HEADER TRANSFERASE 26-AUG-20 7A6S TITLE CRYSTAL STRUCTURE OF ASN173SER VARIANT OF HUMAN DEOXYHYPUSINE SYNTHASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYHYPUSINE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DHS; COMPND 5 EC: 2.5.1.46; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DHPS, DS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS DEOXYHYPUSINE SYNTHASE, HYPUSINATION, HYPUSINE, TRANSLATION, KEYWDS 2 NEURODEGENERATION, SPERMIDINE DHPS DEFICIENCY, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.WATOR,P.WILK,P.GRUDNIK REVDAT 3 07-FEB-24 7A6S 1 REMARK REVDAT 2 05-APR-23 7A6S 1 JRNL REVDAT 1 23-MAR-22 7A6S 0 JRNL AUTH E.WATOR,P.WILK,A.BIELA,M.RAWSKI,K.M.ZAK,W.STEINCHEN,G.BANGE, JRNL AUTH 2 S.GLATT,P.GRUDNIK JRNL TITL CRYO-EM STRUCTURE OF HUMAN EIF5A-DHS COMPLEX REVEALS THE JRNL TITL 2 MOLECULAR BASIS OF HYPUSINATION-ASSOCIATED NEURODEGENERATIVE JRNL TITL 3 DISORDERS. JRNL REF NAT COMMUN V. 14 1698 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 36973244 JRNL DOI 10.1038/S41467-023-37305-2 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.150 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 200246 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2101 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 46.0300 - 4.3100 1.00 13230 145 0.1580 0.2042 REMARK 3 2 4.3100 - 3.4200 1.00 13198 135 0.1290 0.1488 REMARK 3 3 3.4200 - 2.9900 1.00 13222 140 0.1355 0.1639 REMARK 3 4 2.9900 - 2.7200 1.00 13276 137 0.1371 0.1780 REMARK 3 5 2.7200 - 2.5200 1.00 13203 139 0.1419 0.1887 REMARK 3 6 2.5200 - 2.3700 1.00 13248 141 0.1408 0.1931 REMARK 3 7 2.3700 - 2.2600 1.00 13213 140 0.1529 0.2168 REMARK 3 8 2.2600 - 2.1600 1.00 13167 139 0.1651 0.2133 REMARK 3 9 2.1600 - 2.0700 1.00 13256 142 0.1828 0.1959 REMARK 3 10 2.0700 - 2.0000 1.00 13210 141 0.2095 0.2645 REMARK 3 11 2.0000 - 1.9400 1.00 13258 138 0.2500 0.2913 REMARK 3 12 1.9400 - 1.8800 1.00 13151 140 0.2720 0.3346 REMARK 3 13 1.8800 - 1.8300 1.00 13234 143 0.3097 0.3410 REMARK 3 14 1.8300 - 1.7900 1.00 13140 141 0.3324 0.3551 REMARK 3 15 1.7900 - 1.7500 0.99 13139 140 0.3788 0.3993 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.04 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.90 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: NULL REMARK 4 REMARK 4 7A6S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-AUG-20. REMARK 100 THE DEPOSITION ID IS D_1292110950. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-APR-20 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 : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 200356 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 46.030 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.241 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.29 REMARK 200 R MERGE FOR SHELL (I) : 2.35900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.630 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: 6XXJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.025-0.125 MM CARBOXYLIC ACID MIX, 30 REMARK 280 -60% PRECIPITANT MIX (MPD, PEG 3350, PEG 1000), 100 MM TRIS- REMARK 280 BICINE PH = 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 106.60133 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 53.30067 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 53.30067 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 106.60133 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 26860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -92.0 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 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 712 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 798 LIES ON A SPECIAL POSITION. 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 GLU A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 LEU A 5 REMARK 465 GLU A 6 REMARK 465 ARG A 7 REMARK 465 GLU A 8 REMARK 465 ALA A 9 REMARK 465 PRO A 10 REMARK 465 ALA A 11 REMARK 465 GLY A 12 REMARK 465 ALA A 13 REMARK 465 LEU A 14 REMARK 465 ALA A 15 REMARK 465 ALA A 16 REMARK 465 VAL A 17 REMARK 465 LEU A 18 REMARK 465 LYS A 19 REMARK 465 HIS A 20 REMARK 465 SER A 21 REMARK 465 SER A 22 REMARK 465 THR A 23 REMARK 465 LEU A 24 REMARK 465 PRO A 25 REMARK 465 PRO A 26 REMARK 465 GLU A 27 REMARK 465 GLU A 81 REMARK 465 HIS A 364 REMARK 465 GLU A 365 REMARK 465 LYS A 366 REMARK 465 ASN A 367 REMARK 465 GLU A 368 REMARK 465 ASP A 369 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 GLY B 3 REMARK 465 SER B 4 REMARK 465 LEU B 5 REMARK 465 GLU B 6 REMARK 465 ARG B 7 REMARK 465 GLU B 8 REMARK 465 ALA B 9 REMARK 465 PRO B 10 REMARK 465 ALA B 11 REMARK 465 GLY B 12 REMARK 465 ALA B 13 REMARK 465 LEU B 14 REMARK 465 ALA B 15 REMARK 465 ALA B 16 REMARK 465 VAL B 17 REMARK 465 LEU B 18 REMARK 465 LYS B 19 REMARK 465 HIS B 20 REMARK 465 SER B 21 REMARK 465 SER B 22 REMARK 465 THR B 23 REMARK 465 LEU B 24 REMARK 465 PRO B 25 REMARK 465 PRO B 26 REMARK 465 GLU B 27 REMARK 465 HIS B 364 REMARK 465 GLU B 365 REMARK 465 LYS B 366 REMARK 465 ASN B 367 REMARK 465 GLU B 368 REMARK 465 ASP B 369 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 SER A 78 OG REMARK 470 GLN A 79 CG CD OE1 NE2 REMARK 470 ASP A 82 CG OD1 OD2 REMARK 470 ARG A 91 NE CZ NH1 NH2 REMARK 470 LYS A 200 CE NZ REMARK 470 LYS A 274 CG CD CE NZ REMARK 470 GLN B 89 CG CD OE1 NE2 REMARK 470 LYS B 226 NZ REMARK 470 LYS B 251 CG CD CE NZ REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN A 189 N CA C O CB CG CD REMARK 480 GLN A 189 OE1 NE2 REMARK 480 ARG B 209 CA CB CG CD NE CZ NH1 REMARK 480 ARG B 209 NH2 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 OD1 ASP A 80 CG GLN A 83 1.25 REMARK 500 HO1 EDO B 502 O HOH B 602 1.47 REMARK 500 OD1 ASP A 80 HG2 GLN A 83 1.48 REMARK 500 O GLY A 133 H VAL A 135 1.53 REMARK 500 O ALA B 85 HG1 THR B 88 1.54 REMARK 500 HH22 ARG A 43 OE1 GLU A 47 1.58 REMARK 500 HG SER B 78 O HOH B 608 1.58 REMARK 500 HE2 HIS B 84 O HOH B 607 1.60 REMARK 500 O2 EDO B 501 O HOH B 601 1.80 REMARK 500 OD1 ASP A 80 CD GLN A 83 1.83 REMARK 500 O HOH A 622 O HOH A 679 1.91 REMARK 500 O HOH A 697 O HOH A 705 1.92 REMARK 500 O GLY A 133 N VAL A 135 2.00 REMARK 500 O LEU A 94 O HOH A 501 2.05 REMARK 500 O1 EDO B 502 O HOH B 602 2.06 REMARK 500 NE2 GLN A 83 O HOH A 502 2.07 REMARK 500 O HOH A 656 O HOH A 661 2.08 REMARK 500 O HOH A 614 O HOH A 672 2.13 REMARK 500 O HOH B 744 O HOH B 750 2.15 REMARK 500 CB GLU A 180 CE MET A 244 2.17 REMARK 500 OE1 GLU A 197 O HOH A 503 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 CD GLN B 310 OE1 GLN B 310 4555 0.42 REMARK 500 OE1 GLN A 310 OE1 GLN A 310 4555 0.97 REMARK 500 CD GLN B 310 CD GLN B 310 4555 1.08 REMARK 500 CG GLN B 310 OE1 GLN B 310 4555 1.19 REMARK 500 OE1 GLN B 310 OE1 GLN B 310 4555 1.44 REMARK 500 OE1 GLN B 310 NE2 GLN B 310 4555 1.54 REMARK 500 CD GLN B 310 NE2 GLN B 310 4555 2.04 REMARK 500 CD GLN A 310 OE1 GLN A 310 4555 2.08 REMARK 500 O HOH A 718 O HOH B 765 4555 2.12 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 ARG B 38 CA ARG B 38 C 0.156 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 32 CG - CD - NE ANGL. DEV. = -15.9 DEGREES REMARK 500 GLN A 79 CA - C - N ANGL. DEV. = 15.4 DEGREES REMARK 500 GLN A 79 O - C - N ANGL. DEV. = -27.5 DEGREES REMARK 500 THR B 131 CA - C - N ANGL. DEV. = 15.8 DEGREES REMARK 500 THR B 131 O - C - N ANGL. DEV. = -19.1 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 PHE A 54 -138.43 52.15 REMARK 500 ALA A 132 108.38 -50.55 REMARK 500 SER A 233 73.86 -160.23 REMARK 500 ALA A 235 41.66 -98.77 REMARK 500 ASN A 252 80.27 -155.81 REMARK 500 GLN A 335 64.45 -118.74 REMARK 500 THR A 354 -91.68 -127.76 REMARK 500 PHE B 54 -135.52 50.18 REMARK 500 SER B 78 171.13 -58.51 REMARK 500 SER B 233 78.48 -160.65 REMARK 500 ALA B 235 43.14 -92.77 REMARK 500 ASN B 252 77.47 -154.57 REMARK 500 THR B 354 -89.11 -126.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN A 79 -27.72 REMARK 500 SER A 105 12.32 REMARK 500 THR A 130 19.14 REMARK 500 GLY A 133 -12.97 REMARK 500 THR B 131 12.10 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 B 826 DISTANCE = 6.79 ANGSTROMS REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 HOH A 712 DBREF 7A6S A 1 369 UNP P49366 DHYS_HUMAN 1 369 DBREF 7A6S B 1 369 UNP P49366 DHYS_HUMAN 1 369 SEQADV 7A6S SER A 173 UNP P49366 ASN 173 ENGINEERED MUTATION SEQADV 7A6S SER B 173 UNP P49366 ASN 173 ENGINEERED MUTATION SEQRES 1 A 369 MET GLU GLY SER LEU GLU ARG GLU ALA PRO ALA GLY ALA SEQRES 2 A 369 LEU ALA ALA VAL LEU LYS HIS SER SER THR LEU PRO PRO SEQRES 3 A 369 GLU SER THR GLN VAL ARG GLY TYR ASP PHE ASN ARG GLY SEQRES 4 A 369 VAL ASN TYR ARG ALA LEU LEU GLU ALA PHE GLY THR THR SEQRES 5 A 369 GLY PHE GLN ALA THR ASN PHE GLY ARG ALA VAL GLN GLN SEQRES 6 A 369 VAL ASN ALA MET ILE GLU LYS LYS LEU GLU PRO LEU SER SEQRES 7 A 369 GLN ASP GLU ASP GLN HIS ALA ASP LEU THR GLN SER ARG SEQRES 8 A 369 ARG PRO LEU THR SER CYS THR ILE PHE LEU GLY TYR THR SEQRES 9 A 369 SER ASN LEU ILE SER SER GLY ILE ARG GLU THR ILE ARG SEQRES 10 A 369 TYR LEU VAL GLN HIS ASN MET VAL ASP VAL LEU VAL THR SEQRES 11 A 369 THR ALA GLY GLY VAL GLU GLU ASP LEU ILE LYS CYS LEU SEQRES 12 A 369 ALA PRO THR TYR LEU GLY GLU PHE SER LEU ARG GLY LYS SEQRES 13 A 369 GLU LEU ARG GLU ASN GLY ILE ASN ARG ILE GLY ASN LEU SEQRES 14 A 369 LEU VAL PRO SER GLU ASN TYR CSS LYS PHE GLU ASP TRP SEQRES 15 A 369 LEU MET PRO ILE LEU ASP GLN MET VAL MET GLU GLN ASN SEQRES 16 A 369 THR GLU GLY VAL LYS TRP THR PRO SER LYS MET ILE ALA SEQRES 17 A 369 ARG LEU GLY LYS GLU ILE ASN ASN PRO GLU SER VAL TYR SEQRES 18 A 369 TYR TRP ALA GLN LYS ASN HIS ILE PRO VAL PHE SER PRO SEQRES 19 A 369 ALA LEU THR ASP GLY SER LEU GLY ASP MET ILE PHE PHE SEQRES 20 A 369 HIS SER TYR LYS ASN PRO GLY LEU VAL LEU ASP ILE VAL SEQRES 21 A 369 GLU ASP LEU ARG LEU ILE ASN THR GLN ALA ILE PHE ALA SEQRES 22 A 369 LYS CYS THR GLY MET ILE ILE LEU GLY GLY GLY VAL VAL SEQRES 23 A 369 LYS HIS HIS ILE ALA ASN ALA ASN LEU MET ARG ASN GLY SEQRES 24 A 369 ALA ASP TYR ALA VAL TYR ILE ASN THR ALA GLN GLU PHE SEQRES 25 A 369 ASP GLY SER ASP SER GLY ALA ARG PRO ASP GLU ALA VAL SEQRES 26 A 369 SER TRP GLY LYS ILE ARG VAL ASP ALA GLN PRO VAL LYS SEQRES 27 A 369 VAL TYR ALA ASP ALA SER LEU VAL PHE PRO LEU LEU VAL SEQRES 28 A 369 ALA GLU THR PHE ALA GLN LYS MET ASP ALA PHE MET HIS SEQRES 29 A 369 GLU LYS ASN GLU ASP SEQRES 1 B 369 MET GLU GLY SER LEU GLU ARG GLU ALA PRO ALA GLY ALA SEQRES 2 B 369 LEU ALA ALA VAL LEU LYS HIS SER SER THR LEU PRO PRO SEQRES 3 B 369 GLU SER THR GLN VAL ARG GLY TYR ASP PHE ASN ARG GLY SEQRES 4 B 369 VAL ASN TYR ARG ALA LEU LEU GLU ALA PHE GLY THR THR SEQRES 5 B 369 GLY PHE GLN ALA THR ASN PHE GLY ARG ALA VAL GLN GLN SEQRES 6 B 369 VAL ASN ALA MET ILE GLU LYS LYS LEU GLU PRO LEU SER SEQRES 7 B 369 GLN ASP GLU ASP GLN HIS ALA ASP LEU THR GLN SER ARG SEQRES 8 B 369 ARG PRO LEU THR SER CYS THR ILE PHE LEU GLY TYR THR SEQRES 9 B 369 SER ASN LEU ILE SER SER GLY ILE ARG GLU THR ILE ARG SEQRES 10 B 369 TYR LEU VAL GLN HIS ASN MET VAL ASP VAL LEU VAL THR SEQRES 11 B 369 THR ALA GLY GLY VAL GLU GLU ASP LEU ILE LYS CYS LEU SEQRES 12 B 369 ALA PRO THR TYR LEU GLY GLU PHE SER LEU ARG GLY LYS SEQRES 13 B 369 GLU LEU ARG GLU ASN GLY ILE ASN ARG ILE GLY ASN LEU SEQRES 14 B 369 LEU VAL PRO SER GLU ASN TYR CSS LYS PHE GLU ASP TRP SEQRES 15 B 369 LEU MET PRO ILE LEU ASP GLN MET VAL MET GLU GLN ASN SEQRES 16 B 369 THR GLU GLY VAL LYS TRP THR PRO SER LYS MET ILE ALA SEQRES 17 B 369 ARG LEU GLY LYS GLU ILE ASN ASN PRO GLU SER VAL TYR SEQRES 18 B 369 TYR TRP ALA GLN LYS ASN HIS ILE PRO VAL PHE SER PRO SEQRES 19 B 369 ALA LEU THR ASP GLY SER LEU GLY ASP MET ILE PHE PHE SEQRES 20 B 369 HIS SER TYR LYS ASN PRO GLY LEU VAL LEU ASP ILE VAL SEQRES 21 B 369 GLU ASP LEU ARG LEU ILE ASN THR GLN ALA ILE PHE ALA SEQRES 22 B 369 LYS CYS THR GLY MET ILE ILE LEU GLY GLY GLY VAL VAL SEQRES 23 B 369 LYS HIS HIS ILE ALA ASN ALA ASN LEU MET ARG ASN GLY SEQRES 24 B 369 ALA ASP TYR ALA VAL TYR ILE ASN THR ALA GLN GLU PHE SEQRES 25 B 369 ASP GLY SER ASP SER GLY ALA ARG PRO ASP GLU ALA VAL SEQRES 26 B 369 SER TRP GLY LYS ILE ARG VAL ASP ALA GLN PRO VAL LYS SEQRES 27 B 369 VAL TYR ALA ASP ALA SER LEU VAL PHE PRO LEU LEU VAL SEQRES 28 B 369 ALA GLU THR PHE ALA GLN LYS MET ASP ALA PHE MET HIS SEQRES 29 B 369 GLU LYS ASN GLU ASP MODRES 7A6S CSS A 177 CYS MODIFIED RESIDUE MODRES 7A6S CSS B 177 CYS MODIFIED RESIDUE HET CSS A 177 10 HET CSS B 177 10 HET EDO A 401 10 HET ACT A 402 7 HET ACT A 403 7 HET EDO A 404 10 HET EDO B 501 10 HET EDO B 502 10 HET EDO B 503 10 HET OXM B 504 8 HET EDO B 505 10 HET EDO B 506 10 HETNAM CSS S-MERCAPTOCYSTEINE HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETNAM OXM OXAMIC ACID HETSYN EDO ETHYLENE GLYCOL FORMUL 1 CSS 2(C3 H7 N O2 S2) FORMUL 3 EDO 7(C2 H6 O2) FORMUL 4 ACT 2(C2 H3 O2 1-) FORMUL 10 OXM C2 H3 N O3 FORMUL 13 HOH *456(H2 O) HELIX 1 AA1 ASP A 35 GLY A 39 5 5 HELIX 2 AA2 ASN A 41 ALA A 48 1 8 HELIX 3 AA3 PHE A 49 THR A 52 5 4 HELIX 4 AA4 GLY A 53 GLU A 75 1 23 HELIX 5 AA5 GLN A 83 GLN A 89 1 7 HELIX 6 AA6 THR A 104 SER A 110 1 7 HELIX 7 AA7 GLY A 111 HIS A 122 1 12 HELIX 8 AA8 THR A 131 CYS A 142 1 12 HELIX 9 AA9 ARG A 154 ASN A 161 1 8 HELIX 10 AB1 SER A 173 GLU A 197 1 25 HELIX 11 AB2 THR A 202 ASN A 215 1 14 HELIX 12 AB3 SER A 219 ASN A 227 1 9 HELIX 13 AB4 GLY A 239 ASN A 252 1 14 HELIX 14 AB5 ILE A 259 PHE A 272 1 14 HELIX 15 AB6 GLY A 283 LEU A 295 1 13 HELIX 16 AB7 MET A 296 ASN A 298 5 3 HELIX 17 AB8 GLN A 310 GLY A 314 5 5 HELIX 18 AB9 ARG A 320 TRP A 327 1 8 HELIX 19 AC1 ASP A 342 GLU A 353 1 12 HELIX 20 AC2 THR A 354 MET A 363 5 10 HELIX 21 AC3 ASP B 35 GLY B 39 5 5 HELIX 22 AC4 ASN B 41 ALA B 48 1 8 HELIX 23 AC5 PHE B 49 THR B 52 5 4 HELIX 24 AC6 GLY B 53 GLU B 75 1 23 HELIX 25 AC7 SER B 78 ASP B 86 1 9 HELIX 26 AC8 THR B 104 SER B 110 1 7 HELIX 27 AC9 GLY B 111 HIS B 122 1 12 HELIX 28 AD1 THR B 131 LYS B 141 1 11 HELIX 29 AD2 ARG B 154 ASN B 161 1 8 HELIX 30 AD3 SER B 173 GLY B 198 1 26 HELIX 31 AD4 THR B 202 ASN B 215 1 14 HELIX 32 AD5 SER B 219 ASN B 227 1 9 HELIX 33 AD6 GLY B 239 ASN B 252 1 14 HELIX 34 AD7 ASP B 258 PHE B 272 1 15 HELIX 35 AD8 GLY B 283 MET B 296 1 14 HELIX 36 AD9 ARG B 320 TRP B 327 1 8 HELIX 37 AE1 ASP B 342 THR B 354 1 13 HELIX 38 AE2 PHE B 355 GLN B 357 5 3 HELIX 39 AE3 LYS B 358 MET B 363 1 6 SHEET 1 AA1 6 VAL A 231 PHE A 232 0 SHEET 2 AA1 6 VAL A 127 THR A 130 1 N LEU A 128 O PHE A 232 SHEET 3 AA1 6 THR A 98 TYR A 103 1 N LEU A 101 O VAL A 127 SHEET 4 AA1 6 THR A 276 LEU A 281 1 O LEU A 281 N GLY A 102 SHEET 5 AA1 6 TYR A 302 ASN A 307 1 O VAL A 304 N ILE A 280 SHEET 6 AA1 6 VAL A 337 TYR A 340 1 O VAL A 339 N TYR A 305 SHEET 1 AA2 3 TYR A 147 LEU A 148 0 SHEET 2 AA2 3 LEU A 169 PRO A 172 -1 O LEU A 170 N TYR A 147 SHEET 3 AA2 3 ILE A 163 ILE A 166 -1 N ILE A 166 O LEU A 169 SHEET 1 AA3 6 VAL B 231 PHE B 232 0 SHEET 2 AA3 6 VAL B 127 THR B 130 1 N LEU B 128 O PHE B 232 SHEET 3 AA3 6 THR B 98 TYR B 103 1 N LEU B 101 O VAL B 127 SHEET 4 AA3 6 THR B 276 LEU B 281 1 O GLY B 277 N PHE B 100 SHEET 5 AA3 6 TYR B 302 ASN B 307 1 O VAL B 304 N ILE B 280 SHEET 6 AA3 6 VAL B 337 TYR B 340 1 O VAL B 339 N TYR B 305 SHEET 1 AA4 3 TYR B 147 LEU B 148 0 SHEET 2 AA4 3 LEU B 169 PRO B 172 -1 O LEU B 170 N TYR B 147 SHEET 3 AA4 3 ILE B 163 ILE B 166 -1 N ASN B 164 O VAL B 171 LINK C TYR A 176 N CSS A 177 1555 1555 1.34 LINK C CSS A 177 N LYS A 178 1555 1555 1.33 LINK C TYR B 176 N CSS B 177 1555 1555 1.32 LINK C CSS B 177 N LYS B 178 1555 1555 1.31 CRYST1 105.382 105.382 159.902 90.00 90.00 120.00 P 32 2 1 12 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 0.009489 0.005479 0.000000 0.00000 SCALE2 0.000000 0.010957 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006254 0.00000