PDB Short entry for 2HLE HEADER TRANSFERASE/TRANSFERASE RECEPTOR 06-JUL-06 2HLE TITLE STRUCTURAL AND BIOPHYSICAL CHARACTERIZATION OF THE EPHB4-EPHRINB2 TITLE 2 PROTEIN PROTEIN INTERACTION AND RECEPTOR SPECIFICITY. COMPND MOL_ID: 1; COMPND 2 MOLECULE: EPHRIN TYPE-B RECEPTOR 4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIGAND BINDING DOMAIN; COMPND 5 SYNONYM: TYROSINE-PROTEIN KINASE RECEPTOR HTK, EPHB4; COMPND 6 EC: 2.7.10.1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: EPHRIN-B2; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: EXTRACELLULAR DOMAIN; COMPND 12 SYNONYM: EPH-RELATED RECEPTOR TYROSINE KINASE LIGAND 5, LERK-5, HTK COMPND 13 LIGAND, HTK-L, EPHRINB2; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 CELL_LINE: HI5; SOURCE 6 GENE: EPHB4, HTK; SOURCE 7 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 8 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PFASTBAC1; SOURCE 12 MOL_ID: 2; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 CELL_LINE: HI5; SOURCE 17 GENE: EFNB2, EPLG5, HTKL, LERK5; SOURCE 18 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 19 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 20 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 21 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 22 EXPRESSION_SYSTEM_VECTOR: PFASTBAC1 KEYWDS PROTEIN-PROTEIN INTERACTION, RECEPTOR TRYOSINE KINASE, BI-DIRECTIONAL KEYWDS 2 CELL SIGNALING, TRANSFERASE-TRANSFERASE RECEPTOR COMPLEX, STRUCTURAL KEYWDS 3 GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, ACCELERATED KEYWDS 4 TECHNOLOGIES CENTER FOR GENE TO 3D STRUCTURE, ATCG3D EXPDTA X-RAY DIFFRACTION AUTHOR J.E.CHRENCIK,A.BROOUN,P.KUHN,ACCELERATED TECHNOLOGIES CENTER FOR GENE AUTHOR 2 TO 3D STRUCTURE (ATCG3D) REVDAT 6 30-AUG-23 2HLE 1 SEQADV REVDAT 5 13-JUL-11 2HLE 1 VERSN REVDAT 4 01-SEP-09 2HLE 1 TITLE KEYWDS AUTHOR REVDAT 3 24-FEB-09 2HLE 1 VERSN REVDAT 2 03-OCT-06 2HLE 1 JRNL REVDAT 1 22-AUG-06 2HLE 0 JRNL AUTH J.E.CHRENCIK,A.BROOUN,M.L.KRAUS,M.I.RECHT,A.R.KOLATKAR, JRNL AUTH 2 G.W.HAN,J.M.SEIFERT,H.WIDMER,M.AUER,P.KUHN JRNL TITL STRUCTURAL AND BIOPHYSICAL CHARACTERIZATION OF THE JRNL TITL 2 EPHB4-EPHRINB2 PROTEIN-PROTEIN INTERACTION AND RECEPTOR JRNL TITL 3 SPECIFICITY. JRNL REF J.BIOL.CHEM. V. 281 28185 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16867992 JRNL DOI 10.1074/JBC.M605766200 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 19785 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) : 0.229 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1064 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1435 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2650 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2467 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 79 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) : 45.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : -0.19000 REMARK 3 B33 (A**2) : 0.37000 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): 0.245 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.222 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.225 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.808 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.902 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2555 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1660 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3490 ; 1.780 ; 1.946 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4053 ; 1.018 ; 3.004 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 324 ; 8.748 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 111 ;40.951 ;24.324 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 393 ;19.495 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;17.097 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 390 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2876 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 518 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 427 ; 0.210 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1656 ; 0.208 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1119 ; 0.186 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1420 ; 0.092 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 90 ; 0.201 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.128 ; 0.200 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): 20 ; 0.164 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 40 ; 0.295 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.193 ; 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): 1678 ; 2.407 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 652 ; 0.642 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2577 ; 3.431 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1056 ; 5.864 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 910 ; 7.140 ;11.000 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 : 6 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 9 A 42 REMARK 3 ORIGIN FOR THE GROUP (A): 8.8066 35.8129 -6.1113 REMARK 3 T TENSOR REMARK 3 T11: -0.3373 T22: -0.3270 REMARK 3 T33: -0.0182 T12: 0.0382 REMARK 3 T13: -0.0356 T23: 0.1583 REMARK 3 L TENSOR REMARK 3 L11: 2.3430 L22: 3.1049 REMARK 3 L33: 2.4417 L12: 1.4979 REMARK 3 L13: -1.3577 L23: -1.1862 REMARK 3 S TENSOR REMARK 3 S11: -0.0598 S12: 0.1478 S13: 0.0916 REMARK 3 S21: 0.6662 S22: -0.0475 S23: -0.1015 REMARK 3 S31: -0.3716 S32: 0.0612 S33: 0.1072 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 : A 43 A 106 REMARK 3 ORIGIN FOR THE GROUP (A): 8.3732 26.0832 -6.9463 REMARK 3 T TENSOR REMARK 3 T11: -0.3202 T22: -0.2525 REMARK 3 T33: -0.2298 T12: 0.0059 REMARK 3 T13: 0.0101 T23: 0.0780 REMARK 3 L TENSOR REMARK 3 L11: 5.5617 L22: 3.5367 REMARK 3 L33: 1.5216 L12: -1.8386 REMARK 3 L13: -0.5149 L23: 0.5441 REMARK 3 S TENSOR REMARK 3 S11: -0.1654 S12: 0.4142 S13: -0.0522 REMARK 3 S21: 0.2266 S22: 0.1303 S23: 0.4063 REMARK 3 S31: -0.1200 S32: 0.1976 S33: 0.0351 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 107 A 196 REMARK 3 ORIGIN FOR THE GROUP (A): 4.3854 29.2097 -11.3244 REMARK 3 T TENSOR REMARK 3 T11: -0.2689 T22: -0.1616 REMARK 3 T33: -0.1765 T12: 0.0081 REMARK 3 T13: -0.1076 T23: 0.1954 REMARK 3 L TENSOR REMARK 3 L11: 3.4177 L22: 5.5604 REMARK 3 L33: 0.5746 L12: -0.4314 REMARK 3 L13: 0.1573 L23: 1.0849 REMARK 3 S TENSOR REMARK 3 S11: -0.0869 S12: 1.0852 S13: 0.3042 REMARK 3 S21: -0.4457 S22: 0.0469 S23: 0.4696 REMARK 3 S31: -0.1178 S32: 0.1488 S33: 0.0400 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 31 B 64 REMARK 3 ORIGIN FOR THE GROUP (A): 18.4500 22.7043 18.2199 REMARK 3 T TENSOR REMARK 3 T11: 0.3004 T22: -0.0994 REMARK 3 T33: -0.2005 T12: 0.0679 REMARK 3 T13: -0.0191 T23: 0.1231 REMARK 3 L TENSOR REMARK 3 L11: 1.8468 L22: 3.6609 REMARK 3 L33: 5.3438 L12: 0.5474 REMARK 3 L13: 1.7004 L23: 1.3085 REMARK 3 S TENSOR REMARK 3 S11: 0.3796 S12: -0.4033 S13: -0.4681 REMARK 3 S21: 0.6758 S22: -0.0002 S23: -0.0609 REMARK 3 S31: 0.6965 S32: 0.1758 S33: -0.3794 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 65 B 109 REMARK 3 ORIGIN FOR THE GROUP (A): 26.4696 31.7884 12.9329 REMARK 3 T TENSOR REMARK 3 T11: -0.1744 T22: -0.0056 REMARK 3 T33: -0.3103 T12: 0.0158 REMARK 3 T13: -0.0853 T23: 0.1244 REMARK 3 L TENSOR REMARK 3 L11: 8.3086 L22: 7.7304 REMARK 3 L33: 7.8664 L12: 2.5499 REMARK 3 L13: 2.0944 L23: 0.6318 REMARK 3 S TENSOR REMARK 3 S11: -0.2824 S12: 0.6726 S13: 0.1821 REMARK 3 S21: 0.5208 S22: 0.3609 S23: 0.1375 REMARK 3 S31: -0.5047 S32: 1.2714 S33: -0.0786 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 110 B 168 REMARK 3 ORIGIN FOR THE GROUP (A): 24.5634 22.0426 9.6675 REMARK 3 T TENSOR REMARK 3 T11: 0.0217 T22: 0.0304 REMARK 3 T33: -0.1016 T12: 0.1585 REMARK 3 T13: -0.1049 T23: 0.0110 REMARK 3 L TENSOR REMARK 3 L11: 1.8076 L22: 1.7161 REMARK 3 L33: 5.4582 L12: 1.1562 REMARK 3 L13: 2.8821 L23: 1.6068 REMARK 3 S TENSOR REMARK 3 S11: 0.4419 S12: 0.2620 S13: -0.5633 REMARK 3 S21: 0.5647 S22: 0.1543 S23: -0.4188 REMARK 3 S31: 0.8165 S32: 0.9220 S33: -0.5961 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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.RESIDUES 74, 96-99 IN B MOLECULE WERE NOT VISIBLE IN REMARK 3 THE ELECTRON DENSITY MAPS. REMARK 4 REMARK 4 2HLE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038479. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.8 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) : 1.0 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19785 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1KGY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2 M AMMONIUM SULFATE, 100 MM TRIS, REMARK 280 PH 7.8, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 25.47250 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 12.73625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 38.20875 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: 2100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL 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 GLY B 74 REMARK 465 LYS B 96 REMARK 465 GLU B 97 REMARK 465 ASN B 98 REMARK 465 THR B 99 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 HIS A 14 CG ND1 CD2 CE1 NE2 REMARK 470 THR A 27 CG2 REMARK 470 LYS A 31 CE NZ REMARK 470 GLN A 64 CG CD OE1 NE2 REMARK 470 ARG A 102 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 105 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 144 CG CD OE1 OE2 REMARK 470 LYS A 158 CD CE NZ REMARK 470 LYS A 196 NZ REMARK 470 GLU B 34 CG CD OE1 OE2 REMARK 470 LYS B 44 CG CD CE NZ REMARK 470 GLN B 49 CG CD OE1 NE2 REMARK 470 TYR B 54 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP B 59 CG OD1 OD2 REMARK 470 LYS B 67 CE NZ REMARK 470 LYS B 71 CG CD CE NZ REMARK 470 GLN B 75 CG CD OE1 NE2 REMARK 470 GLU B 77 CG CD OE1 OE2 REMARK 470 LYS B 86 CD CE NZ REMARK 470 ASP B 87 CG OD1 OD2 REMARK 470 ARG B 91 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 95 CG CD CE NZ REMARK 470 ARG B 106 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 131 CG CD CE NZ REMARK 470 VAL B 155 CG1 CG2 REMARK 470 GLN B 157 CG CD OE1 NE2 REMARK 470 ARG B 159 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 166 CE NZ 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 127 O HOH A 221 2.07 REMARK 500 OD1 ASN B 39 OG SER B 41 2.19 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 SER A 170 CB SER A 170 OG 0.093 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 56 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 56 NE - CZ - NH2 ANGL. DEV. = -7.3 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 CYS A 61 70.66 -156.57 REMARK 500 ASP A 62 56.16 -110.34 REMARK 500 ALA A 66 126.11 -37.70 REMARK 500 PRO A 67 67.36 -117.20 REMARK 500 ARG A 81 -109.55 60.13 REMARK 500 ASN A 133 103.86 49.68 REMARK 500 PRO B 47 118.67 -34.16 REMARK 500 ASP B 69 -156.72 -97.22 REMARK 500 THR B 72 127.31 -178.05 REMARK 500 ASP B 90 75.21 -119.20 REMARK 500 CYS B 92 63.16 70.04 REMARK 500 ARG B 106 86.88 -151.80 REMARK 500 TYR B 136 137.87 81.01 REMARK 500 VAL B 155 -89.30 43.87 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 GLY B 154 VAL B 155 60.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BBA RELATED DB: PDB REMARK 900 RELATED ID: 1NUK RELATED DB: PDB REMARK 900 RELATED ID: 1KGY RELATED DB: PDB REMARK 900 RELATED ID: ATCG3D_14 RELATED DB: TARGETDB DBREF 2HLE A 17 196 UNP P54760 EPHB4_HUMAN 17 196 DBREF 2HLE B 31 168 UNP P52799 EFNB2_HUMAN 28 165 SEQADV 2HLE ALA A 9 UNP P54760 CLONING ARTIFACT SEQADV 2HLE GLY A 10 UNP P54760 CLONING ARTIFACT SEQADV 2HLE HIS A 11 UNP P54760 EXPRESSION TAG SEQADV 2HLE HIS A 12 UNP P54760 EXPRESSION TAG SEQADV 2HLE HIS A 13 UNP P54760 EXPRESSION TAG SEQADV 2HLE HIS A 14 UNP P54760 EXPRESSION TAG SEQADV 2HLE HIS A 15 UNP P54760 EXPRESSION TAG SEQADV 2HLE HIS A 16 UNP P54760 EXPRESSION TAG SEQADV 2HLE ARG B 106 UNP P52799 LYS 103 CONFLICT SEQADV 2HLE VAL B 111 UNP P52799 ILE 108 CONFLICT SEQRES 1 A 188 ALA GLY HIS HIS HIS HIS HIS HIS GLU GLU THR LEU LEU SEQRES 2 A 188 ASN THR LYS LEU GLU THR ALA ASP LEU LYS TRP VAL THR SEQRES 3 A 188 PHE PRO GLN VAL ASP GLY GLN TRP GLU GLU LEU SER GLY SEQRES 4 A 188 LEU ASP GLU GLU GLN HIS SER VAL ARG THR TYR GLU VAL SEQRES 5 A 188 CYS ASP VAL GLN ARG ALA PRO GLY GLN ALA HIS TRP LEU SEQRES 6 A 188 ARG THR GLY TRP VAL PRO ARG ARG GLY ALA VAL HIS VAL SEQRES 7 A 188 TYR ALA THR LEU ARG PHE THR MET LEU GLU CYS LEU SER SEQRES 8 A 188 LEU PRO ARG ALA GLY ARG SER CYS LYS GLU THR PHE THR SEQRES 9 A 188 VAL PHE TYR TYR GLU SER ASP ALA ASP THR ALA THR ALA SEQRES 10 A 188 LEU THR PRO ALA TRP MET GLU ASN PRO TYR ILE LYS VAL SEQRES 11 A 188 ASP THR VAL ALA ALA GLU HIS LEU THR ARG LYS ARG PRO SEQRES 12 A 188 GLY ALA GLU ALA THR GLY LYS VAL ASN VAL LYS THR LEU SEQRES 13 A 188 ARG LEU GLY PRO LEU SER LYS ALA GLY PHE TYR LEU ALA SEQRES 14 A 188 PHE GLN ASP GLN GLY ALA CYS MET ALA LEU LEU SER LEU SEQRES 15 A 188 HIS LEU PHE TYR LYS LYS SEQRES 1 B 138 ILE VAL LEU GLU PRO ILE TYR TRP ASN SER SER ASN SER SEQRES 2 B 138 LYS PHE LEU PRO GLY GLN GLY LEU VAL LEU TYR PRO GLN SEQRES 3 B 138 ILE GLY ASP LYS LEU ASP ILE ILE CYS PRO LYS VAL ASP SEQRES 4 B 138 SER LYS THR VAL GLY GLN TYR GLU TYR TYR LYS VAL TYR SEQRES 5 B 138 MET VAL ASP LYS ASP GLN ALA ASP ARG CYS THR ILE LYS SEQRES 6 B 138 LYS GLU ASN THR PRO LEU LEU ASN CYS ALA ARG PRO ASP SEQRES 7 B 138 GLN ASP VAL LYS PHE THR ILE LYS PHE GLN GLU PHE SER SEQRES 8 B 138 PRO ASN LEU TRP GLY LEU GLU PHE GLN LYS ASN LYS ASP SEQRES 9 B 138 TYR TYR ILE ILE SER THR SER ASN GLY SER LEU GLU GLY SEQRES 10 B 138 LEU ASP ASN GLN GLU GLY GLY VAL CYS GLN THR ARG ALA SEQRES 11 B 138 MET LYS ILE LEU MET LYS VAL GLY FORMUL 3 HOH *79(H2 O) HELIX 1 1 GLU A 96 LEU A 100 5 5 HELIX 2 2 ASP B 85 ASP B 90 1 6 SHEET 1 A 4 GLU A 17 ASN A 22 0 SHEET 2 A 4 CYS A 184 LYS A 195 -1 O TYR A 194 N GLU A 18 SHEET 3 A 4 SER A 54 CYS A 61 -1 N TYR A 58 O LEU A 187 SHEET 4 A 4 GLU A 43 LEU A 48 -1 N LEU A 45 O THR A 57 SHEET 1 B 4 GLU A 17 ASN A 22 0 SHEET 2 B 4 CYS A 184 LYS A 195 -1 O TYR A 194 N GLU A 18 SHEET 3 B 4 VAL A 86 MET A 94 -1 N TYR A 87 O PHE A 193 SHEET 4 B 4 ASN A 160 LEU A 166 -1 O LYS A 162 N LEU A 90 SHEET 1 C 4 VAL A 33 PHE A 35 0 SHEET 2 C 4 HIS A 71 ARG A 74 -1 O ARG A 74 N VAL A 33 SHEET 3 C 4 GLY A 173 ASP A 180 -1 O PHE A 178 N LEU A 73 SHEET 4 C 4 VAL A 78 PRO A 79 -1 N VAL A 78 O PHE A 174 SHEET 1 D 5 VAL A 33 PHE A 35 0 SHEET 2 D 5 HIS A 71 ARG A 74 -1 O ARG A 74 N VAL A 33 SHEET 3 D 5 GLY A 173 ASP A 180 -1 O PHE A 178 N LEU A 73 SHEET 4 D 5 THR A 110 SER A 118 -1 N THR A 112 O GLN A 179 SHEET 5 D 5 ILE A 136 ALA A 142 -1 O VAL A 141 N PHE A 111 SHEET 1 E 2 ARG A 148 ARG A 150 0 SHEET 2 E 2 GLU A 154 THR A 156 -1 O GLU A 154 N ARG A 150 SHEET 1 F 3 ILE B 36 TYR B 37 0 SHEET 2 F 3 LYS B 60 CYS B 65 1 O ILE B 64 N ILE B 36 SHEET 3 F 3 VAL B 111 LYS B 116 -1 O VAL B 111 N CYS B 65 SHEET 1 G 5 LEU B 51 LEU B 53 0 SHEET 2 G 5 LYS B 162 VAL B 167 1 O LYS B 162 N LEU B 51 SHEET 3 G 5 LYS B 133 ILE B 138 -1 N TYR B 135 O MET B 165 SHEET 4 G 5 TYR B 79 VAL B 84 -1 N TYR B 82 O ILE B 138 SHEET 5 G 5 LEU B 102 CYS B 104 -1 O LEU B 102 N VAL B 81 SSBOND 1 CYS A 61 CYS A 184 1555 1555 2.07 SSBOND 2 CYS A 97 CYS A 107 1555 1555 2.07 SSBOND 3 CYS B 65 CYS B 104 1555 1555 1.98 SSBOND 4 CYS B 92 CYS B 156 1555 1555 2.04 CISPEP 1 PHE A 35 PRO A 36 0 -3.36 CISPEP 2 THR A 127 PRO A 128 0 -8.55 CISPEP 3 ASN A 133 PRO A 134 0 10.47 CISPEP 4 GLY A 167 PRO A 168 0 -0.96 CISPEP 5 ASP B 90 ARG B 91 0 15.51 CRYST1 81.085 81.085 50.945 90.00 90.00 90.00 P 41 4 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 0.012333 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012333 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019629 0.00000