HEADER LYASE 18-MAY-16 5K1R TITLE STRUCTURE OF BURKHOLDERIA PSEUDOMALLEI K96243 SPHINGOSINE-1-PHOSPHATE TITLE 2 LYASE BPSS2021 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BURKHOLDERIA PSEUDOMALLEI SPHINGOSINE-1-PHOSPHATE LYASE COMPND 3 BPSS2021; COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA PSEUDOMALLEI K96243; SOURCE 3 ORGANISM_TAXID: 272560; SOURCE 4 GENE: BPSS2021; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS SPHINGOSINE-1-PHOSPHATE SPHINGOSINE-1-PHOSPHATE LYASE BURKHOLDERIA KEYWDS 2 PSEUDOMALLEI PLP, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR C.J.MCLEAN,D.J.CAMPOPIANO,J.MARLES-WRIGHT REVDAT 4 10-JAN-24 5K1R 1 REMARK REVDAT 3 06-DEC-17 5K1R 1 JRNL REVDAT 2 30-AUG-17 5K1R 1 REMARK REVDAT 1 02-NOV-16 5K1R 0 JRNL AUTH C.J.MCLEAN,J.MARLES-WRIGHT,R.CUSTODIO,J.LOWTHER,A.J.KENNEDY, JRNL AUTH 2 J.POLLOCK,D.J.CLARKE,A.R.BROWN,D.J.CAMPOPIANO JRNL TITL CHARACTERIZATION OF HOMOLOGOUS SPHINGOSINE-1-PHOSPHATE LYASE JRNL TITL 2 ISOFORMS IN THE BACTERIAL PATHOGEN BURKHOLDERIA JRNL TITL 3 PSEUDOMALLEI. JRNL REF J. LIPID RES. V. 58 137 2017 JRNL REFN ISSN 1539-7262 JRNL PMID 27784725 JRNL DOI 10.1194/JLR.M071258 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 98845 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.210 REMARK 3 FREE R VALUE TEST SET COUNT : 5148 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 43.2798 - 6.5301 0.97 3106 154 0.1620 0.1950 REMARK 3 2 6.5301 - 5.1859 0.98 3143 147 0.1627 0.2067 REMARK 3 3 5.1859 - 4.5312 0.97 3096 160 0.1339 0.2064 REMARK 3 4 4.5312 - 4.1173 0.97 3034 223 0.1241 0.1840 REMARK 3 5 4.1173 - 3.8224 0.97 3106 174 0.1303 0.1792 REMARK 3 6 3.8224 - 3.5971 0.97 3069 145 0.1391 0.1669 REMARK 3 7 3.5971 - 3.4170 0.98 3108 165 0.1468 0.1854 REMARK 3 8 3.4170 - 3.2683 0.99 3214 140 0.1419 0.2154 REMARK 3 9 3.2683 - 3.1426 0.99 3106 155 0.1598 0.2307 REMARK 3 10 3.1426 - 3.0342 0.99 3196 171 0.1515 0.1998 REMARK 3 11 3.0342 - 2.9393 1.00 3195 176 0.1511 0.2343 REMARK 3 12 2.9393 - 2.8553 0.99 3123 180 0.1667 0.2536 REMARK 3 13 2.8553 - 2.7801 1.00 3214 176 0.1672 0.2428 REMARK 3 14 2.7801 - 2.7123 0.99 3053 161 0.1678 0.2456 REMARK 3 15 2.7123 - 2.6507 0.98 3237 182 0.1788 0.2442 REMARK 3 16 2.6507 - 2.5943 1.00 3071 166 0.1787 0.2661 REMARK 3 17 2.5943 - 2.5424 1.00 3255 168 0.1761 0.2310 REMARK 3 18 2.5424 - 2.4944 0.99 3109 178 0.1981 0.2649 REMARK 3 19 2.4944 - 2.4499 0.99 3158 192 0.2324 0.3008 REMARK 3 20 2.4499 - 2.4083 0.99 3149 167 0.2368 0.2785 REMARK 3 21 2.4083 - 2.3695 0.98 3096 182 0.2477 0.2957 REMARK 3 22 2.3695 - 2.3330 0.99 3132 185 0.2440 0.3341 REMARK 3 23 2.3330 - 2.2987 0.99 3046 158 0.2598 0.2860 REMARK 3 24 2.2987 - 2.2664 0.99 3241 165 0.3065 0.3437 REMARK 3 25 2.2664 - 2.2357 0.97 3118 171 0.3543 0.4123 REMARK 3 26 2.2357 - 2.2067 0.99 3106 147 0.3100 0.3379 REMARK 3 27 2.2067 - 2.1791 0.99 3082 238 0.2886 0.3302 REMARK 3 28 2.1791 - 2.1529 0.99 3151 180 0.2682 0.3211 REMARK 3 29 2.1529 - 2.1278 0.99 3037 142 0.2700 0.3497 REMARK 3 30 2.1278 - 2.1039 0.90 2946 200 0.2813 0.3006 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.780 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.013 7082 REMARK 3 ANGLE : 1.217 9609 REMARK 3 CHIRALITY : 0.060 993 REMARK 3 PLANARITY : 0.008 1266 REMARK 3 DIHEDRAL : 12.434 4119 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5K1R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1000221609. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-FEB-16 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 : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976250 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS, AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 101458 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.104 REMARK 200 RESOLUTION RANGE LOW (A) : 43.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.13360 REMARK 200 R SYM (I) : 0.14750 REMARK 200 FOR THE DATA SET : 8.5700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 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 FOR SHELL : NULL 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: 3MAD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MIDAS B11 20 % V/V POLYPROPYLENE REMARK 280 GLYCOL 400 10 % 1-PROPANOL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K 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 63.38800 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -78.0 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 MET A 1 REMARK 465 ASP A 2 REMARK 465 LEU A 3 REMARK 465 GLU A 4 REMARK 465 GLU A 5 REMARK 465 GLY A 6 REMARK 465 VAL A 7 REMARK 465 ARG A 8 REMARK 465 GLN A 9 REMARK 465 ARG A 431 REMARK 465 ALA A 432 REMARK 465 HIS A 433 REMARK 465 ALA A 434 REMARK 465 ARG A 435 REMARK 465 PRO A 436 REMARK 465 GLN A 437 REMARK 465 SER A 438 REMARK 465 SER A 439 REMARK 465 GLY A 440 REMARK 465 VAL A 441 REMARK 465 TYR A 442 REMARK 465 GLY A 443 REMARK 465 GLY A 444 REMARK 465 ASP A 445 REMARK 465 ALA A 446 REMARK 465 ALA A 447 REMARK 465 GLY A 448 REMARK 465 LEU A 449 REMARK 465 ASP A 450 REMARK 465 LEU A 451 REMARK 465 ARG A 452 REMARK 465 ASP A 453 REMARK 465 ASP A 454 REMARK 465 LEU A 473 REMARK 465 GLU A 474 REMARK 465 HIS A 475 REMARK 465 HIS A 476 REMARK 465 HIS A 477 REMARK 465 HIS A 478 REMARK 465 HIS A 479 REMARK 465 HIS A 480 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 LEU B 3 REMARK 465 GLU B 4 REMARK 465 GLU B 5 REMARK 465 GLY B 6 REMARK 465 VAL B 7 REMARK 465 ARG B 8 REMARK 465 GLN B 9 REMARK 465 ARG B 431 REMARK 465 ALA B 432 REMARK 465 HIS B 433 REMARK 465 ALA B 434 REMARK 465 ARG B 435 REMARK 465 PRO B 436 REMARK 465 GLN B 437 REMARK 465 SER B 438 REMARK 465 SER B 439 REMARK 465 GLY B 440 REMARK 465 VAL B 441 REMARK 465 TYR B 442 REMARK 465 GLY B 443 REMARK 465 GLY B 444 REMARK 465 ASP B 445 REMARK 465 ALA B 446 REMARK 465 ALA B 447 REMARK 465 GLY B 448 REMARK 465 LEU B 449 REMARK 465 ASP B 450 REMARK 465 LEU B 451 REMARK 465 ARG B 452 REMARK 465 ASP B 453 REMARK 465 LEU B 473 REMARK 465 GLU B 474 REMARK 465 HIS B 475 REMARK 465 HIS B 476 REMARK 465 HIS B 477 REMARK 465 HIS B 478 REMARK 465 HIS B 479 REMARK 465 HIS B 480 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 HH12 ARG B 191 OE1 GLU B 225 1.43 REMARK 500 HH22 ARG B 285 O HOH B 608 1.58 REMARK 500 HH22 ARG B 30 O HOH A 604 1.59 REMARK 500 NH1 ARG B 191 OE1 GLU B 225 1.93 REMARK 500 NH2 ARG A 390 OD1 ASP B 84 1.96 REMARK 500 OE2 GLU B 225 O HOH B 601 2.09 REMARK 500 O HOH B 660 O HOH B 743 2.12 REMARK 500 OE2 GLU B 225 O HOH B 602 2.16 REMARK 500 NH2 ARG B 83 OE2 GLU B 93 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 206 CB CYS A 206 SG -0.124 REMARK 500 CYS B 53 CB CYS B 53 SG -0.113 REMARK 500 CYS B 206 CB CYS B 206 SG -0.109 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 B 416 NE - CZ - NH2 ANGL. DEV. = -3.1 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 CYS A 59 -71.29 -89.59 REMARK 500 ASP A 195 -169.49 -109.76 REMARK 500 CYS A 206 91.96 76.60 REMARK 500 ASP A 256 -149.17 -116.75 REMARK 500 LYS A 271 -104.98 -103.97 REMARK 500 THR A 365 -101.80 -117.98 REMARK 500 CYS B 59 -72.09 -89.73 REMARK 500 ASP B 195 -167.25 -110.62 REMARK 500 CYS B 206 92.78 77.93 REMARK 500 ASP B 256 -150.46 -116.32 REMARK 500 LYS B 271 -107.71 -107.16 REMARK 500 SER B 313 139.85 -36.10 REMARK 500 THR B 365 -103.96 -119.56 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 B 755 DISTANCE = 5.94 ANGSTROMS 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide PLP B 501 and LYS B REMARK 800 271 DBREF 5K1R A 1 473 UNP Q63IP8 Q63IP8_BURPS 21 493 DBREF 5K1R B 1 473 UNP Q63IP8 Q63IP8_BURPS 21 493 SEQADV 5K1R GLU A 474 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS A 475 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS A 476 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS A 477 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS A 478 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS A 479 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS A 480 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R GLU B 474 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS B 475 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS B 476 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS B 477 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS B 478 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS B 479 UNP Q63IP8 EXPRESSION TAG SEQADV 5K1R HIS B 480 UNP Q63IP8 EXPRESSION TAG SEQRES 1 A 480 MET ASP LEU GLU GLU GLY VAL ARG GLN LEU TYR PRO TYR SEQRES 2 A 480 ALA ALA GLU PHE GLY ALA LEU HIS GLU PHE PRO GLU ARG SEQRES 3 A 480 GLY MET PRO ARG GLU ARG LEU LEU GLU GLU LEU ARG SER SEQRES 4 A 480 MET ALA VAL ARG GLU ASP ARG LYS TRP GLU SER GLY ARG SEQRES 5 A 480 CYS SER GLY THR MET TYR CYS GLY ASP HIS GLU HIS TYR SEQRES 6 A 480 ALA PHE LEU ASN GLU ALA TYR GLY LEU PHE SER HIS VAL SEQRES 7 A 480 ASN ALA LEU GLN ARG ASP LEU CYS PRO SER MET ASN ARG SEQRES 8 A 480 MET GLU SER GLU ILE VAL ALA MET THR VAL ALA LEU LEU SEQRES 9 A 480 HIS GLY GLU ALA VAL GLN ARG HIS ASP GLY ALA HIS ARG SEQRES 10 A 480 ALA CYS GLY ALA LEU SER LEU GLY GLY THR GLU SER ILE SEQRES 11 A 480 LEU ASN ALA THR LEU ALA TYR ARG GLU LYS ALA ARG ALA SEQRES 12 A 480 GLU ARG GLY ILE GLU ARG PRO ARG MET ILE TRP PRO ALA SEQRES 13 A 480 SER ALA HIS PRO ALA PHE ARG LYS ALA ALA HIS LEU PHE SEQRES 14 A 480 GLY PHE ASP VAL THR VAL ALA PRO ILE ASP PRO VAL THR SEQRES 15 A 480 MET GLN VAL ASP ALA ASP PHE VAL ARG ASP ALA VAL ASP SEQRES 16 A 480 ALA ASN THR VAL MET LEU VAL GLY SER ALA CYS ASN TYR SEQRES 17 A 480 PRO TYR GLY THR ILE ASP PRO ILE GLY ALA LEU SER ALA SEQRES 18 A 480 ILE ALA VAL GLU LYS ASP VAL TRP LEU HIS VAL ASP GLY SEQRES 19 A 480 CYS LEU GLY GLY TRP MET LEU PRO TRP GLY GLU ALA LEU SEQRES 20 A 480 GLY TYR PRO ASP ILE PRO ALA PHE ASP PHE ARG LEU PRO SEQRES 21 A 480 GLY VAL THR SER ILE SER ALA ASP THR HIS LYS PHE GLY SEQRES 22 A 480 TYR GLY PRO LYS GLY GLY SER VAL LEU ALA TRP ARG ASP SEQRES 23 A 480 ALA SER PHE ARG ARG HIS GLN TYR PHE LEU MET THR ASP SEQRES 24 A 480 TRP VAL GLY GLY VAL TYR GLY SER PRO GLY LEU THR GLY SEQRES 25 A 480 SER ARG SER GLY GLY LEU ILE ALA ALA THR TRP ALA ALA SEQRES 26 A 480 LEU ARG SER LEU GLY ARG GLU GLY TYR LEU ALA ARG ALA SEQRES 27 A 480 LYS ALA ILE PHE GLU THR ALA PHE ASP MET GLN ALA ALA SEQRES 28 A 480 VAL ARG ALA ILE PRO GLU LEU ARG VAL LEU GLY LYS PRO SEQRES 29 A 480 THR PHE CYS PHE ALA PHE THR SER ASP ALA PHE ASP ILE SEQRES 30 A 480 TYR HIS VAL ASN ASP PHE MET ARG GLN ARG GLY TRP ARG SEQRES 31 A 480 PHE ASN GLY LEU GLN HIS PRO ASP ALA LEU HIS MET CYS SEQRES 32 A 480 VAL THR GLY PRO GLN THR GLN PRO GLY VAL ALA GLU ARG SEQRES 33 A 480 PHE ARG GLN ASP LEU GLY GLU ALA VAL GLU HIS ALA ARG SEQRES 34 A 480 HIS ARG ALA HIS ALA ARG PRO GLN SER SER GLY VAL TYR SEQRES 35 A 480 GLY GLY ASP ALA ALA GLY LEU ASP LEU ARG ASP ASP ALA SEQRES 36 A 480 ARG ALA ARG ALA PHE PHE THR GLN VAL LEU ASP LEU PHE SEQRES 37 A 480 THR ASP CYS PRO LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 480 MET ASP LEU GLU GLU GLY VAL ARG GLN LEU TYR PRO TYR SEQRES 2 B 480 ALA ALA GLU PHE GLY ALA LEU HIS GLU PHE PRO GLU ARG SEQRES 3 B 480 GLY MET PRO ARG GLU ARG LEU LEU GLU GLU LEU ARG SER SEQRES 4 B 480 MET ALA VAL ARG GLU ASP ARG LYS TRP GLU SER GLY ARG SEQRES 5 B 480 CYS SER GLY THR MET TYR CYS GLY ASP HIS GLU HIS TYR SEQRES 6 B 480 ALA PHE LEU ASN GLU ALA TYR GLY LEU PHE SER HIS VAL SEQRES 7 B 480 ASN ALA LEU GLN ARG ASP LEU CYS PRO SER MET ASN ARG SEQRES 8 B 480 MET GLU SER GLU ILE VAL ALA MET THR VAL ALA LEU LEU SEQRES 9 B 480 HIS GLY GLU ALA VAL GLN ARG HIS ASP GLY ALA HIS ARG SEQRES 10 B 480 ALA CYS GLY ALA LEU SER LEU GLY GLY THR GLU SER ILE SEQRES 11 B 480 LEU ASN ALA THR LEU ALA TYR ARG GLU LYS ALA ARG ALA SEQRES 12 B 480 GLU ARG GLY ILE GLU ARG PRO ARG MET ILE TRP PRO ALA SEQRES 13 B 480 SER ALA HIS PRO ALA PHE ARG LYS ALA ALA HIS LEU PHE SEQRES 14 B 480 GLY PHE ASP VAL THR VAL ALA PRO ILE ASP PRO VAL THR SEQRES 15 B 480 MET GLN VAL ASP ALA ASP PHE VAL ARG ASP ALA VAL ASP SEQRES 16 B 480 ALA ASN THR VAL MET LEU VAL GLY SER ALA CYS ASN TYR SEQRES 17 B 480 PRO TYR GLY THR ILE ASP PRO ILE GLY ALA LEU SER ALA SEQRES 18 B 480 ILE ALA VAL GLU LYS ASP VAL TRP LEU HIS VAL ASP GLY SEQRES 19 B 480 CYS LEU GLY GLY TRP MET LEU PRO TRP GLY GLU ALA LEU SEQRES 20 B 480 GLY TYR PRO ASP ILE PRO ALA PHE ASP PHE ARG LEU PRO SEQRES 21 B 480 GLY VAL THR SER ILE SER ALA ASP THR HIS LYS PHE GLY SEQRES 22 B 480 TYR GLY PRO LYS GLY GLY SER VAL LEU ALA TRP ARG ASP SEQRES 23 B 480 ALA SER PHE ARG ARG HIS GLN TYR PHE LEU MET THR ASP SEQRES 24 B 480 TRP VAL GLY GLY VAL TYR GLY SER PRO GLY LEU THR GLY SEQRES 25 B 480 SER ARG SER GLY GLY LEU ILE ALA ALA THR TRP ALA ALA SEQRES 26 B 480 LEU ARG SER LEU GLY ARG GLU GLY TYR LEU ALA ARG ALA SEQRES 27 B 480 LYS ALA ILE PHE GLU THR ALA PHE ASP MET GLN ALA ALA SEQRES 28 B 480 VAL ARG ALA ILE PRO GLU LEU ARG VAL LEU GLY LYS PRO SEQRES 29 B 480 THR PHE CYS PHE ALA PHE THR SER ASP ALA PHE ASP ILE SEQRES 30 B 480 TYR HIS VAL ASN ASP PHE MET ARG GLN ARG GLY TRP ARG SEQRES 31 B 480 PHE ASN GLY LEU GLN HIS PRO ASP ALA LEU HIS MET CYS SEQRES 32 B 480 VAL THR GLY PRO GLN THR GLN PRO GLY VAL ALA GLU ARG SEQRES 33 B 480 PHE ARG GLN ASP LEU GLY GLU ALA VAL GLU HIS ALA ARG SEQRES 34 B 480 HIS ARG ALA HIS ALA ARG PRO GLN SER SER GLY VAL TYR SEQRES 35 B 480 GLY GLY ASP ALA ALA GLY LEU ASP LEU ARG ASP ASP ALA SEQRES 36 B 480 ARG ALA ARG ALA PHE PHE THR GLN VAL LEU ASP LEU PHE SEQRES 37 B 480 THR ASP CYS PRO LEU GLU HIS HIS HIS HIS HIS HIS HET PLP A 501 23 HET PLP B 501 23 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 5 HOH *300(H2 O) HELIX 1 AA1 TYR A 13 GLY A 18 1 6 HELIX 2 AA2 PRO A 29 SER A 50 1 22 HELIX 3 AA3 ASP A 61 LEU A 74 1 14 HELIX 4 AA4 GLN A 82 CYS A 86 5 5 HELIX 5 AA5 PRO A 87 LEU A 104 1 18 HELIX 6 AA6 GLY A 106 ASP A 113 1 8 HELIX 7 AA7 GLY A 125 GLY A 146 1 22 HELIX 8 AA8 HIS A 159 GLY A 170 1 12 HELIX 9 AA9 ASP A 186 VAL A 194 1 9 HELIX 10 AB1 PRO A 215 LYS A 226 1 12 HELIX 11 AB2 MET A 240 LEU A 247 1 8 HELIX 12 AB3 ASP A 286 ARG A 291 1 6 HELIX 13 AB4 HIS A 292 TYR A 294 5 3 HELIX 14 AB5 SER A 315 ILE A 355 1 41 HELIX 15 AB6 ASP A 376 ARG A 387 1 12 HELIX 16 AB7 THR A 405 GLN A 410 5 6 HELIX 17 AB8 GLY A 412 HIS A 430 1 19 HELIX 18 AB9 ARG A 456 PHE A 468 1 13 HELIX 19 AC1 TYR B 13 GLY B 18 1 6 HELIX 20 AC2 PRO B 29 SER B 50 1 22 HELIX 21 AC3 ASP B 61 LEU B 74 1 14 HELIX 22 AC4 GLN B 82 LEU B 85 5 4 HELIX 23 AC5 CYS B 86 LEU B 104 1 19 HELIX 24 AC6 GLY B 106 GLY B 114 1 9 HELIX 25 AC7 GLY B 125 GLY B 146 1 22 HELIX 26 AC8 HIS B 159 GLY B 170 1 12 HELIX 27 AC9 ASP B 186 VAL B 194 1 9 HELIX 28 AD1 PRO B 215 LYS B 226 1 12 HELIX 29 AD2 MET B 240 LEU B 247 1 8 HELIX 30 AD3 ASP B 286 ARG B 291 1 6 HELIX 31 AD4 HIS B 292 TYR B 294 5 3 HELIX 32 AD5 SER B 315 ILE B 355 1 41 HELIX 33 AD6 ASP B 376 ARG B 387 1 12 HELIX 34 AD7 THR B 405 GLN B 410 5 6 HELIX 35 AD8 GLY B 412 HIS B 430 1 19 HELIX 36 AD9 ALA B 455 PHE B 468 1 14 SHEET 1 AA1 7 CYS A 119 SER A 123 0 SHEET 2 AA1 7 SER A 280 TRP A 284 -1 O TRP A 284 N CYS A 119 SHEET 3 AA1 7 SER A 264 ALA A 267 -1 N ILE A 265 O ALA A 283 SHEET 4 AA1 7 TRP A 229 ASP A 233 1 N VAL A 232 O SER A 264 SHEET 5 AA1 7 THR A 198 SER A 204 1 N GLY A 203 O ASP A 233 SHEET 6 AA1 7 ARG A 151 PRO A 155 1 N ILE A 153 O MET A 200 SHEET 7 AA1 7 ASP A 172 ALA A 176 1 O ASP A 172 N MET A 152 SHEET 1 AA2 2 PHE A 295 MET A 297 0 SHEET 2 AA2 2 TYR A 305 SER A 307 -1 O TYR A 305 N MET A 297 SHEET 1 AA3 4 LEU A 358 VAL A 360 0 SHEET 2 AA3 4 CYS A 367 SER A 372 -1 O THR A 371 N ARG A 359 SHEET 3 AA3 4 ALA A 399 CYS A 403 -1 O MET A 402 N PHE A 368 SHEET 4 AA3 4 ASN A 392 LEU A 394 -1 N LEU A 394 O ALA A 399 SHEET 1 AA4 7 CYS B 119 SER B 123 0 SHEET 2 AA4 7 SER B 280 TRP B 284 -1 O TRP B 284 N CYS B 119 SHEET 3 AA4 7 SER B 264 ALA B 267 -1 N ILE B 265 O ALA B 283 SHEET 4 AA4 7 TRP B 229 ASP B 233 1 N VAL B 232 O SER B 264 SHEET 5 AA4 7 THR B 198 SER B 204 1 N LEU B 201 O TRP B 229 SHEET 6 AA4 7 ARG B 151 PRO B 155 1 N ARG B 151 O VAL B 199 SHEET 7 AA4 7 ASP B 172 ALA B 176 1 O THR B 174 N TRP B 154 SHEET 1 AA5 2 PHE B 295 MET B 297 0 SHEET 2 AA5 2 TYR B 305 SER B 307 -1 O TYR B 305 N MET B 297 SHEET 1 AA6 4 LEU B 358 VAL B 360 0 SHEET 2 AA6 4 CYS B 367 SER B 372 -1 O THR B 371 N ARG B 359 SHEET 3 AA6 4 ALA B 399 CYS B 403 -1 O LEU B 400 N PHE B 370 SHEET 4 AA6 4 ASN B 392 LEU B 394 -1 N LEU B 394 O ALA B 399 LINK NZ LYS A 271 C4A PLP A 501 1555 1555 1.43 LINK NZ LYS B 271 C4A PLP B 501 1555 1555 1.44 CISPEP 1 HIS A 396 PRO A 397 0 7.19 CISPEP 2 HIS B 396 PRO B 397 0 4.87 SITE 1 AC1 12 GLY A 126 THR A 127 HIS A 159 CYS A 206 SITE 2 AC1 12 ASP A 233 CYS A 235 LEU A 236 ASP A 268 SITE 3 AC1 12 HIS A 270 LYS A 271 GLY B 312 SER B 313 SITE 1 AC2 16 TYR A 305 SER A 313 TYR B 58 GLY B 126 SITE 2 AC2 16 THR B 127 HIS B 159 CYS B 206 ASP B 233 SITE 3 AC2 16 CYS B 235 LEU B 236 ASP B 268 THR B 269 SITE 4 AC2 16 HIS B 270 PHE B 272 GLY B 273 TYR B 274 CRYST1 59.600 126.776 59.725 90.00 97.51 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 0.016779 0.000000 0.002211 0.00000 SCALE2 0.000000 0.007888 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016888 0.00000