PDB Short entry for 2R2O HEADER SIGNALING PROTEIN 27-AUG-07 2R2O TITLE CRYSTAL STRUCTURE OF THE EFFECTOR DOMAIN OF HUMAN PLEXIN B1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLEXIN-B1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: EFFECTOR DOMAIN: RESIDUES 1743-1862; COMPND 5 SYNONYM: SEMAPHORIN RECEPTOR SEP; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PLXNB1, KIAA0407, PLXN5, SEP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A-MHL KEYWDS PLEXIN, EFFECTOR DOMAIN, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, GLYCOPROTEIN, MEMBRANE, PHOSPHORYLATION, RECEPTOR, KEYWDS 3 SECRETED, TRANSMEMBRANE, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.TONG,W.TEMPEL,L.SHEN,C.H.ARROWSMITH,A.M.EDWARDS,M.SUNDSTROM, AUTHOR 2 J.WEIGELT,A.BOCHKAREV,H.PARK,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 25-OCT-17 2R2O 1 REMARK REVDAT 4 13-JUL-11 2R2O 1 VERSN REVDAT 3 24-FEB-09 2R2O 1 VERSN REVDAT 2 01-JUL-08 2R2O 1 JRNL REVDAT 1 04-SEP-07 2R2O 0 JRNL AUTH Y.TONG,P.CHUGHA,P.K.HOTA,R.S.ALVIANI,M.LI,W.TEMPEL,L.SHEN, JRNL AUTH 2 H.W.PARK,M.BUCK JRNL TITL BINDING OF RAC1, RND1, AND RHOD TO A NOVEL RHO GTPASE JRNL TITL 2 INTERACTION MOTIF DESTABILIZES DIMERIZATION OF THE PLEXIN-B1 JRNL TITL 3 EFFECTOR DOMAIN. JRNL REF J.BIOL.CHEM. V. 282 37215 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17916560 JRNL DOI 10.1074/JBC.M703800200 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.3.0037 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.2 REMARK 3 NUMBER OF REFLECTIONS : 19071 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : THIN SHELLS REMARK 3 R VALUE (WORKING + TEST SET) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.400 REMARK 3 FREE R VALUE TEST SET COUNT : 842 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 877 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 60.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.3310 REMARK 3 BIN FREE R VALUE SET COUNT : 0 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1509 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 48 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.50000 REMARK 3 B22 (A**2) : -0.58000 REMARK 3 B33 (A**2) : -0.92000 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): 0.167 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.163 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.109 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.771 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1541 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1001 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2110 ; 1.412 ; 1.993 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2483 ; 0.926 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 201 ; 6.685 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 51 ;36.288 ;24.902 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 250 ;11.630 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;15.163 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 263 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1674 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 257 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 242 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 985 ; 0.189 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 707 ; 0.161 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 778 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 47 ; 0.133 ; 0.200 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): 8 ; 0.154 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 30 ; 0.176 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.082 ; 0.200 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): 1113 ; 1.030 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 403 ; 0.201 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1649 ; 1.323 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 575 ; 2.042 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 460 ; 2.942 ; 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 : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1746 A 1852 REMARK 3 ORIGIN FOR THE GROUP (A): -3.0830 -7.1432 27.2181 REMARK 3 T TENSOR REMARK 3 T11: 0.0063 T22: 0.0314 REMARK 3 T33: -0.0742 T12: 0.0757 REMARK 3 T13: -0.0395 T23: -0.0485 REMARK 3 L TENSOR REMARK 3 L11: 1.5693 L22: 1.2946 REMARK 3 L33: 3.2517 L12: -0.5527 REMARK 3 L13: -2.2587 L23: 0.8227 REMARK 3 S TENSOR REMARK 3 S11: 0.0679 S12: 0.1600 S13: -0.0733 REMARK 3 S21: 0.0146 S22: -0.0505 S23: 0.0032 REMARK 3 S31: 0.0790 S32: 0.1998 S33: -0.0174 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1746 B 1852 REMARK 3 ORIGIN FOR THE GROUP (A): 1.0336 -34.1152 52.4617 REMARK 3 T TENSOR REMARK 3 T11: -0.0303 T22: -0.0832 REMARK 3 T33: -0.0340 T12: -0.0063 REMARK 3 T13: 0.0231 T23: 0.0145 REMARK 3 L TENSOR REMARK 3 L11: 2.8097 L22: 0.8226 REMARK 3 L33: 1.7933 L12: -0.1373 REMARK 3 L13: 1.5249 L23: 0.0059 REMARK 3 S TENSOR REMARK 3 S11: -0.0133 S12: -0.1457 S13: 0.0860 REMARK 3 S21: 0.1033 S22: 0.0125 S23: 0.0910 REMARK 3 S31: -0.1449 S32: -0.0948 S33: 0.0008 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. TLS PARAMETERS WERE REFINED. REMARK 3 3. ATOMIC TEMPERATURE FACTORS ARE RESIDUALS. REMARK 3 4. RESOLVE, COOT, MOLPROBITY PROGRAMS HAVE ALSO BEEN USED IN REMARK 3 REFINEMENT. REMARK 4 REMARK 4 2R2O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-AUG-07. REMARK 100 THE DEPOSITION ID IS D_1000044348. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUN-07; 10-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : APS; APS REMARK 200 BEAMLINE : 23-ID-B; 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918; 0.97937 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315; ADSC QUANTUM REMARK 200 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19206 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 94.8 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.43500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.6M SODIUM CHLORIDE, 18% ETHYLENE REMARK 280 GLYCOL, 0.1M TRIS-HCL, PH 8.0, VAPOR DIFFUSION, 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 25.48950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.68300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.28550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.68300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.48950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.28550 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1020 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MSE A 1725 REMARK 465 HIS A 1726 REMARK 465 HIS A 1727 REMARK 465 HIS A 1728 REMARK 465 HIS A 1729 REMARK 465 HIS A 1730 REMARK 465 HIS A 1731 REMARK 465 SER A 1732 REMARK 465 SER A 1733 REMARK 465 GLY A 1734 REMARK 465 ARG A 1735 REMARK 465 GLU A 1736 REMARK 465 ASN A 1737 REMARK 465 LEU A 1738 REMARK 465 TYR A 1739 REMARK 465 PHE A 1740 REMARK 465 GLN A 1741 REMARK 465 GLY A 1742 REMARK 465 ASP A 1743 REMARK 465 VAL A 1744 REMARK 465 GLU A 1745 REMARK 465 VAL A 1757 REMARK 465 GLY A 1758 REMARK 465 PRO A 1759 REMARK 465 GLY A 1760 REMARK 465 ALA A 1761 REMARK 465 GLY A 1762 REMARK 465 GLU A 1763 REMARK 465 LEU A 1853 REMARK 465 THR A 1854 REMARK 465 LYS A 1855 REMARK 465 HIS A 1856 REMARK 465 VAL A 1857 REMARK 465 LEU A 1858 REMARK 465 ARG A 1859 REMARK 465 GLU A 1860 REMARK 465 ASN A 1861 REMARK 465 GLN A 1862 REMARK 465 MSE B 1725 REMARK 465 HIS B 1726 REMARK 465 HIS B 1727 REMARK 465 HIS B 1728 REMARK 465 HIS B 1729 REMARK 465 HIS B 1730 REMARK 465 HIS B 1731 REMARK 465 SER B 1732 REMARK 465 SER B 1733 REMARK 465 GLY B 1734 REMARK 465 ARG B 1735 REMARK 465 GLU B 1736 REMARK 465 ASN B 1737 REMARK 465 LEU B 1738 REMARK 465 TYR B 1739 REMARK 465 PHE B 1740 REMARK 465 GLN B 1741 REMARK 465 GLY B 1742 REMARK 465 ASP B 1743 REMARK 465 VAL B 1744 REMARK 465 GLU B 1745 REMARK 465 GLY B 1760 REMARK 465 ALA B 1761 REMARK 465 GLY B 1762 REMARK 465 GLU B 1763 REMARK 465 LEU B 1853 REMARK 465 THR B 1854 REMARK 465 LYS B 1855 REMARK 465 HIS B 1856 REMARK 465 VAL B 1857 REMARK 465 LEU B 1858 REMARK 465 ARG B 1859 REMARK 465 GLU B 1860 REMARK 465 ASN B 1861 REMARK 465 GLN B 1862 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 TYR A1746 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A1747 CD NE CZ NH1 NH2 REMARK 470 GLU A1782 CD OE1 OE2 REMARK 470 LYS A1790 CE NZ REMARK 470 GLN A1827 CG CD OE1 NE2 REMARK 470 ARG A1831 CD NE CZ NH1 NH2 REMARK 470 GLN A1837 CD OE1 NE2 REMARK 470 TYR B1746 CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG B1747 CZ NH1 NH2 REMARK 470 GLN B1765 CD OE1 NE2 REMARK 470 LYS B1770 CE NZ REMARK 470 GLU B1782 OE1 OE2 REMARK 470 ARG B1801 CD NE CZ NH1 NH2 REMARK 470 GLU B1820 CD OE1 OE2 REMARK 470 GLN B1827 CD OE1 NE2 REMARK 470 ARG B1831 CD NE CZ NH1 NH2 REMARK 470 GLN B1837 CG CD OE1 NE2 REMARK 470 LYS B1840 CE NZ 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 ASP B1786 CB - CG - OD1 ANGL. DEV. = 5.9 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 LYS A1840 37.56 79.49 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 UNX B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX B 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX B 211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNX A 212 DBREF 2R2O A 1743 1862 UNP O43157 PLXB1_HUMAN 1743 1862 DBREF 2R2O B 1743 1862 UNP O43157 PLXB1_HUMAN 1743 1862 SEQADV 2R2O MSE A 1725 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS A 1726 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS A 1727 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS A 1728 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS A 1729 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS A 1730 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS A 1731 UNP O43157 EXPRESSION TAG SEQADV 2R2O SER A 1732 UNP O43157 EXPRESSION TAG SEQADV 2R2O SER A 1733 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLY A 1734 UNP O43157 EXPRESSION TAG SEQADV 2R2O ARG A 1735 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLU A 1736 UNP O43157 EXPRESSION TAG SEQADV 2R2O ASN A 1737 UNP O43157 EXPRESSION TAG SEQADV 2R2O LEU A 1738 UNP O43157 EXPRESSION TAG SEQADV 2R2O TYR A 1739 UNP O43157 EXPRESSION TAG SEQADV 2R2O PHE A 1740 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLN A 1741 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLY A 1742 UNP O43157 EXPRESSION TAG SEQADV 2R2O MSE B 1725 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS B 1726 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS B 1727 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS B 1728 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS B 1729 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS B 1730 UNP O43157 EXPRESSION TAG SEQADV 2R2O HIS B 1731 UNP O43157 EXPRESSION TAG SEQADV 2R2O SER B 1732 UNP O43157 EXPRESSION TAG SEQADV 2R2O SER B 1733 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLY B 1734 UNP O43157 EXPRESSION TAG SEQADV 2R2O ARG B 1735 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLU B 1736 UNP O43157 EXPRESSION TAG SEQADV 2R2O ASN B 1737 UNP O43157 EXPRESSION TAG SEQADV 2R2O LEU B 1738 UNP O43157 EXPRESSION TAG SEQADV 2R2O TYR B 1739 UNP O43157 EXPRESSION TAG SEQADV 2R2O PHE B 1740 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLN B 1741 UNP O43157 EXPRESSION TAG SEQADV 2R2O GLY B 1742 UNP O43157 EXPRESSION TAG SEQRES 1 A 138 MSE HIS HIS HIS HIS HIS HIS SER SER GLY ARG GLU ASN SEQRES 2 A 138 LEU TYR PHE GLN GLY ASP VAL GLU TYR ARG PRO LEU THR SEQRES 3 A 138 LEU ASN ALA LEU LEU ALA VAL GLY PRO GLY ALA GLY GLU SEQRES 4 A 138 ALA GLN GLY VAL PRO VAL LYS VAL LEU ASP CYS ASP THR SEQRES 5 A 138 ILE SER GLN ALA LYS GLU LYS MSE LEU ASP GLN LEU TYR SEQRES 6 A 138 LYS GLY VAL PRO LEU THR GLN ARG PRO ASP PRO ARG THR SEQRES 7 A 138 LEU ASP VAL GLU TRP ARG SER GLY VAL ALA GLY HIS LEU SEQRES 8 A 138 ILE LEU SER ASP GLU ASP VAL THR SER GLU VAL GLN GLY SEQRES 9 A 138 LEU TRP ARG ARG LEU ASN THR LEU GLN HIS TYR LYS VAL SEQRES 10 A 138 PRO ASP GLY ALA THR VAL ALA LEU VAL PRO CYS LEU THR SEQRES 11 A 138 LYS HIS VAL LEU ARG GLU ASN GLN SEQRES 1 B 138 MSE HIS HIS HIS HIS HIS HIS SER SER GLY ARG GLU ASN SEQRES 2 B 138 LEU TYR PHE GLN GLY ASP VAL GLU TYR ARG PRO LEU THR SEQRES 3 B 138 LEU ASN ALA LEU LEU ALA VAL GLY PRO GLY ALA GLY GLU SEQRES 4 B 138 ALA GLN GLY VAL PRO VAL LYS VAL LEU ASP CYS ASP THR SEQRES 5 B 138 ILE SER GLN ALA LYS GLU LYS MSE LEU ASP GLN LEU TYR SEQRES 6 B 138 LYS GLY VAL PRO LEU THR GLN ARG PRO ASP PRO ARG THR SEQRES 7 B 138 LEU ASP VAL GLU TRP ARG SER GLY VAL ALA GLY HIS LEU SEQRES 8 B 138 ILE LEU SER ASP GLU ASP VAL THR SER GLU VAL GLN GLY SEQRES 9 B 138 LEU TRP ARG ARG LEU ASN THR LEU GLN HIS TYR LYS VAL SEQRES 10 B 138 PRO ASP GLY ALA THR VAL ALA LEU VAL PRO CYS LEU THR SEQRES 11 B 138 LYS HIS VAL LEU ARG GLU ASN GLN MODRES 2R2O MSE A 1784 MET SELENOMETHIONINE MODRES 2R2O MSE B 1784 MET SELENOMETHIONINE HET MSE A1784 8 HET MSE B1784 8 HET UNX A 203 1 HET UNX A 205 1 HET UNX A 206 1 HET UNX A 207 1 HET UNX A 208 1 HET UNX A 210 1 HET UNX A 212 1 HET UNX B 201 1 HET UNX B 202 1 HET UNX B 204 1 HET UNX B 209 1 HET UNX B 211 1 HETNAM MSE SELENOMETHIONINE HETNAM UNX UNKNOWN ATOM OR ION FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 3 UNX 12(X) FORMUL 15 HOH *48(H2 O) HELIX 1 1 THR A 1776 TYR A 1789 1 14 HELIX 2 2 PRO A 1793 ARG A 1797 5 5 HELIX 3 3 ASP A 1799 ARG A 1801 5 3 HELIX 4 4 THR A 1835 LYS A 1840 1 6 HELIX 5 5 THR B 1776 TYR B 1789 1 14 HELIX 6 6 PRO B 1793 ARG B 1797 5 5 HELIX 7 7 ASP B 1799 ARG B 1801 5 3 HELIX 8 8 THR B 1835 LYS B 1840 1 6 SHEET 1 A 5 VAL A1767 LEU A1772 0 SHEET 2 A 5 PRO A1748 LEU A1755 -1 N LEU A1749 O VAL A1771 SHEET 3 A 5 THR A1846 PRO A1851 1 O LEU A1849 N LEU A1754 SHEET 4 A 5 LEU A1803 ARG A1808 -1 N ASP A1804 O VAL A1850 SHEET 5 A 5 HIS A1814 LEU A1817 -1 O LEU A1815 N TRP A1807 SHEET 1 B 4 VAL A1826 GLN A1827 0 SHEET 2 B 4 TRP A1830 ARG A1832 -1 O TRP A1830 N GLN A1827 SHEET 3 B 4 TRP B1830 ARG B1832 -1 O ARG B1831 N ARG A1831 SHEET 4 B 4 VAL B1826 GLN B1827 -1 N GLN B1827 O TRP B1830 SHEET 1 C 5 VAL B1767 LEU B1772 0 SHEET 2 C 5 PRO B1748 LEU B1755 -1 N ALA B1753 O VAL B1767 SHEET 3 C 5 THR B1846 PRO B1851 1 O LEU B1849 N LEU B1754 SHEET 4 C 5 LEU B1803 SER B1809 -1 N GLU B1806 O ALA B1848 SHEET 5 C 5 GLY B1813 LEU B1817 -1 O LEU B1815 N TRP B1807 LINK C LYS A1783 N MSE A1784 1555 1555 1.33 LINK C MSE A1784 N LEU A1785 1555 1555 1.33 LINK C LYS B1783 N MSE B1784 1555 1555 1.33 LINK C MSE B1784 N LEU B1785 1555 1555 1.33 SITE 1 AC1 2 ARG A1832 LEU B1829 SITE 1 AC2 2 HOH B 8 SER B1809 SITE 1 AC3 3 LEU A1829 TRP A1830 ARG B1832 SITE 1 AC4 3 TRP A1807 PRO A1842 ALA A1845 SITE 1 AC5 4 HOH A 36 HOH A 59 THR A1795 HOH B 58 SITE 1 AC6 2 ARG A1832 THR A1835 SITE 1 AC7 2 PRO B1798 ASP B1799 SITE 1 AC8 3 LYS B1781 PRO B1800 ARG B1801 SITE 1 AC9 2 PRO A1842 ASP A1843 CRYST1 50.979 56.571 99.366 90.00 90.00 90.00 P 21 21 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 0.019620 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017680 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010060 0.00000