HEADER UNKNOWN FUNCTION 04-MAR-19 6JLA TITLE CRYSTAL STRUCTURE OF A MOUSE EPENDYMIN RELATED PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MAMMALIAN EPENDYMIN-RELATED PROTEIN 1; COMPND 3 CHAIN: A, B, D, C; COMPND 4 SYNONYM: MERP-1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: EPDR2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS EPENDYMIN, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR S.PARK REVDAT 3 16-SEP-20 6JLA 1 AUTHOR JRNL HETSYN LINK REVDAT 2 29-JUL-20 6JLA 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE ATOM REVDAT 1 04-MAR-20 6JLA 0 JRNL AUTH J.K.PARK,K.Y.KIM,Y.W.SIM,Y.I.KIM,J.K.KIM,C.LEE,J.HAN, JRNL AUTH 2 C.U.KIM,J.E.LEE,S.PARK JRNL TITL STRUCTURES OF THREE EPENDYMIN-RELATED PROTEINS SUGGEST THEIR JRNL TITL 2 FUNCTION AS A HYDROPHOBIC MOLECULE BINDER. JRNL REF IUCRJ V. 6 729 2019 JRNL REFN ESSN 2052-2525 JRNL PMID 31316816 JRNL DOI 10.1107/S2052252519007668 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 33843 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1787 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2389 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.09 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE SET COUNT : 116 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5995 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 94 REMARK 3 SOLVENT ATOMS : 109 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.29000 REMARK 3 B22 (A**2) : -0.23000 REMARK 3 B33 (A**2) : 0.75000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.77000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.374 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.251 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.170 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.171 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6260 ; 0.016 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 5751 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8519 ; 1.838 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13230 ; 0.874 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 736 ; 7.768 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 318 ;35.235 ;24.528 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1040 ;18.046 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 44 ;22.199 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 916 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7091 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1467 ; 0.001 ; 0.020 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): 2950 ; 4.511 ; 4.964 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2949 ; 4.511 ; 4.962 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3681 ; 6.857 ; 7.430 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3682 ; 6.857 ; 7.432 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3310 ; 5.411 ; 5.673 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3310 ; 5.411 ; 5.673 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4838 ; 8.450 ; 8.240 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6900 ;11.686 ;40.471 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6889 ;11.690 ;40.482 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 : NULL 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 REMARK 4 REMARK 4 6JLA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1300011315. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00065 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35643 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 44.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 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 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CITRATE TRIBASIC REMARK 280 DIHYDRATE PH 5.6, 0.5 M AMMONIUM SULFATE, 1.0 M LITHIUM SULFATE REMARK 280 MONOHYDRATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 29.83550 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 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: 5070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, E 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 ALA A 27 REMARK 465 ASP A 28 REMARK 465 PRO A 29 REMARK 465 HIS A 30 REMARK 465 HIS A 31 REMARK 465 HIS A 32 REMARK 465 HIS A 33 REMARK 465 HIS A 34 REMARK 465 HIS A 35 REMARK 465 HIS A 36 REMARK 465 HIS A 37 REMARK 465 THR A 38 REMARK 465 SER A 223 REMARK 465 LEU A 224 REMARK 465 ALA B 27 REMARK 465 ASP B 28 REMARK 465 PRO B 29 REMARK 465 HIS B 30 REMARK 465 HIS B 31 REMARK 465 HIS B 32 REMARK 465 HIS B 33 REMARK 465 HIS B 34 REMARK 465 HIS B 35 REMARK 465 HIS B 36 REMARK 465 HIS B 37 REMARK 465 THR B 38 REMARK 465 GLY B 221 REMARK 465 CYS B 222 REMARK 465 SER B 223 REMARK 465 LEU B 224 REMARK 465 ALA D 27 REMARK 465 ASP D 28 REMARK 465 PRO D 29 REMARK 465 HIS D 30 REMARK 465 HIS D 31 REMARK 465 HIS D 32 REMARK 465 HIS D 33 REMARK 465 HIS D 34 REMARK 465 HIS D 35 REMARK 465 LEU D 224 REMARK 465 ALA C 27 REMARK 465 ASP C 28 REMARK 465 PRO C 29 REMARK 465 HIS C 30 REMARK 465 HIS C 31 REMARK 465 HIS C 32 REMARK 465 HIS C 33 REMARK 465 HIS C 34 REMARK 465 HIS C 35 REMARK 465 HIS C 36 REMARK 465 HIS C 37 REMARK 465 THR C 38 REMARK 465 SER C 223 REMARK 465 LEU C 224 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 ND2 ASN B 130 O5 NAG B 301 1.65 REMARK 500 ND2 ASN D 130 O5 NAG D 301 1.68 REMARK 500 CG ASN D 130 O5 NAG D 301 1.99 REMARK 500 OD2 ASP B 135 NH2 ARG C 64 2.07 REMARK 500 ND2 ASN B 130 C2 NAG B 301 2.12 REMARK 500 ND2 ASN A 130 O5 NAG A 300 2.14 REMARK 500 CG ASN D 130 C1 NAG D 301 2.18 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 B 51 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG B 64 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 75 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 75 NE - CZ - NH2 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG B 77 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG D 51 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG D 51 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG C 51 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG C 51 NE - CZ - NH2 ANGL. DEV. = -4.1 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 ILE A 86 -144.06 36.60 REMARK 500 ALA A 157 -18.08 84.78 REMARK 500 ASP A 200 101.32 -162.87 REMARK 500 ALA A 212 66.00 -63.86 REMARK 500 ALA A 213 60.04 -62.95 REMARK 500 GLN A 214 108.80 -51.23 REMARK 500 ARG B 82 -85.89 -62.31 REMARK 500 LYS B 83 124.25 -22.44 REMARK 500 CYS B 88 -21.62 66.91 REMARK 500 ALA B 157 1.88 47.03 REMARK 500 SER B 159 58.51 -113.93 REMARK 500 GLU D 120 151.71 -48.62 REMARK 500 GLN D 143 -6.97 86.17 REMARK 500 GLU D 144 80.60 -150.53 REMARK 500 ALA D 157 -0.42 67.28 REMARK 500 ARG D 181 -71.27 -116.37 REMARK 500 ASN D 182 70.59 -118.88 REMARK 500 THR D 209 0.06 -61.74 REMARK 500 ALA D 213 129.13 -6.37 REMARK 500 GLN D 214 -168.64 -66.09 REMARK 500 ASP C 80 129.63 -37.90 REMARK 500 ALA C 84 -107.03 34.89 REMARK 500 LEU C 85 38.66 79.45 REMARK 500 PRO C 87 35.12 -74.26 REMARK 500 GLU C 144 115.58 -167.67 REMARK 500 THR C 156 -17.40 -49.98 REMARK 500 ALA C 157 -112.87 -42.77 REMARK 500 SER C 159 84.93 -68.56 REMARK 500 LYS C 217 138.40 -36.92 REMARK 500 ASP C 220 -79.68 -52.30 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 ILE A 86 PRO A 87 149.65 REMARK 500 ARG B 158 SER B 159 -142.25 REMARK 500 LYS C 89 ARG C 90 -148.13 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 D 414 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH C 349 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH C 350 DISTANCE = 7.58 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6JL9 RELATED DB: PDB REMARK 900 RELATED ID: 6JLD RELATED DB: PDB DBREF 6JLA A 38 224 UNP Q99M71 EPDR1_MOUSE 38 224 DBREF 6JLA B 38 224 UNP Q99M71 EPDR1_MOUSE 38 224 DBREF 6JLA D 38 224 UNP Q99M71 EPDR1_MOUSE 38 224 DBREF 6JLA C 38 224 UNP Q99M71 EPDR1_MOUSE 38 224 SEQADV 6JLA ALA A 27 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA ASP A 28 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA PRO A 29 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 30 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 31 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 32 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 33 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 34 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 35 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 36 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS A 37 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA ALA B 27 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA ASP B 28 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA PRO B 29 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 30 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 31 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 32 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 33 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 34 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 35 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 36 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS B 37 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA ALA D 27 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA ASP D 28 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA PRO D 29 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 30 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 31 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 32 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 33 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 34 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 35 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 36 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS D 37 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA ALA C 27 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA ASP C 28 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA PRO C 29 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 30 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 31 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 32 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 33 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 34 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 35 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 36 UNP Q99M71 EXPRESSION TAG SEQADV 6JLA HIS C 37 UNP Q99M71 EXPRESSION TAG SEQRES 1 A 198 ALA ASP PRO HIS HIS HIS HIS HIS HIS HIS HIS THR PRO SEQRES 2 A 198 GLN PRO CYS GLN ALA PRO GLN GLN TRP GLU GLY ARG GLN SEQRES 3 A 198 VAL LEU TYR GLN GLN SER SER GLY HIS ASN ASN ARG ALA SEQRES 4 A 198 LEU VAL SER TYR ASP GLY LEU ASN GLN ARG VAL ARG VAL SEQRES 5 A 198 LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS LYS ARG LEU SEQRES 6 A 198 PHE GLU TYR ILE LEU LEU TYR LYS GLU GLY VAL MET PHE SEQRES 7 A 198 GLN ILE GLU GLN ALA THR LYS GLN CYS ALA LYS ILE PRO SEQRES 8 A 198 LEU VAL GLU SER TRP ASP PRO LEU ASP ILE PRO GLN ASN SEQRES 9 A 198 SER THR PHE GLU ASP GLN TYR SER ILE GLY GLY PRO GLN SEQRES 10 A 198 GLU GLN ILE LEU VAL GLN GLU TRP SER ASP ARG ARG THR SEQRES 11 A 198 ALA ARG SER TYR GLU THR TRP ILE GLY VAL TYR THR ALA SEQRES 12 A 198 LYS ASP CYS TYR PRO VAL GLN GLU THR PHE ILE ARG ASN SEQRES 13 A 198 TYR THR VAL VAL MET SER THR ARG PHE PHE ASP VAL GLN SEQRES 14 A 198 LEU GLY ILE LYS ASP PRO SER VAL PHE THR PRO PRO SER SEQRES 15 A 198 THR CYS GLN ALA ALA GLN PRO GLU LYS MET SER ASP GLY SEQRES 16 A 198 CYS SER LEU SEQRES 1 B 198 ALA ASP PRO HIS HIS HIS HIS HIS HIS HIS HIS THR PRO SEQRES 2 B 198 GLN PRO CYS GLN ALA PRO GLN GLN TRP GLU GLY ARG GLN SEQRES 3 B 198 VAL LEU TYR GLN GLN SER SER GLY HIS ASN ASN ARG ALA SEQRES 4 B 198 LEU VAL SER TYR ASP GLY LEU ASN GLN ARG VAL ARG VAL SEQRES 5 B 198 LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS LYS ARG LEU SEQRES 6 B 198 PHE GLU TYR ILE LEU LEU TYR LYS GLU GLY VAL MET PHE SEQRES 7 B 198 GLN ILE GLU GLN ALA THR LYS GLN CYS ALA LYS ILE PRO SEQRES 8 B 198 LEU VAL GLU SER TRP ASP PRO LEU ASP ILE PRO GLN ASN SEQRES 9 B 198 SER THR PHE GLU ASP GLN TYR SER ILE GLY GLY PRO GLN SEQRES 10 B 198 GLU GLN ILE LEU VAL GLN GLU TRP SER ASP ARG ARG THR SEQRES 11 B 198 ALA ARG SER TYR GLU THR TRP ILE GLY VAL TYR THR ALA SEQRES 12 B 198 LYS ASP CYS TYR PRO VAL GLN GLU THR PHE ILE ARG ASN SEQRES 13 B 198 TYR THR VAL VAL MET SER THR ARG PHE PHE ASP VAL GLN SEQRES 14 B 198 LEU GLY ILE LYS ASP PRO SER VAL PHE THR PRO PRO SER SEQRES 15 B 198 THR CYS GLN ALA ALA GLN PRO GLU LYS MET SER ASP GLY SEQRES 16 B 198 CYS SER LEU SEQRES 1 D 198 ALA ASP PRO HIS HIS HIS HIS HIS HIS HIS HIS THR PRO SEQRES 2 D 198 GLN PRO CYS GLN ALA PRO GLN GLN TRP GLU GLY ARG GLN SEQRES 3 D 198 VAL LEU TYR GLN GLN SER SER GLY HIS ASN ASN ARG ALA SEQRES 4 D 198 LEU VAL SER TYR ASP GLY LEU ASN GLN ARG VAL ARG VAL SEQRES 5 D 198 LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS LYS ARG LEU SEQRES 6 D 198 PHE GLU TYR ILE LEU LEU TYR LYS GLU GLY VAL MET PHE SEQRES 7 D 198 GLN ILE GLU GLN ALA THR LYS GLN CYS ALA LYS ILE PRO SEQRES 8 D 198 LEU VAL GLU SER TRP ASP PRO LEU ASP ILE PRO GLN ASN SEQRES 9 D 198 SER THR PHE GLU ASP GLN TYR SER ILE GLY GLY PRO GLN SEQRES 10 D 198 GLU GLN ILE LEU VAL GLN GLU TRP SER ASP ARG ARG THR SEQRES 11 D 198 ALA ARG SER TYR GLU THR TRP ILE GLY VAL TYR THR ALA SEQRES 12 D 198 LYS ASP CYS TYR PRO VAL GLN GLU THR PHE ILE ARG ASN SEQRES 13 D 198 TYR THR VAL VAL MET SER THR ARG PHE PHE ASP VAL GLN SEQRES 14 D 198 LEU GLY ILE LYS ASP PRO SER VAL PHE THR PRO PRO SER SEQRES 15 D 198 THR CYS GLN ALA ALA GLN PRO GLU LYS MET SER ASP GLY SEQRES 16 D 198 CYS SER LEU SEQRES 1 C 198 ALA ASP PRO HIS HIS HIS HIS HIS HIS HIS HIS THR PRO SEQRES 2 C 198 GLN PRO CYS GLN ALA PRO GLN GLN TRP GLU GLY ARG GLN SEQRES 3 C 198 VAL LEU TYR GLN GLN SER SER GLY HIS ASN ASN ARG ALA SEQRES 4 C 198 LEU VAL SER TYR ASP GLY LEU ASN GLN ARG VAL ARG VAL SEQRES 5 C 198 LEU ASP GLU ARG LYS ALA LEU ILE PRO CYS LYS ARG LEU SEQRES 6 C 198 PHE GLU TYR ILE LEU LEU TYR LYS GLU GLY VAL MET PHE SEQRES 7 C 198 GLN ILE GLU GLN ALA THR LYS GLN CYS ALA LYS ILE PRO SEQRES 8 C 198 LEU VAL GLU SER TRP ASP PRO LEU ASP ILE PRO GLN ASN SEQRES 9 C 198 SER THR PHE GLU ASP GLN TYR SER ILE GLY GLY PRO GLN SEQRES 10 C 198 GLU GLN ILE LEU VAL GLN GLU TRP SER ASP ARG ARG THR SEQRES 11 C 198 ALA ARG SER TYR GLU THR TRP ILE GLY VAL TYR THR ALA SEQRES 12 C 198 LYS ASP CYS TYR PRO VAL GLN GLU THR PHE ILE ARG ASN SEQRES 13 C 198 TYR THR VAL VAL MET SER THR ARG PHE PHE ASP VAL GLN SEQRES 14 C 198 LEU GLY ILE LYS ASP PRO SER VAL PHE THR PRO PRO SER SEQRES 15 C 198 THR CYS GLN ALA ALA GLN PRO GLU LYS MET SER ASP GLY SEQRES 16 C 198 CYS SER LEU MODRES 6JLA NAG A 300 NAG -D HET NAG E 1 14 HET NAG E 2 14 HET FUC E 3 10 HET NAG A 300 14 HET NAG B 301 14 HET NAG D 301 14 HET NAG D 302 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE 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 FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 5 NAG 6(C8 H15 N O6) FORMUL 5 FUC C6 H12 O5 FORMUL 10 HOH *109(H2 O) HELIX 1 AA1 ASP A 200 THR A 205 5 6 HELIX 2 AA2 PRO A 207 ALA A 212 5 6 HELIX 3 AA3 ASP B 200 THR B 205 5 6 HELIX 4 AA4 PRO B 207 ALA B 213 5 7 HELIX 5 AA5 ASP D 200 THR D 205 5 6 HELIX 6 AA6 PRO D 207 GLN D 211 5 5 HELIX 7 AA7 ASP C 200 THR C 205 5 6 HELIX 8 AA8 PRO C 207 ALA C 213 5 7 SHEET 1 AA111 CYS A 113 PRO A 117 0 SHEET 2 AA111 VAL A 102 GLU A 107 -1 N MET A 103 O ILE A 116 SHEET 3 AA111 PHE A 92 LEU A 97 -1 N LEU A 97 O VAL A 102 SHEET 4 AA111 ARG A 75 ASP A 80 -1 N VAL A 76 O LEU A 96 SHEET 5 AA111 HIS A 61 ASP A 70 -1 N LEU A 66 O LEU A 79 SHEET 6 AA111 GLN A 47 GLN A 56 -1 N LEU A 54 O ASN A 63 SHEET 7 AA111 THR A 184 LEU A 196 -1 O GLN A 195 N GLU A 49 SHEET 8 AA111 PRO A 174 ARG A 181 -1 N PHE A 179 O VAL A 186 SHEET 9 AA111 TRP A 163 THR A 168 -1 N VAL A 166 O VAL A 175 SHEET 10 AA111 GLU A 144 SER A 152 -1 N GLN A 149 O TYR A 167 SHEET 11 AA111 THR A 132 GLY A 141 -1 N ASP A 135 O GLU A 150 SHEET 1 AA211 CYS B 113 PRO B 117 0 SHEET 2 AA211 VAL B 102 GLU B 107 -1 N GLN B 105 O ALA B 114 SHEET 3 AA211 PHE B 92 LEU B 97 -1 N LEU B 97 O VAL B 102 SHEET 4 AA211 ARG B 75 ASP B 80 -1 N VAL B 76 O LEU B 96 SHEET 5 AA211 ASN B 62 ASP B 70 -1 N LEU B 66 O LEU B 79 SHEET 6 AA211 GLN B 47 GLN B 56 -1 N TRP B 48 O TYR B 69 SHEET 7 AA211 THR B 184 LEU B 196 -1 O SER B 188 N TYR B 55 SHEET 8 AA211 PRO B 174 ARG B 181 -1 N PHE B 179 O MET B 187 SHEET 9 AA211 TRP B 163 THR B 168 -1 N VAL B 166 O GLN B 176 SHEET 10 AA211 GLN B 145 SER B 152 -1 N TRP B 151 O GLY B 165 SHEET 11 AA211 THR B 132 GLY B 140 -1 N GLU B 134 O GLU B 150 SHEET 1 AA311 CYS D 113 PRO D 117 0 SHEET 2 AA311 VAL D 102 GLU D 107 -1 N MET D 103 O ILE D 116 SHEET 3 AA311 PHE D 92 LEU D 97 -1 N LEU D 97 O VAL D 102 SHEET 4 AA311 ARG D 75 ASP D 80 -1 N VAL D 78 O TYR D 94 SHEET 5 AA311 HIS D 61 ASP D 70 -1 N SER D 68 O ARG D 77 SHEET 6 AA311 GLN D 47 GLN D 56 -1 N TRP D 48 O TYR D 69 SHEET 7 AA311 VAL D 185 LEU D 196 -1 O SER D 188 N TYR D 55 SHEET 8 AA311 PRO D 174 ILE D 180 -1 N PHE D 179 O VAL D 186 SHEET 9 AA311 TRP D 163 THR D 168 -1 N VAL D 166 O GLN D 176 SHEET 10 AA311 GLU D 144 SER D 152 -1 N GLN D 149 O TYR D 167 SHEET 11 AA311 THR D 132 GLY D 141 -1 N ASP D 135 O GLU D 150 SHEET 1 AA411 CYS C 113 PRO C 117 0 SHEET 2 AA411 VAL C 102 GLU C 107 -1 N MET C 103 O ILE C 116 SHEET 3 AA411 PHE C 92 LEU C 97 -1 N GLU C 93 O ILE C 106 SHEET 4 AA411 ARG C 75 ASP C 80 -1 N VAL C 76 O LEU C 96 SHEET 5 AA411 ASN C 62 ASP C 70 -1 N LEU C 66 O LEU C 79 SHEET 6 AA411 GLN C 47 GLN C 56 -1 N TRP C 48 O TYR C 69 SHEET 7 AA411 THR C 184 LEU C 196 -1 O SER C 188 N TYR C 55 SHEET 8 AA411 PRO C 174 ARG C 181 -1 N PHE C 179 O MET C 187 SHEET 9 AA411 TRP C 163 THR C 168 -1 N VAL C 166 O GLN C 176 SHEET 10 AA411 GLU C 144 SER C 152 -1 N GLN C 149 O TYR C 167 SHEET 11 AA411 THR C 132 GLY C 141 -1 N GLU C 134 O GLU C 150 SSBOND 1 CYS A 42 CYS A 172 1555 1555 2.07 SSBOND 2 CYS A 88 CYS A 222 1555 1555 2.04 SSBOND 3 CYS A 113 CYS A 210 1555 1555 2.07 SSBOND 4 CYS B 42 CYS B 172 1555 1555 2.07 SSBOND 5 CYS B 113 CYS B 210 1555 1555 2.08 SSBOND 6 CYS D 42 CYS D 172 1555 1555 2.09 SSBOND 7 CYS D 88 CYS D 222 1555 1555 2.05 SSBOND 8 CYS D 113 CYS D 210 1555 1555 2.04 SSBOND 9 CYS C 42 CYS C 172 1555 1555 2.07 SSBOND 10 CYS C 113 CYS C 210 1555 1555 2.09 LINK ND2 ASN A 130 C1 NAG A 300 1555 1555 1.72 LINK ND2 ASN B 130 C1 NAG B 301 1555 1555 1.46 LINK ND2 ASN B 182 C1 NAG E 1 1555 1555 1.42 LINK ND2 ASN D 130 C1 NAG D 301 1555 1555 1.09 LINK ND2 ASN D 182 C1 NAG D 302 1555 1555 1.46 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.45 LINK O6 NAG E 1 C1 FUC E 3 1555 1555 1.44 CRYST1 56.966 59.671 137.336 90.00 101.29 90.00 P 1 21 1 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 0.017554 0.000000 0.003505 0.00000 SCALE2 0.000000 0.016759 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007425 0.00000