HEADER OXIDOREDUCTASE 13-MAY-24 8ZIA TITLE THE L-TRYPTOPHAN SPECIFIC DECARBOXYLASE PSID(50-439) IN COMPLEX WITH TITLE 2 TRYPTAMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-TRYPTOPHAN DECARBOXYLASE; COMPND 3 CHAIN: I, A; COMPND 4 SYNONYM: PSILOCYBIN BIOSYNTHESIS DECARBOXYLASE; COMPND 5 EC: 4.1.1.105; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: L-TRYPTOPHAN DECARBOXYLASE; COMPND 9 CHAIN: J, B; COMPND 10 SYNONYM: PSILOCYBIN BIOSYNTHESIS DECARBOXYLASE; COMPND 11 EC: 4.1.1.105; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSILOCYBE CUBENSIS; SOURCE 3 ORGANISM_TAXID: 181762; SOURCE 4 GENE: PSID; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: PSILOCYBE CUBENSIS; SOURCE 9 ORGANISM_TAXID: 181762; SOURCE 10 GENE: PSID; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 12 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS DECARBOXYLASE, PSILOCYBIN, L-TRYPTOPHAN, PSILOCIN, TRYPTAMINE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.Y.MENG,Y.WEN,W.T.GUO,B.X.WU REVDAT 1 02-APR-25 8ZIA 0 JRNL AUTH C.MENG,W.GUO,C.XIAO,Y.WEN,X.ZHU,Q.ZHANG,Y.LIANG,H.LI,S.XU, JRNL AUTH 2 Y.QIU,H.CHEN,W.J.LIN,B.WU JRNL TITL STRUCTURAL BASIS FOR PSILOCYBIN BIOSYNTHESIS. JRNL REF NAT COMMUN V. 16 2827 2025 JRNL REFN ESSN 2041-1723 JRNL PMID 40121242 JRNL DOI 10.1038/S41467-025-58239-X REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.21RC1_5156 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 123947 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 6317 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 35.5100 - 4.9700 0.99 4042 226 0.1461 0.1551 REMARK 3 2 4.9700 - 3.9400 1.00 3996 194 0.1304 0.1475 REMARK 3 3 3.9400 - 3.4500 0.99 3980 200 0.1413 0.1405 REMARK 3 4 3.4500 - 3.1300 1.00 3920 221 0.1534 0.1725 REMARK 3 5 3.1300 - 2.9100 1.00 3949 210 0.1631 0.1741 REMARK 3 6 2.9100 - 2.7400 1.00 3912 236 0.1641 0.1672 REMARK 3 7 2.7400 - 2.6000 1.00 3944 220 0.1674 0.1930 REMARK 3 8 2.6000 - 2.4900 1.00 3890 212 0.1680 0.2081 REMARK 3 9 2.4900 - 2.3900 1.00 3946 205 0.1700 0.1838 REMARK 3 10 2.3900 - 2.3100 1.00 3938 204 0.1694 0.1645 REMARK 3 11 2.3100 - 2.2400 1.00 3945 215 0.1629 0.1875 REMARK 3 12 2.2400 - 2.1700 1.00 3870 214 0.1677 0.1865 REMARK 3 13 2.1700 - 2.1100 1.00 3916 209 0.1658 0.2038 REMARK 3 14 2.1100 - 2.0600 1.00 3955 202 0.1661 0.1959 REMARK 3 15 2.0600 - 2.0200 1.00 3927 198 0.1688 0.2005 REMARK 3 16 2.0200 - 1.9700 1.00 3931 175 0.1772 0.2027 REMARK 3 17 1.9700 - 1.9300 1.00 3904 209 0.1927 0.2254 REMARK 3 18 1.9300 - 1.9000 1.00 3900 211 0.1873 0.2193 REMARK 3 19 1.9000 - 1.8600 1.00 3899 212 0.1837 0.1977 REMARK 3 20 1.8600 - 1.8300 1.00 3915 220 0.1761 0.2075 REMARK 3 21 1.8300 - 1.8000 1.00 3838 219 0.1827 0.2051 REMARK 3 22 1.8000 - 1.7700 1.00 3936 221 0.1804 0.1995 REMARK 3 23 1.7700 - 1.7500 1.00 3909 212 0.1881 0.2117 REMARK 3 24 1.7500 - 1.7200 1.00 3940 209 0.1910 0.1902 REMARK 3 25 1.7200 - 1.7000 1.00 3844 224 0.2034 0.2164 REMARK 3 26 1.7000 - 1.6800 1.00 3868 226 0.2196 0.2265 REMARK 3 27 1.6800 - 1.6600 1.00 3921 206 0.2306 0.2689 REMARK 3 28 1.6600 - 1.6400 1.00 3914 191 0.2578 0.2682 REMARK 3 29 1.6400 - 1.6200 1.00 3891 218 0.2792 0.3263 REMARK 3 30 1.6200 - 1.6000 1.00 3890 198 0.3241 0.3564 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.177 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.653 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.75 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.37 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 : 0.006 6335 REMARK 3 ANGLE : 0.805 8584 REMARK 3 CHIRALITY : 0.056 907 REMARK 3 PLANARITY : 0.008 1135 REMARK 3 DIHEDRAL : 15.924 2312 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): -25.9346 8.0917 -29.7639 REMARK 3 T TENSOR REMARK 3 T11: 0.1767 T22: 0.1426 REMARK 3 T33: 0.1662 T12: 0.0002 REMARK 3 T13: -0.0218 T23: -0.0075 REMARK 3 L TENSOR REMARK 3 L11: 0.8086 L22: 0.2557 REMARK 3 L33: 0.5955 L12: -0.0507 REMARK 3 L13: -0.3747 L23: 0.0511 REMARK 3 S TENSOR REMARK 3 S11: 0.0032 S12: -0.0966 S13: 0.0339 REMARK 3 S21: -0.0051 S22: 0.0199 S23: -0.0175 REMARK 3 S31: 0.0130 S32: -0.0153 S33: -0.0186 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 8ZIA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-MAY-24. REMARK 100 THE DEPOSITION ID IS D_1300047830. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAR-24 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 : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946 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 : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 124004 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.54200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.500 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: 8X4Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MAGNESIUM FORMATE DIHYDRATE, 15% REMARK 280 W/V POLYETHYLENE GLYCOL 3,350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 29.63250 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 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: 4320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: I, J 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 ASN I 50 REMARK 465 TYR I 51 REMARK 465 SER I 52 REMARK 465 ASN I 53 REMARK 465 GLU I 54 REMARK 465 LYS J 536 REMARK 465 ALA J 537 REMARK 465 ASN A 50 REMARK 465 TYR A 51 REMARK 465 SER A 52 REMARK 465 ASN A 53 REMARK 465 GLU A 54 REMARK 465 LYS B 536 REMARK 465 ALA B 537 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 I 803 O HOH I 899 1.51 REMARK 500 O HOH I 812 O HOH A 887 1.57 REMARK 500 O HOH A 874 O HOH A 993 1.60 REMARK 500 O HOH I 800 O HOH I 970 1.61 REMARK 500 O HOH I 896 O HOH I 910 1.64 REMARK 500 O HOH I 925 O HOH A 802 1.70 REMARK 500 O HOH A 891 O HOH A 960 1.71 REMARK 500 O HOH I 904 O HOH I 936 1.71 REMARK 500 O HOH A 905 O HOH A 982 1.72 REMARK 500 OE1 GLU I 362 O HOH I 601 1.78 REMARK 500 O HOH I 788 O HOH I 952 1.80 REMARK 500 O HOH A 918 O HOH A 949 1.86 REMARK 500 O HOH I 669 O HOH I 907 1.87 REMARK 500 O HOH A 834 O HOH A 964 1.88 REMARK 500 O HOH A 906 O HOH A 946 1.90 REMARK 500 O HOH I 926 O HOH I 969 1.90 REMARK 500 O HOH B 601 O HOH B 625 1.91 REMARK 500 O HOH I 819 O HOH I 841 1.93 REMARK 500 O HOH I 991 O HOH I 1004 1.93 REMARK 500 O HOH I 809 O HOH I 880 1.94 REMARK 500 O HOH A 668 O HOH A 887 1.96 REMARK 500 OD1 ASN I 311 O HOH I 602 1.96 REMARK 500 O HOH A 820 O HOH A 945 1.96 REMARK 500 O HOH A 894 O HOH A 964 1.96 REMARK 500 O HOH A 866 O HOH A 939 1.97 REMARK 500 O HOH I 608 O HOH I 924 1.97 REMARK 500 O HOH I 748 O HOH I 1010 1.98 REMARK 500 O HOH I 603 O HOH I 814 2.01 REMARK 500 O HOH A 651 O HOH A 912 2.02 REMARK 500 O HOH A 881 O HOH A 894 2.03 REMARK 500 OE2 GLU A 83 O HOH A 601 2.03 REMARK 500 OD1 ASN A 220 O HOH A 602 2.05 REMARK 500 O HOH A 728 O HOH A 811 2.05 REMARK 500 O HOH I 727 O HOH I 880 2.06 REMARK 500 O HOH A 875 O HOH A 943 2.06 REMARK 500 O HOH J 635 O HOH J 636 2.07 REMARK 500 O HOH A 626 O HOH A 994 2.08 REMARK 500 NZ LYS A 308 O HOH A 603 2.08 REMARK 500 O HOH A 924 O HOH A 940 2.09 REMARK 500 NE ARG J 527 O HOH J 601 2.10 REMARK 500 O HOH I 804 O HOH I 917 2.10 REMARK 500 NE2 HIS I 171 O HOH I 603 2.11 REMARK 500 O HOH I 603 O HOH I 919 2.11 REMARK 500 O HOH A 908 O HOH A 915 2.11 REMARK 500 O HOH A 611 O HOH A 938 2.12 REMARK 500 O HOH A 728 O HOH A 972 2.12 REMARK 500 O HOH I 946 O HOH I 993 2.12 REMARK 500 O HOH I 831 O HOH I 892 2.14 REMARK 500 O HOH I 823 O HOH I 1016 2.15 REMARK 500 NZ LYS I 105 O HOH I 604 2.15 REMARK 500 REMARK 500 THIS ENTRY HAS 64 CLOSE CONTACTS 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 NE2 GLN A 59 O HOH I 780 1455 1.74 REMARK 500 O HOH I 604 O HOH A 860 1655 1.77 REMARK 500 NE2 GLN A 62 O HOH I 789 1455 1.97 REMARK 500 O HOH I 870 O HOH A 922 2454 2.05 REMARK 500 O HOH I 661 O HOH I 709 2544 2.18 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 PYR B 501 O - C - N ANGL. DEV. = -10.7 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 ASP I 168 -158.34 -153.98 REMARK 500 ASN I 220 78.83 -151.17 REMARK 500 PHE I 260 -144.74 66.57 REMARK 500 ASP I 330 50.65 -92.61 REMARK 500 THR I 374 -124.88 38.46 REMARK 500 ASN J 529 -10.81 78.96 REMARK 500 ASN A 125 34.76 -86.24 REMARK 500 ASN A 220 79.96 -154.78 REMARK 500 LEU A 258 62.71 -104.76 REMARK 500 PHE A 260 -145.55 68.86 REMARK 500 ASP A 330 57.38 -90.51 REMARK 500 THR A 374 -126.70 38.28 REMARK 500 ILE A 376 74.75 -102.13 REMARK 500 ASN B 529 -14.00 82.67 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 PYR J 501 27.57 REMARK 500 PYR B 501 31.75 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 I1033 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH J 636 DISTANCE = 6.04 ANGSTROMS REMARK 525 HOH J 637 DISTANCE = 6.12 ANGSTROMS REMARK 525 HOH A1016 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH A1017 DISTANCE = 6.04 ANGSTROMS REMARK 525 HOH A1018 DISTANCE = 6.10 ANGSTROMS REMARK 525 HOH A1019 DISTANCE = 6.29 ANGSTROMS DBREF 8ZIA I 50 402 UNP P0DPA6 PSID_PSICU 50 402 DBREF 8ZIA J 501 537 UNP P0DPA6 PSID_PSICU 403 439 DBREF 8ZIA A 50 402 UNP P0DPA6 PSID_PSICU 50 402 DBREF 8ZIA B 501 537 UNP P0DPA6 PSID_PSICU 403 439 SEQADV 8ZIA PYR J 501 UNP P0DPA6 SER 403 MODIFIED RESIDUE SEQADV 8ZIA PYR B 501 UNP P0DPA6 SER 403 MODIFIED RESIDUE SEQRES 1 I 353 ASN TYR SER ASN GLU PHE GLY LEU MET GLN PRO ILE GLN SEQRES 2 I 353 GLU PHE LYS ALA PHE ILE GLU SER ASP PRO VAL VAL HIS SEQRES 3 I 353 GLN GLU PHE ILE ASP MET PHE GLU GLY ILE GLN ASP SER SEQRES 4 I 353 PRO ARG ASN TYR GLN GLU LEU CYS ASN MET PHE ASN ASP SEQRES 5 I 353 ILE PHE ARG LYS ALA PRO VAL TYR GLY ASP LEU GLY PRO SEQRES 6 I 353 PRO VAL TYR MET ILE MET ALA LYS LEU MET ASN THR ARG SEQRES 7 I 353 ALA GLY PHE SER ALA PHE THR ARG GLN ARG LEU ASN LEU SEQRES 8 I 353 HIS PHE LYS LYS LEU PHE ASP THR TRP GLY LEU PHE LEU SEQRES 9 I 353 SER SER LYS ASP SER ARG ASN VAL LEU VAL ALA ASP GLN SEQRES 10 I 353 PHE ASP ASP ARG HIS CYS GLY TRP LEU ASN GLU ARG ALA SEQRES 11 I 353 LEU SER ALA MET VAL LYS HIS TYR ASN GLY ARG ALA PHE SEQRES 12 I 353 ASP GLU VAL PHE LEU CYS ASP LYS ASN ALA PRO TYR TYR SEQRES 13 I 353 GLY PHE ASN SER TYR ASP ASP PHE PHE ASN ARG ARG PHE SEQRES 14 I 353 ARG ASN ARG ASP ILE ASP ARG PRO VAL VAL GLY GLY VAL SEQRES 15 I 353 ASN ASN THR THR LEU ILE SER ALA ALA CYS GLU SER LEU SEQRES 16 I 353 SER TYR ASN VAL SER TYR ASP VAL GLN SER LEU ASP THR SEQRES 17 I 353 LEU VAL PHE LYS GLY GLU THR TYR SER LEU LYS HIS LEU SEQRES 18 I 353 LEU ASN ASN ASP PRO PHE THR PRO GLN PHE GLU HIS GLY SEQRES 19 I 353 SER ILE LEU GLN GLY PHE LEU ASN VAL THR ALA TYR HIS SEQRES 20 I 353 ARG TRP HIS ALA PRO VAL ASN GLY THR ILE VAL LYS ILE SEQRES 21 I 353 ILE ASN VAL PRO GLY THR TYR PHE ALA GLN ALA PRO SER SEQRES 22 I 353 THR ILE GLY ASP PRO ILE PRO ASP ASN ASP TYR ASP PRO SEQRES 23 I 353 PRO PRO TYR LEU LYS SER LEU VAL TYR PHE SER ASN ILE SEQRES 24 I 353 ALA ALA ARG GLN ILE MET PHE ILE GLU ALA ASP ASN LYS SEQRES 25 I 353 GLU ILE GLY LEU ILE PHE LEU VAL PHE ILE GLY MET THR SEQRES 26 I 353 GLU ILE SER THR CYS GLU ALA THR VAL SER GLU GLY GLN SEQRES 27 I 353 HIS VAL ASN ARG GLY ASP ASP LEU GLY MET PHE HIS PHE SEQRES 28 I 353 GLY GLY SEQRES 1 J 37 PYR SER PHE ALA LEU GLY LEU ARG LYS ASP CYS ARG ALA SEQRES 2 J 37 GLU ILE VAL GLU LYS PHE THR GLU PRO GLY THR VAL ILE SEQRES 3 J 37 ARG ILE ASN GLU VAL VAL ALA ALA LEU LYS ALA SEQRES 1 A 353 ASN TYR SER ASN GLU PHE GLY LEU MET GLN PRO ILE GLN SEQRES 2 A 353 GLU PHE LYS ALA PHE ILE GLU SER ASP PRO VAL VAL HIS SEQRES 3 A 353 GLN GLU PHE ILE ASP MET PHE GLU GLY ILE GLN ASP SER SEQRES 4 A 353 PRO ARG ASN TYR GLN GLU LEU CYS ASN MET PHE ASN ASP SEQRES 5 A 353 ILE PHE ARG LYS ALA PRO VAL TYR GLY ASP LEU GLY PRO SEQRES 6 A 353 PRO VAL TYR MET ILE MET ALA LYS LEU MET ASN THR ARG SEQRES 7 A 353 ALA GLY PHE SER ALA PHE THR ARG GLN ARG LEU ASN LEU SEQRES 8 A 353 HIS PHE LYS LYS LEU PHE ASP THR TRP GLY LEU PHE LEU SEQRES 9 A 353 SER SER LYS ASP SER ARG ASN VAL LEU VAL ALA ASP GLN SEQRES 10 A 353 PHE ASP ASP ARG HIS CYS GLY TRP LEU ASN GLU ARG ALA SEQRES 11 A 353 LEU SER ALA MET VAL LYS HIS TYR ASN GLY ARG ALA PHE SEQRES 12 A 353 ASP GLU VAL PHE LEU CYS ASP LYS ASN ALA PRO TYR TYR SEQRES 13 A 353 GLY PHE ASN SER TYR ASP ASP PHE PHE ASN ARG ARG PHE SEQRES 14 A 353 ARG ASN ARG ASP ILE ASP ARG PRO VAL VAL GLY GLY VAL SEQRES 15 A 353 ASN ASN THR THR LEU ILE SER ALA ALA CYS GLU SER LEU SEQRES 16 A 353 SER TYR ASN VAL SER TYR ASP VAL GLN SER LEU ASP THR SEQRES 17 A 353 LEU VAL PHE LYS GLY GLU THR TYR SER LEU LYS HIS LEU SEQRES 18 A 353 LEU ASN ASN ASP PRO PHE THR PRO GLN PHE GLU HIS GLY SEQRES 19 A 353 SER ILE LEU GLN GLY PHE LEU ASN VAL THR ALA TYR HIS SEQRES 20 A 353 ARG TRP HIS ALA PRO VAL ASN GLY THR ILE VAL LYS ILE SEQRES 21 A 353 ILE ASN VAL PRO GLY THR TYR PHE ALA GLN ALA PRO SER SEQRES 22 A 353 THR ILE GLY ASP PRO ILE PRO ASP ASN ASP TYR ASP PRO SEQRES 23 A 353 PRO PRO TYR LEU LYS SER LEU VAL TYR PHE SER ASN ILE SEQRES 24 A 353 ALA ALA ARG GLN ILE MET PHE ILE GLU ALA ASP ASN LYS SEQRES 25 A 353 GLU ILE GLY LEU ILE PHE LEU VAL PHE ILE GLY MET THR SEQRES 26 A 353 GLU ILE SER THR CYS GLU ALA THR VAL SER GLU GLY GLN SEQRES 27 A 353 HIS VAL ASN ARG GLY ASP ASP LEU GLY MET PHE HIS PHE SEQRES 28 A 353 GLY GLY SEQRES 1 B 37 PYR SER PHE ALA LEU GLY LEU ARG LYS ASP CYS ARG ALA SEQRES 2 B 37 GLU ILE VAL GLU LYS PHE THR GLU PRO GLY THR VAL ILE SEQRES 3 B 37 ARG ILE ASN GLU VAL VAL ALA ALA LEU LYS ALA HET PYR J 501 5 HET PYR B 501 5 HET TSS I 501 24 HET TSS A 501 24 HETNAM PYR PYRUVIC ACID HETNAM TSS 2-(1H-INDOL-3-YL)ETHANAMINE HETSYN TSS TRYPTAMINE FORMUL 2 PYR 2(C3 H4 O3) FORMUL 5 TSS 2(C10 H12 N2) FORMUL 7 HOH *923(H2 O) HELIX 1 AA1 MET I 58 ASP I 71 1 14 HELIX 2 AA2 ASP I 71 MET I 81 1 11 HELIX 3 AA3 ASN I 91 PHE I 103 1 13 HELIX 4 AA4 PRO I 114 ASN I 125 1 12 HELIX 5 AA5 THR I 126 PHE I 133 1 8 HELIX 6 AA6 ARG I 135 SER I 154 1 20 HELIX 7 AA7 SER I 155 LEU I 162 5 8 HELIX 8 AA8 ASN I 176 VAL I 184 1 9 HELIX 9 AA9 ALA I 191 PHE I 196 1 6 HELIX 10 AB1 ALA I 202 PHE I 207 5 6 HELIX 11 AB2 SER I 209 ASN I 215 1 7 HELIX 12 AB3 ASN I 220 ARG I 225 1 6 HELIX 13 AB4 PHE I 260 THR I 264 5 5 HELIX 14 AB5 SER I 266 LEU I 271 1 6 HELIX 15 AB6 PHE I 276 GLU I 281 5 6 HELIX 16 AB7 ALA I 320 ILE I 324 5 5 HELIX 17 AB8 PRO I 336 LYS I 340 5 5 HELIX 18 AB9 SER I 341 ASN I 347 1 7 HELIX 19 AC1 GLU J 517 GLU J 521 5 5 HELIX 20 AC2 MET A 58 GLU A 69 1 12 HELIX 21 AC3 ASP A 71 MET A 81 1 11 HELIX 22 AC4 ASN A 91 PHE A 103 1 13 HELIX 23 AC5 PRO A 114 ASN A 125 1 12 HELIX 24 AC6 THR A 126 PHE A 133 1 8 HELIX 25 AC7 ARG A 135 SER A 154 1 20 HELIX 26 AC8 SER A 155 LEU A 162 5 8 HELIX 27 AC9 ASN A 176 VAL A 184 1 9 HELIX 28 AD1 ALA A 191 PHE A 196 1 6 HELIX 29 AD2 ALA A 202 PHE A 207 5 6 HELIX 30 AD3 SER A 209 ASN A 215 1 7 HELIX 31 AD4 ASN A 220 ARG A 225 1 6 HELIX 32 AD5 SER A 266 LEU A 271 1 6 HELIX 33 AD6 PHE A 276 GLU A 281 1 6 HELIX 34 AD7 ALA A 320 ILE A 324 5 5 HELIX 35 AD8 PRO A 336 LYS A 340 5 5 HELIX 36 AD9 SER A 341 ASN A 347 1 7 HELIX 37 AE1 GLU B 517 GLU B 521 5 5 SHEET 1 AA1 3 LEU I 236 SER I 238 0 SHEET 2 AA1 3 VAL J 531 ALA J 534 -1 O VAL J 532 N ILE I 237 SHEET 3 AA1 3 GLU J 514 ILE J 515 -1 N GLU J 514 O ALA J 534 SHEET 1 AA2 8 HIS I 388 VAL I 389 0 SHEET 2 AA2 8 GLY I 304 VAL I 312 -1 N GLY I 304 O VAL I 389 SHEET 3 AA2 8 ARG I 351 ALA I 358 -1 O ARG I 351 N VAL I 312 SHEET 4 AA2 8 LEU I 365 ILE I 371 -1 O LEU I 368 N MET I 354 SHEET 5 AA2 8 SER J 502 LEU J 507 -1 O GLY J 506 N PHE I 367 SHEET 6 AA2 8 SER I 284 PHE I 289 -1 N LEU I 286 O LEU J 505 SHEET 7 AA2 8 SER I 243 SER I 249 -1 N TYR I 246 O GLN I 287 SHEET 8 AA2 8 VAL J 525 ILE J 526 -1 O ILE J 526 N SER I 243 SHEET 1 AA3 3 ARG I 297 HIS I 299 0 SHEET 2 AA3 3 ASP I 394 HIS I 399 -1 O GLY I 396 N TRP I 298 SHEET 3 AA3 3 THR I 378 ALA I 381 -1 N GLU I 380 O MET I 397 SHEET 1 AA4 3 LEU A 236 SER A 238 0 SHEET 2 AA4 3 VAL B 531 ALA B 534 -1 O VAL B 532 N ILE A 237 SHEET 3 AA4 3 GLU B 514 ILE B 515 -1 N GLU B 514 O ALA B 534 SHEET 1 AA5 8 HIS A 388 VAL A 389 0 SHEET 2 AA5 8 GLY A 304 VAL A 312 -1 N GLY A 304 O VAL A 389 SHEET 3 AA5 8 ARG A 351 ALA A 358 -1 O PHE A 355 N VAL A 307 SHEET 4 AA5 8 LEU A 365 ILE A 371 -1 O LEU A 368 N MET A 354 SHEET 5 AA5 8 SER B 502 LEU B 507 -1 O SER B 502 N ILE A 371 SHEET 6 AA5 8 SER A 284 PHE A 289 -1 N LEU A 286 O LEU B 505 SHEET 7 AA5 8 SER A 243 SER A 249 -1 N TYR A 246 O GLN A 287 SHEET 8 AA5 8 VAL B 525 ILE B 526 -1 O ILE B 526 N SER A 243 SHEET 1 AA6 3 ARG A 297 HIS A 299 0 SHEET 2 AA6 3 ASP A 394 HIS A 399 -1 O GLY A 396 N TRP A 298 SHEET 3 AA6 3 THR A 378 ALA A 381 -1 N GLU A 380 O MET A 397 LINK C PYR J 501 N SER J 502 1555 1555 1.42 LINK C PYR B 501 N SER B 502 1555 1555 1.43 CISPEP 1 SER I 88 PRO I 89 0 1.76 CISPEP 2 SER A 88 PRO A 89 0 -0.11 CRYST1 77.277 59.265 104.138 90.00 93.46 90.00 P 1 21 1 4 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 0.012940 0.000000 0.000783 0.00000 SCALE2 0.000000 0.016873 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009620 0.00000