PDB Short entry for 6Y5N HEADER LIGASE 25-FEB-20 6Y5N TITLE RING-DTC DOMAIN OF DELTEX1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE DTX1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROTEIN DELTEX-1,HDTX1,RING-TYPE E3 UBIQUITIN TRANSFERASE COMPND 5 DTX1; COMPND 6 EC: 2.3.2.27; COMPND 7 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: DTX1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UBIQUITINATION, E3 RING LIGASE, NAD BINDING, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR M.GABRIELSEN,L.BUETOW,D.T.HUANG REVDAT 2 07-OCT-20 6Y5N 1 AUTHOR REVDAT 1 30-SEP-20 6Y5N 0 JRNL AUTH C.CHATRIN,M.GABRIELSEN,L.BUETOW,M.A.NAKASONE,S.F.AHMED, JRNL AUTH 2 D.SUMPTON,G.J.SIBBET,B.O.SMITH,D.T.HUANG JRNL TITL STRUCTURAL INSIGHTS INTO ADP-RIBOSYLATION OF UBIQUITIN BY JRNL TITL 2 DELTEX FAMILY E3 UBIQUITIN LIGASES. JRNL REF SCI ADV V. 6 2020 JRNL REFN ESSN 2375-2548 JRNL PMID 32948590 JRNL DOI 10.1126/SCIADV.ABC0418 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12_2829 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.920 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 62539 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 5833 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 36.0070 - 5.8336 0.99 3769 196 0.2039 0.1790 REMARK 3 2 5.8336 - 4.6334 1.00 3760 215 0.1502 0.1650 REMARK 3 3 4.6334 - 4.0486 1.00 3740 196 0.1364 0.1845 REMARK 3 4 4.0486 - 3.6789 1.00 3806 188 0.1513 0.1492 REMARK 3 5 3.6789 - 3.4154 1.00 3787 190 0.1614 0.1829 REMARK 3 6 3.4154 - 3.2142 0.99 3728 202 0.1675 0.1965 REMARK 3 7 3.2142 - 3.0533 1.00 3773 218 0.1734 0.2087 REMARK 3 8 3.0533 - 2.9204 1.00 3792 196 0.1854 0.1872 REMARK 3 9 2.9204 - 2.8080 1.00 3748 180 0.1736 0.2209 REMARK 3 10 2.8080 - 2.7112 1.00 3788 187 0.1809 0.2157 REMARK 3 11 2.7112 - 2.6264 1.00 3787 213 0.1748 0.2199 REMARK 3 12 2.6264 - 2.5514 1.00 3752 190 0.1886 0.2071 REMARK 3 13 2.5514 - 2.4842 1.00 3816 168 0.1980 0.2518 REMARK 3 14 2.4842 - 2.4236 1.00 3801 196 0.1984 0.2538 REMARK 3 15 2.4236 - 2.3685 1.00 3777 189 0.1990 0.2435 REMARK 3 16 2.3685 - 2.3181 1.00 3762 196 0.1949 0.1993 REMARK 3 17 2.3181 - 2.2718 1.00 3811 200 0.1984 0.2532 REMARK 3 18 2.2718 - 2.2289 1.00 3780 171 0.2032 0.2228 REMARK 3 19 2.2289 - 2.1891 0.99 3827 164 0.2097 0.2491 REMARK 3 20 2.1891 - 2.1520 1.00 3700 226 0.2357 0.2576 REMARK 3 21 2.1520 - 2.1173 1.00 3801 200 0.2413 0.2790 REMARK 3 22 2.1173 - 2.0847 1.00 3797 175 0.2458 0.2728 REMARK 3 23 2.0847 - 2.0541 1.00 3783 200 0.2513 0.2718 REMARK 3 24 2.0541 - 2.0251 0.99 3728 171 0.2622 0.3195 REMARK 3 25 2.0251 - 1.9978 1.00 3756 188 0.2916 0.3146 REMARK 3 26 1.9978 - 1.9718 1.00 3794 212 0.2890 0.3261 REMARK 3 27 1.9718 - 1.9472 0.99 3749 223 0.3070 0.3279 REMARK 3 28 1.9472 - 1.9237 1.00 3764 187 0.3176 0.3464 REMARK 3 29 1.9237 - 1.9014 1.00 3831 196 0.3303 0.3481 REMARK 3 30 1.9014 - 1.8800 1.00 3729 200 0.3464 0.3857 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) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.310 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.13 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 : 0.011 3685 REMARK 3 ANGLE : 1.079 4989 REMARK 3 CHIRALITY : 0.070 536 REMARK 3 PLANARITY : 0.008 654 REMARK 3 DIHEDRAL : 11.872 2222 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 72.7526 48.5111 11.1807 REMARK 3 T TENSOR REMARK 3 T11: 0.2662 T22: 0.2453 REMARK 3 T33: 0.2610 T12: 0.0053 REMARK 3 T13: 0.0151 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 0.8488 L22: 0.1611 REMARK 3 L33: 0.8583 L12: 0.2707 REMARK 3 L13: -0.2916 L23: -0.2650 REMARK 3 S TENSOR REMARK 3 S11: -0.0832 S12: -0.0221 S13: -0.1773 REMARK 3 S21: -0.1065 S22: 0.0270 S23: -0.0501 REMARK 3 S31: 0.2127 S32: -0.0163 S33: 0.0442 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 388 THROUGH 429 OR REMARK 3 RESID 431 THROUGH 439 OR RESID 441 REMARK 3 THROUGH 598 OR RESID 600 THROUGH 615)) REMARK 3 SELECTION : (CHAIN B AND (RESID 388 THROUGH 439 OR REMARK 3 RESID 441 THROUGH 598 OR RESID 600 REMARK 3 THROUGH 615)) REMARK 3 ATOM PAIRS NUMBER : 2667 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6Y5N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-FEB-20. REMARK 100 THE DEPOSITION ID IS D_1292106926. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97950 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62617 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 36.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 1.17000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXCD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BCS CONDITION 44 (MOLECULAR REMARK 280 DIMENSIONS), PH 7.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 33.74500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.91500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.27500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.91500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.74500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.27500 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLY A 386 REMARK 465 SER A 387 REMARK 465 ALA A 616 REMARK 465 ALA A 617 REMARK 465 ALA A 618 REMARK 465 LYS A 619 REMARK 465 ALA A 620 REMARK 465 GLY B 386 REMARK 465 SER B 387 REMARK 465 HIS B 430 REMARK 465 ALA B 616 REMARK 465 ALA B 617 REMARK 465 ALA B 618 REMARK 465 LYS B 619 REMARK 465 ALA B 620 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 HG CYS B 452 ZN ZN B 702 1.23 REMARK 500 HZ2 LYS A 390 O HOH A 801 1.37 REMARK 500 O HOH B 958 O HOH B 999 1.50 REMARK 500 HO1 EDO A 703 O HOH A 807 1.53 REMARK 500 O HOH B 947 O HOH B 990 1.71 REMARK 500 O HOH A 829 O HOH A 1054 1.76 REMARK 500 O HOH B 977 O HOH B 991 1.78 REMARK 500 O HOH A 1031 O HOH A 1062 1.78 REMARK 500 O HOH B 904 O HOH B 956 1.83 REMARK 500 O HOH A 995 O HOH A 1082 1.83 REMARK 500 O HOH A 993 O HOH B 1010 1.84 REMARK 500 O HOH B 822 O HOH B 902 1.87 REMARK 500 O HOH A 958 O HOH B 975 1.88 REMARK 500 O HOH A 1076 O HOH A 1080 1.91 REMARK 500 O HOH A 1034 O HOH A 1041 1.92 REMARK 500 O HOH B 1005 O HOH B 1019 1.95 REMARK 500 O HOH A 808 O HOH A 996 1.95 REMARK 500 O HOH A 885 O HOH A 1030 1.97 REMARK 500 O HOH A 1053 O HOH B 975 1.98 REMARK 500 O HOH A 1034 O HOH A 1048 1.99 REMARK 500 O HOH A 896 O HOH A 1046 2.00 REMARK 500 O HOH A 1041 O HOH A 1048 2.01 REMARK 500 O HOH A 822 O HOH A 940 2.04 REMARK 500 O HOH A 808 O HOH A 1079 2.04 REMARK 500 O HOH A 1020 O HOH A 1074 2.06 REMARK 500 O HOH B 989 O HOH B 1013 2.07 REMARK 500 O LEU B 437 O HOH B 801 2.07 REMARK 500 O HOH A 810 O HOH A 839 2.12 REMARK 500 O HOH B 939 O HOH B 988 2.14 REMARK 500 O HOH B 988 O HOH B 991 2.15 REMARK 500 O HOH A 889 O HOH A 1010 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1044 O HOH B 977 4465 2.05 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 534 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 578 -126.25 -97.50 REMARK 500 ASP B 408 78.24 -64.94 REMARK 500 ASN B 578 -123.15 -97.78 REMARK 500 ASP B 597 91.79 -161.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 411 SG REMARK 620 2 CYS A 414 SG 115.3 REMARK 620 3 HIS A 449 ND1 103.1 103.8 REMARK 620 4 CYS A 452 SG 119.3 98.4 116.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 444 SG REMARK 620 2 HIS A 446 ND1 102.9 REMARK 620 3 CYS A 468 SG 112.1 106.7 REMARK 620 4 CYS A 471 SG 107.5 117.6 109.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 411 SG REMARK 620 2 CYS B 414 SG 113.9 REMARK 620 3 HIS B 449 ND1 94.9 102.6 REMARK 620 4 CYS B 452 SG 123.9 101.0 119.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 444 SG REMARK 620 2 HIS B 446 ND1 101.1 REMARK 620 3 CYS B 468 SG 112.4 109.5 REMARK 620 4 CYS B 471 SG 107.0 115.8 110.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 703 DBREF 6Y5N A 388 620 UNP Q86Y01 DTX1_HUMAN 388 620 DBREF 6Y5N B 388 620 UNP Q86Y01 DTX1_HUMAN 388 620 SEQADV 6Y5N GLY A 386 UNP Q86Y01 EXPRESSION TAG SEQADV 6Y5N SER A 387 UNP Q86Y01 EXPRESSION TAG SEQADV 6Y5N GLY B 386 UNP Q86Y01 EXPRESSION TAG SEQADV 6Y5N SER B 387 UNP Q86Y01 EXPRESSION TAG SEQRES 1 A 235 GLY SER LYS SER LYS ASN PRO GLU ASP VAL VAL ARG ARG SEQRES 2 A 235 TYR MET GLN LYS VAL LYS ASN PRO PRO ASP GLU ASP CYS SEQRES 3 A 235 THR ILE CYS MET GLU ARG LEU VAL THR ALA SER GLY TYR SEQRES 4 A 235 GLU GLY VAL LEU ARG HIS LYS GLY VAL ARG PRO GLU LEU SEQRES 5 A 235 VAL GLY ARG LEU GLY ARG CYS GLY HIS MET TYR HIS LEU SEQRES 6 A 235 LEU CYS LEU VAL ALA MET TYR SER ASN GLY ASN LYS ASP SEQRES 7 A 235 GLY SER LEU GLN CYS PRO THR CYS LYS ALA ILE TYR GLY SEQRES 8 A 235 GLU LYS THR GLY THR GLN PRO PRO GLY LYS MET GLU PHE SEQRES 9 A 235 HIS LEU ILE PRO HIS SER LEU PRO GLY PHE PRO ASP THR SEQRES 10 A 235 GLN THR ILE ARG ILE VAL TYR ASP ILE PRO THR GLY ILE SEQRES 11 A 235 GLN GLY PRO GLU HIS PRO ASN PRO GLY LYS LYS PHE THR SEQRES 12 A 235 ALA ARG GLY PHE PRO ARG HIS CYS TYR LEU PRO ASN ASN SEQRES 13 A 235 GLU LYS GLY ARG LYS VAL LEU ARG LEU LEU ILE THR ALA SEQRES 14 A 235 TRP GLU ARG ARG LEU ILE PHE THR ILE GLY THR SER ASN SEQRES 15 A 235 THR THR GLY GLU SER ASP THR VAL VAL TRP ASN GLU ILE SEQRES 16 A 235 HIS HIS LYS THR GLU PHE GLY SER ASN LEU THR GLY HIS SEQRES 17 A 235 GLY TYR PRO ASP ALA SER TYR LEU ASP ASN VAL LEU ALA SEQRES 18 A 235 GLU LEU THR ALA GLN GLY VAL SER GLU ALA ALA ALA LYS SEQRES 19 A 235 ALA SEQRES 1 B 235 GLY SER LYS SER LYS ASN PRO GLU ASP VAL VAL ARG ARG SEQRES 2 B 235 TYR MET GLN LYS VAL LYS ASN PRO PRO ASP GLU ASP CYS SEQRES 3 B 235 THR ILE CYS MET GLU ARG LEU VAL THR ALA SER GLY TYR SEQRES 4 B 235 GLU GLY VAL LEU ARG HIS LYS GLY VAL ARG PRO GLU LEU SEQRES 5 B 235 VAL GLY ARG LEU GLY ARG CYS GLY HIS MET TYR HIS LEU SEQRES 6 B 235 LEU CYS LEU VAL ALA MET TYR SER ASN GLY ASN LYS ASP SEQRES 7 B 235 GLY SER LEU GLN CYS PRO THR CYS LYS ALA ILE TYR GLY SEQRES 8 B 235 GLU LYS THR GLY THR GLN PRO PRO GLY LYS MET GLU PHE SEQRES 9 B 235 HIS LEU ILE PRO HIS SER LEU PRO GLY PHE PRO ASP THR SEQRES 10 B 235 GLN THR ILE ARG ILE VAL TYR ASP ILE PRO THR GLY ILE SEQRES 11 B 235 GLN GLY PRO GLU HIS PRO ASN PRO GLY LYS LYS PHE THR SEQRES 12 B 235 ALA ARG GLY PHE PRO ARG HIS CYS TYR LEU PRO ASN ASN SEQRES 13 B 235 GLU LYS GLY ARG LYS VAL LEU ARG LEU LEU ILE THR ALA SEQRES 14 B 235 TRP GLU ARG ARG LEU ILE PHE THR ILE GLY THR SER ASN SEQRES 15 B 235 THR THR GLY GLU SER ASP THR VAL VAL TRP ASN GLU ILE SEQRES 16 B 235 HIS HIS LYS THR GLU PHE GLY SER ASN LEU THR GLY HIS SEQRES 17 B 235 GLY TYR PRO ASP ALA SER TYR LEU ASP ASN VAL LEU ALA SEQRES 18 B 235 GLU LEU THR ALA GLN GLY VAL SER GLU ALA ALA ALA LYS SEQRES 19 B 235 ALA HET ZN A 701 1 HET ZN A 702 1 HET EDO A 703 10 HET EDO A 704 10 HET CL A 705 1 HET ZN B 701 1 HET ZN B 702 1 HET CL B 703 1 HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ZN 4(ZN 2+) FORMUL 5 EDO 2(C2 H6 O2) FORMUL 7 CL 2(CL 1-) FORMUL 11 HOH *520(H2 O) HELIX 1 AA1 ASN A 391 TYR A 399 1 9 HELIX 2 AA2 GLY A 426 HIS A 430 5 5 HELIX 3 AA3 LEU A 450 ASN A 459 1 10 HELIX 4 AA4 ASN A 541 ARG A 557 1 17 HELIX 5 AA5 SER A 599 GLN A 611 1 13 HELIX 6 AA6 ASN B 391 TYR B 399 1 9 HELIX 7 AA7 LEU B 450 ASN B 459 1 10 HELIX 8 AA8 ASN B 541 ARG B 557 1 17 HELIX 9 AA9 SER B 599 GLN B 611 1 13 SHEET 1 AA1 3 MET A 400 LYS A 402 0 SHEET 2 AA1 3 VAL A 438 LEU A 441 -1 O ARG A 440 N GLN A 401 SHEET 3 AA1 3 HIS A 446 HIS A 449 -1 O HIS A 446 N LEU A 441 SHEET 1 AA2 2 LEU A 466 GLN A 467 0 SHEET 2 AA2 2 ILE A 474 TYR A 475 -1 O TYR A 475 N LEU A 466 SHEET 1 AA3 3 LYS A 486 ILE A 492 0 SHEET 2 AA3 3 THR A 504 ASP A 510 -1 O VAL A 508 N GLU A 488 SHEET 3 AA3 3 ARG A 534 PRO A 539 -1 O CYS A 536 N ILE A 507 SHEET 1 AA4 2 GLY A 514 ILE A 515 0 SHEET 2 AA4 2 LYS A 526 PHE A 527 -1 O PHE A 527 N GLY A 514 SHEET 1 AA5 2 PHE A 561 GLY A 564 0 SHEET 2 AA5 2 THR A 574 TRP A 577 -1 O VAL A 576 N THR A 562 SHEET 1 AA6 3 MET B 400 LYS B 402 0 SHEET 2 AA6 3 VAL B 438 LEU B 441 -1 O ARG B 440 N GLN B 401 SHEET 3 AA6 3 MET B 447 HIS B 449 -1 O TYR B 448 N GLY B 439 SHEET 1 AA7 2 SER B 465 GLN B 467 0 SHEET 2 AA7 2 ILE B 474 GLY B 476 -1 O TYR B 475 N LEU B 466 SHEET 1 AA8 3 LYS B 486 ILE B 492 0 SHEET 2 AA8 3 THR B 504 ASP B 510 -1 O ARG B 506 N HIS B 490 SHEET 3 AA8 3 ARG B 534 PRO B 539 -1 O LEU B 538 N ILE B 505 SHEET 1 AA9 2 GLY B 514 ILE B 515 0 SHEET 2 AA9 2 LYS B 526 PHE B 527 -1 O PHE B 527 N GLY B 514 SHEET 1 AB1 2 PHE B 561 GLY B 564 0 SHEET 2 AB1 2 THR B 574 TRP B 577 -1 O THR B 574 N GLY B 564 LINK SG CYS A 411 ZN ZN A 701 1555 1555 2.43 LINK SG CYS A 414 ZN ZN A 701 1555 1555 2.46 LINK SG CYS A 444 ZN ZN A 702 1555 1555 2.40 LINK ND1 HIS A 446 ZN ZN A 702 1555 1555 2.04 LINK ND1 HIS A 449 ZN ZN A 701 1555 1555 2.18 LINK SG CYS A 452 ZN ZN A 701 1555 1555 2.41 LINK SG CYS A 468 ZN ZN A 702 1555 1555 2.44 LINK SG CYS A 471 ZN ZN A 702 1555 1555 2.39 LINK SG CYS B 411 ZN ZN B 702 1555 1555 2.14 LINK SG CYS B 414 ZN ZN B 702 1555 1555 2.39 LINK SG CYS B 444 ZN ZN B 701 1555 1555 2.22 LINK ND1 HIS B 446 ZN ZN B 701 1555 1555 2.06 LINK ND1 HIS B 449 ZN ZN B 702 1555 1555 2.21 LINK SG CYS B 452 ZN ZN B 702 1555 1555 2.35 LINK SG CYS B 468 ZN ZN B 701 1555 1555 2.30 LINK SG CYS B 471 ZN ZN B 701 1555 1555 2.32 CISPEP 1 PHE A 532 PRO A 533 0 3.64 CISPEP 2 TYR A 595 PRO A 596 0 2.87 CISPEP 3 PHE B 532 PRO B 533 0 4.73 CISPEP 4 TYR B 595 PRO B 596 0 1.96 SITE 1 AC1 4 CYS A 411 CYS A 414 HIS A 449 CYS A 452 SITE 1 AC2 4 CYS A 444 HIS A 446 CYS A 468 CYS A 471 SITE 1 AC3 2 GLU A 416 HOH A 807 SITE 1 AC4 1 PHE A 586 SITE 1 AC5 3 ARG A 534 VAL A 576 TRP A 577 SITE 1 AC6 4 CYS B 444 HIS B 446 CYS B 468 CYS B 471 SITE 1 AC7 4 CYS B 411 CYS B 414 HIS B 449 CYS B 452 SITE 1 AC8 5 ARG B 534 VAL B 576 TRP B 577 HOH B 924 SITE 2 AC8 5 HOH B 934 CRYST1 67.490 86.550 129.830 90.00 90.00 90.00 P 21 21 21 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 0.014817 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011554 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007702 0.00000