HEADER OXIDOREDUCTASE 09-AUG-16 5LOC TITLE CRYSTAL STRUCTURE OF THE ENGINEERED D-AMINO ACID DEHYDROGENASE (DAADH) COMPND MOL_ID: 1; COMPND 2 MOLECULE: MESO-DIAMINOPIMELATE D-DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MESO-DAP DEHYDROGENASE, D-AMINO DEHYDROGENASE; COMPND 5 EC: 1.4.1.16; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CORYNEBACTERIUM GLUTAMICUM; SOURCE 3 ORGANISM_TAXID: 1718; SOURCE 4 GENE: DDH, CGL2617, CG2900; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DAADH, BIOCATALYSIS, AMINO ACIDS, ASYMMETRIC SYNTHESIS, ENZYME KEYWDS 2 CATALYSIS, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.S.DUNSTAN,D.GAHLOTH REVDAT 3 08-MAY-24 5LOC 1 REMARK REVDAT 2 16-OCT-19 5LOC 1 REMARK REVDAT 1 16-AUG-17 5LOC 0 JRNL AUTH F.PARMEGGIANI,S.T.AHMED,M.P.THOMPSON,N.J.WEISE,J.L.GALMAN, JRNL AUTH 2 D.GAHLOTH,M.S.DUNSTAN,D.LEYS,N.J.TURNER JRNL TITL SINGLE-BIOCATALYST SYNTHESIS OF ENANTIOPURE D-ARYLALANINES JRNL TITL 2 EXPLOITING AN ENGINEERED D-AMINO ACID DEHYDROGENASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.04 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.04 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 71.30 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 52409 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 2549 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 71.3460 - 5.3456 1.00 2914 161 0.1719 0.2268 REMARK 3 2 5.3456 - 4.2431 1.00 2826 146 0.1476 0.1638 REMARK 3 3 4.2431 - 3.7068 1.00 2818 115 0.1802 0.2280 REMARK 3 4 3.7068 - 3.3679 1.00 2797 130 0.2117 0.2581 REMARK 3 5 3.3679 - 3.1265 1.00 2810 145 0.2305 0.2818 REMARK 3 6 3.1265 - 2.9422 1.00 2757 129 0.2529 0.3205 REMARK 3 7 2.9422 - 2.7948 1.00 2741 169 0.2532 0.3261 REMARK 3 8 2.7948 - 2.6731 1.00 2729 152 0.2473 0.2716 REMARK 3 9 2.6731 - 2.5702 1.00 2776 130 0.2399 0.2912 REMARK 3 10 2.5702 - 2.4815 1.00 2784 127 0.2510 0.3359 REMARK 3 11 2.4815 - 2.4039 1.00 2729 159 0.2489 0.3110 REMARK 3 12 2.4039 - 2.3352 1.00 2763 145 0.2481 0.3237 REMARK 3 13 2.3352 - 2.2737 1.00 2710 152 0.2574 0.3055 REMARK 3 14 2.2737 - 2.2183 1.00 2695 175 0.2638 0.3397 REMARK 3 15 2.2183 - 2.1678 1.00 2778 136 0.2712 0.3358 REMARK 3 16 2.1678 - 2.1217 1.00 2739 119 0.2802 0.3144 REMARK 3 17 2.1217 - 2.0792 1.00 2759 119 0.2770 0.2964 REMARK 3 18 2.0792 - 2.0400 1.00 2735 140 0.2884 0.3228 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 27.700 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.11 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 : 0.010 5013 REMARK 3 ANGLE : 1.319 6806 REMARK 3 CHIRALITY : 0.050 753 REMARK 3 PLANARITY : 0.006 912 REMARK 3 DIHEDRAL : 14.765 1812 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 40.1052 -14.7003 101.9558 REMARK 3 T TENSOR REMARK 3 T11: 0.7831 T22: 0.5369 REMARK 3 T33: 0.4718 T12: 0.1709 REMARK 3 T13: 0.0212 T23: -0.0918 REMARK 3 L TENSOR REMARK 3 L11: 1.0041 L22: 1.2039 REMARK 3 L33: 1.1654 L12: 0.0475 REMARK 3 L13: 0.2198 L23: -0.0292 REMARK 3 S TENSOR REMARK 3 S11: 0.0266 S12: 0.3300 S13: -0.2528 REMARK 3 S21: -0.8185 S22: -0.3928 S23: 0.1020 REMARK 3 S31: 0.0295 S32: -0.5437 S33: 0.1677 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 321 ) REMARK 3 ORIGIN FOR THE GROUP (A): 49.8658 6.1724 102.6734 REMARK 3 T TENSOR REMARK 3 T11: 0.6852 T22: 0.4167 REMARK 3 T33: 0.4393 T12: 0.2561 REMARK 3 T13: 0.0519 T23: 0.0476 REMARK 3 L TENSOR REMARK 3 L11: 0.6217 L22: 0.1911 REMARK 3 L33: 0.7261 L12: -0.2182 REMARK 3 L13: -0.3447 L23: 0.4857 REMARK 3 S TENSOR REMARK 3 S11: 0.0974 S12: 0.2088 S13: 0.0491 REMARK 3 S21: -0.2343 S22: -0.1192 S23: -0.0662 REMARK 3 S31: -0.4083 S32: -0.3609 S33: 0.0675 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 4 THROUGH 49 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.3973 29.9171 110.6479 REMARK 3 T TENSOR REMARK 3 T11: 0.9165 T22: 1.0436 REMARK 3 T33: 0.6935 T12: 0.9906 REMARK 3 T13: -0.3696 T23: -0.2057 REMARK 3 L TENSOR REMARK 3 L11: 0.7620 L22: 0.3106 REMARK 3 L33: 0.5092 L12: -0.1378 REMARK 3 L13: 0.1667 L23: -0.2399 REMARK 3 S TENSOR REMARK 3 S11: 0.1787 S12: 0.1209 S13: 0.1088 REMARK 3 S21: -0.2690 S22: -0.1225 S23: 0.3005 REMARK 3 S31: -0.2172 S32: -0.3169 S33: 0.2729 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 50 THROUGH 145 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.0733 14.2854 119.9728 REMARK 3 T TENSOR REMARK 3 T11: 0.4776 T22: 0.8861 REMARK 3 T33: 0.6248 T12: 0.2654 REMARK 3 T13: -0.0715 T23: -0.2216 REMARK 3 L TENSOR REMARK 3 L11: 1.1092 L22: 0.8779 REMARK 3 L33: 0.2205 L12: -0.1895 REMARK 3 L13: -0.2314 L23: -0.1289 REMARK 3 S TENSOR REMARK 3 S11: 0.1439 S12: -0.0998 S13: 0.0178 REMARK 3 S21: -0.0817 S22: -0.3584 S23: 0.6145 REMARK 3 S31: -0.1373 S32: -0.7131 S33: 0.0753 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 146 THROUGH 189 ) REMARK 3 ORIGIN FOR THE GROUP (A): 43.1890 24.3899 129.4501 REMARK 3 T TENSOR REMARK 3 T11: 0.4564 T22: 0.4229 REMARK 3 T33: 0.4675 T12: 0.2155 REMARK 3 T13: 0.0176 T23: 0.0585 REMARK 3 L TENSOR REMARK 3 L11: 1.0611 L22: 2.0382 REMARK 3 L33: 0.9573 L12: -0.8770 REMARK 3 L13: -0.7563 L23: 1.1751 REMARK 3 S TENSOR REMARK 3 S11: 0.1998 S12: -0.0138 S13: -0.1592 REMARK 3 S21: -0.2076 S22: -0.1899 S23: -0.1599 REMARK 3 S31: 0.0008 S32: 0.0558 S33: 0.0483 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 190 THROUGH 232 ) REMARK 3 ORIGIN FOR THE GROUP (A): 42.8123 31.7610 137.7838 REMARK 3 T TENSOR REMARK 3 T11: 0.3541 T22: 0.3943 REMARK 3 T33: 0.4426 T12: 0.1274 REMARK 3 T13: 0.0267 T23: -0.0052 REMARK 3 L TENSOR REMARK 3 L11: 0.5603 L22: 1.9409 REMARK 3 L33: 0.9066 L12: 0.2640 REMARK 3 L13: 0.0181 L23: 0.0420 REMARK 3 S TENSOR REMARK 3 S11: 0.2865 S12: -0.0287 S13: 0.0688 REMARK 3 S21: -0.3512 S22: -0.2001 S23: -0.1267 REMARK 3 S31: -0.0461 S32: -0.0931 S33: 0.0465 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 233 THROUGH 290 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.4124 19.7931 115.7666 REMARK 3 T TENSOR REMARK 3 T11: 0.6325 T22: 0.5490 REMARK 3 T33: 0.4170 T12: 0.3812 REMARK 3 T13: -0.0150 T23: -0.0246 REMARK 3 L TENSOR REMARK 3 L11: 0.2980 L22: 1.2024 REMARK 3 L33: 0.3569 L12: -0.1273 REMARK 3 L13: -0.3376 L23: 0.2123 REMARK 3 S TENSOR REMARK 3 S11: 0.3290 S12: 0.2553 S13: 0.0539 REMARK 3 S21: -0.4743 S22: -0.4414 S23: 0.1735 REMARK 3 S31: -0.2651 S32: -0.3717 S33: 0.0741 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 291 THROUGH 321 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.9097 8.0763 103.7243 REMARK 3 T TENSOR REMARK 3 T11: 0.8166 T22: 0.8073 REMARK 3 T33: 0.5771 T12: 0.4093 REMARK 3 T13: -0.2567 T23: -0.2074 REMARK 3 L TENSOR REMARK 3 L11: 1.0129 L22: 1.1247 REMARK 3 L33: 2.3616 L12: -0.7291 REMARK 3 L13: -0.1768 L23: 0.4919 REMARK 3 S TENSOR REMARK 3 S11: 0.0258 S12: 0.2570 S13: 0.0292 REMARK 3 S21: -0.6440 S22: -0.1596 S23: 0.3732 REMARK 3 S31: -0.0339 S32: -0.7073 S33: 0.1203 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 5LOC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1200001058. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-15 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 : 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) : 0.9282 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 529247 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.040 REMARK 200 RESOLUTION RANGE LOW (A) : 71.302 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.12 M MONOSACCHARIDES, 0.1 M BUFFER REMARK 280 SYSTEM 3 PH 8.5, 30%, P500MME_P20K, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 32.54333 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 65.08667 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 65.08667 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 32.54333 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 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 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 B 2 REMARK 465 THR B 3 REMARK 465 ASN B 112A 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 O HOH A 451 O HOH A 507 1.80 REMARK 500 O ALA A 57 O HOH A 401 1.86 REMARK 500 O VAL A 222 O HOH A 402 1.90 REMARK 500 O ALA B 133 O HOH B 401 1.90 REMARK 500 O HOH B 420 O HOH B 454 1.95 REMARK 500 O ALA B 137 O HOH B 402 2.03 REMARK 500 O ALA A 180 O HOH A 403 2.08 REMARK 500 O HOH B 401 O HOH B 461 2.08 REMARK 500 O MET B 289 O HOH B 403 2.15 REMARK 500 O ILE B 317 O HOH B 404 2.16 REMARK 500 OD2 ASP A 28 NH1 ARG A 284 2.17 REMARK 500 NH1 ARG A 209 OD1 ASP A 213 2.17 REMARK 500 O LEU A 136 O HOH A 404 2.19 REMARK 500 ND1 HIS B 142 O HOH B 405 2.19 REMARK 500 O ALA A 133 O HOH A 404 2.19 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 500 O HOH B 477 5557 2.12 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 284 NE - CZ - NH1 ANGL. DEV. = -3.0 DEGREES REMARK 500 LYS B 290 CB - CG - CD ANGL. DEV. = 15.8 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 TYR A 12 39.50 -143.23 REMARK 500 SER A 69 73.20 60.88 REMARK 500 THR A 71 -41.83 131.45 REMARK 500 ALA A 137 -87.10 -52.06 REMARK 500 GLU A 138 79.07 -106.69 REMARK 500 HIS A 142 -111.64 -127.15 REMARK 500 THR A 143 114.38 138.79 REMARK 500 GLU A 184 38.85 -87.51 REMARK 500 ALA A 185 52.32 -147.40 REMARK 500 ASP A 219 -50.12 76.34 REMARK 500 GLN A 294 -177.77 41.88 REMARK 500 SER A 295 -133.10 171.60 REMARK 500 ASP A 320 -49.86 55.06 REMARK 500 ARG B 6 52.52 -99.78 REMARK 500 TYR B 12 33.70 -142.09 REMARK 500 ASP B 42 33.79 -84.60 REMARK 500 VAL B 53 -47.23 14.77 REMARK 500 SER B 69 61.96 61.31 REMARK 500 THR B 71 -25.63 133.14 REMARK 500 GLN B 82 20.75 -71.10 REMARK 500 ALA B 84 -144.78 -159.13 REMARK 500 ARG B 94 -39.24 86.10 REMARK 500 THR B 108 80.66 -60.20 REMARK 500 ALA B 109 40.24 -178.43 REMARK 500 ALA B 110 -8.77 83.55 REMARK 500 PRO B 147 105.69 -52.65 REMARK 500 ASP B 219 -39.83 75.42 REMARK 500 ASN B 245 -168.78 -161.37 REMARK 500 LYS B 290 -85.32 -67.92 REMARK 500 GLN B 291 32.09 -90.04 REMARK 500 GLN B 294 152.49 64.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL B 53 ASP B 54 -136.90 REMARK 500 TRP B 145 GLY B 146 -146.27 REMARK 500 REMARK 500 REMARK: NULL DBREF 5LOC A 3 321 UNP P04964 DAPDH_CORGL 2 320 DBREF 5LOC B 3 321 UNP P04964 DAPDH_CORGL 2 320 SEQADV 5LOC GLY A 2 UNP P04964 EXPRESSION TAG SEQADV 5LOC LEU A 151 UNP P04964 GLN 150 CONFLICT SEQADV 5LOC GLY A 155 UNP P04964 ASP 154 CONFLICT SEQADV 5LOC ILE A 170 UNP P04964 THR 169 CONFLICT SEQADV 5LOC ASP A 175 UNP P04964 ASP 174 CONFLICT SEQADV 5LOC MET A 196 UNP P04964 ARG 195 CONFLICT SEQADV 5LOC SER A 238 UNP P04964 SER 237 CONFLICT SEQADV 5LOC ASN A 245 UNP P04964 HIS 244 CONFLICT SEQADV 5LOC GLY B 2 UNP P04964 EXPRESSION TAG SEQADV 5LOC LEU B 151 UNP P04964 GLN 150 CONFLICT SEQADV 5LOC GLY B 155 UNP P04964 ASP 154 CONFLICT SEQADV 5LOC ILE B 170 UNP P04964 THR 169 CONFLICT SEQADV 5LOC ASP B 175 UNP P04964 ASP 174 CONFLICT SEQADV 5LOC MET B 196 UNP P04964 ARG 195 CONFLICT SEQADV 5LOC SER B 238 UNP P04964 SER 237 CONFLICT SEQADV 5LOC ASN B 245 UNP P04964 HIS 244 CONFLICT SEQRES 1 A 320 GLY THR ASN ILE ARG VAL ALA ILE VAL GLY TYR GLY ASN SEQRES 2 A 320 LEU GLY ARG SER VAL GLU LYS LEU ILE ALA LYS GLN PRO SEQRES 3 A 320 ASP MET ASP LEU VAL GLY ILE PHE SER ARG ARG ALA THR SEQRES 4 A 320 LEU ASP THR LYS THR PRO VAL PHE ASP VAL ALA ASP VAL SEQRES 5 A 320 ASP LYS HIS ALA ASP ASP VAL ASP VAL LEU PHE LEU CYS SEQRES 6 A 320 MET GLY SER ALA THR ASP ILE PRO GLU GLN ALA PRO LYS SEQRES 7 A 320 PHE ALA GLN PHE ALA CYS THR VAL ASP THR TYR ASP ASN SEQRES 8 A 320 HIS ARG ASP ILE PRO ARG HIS ARG GLN VAL MET ASN GLU SEQRES 9 A 320 ALA ALA THR ALA ALA GLY ASN VAL ALA LEU VAL SER THR SEQRES 10 A 320 GLY TRP ASP PRO GLY MET PHE SER ILE ASN ARG VAL TYR SEQRES 11 A 320 ALA ALA ALA VAL LEU ALA GLU HIS GLN GLN HIS THR PHE SEQRES 12 A 320 TRP GLY PRO GLY LEU SER LEU GLY HIS SER GLY ALA LEU SEQRES 13 A 320 ARG ARG ILE PRO GLY VAL GLN LYS ALA VAL GLN TYR ILE SEQRES 14 A 320 LEU PRO SER GLU ASP ALA LEU GLU LYS ALA ARG ARG GLY SEQRES 15 A 320 GLU ALA GLY ASP LEU THR GLY LYS GLN THR HIS LYS MET SEQRES 16 A 320 GLN CYS PHE VAL VAL ALA ASP ALA ALA ASP HIS GLU ARG SEQRES 17 A 320 ILE GLU ASN ASP ILE ARG THR MET PRO ASP TYR PHE VAL SEQRES 18 A 320 GLY TYR GLU VAL GLU VAL ASN PHE ILE ASP GLU ALA THR SEQRES 19 A 320 PHE ASP SER GLU HIS THR GLY MET PRO ASN GLY GLY HIS SEQRES 20 A 320 VAL ILE THR THR GLY ASP THR GLY GLY PHE ASN HIS THR SEQRES 21 A 320 VAL GLU TYR ILE LEU LYS LEU ASP ARG ASN PRO ASP PHE SEQRES 22 A 320 THR ALA SER SER GLN ILE ALA PHE GLY ARG ALA ALA HIS SEQRES 23 A 320 ARG MET LYS GLN GLN GLY GLN SER GLY ALA PHE THR VAL SEQRES 24 A 320 LEU GLU VAL ALA PRO TYR LEU LEU SER PRO GLU ASN LEU SEQRES 25 A 320 ASP ASP LEU ILE ALA ARG ASP VAL SEQRES 1 B 320 GLY THR ASN ILE ARG VAL ALA ILE VAL GLY TYR GLY ASN SEQRES 2 B 320 LEU GLY ARG SER VAL GLU LYS LEU ILE ALA LYS GLN PRO SEQRES 3 B 320 ASP MET ASP LEU VAL GLY ILE PHE SER ARG ARG ALA THR SEQRES 4 B 320 LEU ASP THR LYS THR PRO VAL PHE ASP VAL ALA ASP VAL SEQRES 5 B 320 ASP LYS HIS ALA ASP ASP VAL ASP VAL LEU PHE LEU CYS SEQRES 6 B 320 MET GLY SER ALA THR ASP ILE PRO GLU GLN ALA PRO LYS SEQRES 7 B 320 PHE ALA GLN PHE ALA CYS THR VAL ASP THR TYR ASP ASN SEQRES 8 B 320 HIS ARG ASP ILE PRO ARG HIS ARG GLN VAL MET ASN GLU SEQRES 9 B 320 ALA ALA THR ALA ALA GLY ASN VAL ALA LEU VAL SER THR SEQRES 10 B 320 GLY TRP ASP PRO GLY MET PHE SER ILE ASN ARG VAL TYR SEQRES 11 B 320 ALA ALA ALA VAL LEU ALA GLU HIS GLN GLN HIS THR PHE SEQRES 12 B 320 TRP GLY PRO GLY LEU SER LEU GLY HIS SER GLY ALA LEU SEQRES 13 B 320 ARG ARG ILE PRO GLY VAL GLN LYS ALA VAL GLN TYR ILE SEQRES 14 B 320 LEU PRO SER GLU ASP ALA LEU GLU LYS ALA ARG ARG GLY SEQRES 15 B 320 GLU ALA GLY ASP LEU THR GLY LYS GLN THR HIS LYS MET SEQRES 16 B 320 GLN CYS PHE VAL VAL ALA ASP ALA ALA ASP HIS GLU ARG SEQRES 17 B 320 ILE GLU ASN ASP ILE ARG THR MET PRO ASP TYR PHE VAL SEQRES 18 B 320 GLY TYR GLU VAL GLU VAL ASN PHE ILE ASP GLU ALA THR SEQRES 19 B 320 PHE ASP SER GLU HIS THR GLY MET PRO ASN GLY GLY HIS SEQRES 20 B 320 VAL ILE THR THR GLY ASP THR GLY GLY PHE ASN HIS THR SEQRES 21 B 320 VAL GLU TYR ILE LEU LYS LEU ASP ARG ASN PRO ASP PHE SEQRES 22 B 320 THR ALA SER SER GLN ILE ALA PHE GLY ARG ALA ALA HIS SEQRES 23 B 320 ARG MET LYS GLN GLN GLY GLN SER GLY ALA PHE THR VAL SEQRES 24 B 320 LEU GLU VAL ALA PRO TYR LEU LEU SER PRO GLU ASN LEU SEQRES 25 B 320 ASP ASP LEU ILE ALA ARG ASP VAL FORMUL 3 HOH *217(H2 O) HELIX 1 AA1 GLY A 13 ALA A 24 1 12 HELIX 2 AA2 ALA A 51 VAL A 60 5 10 HELIX 3 AA3 THR A 71 ALA A 81 1 11 HELIX 4 AA4 ASP A 95 GLY A 111 1 17 HELIX 5 AA5 GLY A 123 LEU A 136 1 14 HELIX 6 AA6 SER A 150 ARG A 159 1 10 HELIX 7 AA7 SER A 173 ARG A 182 1 10 HELIX 8 AA8 ASP A 203 ALA A 205 5 3 HELIX 9 AA9 ASP A 206 THR A 216 1 11 HELIX 10 AB1 ASP A 232 HIS A 240 1 9 HELIX 11 AB2 ARG A 270 GLN A 294 1 25 HELIX 12 AB3 THR A 299 VAL A 303 5 5 HELIX 13 AB4 ALA A 304 SER A 309 5 6 HELIX 14 AB5 ASN A 312 ARG A 319 1 8 HELIX 15 AB6 GLY B 13 ALA B 24 1 12 HELIX 16 AB7 THR B 71 ALA B 81 1 11 HELIX 17 AB8 GLN B 82 ALA B 84 5 3 HELIX 18 AB9 ASP B 95 THR B 108 1 14 HELIX 19 AC1 GLY B 123 LEU B 136 1 14 HELIX 20 AC2 SER B 150 ARG B 159 1 10 HELIX 21 AC3 SER B 173 ARG B 182 1 10 HELIX 22 AC4 THR B 189 THR B 193 1 5 HELIX 23 AC5 ASP B 203 ALA B 205 5 3 HELIX 24 AC6 ASP B 206 THR B 216 1 11 HELIX 25 AC7 ASP B 232 HIS B 240 1 9 HELIX 26 AC8 ARG B 270 MET B 289 1 20 HELIX 27 AC9 THR B 299 VAL B 303 5 5 HELIX 28 AD1 ALA B 304 SER B 309 5 6 HELIX 29 AD2 ASN B 312 VAL B 321 1 10 SHEET 1 AA1 7 VAL A 47 ASP A 49 0 SHEET 2 AA1 7 MET A 29 SER A 36 1 N ILE A 34 O PHE A 48 SHEET 3 AA1 7 ILE A 5 VAL A 10 1 N ILE A 9 O PHE A 35 SHEET 4 AA1 7 VAL A 62 LEU A 65 1 O PHE A 64 N ALA A 8 SHEET 5 AA1 7 CYS A 85 VAL A 87 1 O CYS A 85 N LEU A 63 SHEET 6 AA1 7 ALA A 114 LEU A 115 1 O LEU A 115 N THR A 86 SHEET 7 AA1 7 ALA A 297 PHE A 298 1 O PHE A 298 N ALA A 114 SHEET 1 AA2 3 GLN A 140 GLN A 141 0 SHEET 2 AA2 3 ASN A 245 ASP A 254 -1 O THR A 252 N GLN A 140 SHEET 3 AA2 3 PHE A 144 TRP A 145 -1 N PHE A 144 O HIS A 248 SHEET 1 AA3 6 GLN A 140 GLN A 141 0 SHEET 2 AA3 6 ASN A 245 ASP A 254 -1 O THR A 252 N GLN A 140 SHEET 3 AA3 6 ASN A 259 LEU A 268 -1 O LEU A 268 N ASN A 245 SHEET 4 AA3 6 ASN B 259 LEU B 268 -1 O ILE B 265 N GLU A 263 SHEET 5 AA3 6 ASN B 245 ASP B 254 -1 N THR B 251 O VAL B 262 SHEET 6 AA3 6 GLN B 140 TRP B 145 -1 N PHE B 144 O HIS B 248 SHEET 1 AA4 4 GLY A 148 LEU A 149 0 SHEET 2 AA4 4 LYS A 165 PRO A 172 -1 O ILE A 170 N GLY A 148 SHEET 3 AA4 4 HIS A 194 VAL A 201 -1 O VAL A 201 N LYS A 165 SHEET 4 AA4 4 VAL A 226 PHE A 230 1 O GLU A 227 N CYS A 198 SHEET 1 AA5 7 VAL B 47 ASP B 49 0 SHEET 2 AA5 7 MET B 29 SER B 36 1 N ILE B 34 O PHE B 48 SHEET 3 AA5 7 ILE B 5 VAL B 10 1 N VAL B 7 O VAL B 32 SHEET 4 AA5 7 VAL B 62 LEU B 65 1 O PHE B 64 N ALA B 8 SHEET 5 AA5 7 CYS B 85 VAL B 87 1 O CYS B 85 N LEU B 63 SHEET 6 AA5 7 ALA B 114 LEU B 115 1 O LEU B 115 N THR B 86 SHEET 7 AA5 7 ALA B 297 PHE B 298 1 O PHE B 298 N ALA B 114 SHEET 1 AA6 4 GLY B 148 LEU B 149 0 SHEET 2 AA6 4 LYS B 165 PRO B 172 -1 O ILE B 170 N GLY B 148 SHEET 3 AA6 4 HIS B 194 VAL B 201 -1 O LYS B 195 N LEU B 171 SHEET 4 AA6 4 GLU B 225 PHE B 230 1 O GLU B 227 N CYS B 198 CISPEP 1 ASP A 121 PRO A 122 0 4.27 CISPEP 2 ASP B 121 PRO B 122 0 2.91 CRYST1 120.530 120.530 97.630 90.00 90.00 120.00 P 31 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 0.008297 0.004790 0.000000 0.00000 SCALE2 0.000000 0.009580 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010243 0.00000