HEADER TRANSCRIPTION 21-SEP-15 5DV1 OBSLTE 31-MAY-17 5DV1 5XGF TITLE THE FATTY ACID-RESPONSIVE FADR REPRESSOR OF VIBRIO ALGINOLYTICUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: GNTR FAMILY TRANSCRIPTIONAL REGULATOR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO ALGINOLYTICUS; SOURCE 3 ORGANISM_TAXID: 663; SOURCE 4 STRAIN: E0666; SOURCE 5 GENE: AAW52_18775; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-28A KEYWDS FATTY ACID-RESPONSIVE FADR REPRESSOR, PALMITOYL1-COA ESTER BINDING, KEYWDS 2 DNA BINDING, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR Y.LIN,D.F.LI,Y.J.FENG REVDAT 2 31-MAY-17 5DV1 1 OBSLTE REVDAT 1 05-OCT-16 5DV1 0 JRNL AUTH Y.J.FENG,Y.LIN,D.F.LI,H.M.ZHANG,R.S.GAO,L.J.BI,S.H.WANG JRNL TITL SNAPSHORT OF VIBRIO FADR-LIGAND COMPLEX STRUCTURE REVEALS A JRNL TITL 2 NEW MECHANISM FOR BACTERIAL FATTY ACID SENSING JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 17995 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1800 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 18.4745 - 5.4809 0.96 1338 150 0.2091 0.2649 REMARK 3 2 5.4809 - 4.3693 0.94 1225 135 0.1901 0.2457 REMARK 3 3 4.3693 - 3.8226 0.99 1268 142 0.1895 0.2155 REMARK 3 4 3.8226 - 3.4756 0.98 1242 137 0.2028 0.2762 REMARK 3 5 3.4756 - 3.2279 0.99 1256 140 0.2180 0.2332 REMARK 3 6 3.2279 - 3.0385 1.00 1241 138 0.2326 0.2696 REMARK 3 7 3.0385 - 2.8869 1.00 1260 140 0.2387 0.2877 REMARK 3 8 2.8869 - 2.7617 1.00 1245 138 0.2400 0.2410 REMARK 3 9 2.7617 - 2.6557 1.00 1240 138 0.2396 0.2977 REMARK 3 10 2.6557 - 2.5643 1.00 1241 137 0.2383 0.3183 REMARK 3 11 2.5643 - 2.4843 1.00 1241 139 0.2423 0.2835 REMARK 3 12 2.4843 - 2.4134 0.99 1237 138 0.2503 0.2600 REMARK 3 13 2.4134 - 2.3500 0.95 1161 128 0.2612 0.3250 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.510 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.00 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 : 0.007 2247 REMARK 3 ANGLE : 1.377 3037 REMARK 3 CHIRALITY : 0.047 331 REMARK 3 PLANARITY : 0.007 393 REMARK 3 DIHEDRAL : 16.149 842 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 9 THROUGH 57 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.1536 15.5063 6.7146 REMARK 3 T TENSOR REMARK 3 T11: 1.9648 T22: 0.6906 REMARK 3 T33: 1.9030 T12: -0.5359 REMARK 3 T13: -0.7036 T23: 0.1782 REMARK 3 L TENSOR REMARK 3 L11: 0.1490 L22: 0.6469 REMARK 3 L33: 1.7257 L12: 0.1690 REMARK 3 L13: 0.3198 L23: -0.1642 REMARK 3 S TENSOR REMARK 3 S11: -0.6377 S12: -0.0002 S13: 1.8073 REMARK 3 S21: 0.3164 S22: -0.5218 S23: -0.2173 REMARK 3 S31: -1.7497 S32: 1.1822 S33: 0.5425 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 58 THROUGH 93 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.8756 6.7866 4.6996 REMARK 3 T TENSOR REMARK 3 T11: 0.7859 T22: 0.3499 REMARK 3 T33: 0.8890 T12: -0.1238 REMARK 3 T13: -0.2118 T23: 0.0068 REMARK 3 L TENSOR REMARK 3 L11: 4.2449 L22: 2.7411 REMARK 3 L33: 1.0784 L12: -1.6250 REMARK 3 L13: 1.5479 L23: -1.6462 REMARK 3 S TENSOR REMARK 3 S11: -0.6894 S12: -0.1150 S13: 1.4579 REMARK 3 S21: 0.7770 S22: -0.1556 S23: -0.0512 REMARK 3 S31: -1.5610 S32: 0.5105 S33: 0.0917 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 94 THROUGH 278 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.8993 -19.6237 12.6720 REMARK 3 T TENSOR REMARK 3 T11: 0.1984 T22: 0.4353 REMARK 3 T33: 0.2377 T12: 0.0458 REMARK 3 T13: -0.0636 T23: -0.0136 REMARK 3 L TENSOR REMARK 3 L11: 3.0116 L22: 1.8710 REMARK 3 L33: 4.0100 L12: -0.7464 REMARK 3 L13: 0.6884 L23: -1.0991 REMARK 3 S TENSOR REMARK 3 S11: -0.0857 S12: -0.3783 S13: 0.0509 REMARK 3 S21: 0.2145 S22: 0.1073 S23: -0.2100 REMARK 3 S31: 0.1464 S32: 0.6478 S33: -0.0615 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 5DV1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000207520. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-SEP-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL 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 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18014 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 18.470 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 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: 1E2X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM CALCIUM ACETATE, 100MM SODIUM REMARK 280 CACODYLATE PH6.5, 7% PEG 8000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 72.20500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 108.30750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 36.10250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 108.30750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 36.10250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.20500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 MET A -20 REMARK 465 GLY A -19 REMARK 465 SER A -18 REMARK 465 SER A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 SER A -10 REMARK 465 SER A -9 REMARK 465 GLY A -8 REMARK 465 LEU A -7 REMARK 465 VAL A -6 REMARK 465 PRO A -5 REMARK 465 ARG A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 MET A 1 REMARK 465 VAL A 2 REMARK 465 ILE A 3 REMARK 465 LYS A 4 REMARK 465 ALA A 5 REMARK 465 LYS A 6 REMARK 465 SER A 7 REMARK 465 SER A 279 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 OD1 ASN A 22 O HOH A 401 2.19 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 PRO A 26 C - N - CA ANGL. DEV. = 13.6 DEGREES REMARK 500 PRO A 26 C - N - CD ANGL. DEV. = -13.1 DEGREES REMARK 500 LEU A 31 CA - CB - CG ANGL. DEV. = 14.1 DEGREES REMARK 500 PRO A 32 C - N - CA ANGL. DEV. = 15.6 DEGREES REMARK 500 PRO A 32 C - N - CD ANGL. DEV. = -19.4 DEGREES REMARK 500 ARG A 54 CB - CG - CD ANGL. DEV. = -15.9 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 PRO A 26 158.67 -48.28 REMARK 500 PRO A 27 -77.59 -55.63 REMARK 500 SER A 29 -156.31 -150.34 REMARK 500 PRO A 32 -152.77 -66.35 REMARK 500 GLU A 34 -65.82 -27.20 REMARK 500 THR A 44 168.27 -28.46 REMARK 500 ARG A 45 -131.02 -76.08 REMARK 500 THR A 46 18.55 -60.54 REMARK 500 HIS A 65 133.66 -38.41 REMARK 500 PRO A 68 -152.16 -72.27 REMARK 500 PHE A 74 104.49 -51.41 REMARK 500 ASP A 90 140.13 70.37 REMARK 500 VAL A 161 53.20 -103.03 REMARK 500 GLU A 163 -25.66 -156.68 REMARK 500 ASP A 164 51.04 -59.90 REMARK 500 THR A 275 75.18 -111.39 REMARK 500 ASP A 277 -174.55 -59.25 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 TYR A 15 ILE A 16 146.89 REMARK 500 LEU A 31 PRO A 32 -128.55 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 NI A 301 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 100 OD1 REMARK 620 2 HOH A 418 O 73.2 REMARK 620 3 HOH A 426 O 75.0 78.3 REMARK 620 4 GLY A 197 O 37.7 89.6 111.6 REMARK 620 5 HOH A 480 O 177.0 107.4 102.2 144.7 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 NI A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DV5 RELATED DB: PDB DBREF1 5DV1 A 1 279 UNP A0A0G9LXQ8_VIBAL DBREF2 5DV1 A A0A0G9LXQ8 1 279 SEQADV 5DV1 MET A -20 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 GLY A -19 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 SER A -18 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 SER A -17 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 HIS A -16 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 HIS A -15 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 HIS A -14 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 HIS A -13 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 HIS A -12 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 HIS A -11 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 SER A -10 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 SER A -9 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 GLY A -8 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 LEU A -7 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 VAL A -6 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 PRO A -5 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 ARG A -4 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 GLY A -3 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 SER A -2 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 HIS A -1 UNP A0A0G9LXQ EXPRESSION TAG SEQADV 5DV1 MET A 0 UNP A0A0G9LXQ EXPRESSION TAG SEQRES 1 A 300 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 300 LEU VAL PRO ARG GLY SER HIS MET MET VAL ILE LYS ALA SEQRES 3 A 300 LYS SER PRO ALA GLY PHE ALA GLU LYS TYR ILE ILE GLU SEQRES 4 A 300 SER ILE TRP ASN GLY ARG PHE PRO PRO GLY SER ILE LEU SEQRES 5 A 300 PRO ALA GLU ARG GLU LEU SER GLU LEU ILE GLY VAL THR SEQRES 6 A 300 ARG THR THR LEU ARG GLU VAL LEU GLN ARG LEU ALA ARG SEQRES 7 A 300 ASP GLY TRP LEU THR ILE GLN HIS GLY LYS PRO THR LYS SEQRES 8 A 300 VAL ASN GLN PHE MET GLU THR SER GLY LEU HIS ILE LEU SEQRES 9 A 300 ASP THR LEU MET THR LEU ASP VAL ASP ASN ALA THR ASN SEQRES 10 A 300 ILE VAL GLU ASP LEU LEU ALA ALA ARG THR ASN ILE SER SEQRES 11 A 300 PRO ILE PHE MET ARG TYR ALA PHE LYS ALA ASN LYS GLU SEQRES 12 A 300 ASN SER GLU ARG THR ILE LYS ASN VAL ILE GLU SER CYS SEQRES 13 A 300 GLU ALA LEU MET ASN ALA ALA SER TRP ASP ASP PHE ILE SEQRES 14 A 300 ALA SER SER PRO TYR ALA GLU LYS VAL LEU GLN ASN VAL SEQRES 15 A 300 LYS GLU ASP ASN GLU LYS ASP GLU ALA LYS ARG GLN GLU SEQRES 16 A 300 ILE LEU ILE ALA LYS THR PHE ASN PHE TYR ASP TYR MET SEQRES 17 A 300 LEU PHE GLN ARG LEU ALA PHE HIS SER GLY ASN GLN ILE SEQRES 18 A 300 TYR GLY LEU ILE PHE ASN GLY LEU LYS LYS LEU TYR ASP SEQRES 19 A 300 ARG VAL GLY SER TYR TYR PHE SER ASN PRO ALA SER ARG SEQRES 20 A 300 GLU LEU ALA LEU LYS PHE TYR HIS GLN LEU LEU GLU THR SEQRES 21 A 300 CYS GLU SER GLY GLN ARG GLU GLN LEU PRO VAL VAL ILE SEQRES 22 A 300 ARG HIS TYR GLY MET GLU SER ALA LEU ILE TRP ASN GLU SEQRES 23 A 300 MET LYS LYS GLN LEU PRO THR ASN PHE THR GLU ASP ASP SEQRES 24 A 300 SER HET NI A 301 1 HETNAM NI NICKEL (II) ION FORMUL 2 NI NI 2+ FORMUL 3 HOH *101(H2 O) HELIX 1 AA1 PRO A 8 ASN A 22 1 15 HELIX 2 AA2 ARG A 35 ILE A 41 1 7 HELIX 3 AA3 THR A 47 LEU A 52 1 6 HELIX 4 AA4 HIS A 81 LEU A 89 1 9 HELIX 5 AA5 ASN A 93 ASN A 120 1 28 HELIX 6 AA6 ASN A 120 ALA A 141 1 22 HELIX 7 AA7 SER A 143 SER A 150 1 8 HELIX 8 AA8 TYR A 153 VAL A 161 1 9 HELIX 9 AA9 ASP A 168 SER A 196 1 29 HELIX 10 AB1 ASN A 198 PHE A 220 1 23 HELIX 11 AB2 ASN A 222 GLY A 243 1 22 HELIX 12 AB3 GLU A 246 LYS A 267 1 22 HELIX 13 AB4 LYS A 268 LEU A 270 5 3 HELIX 14 AB5 PRO A 271 GLU A 276 5 6 SHEET 1 AA1 2 LEU A 61 ILE A 63 0 SHEET 2 AA1 2 THR A 69 VAL A 71 -1 O LYS A 70 N THR A 62 LINK OD1 ASP A 100 NI NI A 301 1555 1555 2.42 LINK NI NI A 301 O HOH A 418 1555 1555 2.23 LINK NI NI A 301 O HOH A 426 1555 1555 2.52 LINK O GLY A 197 NI NI A 301 1555 7555 2.32 LINK NI NI A 301 O HOH A 480 1555 7555 2.53 SITE 1 AC1 6 ASP A 100 GLY A 197 HOH A 418 HOH A 426 SITE 2 AC1 6 HOH A 480 HOH A 489 CRYST1 76.000 76.000 144.410 90.00 90.00 90.00 P 43 21 2 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 0.013158 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013158 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006925 0.00000