HEADER CELL CYCLE 07-JUN-17 5XQI TITLE CRYSTAL STRUCTURE OF FULL-LENGTH HUMAN ROGDI COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN ROGDI HOMOLOG; COMPND 3 CHAIN: A, B, C, D; COMPND 4 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: ROGDI; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS ROGDI, KOHLSCHUTTER-TONZ SYNDROME, CELL CYCLE EXPDTA X-RAY DIFFRACTION AUTHOR H.LEE,C.LEE REVDAT 2 22-NOV-23 5XQI 1 REMARK REVDAT 1 12-JUL-17 5XQI 0 JRNL AUTH H.LEE,H.JEONG,J.CHOE,Y.JUN,C.LIM,C.LEE JRNL TITL THE CRYSTAL STRUCTURE OF HUMAN ROGDI PROVIDES INSIGHT INTO JRNL TITL 2 THE CAUSES OF KOHLSCHUTTER-TONZ SYNDROME JRNL REF SCI REP V. 7 3972 2017 JRNL REFN ESSN 2045-2322 JRNL PMID 28638151 JRNL DOI 10.1038/S41598-017-04120-X REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 57748 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL 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) : 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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: THE STRUCTURE FACTOR FILE CONTAINS REMARK 3 FRIEDEL PAIRS REMARK 4 REMARK 4 5XQI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1300003737. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUL-14 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) : 1.00000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57790 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 44.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.20 REMARK 200 R MERGE FOR SHELL (I) : 0.55100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5XQH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M SODIUM CHLORIDE, 130MM MAGNESIUM REMARK 280 CHLORIDE, 100MM TRIS PH 7.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 84.68600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 48.89348 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 73.44100 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 84.68600 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 48.89348 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 73.44100 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 84.68600 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 48.89348 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 73.44100 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 97.78697 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 146.88200 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 97.78697 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 146.88200 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 97.78697 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 146.88200 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: DODECAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 37980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 143410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -245.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 BIOMT1 2 -0.500000 -0.866025 0.000000 84.68600 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 146.68045 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -84.68600 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 146.68045 REMARK 350 BIOMT3 3 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 SER A -1 REMARK 465 GLY A 0 REMARK 465 PRO A 48 REMARK 465 GLY A 49 REMARK 465 SER A 50 REMARK 465 GLY A 51 REMARK 465 THR A 52 REMARK 465 GLU A 53 REMARK 465 GLY A 54 REMARK 465 PRO A 55 REMARK 465 PRO A 211 REMARK 465 GLY A 235 REMARK 465 PRO A 286 REMARK 465 PHE A 287 REMARK 465 SER B -1 REMARK 465 GLY B 0 REMARK 465 PRO B 48 REMARK 465 GLY B 49 REMARK 465 SER B 50 REMARK 465 GLY B 51 REMARK 465 THR B 52 REMARK 465 GLU B 53 REMARK 465 GLY B 54 REMARK 465 PRO B 55 REMARK 465 PRO B 211 REMARK 465 PRO B 286 REMARK 465 PHE B 287 REMARK 465 SER C -1 REMARK 465 GLY C 0 REMARK 465 PRO C 48 REMARK 465 GLY C 49 REMARK 465 SER C 50 REMARK 465 GLY C 51 REMARK 465 THR C 52 REMARK 465 GLU C 53 REMARK 465 GLY C 54 REMARK 465 PRO C 55 REMARK 465 ALA C 56 REMARK 465 GLY C 64 REMARK 465 SER C 65 REMARK 465 CYS C 66 REMARK 465 GLY C 67 REMARK 465 THR C 68 REMARK 465 PRO C 92 REMARK 465 ARG C 93 REMARK 465 ASN C 94 REMARK 465 ASN C 95 REMARK 465 GLN C 96 REMARK 465 ASN C 212 REMARK 465 SER C 213 REMARK 465 THR C 214 REMARK 465 LYS C 215 REMARK 465 ASN C 216 REMARK 465 PHE C 217 REMARK 465 ARG C 218 REMARK 465 PRO C 219 REMARK 465 ALA C 220 REMARK 465 GLY C 221 REMARK 465 TYR C 284 REMARK 465 ARG C 285 REMARK 465 PRO C 286 REMARK 465 PHE C 287 REMARK 465 SER D -1 REMARK 465 GLY D 0 REMARK 465 PRO D 48 REMARK 465 GLY D 49 REMARK 465 SER D 50 REMARK 465 GLY D 51 REMARK 465 THR D 52 REMARK 465 GLU D 53 REMARK 465 GLY D 54 REMARK 465 PRO D 55 REMARK 465 ALA D 56 REMARK 465 GLY D 64 REMARK 465 SER D 65 REMARK 465 CYS D 66 REMARK 465 GLY D 67 REMARK 465 THR D 68 REMARK 465 ASN D 94 REMARK 465 ASN D 95 REMARK 465 GLN D 96 REMARK 465 ALA D 181 REMARK 465 ASN D 212 REMARK 465 SER D 213 REMARK 465 THR D 214 REMARK 465 LYS D 215 REMARK 465 ASN D 216 REMARK 465 PHE D 217 REMARK 465 ARG D 218 REMARK 465 PRO D 219 REMARK 465 ALA D 220 REMARK 465 GLY D 221 REMARK 465 TYR D 284 REMARK 465 ARG D 285 REMARK 465 PRO D 286 REMARK 465 PHE D 287 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 OE2 GLU B 233 O HOH B 301 1.34 REMARK 500 NH1 ARG D 159 O HOH D 301 1.61 REMARK 500 O LEU D 196 CD1 LEU D 258 2.05 REMARK 500 O THR A 161 O ASN A 195 2.07 REMARK 500 OD1 ASN B 197 OD1 ASN B 255 2.11 REMARK 500 OE1 GLU C 17 NH2 ARG C 20 2.14 REMARK 500 OD2 ASP A 115 NH1 ARG A 159 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 CG2 THR C 8 CG2 THR D 8 2665 1.70 REMARK 500 CG2 THR C 8 CB THR D 8 2665 1.71 REMARK 500 CB THR C 8 CB THR D 8 2665 1.99 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 THR C 8 C THR C 8 O -0.126 REMARK 500 PHE C 136 CA PHE C 136 CB -0.197 REMARK 500 PHE C 136 CB PHE C 136 CG -0.114 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 103 CB - CA - C ANGL. DEV. = -13.3 DEGREES REMARK 500 ARG A 103 N - CA - C ANGL. DEV. = 19.3 DEGREES REMARK 500 GLU A 104 N - CA - CB ANGL. DEV. = 11.6 DEGREES REMARK 500 ASN B 195 N - CA - C ANGL. DEV. = -16.3 DEGREES REMARK 500 LEU B 196 N - CA - C ANGL. DEV. = -23.5 DEGREES REMARK 500 ASN B 197 N - CA - C ANGL. DEV. = 18.9 DEGREES REMARK 500 THR C 8 OG1 - CB - CG2 ANGL. DEV. = -16.5 DEGREES REMARK 500 PRO C 185 C - N - CA ANGL. DEV. = 13.3 DEGREES REMARK 500 PRO C 185 CB - CA - C ANGL. DEV. = -13.2 DEGREES REMARK 500 LYS D 106 N - CA - CB ANGL. DEV. = -16.7 DEGREES REMARK 500 LYS D 106 N - CA - C ANGL. DEV. = 17.1 DEGREES REMARK 500 TYR D 134 CB - CA - C ANGL. DEV. = 16.4 DEGREES REMARK 500 GLN D 135 N - CA - CB ANGL. DEV. = -15.6 DEGREES REMARK 500 ASN D 197 N - CA - CB ANGL. DEV. = 12.2 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 PHE A 102 153.72 -47.32 REMARK 500 ASP A 105 68.02 -67.86 REMARK 500 LYS A 137 -60.86 -97.52 REMARK 500 THR A 161 -75.99 -107.10 REMARK 500 ASN A 195 -79.01 -93.32 REMARK 500 LEU A 196 -83.46 -117.90 REMARK 500 GLU B 104 -132.11 43.24 REMARK 500 ASP B 105 62.72 -101.70 REMARK 500 LYS B 137 -66.68 -96.55 REMARK 500 ASN B 195 -169.53 -104.83 REMARK 500 ASN B 197 3.93 87.21 REMARK 500 SER B 213 144.74 -38.97 REMARK 500 THR B 214 -71.75 -79.08 REMARK 500 LYS B 215 -167.67 -108.69 REMARK 500 GLU C 104 -124.25 50.47 REMARK 500 ASP C 105 41.76 -144.43 REMARK 500 SER C 129 30.29 -99.27 REMARK 500 SER C 133 54.97 -105.58 REMARK 500 GLN C 135 73.30 45.67 REMARK 500 PHE C 136 124.14 -37.32 REMARK 500 LYS C 137 -73.71 -90.57 REMARK 500 THR C 138 -63.44 -134.56 REMARK 500 THR C 165 30.47 -85.08 REMARK 500 SER C 186 30.66 -83.43 REMARK 500 LEU C 196 -60.35 73.34 REMARK 500 ASN C 197 14.44 -156.40 REMARK 500 HIS C 207 122.28 -170.30 REMARK 500 HIS C 226 17.53 54.96 REMARK 500 ARG D 103 13.42 -68.63 REMARK 500 GLU D 104 -53.66 72.50 REMARK 500 SER D 129 31.06 -98.90 REMARK 500 LYS D 137 -159.65 -121.96 REMARK 500 PRO D 185 -178.80 -61.36 REMARK 500 LEU D 196 -55.60 75.24 REMARK 500 ASN D 197 14.86 -156.05 REMARK 500 HIS D 226 13.63 57.34 REMARK 500 REMARK 500 REMARK: NULL DBREF 5XQI A 1 287 UNP Q9GZN7 ROGDI_HUMAN 1 287 DBREF 5XQI B 1 287 UNP Q9GZN7 ROGDI_HUMAN 1 287 DBREF 5XQI C 1 287 UNP Q9GZN7 ROGDI_HUMAN 1 287 DBREF 5XQI D 1 287 UNP Q9GZN7 ROGDI_HUMAN 1 287 SEQADV 5XQI SER A -1 UNP Q9GZN7 EXPRESSION TAG SEQADV 5XQI GLY A 0 UNP Q9GZN7 EXPRESSION TAG SEQADV 5XQI SER B -1 UNP Q9GZN7 EXPRESSION TAG SEQADV 5XQI GLY B 0 UNP Q9GZN7 EXPRESSION TAG SEQADV 5XQI SER C -1 UNP Q9GZN7 EXPRESSION TAG SEQADV 5XQI GLY C 0 UNP Q9GZN7 EXPRESSION TAG SEQADV 5XQI SER D -1 UNP Q9GZN7 EXPRESSION TAG SEQADV 5XQI GLY D 0 UNP Q9GZN7 EXPRESSION TAG SEQRES 1 A 289 SER GLY MET ALA THR VAL MET ALA ALA THR ALA ALA GLU SEQRES 2 A 289 ARG ALA VAL LEU GLU GLU GLU PHE ARG TRP LEU LEU HIS SEQRES 3 A 289 ASP GLU VAL HIS ALA VAL LEU LYS GLN LEU GLN ASP ILE SEQRES 4 A 289 LEU LYS GLU ALA SER LEU ARG PHE THR LEU PRO GLY SER SEQRES 5 A 289 GLY THR GLU GLY PRO ALA LYS GLN GLU ASN PHE ILE LEU SEQRES 6 A 289 GLY SER CYS GLY THR ASP GLN VAL LYS GLY VAL LEU THR SEQRES 7 A 289 LEU GLN GLY ASP ALA LEU SER GLN ALA ASP VAL ASN LEU SEQRES 8 A 289 LYS MET PRO ARG ASN ASN GLN LEU LEU HIS PHE ALA PHE SEQRES 9 A 289 ARG GLU ASP LYS GLN TRP LYS LEU GLN GLN ILE GLN ASP SEQRES 10 A 289 ALA ARG ASN HIS VAL SER GLN ALA ILE TYR LEU LEU THR SEQRES 11 A 289 SER ARG ASP GLN SER TYR GLN PHE LYS THR GLY ALA GLU SEQRES 12 A 289 VAL LEU LYS LEU MET ASP ALA VAL MET LEU GLN LEU THR SEQRES 13 A 289 ARG ALA ARG ASN ARG LEU THR THR PRO ALA THR LEU THR SEQRES 14 A 289 LEU PRO GLU ILE ALA ALA SER GLY LEU THR ARG MET PHE SEQRES 15 A 289 ALA PRO ALA LEU PRO SER ASP LEU LEU VAL ASN VAL TYR SEQRES 16 A 289 ILE ASN LEU ASN LYS LEU CYS LEU THR VAL TYR GLN LEU SEQRES 17 A 289 HIS ALA LEU GLN PRO ASN SER THR LYS ASN PHE ARG PRO SEQRES 18 A 289 ALA GLY GLY ALA VAL LEU HIS SER PRO GLY ALA MET PHE SEQRES 19 A 289 GLU TRP GLY SER GLN ARG LEU GLU VAL SER HIS VAL HIS SEQRES 20 A 289 LYS VAL GLU CYS VAL ILE PRO TRP LEU ASN ASP ALA LEU SEQRES 21 A 289 VAL TYR PHE THR VAL SER LEU GLN LEU CYS GLN GLN LEU SEQRES 22 A 289 LYS ASP LYS ILE SER VAL PHE SER SER TYR TRP SER TYR SEQRES 23 A 289 ARG PRO PHE SEQRES 1 B 289 SER GLY MET ALA THR VAL MET ALA ALA THR ALA ALA GLU SEQRES 2 B 289 ARG ALA VAL LEU GLU GLU GLU PHE ARG TRP LEU LEU HIS SEQRES 3 B 289 ASP GLU VAL HIS ALA VAL LEU LYS GLN LEU GLN ASP ILE SEQRES 4 B 289 LEU LYS GLU ALA SER LEU ARG PHE THR LEU PRO GLY SER SEQRES 5 B 289 GLY THR GLU GLY PRO ALA LYS GLN GLU ASN PHE ILE LEU SEQRES 6 B 289 GLY SER CYS GLY THR ASP GLN VAL LYS GLY VAL LEU THR SEQRES 7 B 289 LEU GLN GLY ASP ALA LEU SER GLN ALA ASP VAL ASN LEU SEQRES 8 B 289 LYS MET PRO ARG ASN ASN GLN LEU LEU HIS PHE ALA PHE SEQRES 9 B 289 ARG GLU ASP LYS GLN TRP LYS LEU GLN GLN ILE GLN ASP SEQRES 10 B 289 ALA ARG ASN HIS VAL SER GLN ALA ILE TYR LEU LEU THR SEQRES 11 B 289 SER ARG ASP GLN SER TYR GLN PHE LYS THR GLY ALA GLU SEQRES 12 B 289 VAL LEU LYS LEU MET ASP ALA VAL MET LEU GLN LEU THR SEQRES 13 B 289 ARG ALA ARG ASN ARG LEU THR THR PRO ALA THR LEU THR SEQRES 14 B 289 LEU PRO GLU ILE ALA ALA SER GLY LEU THR ARG MET PHE SEQRES 15 B 289 ALA PRO ALA LEU PRO SER ASP LEU LEU VAL ASN VAL TYR SEQRES 16 B 289 ILE ASN LEU ASN LYS LEU CYS LEU THR VAL TYR GLN LEU SEQRES 17 B 289 HIS ALA LEU GLN PRO ASN SER THR LYS ASN PHE ARG PRO SEQRES 18 B 289 ALA GLY GLY ALA VAL LEU HIS SER PRO GLY ALA MET PHE SEQRES 19 B 289 GLU TRP GLY SER GLN ARG LEU GLU VAL SER HIS VAL HIS SEQRES 20 B 289 LYS VAL GLU CYS VAL ILE PRO TRP LEU ASN ASP ALA LEU SEQRES 21 B 289 VAL TYR PHE THR VAL SER LEU GLN LEU CYS GLN GLN LEU SEQRES 22 B 289 LYS ASP LYS ILE SER VAL PHE SER SER TYR TRP SER TYR SEQRES 23 B 289 ARG PRO PHE SEQRES 1 C 289 SER GLY MET ALA THR VAL MET ALA ALA THR ALA ALA GLU SEQRES 2 C 289 ARG ALA VAL LEU GLU GLU GLU PHE ARG TRP LEU LEU HIS SEQRES 3 C 289 ASP GLU VAL HIS ALA VAL LEU LYS GLN LEU GLN ASP ILE SEQRES 4 C 289 LEU LYS GLU ALA SER LEU ARG PHE THR LEU PRO GLY SER SEQRES 5 C 289 GLY THR GLU GLY PRO ALA LYS GLN GLU ASN PHE ILE LEU SEQRES 6 C 289 GLY SER CYS GLY THR ASP GLN VAL LYS GLY VAL LEU THR SEQRES 7 C 289 LEU GLN GLY ASP ALA LEU SER GLN ALA ASP VAL ASN LEU SEQRES 8 C 289 LYS MET PRO ARG ASN ASN GLN LEU LEU HIS PHE ALA PHE SEQRES 9 C 289 ARG GLU ASP LYS GLN TRP LYS LEU GLN GLN ILE GLN ASP SEQRES 10 C 289 ALA ARG ASN HIS VAL SER GLN ALA ILE TYR LEU LEU THR SEQRES 11 C 289 SER ARG ASP GLN SER TYR GLN PHE LYS THR GLY ALA GLU SEQRES 12 C 289 VAL LEU LYS LEU MET ASP ALA VAL MET LEU GLN LEU THR SEQRES 13 C 289 ARG ALA ARG ASN ARG LEU THR THR PRO ALA THR LEU THR SEQRES 14 C 289 LEU PRO GLU ILE ALA ALA SER GLY LEU THR ARG MET PHE SEQRES 15 C 289 ALA PRO ALA LEU PRO SER ASP LEU LEU VAL ASN VAL TYR SEQRES 16 C 289 ILE ASN LEU ASN LYS LEU CYS LEU THR VAL TYR GLN LEU SEQRES 17 C 289 HIS ALA LEU GLN PRO ASN SER THR LYS ASN PHE ARG PRO SEQRES 18 C 289 ALA GLY GLY ALA VAL LEU HIS SER PRO GLY ALA MET PHE SEQRES 19 C 289 GLU TRP GLY SER GLN ARG LEU GLU VAL SER HIS VAL HIS SEQRES 20 C 289 LYS VAL GLU CYS VAL ILE PRO TRP LEU ASN ASP ALA LEU SEQRES 21 C 289 VAL TYR PHE THR VAL SER LEU GLN LEU CYS GLN GLN LEU SEQRES 22 C 289 LYS ASP LYS ILE SER VAL PHE SER SER TYR TRP SER TYR SEQRES 23 C 289 ARG PRO PHE SEQRES 1 D 289 SER GLY MET ALA THR VAL MET ALA ALA THR ALA ALA GLU SEQRES 2 D 289 ARG ALA VAL LEU GLU GLU GLU PHE ARG TRP LEU LEU HIS SEQRES 3 D 289 ASP GLU VAL HIS ALA VAL LEU LYS GLN LEU GLN ASP ILE SEQRES 4 D 289 LEU LYS GLU ALA SER LEU ARG PHE THR LEU PRO GLY SER SEQRES 5 D 289 GLY THR GLU GLY PRO ALA LYS GLN GLU ASN PHE ILE LEU SEQRES 6 D 289 GLY SER CYS GLY THR ASP GLN VAL LYS GLY VAL LEU THR SEQRES 7 D 289 LEU GLN GLY ASP ALA LEU SER GLN ALA ASP VAL ASN LEU SEQRES 8 D 289 LYS MET PRO ARG ASN ASN GLN LEU LEU HIS PHE ALA PHE SEQRES 9 D 289 ARG GLU ASP LYS GLN TRP LYS LEU GLN GLN ILE GLN ASP SEQRES 10 D 289 ALA ARG ASN HIS VAL SER GLN ALA ILE TYR LEU LEU THR SEQRES 11 D 289 SER ARG ASP GLN SER TYR GLN PHE LYS THR GLY ALA GLU SEQRES 12 D 289 VAL LEU LYS LEU MET ASP ALA VAL MET LEU GLN LEU THR SEQRES 13 D 289 ARG ALA ARG ASN ARG LEU THR THR PRO ALA THR LEU THR SEQRES 14 D 289 LEU PRO GLU ILE ALA ALA SER GLY LEU THR ARG MET PHE SEQRES 15 D 289 ALA PRO ALA LEU PRO SER ASP LEU LEU VAL ASN VAL TYR SEQRES 16 D 289 ILE ASN LEU ASN LYS LEU CYS LEU THR VAL TYR GLN LEU SEQRES 17 D 289 HIS ALA LEU GLN PRO ASN SER THR LYS ASN PHE ARG PRO SEQRES 18 D 289 ALA GLY GLY ALA VAL LEU HIS SER PRO GLY ALA MET PHE SEQRES 19 D 289 GLU TRP GLY SER GLN ARG LEU GLU VAL SER HIS VAL HIS SEQRES 20 D 289 LYS VAL GLU CYS VAL ILE PRO TRP LEU ASN ASP ALA LEU SEQRES 21 D 289 VAL TYR PHE THR VAL SER LEU GLN LEU CYS GLN GLN LEU SEQRES 22 D 289 LYS ASP LYS ILE SER VAL PHE SER SER TYR TRP SER TYR SEQRES 23 D 289 ARG PRO PHE FORMUL 5 HOH *106(H2 O) HELIX 1 AA1 MET A 1 ALA A 7 1 7 HELIX 2 AA2 VAL A 14 ARG A 44 1 31 HELIX 3 AA3 LEU A 110 SER A 129 1 20 HELIX 4 AA4 THR A 138 THR A 162 1 25 HELIX 5 AA5 LEU A 168 ALA A 173 1 6 HELIX 6 AA6 SER A 174 MET A 179 1 6 HELIX 7 AA7 ILE A 251 SER A 280 1 30 HELIX 8 AA8 ALA B 2 ALA B 7 1 6 HELIX 9 AA9 VAL B 14 ARG B 44 1 31 HELIX 10 AB1 LEU B 110 SER B 129 1 20 HELIX 11 AB2 THR B 138 THR B 162 1 25 HELIX 12 AB3 THR B 167 ALA B 173 1 7 HELIX 13 AB4 LEU B 176 ARG B 178 5 3 HELIX 14 AB5 ILE B 251 TRP B 282 1 32 HELIX 15 AB6 ALA C 2 ARG C 44 1 43 HELIX 16 AB7 LEU C 110 SER C 129 1 20 HELIX 17 AB8 GLY C 139 THR C 161 1 23 HELIX 18 AB9 THR C 167 ALA C 173 1 7 HELIX 19 AC1 SER C 174 MET C 179 1 6 HELIX 20 AC2 ILE C 251 SER C 283 1 33 HELIX 21 AC3 ALA D 2 ARG D 44 1 43 HELIX 22 AC4 LEU D 110 SER D 129 1 20 HELIX 23 AC5 GLY D 139 THR D 161 1 23 HELIX 24 AC6 THR D 167 ALA D 173 1 7 HELIX 25 AC7 SER D 174 MET D 179 1 6 HELIX 26 AC8 ILE D 251 SER D 283 1 33 SHEET 1 AA1 4 ASN A 60 LEU A 63 0 SHEET 2 AA1 4 VAL A 71 GLN A 78 -1 O GLY A 73 N LEU A 63 SHEET 3 AA1 4 ALA A 81 LEU A 89 -1 O ALA A 81 N GLN A 78 SHEET 4 AA1 4 TRP A 108 LYS A 109 -1 O TRP A 108 N LEU A 82 SHEET 1 AA2 5 ASN A 60 LEU A 63 0 SHEET 2 AA2 5 VAL A 71 GLN A 78 -1 O GLY A 73 N LEU A 63 SHEET 3 AA2 5 ALA A 81 LEU A 89 -1 O ALA A 81 N GLN A 78 SHEET 4 AA2 5 LEU A 98 PHE A 102 -1 O LEU A 98 N LEU A 89 SHEET 5 AA2 5 PHE A 180 ALA A 181 -1 O ALA A 181 N ALA A 101 SHEET 1 AA3 2 LEU A 166 THR A 167 0 SHEET 2 AA3 2 GLY A 222 ALA A 223 -1 O ALA A 223 N LEU A 166 SHEET 1 AA4 4 LEU A 188 ILE A 194 0 SHEET 2 AA4 4 LYS A 198 ALA A 208 -1 O CYS A 200 N TYR A 193 SHEET 3 AA4 4 ARG A 238 VAL A 250 -1 O VAL A 247 N LEU A 201 SHEET 4 AA4 4 MET A 231 GLU A 233 -1 N PHE A 232 O LEU A 239 SHEET 1 AA5 4 ASN B 60 LEU B 63 0 SHEET 2 AA5 4 VAL B 71 GLN B 78 -1 O GLY B 73 N LEU B 63 SHEET 3 AA5 4 ALA B 81 LEU B 89 -1 O ALA B 81 N GLN B 78 SHEET 4 AA5 4 TRP B 108 LYS B 109 -1 O TRP B 108 N LEU B 82 SHEET 1 AA6 5 ASN B 60 LEU B 63 0 SHEET 2 AA6 5 VAL B 71 GLN B 78 -1 O GLY B 73 N LEU B 63 SHEET 3 AA6 5 ALA B 81 LEU B 89 -1 O ALA B 81 N GLN B 78 SHEET 4 AA6 5 LEU B 98 PHE B 102 -1 O PHE B 100 N VAL B 87 SHEET 5 AA6 5 PHE B 180 ALA B 181 -1 O ALA B 181 N ALA B 101 SHEET 1 AA7 4 LEU B 188 ASN B 195 0 SHEET 2 AA7 4 LYS B 198 ALA B 208 -1 O CYS B 200 N TYR B 193 SHEET 3 AA7 4 GLN B 237 VAL B 250 -1 O VAL B 247 N LEU B 201 SHEET 4 AA7 4 MET B 231 TRP B 234 -1 N PHE B 232 O LEU B 239 SHEET 1 AA8 4 ASN C 60 LEU C 63 0 SHEET 2 AA8 4 VAL C 71 GLN C 78 -1 O GLY C 73 N LEU C 63 SHEET 3 AA8 4 ALA C 81 LEU C 89 -1 O ALA C 81 N GLN C 78 SHEET 4 AA8 4 TRP C 108 LYS C 109 -1 O TRP C 108 N LEU C 82 SHEET 1 AA9 5 ASN C 60 LEU C 63 0 SHEET 2 AA9 5 VAL C 71 GLN C 78 -1 O GLY C 73 N LEU C 63 SHEET 3 AA9 5 ALA C 81 LEU C 89 -1 O ALA C 81 N GLN C 78 SHEET 4 AA9 5 LEU C 98 PHE C 102 -1 O LEU C 98 N LEU C 89 SHEET 5 AA9 5 PHE C 180 ALA C 181 -1 O ALA C 181 N ALA C 101 SHEET 1 AB1 4 LEU C 188 ASN C 195 0 SHEET 2 AB1 4 LYS C 198 ALA C 208 -1 O CYS C 200 N TYR C 193 SHEET 3 AB1 4 GLN C 237 VAL C 250 -1 O SER C 242 N GLN C 205 SHEET 4 AB1 4 MET C 231 TRP C 234 -1 N TRP C 234 O GLN C 237 SHEET 1 AB2 4 ASN D 60 LEU D 63 0 SHEET 2 AB2 4 VAL D 71 GLN D 78 -1 O GLY D 73 N LEU D 63 SHEET 3 AB2 4 ALA D 81 LEU D 89 -1 O ALA D 81 N GLN D 78 SHEET 4 AB2 4 LEU D 98 PHE D 100 -1 O LEU D 98 N LEU D 89 SHEET 1 AB3 4 ASN D 60 LEU D 63 0 SHEET 2 AB3 4 VAL D 71 GLN D 78 -1 O GLY D 73 N LEU D 63 SHEET 3 AB3 4 ALA D 81 LEU D 89 -1 O ALA D 81 N GLN D 78 SHEET 4 AB3 4 TRP D 108 LYS D 109 -1 O TRP D 108 N LEU D 82 SHEET 1 AB4 4 LEU D 188 ILE D 194 0 SHEET 2 AB4 4 LYS D 198 ALA D 208 -1 O CYS D 200 N TYR D 193 SHEET 3 AB4 4 GLN D 237 VAL D 250 -1 O SER D 242 N GLN D 205 SHEET 4 AB4 4 MET D 231 TRP D 234 -1 N PHE D 232 O LEU D 239 CISPEP 1 MET A 91 PRO A 92 0 -21.64 CISPEP 2 ALA A 181 PRO A 182 0 -0.79 CISPEP 3 MET B 91 PRO B 92 0 -21.46 CISPEP 4 ALA B 181 PRO B 182 0 -1.93 CISPEP 5 ALA C 181 PRO C 182 0 1.40 CRYST1 169.372 169.372 220.323 90.00 90.00 120.00 H 3 36 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 0.005904 0.003409 0.000000 0.00000 SCALE2 0.000000 0.006818 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004539 0.00000