10 20 30 40 50 60 70 80 5DG4 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSPORT PROTEIN 27-AUG-15 5DG4
TITLE CRYSTAL STRUCTURE OF MONOMER HUMAN CELLULAR RETINOL BINDING PROTEIN TITLE 2 II-Y60L
COMPND MOL_ID: 1; COMPND 2 MOLECULE: RETINOL-BINDING PROTEIN 2; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: CELLULAR RETINOL-BINDING PROTEIN II,CRBP-II; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: RBP2, CRBP2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET17B
KEYWDS DOMAIN SWAPPING, TRANSPORT PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR Z.ASSAR,Z.NOSSONI,W.WANG,J.H.GIEGER,B.BORHAN
REVDAT 1 21-SEP-16 5DG4 0
JRNL AUTH Z.ASSAR,Z.NOSSONI,W.WANG,J.H.GEIGER,B.BORHAN JRNL TITL CRYSTAL STRUCTURE OF MONOMER HUMAN CELLULAR RETINOL BINDING JRNL TITL 2 PROTEIN II-Y60L JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Z.NOSSONI,Z.ASSAR,I.YAPICI,M.NOSRATI,W.WANG,T.BERBASOVA, REMARK 1 AUTH 2 C.VASILEIOU,B.BORHAN,J.GEIGER REMARK 1 TITL STRUCTURES OF HOLO WILD-TYPE HUMAN CELLULAR RETINOL-BINDING REMARK 1 TITL 2 PROTEIN II (HCRBPII) BOUND TO RETINOL AND RETINAL. REMARK 1 REF ACTA CRYSTALLOGR. D BIOL. V. 70 3226 2014 REMARK 1 REF 2 CRYSTALLOGR. REMARK 1 REFN ESSN 1399-0047 REMARK 1 PMID 25478840 REMARK 1 DOI 10.1107/S1399004714023839
REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.06 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 74068 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.225 REMARK 3 R VALUE (WORKING SET) : 0.224 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.710 REMARK 3 FREE R VALUE TEST SET COUNT : 2006 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 30.0613 - 3.6139 0.92 4971 143 0.1982 0.2199 REMARK 3 2 3.6139 - 2.8692 0.97 5280 148 0.1916 0.2017 REMARK 3 3 2.8692 - 2.5067 0.97 5225 153 0.2058 0.2562 REMARK 3 4 2.5067 - 2.2776 0.96 5164 152 0.2123 0.2386 REMARK 3 5 2.2776 - 2.1144 0.96 5222 137 0.2140 0.2772 REMARK 3 6 2.1144 - 1.9898 0.96 5238 145 0.2135 0.2100 REMARK 3 7 1.9898 - 1.8901 0.96 5190 133 0.2304 0.2299 REMARK 3 8 1.8901 - 1.8079 0.96 5177 148 0.2423 0.2352 REMARK 3 9 1.8079 - 1.7383 0.95 5115 140 0.2752 0.2913 REMARK 3 10 1.7383 - 1.6783 0.95 5237 137 0.2909 0.3134 REMARK 3 11 1.6783 - 1.6258 0.95 5109 161 0.3147 0.3318 REMARK 3 12 1.6258 - 1.5794 0.94 5112 126 0.3345 0.3529 REMARK 3 13 1.5794 - 1.5378 0.94 5051 136 0.3634 0.3903 REMARK 3 14 1.5378 - 1.5003 0.91 4971 147 0.3952 0.4337 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 46.100 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 4439 REMARK 3 ANGLE : 1.073 5970 REMARK 3 CHIRALITY : 0.040 648 REMARK 3 PLANARITY : 0.004 770 REMARK 3 DIHEDRAL : 15.426 1647 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -3.0070 16.9858 7.9355 REMARK 3 T TENSOR REMARK 3 T11: 0.1456 T22: 0.1258 REMARK 3 T33: 0.1893 T12: 0.0026 REMARK 3 T13: -0.0038 T23: 0.0028 REMARK 3 L TENSOR REMARK 3 L11: 0.0628 L22: 0.0085 REMARK 3 L33: 4.5474 L12: -0.0058 REMARK 3 L13: -0.1557 L23: 0.2075 REMARK 3 S TENSOR REMARK 3 S11: -0.0253 S12: 0.0091 S13: 0.0139 REMARK 3 S21: -0.0363 S22: -0.0304 S23: 0.0135 REMARK 3 S31: 0.0373 S32: -0.1107 S33: 0.0562 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 5DG4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000213093.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : 4.0-4.8 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77790 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 94.7 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 43.3700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 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: NULL REMARK 200 SOFTWARE USED: PHENIX 1.8.4_1496 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 4000, 0.1 M SODIUM ACETATE, REMARK 280 0.1 M AMMONIUM ACETATE, PH 4.6, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 350 REMARK 350 BIOMOLECULE: 3 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: C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 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: D 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 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 B 58 CG CD NE CZ NH1 NH2
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 O HOH C 217 O HOH C 304 1.98 REMARK 500 OD2 ASP B 47 O HOH B 201 2.04 REMARK 500 O HOH B 223 O HOH C 202 2.11 REMARK 500 OD1 ASP C 47 O HOH C 201 2.12 REMARK 500 O HOH D 301 O HOH D 314 2.12 REMARK 500 O HOH C 291 O HOH C 304 2.15 REMARK 500 OE2 GLU C 11 O HOH C 202 2.15 REMARK 500 O VAL A 66 O HOH B 201 2.15 REMARK 500 O ASP A 113 O HOH A 301 2.16 REMARK 500 O HOH A 335 O HOH D 328 2.16 REMARK 500 OG SER C 76 O HOH C 203 2.17 REMARK 500 O VAL C 66 O HOH C 204 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OD2 ASP D 47 O HOH C 204 1654 2.02 REMARK 500 O HOH D 374 O HOH D 376 1455 2.17 REMARK 500 OD2 ASP A 71 NZ LYS B 83 1655 2.19 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 D 58 NE - CZ - NH1 ANGL. DEV. = -3.2 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 ASN A 13 86.92 -153.15 REMARK 500 LEU A 77 -104.42 -128.14 REMARK 500 THR B 74 90.77 -50.16 REMARK 500 LYS B 75 -72.42 -54.43 REMARK 500 LEU B 77 -102.45 -141.10 REMARK 500 ASN C 13 86.08 -152.31 REMARK 500 ARG C 35 -136.72 -83.28 REMARK 500 LEU C 36 110.99 52.81 REMARK 500 THR C 74 49.51 -83.59 REMARK 500 LYS C 75 151.14 -47.92 REMARK 500 SER C 76 -25.86 86.38 REMARK 500 LEU C 77 -102.08 -125.99 REMARK 500 THR D 74 86.73 -51.46 REMARK 500 LYS D 75 -73.80 -49.13 REMARK 500 LEU D 77 -106.81 -138.54 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 ACT A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT D 201
DBREF 5DG4 A 1 133 UNP P50120 RET2_HUMAN 2 134 DBREF 5DG4 B 1 133 UNP P50120 RET2_HUMAN 2 134 DBREF 5DG4 C 1 133 UNP P50120 RET2_HUMAN 2 134 DBREF 5DG4 D 1 133 UNP P50120 RET2_HUMAN 2 134
SEQADV 5DG4 LEU A 60 UNP P50120 TYR 61 ENGINEERED MUTATION SEQADV 5DG4 LEU B 60 UNP P50120 TYR 61 ENGINEERED MUTATION SEQADV 5DG4 LEU C 60 UNP P50120 TYR 61 ENGINEERED MUTATION SEQADV 5DG4 LEU D 60 UNP P50120 TYR 61 ENGINEERED MUTATION
SEQRES 1 A 133 THR ARG ASP GLN ASN GLY THR TRP GLU MET GLU SER ASN SEQRES 2 A 133 GLU ASN PHE GLU GLY TYR MET LYS ALA LEU ASP ILE ASP SEQRES 3 A 133 PHE ALA THR ARG LYS ILE ALA VAL ARG LEU THR GLN THR SEQRES 4 A 133 LYS VAL ILE ASP GLN ASP GLY ASP ASN PHE LYS THR LYS SEQRES 5 A 133 THR THR SER THR PHE ARG ASN LEU ASP VAL ASP PHE THR SEQRES 6 A 133 VAL GLY VAL GLU PHE ASP GLU TYR THR LYS SER LEU ASP SEQRES 7 A 133 ASN ARG HIS VAL LYS ALA LEU VAL THR TRP GLU GLY ASP SEQRES 8 A 133 VAL LEU VAL CYS VAL GLN LYS GLY GLU LYS GLU ASN ARG SEQRES 9 A 133 GLY TRP LYS GLN TRP ILE GLU GLY ASP LYS LEU TYR LEU SEQRES 10 A 133 GLU LEU THR CYS GLY ASP GLN VAL CYS ARG GLN VAL PHE SEQRES 11 A 133 LYS LYS LYS SEQRES 1 B 133 THR ARG ASP GLN ASN GLY THR TRP GLU MET GLU SER ASN SEQRES 2 B 133 GLU ASN PHE GLU GLY TYR MET LYS ALA LEU ASP ILE ASP SEQRES 3 B 133 PHE ALA THR ARG LYS ILE ALA VAL ARG LEU THR GLN THR SEQRES 4 B 133 LYS VAL ILE ASP GLN ASP GLY ASP ASN PHE LYS THR LYS SEQRES 5 B 133 THR THR SER THR PHE ARG ASN LEU ASP VAL ASP PHE THR SEQRES 6 B 133 VAL GLY VAL GLU PHE ASP GLU TYR THR LYS SER LEU ASP SEQRES 7 B 133 ASN ARG HIS VAL LYS ALA LEU VAL THR TRP GLU GLY ASP SEQRES 8 B 133 VAL LEU VAL CYS VAL GLN LYS GLY GLU LYS GLU ASN ARG SEQRES 9 B 133 GLY TRP LYS GLN TRP ILE GLU GLY ASP LYS LEU TYR LEU SEQRES 10 B 133 GLU LEU THR CYS GLY ASP GLN VAL CYS ARG GLN VAL PHE SEQRES 11 B 133 LYS LYS LYS SEQRES 1 C 133 THR ARG ASP GLN ASN GLY THR TRP GLU MET GLU SER ASN SEQRES 2 C 133 GLU ASN PHE GLU GLY TYR MET LYS ALA LEU ASP ILE ASP SEQRES 3 C 133 PHE ALA THR ARG LYS ILE ALA VAL ARG LEU THR GLN THR SEQRES 4 C 133 LYS VAL ILE ASP GLN ASP GLY ASP ASN PHE LYS THR LYS SEQRES 5 C 133 THR THR SER THR PHE ARG ASN LEU ASP VAL ASP PHE THR SEQRES 6 C 133 VAL GLY VAL GLU PHE ASP GLU TYR THR LYS SER LEU ASP SEQRES 7 C 133 ASN ARG HIS VAL LYS ALA LEU VAL THR TRP GLU GLY ASP SEQRES 8 C 133 VAL LEU VAL CYS VAL GLN LYS GLY GLU LYS GLU ASN ARG SEQRES 9 C 133 GLY TRP LYS GLN TRP ILE GLU GLY ASP LYS LEU TYR LEU SEQRES 10 C 133 GLU LEU THR CYS GLY ASP GLN VAL CYS ARG GLN VAL PHE SEQRES 11 C 133 LYS LYS LYS SEQRES 1 D 133 THR ARG ASP GLN ASN GLY THR TRP GLU MET GLU SER ASN SEQRES 2 D 133 GLU ASN PHE GLU GLY TYR MET LYS ALA LEU ASP ILE ASP SEQRES 3 D 133 PHE ALA THR ARG LYS ILE ALA VAL ARG LEU THR GLN THR SEQRES 4 D 133 LYS VAL ILE ASP GLN ASP GLY ASP ASN PHE LYS THR LYS SEQRES 5 D 133 THR THR SER THR PHE ARG ASN LEU ASP VAL ASP PHE THR SEQRES 6 D 133 VAL GLY VAL GLU PHE ASP GLU TYR THR LYS SER LEU ASP SEQRES 7 D 133 ASN ARG HIS VAL LYS ALA LEU VAL THR TRP GLU GLY ASP SEQRES 8 D 133 VAL LEU VAL CYS VAL GLN LYS GLY GLU LYS GLU ASN ARG SEQRES 9 D 133 GLY TRP LYS GLN TRP ILE GLU GLY ASP LYS LEU TYR LEU SEQRES 10 D 133 GLU LEU THR CYS GLY ASP GLN VAL CYS ARG GLN VAL PHE SEQRES 11 D 133 LYS LYS LYS
HET ACT A 201 4 HET ACT A 202 4 HET ACT D 201 4
HETNAM ACT ACETATE ION
FORMUL 5 ACT 3(C2 H3 O2 1-) FORMUL 8 HOH *375(H2 O)
HELIX 1 AA1 ASN A 15 LEU A 23 1 9 HELIX 2 AA2 ASP A 26 VAL A 34 1 9 HELIX 3 AA3 ASN B 15 LEU B 23 1 9 HELIX 4 AA4 ASP B 26 VAL B 34 1 9 HELIX 5 AA5 ASN C 15 LEU C 23 1 9 HELIX 6 AA6 ASP C 26 VAL C 34 1 9 HELIX 7 AA7 ASN D 15 LEU D 23 1 9 HELIX 8 AA8 ASP D 26 VAL D 34 1 9
SHEET 1 AA110 ASN A 59 THR A 65 0 SHEET 2 AA110 ASN A 48 THR A 54 -1 N PHE A 49 O PHE A 64 SHEET 3 AA110 THR A 39 ASP A 45 -1 N VAL A 41 O LYS A 52 SHEET 4 AA110 GLY A 6 GLU A 14 -1 N TRP A 8 O LYS A 40 SHEET 5 AA110 GLN A 124 LYS A 132 -1 O VAL A 129 N GLU A 11 SHEET 6 AA110 LYS A 114 CYS A 121 -1 N LEU A 117 O GLN A 128 SHEET 7 AA110 GLY A 105 GLU A 111 -1 N TRP A 109 O TYR A 116 SHEET 8 AA110 VAL A 92 LYS A 98 -1 N CYS A 95 O TRP A 106 SHEET 9 AA110 HIS A 81 GLU A 89 -1 N THR A 87 O VAL A 94 SHEET 10 AA110 PHE A 70 TYR A 73 -1 N PHE A 70 O ALA A 84 SHEET 1 AA210 ASN B 59 THR B 65 0 SHEET 2 AA210 ASN B 48 THR B 54 -1 N THR B 53 O LEU B 60 SHEET 3 AA210 THR B 39 ASP B 45 -1 N ASP B 43 O LYS B 50 SHEET 4 AA210 GLY B 6 GLU B 14 -1 N TRP B 8 O LYS B 40 SHEET 5 AA210 GLN B 124 LYS B 132 -1 O LYS B 131 N GLU B 9 SHEET 6 AA210 LYS B 114 CYS B 121 -1 N LEU B 119 O CYS B 126 SHEET 7 AA210 GLY B 105 GLU B 111 -1 N LYS B 107 O GLU B 118 SHEET 8 AA210 VAL B 92 LYS B 98 -1 N CYS B 95 O TRP B 106 SHEET 9 AA210 HIS B 81 GLU B 89 -1 N THR B 87 O VAL B 94 SHEET 10 AA210 PHE B 70 TYR B 73 -1 N PHE B 70 O ALA B 84 SHEET 1 AA310 ASN C 59 THR C 65 0 SHEET 2 AA310 ASN C 48 THR C 54 -1 N PHE C 49 O PHE C 64 SHEET 3 AA310 THR C 39 ASP C 45 -1 N VAL C 41 O LYS C 52 SHEET 4 AA310 GLY C 6 GLU C 14 -1 N TRP C 8 O LYS C 40 SHEET 5 AA310 GLN C 124 LYS C 132 -1 O VAL C 129 N GLU C 11 SHEET 6 AA310 LYS C 114 CYS C 121 -1 N LEU C 117 O GLN C 128 SHEET 7 AA310 GLY C 105 GLU C 111 -1 N TRP C 109 O TYR C 116 SHEET 8 AA310 VAL C 92 LYS C 98 -1 N CYS C 95 O TRP C 106 SHEET 9 AA310 HIS C 81 GLU C 89 -1 N THR C 87 O VAL C 94 SHEET 10 AA310 PHE C 70 TYR C 73 -1 N PHE C 70 O ALA C 84 SHEET 1 AA410 ASN D 59 THR D 65 0 SHEET 2 AA410 ASN D 48 THR D 54 -1 N THR D 53 O LEU D 60 SHEET 3 AA410 THR D 39 ASP D 45 -1 N ASP D 43 O LYS D 50 SHEET 4 AA410 GLY D 6 GLU D 14 -1 N TRP D 8 O LYS D 40 SHEET 5 AA410 GLN D 124 LYS D 132 -1 O VAL D 129 N GLU D 11 SHEET 6 AA410 LYS D 114 CYS D 121 -1 N LEU D 119 O CYS D 126 SHEET 7 AA410 GLY D 105 GLU D 111 -1 N LYS D 107 O GLU D 118 SHEET 8 AA410 VAL D 92 LYS D 98 -1 N CYS D 95 O TRP D 106 SHEET 9 AA410 HIS D 81 GLU D 89 -1 N THR D 87 O VAL D 94 SHEET 10 AA410 PHE D 70 TYR D 73 -1 N PHE D 70 O ALA D 84
SITE 1 AC1 5 GLU A 72 GLN A 97 TRP A 106 HOH A 318 SITE 2 AC1 5 HOH A 340 SITE 1 AC2 2 LYS A 40 GLN A 108 SITE 1 AC3 3 LYS D 40 TRP D 106 GLN D 108
CRYST1 29.526 36.224 129.086 84.34 80.26 67.47 P 1 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 0.033868 -0.014053 -0.005293 0.00000
SCALE2 0.000000 0.029888 -0.001111 0.00000
SCALE3 0.000000 0.000000 0.007865 0.00000