HEADER OXIDOREDUCTASE 19-OCT-12 2YNX TITLE CRYSTAL STRUCTURE OF ANCESTRAL THIOREDOXIN RELATIVE TO LAST ARCHAEA TITLE 2 COMMON ANCESTOR (LACA) FROM THE PRECAMBRIAN PERIOD COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACA THIOREDOXIN; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.8.1.9; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: OXIDOREDUCTASE, ANCESTRAL RECONSTRUCTED SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET30A PLUS KEYWDS OXIDOREDUCTASE, ANCESTRAL RECONSTRUCTED EXPDTA X-RAY DIFFRACTION AUTHOR J.A.GAVIRA,A.INGLES-PRIETO,B.IBARRA-MOLERO,J.M.SANCHEZ-RUIZ REVDAT 4 20-DEC-23 2YNX 1 REMARK LINK REVDAT 3 06-MAR-19 2YNX 1 REMARK REVDAT 2 25-SEP-13 2YNX 1 JRNL REVDAT 1 21-AUG-13 2YNX 0 JRNL AUTH A.INGLES-PRIETO,B.IBARRA-MOLERO,A.DELGADO-DELGADO, JRNL AUTH 2 R.PEREZ-JIMENEZ,J.M.FERNANDEZ,E.A.GAUCHER,J.M.SANCHEZ-RUIZ, JRNL AUTH 3 J.A.GAVIRA JRNL TITL CONSERVATION OF PROTEIN STRUCTURE OVER FOUR BILLION YEARS JRNL REF STRUCTURE V. 21 1690 2013 JRNL REFN ISSN 0969-2126 JRNL PMID 23932589 JRNL DOI 10.1016/J.STR.2013.06.020 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 45.32 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 18885 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 969 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 45.3374 - 3.3449 1.00 2619 134 0.1648 0.1994 REMARK 3 2 3.3449 - 2.6550 1.00 2603 146 0.1483 0.2130 REMARK 3 3 2.6550 - 2.3194 0.99 2626 120 0.1467 0.1969 REMARK 3 4 2.3194 - 2.1074 0.99 2595 141 0.1433 0.2330 REMARK 3 5 2.1074 - 1.9563 0.99 2559 159 0.1552 0.2106 REMARK 3 6 1.9563 - 1.8410 0.98 2604 127 0.1744 0.2316 REMARK 3 7 1.8410 - 1.7488 0.88 2310 142 0.2463 0.3208 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 : 0.86 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 60.65 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.050 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.89 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.49540 REMARK 3 B22 (A**2) : 2.08300 REMARK 3 B33 (A**2) : -0.58770 REMARK 3 B12 (A**2) : 0.41760 REMARK 3 B13 (A**2) : -3.18700 REMARK 3 B23 (A**2) : -1.22780 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 : 0.013 1874 REMARK 3 ANGLE : 1.387 2553 REMARK 3 CHIRALITY : 0.088 282 REMARK 3 PLANARITY : 0.008 333 REMARK 3 DIHEDRAL : 12.967 750 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 1:9) REMARK 3 ORIGIN FOR THE GROUP (A): -7.7791 5.0878 -0.2102 REMARK 3 T TENSOR REMARK 3 T11: 0.2771 T22: 0.1143 REMARK 3 T33: 0.1168 T12: 0.0609 REMARK 3 T13: -0.0269 T23: -0.0559 REMARK 3 L TENSOR REMARK 3 L11: 4.6631 L22: 4.7115 REMARK 3 L33: 3.9133 L12: 4.3462 REMARK 3 L13: 0.1756 L23: 0.9011 REMARK 3 S TENSOR REMARK 3 S11: 0.1059 S12: -0.1511 S13: 0.2151 REMARK 3 S21: 0.3465 S22: -0.2079 S23: 0.2695 REMARK 3 S31: -0.0506 S32: -0.0819 S33: 0.0505 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 10:30) REMARK 3 ORIGIN FOR THE GROUP (A): -2.3402 0.8802 -3.4017 REMARK 3 T TENSOR REMARK 3 T11: 0.1645 T22: 0.0824 REMARK 3 T33: 0.0875 T12: 0.0273 REMARK 3 T13: -0.0356 T23: -0.0261 REMARK 3 L TENSOR REMARK 3 L11: 1.4729 L22: 1.1646 REMARK 3 L33: 3.3849 L12: 0.0684 REMARK 3 L13: 1.5338 L23: -0.2770 REMARK 3 S TENSOR REMARK 3 S11: 0.0186 S12: -0.1700 S13: -0.0010 REMARK 3 S21: 0.3661 S22: 0.1111 S23: -0.1521 REMARK 3 S31: -0.0174 S32: -0.0560 S33: -0.0089 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 31:46) REMARK 3 ORIGIN FOR THE GROUP (A): -11.0155 -9.1171 -8.9943 REMARK 3 T TENSOR REMARK 3 T11: 0.1004 T22: 0.1230 REMARK 3 T33: 0.1030 T12: -0.0130 REMARK 3 T13: 0.0391 T23: -0.0020 REMARK 3 L TENSOR REMARK 3 L11: 2.9092 L22: 4.7334 REMARK 3 L33: 4.3667 L12: -2.0716 REMARK 3 L13: 2.9769 L23: -4.1695 REMARK 3 S TENSOR REMARK 3 S11: -0.0195 S12: -0.1778 S13: -0.1080 REMARK 3 S21: 0.1709 S22: 0.1569 S23: 0.2272 REMARK 3 S31: -0.0328 S32: -0.3046 S33: -0.1160 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 47:67) REMARK 3 ORIGIN FOR THE GROUP (A): -5.1135 2.1219 -5.9134 REMARK 3 T TENSOR REMARK 3 T11: 0.1274 T22: 0.0835 REMARK 3 T33: 0.0818 T12: 0.0015 REMARK 3 T13: 0.0170 T23: -0.0391 REMARK 3 L TENSOR REMARK 3 L11: 1.1777 L22: 4.8796 REMARK 3 L33: 2.7524 L12: -1.0367 REMARK 3 L13: 0.5400 L23: -2.8138 REMARK 3 S TENSOR REMARK 3 S11: -0.0544 S12: -0.1417 S13: 0.1388 REMARK 3 S21: 0.1375 S22: 0.0724 S23: 0.0807 REMARK 3 S31: -0.1180 S32: -0.0785 S33: -0.0055 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 68:93) REMARK 3 ORIGIN FOR THE GROUP (A): 1.2699 -1.5094 -11.9983 REMARK 3 T TENSOR REMARK 3 T11: 0.0683 T22: 0.0886 REMARK 3 T33: 0.1059 T12: -0.0057 REMARK 3 T13: 0.0074 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 1.7503 L22: 3.2837 REMARK 3 L33: 1.8037 L12: -0.2327 REMARK 3 L13: -0.0252 L23: -0.8307 REMARK 3 S TENSOR REMARK 3 S11: -0.0016 S12: -0.1500 S13: 0.0852 REMARK 3 S21: 0.0939 S22: -0.0727 S23: -0.2871 REMARK 3 S31: -0.0014 S32: 0.1721 S33: 0.1111 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN A AND (RESSEQ 94:105) REMARK 3 ORIGIN FOR THE GROUP (A): 2.6114 -13.1355 -8.2554 REMARK 3 T TENSOR REMARK 3 T11: 0.1476 T22: 0.1177 REMARK 3 T33: 0.0923 T12: 0.0190 REMARK 3 T13: 0.0278 T23: 0.0370 REMARK 3 L TENSOR REMARK 3 L11: 4.2755 L22: 4.2879 REMARK 3 L33: 4.1359 L12: 0.1017 REMARK 3 L13: 1.7930 L23: -0.2177 REMARK 3 S TENSOR REMARK 3 S11: 0.0175 S12: -0.1914 S13: -0.2066 REMARK 3 S21: 0.1348 S22: -0.1020 S23: -0.3849 REMARK 3 S31: 0.3709 S32: 0.1285 S33: 0.0713 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 1:14) REMARK 3 ORIGIN FOR THE GROUP (A): 6.1441 -6.8632 -35.7565 REMARK 3 T TENSOR REMARK 3 T11: 0.1637 T22: 0.1612 REMARK 3 T33: 0.0639 T12: -0.0212 REMARK 3 T13: 0.0495 T23: 0.0266 REMARK 3 L TENSOR REMARK 3 L11: 4.9448 L22: 5.5204 REMARK 3 L33: 4.4180 L12: -0.2722 REMARK 3 L13: 0.1395 L23: -0.2755 REMARK 3 S TENSOR REMARK 3 S11: 0.0290 S12: 0.3166 S13: 0.3476 REMARK 3 S21: -0.3123 S22: 0.0261 S23: -0.0748 REMARK 3 S31: -0.2321 S32: -0.0238 S33: -0.0545 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 15:19) REMARK 3 ORIGIN FOR THE GROUP (A): -6.0290 -9.7775 -35.8303 REMARK 3 T TENSOR REMARK 3 T11: 0.1967 T22: 0.4291 REMARK 3 T33: 0.1117 T12: 0.0412 REMARK 3 T13: 0.0089 T23: 0.0245 REMARK 3 L TENSOR REMARK 3 L11: 0.2637 L22: 5.9818 REMARK 3 L33: 4.1644 L12: 0.7109 REMARK 3 L13: 0.8767 L23: 0.1089 REMARK 3 S TENSOR REMARK 3 S11: -0.0618 S12: 0.2482 S13: 0.0409 REMARK 3 S21: -0.6965 S22: 0.0990 S23: 0.1068 REMARK 3 S31: 0.0466 S32: -0.3472 S33: -0.0081 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 20:82) REMARK 3 ORIGIN FOR THE GROUP (A): 8.4834 -13.7418 -27.1755 REMARK 3 T TENSOR REMARK 3 T11: 0.0283 T22: 0.0851 REMARK 3 T33: 0.0786 T12: -0.0084 REMARK 3 T13: 0.0218 T23: -0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.8863 L22: 1.0208 REMARK 3 L33: 1.2558 L12: 0.2365 REMARK 3 L13: 0.4470 L23: 0.1413 REMARK 3 S TENSOR REMARK 3 S11: 0.0917 S12: -0.1491 S13: -0.1118 REMARK 3 S21: -0.0501 S22: 0.0314 S23: -0.0438 REMARK 3 S31: -0.0393 S32: 0.0321 S33: -0.0778 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN B AND (RESSEQ 83:105) REMARK 3 ORIGIN FOR THE GROUP (A): 0.2005 -19.9112 -22.4597 REMARK 3 T TENSOR REMARK 3 T11: 0.0393 T22: 0.0528 REMARK 3 T33: 0.0833 T12: -0.0155 REMARK 3 T13: -0.0009 T23: 0.0310 REMARK 3 L TENSOR REMARK 3 L11: 1.0893 L22: 2.3622 REMARK 3 L33: 0.9453 L12: -0.6370 REMARK 3 L13: 0.3041 L23: 0.1252 REMARK 3 S TENSOR REMARK 3 S11: 0.0722 S12: -0.0479 S13: -0.1801 REMARK 3 S21: 0.0123 S22: 0.0786 S23: -0.0083 REMARK 3 S31: 0.1636 S32: -0.0393 S33: -0.0152 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 2YNX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-OCT-12. REMARK 100 THE DEPOSITION ID IS D_1290054507. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.873 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18887 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 45.320 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 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) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2TRX REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: COUNTER-DIFFUSION: TRIS-HCL 0.1M, 20% REMARK 280 PEG 400, 15% PEG 4000, 10% PEG 8000; PH 9.0, 277 K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 MET A 0 REMARK 465 MET B 0 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 ASN B 17 CG OD1 ND2 REMARK 470 LYS B 103 CE NZ 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 2076 O HOH A 2077 1.94 REMARK 500 OD2 ASP B 7 O HOH B 2011 1.96 REMARK 500 OE1 GLU B 12 O HOH B 2016 2.03 REMARK 500 O HOH A 2006 O HOH A 2010 2.06 REMARK 500 O HOH B 2066 O HOH B 2068 2.08 REMARK 500 OE1 GLU B 12 O HOH B 2015 2.15 REMARK 500 O HOH B 2067 O HOH B 2069 2.17 REMARK 500 O HOH A 2050 O HOH A 2051 2.17 REMARK 500 O HOH A 2048 O HOH A 2050 2.18 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 17 -77.71 -41.12 REMARK 500 ASN A 18 61.57 -104.31 REMARK 500 LYS B 15 83.45 -66.12 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 B2020 DISTANCE = 6.39 ANGSTROMS 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 NA B1107 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 41 O REMARK 620 2 GLU B 41 OE1 96.3 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 1106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1107 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YN1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ANCESTRAL THIOREDOXIN RELATIVE TO LAST GAMMA- REMARK 900 PROTEOBACTERIA COMMON ANCESTOR (LGPCA) FROM THE PRECAMBRIAN PERIOD REMARK 900 RELATED ID: 2YJ7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A HYPERSTABLE PROTEIN FROM THE PRECAMBRIAN REMARK 900 PERIOD REMARK 900 RELATED ID: 2YNX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ANCESTRAL THIOREDOXIN RELATIVE TO LAST ARCHAEA REMARK 900 COMMON ANCESTOR (LACA) FROM THE PRECAMBRIAN PERIOD REMARK 900 RELATED ID: 2YOI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ANCESTRAL THIOREDOXIN RELATIVE TO LAST REMARK 900 EUKARYOTES COMMON ANCESTOR (LECA) FROM THE PRECAMBRIAN PERIOD REMARK 900 RELATED ID: 2YPM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ANCESTRAL THIOREDOXIN RELATIVE TO LAST ANIMAL REMARK 900 AND FUNGI COMMON ANCESTOR (LAFCA) FROM THE PRECAMBRIAN PERIOD REMARK 900 RELATED ID: 4BA7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ANCESTRAL THIOREDOXIN RELATIVE TO LAST REMARK 900 BACTERIA COMMON ANCESTOR (LBCA) FROM THE PRECAMBRIAN PERIOD DBREF 2YNX A 0 105 PDB 2YNX 2YNX 0 105 DBREF 2YNX B 0 105 PDB 2YNX 2YNX 0 105 SEQRES 1 A 106 MET SER VAL VAL GLN LEU ASN ASP GLU ASN PHE ASP GLU SEQRES 2 A 106 VAL ILE LYS LYS ASN ASN LYS VAL VAL VAL VAL ASP PHE SEQRES 3 A 106 TRP ALA GLU TRP CYS GLY PRO CYS ARG MET ILE ALA PRO SEQRES 4 A 106 ILE ILE GLU GLU LEU ALA LYS GLU TYR ALA GLY LYS VAL SEQRES 5 A 106 VAL PHE GLY LYS LEU ASN VAL ASP GLU ASN PRO GLU ILE SEQRES 6 A 106 ALA ALA LYS TYR GLY ILE MET SER ILE PRO THR LEU LEU SEQRES 7 A 106 PHE PHE LYS ASN GLY LYS VAL VAL ASP GLN LEU VAL GLY SEQRES 8 A 106 ALA MET PRO LYS GLU ALA LEU LYS GLU ARG ILE LYS LYS SEQRES 9 A 106 TYR LEU SEQRES 1 B 106 MET SER VAL VAL GLN LEU ASN ASP GLU ASN PHE ASP GLU SEQRES 2 B 106 VAL ILE LYS LYS ASN ASN LYS VAL VAL VAL VAL ASP PHE SEQRES 3 B 106 TRP ALA GLU TRP CYS GLY PRO CYS ARG MET ILE ALA PRO SEQRES 4 B 106 ILE ILE GLU GLU LEU ALA LYS GLU TYR ALA GLY LYS VAL SEQRES 5 B 106 VAL PHE GLY LYS LEU ASN VAL ASP GLU ASN PRO GLU ILE SEQRES 6 B 106 ALA ALA LYS TYR GLY ILE MET SER ILE PRO THR LEU LEU SEQRES 7 B 106 PHE PHE LYS ASN GLY LYS VAL VAL ASP GLN LEU VAL GLY SEQRES 8 B 106 ALA MET PRO LYS GLU ALA LEU LYS GLU ARG ILE LYS LYS SEQRES 9 B 106 TYR LEU HET ACT B1106 7 HET NA B1107 1 HETNAM ACT ACETATE ION HETNAM NA SODIUM ION FORMUL 3 ACT C2 H3 O2 1- FORMUL 4 NA NA 1+ FORMUL 5 HOH *184(H2 O) HELIX 1 1 ASN A 9 LYS A 15 1 7 HELIX 2 2 CYS A 30 TYR A 47 1 18 HELIX 3 3 ASN A 61 TYR A 68 1 8 HELIX 4 4 PRO A 93 LEU A 105 1 13 HELIX 5 5 ASN B 9 LYS B 15 1 7 HELIX 6 6 CYS B 30 TYR B 47 1 18 HELIX 7 7 ASN B 61 TYR B 68 1 8 HELIX 8 8 PRO B 93 LYS B 103 1 11 SHEET 1 AA 5 VAL A 3 LEU A 5 0 SHEET 2 AA 5 VAL A 51 ASN A 57 1 O PHE A 53 N VAL A 3 SHEET 3 AA 5 VAL A 20 TRP A 26 1 O VAL A 20 N VAL A 52 SHEET 4 AA 5 THR A 75 LYS A 80 -1 O THR A 75 N PHE A 25 SHEET 5 AA 5 LYS A 83 VAL A 89 -1 O LYS A 83 N LYS A 80 SHEET 1 BA 5 VAL B 3 LEU B 5 0 SHEET 2 BA 5 VAL B 51 ASN B 57 1 O PHE B 53 N VAL B 3 SHEET 3 BA 5 VAL B 20 TRP B 26 1 O VAL B 20 N VAL B 52 SHEET 4 BA 5 THR B 75 LYS B 80 -1 O THR B 75 N PHE B 25 SHEET 5 BA 5 LYS B 83 VAL B 89 -1 O LYS B 83 N LYS B 80 SSBOND 1 CYS A 30 CYS A 33 1555 1555 2.21 SSBOND 2 CYS B 30 CYS B 33 1555 1555 2.15 LINK O GLU B 41 NA NA B1107 1555 1555 2.90 LINK OE1AGLU B 41 NA NA B1107 1555 1555 3.05 CISPEP 1 ILE A 73 PRO A 74 0 0.95 CISPEP 2 ILE B 73 PRO B 74 0 3.88 SITE 1 AC1 5 PRO A 32 GLY A 90 ALA A 91 VAL B 84 SITE 2 AC1 5 HOH B2085 SITE 1 AC2 3 SER B 1 GLU B 41 LYS B 45 CRYST1 32.153 36.294 48.118 90.76 107.97 111.01 P 1 2 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 0.031101 0.011945 0.011870 0.00000 SCALE2 0.000000 0.029515 0.004158 0.00000 SCALE3 0.000000 0.000000 0.022064 0.00000