PDB Short entry for 6DWY HEADER DNA BINDING PROTEIN/DNA 28-JUN-18 6DWY TITLE HERMES TRANSPOSASE DELETION DIMER COMPLEX WITH (C/G) DNA AND CA2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: HERMES TRANSPOSASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(*AP*GP*AP*GP*AP*AP*CP*AP*AP*CP*AP*AP*CP*AP*AP*G)- COMPND 8 3'); COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (26-MER); COMPND 13 CHAIN: C; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: DNA (5'-D(*C*GP*CP*GP*TP*GP*AP*C)-3'); COMPND 17 CHAIN: D; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUSCA DOMESTICA; SOURCE 3 ORGANISM_COMMON: HOUSE FLY; SOURCE 4 ORGANISM_TAXID: 7370; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: MUSCA DOMESTICA; SOURCE 10 ORGANISM_TAXID: 7370; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: MUSCA DOMESTICA; SOURCE 14 ORGANISM_TAXID: 7370; SOURCE 15 MOL_ID: 4; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: MUSCA DOMESTICA; SOURCE 18 ORGANISM_TAXID: 7370 KEYWDS TRANSPOSASE, DNA BINDING PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR F.DYDA,A.B.HICKMAN REVDAT 3 11-OCT-23 6DWY 1 LINK REVDAT 2 23-JAN-19 6DWY 1 JRNL REVDAT 1 19-SEP-18 6DWY 0 JRNL AUTH A.B.HICKMAN,A.R.VOTH,H.EWIS,X.LI,N.L.CRAIG,F.DYDA JRNL TITL STRUCTURAL INSIGHTS INTO THE MECHANISM OF DOUBLE STRAND JRNL TITL 2 BREAK FORMATION BY HERMES, A HAT FAMILY EUKARYOTIC DNA JRNL TITL 3 TRANSPOSASE. JRNL REF NUCLEIC ACIDS RES. V. 46 10286 2018 JRNL REFN ESSN 1362-4962 JRNL PMID 30239795 JRNL DOI 10.1093/NAR/GKY838 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_2155: ???) 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) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.55 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 14296 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.261 REMARK 3 R VALUE (WORKING SET) : 0.259 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.000 REMARK 3 FREE R VALUE TEST SET COUNT : 858 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 29.5555 - 5.8027 1.00 2343 150 0.2044 0.2190 REMARK 3 2 5.8027 - 4.6114 1.00 2252 144 0.2624 0.3209 REMARK 3 3 4.6114 - 4.0302 0.99 2234 142 0.2852 0.3326 REMARK 3 4 4.0302 - 3.6624 1.00 2214 142 0.3019 0.3752 REMARK 3 5 3.6624 - 3.4003 1.00 2216 141 0.3208 0.3464 REMARK 3 6 3.4003 - 3.2001 0.99 2179 139 0.3299 0.3644 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.30 REMARK 3 SHRINKAGE RADIUS : 1.10 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.430 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 37.070 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.005 5058 REMARK 3 ANGLE : 0.747 7030 REMARK 3 CHIRALITY : 0.042 798 REMARK 3 PLANARITY : 0.005 719 REMARK 3 DIHEDRAL : 18.581 2898 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 6DWY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1000234365. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-13 REMARK 200 TEMPERATURE (KELVIN) : 95 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 : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54980 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15708 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.240 REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.6100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.18 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.67500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: AMORE REMARK 200 STARTING MODEL: 4D1Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM MES PH 5.8-6.5, 50 MM SODIUM REMARK 280 ACETATE, 15% PEG MME 2000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K 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 51.60500 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 51.60500 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 60.69000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 67.67500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 60.69000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 67.67500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.60500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 60.69000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 67.67500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.60500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 60.69000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 67.67500 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: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 23490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 55190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -168.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 135.35000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 103.21000 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 GLY A 76 REMARK 465 SER A 77 REMARK 465 HIS A 78 REMARK 465 MET A 79 REMARK 465 SER A 80 REMARK 465 ASN A 491 REMARK 465 GLU A 492 REMARK 465 LEU A 493 REMARK 465 SER A 494 REMARK 465 ALA A 495 REMARK 465 THR A 496 REMARK 465 GLN A 497 REMARK 465 LEU A 498 REMARK 465 ASN A 499 REMARK 465 GLN A 500 REMARK 465 SER A 501 REMARK 465 ASP A 502 REMARK 465 SER A 503 REMARK 465 ASN A 504 REMARK 465 SER A 505 REMARK 465 HIS A 506 REMARK 465 ASN A 507 REMARK 465 SER A 508 REMARK 465 ILE A 509 REMARK 465 ASP A 510 REMARK 465 LEU A 511 REMARK 465 THR A 512 REMARK 465 SER A 513 REMARK 465 HIS A 514 REMARK 465 SER A 515 REMARK 465 LYS A 516 REMARK 465 LEU A 610 REMARK 465 ASP A 611 REMARK 465 ILE A 612 REMARK 465 DG C 26 REMARK 465 DC D 0 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 SER A 163 CB OG REMARK 470 DG D 1 P OP1 OP2 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 VAL A 254 NH1 ARG A 262 2.16 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 PRO A 437 C PRO A 438 N 0.247 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 DG C 18 O4' - C1' - N9 ANGL. DEV. = 2.3 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 ASP A 173 -5.91 80.38 REMARK 500 GLU A 200 -76.15 -86.74 REMARK 500 ASN A 201 -68.08 -136.37 REMARK 500 ASN A 236 -0.86 79.84 REMARK 500 ASP A 239 -65.24 -141.17 REMARK 500 LEU A 240 -14.44 88.21 REMARK 500 SER A 242 -59.68 -149.66 REMARK 500 ARG A 306 -159.15 -149.10 REMARK 500 LEU A 307 -17.60 85.39 REMARK 500 ARG A 308 15.19 54.53 REMARK 500 GLU A 314 -73.26 -53.93 REMARK 500 CYS A 315 74.30 47.07 REMARK 500 THR A 346 -8.11 -56.84 REMARK 500 SER A 381 -56.35 -125.11 REMARK 500 ASP A 405 -20.69 78.03 REMARK 500 ILE A 420 -70.18 -112.27 REMARK 500 GLN A 444 -159.55 -78.61 REMARK 500 GLU A 445 -9.50 -51.12 REMARK 500 PHE A 453 -71.46 -77.26 REMARK 500 VAL A 518 -22.32 76.86 REMARK 500 SER A 519 153.33 67.77 REMARK 500 TYR A 551 76.41 -119.44 REMARK 500 GLN A 591 -116.17 43.60 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 SER A 241 SER A 242 149.44 REMARK 500 GLY A 590 GLN A 591 140.89 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 CA A 701 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 180 OD1 REMARK 620 2 ASP A 248 OD2 49.9 REMARK 620 3 DG C 18 OP2 99.8 76.3 REMARK 620 4 DC D 7 O3' 141.6 94.1 52.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 701 DBREF 6DWY A 80 612 UNP Q25438 Q25438_MUSDO 80 612 DBREF 6DWY B 1 16 PDB 6DWY 6DWY 1 16 DBREF 6DWY C 1 26 PDB 6DWY 6DWY 1 26 DBREF 6DWY D 0 7 PDB 6DWY 6DWY 0 7 SEQADV 6DWY GLY A 76 UNP Q25438 EXPRESSION TAG SEQADV 6DWY SER A 77 UNP Q25438 EXPRESSION TAG SEQADV 6DWY HIS A 78 UNP Q25438 EXPRESSION TAG SEQADV 6DWY MET A 79 UNP Q25438 EXPRESSION TAG SEQADV 6DWY GLY A 128 UNP Q25438 LYS 128 CONFLICT SEQADV 6DWY A UNP Q25438 ASP 497 DELETION SEQADV 6DWY A UNP Q25438 ILE 498 DELETION SEQADV 6DWY A UNP Q25438 SER 499 DELETION SEQADV 6DWY A UNP Q25438 THR 500 DELETION SEQADV 6DWY A UNP Q25438 THR 501 DELETION SEQADV 6DWY A UNP Q25438 SER 502 DELETION SEQADV 6DWY A UNP Q25438 PHE 503 DELETION SEQADV 6DWY A UNP Q25438 PHE 504 DELETION SEQADV 6DWY A UNP Q25438 PHE 505 DELETION SEQADV 6DWY A UNP Q25438 PRO 506 DELETION SEQADV 6DWY A UNP Q25438 GLN 507 DELETION SEQADV 6DWY A UNP Q25438 LEU 508 DELETION SEQADV 6DWY A UNP Q25438 THR 509 DELETION SEQADV 6DWY A UNP Q25438 GLN 510 DELETION SEQADV 6DWY A UNP Q25438 ASN 511 DELETION SEQADV 6DWY A UNP Q25438 ASN 512 DELETION SEQADV 6DWY A UNP Q25438 SER 513 DELETION SEQADV 6DWY A UNP Q25438 ARG 514 DELETION SEQADV 6DWY A UNP Q25438 GLU 515 DELETION SEQADV 6DWY A UNP Q25438 PRO 516 DELETION SEQADV 6DWY SER A 519 UNP Q25438 CYS 519 ENGINEERED MUTATION SEQRES 1 A 517 GLY SER HIS MET SER ARG GLU LEU LYS THR VAL SER ALA SEQRES 2 A 517 ASP CYS LYS LYS GLU ALA ILE GLU LYS CYS ALA GLN TRP SEQRES 3 A 517 VAL VAL ARG ASP CYS ARG PRO PHE SER ALA VAL SER GLY SEQRES 4 A 517 SER GLY PHE ILE ASP MET ILE LYS PHE PHE ILE LYS VAL SEQRES 5 A 517 GLY ALA GLU TYR GLY GLU HIS VAL ASN VAL GLU GLU LEU SEQRES 6 A 517 LEU PRO SER PRO ILE THR LEU SER ARG LYS VAL THR SER SEQRES 7 A 517 ASP ALA LYS GLU LYS LYS ALA LEU ILE SER ARG GLU ILE SEQRES 8 A 517 LYS SER ALA VAL GLU LYS ASP GLY ALA SER ALA THR ILE SEQRES 9 A 517 ASP LEU TRP THR ASP ASN TYR ILE LYS ARG ASN PHE LEU SEQRES 10 A 517 GLY VAL THR LEU HIS TYR HIS GLU ASN ASN GLU LEU ARG SEQRES 11 A 517 ASP LEU ILE LEU GLY LEU LYS SER LEU ASP PHE GLU ARG SEQRES 12 A 517 SER THR ALA GLU ASN ILE TYR LYS LYS LEU LYS ALA ILE SEQRES 13 A 517 PHE SER GLN PHE ASN VAL GLU ASP LEU SER SER ILE LYS SEQRES 14 A 517 PHE VAL THR ASP ARG GLY ALA ASN VAL VAL LYS SER LEU SEQRES 15 A 517 ALA ASN ASN ILE ARG ILE ASN CYS SER SER HIS LEU LEU SEQRES 16 A 517 SER ASN VAL LEU GLU ASN SER PHE GLU GLU THR PRO GLU SEQRES 17 A 517 LEU ASN MET PRO ILE LEU ALA CYS LYS ASN ILE VAL LYS SEQRES 18 A 517 TYR PHE LYS LYS ALA ASN LEU GLN HIS ARG LEU ARG SER SEQRES 19 A 517 SER LEU LYS SER GLU CYS PRO THR ARG TRP ASN SER THR SEQRES 20 A 517 TYR THR MET LEU ARG SER ILE LEU ASP ASN TRP GLU SER SEQRES 21 A 517 VAL ILE GLN ILE LEU SER GLU ALA GLY GLU THR GLN ARG SEQRES 22 A 517 ILE VAL HIS ILE ASN LYS SER ILE ILE GLN THR MET VAL SEQRES 23 A 517 ASN ILE LEU ASP GLY PHE GLU ARG ILE PHE LYS GLU LEU SEQRES 24 A 517 GLN THR CYS SER SER PRO SER LEU CYS PHE VAL VAL PRO SEQRES 25 A 517 SER ILE LEU LYS VAL LYS GLU ILE CYS SER PRO ASP VAL SEQRES 26 A 517 GLY ASP VAL ALA ASP ILE ALA LYS LEU LYS VAL ASN ILE SEQRES 27 A 517 ILE LYS ASN VAL ARG ILE ILE TRP GLU GLU ASN LEU SER SEQRES 28 A 517 ILE TRP HIS TYR THR ALA PHE PHE PHE TYR PRO PRO ALA SEQRES 29 A 517 LEU HIS MET GLN GLN GLU LYS VAL ALA GLN ILE LYS GLU SEQRES 30 A 517 PHE CYS LEU SER LYS MET GLU ASP LEU GLU LEU ILE ASN SEQRES 31 A 517 ARG MET SER SER PHE ASN GLU LEU SER ALA THR GLN LEU SEQRES 32 A 517 ASN GLN SER ASP SER ASN SER HIS ASN SER ILE ASP LEU SEQRES 33 A 517 THR SER HIS SER LYS PRO VAL SER PRO SER ASP GLU PHE SEQRES 34 A 517 GLU PHE TYR ARG LYS GLU ILE VAL ILE LEU SER GLU ASP SEQRES 35 A 517 PHE LYS VAL MET GLU TRP TRP ASN LEU ASN SER LYS LYS SEQRES 36 A 517 TYR PRO LYS LEU SER LYS LEU ALA LEU SER LEU LEU SER SEQRES 37 A 517 ILE PRO ALA SER SER ALA ALA SER GLU ARG THR PHE SER SEQRES 38 A 517 LEU ALA GLY ASN ILE ILE THR GLU LYS ARG ASN ARG ILE SEQRES 39 A 517 GLY GLN GLN THR VAL ASP SER LEU LEU PHE LEU ASN SER SEQRES 40 A 517 PHE TYR LYS ASN PHE CYS LYS LEU ASP ILE SEQRES 1 B 16 DA DG DA DG DA DA DC DA DA DC DA DA DC SEQRES 2 B 16 DA DA DG SEQRES 1 C 26 DC DT DT DG DT DT DG DT DT DG DT DT DC SEQRES 2 C 26 DT DC DT DG DG DG DT DC DA DC DG DC DG SEQRES 1 D 8 DC DG DC DG DT DG DA DC HET CA A 701 1 HETNAM CA CALCIUM ION FORMUL 5 CA CA 2+ HELIX 1 AA1 SER A 87 CYS A 106 1 20 HELIX 2 AA2 PRO A 108 VAL A 112 5 5 HELIX 3 AA3 GLY A 114 GLY A 132 1 19 HELIX 4 AA4 ASN A 136 LEU A 141 1 6 HELIX 5 AA5 SER A 143 LYS A 172 1 30 HELIX 6 AA6 THR A 220 SER A 233 1 14 HELIX 7 AA7 GLY A 250 LEU A 257 1 8 HELIX 8 AA8 CYS A 265 GLU A 280 1 16 HELIX 9 AA9 THR A 281 GLU A 283 5 3 HELIX 10 AB1 LEU A 284 ALA A 301 1 18 HELIX 11 AB2 ASN A 320 ASN A 332 1 13 HELIX 12 AB3 ASN A 332 ALA A 343 1 12 HELIX 13 AB4 THR A 346 HIS A 351 1 6 HELIX 14 AB5 ASN A 353 LEU A 374 1 22 HELIX 15 AB6 SER A 381 CYS A 383 5 3 HELIX 16 AB7 PHE A 384 CYS A 396 1 13 HELIX 17 AB8 ILE A 406 ILE A 420 1 15 HELIX 18 AB9 TRP A 421 LEU A 425 5 5 HELIX 19 AC1 SER A 426 PHE A 435 1 10 HELIX 20 AC2 GLU A 445 MET A 467 1 23 HELIX 21 AC3 SER A 519 LYS A 529 1 11 HELIX 22 AC4 LYS A 539 TRP A 544 1 6 HELIX 23 AC5 TYR A 551 LEU A 562 1 12 HELIX 24 AC6 SER A 568 ILE A 582 1 15 HELIX 25 AC7 GLY A 590 PHE A 607 1 18 SHEET 1 AA1 5 LEU A 204 SER A 213 0 SHEET 2 AA1 5 ASN A 190 HIS A 199 -1 N TYR A 198 O ARG A 205 SHEET 3 AA1 5 ALA A 175 THR A 183 -1 N SER A 176 O HIS A 197 SHEET 4 AA1 5 LYS A 244 THR A 247 1 O LYS A 244 N ALA A 177 SHEET 5 AA1 5 ILE A 261 ASN A 264 1 O ILE A 263 N THR A 247 LINK OD1 ASP A 180 CA CA A 701 1555 1555 3.06 LINK OD2 ASP A 248 CA CA A 701 1555 1555 3.17 LINK CA CA A 701 OP2 DG C 18 1555 1555 2.95 LINK CA CA A 701 O3' DC D 7 1555 1555 2.88 SITE 1 AC1 4 ASP A 180 ASP A 248 DG C 18 DC D 7 CRYST1 121.380 135.350 103.210 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 0.008239 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007388 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009689 0.00000