HEADER SIGNALING PROTEIN 24-JAN-10 3LIE TITLE CRYSTAL STRUCTURE OF THE EXTRACELLULAR DOMAIN OF THE PUTATIVE TITLE 2 HISTIDINE KINASE VPHK1S-Z8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE SENSORY BOX/GGDEF FAMILY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: EXTRACELLULAR DOMAIN (UNP RESIDUES 28-313); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO PARAHAEMOLYTICUS; SOURCE 3 ORGANISM_TAXID: 670; SOURCE 4 GENE: VP0354; 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 EXPRESSION_SYSTEM_PLASMID: PET22B+ KEYWDS PDC FOLD, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Z.ZHANG,W.A.HENDRICKSON REVDAT 4 21-FEB-24 3LIE 1 SEQADV REVDAT 3 01-NOV-17 3LIE 1 REMARK REVDAT 2 11-AUG-10 3LIE 1 JRNL REVDAT 1 05-MAY-10 3LIE 0 JRNL AUTH Z.ZHANG,W.A.HENDRICKSON JRNL TITL STRUCTURAL CHARACTERIZATION OF THE PREDOMINANT FAMILY OF JRNL TITL 2 HISTIDINE KINASE SENSOR DOMAINS. JRNL REF J.MOL.BIOL. V. 400 335 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20435045 JRNL DOI 10.1016/J.JMB.2010.04.049 REMARK 2 REMARK 2 RESOLUTION. 2.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0066 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) : 2.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 19501 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) : 0.258 REMARK 3 R VALUE (WORKING SET) : 0.254 REMARK 3 FREE R VALUE : 0.326 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 991 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) : 2.59 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1222 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.08 REMARK 3 BIN R VALUE (WORKING SET) : 0.3220 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.4480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4285 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 30 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.34000 REMARK 3 B22 (A**2) : 0.32000 REMARK 3 B33 (A**2) : -0.67000 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): 1.189 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.418 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.355 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.444 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.914 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.872 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4348 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5895 ; 1.708 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 523 ; 7.268 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 218 ;36.812 ;24.358 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 749 ;18.978 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;18.048 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 648 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3321 ; 0.008 ; 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): 2632 ; 0.724 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4251 ; 1.359 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1716 ; 1.831 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1644 ; 3.022 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : B A REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 8 B 274 1 REMARK 3 1 A 8 A 274 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 B (A): 2092 ; 0.100 ; 0.050 REMARK 3 TIGHT THERMAL 1 B (A**2): 2092 ; 0.160 ; 0.500 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. U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3LIE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057315. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97921 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD 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 : 19533 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 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 (%) : 97.7 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.35500 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: PHASER 1.3.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M NACL, 0.2M MGCL, 0.1M TRIS, PH 7.0, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 39.02450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 57.47650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.02450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 57.47650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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: B 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 MET A 26 REMARK 465 GLU A 27 REMARK 465 LYS A 28 REMARK 465 TYR A 29 REMARK 465 LYS A 166 REMARK 465 GLY A 167 REMARK 465 GLU A 168 REMARK 465 LEU A 169 REMARK 465 VAL A 170 REMARK 465 TYR A 171 REMARK 465 PRO A 172 REMARK 465 ARG A 303 REMARK 465 ASP A 304 REMARK 465 ILE A 305 REMARK 465 ASN A 306 REMARK 465 ASP A 307 REMARK 465 LEU A 308 REMARK 465 ILE A 309 REMARK 465 GLN A 310 REMARK 465 GLU A 311 REMARK 465 SER A 312 REMARK 465 LEU A 313 REMARK 465 GLU A 314 REMARK 465 HIS A 315 REMARK 465 HIS A 316 REMARK 465 HIS A 317 REMARK 465 HIS A 318 REMARK 465 HIS A 319 REMARK 465 HIS A 320 REMARK 465 MET B 26 REMARK 465 GLU B 27 REMARK 465 LYS B 28 REMARK 465 TYR B 29 REMARK 465 GLN B 30 REMARK 465 ALA B 31 REMARK 465 LEU B 32 REMARK 465 ARG B 164 REMARK 465 ASP B 165 REMARK 465 LYS B 166 REMARK 465 GLY B 167 REMARK 465 GLU B 168 REMARK 465 LEU B 169 REMARK 465 ALA B 301 REMARK 465 THR B 302 REMARK 465 ARG B 303 REMARK 465 ASP B 304 REMARK 465 ILE B 305 REMARK 465 ASN B 306 REMARK 465 ASP B 307 REMARK 465 LEU B 308 REMARK 465 ILE B 309 REMARK 465 GLN B 310 REMARK 465 GLU B 311 REMARK 465 SER B 312 REMARK 465 LEU B 313 REMARK 465 GLU B 314 REMARK 465 HIS B 315 REMARK 465 HIS B 316 REMARK 465 HIS B 317 REMARK 465 HIS B 318 REMARK 465 HIS B 319 REMARK 465 HIS B 320 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 GLN A 30 CG CD OE1 NE2 REMARK 470 LEU A 32 CG CD1 CD2 REMARK 470 LEU A 33 CG CD1 CD2 REMARK 470 ASP A 165 CG OD1 OD2 REMARK 470 LEU B 33 CG CD1 CD2 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 OG1 THR A 126 CD1 ILE A 128 1.85 REMARK 500 O GLU B 295 OG SER B 298 2.07 REMARK 500 CD GLU A 161 NH1 ARG A 178 2.08 REMARK 500 OH TYR B 267 ND2 ASN B 294 2.13 REMARK 500 CD2 LEU A 177 CD1 ILE A 179 2.18 REMARK 500 OH TYR A 267 ND2 ASN A 294 2.18 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 TYR A 50 CE1 TYR A 50 CZ -0.082 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 ARG A 178 NE - CZ - NH1 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 178 NE - CZ - NH2 ANGL. DEV. = 4.2 DEGREES REMARK 500 PRO A 240 C - N - CA ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG B 178 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 178 NE - CZ - NH2 ANGL. DEV. = -4.3 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 ALA A 31 18.81 170.14 REMARK 500 LEU A 33 -109.25 161.15 REMARK 500 ALA A 34 8.59 131.38 REMARK 500 ASN A 35 -80.64 62.26 REMARK 500 SER A 83 -154.79 -77.49 REMARK 500 THR A 88 -36.53 -38.01 REMARK 500 LYS A 102 -24.59 67.90 REMARK 500 SER A 139 -9.36 -55.48 REMARK 500 SER A 149 32.81 -65.63 REMARK 500 GLU A 163 -89.99 -101.67 REMARK 500 ARG A 164 -140.67 -55.33 REMARK 500 ASN A 186 68.75 60.13 REMARK 500 ASP A 187 32.48 22.99 REMARK 500 GLN A 190 -37.17 -136.90 REMARK 500 VAL A 281 -39.55 72.67 REMARK 500 SER A 282 -131.86 -80.64 REMARK 500 ASN A 283 29.93 -155.75 REMARK 500 LEU A 297 21.47 -57.85 REMARK 500 ARG A 300 -142.16 -94.99 REMARK 500 ALA A 301 139.57 -171.29 REMARK 500 ALA B 34 -11.83 138.34 REMARK 500 ASN B 35 -72.49 72.52 REMARK 500 SER B 83 -160.29 -78.15 REMARK 500 LEU B 87 -71.22 -54.61 REMARK 500 LEU B 90 -71.22 -46.36 REMARK 500 LYS B 102 -20.97 70.94 REMARK 500 SER B 127 33.06 76.81 REMARK 500 GLN B 148 -73.30 -30.92 REMARK 500 SER B 149 29.63 -59.76 REMARK 500 TYR B 171 176.03 -46.73 REMARK 500 ASN B 186 71.35 59.09 REMARK 500 ASP B 187 34.56 19.93 REMARK 500 GLN B 190 -27.30 -142.70 REMARK 500 TRP B 255 -46.27 -27.46 REMARK 500 VAL B 281 -44.07 75.48 REMARK 500 SER B 282 -134.32 -73.33 REMARK 500 ASN B 283 28.16 -153.22 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 LYS B 299 ARG B 300 144.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LI8 RELATED DB: PDB REMARK 900 RELATED ID: 3LI9 RELATED DB: PDB REMARK 900 RELATED ID: 3LIA RELATED DB: PDB REMARK 900 RELATED ID: 3LIB RELATED DB: PDB REMARK 900 RELATED ID: 3LIC RELATED DB: PDB REMARK 900 RELATED ID: 3LID RELATED DB: PDB REMARK 900 RELATED ID: 3LIF RELATED DB: PDB DBREF 3LIE A 28 313 UNP Q87SR8 Q87SR8_VIBPA 28 313 DBREF 3LIE B 28 313 UNP Q87SR8 Q87SR8_VIBPA 28 313 SEQADV 3LIE MET A 26 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE GLU A 27 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE GLU A 314 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS A 315 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS A 316 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS A 317 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS A 318 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS A 319 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS A 320 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE MET B 26 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE GLU B 27 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE GLU B 314 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS B 315 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS B 316 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS B 317 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS B 318 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS B 319 UNP Q87SR8 EXPRESSION TAG SEQADV 3LIE HIS B 320 UNP Q87SR8 EXPRESSION TAG SEQRES 1 A 295 MET GLU LYS TYR GLN ALA LEU LEU ALA ASN ASN VAL GLU SEQRES 2 A 295 ASN THR ALA LYS GLU ALA LEU HIS GLN LEU ALA TYR THR SEQRES 3 A 295 GLY ARG GLU TYR ASN ASN ILE GLN ASP GLN ILE GLU THR SEQRES 4 A 295 ILE SER ASP LEU LEU GLY HIS SER GLN SER LEU TYR ASP SEQRES 5 A 295 TYR LEU ARG GLU PRO SER LYS ALA ASN LEU THR ILE LEU SEQRES 6 A 295 GLU ASN MET TRP SER SER VAL ALA ARG ASN GLN LYS LEU SEQRES 7 A 295 TYR LYS GLN ILE ARG PHE LEU ASP THR SER GLY THR GLU SEQRES 8 A 295 LYS VAL ARG ILE LYS TYR ASP PHE LYS THR SER ILE ALA SEQRES 9 A 295 GLY PRO SER LEU ILE LEU ARG ASP LYS SER ALA ARG GLU SEQRES 10 A 295 TYR PHE LYS TYR ALA GLN SER LEU ASP ASN GLU GLN ILE SEQRES 11 A 295 SER ALA TRP GLY ILE GLU LEU GLU ARG ASP LYS GLY GLU SEQRES 12 A 295 LEU VAL TYR PRO LEU SER PRO SER LEU ARG ILE LEU MET SEQRES 13 A 295 PRO ILE SER VAL ASN ASP VAL ARG GLN GLY TYR LEU VAL SEQRES 14 A 295 LEU ASN VAL ASP ILE GLU TYR LEU SER SER LEU LEU ASN SEQRES 15 A 295 TYR SER PRO VAL ARG ASP PHE HIS ILE GLU LEU VAL LYS SEQRES 16 A 295 HIS LYS GLY PHE TYR ILE ALA SER PRO ASP GLU SER ARG SEQRES 17 A 295 LEU TYR GLY ASP ILE ILE PRO GLU ARG SER GLN PHE ASN SEQRES 18 A 295 PHE SER ASN MET TYR PRO ASP ILE TRP PRO ARG VAL VAL SEQRES 19 A 295 SER GLU GLN ALA GLY TYR SER TYR SER GLY GLU HIS LEU SEQRES 20 A 295 ILE ALA PHE SER SER ILE LYS PHE VAL SER ASN GLU PRO SEQRES 21 A 295 LEU HIS LEU ILE ILE ASP LEU SER ASN GLU GLN LEU SER SEQRES 22 A 295 LYS ARG ALA THR ARG ASP ILE ASN ASP LEU ILE GLN GLU SEQRES 23 A 295 SER LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 295 MET GLU LYS TYR GLN ALA LEU LEU ALA ASN ASN VAL GLU SEQRES 2 B 295 ASN THR ALA LYS GLU ALA LEU HIS GLN LEU ALA TYR THR SEQRES 3 B 295 GLY ARG GLU TYR ASN ASN ILE GLN ASP GLN ILE GLU THR SEQRES 4 B 295 ILE SER ASP LEU LEU GLY HIS SER GLN SER LEU TYR ASP SEQRES 5 B 295 TYR LEU ARG GLU PRO SER LYS ALA ASN LEU THR ILE LEU SEQRES 6 B 295 GLU ASN MET TRP SER SER VAL ALA ARG ASN GLN LYS LEU SEQRES 7 B 295 TYR LYS GLN ILE ARG PHE LEU ASP THR SER GLY THR GLU SEQRES 8 B 295 LYS VAL ARG ILE LYS TYR ASP PHE LYS THR SER ILE ALA SEQRES 9 B 295 GLY PRO SER LEU ILE LEU ARG ASP LYS SER ALA ARG GLU SEQRES 10 B 295 TYR PHE LYS TYR ALA GLN SER LEU ASP ASN GLU GLN ILE SEQRES 11 B 295 SER ALA TRP GLY ILE GLU LEU GLU ARG ASP LYS GLY GLU SEQRES 12 B 295 LEU VAL TYR PRO LEU SER PRO SER LEU ARG ILE LEU MET SEQRES 13 B 295 PRO ILE SER VAL ASN ASP VAL ARG GLN GLY TYR LEU VAL SEQRES 14 B 295 LEU ASN VAL ASP ILE GLU TYR LEU SER SER LEU LEU ASN SEQRES 15 B 295 TYR SER PRO VAL ARG ASP PHE HIS ILE GLU LEU VAL LYS SEQRES 16 B 295 HIS LYS GLY PHE TYR ILE ALA SER PRO ASP GLU SER ARG SEQRES 17 B 295 LEU TYR GLY ASP ILE ILE PRO GLU ARG SER GLN PHE ASN SEQRES 18 B 295 PHE SER ASN MET TYR PRO ASP ILE TRP PRO ARG VAL VAL SEQRES 19 B 295 SER GLU GLN ALA GLY TYR SER TYR SER GLY GLU HIS LEU SEQRES 20 B 295 ILE ALA PHE SER SER ILE LYS PHE VAL SER ASN GLU PRO SEQRES 21 B 295 LEU HIS LEU ILE ILE ASP LEU SER ASN GLU GLN LEU SER SEQRES 22 B 295 LYS ARG ALA THR ARG ASP ILE ASN ASP LEU ILE GLN GLU SEQRES 23 B 295 SER LEU GLU HIS HIS HIS HIS HIS HIS HET MG A 2 1 HET MG B 1 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *30(H2 O) HELIX 1 1 ASN A 35 SER A 72 1 38 HELIX 2 2 SER A 72 GLU A 81 1 10 HELIX 3 3 LYS A 84 LYS A 102 1 19 HELIX 4 4 ARG A 141 SER A 149 1 9 HELIX 5 5 ILE A 199 ASN A 207 1 9 HELIX 6 6 ASP A 230 LEU A 234 5 5 HELIX 7 7 ILE A 239 SER A 243 5 5 HELIX 8 8 ASN A 246 TYR A 251 1 6 HELIX 9 9 ILE A 254 GLU A 261 1 8 HELIX 10 10 ASN B 35 SER B 72 1 38 HELIX 11 11 SER B 72 GLU B 81 1 10 HELIX 12 12 LYS B 84 LYS B 102 1 19 HELIX 13 13 ARG B 141 SER B 149 1 9 HELIX 14 14 ILE B 199 ASN B 207 1 9 HELIX 15 15 ASP B 230 LEU B 234 5 5 HELIX 16 16 ILE B 239 SER B 243 5 5 HELIX 17 17 ASN B 246 TYR B 251 1 6 HELIX 18 18 ILE B 254 GLU B 261 1 8 HELIX 19 19 ASN B 294 ARG B 300 1 7 SHEET 1 A 6 ALA A 129 PRO A 131 0 SHEET 2 A 6 GLU A 116 TYR A 122 -1 N LYS A 121 O GLY A 130 SHEET 3 A 6 TYR A 104 ASP A 111 -1 N ILE A 107 O ILE A 120 SHEET 4 A 6 ARG A 189 ASP A 198 -1 O TYR A 192 N LEU A 110 SHEET 5 A 6 PRO A 175 SER A 184 -1 N MET A 181 O LEU A 193 SHEET 6 A 6 SER A 156 LEU A 162 -1 N TRP A 158 O ARG A 178 SHEET 1 B 2 TYR A 208 SER A 209 0 SHEET 2 B 2 PHE A 214 HIS A 215 -1 O PHE A 214 N SER A 209 SHEET 1 C 5 TYR A 225 ALA A 227 0 SHEET 2 C 5 GLU A 217 LYS A 220 -1 N LEU A 218 O ILE A 226 SHEET 3 C 5 PRO A 285 SER A 293 -1 O ILE A 289 N GLU A 217 SHEET 4 C 5 HIS A 271 LYS A 279 -1 N ALA A 274 O ILE A 290 SHEET 5 C 5 ALA A 263 TYR A 267 -1 N SER A 266 O ILE A 273 SHEET 1 D 6 ALA B 129 PRO B 131 0 SHEET 2 D 6 GLU B 116 TYR B 122 -1 N LYS B 121 O GLY B 130 SHEET 3 D 6 TYR B 104 ASP B 111 -1 N PHE B 109 O LYS B 117 SHEET 4 D 6 ARG B 189 ASP B 198 -1 O TYR B 192 N LEU B 110 SHEET 5 D 6 PRO B 175 SER B 184 -1 N ILE B 179 O LEU B 195 SHEET 6 D 6 SER B 156 LEU B 162 -1 N TRP B 158 O ARG B 178 SHEET 1 E 2 TYR B 208 SER B 209 0 SHEET 2 E 2 PHE B 214 HIS B 215 -1 O PHE B 214 N SER B 209 SHEET 1 F 5 TYR B 225 ALA B 227 0 SHEET 2 F 5 GLU B 217 LYS B 220 -1 N LEU B 218 O ILE B 226 SHEET 3 F 5 PRO B 285 SER B 293 -1 O HIS B 287 N VAL B 219 SHEET 4 F 5 HIS B 271 LYS B 279 -1 N ALA B 274 O ILE B 290 SHEET 5 F 5 ALA B 263 TYR B 267 -1 N SER B 266 O ILE B 273 CISPEP 1 LEU A 32 LEU A 33 0 -5.74 CISPEP 2 TYR B 171 PRO B 172 0 -12.16 CISPEP 3 PRO B 172 LEU B 173 0 -15.62 CRYST1 78.049 114.953 69.624 90.00 90.00 90.00 P 21 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 0.012812 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008699 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014363 0.00000