10 20 30 40 50 60 70 80 1IIU - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSPORT PROTEIN 24-APR-01 1IIU
TITLE CHICKEN PLASMA RETINOL-BINDING PROTEIN (RBP)
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLASMA RETINOL-BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PRBP
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 ORGANISM_TAXID: 9031
KEYWDS RBP, RETINOL, TRANSPORT PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR G.ZANOTTI,V.CALDERONE,R.BERNI
REVDAT 2 24-FEB-09 1IIU 1 VERSN REVDAT 1 16-JAN-02 1IIU 0
JRNL AUTH G.ZANOTTI,V.CALDERONE,M.BEDA,G.MALPELI,C.FOLLI, JRNL AUTH 2 R.BERNI JRNL TITL STRUCTURE OF CHICKEN PLASMA RETINOL-BINDING PROTEIN JRNL REF BIOCHIM.BIOPHYS.ACTA V.1550 64 2001 JRNL REFN ISSN 0006-3002 JRNL PMID 11738088 JRNL DOI 10.1016/S0167-4838(01)00268-0
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.ZANOTTI,S.OTTONELLO,R.BERNI,H.L.MONACO REMARK 1 TITL CRYSTAL STRUCTURE OF THE TRIGONAL FORM OF HUMAN REMARK 1 TITL 2 PLASMA RETINOL-BINDING PROTEIN AT 2.5 A RESOLUTION REMARK 1 REF J.MOL.BIOL. V. 230 613 2001 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1993.1173 REMARK 1 REFERENCE 2 REMARK 1 AUTH R.BERNI,M.STOPPINI,M.C.ZAPPONI,M.L.MELONI, REMARK 1 AUTH 2 H.L.MONACO,G.ZANOTTI REMARK 1 TITL THE BOVINE PLASMA RETINOL-BINDING PROTEIN. AMINO REMARK 1 TITL 2 ACID SEQUENCE, INTERACTION WITH TRANSTHYRETIN, REMARK 1 TITL 3 CRYSTALLIZATION AND PRELIMINARY X-RAY DATA. REMARK 1 REF EUR.J.BIOCHEM. V. 192 507 1990 REMARK 1 REFN ISSN 0014-2956 REMARK 1 REFERENCE 3 REMARK 1 AUTH G.ZANOTTI,R.BERNI,H.L.MONACO REMARK 1 TITL CRYSTAL STRUCTURE OF LIGANDED AND UNLIGANDED FORMS REMARK 1 TITL 2 OF BOVINE PLASMA RETINOL-BINDING PROTEIN REMARK 1 REF J.BIOL.CHEM. V. 268 10728 1993 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 4 REMARK 1 AUTH S.W.COWAN,M.E.NEWCOMER,T.A.JONES REMARK 1 TITL CRYSTALLOGRAPHIC REFINEMENT OF HUMAN SERUM RETINOL REMARK 1 TITL 2 BINDING PROTEIN AT 2 ANGSTROMS RESOLUTION REMARK 1 REF PROTEINS V. 8 44 1990 REMARK 1 REFN ISSN 0887-3585
REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNX 2000.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,MOLECULAR REMARK 3 : SIMULATIONS (BADGER,BERARD,KUMAR,SZALMA, REMARK 3 : YIP,DZAKULA) REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 282522.350 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 87.8 REMARK 3 NUMBER OF REFLECTIONS : 5851 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.500 REMARK 3 FREE R VALUE TEST SET COUNT : 438 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.013 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 680 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE : 0.3370 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 55 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.045 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1406 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 111 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.68000 REMARK 3 B22 (A**2) : 0.13000 REMARK 3 B33 (A**2) : 0.55000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.44 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.38 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.45 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.021 REMARK 3 BOND ANGLES (DEGREES) : 2.70 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.84 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.410 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.400 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.970 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.970 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.29 REMARK 3 BSOL : 36.83 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : RETINOL.PAR REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1IIU COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-APR-01. REMARK 100 THE RCSB ID CODE IS RCSB013311.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7 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 : BRUCKER REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS HI-STAR REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SAINT REMARK 200 DATA SCALING SOFTWARE : SAINT REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22515 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 82.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.15000 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K
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 23.03200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.70700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.78000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 36.70700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.03200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 26.78000 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: 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 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 MET A 2 CB CG SD CE
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 CE LYS A 99 O HOH A 254 2.12 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 OE1 GLN A 52 O HOH A 239 4555 1.93 REMARK 500 OD2 ASP A 48 O HOH A 239 4555 2.07 REMARK 500 NE2 GLN A 52 O HOH A 242 4555 2.13 REMARK 500 CZ3 TRP A 67 O HOH A 222 1455 2.13 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 GLU A 13 CG GLU A 13 CD 0.110 REMARK 500 PHE A 64 CD1 PHE A 64 CE1 -0.143 REMARK 500 ASP A 110 N ASP A 110 CA -0.157 REMARK 500 TYR A 111 N TYR A 111 CA -0.142 REMARK 500 LYS A 164 CD LYS A 164 CE -0.286 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 LYS A 10 CB - CA - C ANGL. DEV. = 13.7 DEGREES REMARK 500 PHE A 64 CB - CA - C ANGL. DEV. = -13.0 DEGREES REMARK 500 PHE A 64 CB - CG - CD1 ANGL. DEV. = -7.2 DEGREES REMARK 500 PHE A 64 CA - C - N ANGL. DEV. = -22.8 DEGREES REMARK 500 PHE A 64 O - C - N ANGL. DEV. = 15.8 DEGREES REMARK 500 ASN A 66 CB - CA - C ANGL. DEV. = 12.6 DEGREES REMARK 500 ASN A 66 N - CA - CB ANGL. DEV. = -11.4 DEGREES REMARK 500 LYS A 87 CB - CA - C ANGL. DEV. = -13.5 DEGREES REMARK 500 LYS A 87 CB - CG - CD ANGL. DEV. = 25.8 DEGREES REMARK 500 LYS A 87 CG - CD - CE ANGL. DEV. = 21.9 DEGREES REMARK 500 LYS A 87 CD - CE - NZ ANGL. DEV. = 22.8 DEGREES REMARK 500 ASP A 110 N - CA - CB ANGL. DEV. = 14.2 DEGREES REMARK 500 TYR A 111 N - CA - CB ANGL. DEV. = -28.0 DEGREES REMARK 500 ASP A 110 CA - C - N ANGL. DEV. = 18.1 DEGREES REMARK 500 ASP A 110 O - C - N ANGL. DEV. = -25.4 DEGREES REMARK 500 TYR A 111 C - N - CA ANGL. DEV. = 23.3 DEGREES REMARK 500 ASP A 162 CB - CG - OD1 ANGL. DEV. = 9.8 DEGREES REMARK 500 ASP A 162 CB - CG - OD2 ANGL. DEV. = -9.4 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 GLN A 38 -61.69 -108.27 REMARK 500 LEU A 63 -125.62 -97.52 REMARK 500 PHE A 64 -75.38 -34.25 REMARK 500 ASN A 65 89.23 -151.55 REMARK 500 ASN A 66 96.96 62.37 REMARK 500 TRP A 67 84.93 -173.89 REMARK 500 THR A 80 -168.65 -117.14 REMARK 500 TYR A 111 -4.28 -25.89 REMARK 500 ASP A 162 131.08 -38.36 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 ASP A 110 TYR A 111 -111.88 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 A 232 DISTANCE = 6.29 ANGSTROMS REMARK 525 HOH A 252 DISTANCE = 5.58 ANGSTROMS REMARK 525 HOH A 261 DISTANCE = 7.20 ANGSTROMS REMARK 525 HOH A 264 DISTANCE = 6.40 ANGSTROMS REMARK 525 HOH A 265 DISTANCE = 6.59 ANGSTROMS
REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A 177 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 33 OE1 REMARK 620 2 GLU A 33 OE2 45.8 REMARK 620 3 ASP A 140 OD1 101.5 137.0 REMARK 620 4 ASP A 140 OD2 146.0 145.0 47.2 REMARK 620 5 HOH A 260 O 113.1 74.8 104.7 71.8 REMARK 620 6 LYS A 142 NZ 117.0 79.6 140.9 96.1 66.9 REMARK 620 N 1 2 3 4 5
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 177 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RTL A 176
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AQB RELATED DB: PDB REMARK 900 RELATED ID: 1HBP RELATED DB: PDB REMARK 900 RELATED ID: 1HBQ RELATED DB: PDB REMARK 900 RELATED ID: 1RBP RELATED DB: PDB
DBREF 1IIU A 3 175 UNP P41263 RETBP_CHICK 24 196
SEQADV 1IIU MET A 2 UNP P41263 INITIATING MET
SEQRES 1 A 174 MET ASP CYS ARG VAL SER SER PHE LYS VAL LYS GLU ASN SEQRES 2 A 174 PHE ASP LYS ASN ARG TYR SER GLY THR TRP TYR ALA MET SEQRES 3 A 174 ALA LYS LYS ASP PRO GLU GLY LEU PHE LEU GLN ASP ASN SEQRES 4 A 174 VAL VAL ALA GLN PHE THR VAL ASP GLU ASN GLY GLN MET SEQRES 5 A 174 SER ALA THR ALA LYS GLY ARG VAL ARG LEU PHE ASN ASN SEQRES 6 A 174 TRP ASP VAL CYS ALA ASP MET ILE GLY SER PHE THR ASP SEQRES 7 A 174 THR GLU ASP PRO ALA LYS PHE LYS MET LYS TYR TRP GLY SEQRES 8 A 174 VAL ALA SER PHE LEU GLN LYS GLY ASN ASP ASP HIS TRP SEQRES 9 A 174 VAL VAL ASP THR ASP TYR ASP THR TYR ALA LEU HIS TYR SEQRES 10 A 174 SER CYS ARG GLU LEU ASN GLU ASP GLY THR CYS ALA ASP SEQRES 11 A 174 SER TYR SER PHE VAL PHE SER ARG ASP PRO LYS GLY LEU SEQRES 12 A 174 PRO PRO GLU ALA GLN LYS ILE VAL ARG GLN ARG GLN ILE SEQRES 13 A 174 ASP LEU CYS LEU ASP ARG LYS TYR ARG VAL ILE VAL HIS SEQRES 14 A 174 ASN GLY PHE CYS SER
HET CD A 177 1 HET RTL A 176 21
HETNAM CD CADMIUM ION HETNAM RTL RETINOL
FORMUL 2 CD CD 2+ FORMUL 3 RTL C20 H30 O FORMUL 4 HOH *95(H2 O)
HELIX 1 1 VAL A 6 PHE A 9 5 4 HELIX 2 2 ASP A 16 SER A 21 1 6 HELIX 3 3 PRO A 145 ASP A 158 1 14
SHEET 1 A10 ARG A 166 VAL A 167 0 SHEET 2 A10 GLY A 22 LYS A 30 -1 O LYS A 29 N ARG A 166 SHEET 3 A10 ASP A 39 VAL A 47 -1 O VAL A 41 N ALA A 26 SHEET 4 A10 MET A 53 ARG A 62 -1 N SER A 54 O THR A 46 SHEET 5 A10 ASP A 68 THR A 78 -1 N VAL A 69 O VAL A 61 SHEET 6 A10 LYS A 85 GLY A 92 -1 O LYS A 87 N THR A 78 SHEET 7 A10 GLY A 100 THR A 109 -1 O GLY A 100 N TYR A 90 SHEET 8 A10 TYR A 114 LEU A 123 -1 N LEU A 116 O ASP A 108 SHEET 9 A10 CYS A 129 SER A 138 -1 N ALA A 130 O GLU A 122 SHEET 10 A10 GLY A 22 LYS A 30 -1 N TYR A 25 O SER A 138
SSBOND 1 CYS A 4 CYS A 160 1555 1555 2.03 SSBOND 2 CYS A 70 CYS A 174 1555 1555 2.04 SSBOND 3 CYS A 120 CYS A 129 1555 1555 2.03
LINK CD CD A 177 OE1 GLU A 33 1555 1555 2.55 LINK CD CD A 177 OE2 GLU A 33 1555 1555 3.02 LINK CD CD A 177 OD1 ASP A 140 1555 3544 2.86 LINK CD CD A 177 OD2 ASP A 140 1555 3544 2.59 LINK CD CD A 177 O HOH A 260 1555 3544 2.72 LINK CD CD A 177 NZ LYS A 142 1555 3544 2.56
SITE 1 AC1 4 GLU A 33 ASP A 140 LYS A 142 HOH A 260 SITE 1 AC2 5 LEU A 35 PHE A 36 MET A 88 LEU A 97 SITE 2 AC2 5 GLN A 98
CRYST1 46.064 53.560 73.414 90.00 90.00 90.00 P 21 21 21 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 0.021709 0.000000 0.000000 0.00000
SCALE2 0.000000 0.018671 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013621 0.00000