HEADER LYASE 24-SEP-14 4V15 TITLE CRYSTAL STRUCTURE OF D-THREONINE ALDOLASE FROM ALCALIGENES TITLE 2 XYLOSOXIDANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-THREONINE ALDOLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.2.42; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACHROMOBACTER XYLOSOXIDANS; SOURCE 3 ORGANISM_TAXID: 85698; SOURCE 4 STRAIN: IFO 12669; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: AI; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PBBVR; SOURCE 11 OTHER_DETAILS: GERMAN COLLECTION OF MICROORGANISMS AND CELL CULTURES SOURCE 12 (DSMZ) KEYWDS LYASE, DEGRADATION, VITAMIN B6- ENZYME FOLD-TYPE III, ALANINE KEYWDS 2 RACEMASE- LIKE DOMAIN EXPDTA X-RAY DIFFRACTION AUTHOR M.K.UHL,G.OBERDORFER,G.STEINKELLNER,L.RIEGLER,M.SCHUERMANN,K.GRUBER REVDAT 3 10-JAN-24 4V15 1 REMARK LINK REVDAT 2 29-APR-15 4V15 1 JRNL REVDAT 1 25-MAR-15 4V15 0 JRNL AUTH M.K.UHL,G.OBERDORFER,G.STEINKELLNER,L.RIEGLER-BERKET,D.MINK, JRNL AUTH 2 F.VAN ASSEMA,M.SCHURMANN,K.GRUBER JRNL TITL THE CRYSTAL STRUCTURE OF D-THREONINE ALDOLASE FROM JRNL TITL 2 ALCALIGENES XYLOSOXIDANS PROVIDES INSIGHT INTO A METAL ION JRNL TITL 3 ASSISTED PLP-DEPENDENT MECHANISM. JRNL REF PLOS ONE V. 10 24056 2015 JRNL REFN ESSN 1932-6203 JRNL PMID 25884707 JRNL DOI 10.1371/JOURNAL.PONE.0124056 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.76 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.440 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 111114 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5551 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 35.7693 - 4.6576 0.92 3367 168 0.1451 0.1658 REMARK 3 2 4.6576 - 3.6981 0.98 3480 199 0.1197 0.1407 REMARK 3 3 3.6981 - 3.2310 1.00 3543 185 0.1273 0.1512 REMARK 3 4 3.2310 - 2.9357 1.00 3543 175 0.1374 0.1740 REMARK 3 5 2.9357 - 2.7254 1.00 3539 193 0.1436 0.1788 REMARK 3 6 2.7254 - 2.5647 1.00 3517 223 0.1529 0.1694 REMARK 3 7 2.5647 - 2.4363 1.00 3539 187 0.1440 0.1698 REMARK 3 8 2.4363 - 2.3303 1.00 3520 193 0.1415 0.1724 REMARK 3 9 2.3303 - 2.2406 0.99 3489 193 0.1517 0.1566 REMARK 3 10 2.2406 - 2.1633 1.00 3545 191 0.1431 0.1886 REMARK 3 11 2.1633 - 2.0956 1.00 3518 180 0.1531 0.1927 REMARK 3 12 2.0956 - 2.0357 1.00 3521 219 0.1523 0.1841 REMARK 3 13 2.0357 - 1.9822 1.00 3528 179 0.1548 0.1883 REMARK 3 14 1.9822 - 1.9338 1.00 3497 201 0.1640 0.1991 REMARK 3 15 1.9338 - 1.8898 1.00 3503 182 0.1724 0.2137 REMARK 3 16 1.8898 - 1.8496 1.00 3568 168 0.1528 0.1779 REMARK 3 17 1.8496 - 1.8126 1.00 3522 177 0.1497 0.1795 REMARK 3 18 1.8126 - 1.7784 1.00 3499 177 0.1503 0.1718 REMARK 3 19 1.7784 - 1.7467 1.00 3545 193 0.1556 0.1942 REMARK 3 20 1.7467 - 1.7171 1.00 3499 185 0.1628 0.2009 REMARK 3 21 1.7171 - 1.6894 1.00 3489 187 0.1617 0.1994 REMARK 3 22 1.6894 - 1.6634 1.00 3571 186 0.1618 0.1950 REMARK 3 23 1.6634 - 1.6389 1.00 3529 181 0.1654 0.1974 REMARK 3 24 1.6389 - 1.6158 1.00 3529 166 0.1663 0.1972 REMARK 3 25 1.6158 - 1.5940 1.00 3505 168 0.1730 0.2016 REMARK 3 26 1.5940 - 1.5733 1.00 3605 172 0.1775 0.2141 REMARK 3 27 1.5733 - 1.5536 1.00 3465 160 0.1778 0.2268 REMARK 3 28 1.5536 - 1.5349 1.00 3530 188 0.1925 0.2022 REMARK 3 29 1.5349 - 1.5171 1.00 3488 182 0.2023 0.2403 REMARK 3 30 1.5171 - 1.5000 1.00 3570 193 0.2059 0.2338 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) : 0.140 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.65 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.50 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 : 0.019 6010 REMARK 3 ANGLE : 1.356 8234 REMARK 3 CHIRALITY : 0.057 937 REMARK 3 PLANARITY : 0.007 1103 REMARK 3 DIHEDRAL : 14.626 2236 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 7:263) REMARK 3 ORIGIN FOR THE GROUP (A): 38.7950 41.4576 15.3514 REMARK 3 T TENSOR REMARK 3 T11: 0.0981 T22: 0.0525 REMARK 3 T33: 0.1068 T12: -0.0088 REMARK 3 T13: 0.0040 T23: 0.0052 REMARK 3 L TENSOR REMARK 3 L11: 0.7084 L22: 0.1625 REMARK 3 L33: 1.2122 L12: 0.1056 REMARK 3 L13: 0.3800 L23: 0.2296 REMARK 3 S TENSOR REMARK 3 S11: -0.0048 S12: 0.0436 S13: -0.0005 REMARK 3 S21: 0.0018 S22: -0.0012 S23: -0.0134 REMARK 3 S31: -0.0422 S32: 0.0806 S33: 0.0100 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 264:379) REMARK 3 ORIGIN FOR THE GROUP (A): 50.2394 36.5863 38.2708 REMARK 3 T TENSOR REMARK 3 T11: 0.0895 T22: 0.1056 REMARK 3 T33: 0.1148 T12: 0.0123 REMARK 3 T13: 0.0016 T23: -0.0101 REMARK 3 L TENSOR REMARK 3 L11: 0.9387 L22: 0.6031 REMARK 3 L33: 2.0697 L12: 0.0084 REMARK 3 L13: 0.2830 L23: -0.3882 REMARK 3 S TENSOR REMARK 3 S11: 0.0103 S12: 0.0063 S13: -0.0647 REMARK 3 S21: -0.0564 S22: -0.0240 S23: -0.0846 REMARK 3 S31: 0.1440 S32: 0.2751 S33: 0.0108 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN B AND RESID 8:268) REMARK 3 ORIGIN FOR THE GROUP (A): 33.5917 30.4047 56.5838 REMARK 3 T TENSOR REMARK 3 T11: 0.0989 T22: 0.1192 REMARK 3 T33: 0.1139 T12: 0.0166 REMARK 3 T13: 0.0094 T23: 0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.5999 L22: 0.3113 REMARK 3 L33: 0.6602 L12: 0.1125 REMARK 3 L13: 0.3553 L23: 0.0091 REMARK 3 S TENSOR REMARK 3 S11: -0.0061 S12: -0.0860 S13: -0.0298 REMARK 3 S21: 0.0533 S22: 0.0234 S23: -0.0166 REMARK 3 S31: 0.0139 S32: -0.0380 S33: -0.0162 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN B AND RESID 269:379) REMARK 3 ORIGIN FOR THE GROUP (A): 25.5258 28.7399 30.9505 REMARK 3 T TENSOR REMARK 3 T11: 0.0951 T22: 0.0526 REMARK 3 T33: 0.1068 T12: -0.0107 REMARK 3 T13: -0.0064 T23: 0.0082 REMARK 3 L TENSOR REMARK 3 L11: 0.9261 L22: 0.6198 REMARK 3 L33: 1.8124 L12: -0.1007 REMARK 3 L13: 0.0101 L23: -0.0165 REMARK 3 S TENSOR REMARK 3 S11: -0.0166 S12: 0.0152 S13: -0.1147 REMARK 3 S21: -0.0507 S22: 0.0217 S23: 0.0537 REMARK 3 S31: 0.2227 S32: -0.0687 S33: 0.0056 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 4V15 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-SEP-14. REMARK 100 THE DEPOSITION ID IS D_1290061825. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : BARTELS MONOCHROMATOR SI(111) REMARK 200 OPTICS : TOROIDAL FOCUSING REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOMAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 111114 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 47.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER, ROSETTA REMARK 200 STARTING MODEL: PDB ENTRY 3GWQ AND 3LLX REMARK 200 REMARK 200 REMARK: MOLECULAR REPLACEMENT WAS PERFORMED FOLLOWING THE PROTOCOL REMARK 200 OF DIMAIO ET AL. EMPLOYING THE PROGRAMS PHASER AND ROSETTA. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 13% (W/V) PEG-3350, 200 MM SODIUM REMARK 280 CHLORIDE, 100 MM TRIS/HCL, PH 8.1 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 42.13900 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: 6910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.6 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 MET A 1 REMARK 465 SER A 2 REMARK 465 GLN A 3 REMARK 465 GLU A 4 REMARK 465 VAL A 5 REMARK 465 ILE A 6 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLN B 3 REMARK 465 GLU B 4 REMARK 465 VAL B 5 REMARK 465 ILE B 6 REMARK 465 ARG B 7 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 PRO B 287 O HOH B 2373 1.93 REMARK 500 O HOH A 2127 O HOH A 2484 2.07 REMARK 500 O HOH A 2067 O HOH A 2068 2.09 REMARK 500 O HOH A 2107 O HOH A 2258 2.11 REMARK 500 O HOH B 2283 O HOH B 2346 2.12 REMARK 500 O HOH A 2456 O HOH B 2240 2.13 REMARK 500 OG SER A 213 O HOH A 2342 2.13 REMARK 500 OE2 GLU A 247 O HOH A 2109 2.13 REMARK 500 O HOH A 2458 O HOH B 2152 2.14 REMARK 500 NH1 ARG B 342 O HOH B 2413 2.15 REMARK 500 OD2 ASP A 368 O HOH A 2150 2.16 REMARK 500 NH2 ARG B 76 O HOH B 2141 2.17 REMARK 500 O HOH A 2122 O HOH A 2269 2.18 REMARK 500 OE2 GLU B 150 O HOH B 2228 2.18 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 2406 O HOH B 2291 2756 2.17 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 SER A 100 46.42 -84.62 REMARK 500 ARG A 157 -106.52 -100.21 REMARK 500 VAL A 244 -57.39 -121.05 REMARK 500 PHE A 255 -52.22 -120.93 REMARK 500 MET A 256 161.80 66.46 REMARK 500 ASN A 266 30.17 -97.81 REMARK 500 ALA A 317 -109.83 -100.43 REMARK 500 SER B 100 46.96 -85.97 REMARK 500 ARG B 157 -109.32 -103.65 REMARK 500 MET B 256 161.67 63.65 REMARK 500 ALA B 317 -110.96 -102.57 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 A2044 DISTANCE = 6.73 ANGSTROMS REMARK 525 HOH B2039 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH B2049 DISTANCE = 6.19 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 A1383 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 173 O REMARK 620 2 ARG A 174 O 81.3 REMARK 620 3 LEU A 176 O 97.1 112.5 REMARK 620 4 LEU A 179 O 88.6 147.0 99.8 REMARK 620 5 HOH A2298 O 164.5 84.3 83.0 106.6 REMARK 620 6 HOH A2299 O 104.6 74.7 158.1 77.6 77.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A1382 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 347 NE2 REMARK 620 2 ASP A 349 OD1 89.3 REMARK 620 3 HOH A2120 O 175.9 86.9 REMARK 620 4 HOH A2387 O 93.0 87.7 88.5 REMARK 620 5 HOH A2481 O 88.1 89.8 90.3 177.2 REMARK 620 6 HOH A2482 O 91.0 173.2 92.9 85.5 97.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B1382 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2460 O REMARK 620 2 HIS B 347 NE2 87.3 REMARK 620 3 ASP B 349 OD1 92.8 88.8 REMARK 620 4 HOH B2111 O 92.4 176.6 87.8 REMARK 620 5 HOH B2337 O 178.4 91.9 88.6 88.4 REMARK 620 6 HOH B2415 O 86.4 90.6 179.0 92.8 92.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1383 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 173 O REMARK 620 2 ARG B 174 O 82.1 REMARK 620 3 LEU B 176 O 95.5 111.4 REMARK 620 4 LEU B 179 O 84.2 148.3 98.3 REMARK 620 5 HOH B2261 O 106.1 78.1 157.6 78.4 REMARK 620 6 HOH B2262 O 166.4 88.7 78.5 108.5 81.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 1381 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 1381 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 1382 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 1382 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1383 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1383 DBREF 4V15 A 1 379 PDB 4V15 4V15 1 379 DBREF 4V15 B 1 379 PDB 4V15 4V15 1 379 SEQRES 1 A 379 MET SER GLN GLU VAL ILE ARG GLY ILE ALA LEU PRO PRO SEQRES 2 A 379 ALA ALA GLN PRO GLY ASP PRO LEU ALA ARG VAL ASP THR SEQRES 3 A 379 PRO SER LEU VAL LEU ASP LEU PRO ALA PHE GLU ALA ASN SEQRES 4 A 379 LEU ARG ALA MET GLN ALA TRP ALA ASP ARG HIS GLU VAL SEQRES 5 A 379 ALA LEU ARG PRO HIS ALA LYS ALA HIS LYS CYS PRO GLU SEQRES 6 A 379 ILE ALA LEU ARG GLN LEU ALA LEU GLY ALA ARG GLY ILE SEQRES 7 A 379 CYS CYS GLN LYS VAL SER GLU ALA LEU PRO PHE VAL ALA SEQRES 8 A 379 ALA GLY ILE ARG ASP ILE HIS ILE SER ASN GLU VAL VAL SEQRES 9 A 379 GLY PRO ALA LYS LEU ALA LEU LEU GLY GLN LEU ALA ARG SEQRES 10 A 379 ALA ALA LYS ILE SER VAL CYS VAL ASP ASN ALA GLU ASN SEQRES 11 A 379 LEU ALA GLN LEU SER ALA ALA MET THR ARG ALA GLY ALA SEQRES 12 A 379 GLU ILE ASP VAL LEU VAL GLU VAL ASP VAL GLY GLN GLY SEQRES 13 A 379 ARG CYS GLY VAL SER ASP ASP ALA THR VAL LEU ALA LEU SEQRES 14 A 379 ALA GLN GLN ALA ARG ALA LEU PRO GLY LEU ASN PHE ALA SEQRES 15 A 379 GLY LEU GLN ALA TYR HIS GLY SER VAL GLN HIS TYR ARG SEQRES 16 A 379 THR ARG GLU GLU ARG ALA ALA VAL CYS ARG GLN ALA ALA SEQRES 17 A 379 ARG ILE ALA ALA SER TYR ALA GLN LEU LEU ARG GLU SER SEQRES 18 A 379 GLY ILE ALA CYS ASP THR ILE THR GLY GLY GLY THR GLY SEQRES 19 A 379 SER VAL GLU PHE ASP ALA ALA SER GLY VAL TYR THR GLU SEQRES 20 A 379 LEU GLN ALA GLY SER TYR ALA PHE MET ASP SER ASP TYR SEQRES 21 A 379 GLY ALA ASN GLU TRP ASN GLY PRO LEU LYS PHE GLN ASN SEQRES 22 A 379 SER LEU PHE VAL LEU SER THR VAL MET SER THR PRO ALA SEQRES 23 A 379 PRO GLY ARG VAL ILE LEU ASP ALA GLY LEU LYS SER THR SEQRES 24 A 379 THR ALA GLU CYS GLY PRO PRO ALA VAL TYR GLY GLU PRO SEQRES 25 A 379 GLY LEU THR TYR ALA ALA ILE ASN ASP GLU HIS GLY VAL SEQRES 26 A 379 VAL ARG VAL GLU PRO GLY ALA GLN ALA PRO ALA LEU GLY SEQRES 27 A 379 ALA VAL LEU ARG LEU VAL PRO SER HIS VAL ASP PRO THR SEQRES 28 A 379 PHE ASN LEU HIS ASP GLY LEU VAL VAL VAL LYS ASP GLY SEQRES 29 A 379 VAL VAL GLN ASP VAL TRP GLU ILE ALA ALA ARG GLY PHE SEQRES 30 A 379 SER ARG SEQRES 1 B 379 MET SER GLN GLU VAL ILE ARG GLY ILE ALA LEU PRO PRO SEQRES 2 B 379 ALA ALA GLN PRO GLY ASP PRO LEU ALA ARG VAL ASP THR SEQRES 3 B 379 PRO SER LEU VAL LEU ASP LEU PRO ALA PHE GLU ALA ASN SEQRES 4 B 379 LEU ARG ALA MET GLN ALA TRP ALA ASP ARG HIS GLU VAL SEQRES 5 B 379 ALA LEU ARG PRO HIS ALA LYS ALA HIS LYS CYS PRO GLU SEQRES 6 B 379 ILE ALA LEU ARG GLN LEU ALA LEU GLY ALA ARG GLY ILE SEQRES 7 B 379 CYS CYS GLN LYS VAL SER GLU ALA LEU PRO PHE VAL ALA SEQRES 8 B 379 ALA GLY ILE ARG ASP ILE HIS ILE SER ASN GLU VAL VAL SEQRES 9 B 379 GLY PRO ALA LYS LEU ALA LEU LEU GLY GLN LEU ALA ARG SEQRES 10 B 379 ALA ALA LYS ILE SER VAL CYS VAL ASP ASN ALA GLU ASN SEQRES 11 B 379 LEU ALA GLN LEU SER ALA ALA MET THR ARG ALA GLY ALA SEQRES 12 B 379 GLU ILE ASP VAL LEU VAL GLU VAL ASP VAL GLY GLN GLY SEQRES 13 B 379 ARG CYS GLY VAL SER ASP ASP ALA THR VAL LEU ALA LEU SEQRES 14 B 379 ALA GLN GLN ALA ARG ALA LEU PRO GLY LEU ASN PHE ALA SEQRES 15 B 379 GLY LEU GLN ALA TYR HIS GLY SER VAL GLN HIS TYR ARG SEQRES 16 B 379 THR ARG GLU GLU ARG ALA ALA VAL CYS ARG GLN ALA ALA SEQRES 17 B 379 ARG ILE ALA ALA SER TYR ALA GLN LEU LEU ARG GLU SER SEQRES 18 B 379 GLY ILE ALA CYS ASP THR ILE THR GLY GLY GLY THR GLY SEQRES 19 B 379 SER VAL GLU PHE ASP ALA ALA SER GLY VAL TYR THR GLU SEQRES 20 B 379 LEU GLN ALA GLY SER TYR ALA PHE MET ASP SER ASP TYR SEQRES 21 B 379 GLY ALA ASN GLU TRP ASN GLY PRO LEU LYS PHE GLN ASN SEQRES 22 B 379 SER LEU PHE VAL LEU SER THR VAL MET SER THR PRO ALA SEQRES 23 B 379 PRO GLY ARG VAL ILE LEU ASP ALA GLY LEU LYS SER THR SEQRES 24 B 379 THR ALA GLU CYS GLY PRO PRO ALA VAL TYR GLY GLU PRO SEQRES 25 B 379 GLY LEU THR TYR ALA ALA ILE ASN ASP GLU HIS GLY VAL SEQRES 26 B 379 VAL ARG VAL GLU PRO GLY ALA GLN ALA PRO ALA LEU GLY SEQRES 27 B 379 ALA VAL LEU ARG LEU VAL PRO SER HIS VAL ASP PRO THR SEQRES 28 B 379 PHE ASN LEU HIS ASP GLY LEU VAL VAL VAL LYS ASP GLY SEQRES 29 B 379 VAL VAL GLN ASP VAL TRP GLU ILE ALA ALA ARG GLY PHE SEQRES 30 B 379 SER ARG HET PLP A1380 15 HET PLP A1381 16 HET MN A1382 1 HET NA A1383 1 HET PLP B1380 15 HET PLP B1381 16 HET MN B1382 1 HET NA B1383 1 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM MN MANGANESE (II) ION HETNAM NA SODIUM ION HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PLP 4(C8 H10 N O6 P) FORMUL 5 MN 2(MN 2+) FORMUL 6 NA 2(NA 1+) FORMUL 11 HOH *955(H2 O) HELIX 1 1 LEU A 21 VAL A 24 5 4 HELIX 2 2 LEU A 33 HIS A 50 1 18 HELIX 3 3 ALA A 58 HIS A 61 5 4 HELIX 4 4 CYS A 63 LEU A 73 1 11 HELIX 5 5 LYS A 82 ALA A 92 1 11 HELIX 6 6 GLY A 105 ALA A 119 1 15 HELIX 7 7 ASN A 127 GLY A 142 1 16 HELIX 8 8 ASP A 162 LEU A 176 1 15 HELIX 9 9 SER A 190 TYR A 194 5 5 HELIX 10 10 THR A 196 SER A 221 1 26 HELIX 11 11 SER A 235 ALA A 240 1 6 HELIX 12 12 GLY A 251 PHE A 255 5 5 HELIX 13 13 ASP A 257 ALA A 262 1 6 HELIX 14 14 HIS A 347 ASN A 353 1 7 HELIX 15 15 LEU B 21 VAL B 24 5 4 HELIX 16 16 LEU B 33 HIS B 50 1 18 HELIX 17 17 ALA B 58 HIS B 61 5 4 HELIX 18 18 CYS B 63 LEU B 73 1 11 HELIX 19 19 VAL B 83 GLU B 85 5 3 HELIX 20 20 ALA B 86 ALA B 92 1 7 HELIX 21 21 GLY B 105 ALA B 119 1 15 HELIX 22 22 ASN B 127 GLY B 142 1 16 HELIX 23 23 ASP B 162 LEU B 176 1 15 HELIX 24 24 GLY B 189 TYR B 194 5 6 HELIX 25 25 THR B 196 SER B 221 1 26 HELIX 26 26 SER B 235 ALA B 240 1 6 HELIX 27 27 GLY B 251 PHE B 255 5 5 HELIX 28 28 ASP B 257 ALA B 262 1 6 HELIX 29 29 HIS B 347 ASN B 353 1 7 SHEET 1 AA 6 ALA A 307 VAL A 308 0 SHEET 2 AA 6 VAL A 340 VAL A 344 1 O VAL A 344 N ALA A 307 SHEET 3 AA 6 LEU A 275 ALA A 286 1 O VAL A 277 N LEU A 343 SHEET 4 AA 6 ARG A 289 LEU A 292 -1 O ARG A 289 N ALA A 286 SHEET 5 AA 6 GLY A 324 VAL A 328 -1 O GLY A 324 N LEU A 292 SHEET 6 AA 6 LEU A 314 ILE A 319 -1 O THR A 315 N ARG A 327 SHEET 1 AB 6 ALA A 307 VAL A 308 0 SHEET 2 AB 6 VAL A 340 VAL A 344 1 O VAL A 344 N ALA A 307 SHEET 3 AB 6 LEU A 275 ALA A 286 1 O VAL A 277 N LEU A 343 SHEET 4 AB 6 SER A 28 ASP A 32 -1 O SER A 28 N LEU A 278 SHEET 5 AB 6 GLY A 357 LYS A 362 1 O VAL A 359 N LEU A 31 SHEET 6 AB 6 VAL A 365 GLU A 371 -1 O VAL A 365 N LYS A 362 SHEET 1 AC 8 ALA A 53 LEU A 54 0 SHEET 2 AC 8 GLU A 247 LEU A 248 1 N LEU A 248 O ALA A 53 SHEET 3 AC 8 THR A 227 GLY A 230 1 N GLY A 230 O GLU A 247 SHEET 4 AC 8 LEU A 179 GLN A 185 1 O ALA A 182 N THR A 227 SHEET 5 AC 8 ILE A 145 GLU A 150 1 O ILE A 145 N ASN A 180 SHEET 6 AC 8 LYS A 120 VAL A 125 1 O ILE A 121 N ASP A 146 SHEET 7 AC 8 ASP A 96 GLU A 102 1 O ILE A 97 N SER A 122 SHEET 8 AC 8 ILE A 78 CYS A 80 1 O ILE A 78 N HIS A 98 SHEET 1 BA 6 ALA B 307 VAL B 308 0 SHEET 2 BA 6 VAL B 340 VAL B 344 1 O VAL B 344 N ALA B 307 SHEET 3 BA 6 LEU B 275 ALA B 286 1 O VAL B 277 N LEU B 343 SHEET 4 BA 6 ARG B 289 LEU B 292 -1 O ARG B 289 N ALA B 286 SHEET 5 BA 6 GLY B 324 VAL B 328 -1 O GLY B 324 N LEU B 292 SHEET 6 BA 6 LEU B 314 ILE B 319 -1 O THR B 315 N ARG B 327 SHEET 1 BB 6 ALA B 307 VAL B 308 0 SHEET 2 BB 6 VAL B 340 VAL B 344 1 O VAL B 344 N ALA B 307 SHEET 3 BB 6 LEU B 275 ALA B 286 1 O VAL B 277 N LEU B 343 SHEET 4 BB 6 SER B 28 ASP B 32 -1 O SER B 28 N LEU B 278 SHEET 5 BB 6 GLY B 357 LYS B 362 1 O VAL B 359 N LEU B 31 SHEET 6 BB 6 VAL B 365 GLU B 371 -1 O VAL B 365 N LYS B 362 SHEET 1 BC 8 ALA B 53 LEU B 54 0 SHEET 2 BC 8 GLU B 247 LEU B 248 1 N LEU B 248 O ALA B 53 SHEET 3 BC 8 THR B 227 GLY B 230 1 N GLY B 230 O GLU B 247 SHEET 4 BC 8 LEU B 179 GLN B 185 1 O ALA B 182 N THR B 227 SHEET 5 BC 8 ILE B 145 GLU B 150 1 O ILE B 145 N ASN B 180 SHEET 6 BC 8 LYS B 120 VAL B 125 1 O ILE B 121 N ASP B 146 SHEET 7 BC 8 ASP B 96 ILE B 99 1 O ILE B 97 N SER B 122 SHEET 8 BC 8 ILE B 78 CYS B 80 1 O ILE B 78 N HIS B 98 LINK NZ BLYS A 59 C4ABPLP A1380 1555 1555 1.34 LINK NZ BLYS B 59 C4ABPLP B1380 1555 1555 1.34 LINK O ALA A 173 NA NA A1383 1555 1555 2.45 LINK O ARG A 174 NA NA A1383 1555 1555 2.56 LINK O LEU A 176 NA NA A1383 1555 1555 2.35 LINK O LEU A 179 NA NA A1383 1555 1555 2.19 LINK NE2 HIS A 347 MN MN A1382 1555 1555 2.19 LINK OD1 ASP A 349 MN MN A1382 1555 1555 2.25 LINK MN MN A1382 O HOH A2120 1555 1555 2.15 LINK MN MN A1382 O HOH A2387 1555 1555 2.27 LINK MN MN A1382 O HOH A2481 1555 1555 1.95 LINK MN MN A1382 O HOH A2482 1555 1555 1.75 LINK NA NA A1383 O HOH A2298 1555 1555 2.23 LINK NA NA A1383 O HOH A2299 1555 1555 2.80 LINK O HOH A2460 MN MN B1382 1555 1555 2.05 LINK O ALA B 173 NA NA B1383 1555 1555 2.47 LINK O ARG B 174 NA NA B1383 1555 1555 2.53 LINK O LEU B 176 NA NA B1383 1555 1555 2.36 LINK O LEU B 179 NA NA B1383 1555 1555 2.17 LINK NE2 HIS B 347 MN MN B1382 1555 1555 2.23 LINK OD1 ASP B 349 MN MN B1382 1555 1555 2.27 LINK MN MN B1382 O HOH B2111 1555 1555 2.06 LINK MN MN B1382 O HOH B2337 1555 1555 2.30 LINK MN MN B1382 O HOH B2415 1555 1555 1.97 LINK NA NA B1383 O HOH B2261 1555 1555 2.75 LINK NA NA B1383 O HOH B2262 1555 1555 2.31 CISPEP 1 THR A 26 PRO A 27 0 -5.27 CISPEP 2 THR B 26 PRO B 27 0 -4.29 SITE 1 AC1 18 HIS A 57 LYS A 59 GLN A 81 SER A 100 SITE 2 AC1 18 ARG A 157 TYR A 187 GLY A 231 GLY A 232 SITE 3 AC1 18 THR A 233 GLN A 249 ALA A 250 GLY A 251 SITE 4 AC1 18 SER A 252 TYR A 260 HOH A2119 HOH A2120 SITE 5 AC1 18 HOH A2309 HOH A2313 SITE 1 AC2 19 HIS B 57 LYS B 59 GLN B 81 SER B 100 SITE 2 AC2 19 ARG B 157 TYR B 187 GLY B 231 GLY B 232 SITE 3 AC2 19 THR B 233 GLN B 249 ALA B 250 GLY B 251 SITE 4 AC2 19 SER B 252 TYR B 260 HOH B2110 HOH B2111 SITE 5 AC2 19 HOH B2152 HOH B2272 HOH B2273 SITE 1 AC3 6 HOH A2460 HIS B 347 ASP B 349 HOH B2111 SITE 2 AC3 6 HOH B2337 HOH B2415 SITE 1 AC4 6 HIS A 347 ASP A 349 HOH A2120 HOH A2387 SITE 2 AC4 6 HOH A2481 HOH A2482 SITE 1 AC5 6 ALA B 173 ARG B 174 LEU B 176 LEU B 179 SITE 2 AC5 6 HOH B2261 HOH B2262 SITE 1 AC6 6 ALA A 173 ARG A 174 LEU A 176 LEU A 179 SITE 2 AC6 6 HOH A2298 HOH A2299 CRYST1 62.267 84.278 72.852 90.00 111.90 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 0.016060 0.000000 0.006456 0.00000 SCALE2 0.000000 0.011865 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014794 0.00000