HEADER MEMBRANE PROTEIN 01-APR-14 4P8S TITLE CRYSTAL STRUCTURE OF NOGO-RECEPTOR-2 CAVEAT 4P8S NAG A 405 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RETICULON-4 RECEPTOR-LIKE 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LRR DOMAIN RESIDUES 29-310; COMPND 5 SYNONYM: NOGO RECEPTOR-LIKE 3,NOGO-66 RECEPTOR HOMOLOG 1,NOGO-66 COMPND 6 RECEPTOR-RELATED PROTEIN 2,NGR2; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: RTN4RL2, NGRH1; SOURCE 6 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HIGH FIVE TM KEYWDS NOGO RECEPTOR, MYELIN ASSOCIATED GLYCOPROTEIN, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.SEMAVINA,N.SAHA,M.V.KOLEV,R.J.GIGER,J.P.HIMANEN,D.B.NIKOLOV REVDAT 4 27-DEC-23 4P8S 1 HETSYN REVDAT 3 29-JUL-20 4P8S 1 CAVEAT COMPND SOURCE REMARK REVDAT 3 2 1 HETNAM LINK SITE ATOM REVDAT 2 11-FEB-15 4P8S 1 HET REVDAT 1 09-APR-14 4P8S 0 JRNL AUTH M.SEMAVINA,N.SAHA,M.V.KOLEV,Y.GOLDGUR,R.J.GIGER,J.P.HIMANEN, JRNL AUTH 2 D.B.NIKOLOV JRNL TITL CRYSTAL STRUCTURE OF THE NOGO-RECEPTOR-2. JRNL REF PROTEIN SCI. 684 2011 JRNL REFN ESSN 1469-896X JRNL PMID 21308849 JRNL DOI 10.1002/PRO.597 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 38016 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2025 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2162 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 76.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2249 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 365 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.07000 REMARK 3 B22 (A**2) : -0.32000 REMARK 3 B33 (A**2) : -0.74000 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): 0.098 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.099 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.061 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.937 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2385 ; 0.031 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3242 ; 2.413 ; 2.001 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 281 ; 6.693 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;40.784 ;22.478 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 370 ;14.228 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;18.540 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 371 ; 0.236 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1812 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1421 ; 1.514 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2281 ; 2.651 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 964 ; 4.185 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 961 ; 6.582 ; 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4P8S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000200944. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38016 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10400 REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.41200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, 10% ISOPROPANOL, 15% PEG REMARK 280 10K, VAPOR DIFFUSION, HANGING 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 28.41100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.48000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.25850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.48000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.41100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.25850 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 A 613 O HOH A 841 1.05 REMARK 500 O HOH A 633 O HOH A 798 1.06 REMARK 500 O HOH A 663 O HOH A 809 1.15 REMARK 500 O4 NAG B 1 O5 NDG B 2 1.40 REMARK 500 O HOH A 701 O HOH A 816 1.50 REMARK 500 O HOH A 516 O HOH A 568 1.53 REMARK 500 O HOH A 518 O HOH A 571 1.54 REMARK 500 O HOH A 729 O HOH A 857 1.62 REMARK 500 O HOH A 575 O HOH A 590 1.64 REMARK 500 O HOH A 759 O HOH A 824 1.69 REMARK 500 O HOH A 775 O HOH A 825 1.70 REMARK 500 O HOH A 740 O HOH A 802 1.76 REMARK 500 O HOH A 682 O HOH A 808 1.77 REMARK 500 O HOH A 751 O HOH A 805 1.82 REMARK 500 O HOH A 765 O HOH A 838 1.86 REMARK 500 O HOH A 743 O HOH A 830 1.87 REMARK 500 O HOH A 713 O HOH A 806 1.88 REMARK 500 O HOH A 705 O HOH A 865 1.89 REMARK 500 O HOH A 567 O HOH A 569 1.91 REMARK 500 O HOH A 775 O HOH A 824 1.92 REMARK 500 O HOH A 546 O HOH A 567 1.96 REMARK 500 O HOH A 790 O HOH A 828 2.02 REMARK 500 CG ARG A 117 O HOH A 732 2.06 REMARK 500 O HOH A 764 O HOH A 850 2.08 REMARK 500 O HOH A 571 O HOH A 587 2.10 REMARK 500 O HOH A 737 O HOH A 830 2.12 REMARK 500 O HOH A 588 O HOH A 754 2.13 REMARK 500 O HOH A 524 O HOH A 561 2.13 REMARK 500 NH1 ARG A 207 O HOH A 698 2.13 REMARK 500 O HOH A 775 O HOH A 826 2.14 REMARK 500 O4 NAG C 1 O5 NAG C 2 2.16 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 O HOH A 505 O HOH A 568 4455 1.45 REMARK 500 O HOH A 556 O HOH A 575 3645 1.83 REMARK 500 O HOH A 522 O HOH A 579 3655 2.12 REMARK 500 O HOH A 553 O HOH A 559 3655 2.17 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 CYS A 35 CB CYS A 35 SG 0.113 REMARK 500 GLN A 47 CB GLN A 47 CG 0.364 REMARK 500 SER A 53 CB SER A 53 OG 0.079 REMARK 500 GLU A 245 CB GLU A 245 CG 0.130 REMARK 500 CYS A 265 CB CYS A 265 SG 0.108 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 73 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 73 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 207 CG - CD - NE ANGL. DEV. = -13.2 DEGREES REMARK 500 LEU A 209 CB - CG - CD1 ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG A 303 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ASN A 70 -166.21 -121.00 REMARK 500 ASN A 92 -154.94 -115.07 REMARK 500 LEU A 105 57.37 -92.59 REMARK 500 ARG A 120 -44.27 70.25 REMARK 500 LEU A 130 54.36 -93.05 REMARK 500 ASN A 165 -152.51 -102.24 REMARK 500 LEU A 178 59.11 -90.31 REMARK 500 ASN A 189 -156.10 -101.15 REMARK 500 LEU A 202 51.04 -99.17 REMARK 500 ASN A 213 -152.74 -99.53 REMARK 500 ASN A 237 -156.24 -135.29 REMARK 500 LEU A 250 71.89 -112.28 REMARK 500 CYS A 265 55.91 -95.69 REMARK 500 ASP A 266 -157.53 -118.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1OZN RELATED DB: PDB REMARK 900 ISOFORM REMARK 900 RELATED ID: 4P91 RELATED DB: PDB DBREF 4P8S A 29 310 UNP Q80WD1 R4RL2_RAT 29 310 SEQRES 1 A 282 PRO SER CYS PRO MET LEU CYS THR CYS TYR SER SER PRO SEQRES 2 A 282 PRO THR VAL SER CYS GLN ALA ASN ASN PHE SER SER VAL SEQRES 3 A 282 PRO LEU SER LEU PRO PRO SER THR GLN ARG LEU PHE LEU SEQRES 4 A 282 GLN ASN ASN LEU ILE ARG SER LEU ARG PRO GLY THR PHE SEQRES 5 A 282 GLY PRO ASN LEU LEU THR LEU TRP LEU PHE SER ASN ASN SEQRES 6 A 282 LEU SER THR ILE TYR PRO GLY THR PHE ARG HIS LEU GLN SEQRES 7 A 282 ALA LEU GLU GLU LEU ASP LEU GLY ASP ASN ARG HIS LEU SEQRES 8 A 282 ARG SER LEU GLU PRO ASP THR PHE GLN GLY LEU GLU ARG SEQRES 9 A 282 LEU GLN SER LEU HIS LEU TYR ARG CYS GLN LEU SER SER SEQRES 10 A 282 LEU PRO GLY ASN ILE PHE ARG GLY LEU VAL SER LEU GLN SEQRES 11 A 282 TYR LEU TYR LEU GLN GLU ASN SER LEU LEU HIS LEU GLN SEQRES 12 A 282 ASP ASP LEU PHE ALA ASP LEU ALA ASN LEU SER HIS LEU SEQRES 13 A 282 PHE LEU HIS GLY ASN ARG LEU ARG LEU LEU THR GLU HIS SEQRES 14 A 282 VAL PHE ARG GLY LEU GLY SER LEU ASP ARG LEU LEU LEU SEQRES 15 A 282 HIS GLY ASN ARG LEU GLN GLY VAL HIS ARG ALA ALA PHE SEQRES 16 A 282 HIS GLY LEU SER ARG LEU THR ILE LEU TYR LEU PHE ASN SEQRES 17 A 282 ASN SER LEU ALA SER LEU PRO GLY GLU ALA LEU ALA ASP SEQRES 18 A 282 LEU PRO ALA LEU GLU PHE LEU ARG LEU ASN ALA ASN PRO SEQRES 19 A 282 TRP ALA CYS ASP CYS ARG ALA ARG PRO LEU TRP ALA TRP SEQRES 20 A 282 PHE GLN ARG ALA ARG VAL SER SER SER ASP VAL THR CYS SEQRES 21 A 282 ALA THR PRO PRO GLU ARG GLN GLY ARG ASP LEU ARG THR SEQRES 22 A 282 LEU ARG ASP THR ASP PHE GLN ALA CYS HET NAG B 1 14 HET NDG B 2 14 HET NAG C 1 14 HET NAG C 2 14 HET NAG A 405 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM NDG 2-ACETAMIDO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN NDG N-ACETYL-ALPHA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 NDG ALPHA-D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2- HETSYN 3 NDG ACETAMIDO-2-DEOXY-GLUCOSE; 2-(ACETYLAMINO)-2-DEOXY-A- HETSYN 4 NDG D-GLUCOPYRANOSE FORMUL 2 NAG 4(C8 H15 N O6) FORMUL 2 NDG C8 H15 N O6 FORMUL 5 HOH *365(H2 O) HELIX 1 AA1 PRO A 243 ASP A 249 1 7 HELIX 2 AA2 ASP A 266 ARG A 268 5 3 HELIX 3 AA3 ALA A 269 ALA A 279 1 11 HELIX 4 AA4 PRO A 291 GLN A 295 5 5 HELIX 5 AA5 ASP A 298 LEU A 302 5 5 HELIX 6 AA6 ARG A 303 GLN A 308 5 6 SHEET 1 AA112 THR A 36 TYR A 38 0 SHEET 2 AA112 THR A 43 SER A 45 -1 O SER A 45 N THR A 36 SHEET 3 AA112 ARG A 64 PHE A 66 1 O ARG A 64 N VAL A 44 SHEET 4 AA112 THR A 86 TRP A 88 1 O THR A 86 N LEU A 65 SHEET 5 AA112 GLU A 110 ASP A 112 1 O GLU A 110 N LEU A 87 SHEET 6 AA112 SER A 135 HIS A 137 1 O HIS A 137 N LEU A 111 SHEET 7 AA112 TYR A 159 TYR A 161 1 O TYR A 161 N LEU A 136 SHEET 8 AA112 HIS A 183 PHE A 185 1 O HIS A 183 N LEU A 160 SHEET 9 AA112 ARG A 207 LEU A 209 1 O ARG A 207 N LEU A 184 SHEET 10 AA112 ILE A 231 TYR A 233 1 O TYR A 233 N LEU A 208 SHEET 11 AA112 PHE A 255 ARG A 257 1 O ARG A 257 N LEU A 232 SHEET 12 AA112 SER A 282 SER A 283 1 O SER A 282 N LEU A 256 SHEET 1 AA2 2 SER A 74 LEU A 75 0 SHEET 2 AA2 2 THR A 96 ILE A 97 1 O THR A 96 N LEU A 75 SHEET 1 AA3 2 LEU A 193 LEU A 194 0 SHEET 2 AA3 2 GLY A 217 VAL A 218 1 O GLY A 217 N LEU A 194 SHEET 1 AA4 2 TRP A 263 ALA A 264 0 SHEET 2 AA4 2 CYS A 288 THR A 290 1 O ALA A 289 N TRP A 263 SSBOND 1 CYS A 31 CYS A 37 1555 1555 2.14 SSBOND 2 CYS A 35 CYS A 46 1555 1555 2.18 SSBOND 3 CYS A 265 CYS A 288 1555 1555 2.00 SSBOND 4 CYS A 267 CYS A 310 1555 1555 2.00 LINK ND2 ASN A 50 C1 NAG A 405 1555 1555 1.49 LINK ND2 ASN A 93 C1 NAG C 1 1555 1555 1.49 LINK ND2 ASN A 236 C1 NAG B 1 1555 1555 1.48 LINK O4 NAG B 1 C1 NDG B 2 1555 1555 1.45 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.46 CISPEP 1 SER A 40 PRO A 41 0 -11.45 CISPEP 2 THR A 290 PRO A 291 0 -7.09 CRYST1 56.822 56.517 128.960 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 0.017599 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017694 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007754 0.00000