10 20 30 40 50 60 70 80 3CKH - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 15-MAR-08 3CKH
TITLE CRYSTAL STRUCTURE OF EPH A4 RECEPTOR
COMPND MOL_ID: 1; COMPND 2 MOLECULE: EPHRIN TYPE-A RECEPTOR 4; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 29-209; COMPND 5 SYNONYM: TYROSINE-PROTEIN KINASE RECEPTOR SEK, RECEPTOR COMPND 6 PROTEIN-TYROSINE KINASE HEK8, TYROSINE-PROTEIN KINASE COMPND 7 TYRO1; COMPND 8 EC: 2.7.10.1; COMPND 9 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: EPHA4, HEK8, SEK, TYRO1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA-GAMI (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A
KEYWDS EPH RECEPTOR, ATP-BINDING, GLYCOPROTEIN, KINASE, MEMBRANE, KEYWDS 2 NUCLEOTIDE-BINDING, PHOSPHOPROTEIN, TRANSFERASE, KEYWDS 3 TRANSMEMBRANE, TYROSINE-PROTEIN KINASE
EXPDTA X-RAY DIFFRACTION
AUTHOR J.H.SHI,J.X.SONG
REVDAT 3 24-FEB-09 3CKH 1 VERSN REVDAT 2 04-NOV-08 3CKH 1 JRNL REVDAT 1 23-SEP-08 3CKH 0
JRNL AUTH H.QIN,J.SHI,R.NOBERINI,E.B.PASQUALE,J.SONG JRNL TITL CRYSTAL STRUCTURE AND NMR BINDING REVEAL THAT TWO JRNL TITL 2 SMALL MOLECULE ANTAGONISTS TARGET THE HIGH JRNL TITL 3 AFFINITY EPHRIN-BINDING CHANNEL OF THE EPHA4 JRNL TITL 4 RECEPTOR JRNL REF J.BIOL.CHEM. V. 283 29473 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18708347 JRNL DOI 10.1074/JBC.M804114200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.71 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 12355 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.234 REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.110 REMARK 3 FREE R VALUE TEST SET COUNT : 1126 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 19.7100 - 5.5630 0.99 1511 152 0.2400 0.2670 REMARK 3 2 5.5630 - 4.4320 0.97 1398 140 0.1770 0.2190 REMARK 3 3 4.4320 - 3.8770 0.98 1398 140 0.1980 0.2790 REMARK 3 4 3.8770 - 3.5240 0.99 1398 141 0.2200 0.3110 REMARK 3 5 3.5240 - 3.2730 0.99 1396 141 0.2210 0.3140 REMARK 3 6 3.2730 - 3.0810 0.99 1376 137 0.2360 0.3240 REMARK 3 7 3.0810 - 2.9270 0.99 1381 137 0.2660 0.3790 REMARK 3 8 2.9270 - 2.8000 0.99 1371 138 0.3050 0.3710 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 71.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 35.95800 REMARK 3 B22 (A**2) : -20.16900 REMARK 3 B33 (A**2) : -16.32600 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 2733 REMARK 3 ANGLE : 1.171 3696 REMARK 3 CHIRALITY : 0.074 414 REMARK 3 PLANARITY : 0.008 475 REMARK 3 DIHEDRAL : 20.124 970 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: NULL
REMARK 4 REMARK 4 3CKH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-MAR-08. REMARK 100 THE RCSB ID CODE IS RCSB046885.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-FEB-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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 : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21938 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 63.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 7.190 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.21 REMARK 200 R MERGE FOR SHELL (I) : 0.56300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1NUK, 2BBA REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG4000, 16% ISOPROPANOL, 0.1M REMARK 280 HEPES, PH7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K, REMARK 280 VAPOR DIFFUSION, HANGING DROP
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.56050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 63.50200 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.56050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 63.50200 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -35.56050 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -63.50200
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 32 REMARK 465 THR A 37 REMARK 465 PRO A 38 REMARK 465 ASP A 133 REMARK 465 LYS A 175 REMARK 465 ALA A 176 REMARK 465 PRO A 177 REMARK 465 LEU A 178 REMARK 465 THR A 179 REMARK 465 VAL A 180 REMARK 465 ARG A 181 REMARK 465 MET B 32 REMARK 465 ASP B 33 REMARK 465 GLU B 34 REMARK 465 LYS B 35 REMARK 465 ASN B 36 REMARK 465 ILE B 131 REMARK 465 GLY B 132 REMARK 465 LYS B 175 REMARK 465 ALA B 176 REMARK 465 PRO B 177 REMARK 465 LEU B 178 REMARK 465 THR B 179 REMARK 465 VAL B 180 REMARK 465 ARG B 181
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 ARG A 9 CD NE CZ NH1 NH2 REMARK 470 GLN A 12 CD OE1 NE2 REMARK 470 GLU A 23 CG CD OE1 OE2 REMARK 470 GLU A 64 CG CD OE1 OE2 REMARK 470 GLN A 67 CG CD OE1 NE2 REMARK 470 LYS A 151 CG CD CE NZ REMARK 470 LYS A 174 CG CD CE NZ REMARK 470 ARG B 9 CD NE CZ NH1 NH2 REMARK 470 GLU B 23 CG CD OE1 OE2 REMARK 470 GLN B 67 CG CD OE1 NE2 REMARK 470 LYS B 91 CG CD CE NZ REMARK 470 LYS B 150 CG CD CE NZ REMARK 470 LYS B 151 CG CD 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 PRO B 21 C - N - CA ANGL. DEV. = -12.1 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 ASP A 7 85.44 -150.32 REMARK 500 LYS A 35 50.64 71.90 REMARK 500 CYS A 45 58.92 -153.77 REMARK 500 ASN A 46 49.81 -101.02 REMARK 500 ASN A 53 57.81 -158.80 REMARK 500 MET A 87 -138.60 -96.47 REMARK 500 GLU A 92 28.22 -143.50 REMARK 500 SER A 101 162.22 179.78 REMARK 500 PRO A 147 100.04 -38.48 REMARK 500 SER A 149 -23.84 -140.13 REMARK 500 CYS B 45 54.84 -157.92 REMARK 500 ASN B 46 50.44 -93.10 REMARK 500 SER B 51 70.89 30.61 REMARK 500 ASN B 53 70.34 -157.25 REMARK 500 THR B 62 152.71 -45.88 REMARK 500 ASP B 79 143.62 -32.27 REMARK 500 ARG B 107 -107.56 -82.16 REMARK 500 ASP B 118 161.70 178.77 REMARK 500 ALA B 121 -154.91 -117.75 REMARK 500 ALA B 122 -64.69 -91.41 REMARK 500 PRO B 147 104.52 -52.45 REMARK 500 SER B 149 -31.52 -137.71 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 SER B 20 PRO B 21 109.26 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 186 DISTANCE = 6.42 ANGSTROMS REMARK 525 HOH B 200 DISTANCE = 5.13 ANGSTROMS REMARK 525 HOH A 203 DISTANCE = 6.74 ANGSTROMS REMARK 525 HOH B 205 DISTANCE = 6.95 ANGSTROMS REMARK 525 HOH A 226 DISTANCE = 5.27 ANGSTROMS REMARK 525 HOH B 226 DISTANCE = 5.04 ANGSTROMS REMARK 525 HOH A 234 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A 239 DISTANCE = 6.10 ANGSTROMS
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NUK RELATED DB: PDB REMARK 900 APO LIGAND BINDING DOMAIN OF THE EPHB2 RECEPTOR REMARK 900 RELATED ID: 2BBA RELATED DB: PDB REMARK 900 EPHB4/ANTAGONISTIC TNYL-RAW COMPLEX STRUCTURE
DBREF 3CKH A 1 181 UNP P54764 EPHA4_HUMAN 29 209 DBREF 3CKH B 1 181 UNP P54764 EPHA4_HUMAN 29 209
SEQADV 3CKH ALA A 176 UNP P54764 CYS 204 ENGINEERED SEQADV 3CKH ALA B 176 UNP P54764 CYS 204 ENGINEERED
SEQRES 1 A 181 ASN GLU VAL THR LEU LEU ASP SER ARG SER VAL GLN GLY SEQRES 2 A 181 GLU LEU GLY TRP ILE ALA SER PRO LEU GLU GLY GLY TRP SEQRES 3 A 181 GLU GLU VAL SER ILE MET ASP GLU LYS ASN THR PRO ILE SEQRES 4 A 181 ARG THR TYR GLN VAL CYS ASN VAL MET GLU PRO SER GLN SEQRES 5 A 181 ASN ASN TRP LEU ARG THR ASP TRP ILE THR ARG GLU GLY SEQRES 6 A 181 ALA GLN ARG VAL TYR ILE GLU ILE LYS PHE THR LEU ARG SEQRES 7 A 181 ASP CYS ASN SER LEU PRO GLY VAL MET GLY THR CYS LYS SEQRES 8 A 181 GLU THR PHE ASN LEU TYR TYR TYR GLU SER ASP ASN ASP SEQRES 9 A 181 LYS GLU ARG PHE ILE ARG GLU ASN GLN PHE VAL LYS ILE SEQRES 10 A 181 ASP THR ILE ALA ALA ASP GLU SER PHE THR GLN VAL ASP SEQRES 11 A 181 ILE GLY ASP ARG ILE MET LYS LEU ASN THR GLU ILE ARG SEQRES 12 A 181 ASP VAL GLY PRO LEU SER LYS LYS GLY PHE TYR LEU ALA SEQRES 13 A 181 PHE GLN ASP VAL GLY ALA CYS ILE ALA LEU VAL SER VAL SEQRES 14 A 181 ARG VAL PHE TYR LYS LYS ALA PRO LEU THR VAL ARG SEQRES 1 B 181 ASN GLU VAL THR LEU LEU ASP SER ARG SER VAL GLN GLY SEQRES 2 B 181 GLU LEU GLY TRP ILE ALA SER PRO LEU GLU GLY GLY TRP SEQRES 3 B 181 GLU GLU VAL SER ILE MET ASP GLU LYS ASN THR PRO ILE SEQRES 4 B 181 ARG THR TYR GLN VAL CYS ASN VAL MET GLU PRO SER GLN SEQRES 5 B 181 ASN ASN TRP LEU ARG THR ASP TRP ILE THR ARG GLU GLY SEQRES 6 B 181 ALA GLN ARG VAL TYR ILE GLU ILE LYS PHE THR LEU ARG SEQRES 7 B 181 ASP CYS ASN SER LEU PRO GLY VAL MET GLY THR CYS LYS SEQRES 8 B 181 GLU THR PHE ASN LEU TYR TYR TYR GLU SER ASP ASN ASP SEQRES 9 B 181 LYS GLU ARG PHE ILE ARG GLU ASN GLN PHE VAL LYS ILE SEQRES 10 B 181 ASP THR ILE ALA ALA ASP GLU SER PHE THR GLN VAL ASP SEQRES 11 B 181 ILE GLY ASP ARG ILE MET LYS LEU ASN THR GLU ILE ARG SEQRES 12 B 181 ASP VAL GLY PRO LEU SER LYS LYS GLY PHE TYR LEU ALA SEQRES 13 B 181 PHE GLN ASP VAL GLY ALA CYS ILE ALA LEU VAL SER VAL SEQRES 14 B 181 ARG VAL PHE TYR LYS LYS ALA PRO LEU THR VAL ARG
FORMUL 3 HOH *143(H2 O)
HELIX 1 1 ARG A 9 VAL A 11 5 3 HELIX 2 2 ASP A 79 LEU A 83 5 5 HELIX 3 3 ARG A 110 PHE A 114 5 5 HELIX 4 4 ARG A 134 LEU A 138 5 5 HELIX 5 5 ARG B 9 VAL B 11 5 3 HELIX 6 6 ASP B 79 LEU B 83 5 5 HELIX 7 7 ARG B 110 PHE B 114 5 5
SHEET 1 A 4 VAL A 3 ASP A 7 0 SHEET 2 A 4 CYS A 163 TYR A 173 -1 O VAL A 171 N LEU A 5 SHEET 3 A 4 ARG A 40 CYS A 45 -1 N TYR A 42 O LEU A 166 SHEET 4 A 4 GLU A 27 SER A 30 -1 N VAL A 29 O THR A 41 SHEET 1 B 4 VAL A 3 ASP A 7 0 SHEET 2 B 4 CYS A 163 TYR A 173 -1 O VAL A 171 N LEU A 5 SHEET 3 B 4 VAL A 69 LEU A 77 -1 N TYR A 70 O PHE A 172 SHEET 4 B 4 ASN A 139 VAL A 145 -1 O ARG A 143 N ILE A 71 SHEET 1 C 4 ILE A 18 SER A 20 0 SHEET 2 C 4 ASN A 54 ARG A 57 -1 O TRP A 55 N SER A 20 SHEET 3 C 4 GLY A 152 ASP A 159 -1 O ASP A 159 N ASN A 54 SHEET 4 C 4 ILE A 61 THR A 62 -1 N ILE A 61 O PHE A 153 SHEET 1 D 5 ILE A 18 SER A 20 0 SHEET 2 D 5 ASN A 54 ARG A 57 -1 O TRP A 55 N SER A 20 SHEET 3 D 5 GLY A 152 ASP A 159 -1 O ASP A 159 N ASN A 54 SHEET 4 D 5 THR A 93 SER A 101 -1 N TYR A 97 O ALA A 156 SHEET 5 D 5 VAL A 115 ALA A 121 -1 O ILE A 117 N LEU A 96 SHEET 1 E 4 VAL B 3 ASP B 7 0 SHEET 2 E 4 ILE B 164 TYR B 173 -1 O VAL B 171 N LEU B 5 SHEET 3 E 4 ILE B 39 VAL B 44 -1 N TYR B 42 O LEU B 166 SHEET 4 E 4 GLU B 27 ILE B 31 -1 N VAL B 29 O THR B 41 SHEET 1 F 5 VAL B 3 ASP B 7 0 SHEET 2 F 5 ILE B 164 TYR B 173 -1 O VAL B 171 N LEU B 5 SHEET 3 F 5 VAL B 69 LEU B 77 -1 N TYR B 70 O PHE B 172 SHEET 4 F 5 MET B 136 VAL B 145 -1 O GLU B 141 N ILE B 73 SHEET 5 F 5 PHE B 126 VAL B 129 -1 N THR B 127 O LEU B 138 SHEET 1 G 4 ILE B 18 ALA B 19 0 SHEET 2 G 4 ASN B 54 ARG B 57 -1 O ARG B 57 N ILE B 18 SHEET 3 G 4 GLY B 152 ASP B 159 -1 O ASP B 159 N ASN B 54 SHEET 4 G 4 ILE B 61 THR B 62 -1 N ILE B 61 O PHE B 153 SHEET 1 H 5 ILE B 18 ALA B 19 0 SHEET 2 H 5 ASN B 54 ARG B 57 -1 O ARG B 57 N ILE B 18 SHEET 3 H 5 GLY B 152 ASP B 159 -1 O ASP B 159 N ASN B 54 SHEET 4 H 5 PHE B 94 SER B 101 -1 N SER B 101 O GLY B 152 SHEET 5 H 5 VAL B 115 ILE B 120 -1 O ILE B 120 N PHE B 94
SSBOND 1 CYS A 45 CYS A 163 1555 1555 2.03 SSBOND 2 CYS A 80 CYS A 90 1555 1555 2.03 SSBOND 3 CYS B 45 CYS B 163 1555 1555 2.03 SSBOND 4 CYS B 80 CYS B 90 1555 1555 2.04
CISPEP 1 SER A 20 PRO A 21 0 -3.12 CISPEP 2 ASP B 123 GLU B 124 0 11.54
CRYST1 53.749 71.121 127.004 90.00 90.00 90.00 P 2 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 0.018605 0.000000 0.000000 0.00000
SCALE2 0.000000 0.014061 0.000000 0.00000
SCALE3 0.000000 0.000000 0.007874 0.00000