HEADER OXIDOREDUCTASE 26-OCT-11 3UCF TITLE CRYSTAL STRUCTURE OF A SMALL-CHAIN DEHYDROGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEHYDROGENASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO VULNIFICUS; SOURCE 3 ORGANISM_TAXID: 196600; SOURCE 4 STRAIN: YJ016; SOURCE 5 GENE: VVA-1599, VVA1599; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PACYCDUET-I KEYWDS SMALL-CHAIN DEHYDROGENASE ROSSMANN FOLD, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR G.BUYSSCHAERT,K.VERSTRAETE,S.SAVVIDES,B.VERGAUWEN REVDAT 3 13-SEP-23 3UCF 1 REMARK REVDAT 2 13-MAR-13 3UCF 1 JRNL REVDAT 1 30-JAN-13 3UCF 0 JRNL AUTH G.BUYSSCHAERT,K.VERSTRAETE,S.N.SAVVIDES,B.VERGAUWEN JRNL TITL STRUCTURAL AND BIOCHEMICAL CHARACTERIZATION OF AN ATYPICAL JRNL TITL 2 SHORT-CHAIN DEHYDROGENASE/REDUCTASE REVEALS AN UNUSUAL JRNL TITL 3 COFACTOR PREFERENCE. JRNL REF FEBS J. V. 280 1358 2013 JRNL REFN ISSN 1742-464X JRNL PMID 23311896 JRNL DOI 10.1111/FEBS.12128 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 34312 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.181 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1712 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 42.5308 - 5.3701 0.98 2781 146 0.1827 0.1968 REMARK 3 2 5.3701 - 4.2637 0.98 2754 145 0.1492 0.1659 REMARK 3 3 4.2637 - 3.7251 0.98 2751 144 0.1514 0.1698 REMARK 3 4 3.7251 - 3.3847 0.98 2756 145 0.1691 0.2093 REMARK 3 5 3.3847 - 3.1422 0.98 2714 143 0.1883 0.2095 REMARK 3 6 3.1422 - 2.9570 0.98 2733 144 0.1851 0.2294 REMARK 3 7 2.9570 - 2.8089 0.98 2723 143 0.1910 0.2190 REMARK 3 8 2.8089 - 2.6866 0.98 2734 144 0.2008 0.2385 REMARK 3 9 2.6866 - 2.5832 0.97 2689 142 0.1961 0.2429 REMARK 3 10 2.5832 - 2.4941 0.97 2715 143 0.2152 0.2573 REMARK 3 11 2.4941 - 2.4161 0.96 2656 140 0.2271 0.2936 REMARK 3 12 2.4161 - 2.3471 0.94 2594 133 0.2495 0.2879 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.77 REMARK 3 K_SOL : 0.38 REMARK 3 B_SOL : 28.74 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.500 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.830 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.17 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.73270 REMARK 3 B22 (A**2) : 4.04180 REMARK 3 B33 (A**2) : -0.30910 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -5.99080 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 5704 REMARK 3 ANGLE : 0.667 7759 REMARK 3 CHIRALITY : 0.038 953 REMARK 3 PLANARITY : 0.002 968 REMARK 3 DIHEDRAL : 13.316 1922 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: NULL REMARK 4 REMARK 4 3UCF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000068578. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98011 REMARK 200 MONOCHROMATOR : CHANNEL CUT CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34318 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.347 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 3.720 REMARK 200 R MERGE (I) : 0.18200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.5700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.56 REMARK 200 R MERGE FOR SHELL (I) : 0.70900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.740 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: PDB ENTRY 1O5I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM ACETATE, 10% PEG 3350, REMARK 280 0.2 M BIS-TRIS PH 6.5, PROTEIN CONCENTRATION: 8 MG/ML, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 61.44500 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, 3, 4, 5 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -102.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 MET A 1 REMARK 465 MET A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 GLY A 68 REMARK 465 SER A 69 REMARK 465 THR A 161 REMARK 465 LYS A 162 REMARK 465 THR A 163 REMARK 465 GLU A 164 REMARK 465 ALA A 165 REMARK 465 TYR A 166 REMARK 465 LYS A 167 REMARK 465 GLY A 168 REMARK 465 MET A 169 REMARK 465 ASN A 170 REMARK 465 ALA A 171 REMARK 465 ASP A 172 REMARK 465 ASP A 173 REMARK 465 ARG A 174 REMARK 465 ASP A 175 REMARK 465 ALA A 176 REMARK 465 MET A 177 REMARK 465 TYR A 178 REMARK 465 GLN A 179 REMARK 465 ARG A 180 REMARK 465 THR A 181 REMARK 465 GLN A 182 REMARK 465 SER A 183 REMARK 465 HIS A 184 REMARK 465 LEU A 185 REMARK 465 PRO A 186 REMARK 465 VAL A 187 REMARK 465 GLY A 188 REMARK 465 LYS A 189 REMARK 465 VAL A 190 REMARK 465 MET B 1 REMARK 465 MET B 2 REMARK 465 GLY B 3 REMARK 465 SER B 4 REMARK 465 THR B 161 REMARK 465 LYS B 162 REMARK 465 THR B 163 REMARK 465 GLU B 164 REMARK 465 ALA B 165 REMARK 465 TYR B 166 REMARK 465 LYS B 167 REMARK 465 GLY B 168 REMARK 465 MET B 169 REMARK 465 ASN B 170 REMARK 465 ALA B 171 REMARK 465 ASP B 172 REMARK 465 ASP B 173 REMARK 465 ARG B 174 REMARK 465 ASP B 175 REMARK 465 ALA B 176 REMARK 465 MET B 177 REMARK 465 TYR B 178 REMARK 465 GLN B 179 REMARK 465 ARG B 180 REMARK 465 THR B 181 REMARK 465 GLN B 182 REMARK 465 SER B 183 REMARK 465 HIS B 184 REMARK 465 MET C 1 REMARK 465 MET C 2 REMARK 465 GLY C 3 REMARK 465 SER C 4 REMARK 465 THR C 163 REMARK 465 GLU C 164 REMARK 465 ALA C 165 REMARK 465 TYR C 166 REMARK 465 LYS C 167 REMARK 465 GLY C 168 REMARK 465 MET C 169 REMARK 465 ASN C 170 REMARK 465 ALA C 171 REMARK 465 ASP C 172 REMARK 465 ASP C 173 REMARK 465 MET D 1 REMARK 465 MET D 2 REMARK 465 GLY D 3 REMARK 465 SER D 4 REMARK 465 LEU D 160 REMARK 465 THR D 161 REMARK 465 LYS D 162 REMARK 465 THR D 163 REMARK 465 GLU D 164 REMARK 465 ALA D 165 REMARK 465 TYR D 166 REMARK 465 LYS D 167 REMARK 465 GLY D 168 REMARK 465 MET D 169 REMARK 465 ASN D 170 REMARK 465 ALA D 171 REMARK 465 ASP D 172 REMARK 465 ASP D 173 REMARK 465 ARG D 174 REMARK 465 ASP D 175 REMARK 465 ALA D 176 REMARK 465 MET D 177 REMARK 465 TYR D 178 REMARK 465 GLN D 179 REMARK 465 ARG D 180 REMARK 465 THR D 181 REMARK 465 GLN D 182 REMARK 465 SER D 183 REMARK 465 HIS D 184 REMARK 465 LEU D 185 REMARK 465 PRO D 186 REMARK 465 VAL D 187 REMARK 465 GLY D 188 REMARK 465 LYS D 189 REMARK 465 VAL D 190 REMARK 465 GLY D 191 REMARK 465 GLY D 223 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 ASP A 5 CG OD1 OD2 REMARK 470 LYS A 24 CG CD CE NZ REMARK 470 GLU A 29 CG CD OE1 OE2 REMARK 470 ARG A 38 CD NE CZ NH1 NH2 REMARK 470 GLN A 39 CG CD OE1 NE2 REMARK 470 LYS A 48 CG CD CE NZ REMARK 470 LYS A 75 CE NZ REMARK 470 GLU A 80 CG CD OE1 OE2 REMARK 470 LYS A 122 CE NZ REMARK 470 LEU A 160 CG CD1 CD2 REMARK 470 ASP B 5 CG OD1 OD2 REMARK 470 LYS B 24 CG CD CE NZ REMARK 470 GLU B 29 CG CD OE1 OE2 REMARK 470 HIS B 30 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 38 CD NE CZ NH1 NH2 REMARK 470 GLN B 39 CG CD OE1 NE2 REMARK 470 LYS B 48 CG CD CE NZ REMARK 470 SER B 69 OG REMARK 470 GLU B 80 CG CD OE1 OE2 REMARK 470 LEU B 160 CG CD1 CD2 REMARK 470 GLU B 192 CG CD OE1 OE2 REMARK 470 ASP C 5 CG OD1 OD2 REMARK 470 LYS C 24 CG CD CE NZ REMARK 470 ARG C 38 NE CZ NH1 NH2 REMARK 470 GLN C 39 CG CD OE1 NE2 REMARK 470 SER C 69 OG REMARK 470 LYS C 75 CE NZ REMARK 470 GLU C 80 CG CD OE1 OE2 REMARK 470 LEU C 160 CG CD1 CD2 REMARK 470 ARG C 174 CG CD NE CZ NH1 NH2 REMARK 470 ASP C 175 CG OD1 OD2 REMARK 470 ARG C 180 CG CD NE CZ NH1 NH2 REMARK 470 HIS C 184 CG ND1 CD2 CE1 NE2 REMARK 470 GLU C 192 CG CD OE1 OE2 REMARK 470 GLY C 223 O REMARK 470 ASP D 5 CG OD1 OD2 REMARK 470 GLU D 29 CG CD OE1 OE2 REMARK 470 ARG D 38 CD NE CZ NH1 NH2 REMARK 470 GLN D 39 CG CD OE1 NE2 REMARK 470 SER D 69 OG REMARK 470 LYS D 75 CE NZ REMARK 470 LYS D 130 CG CD CE NZ REMARK 470 GLU D 192 CG CD OE1 OE2 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 HZ1 LYS C 85 O HOH C 246 1.40 REMARK 500 HD1 HIS C 101 O HOH C 248 1.44 REMARK 500 HD1 HIS A 34 O HOH A 248 1.56 REMARK 500 O HOH C 254 O HOH C 295 1.91 REMARK 500 O HOH B 249 O HOH D 281 1.99 REMARK 500 NE2 GLN C 179 O HOH C 252 1.99 REMARK 500 O HOH A 249 O HOH A 266 2.06 REMARK 500 O HOH A 278 O HOH C 239 2.06 REMARK 500 O HOH A 261 O HOH A 262 2.07 REMARK 500 O HOH A 242 O HOH C 241 2.08 REMARK 500 O HOH B 266 O HOH B 277 2.10 REMARK 500 O HOH B 244 O HOH B 257 2.12 REMARK 500 NZ LYS D 100 O HOH D 249 2.12 REMARK 500 O HOH C 265 O HOH C 278 2.14 REMARK 500 OD2 ASP D 89 O HOH D 291 2.15 REMARK 500 OD1 ASP B 217 O HOH B 226 2.19 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 SER A 37 -169.87 179.62 REMARK 500 SER A 116 -111.65 -106.65 REMARK 500 SER B 37 -171.15 -170.54 REMARK 500 SER B 116 -117.61 -109.67 REMARK 500 ASN B 126 7.59 81.99 REMARK 500 SER C 37 -171.74 -173.89 REMARK 500 SER C 116 -112.36 -107.05 REMARK 500 ASN C 126 15.53 80.36 REMARK 500 SER D 37 -173.15 -173.26 REMARK 500 ALA D 71 139.71 -170.15 REMARK 500 SER D 116 -120.03 -106.11 REMARK 500 ASN D 126 -6.50 86.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3UCE RELATED DB: PDB DBREF 3UCF A 1 223 UNP Q7MBY8 Q7MBY8_VIBVY 1 223 DBREF 3UCF B 1 223 UNP Q7MBY8 Q7MBY8_VIBVY 1 223 DBREF 3UCF C 1 223 UNP Q7MBY8 Q7MBY8_VIBVY 1 223 DBREF 3UCF D 1 223 UNP Q7MBY8 Q7MBY8_VIBVY 1 223 SEQRES 1 A 223 MET MET GLY SER ASP LYS THR VAL TYR VAL VAL LEU GLY SEQRES 2 A 223 GLY THR SER GLY ILE GLY ALA GLU LEU ALA LYS GLN LEU SEQRES 3 A 223 GLU SER GLU HIS THR ILE VAL HIS VAL ALA SER ARG GLN SEQRES 4 A 223 THR GLY LEU ASP ILE SER ASP GLU LYS SER VAL TYR HIS SEQRES 5 A 223 TYR PHE GLU THR ILE GLY ALA PHE ASP HIS LEU ILE VAL SEQRES 6 A 223 THR ALA GLY SER TYR ALA PRO ALA GLY LYS VAL VAL ASP SEQRES 7 A 223 VAL GLU VAL THR GLN ALA LYS TYR ALA PHE ASP THR LYS SEQRES 8 A 223 PHE TRP GLY ALA VAL LEU ALA ALA LYS HIS GLY ALA ARG SEQRES 9 A 223 TYR LEU LYS GLN GLY GLY SER ILE THR LEU THR SER GLY SEQRES 10 A 223 MET LEU SER ARG LYS VAL VAL ALA ASN THR TYR VAL LYS SEQRES 11 A 223 ALA ALA ILE ASN ALA ALA ILE GLU ALA THR THR LYS VAL SEQRES 12 A 223 LEU ALA LYS GLU LEU ALA PRO ILE ARG VAL ASN ALA ILE SEQRES 13 A 223 SER PRO GLY LEU THR LYS THR GLU ALA TYR LYS GLY MET SEQRES 14 A 223 ASN ALA ASP ASP ARG ASP ALA MET TYR GLN ARG THR GLN SEQRES 15 A 223 SER HIS LEU PRO VAL GLY LYS VAL GLY GLU ALA SER ASP SEQRES 16 A 223 ILE ALA MET ALA TYR LEU PHE ALA ILE GLN ASN SER TYR SEQRES 17 A 223 MET THR GLY THR VAL ILE ASP VAL ASP GLY GLY ALA LEU SEQRES 18 A 223 LEU GLY SEQRES 1 B 223 MET MET GLY SER ASP LYS THR VAL TYR VAL VAL LEU GLY SEQRES 2 B 223 GLY THR SER GLY ILE GLY ALA GLU LEU ALA LYS GLN LEU SEQRES 3 B 223 GLU SER GLU HIS THR ILE VAL HIS VAL ALA SER ARG GLN SEQRES 4 B 223 THR GLY LEU ASP ILE SER ASP GLU LYS SER VAL TYR HIS SEQRES 5 B 223 TYR PHE GLU THR ILE GLY ALA PHE ASP HIS LEU ILE VAL SEQRES 6 B 223 THR ALA GLY SER TYR ALA PRO ALA GLY LYS VAL VAL ASP SEQRES 7 B 223 VAL GLU VAL THR GLN ALA LYS TYR ALA PHE ASP THR LYS SEQRES 8 B 223 PHE TRP GLY ALA VAL LEU ALA ALA LYS HIS GLY ALA ARG SEQRES 9 B 223 TYR LEU LYS GLN GLY GLY SER ILE THR LEU THR SER GLY SEQRES 10 B 223 MET LEU SER ARG LYS VAL VAL ALA ASN THR TYR VAL LYS SEQRES 11 B 223 ALA ALA ILE ASN ALA ALA ILE GLU ALA THR THR LYS VAL SEQRES 12 B 223 LEU ALA LYS GLU LEU ALA PRO ILE ARG VAL ASN ALA ILE SEQRES 13 B 223 SER PRO GLY LEU THR LYS THR GLU ALA TYR LYS GLY MET SEQRES 14 B 223 ASN ALA ASP ASP ARG ASP ALA MET TYR GLN ARG THR GLN SEQRES 15 B 223 SER HIS LEU PRO VAL GLY LYS VAL GLY GLU ALA SER ASP SEQRES 16 B 223 ILE ALA MET ALA TYR LEU PHE ALA ILE GLN ASN SER TYR SEQRES 17 B 223 MET THR GLY THR VAL ILE ASP VAL ASP GLY GLY ALA LEU SEQRES 18 B 223 LEU GLY SEQRES 1 C 223 MET MET GLY SER ASP LYS THR VAL TYR VAL VAL LEU GLY SEQRES 2 C 223 GLY THR SER GLY ILE GLY ALA GLU LEU ALA LYS GLN LEU SEQRES 3 C 223 GLU SER GLU HIS THR ILE VAL HIS VAL ALA SER ARG GLN SEQRES 4 C 223 THR GLY LEU ASP ILE SER ASP GLU LYS SER VAL TYR HIS SEQRES 5 C 223 TYR PHE GLU THR ILE GLY ALA PHE ASP HIS LEU ILE VAL SEQRES 6 C 223 THR ALA GLY SER TYR ALA PRO ALA GLY LYS VAL VAL ASP SEQRES 7 C 223 VAL GLU VAL THR GLN ALA LYS TYR ALA PHE ASP THR LYS SEQRES 8 C 223 PHE TRP GLY ALA VAL LEU ALA ALA LYS HIS GLY ALA ARG SEQRES 9 C 223 TYR LEU LYS GLN GLY GLY SER ILE THR LEU THR SER GLY SEQRES 10 C 223 MET LEU SER ARG LYS VAL VAL ALA ASN THR TYR VAL LYS SEQRES 11 C 223 ALA ALA ILE ASN ALA ALA ILE GLU ALA THR THR LYS VAL SEQRES 12 C 223 LEU ALA LYS GLU LEU ALA PRO ILE ARG VAL ASN ALA ILE SEQRES 13 C 223 SER PRO GLY LEU THR LYS THR GLU ALA TYR LYS GLY MET SEQRES 14 C 223 ASN ALA ASP ASP ARG ASP ALA MET TYR GLN ARG THR GLN SEQRES 15 C 223 SER HIS LEU PRO VAL GLY LYS VAL GLY GLU ALA SER ASP SEQRES 16 C 223 ILE ALA MET ALA TYR LEU PHE ALA ILE GLN ASN SER TYR SEQRES 17 C 223 MET THR GLY THR VAL ILE ASP VAL ASP GLY GLY ALA LEU SEQRES 18 C 223 LEU GLY SEQRES 1 D 223 MET MET GLY SER ASP LYS THR VAL TYR VAL VAL LEU GLY SEQRES 2 D 223 GLY THR SER GLY ILE GLY ALA GLU LEU ALA LYS GLN LEU SEQRES 3 D 223 GLU SER GLU HIS THR ILE VAL HIS VAL ALA SER ARG GLN SEQRES 4 D 223 THR GLY LEU ASP ILE SER ASP GLU LYS SER VAL TYR HIS SEQRES 5 D 223 TYR PHE GLU THR ILE GLY ALA PHE ASP HIS LEU ILE VAL SEQRES 6 D 223 THR ALA GLY SER TYR ALA PRO ALA GLY LYS VAL VAL ASP SEQRES 7 D 223 VAL GLU VAL THR GLN ALA LYS TYR ALA PHE ASP THR LYS SEQRES 8 D 223 PHE TRP GLY ALA VAL LEU ALA ALA LYS HIS GLY ALA ARG SEQRES 9 D 223 TYR LEU LYS GLN GLY GLY SER ILE THR LEU THR SER GLY SEQRES 10 D 223 MET LEU SER ARG LYS VAL VAL ALA ASN THR TYR VAL LYS SEQRES 11 D 223 ALA ALA ILE ASN ALA ALA ILE GLU ALA THR THR LYS VAL SEQRES 12 D 223 LEU ALA LYS GLU LEU ALA PRO ILE ARG VAL ASN ALA ILE SEQRES 13 D 223 SER PRO GLY LEU THR LYS THR GLU ALA TYR LYS GLY MET SEQRES 14 D 223 ASN ALA ASP ASP ARG ASP ALA MET TYR GLN ARG THR GLN SEQRES 15 D 223 SER HIS LEU PRO VAL GLY LYS VAL GLY GLU ALA SER ASP SEQRES 16 D 223 ILE ALA MET ALA TYR LEU PHE ALA ILE GLN ASN SER TYR SEQRES 17 D 223 MET THR GLY THR VAL ILE ASP VAL ASP GLY GLY ALA LEU SEQRES 18 D 223 LEU GLY FORMUL 5 HOH *273(H2 O) HELIX 1 1 SER A 16 GLU A 27 1 12 HELIX 2 2 SER A 37 GLY A 41 5 5 HELIX 3 3 ASP A 46 GLY A 58 1 13 HELIX 4 4 GLU A 80 ALA A 103 1 24 HELIX 5 5 GLY A 117 ARG A 121 5 5 HELIX 6 6 THR A 127 ALA A 149 1 23 HELIX 7 7 GLU A 192 ASN A 206 1 15 HELIX 8 8 GLY A 219 GLY A 223 5 5 HELIX 9 9 SER B 16 GLU B 27 1 12 HELIX 10 10 SER B 37 GLY B 41 5 5 HELIX 11 11 ASP B 46 GLY B 58 1 13 HELIX 12 12 GLU B 80 ALA B 103 1 24 HELIX 13 13 GLY B 117 ARG B 121 5 5 HELIX 14 14 THR B 127 ALA B 149 1 23 HELIX 15 15 GLU B 192 ASN B 206 1 15 HELIX 16 16 GLY B 219 GLY B 223 5 5 HELIX 17 17 SER C 16 GLU C 27 1 12 HELIX 18 18 SER C 37 GLY C 41 5 5 HELIX 19 19 ASP C 46 GLY C 58 1 13 HELIX 20 20 GLU C 80 ALA C 103 1 24 HELIX 21 21 GLY C 117 ARG C 121 5 5 HELIX 22 22 THR C 127 ALA C 149 1 23 HELIX 23 23 ASP C 175 LEU C 185 1 11 HELIX 24 24 GLU C 192 ASN C 206 1 15 HELIX 25 25 GLY C 219 GLY C 223 5 5 HELIX 26 26 SER D 16 GLU D 27 1 12 HELIX 27 27 SER D 37 GLY D 41 5 5 HELIX 28 28 ASP D 46 GLY D 58 1 13 HELIX 29 29 GLU D 80 ALA D 103 1 24 HELIX 30 30 GLY D 117 ARG D 121 5 5 HELIX 31 31 THR D 127 ALA D 149 1 23 HELIX 32 32 ALA D 193 ASN D 206 1 14 SHEET 1 A 6 THR A 31 ALA A 36 0 SHEET 2 A 6 THR A 7 LEU A 12 1 N TYR A 9 O HIS A 34 SHEET 3 A 6 PHE A 60 VAL A 65 1 O ILE A 64 N VAL A 10 SHEET 4 A 6 LEU A 106 THR A 115 1 O LYS A 107 N PHE A 60 SHEET 5 A 6 ARG A 152 PRO A 158 1 O ARG A 152 N ILE A 112 SHEET 6 A 6 VAL A 213 VAL A 216 1 O ILE A 214 N SER A 157 SHEET 1 B 6 THR B 31 ALA B 36 0 SHEET 2 B 6 THR B 7 LEU B 12 1 N TYR B 9 O ILE B 32 SHEET 3 B 6 PHE B 60 VAL B 65 1 O ILE B 64 N LEU B 12 SHEET 4 B 6 LEU B 106 THR B 115 1 O LYS B 107 N PHE B 60 SHEET 5 B 6 ARG B 152 PRO B 158 1 O ASN B 154 N LEU B 114 SHEET 6 B 6 VAL B 213 VAL B 216 1 O ILE B 214 N SER B 157 SHEET 1 C 6 THR C 31 ALA C 36 0 SHEET 2 C 6 THR C 7 LEU C 12 1 N TYR C 9 O ILE C 32 SHEET 3 C 6 PHE C 60 VAL C 65 1 O ILE C 64 N VAL C 10 SHEET 4 C 6 LEU C 106 THR C 115 1 O LYS C 107 N PHE C 60 SHEET 5 C 6 ARG C 152 PRO C 158 1 O ARG C 152 N ILE C 112 SHEET 6 C 6 VAL C 213 VAL C 216 1 O ILE C 214 N SER C 157 SHEET 1 D 6 THR D 31 ALA D 36 0 SHEET 2 D 6 THR D 7 LEU D 12 1 N TYR D 9 O ILE D 32 SHEET 3 D 6 PHE D 60 VAL D 65 1 O ILE D 64 N VAL D 10 SHEET 4 D 6 LEU D 106 THR D 115 1 O THR D 113 N LEU D 63 SHEET 5 D 6 ARG D 152 PRO D 158 1 O ASN D 154 N LEU D 114 SHEET 6 D 6 VAL D 213 VAL D 216 1 O ILE D 214 N SER D 157 CISPEP 1 ALA A 149 PRO A 150 0 5.14 CISPEP 2 ALA B 149 PRO B 150 0 5.97 CISPEP 3 ALA C 149 PRO C 150 0 3.31 CISPEP 4 ALA D 149 PRO D 150 0 5.03 CRYST1 59.360 122.890 63.140 90.00 111.09 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 0.016846 0.000000 0.006497 0.00000 SCALE2 0.000000 0.008137 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016975 0.00000