HEADER DNA BINDING PROTEIN/DNA 06-APR-09 3GZ6 TITLE CRYSTAL STRUCTURE OF SHEWANELLA ONEIDENSIS NRTR COMPLEXED WITH A 27MER TITLE 2 DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: MUTT/NUDIX FAMILY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (27-MER); COMPND 7 CHAIN: D; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA (27-MER); COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHEWANELLA ONEIDENSIS; SOURCE 3 ORGANISM_TAXID: 70863; SOURCE 4 GENE: NRTR, SO_1979; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES KEYWDS DNA BINDING PROTEIN, NUDIX DOMAIN, WHTH DOMAIN, DNA BINDING PROTEIN- KEYWDS 2 DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.HUANG,H.ZHANG REVDAT 6 06-SEP-23 3GZ6 1 REMARK SEQADV REVDAT 5 24-JUL-19 3GZ6 1 REMARK REVDAT 4 04-APR-18 3GZ6 1 REMARK REVDAT 3 01-NOV-17 3GZ6 1 REMARK REVDAT 2 28-JUL-09 3GZ6 1 JRNL REVDAT 1 09-JUN-09 3GZ6 0 JRNL AUTH N.HUANG,J.DE INGENIIS,L.GALEAZZI,C.MANCINI,Y.D.KOROSTELEV, JRNL AUTH 2 A.B.RAKHMANINOVA,M.S.GELFAND,D.A.RODIONOV,N.RAFFAELLI, JRNL AUTH 3 H.ZHANG JRNL TITL STRUCTURE AND FUNCTION OF AN ADP-RIBOSE-DEPENDENT JRNL TITL 2 TRANSCRIPTIONAL REGULATOR OF NAD METABOLISM JRNL REF STRUCTURE V. 17 939 2009 JRNL REFN ISSN 0969-2126 JRNL PMID 19604474 JRNL DOI 10.1016/J.STR.2009.05.012 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.22 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 23248 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.160 REMARK 3 FREE R VALUE TEST SET COUNT : 1199 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 33.2193 - 6.0239 0.99 2529 129 0.1906 0.2378 REMARK 3 2 6.0239 - 4.7860 0.99 2500 137 0.1420 0.2009 REMARK 3 3 4.7860 - 4.1823 0.99 2448 133 0.1246 0.2036 REMARK 3 4 4.1823 - 3.8005 0.99 2428 147 0.1414 0.2095 REMARK 3 5 3.8005 - 3.5284 0.99 2459 129 0.1622 0.2322 REMARK 3 6 3.5284 - 3.3206 0.99 2433 116 0.1759 0.2851 REMARK 3 7 3.3206 - 3.1544 0.98 2421 143 0.1851 0.2901 REMARK 3 8 3.1544 - 3.0172 0.98 2391 140 0.2044 0.2912 REMARK 3 9 3.0172 - 2.9011 0.98 2440 125 0.2270 0.3332 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 : 0.30 REMARK 3 B_SOL : 22.27 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.910 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : -0.01000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.008 4873 REMARK 3 ANGLE : 1.338 6860 REMARK 3 CHIRALITY : 0.067 779 REMARK 3 PLANARITY : 0.006 690 REMARK 3 DIHEDRAL : 22.159 1883 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3GZ6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052489. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-APR-08 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL 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 : OTHER REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23259 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 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 (%) : 98.4 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.6840 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.47800 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: NULL REMARK 200 STARTING MODEL: PDB ENTRY 3GZ5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -Y,-X,-Z+1/3 REMARK 290 5555 -X+Y,Y,-Z+2/3 REMARK 290 6555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.71133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 24.35567 REMARK 290 SMTRY1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 24.35567 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 48.71133 REMARK 290 SMTRY1 6 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, B, C 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 GLU A 3 REMARK 465 ALA A 4 REMARK 465 GLU A 5 REMARK 465 TYR A 6 REMARK 465 LEU A 7 REMARK 465 ALA A 8 REMARK 465 ASN A 9 REMARK 465 TYR A 10 REMARK 465 ASP A 11 REMARK 465 PRO A 12 REMARK 465 LYS A 13 REMARK 465 ALA A 14 REMARK 465 PHE A 15 REMARK 465 LYS A 16 REMARK 465 ALA A 17 REMARK 465 CYS A 237 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 GLU B 3 REMARK 465 ALA B 4 REMARK 465 GLU B 5 REMARK 465 TYR B 6 REMARK 465 LEU B 7 REMARK 465 ALA B 8 REMARK 465 ASN B 9 REMARK 465 TYR B 10 REMARK 465 ASP B 11 REMARK 465 PRO B 12 REMARK 465 LYS B 13 REMARK 465 ALA B 14 REMARK 465 PHE B 15 REMARK 465 LYS B 16 REMARK 465 ALA B 17 REMARK 465 CYS B 237 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 DG D 1 P DG D 1 OP3 -0.121 REMARK 500 DG C 1 P DG C 1 OP3 -0.126 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 DT D 2 C5 - C4 - O4 ANGL. DEV. = -4.2 DEGREES REMARK 500 DA D 3 C3' - C2' - C1' ANGL. DEV. = -4.9 DEGREES REMARK 500 DA D 4 C1' - O4' - C4' ANGL. DEV. = -7.9 DEGREES REMARK 500 DA D 4 O4' - C1' - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DT D 5 O5' - C5' - C4' ANGL. DEV. = -6.0 DEGREES REMARK 500 DT D 5 C1' - O4' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 DT D 5 O4' - C1' - C2' ANGL. DEV. = -6.6 DEGREES REMARK 500 DT D 5 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA D 6 O4' - C1' - N9 ANGL. DEV. = -4.7 DEGREES REMARK 500 DG D 7 C1' - O4' - C4' ANGL. DEV. = -6.9 DEGREES REMARK 500 DT D 10 C3' - C2' - C1' ANGL. DEV. = -8.1 DEGREES REMARK 500 DT D 10 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 DT D 12 C5 - C4 - O4 ANGL. DEV. = -4.3 DEGREES REMARK 500 DA D 15 C3' - C2' - C1' ANGL. DEV. = -5.1 DEGREES REMARK 500 DA D 15 O4' - C1' - N9 ANGL. DEV. = 5.2 DEGREES REMARK 500 DC D 19 C3' - C2' - C1' ANGL. DEV. = -5.6 DEGREES REMARK 500 DC D 19 O4' - C1' - N1 ANGL. DEV. = 5.7 DEGREES REMARK 500 DA D 20 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DC D 21 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 DT D 22 N3 - C4 - O4 ANGL. DEV. = 4.6 DEGREES REMARK 500 DT D 22 C5 - C4 - O4 ANGL. DEV. = -4.8 DEGREES REMARK 500 DA D 23 O4' - C1' - N9 ANGL. DEV. = -5.0 DEGREES REMARK 500 DT D 25 O4' - C4' - C3' ANGL. DEV. = -4.5 DEGREES REMARK 500 DT D 25 C1' - O4' - C4' ANGL. DEV. = -6.5 DEGREES REMARK 500 DT C 2 C5 - C4 - O4 ANGL. DEV. = -4.2 DEGREES REMARK 500 DA C 4 C1' - O4' - C4' ANGL. DEV. = -7.4 DEGREES REMARK 500 DA C 4 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT C 5 O5' - C5' - C4' ANGL. DEV. = -5.7 DEGREES REMARK 500 DT C 5 O4' - C1' - C2' ANGL. DEV. = -4.8 DEGREES REMARK 500 DT C 5 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT C 5 C3' - O3' - P ANGL. DEV. = 7.5 DEGREES REMARK 500 DG C 7 C1' - O4' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 DG C 7 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DG C 9 C4' - C3' - C2' ANGL. DEV. = -4.3 DEGREES REMARK 500 DT C 10 C3' - C2' - C1' ANGL. DEV. = -6.8 DEGREES REMARK 500 DT C 10 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 DA C 15 C3' - C2' - C1' ANGL. DEV. = -6.3 DEGREES REMARK 500 DA C 15 O4' - C1' - N9 ANGL. DEV. = 5.5 DEGREES REMARK 500 DC C 19 C3' - C2' - C1' ANGL. DEV. = -5.7 DEGREES REMARK 500 DC C 19 O4' - C1' - N1 ANGL. DEV. = 5.7 DEGREES REMARK 500 DA C 20 C3' - C2' - C1' ANGL. DEV. = -5.0 DEGREES REMARK 500 DA C 20 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC C 21 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 DT C 22 N3 - C4 - O4 ANGL. DEV. = 4.4 DEGREES REMARK 500 DA C 23 O4' - C1' - N9 ANGL. DEV. = -5.4 DEGREES REMARK 500 DT C 25 O4' - C4' - C3' ANGL. DEV. = -4.8 DEGREES REMARK 500 DT C 25 C1' - O4' - C4' ANGL. DEV. = -6.6 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 19 -7.14 81.15 REMARK 500 CYS A 88 172.69 178.63 REMARK 500 ASN A 92 -165.21 -168.77 REMARK 500 ALA A 114 -16.06 -45.23 REMARK 500 LEU A 134 12.33 -65.08 REMARK 500 PHE A 140 -132.44 50.15 REMARK 500 TYR A 159 11.72 -142.74 REMARK 500 LEU B 19 -0.24 75.59 REMARK 500 ASN B 92 -169.00 -168.21 REMARK 500 ASP B 132 -71.74 -64.85 REMARK 500 VAL B 133 -48.56 -15.76 REMARK 500 LEU B 134 5.80 -61.99 REMARK 500 PHE B 140 -130.99 46.67 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 NA A 238 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GZ5 RELATED DB: PDB REMARK 900 RELATED ID: 3GZ8 RELATED DB: PDB DBREF 3GZ6 A 1 237 UNP Q8EFJ3 Q8EFJ3_SHEON 1 237 DBREF 3GZ6 D 1 27 PDB 3GZ6 3GZ6 1 27 DBREF 3GZ6 B 1 237 UNP Q8EFJ3 Q8EFJ3_SHEON 1 237 DBREF 3GZ6 C 1 27 PDB 3GZ6 3GZ6 1 27 SEQADV 3GZ6 GLY A -2 UNP Q8EFJ3 EXPRESSION TAG SEQADV 3GZ6 SER A -1 UNP Q8EFJ3 EXPRESSION TAG SEQADV 3GZ6 HIS A 0 UNP Q8EFJ3 EXPRESSION TAG SEQADV 3GZ6 GLY B -2 UNP Q8EFJ3 EXPRESSION TAG SEQADV 3GZ6 SER B -1 UNP Q8EFJ3 EXPRESSION TAG SEQADV 3GZ6 HIS B 0 UNP Q8EFJ3 EXPRESSION TAG SEQRES 1 A 240 GLY SER HIS MET THR GLU ALA GLU TYR LEU ALA ASN TYR SEQRES 2 A 240 ASP PRO LYS ALA PHE LYS ALA GLN LEU LEU THR VAL ASP SEQRES 3 A 240 ALA VAL LEU PHE THR TYR HIS ASP GLN GLN LEU LYS VAL SEQRES 4 A 240 LEU LEU VAL GLN ARG SER ASN HIS PRO PHE LEU GLY LEU SEQRES 5 A 240 TRP GLY LEU PRO GLY GLY PHE ILE ASP GLU THR CYS ASP SEQRES 6 A 240 GLU SER LEU GLU GLN THR VAL LEU ARG LYS LEU ALA GLU SEQRES 7 A 240 LYS THR ALA VAL VAL PRO PRO TYR ILE GLU GLN LEU CYS SEQRES 8 A 240 THR VAL GLY ASN ASN SER ARG ASP ALA ARG GLY TRP SER SEQRES 9 A 240 VAL THR VAL CYS TYR THR ALA LEU MET SER TYR GLN ALA SEQRES 10 A 240 CYS GLN ILE GLN ILE ALA SER VAL SER ASP VAL LYS TRP SEQRES 11 A 240 TRP PRO LEU ALA ASP VAL LEU GLN MET PRO LEU ALA PHE SEQRES 12 A 240 ASP HIS LEU GLN LEU ILE GLU GLN ALA ARG GLU ARG LEU SEQRES 13 A 240 THR GLN LYS ALA LEU TYR SER LEU VAL PRO GLY PHE ALA SEQRES 14 A 240 LEU SER GLU PRO PHE THR LEU PRO GLU LEU GLN HIS VAL SEQRES 15 A 240 HIS GLU VAL LEU LEU GLY LYS PRO ILE GLN GLY LYS SER SEQRES 16 A 240 PHE ARG ARG ARG VAL GLU GLN ALA ASP LEU LEU ILE ASP SEQRES 17 A 240 THR GLY LEU LYS ARG THR GLU ARG GLY ARG PRO ALA ASN SEQRES 18 A 240 LEU TYR CYS LEU LYS PRO ASP THR ALA SER TYR ARG PHE SEQRES 19 A 240 LEU ARG ASN LEU GLU CYS SEQRES 1 D 27 DG DT DA DA DT DA DG DT DG DT DC DT DT SEQRES 2 D 27 DT DA DA DG DA DC DA DC DT DA DT DT DA SEQRES 3 D 27 DC SEQRES 1 B 240 GLY SER HIS MET THR GLU ALA GLU TYR LEU ALA ASN TYR SEQRES 2 B 240 ASP PRO LYS ALA PHE LYS ALA GLN LEU LEU THR VAL ASP SEQRES 3 B 240 ALA VAL LEU PHE THR TYR HIS ASP GLN GLN LEU LYS VAL SEQRES 4 B 240 LEU LEU VAL GLN ARG SER ASN HIS PRO PHE LEU GLY LEU SEQRES 5 B 240 TRP GLY LEU PRO GLY GLY PHE ILE ASP GLU THR CYS ASP SEQRES 6 B 240 GLU SER LEU GLU GLN THR VAL LEU ARG LYS LEU ALA GLU SEQRES 7 B 240 LYS THR ALA VAL VAL PRO PRO TYR ILE GLU GLN LEU CYS SEQRES 8 B 240 THR VAL GLY ASN ASN SER ARG ASP ALA ARG GLY TRP SER SEQRES 9 B 240 VAL THR VAL CYS TYR THR ALA LEU MET SER TYR GLN ALA SEQRES 10 B 240 CYS GLN ILE GLN ILE ALA SER VAL SER ASP VAL LYS TRP SEQRES 11 B 240 TRP PRO LEU ALA ASP VAL LEU GLN MET PRO LEU ALA PHE SEQRES 12 B 240 ASP HIS LEU GLN LEU ILE GLU GLN ALA ARG GLU ARG LEU SEQRES 13 B 240 THR GLN LYS ALA LEU TYR SER LEU VAL PRO GLY PHE ALA SEQRES 14 B 240 LEU SER GLU PRO PHE THR LEU PRO GLU LEU GLN HIS VAL SEQRES 15 B 240 HIS GLU VAL LEU LEU GLY LYS PRO ILE GLN GLY LYS SER SEQRES 16 B 240 PHE ARG ARG ARG VAL GLU GLN ALA ASP LEU LEU ILE ASP SEQRES 17 B 240 THR GLY LEU LYS ARG THR GLU ARG GLY ARG PRO ALA ASN SEQRES 18 B 240 LEU TYR CYS LEU LYS PRO ASP THR ALA SER TYR ARG PHE SEQRES 19 B 240 LEU ARG ASN LEU GLU CYS SEQRES 1 C 27 DG DT DA DA DT DA DG DT DG DT DC DT DT SEQRES 2 C 27 DA DA DA DG DA DC DA DC DT DA DT DT DA SEQRES 3 C 27 DC HET NA A 238 1 HETNAM NA SODIUM ION FORMUL 5 NA NA 1+ FORMUL 6 HOH *73(H2 O) HELIX 1 1 SER A 64 ALA A 78 1 15 HELIX 2 2 TYR A 112 SER A 121 1 10 HELIX 3 3 LEU A 130 LEU A 134 1 5 HELIX 4 4 ASP A 141 SER A 160 1 20 HELIX 5 5 LEU A 161 LEU A 167 5 7 HELIX 6 6 THR A 172 LEU A 184 1 13 HELIX 7 7 GLN A 189 ASP A 201 1 13 HELIX 8 8 PRO A 224 SER A 228 5 5 HELIX 9 9 SER B 64 ALA B 78 1 15 HELIX 10 10 TYR B 112 SER B 121 1 10 HELIX 11 11 LEU B 130 LEU B 134 1 5 HELIX 12 12 ASP B 141 SER B 160 1 20 HELIX 13 13 LEU B 161 LEU B 167 5 7 HELIX 14 14 LEU B 173 GLY B 185 1 13 HELIX 15 15 GLN B 189 ASP B 201 1 13 HELIX 16 16 PRO B 224 SER B 228 5 5 SHEET 1 A 5 TRP A 50 GLY A 51 0 SHEET 2 A 5 LEU A 34 GLN A 40 -1 N VAL A 39 O GLY A 51 SHEET 3 A 5 THR A 21 TYR A 29 -1 N THR A 28 O LYS A 35 SHEET 4 A 5 SER A 101 LEU A 109 1 O TYR A 106 N VAL A 25 SHEET 5 A 5 TYR A 83 ASN A 92 -1 N GLU A 85 O THR A 107 SHEET 1 B 4 GLY A 54 GLY A 55 0 SHEET 2 B 4 THR A 21 TYR A 29 -1 N VAL A 22 O GLY A 55 SHEET 3 B 4 LEU A 34 GLN A 40 -1 O LYS A 35 N THR A 28 SHEET 4 B 4 VAL A 125 PRO A 129 -1 O LYS A 126 N LEU A 38 SHEET 1 C 2 LEU A 203 ARG A 210 0 SHEET 2 C 2 ALA A 217 LEU A 222 -1 O CYS A 221 N ILE A 204 SHEET 1 D 5 TRP B 50 GLY B 51 0 SHEET 2 D 5 LEU B 34 GLN B 40 -1 N VAL B 39 O GLY B 51 SHEET 3 D 5 THR B 21 TYR B 29 -1 N LEU B 26 O LEU B 37 SHEET 4 D 5 SER B 101 LEU B 109 1 O VAL B 104 N THR B 21 SHEET 5 D 5 TYR B 83 ASN B 92 -1 N GLU B 85 O THR B 107 SHEET 1 E 4 GLY B 54 PHE B 56 0 SHEET 2 E 4 THR B 21 TYR B 29 -1 N VAL B 22 O GLY B 55 SHEET 3 E 4 LEU B 34 GLN B 40 -1 O LEU B 37 N LEU B 26 SHEET 4 E 4 VAL B 125 PRO B 129 -1 O TRP B 128 N VAL B 36 SHEET 1 F 3 PHE B 171 THR B 172 0 SHEET 2 F 3 ALA B 217 LEU B 222 -1 O TYR B 220 N PHE B 171 SHEET 3 F 3 LEU B 203 ARG B 210 -1 N ILE B 204 O CYS B 221 CISPEP 1 HIS A 44 PRO A 45 0 -8.90 CISPEP 2 GLU A 169 PRO A 170 0 -4.00 CISPEP 3 HIS B 44 PRO B 45 0 -5.06 CISPEP 4 GLU B 169 PRO B 170 0 -0.20 SITE 1 AC1 2 LEU A 87 LEU B 87 CRYST1 159.580 159.580 73.067 90.00 90.00 120.00 P 32 1 2 12 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 0.006266 0.003618 0.000000 0.00000 SCALE2 0.000000 0.007236 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013686 0.00000