET 2 AA4 5 LEU A 461 GLY A 463 -1 N VAL A 462 O VAL A 475 SHEET 3 AA4 5 LEU A 439 ILE A 444 -1 N ILE A 444 O LEU A 461 SHEET 4 AA4 5 VAL A 513 THR A 517 -1 O ILE A 514 N LEU A 441 SHEET 5 AA4 5 ARG A 537 LEU A 541 -1 O ALA A 540 N GLU A 515 SHEET 1 AA5 2 GLU A 447 TRP A 448 0 SHEET 2 AA5 2 LEU A 457 GLY A 458 -1 O GLY A 458 N GLU A 447 CRYST1 77.000 89.400 111.110 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 0.012987 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011186 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009000 0.00000 CONECT 4344 4345 4346 4347 4348 CONECT 4345 4344 CONECT 4346 4344 CONECT 4347 4344 CONECT 4348 4344 4349 CONECT 4349 4348 4350 4367 4368 CONECT 4350 4349 4351 4352 4369 CONECT 4351 4350 4356 CONECT 4352 4350 4353 4354 4370 CONECT 4353 4352 4371 CONECT 4354 4352 4355 4356 4372 CONECT 4355 4354 4373 CONECT 4356 4351 4354 4357 4374 CONECT 4357 4356 4358 4366 CONECT 4358 4357 4359 4375 CONECT 4359 4358 4360 CONECT 4360 4359 4361 4366 CONECT 4361 4360 4362 4363 CONECT 4362 4361 4376 4377 CONECT 4363 4361 4364 CONECT 4364 4363 4365 4378 CONECT 4365 4364 4366 CONECT 4366 4357 4360 4365 CONECT 4367 4349 CONECT 4368 4349 CONECT 4369 4350 CONECT 4370 4352 CONECT 4371 4353 CONECT 4372 4354 CONECT 4373 4355 CONECT 4374 4356 CONECT 4375 4358 CONECT 4376 4362 CONECT 4377 4362 CONECT 4378 4364 MASTER 405 0 1 24 22 0 0 6 4347 1 35 43 END