PDB Short entry for 5BWA HEADER LYASE/LYASE INHIBITOR 07-JUN-15 5BWA TITLE CRYSTAL STRUCTURE OF ODC-PLP-AZ1 TERNARY COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORNITHINE DECARBOXYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ODC; COMPND 5 EC: 4.1.1.17; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: ORNITHINE DECARBOXYLASE ANTIZYME 1; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 69-228; COMPND 11 SYNONYM: ODC-AZ; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ODC1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: OAZ1, OAZ; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS ORNITHINE DECARBOXYLASE, ANTIZYME1, ORNITHINE DECARBOXYLASE-ANTIZYME1 KEYWDS 2 COMPLEX, POLYAMINE BIOSYNTHESIS, POLYAMINE HOMEOSTASIS, LYASE-LYASE KEYWDS 3 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.H.WU REVDAT 2 08-NOV-23 5BWA 1 REMARK REVDAT 1 09-DEC-15 5BWA 0 JRNL AUTH D.H.WU,H.Y.KAAN,X.ZHENG,X.TANG,Y.HE,Q.VANESSA TAN,N.ZHANG, JRNL AUTH 2 H.SONG JRNL TITL STRUCTURAL BASIS OF ORNITHINE DECARBOXYLASE INACTIVATION AND JRNL TITL 2 ACCELERATED DEGRADATION BY POLYAMINE SENSOR ANTIZYME1 JRNL REF SCI REP V. 5 14738 2015 JRNL REFN ESSN 2045-2322 JRNL PMID 26443277 JRNL DOI 10.1038/SREP14738 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) 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) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.76 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 9326 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 470 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 42.7629 - 6.1164 0.99 2658 133 0.2259 0.3036 REMARK 3 2 6.1164 - 4.8569 0.94 2526 136 0.2398 0.2999 REMARK 3 3 4.8569 - 4.2436 0.93 2486 127 0.1886 0.2265 REMARK 3 4 4.2436 - 3.8559 0.93 2488 136 0.2311 0.2887 REMARK 3 5 3.8559 - 3.5797 0.94 2514 142 0.2262 0.2610 REMARK 3 6 3.5797 - 3.3687 0.94 2508 127 0.2637 0.3497 REMARK 3 7 3.3687 - 3.2001 0.94 2533 138 0.2885 0.3643 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) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.890 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 65.32 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 3817 REMARK 3 ANGLE : 1.254 5167 REMARK 3 CHIRALITY : 0.088 580 REMARK 3 PLANARITY : 0.006 660 REMARK 3 DIHEDRAL : 18.853 1388 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): -13.6436 3.7551 -17.5205 REMARK 3 T TENSOR REMARK 3 T11: 0.3480 T22: 0.2942 REMARK 3 T33: 0.2168 T12: -0.0370 REMARK 3 T13: 0.0830 T23: -0.0654 REMARK 3 L TENSOR REMARK 3 L11: 1.4347 L22: 1.5600 REMARK 3 L33: 2.2173 L12: -0.4113 REMARK 3 L13: -0.8886 L23: 0.4924 REMARK 3 S TENSOR REMARK 3 S11: 0.0089 S12: -0.1634 S13: -0.0581 REMARK 3 S21: 0.1414 S22: -0.1145 S23: -0.0855 REMARK 3 S31: 0.1383 S32: -0.2437 S33: 0.1448 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 5BWA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-JUN-15. REMARK 100 THE DEPOSITION ID IS D_1000210653. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : X06SA REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10195 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 78.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : 0.08400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 10.30 REMARK 200 R MERGE FOR SHELL (I) : 0.66700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 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: 1D7K, 1ZO0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M DI-AMMONIUM TARTRATE, 20% PEG REMARK 280 3350, PH 8.5, EVAPORATION, TEMPERATURE 288K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 26.57700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 78.54150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.04200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 78.54150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.57700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.04200 REMARK 290 SMTRY3 4 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: 3990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21580 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 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 ASN A 2 REMARK 465 ASN A 3 REMARK 465 PHE A 4 REMARK 465 GLY A 5 REMARK 465 ASN A 6 REMARK 465 GLU A 7 REMARK 465 GLU A 8 REMARK 465 PHE A 9 REMARK 465 ASP A 10 REMARK 465 CYS A 11 REMARK 465 HIS A 12 REMARK 465 PHE A 13 REMARK 465 LEU A 14 REMARK 465 ASP A 15 REMARK 465 GLU A 16 REMARK 465 GLY A 17 REMARK 465 PHE A 18 REMARK 465 GLU A 30 REMARK 465 VAL A 31 REMARK 465 SER A 32 REMARK 465 SER A 33 REMARK 465 SER A 34 REMARK 465 ASP A 35 REMARK 465 ASP A 36 REMARK 465 LYS A 37 REMARK 465 ASP A 159 REMARK 465 SER A 160 REMARK 465 LYS A 161 REMARK 465 ALA A 162 REMARK 465 VAL A 163 REMARK 465 CYS A 164 REMARK 465 VAL A 244 REMARK 465 LYS A 245 REMARK 465 LEU A 246 REMARK 465 ASP A 266 REMARK 465 SER A 267 REMARK 465 GLY A 268 REMARK 465 VAL A 269 REMARK 465 GLY A 302 REMARK 465 SER A 303 REMARK 465 ASP A 304 REMARK 465 ASP A 305 REMARK 465 GLU A 306 REMARK 465 ASP A 307 REMARK 465 GLU A 308 REMARK 465 SER A 309 REMARK 465 LYS A 342 REMARK 465 ARG A 343 REMARK 465 PRO A 344 REMARK 465 LYS A 345 REMARK 465 PRO A 346 REMARK 465 ASP A 347 REMARK 465 GLU A 348 REMARK 465 LYS A 349 REMARK 465 TYR A 350 REMARK 465 TYR A 351 REMARK 465 ALA A 393 REMARK 465 ALA A 394 REMARK 465 SER A 395 REMARK 465 GLY A 411 REMARK 465 PRO A 412 REMARK 465 ALA A 413 REMARK 465 TRP A 414 REMARK 465 GLN A 415 REMARK 465 LEU A 416 REMARK 465 MET A 417 REMARK 465 GLN A 418 REMARK 465 GLN A 419 REMARK 465 PHE A 420 REMARK 465 GLN A 421 REMARK 465 ASN A 422 REMARK 465 PRO A 423 REMARK 465 ASP A 424 REMARK 465 PHE A 425 REMARK 465 PRO A 426 REMARK 465 PRO A 427 REMARK 465 GLU A 428 REMARK 465 VAL A 429 REMARK 465 GLU A 430 REMARK 465 GLU A 431 REMARK 465 GLN A 432 REMARK 465 ASP A 433 REMARK 465 ALA A 434 REMARK 465 SER A 435 REMARK 465 THR A 436 REMARK 465 LEU A 437 REMARK 465 PRO A 438 REMARK 465 VAL A 439 REMARK 465 SER A 440 REMARK 465 CYS A 441 REMARK 465 ALA A 442 REMARK 465 TRP A 443 REMARK 465 GLU A 444 REMARK 465 SER A 445 REMARK 465 GLY A 446 REMARK 465 MET A 447 REMARK 465 LYS A 448 REMARK 465 ARG A 449 REMARK 465 HIS A 450 REMARK 465 ARG A 451 REMARK 465 ALA A 452 REMARK 465 ALA A 453 REMARK 465 CYS A 454 REMARK 465 ALA A 455 REMARK 465 SER A 456 REMARK 465 ALA A 457 REMARK 465 SER A 458 REMARK 465 ILE A 459 REMARK 465 ASN A 460 REMARK 465 VAL A 461 REMARK 465 ASP B 69 REMARK 465 ALA B 70 REMARK 465 PRO B 71 REMARK 465 HIS B 72 REMARK 465 PRO B 73 REMARK 465 PRO B 74 REMARK 465 LEU B 75 REMARK 465 LYS B 76 REMARK 465 ILE B 77 REMARK 465 PRO B 78 REMARK 465 GLY B 79 REMARK 465 GLY B 80 REMARK 465 ARG B 81 REMARK 465 GLY B 82 REMARK 465 ASN B 83 REMARK 465 SER B 84 REMARK 465 GLN B 85 REMARK 465 ARG B 86 REMARK 465 ASP B 87 REMARK 465 HIS B 88 REMARK 465 ASN B 89 REMARK 465 LEU B 90 REMARK 465 SER B 91 REMARK 465 ALA B 92 REMARK 465 LEU B 107 REMARK 465 THR B 108 REMARK 465 SER B 109 REMARK 465 ASN B 110 REMARK 465 PRO B 206 REMARK 465 LYS B 207 REMARK 465 ARG B 220 REMARK 465 GLU B 221 REMARK 465 SER B 222 REMARK 465 SER B 223 REMARK 465 GLY B 224 REMARK 465 GLU B 225 REMARK 465 GLU B 226 REMARK 465 GLU B 227 REMARK 465 GLU B 228 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 THR A 396 OG1 CG2 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 OE1 GLU B 105 NH1 ARG B 114 2.00 REMARK 500 CG1 VAL B 205 CE2 PHE B 213 2.03 REMARK 500 CG ARG B 208 OD1 ASP B 210 2.16 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 PRO B 200 C - N - CD ANGL. DEV. = 12.7 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 LYS A 21 30.63 -65.99 REMARK 500 ASP A 22 -33.13 -132.85 REMARK 500 ALA A 39 131.81 -31.01 REMARK 500 ASP A 44 97.30 -69.50 REMARK 500 ASN A 71 101.82 -165.26 REMARK 500 THR A 83 -71.19 -82.53 REMARK 500 PRO A 105 5.94 -61.05 REMARK 500 SER A 167 -104.97 -61.46 REMARK 500 VAL A 168 170.38 -50.05 REMARK 500 GLU A 186 -3.40 -57.63 REMARK 500 HIS A 197 99.58 -163.52 REMARK 500 TYR A 230 -9.22 -158.10 REMARK 500 GLU A 242 48.11 -107.13 REMARK 500 PHE A 248 -82.79 -62.53 REMARK 500 LYS A 261 -79.80 -83.06 REMARK 500 TYR A 278 -80.56 -44.75 REMARK 500 SER A 282 0.62 -69.79 REMARK 500 LYS A 298 83.42 49.79 REMARK 500 GLU A 311 85.56 -151.18 REMARK 500 TYR A 331 -75.78 -77.76 REMARK 500 LEU A 340 -147.19 -103.03 REMARK 500 ARG A 369 111.66 -166.08 REMARK 500 GLU A 374 -178.74 -66.82 REMARK 500 MET A 375 -123.66 -115.14 REMARK 500 HIS A 376 -157.45 -103.87 REMARK 500 PHE A 397 60.98 -52.24 REMARK 500 ASN A 398 -63.80 -92.04 REMARK 500 GLN A 401 -79.14 -170.80 REMARK 500 ARG A 402 105.05 51.20 REMARK 500 PHE B 95 -75.62 -67.32 REMARK 500 THR B 123 -1.15 -57.32 REMARK 500 ASP B 124 -0.03 -173.81 REMARK 500 PRO B 144 172.89 -46.50 REMARK 500 GLU B 161 -87.44 -57.64 REMARK 500 ASN B 179 -155.58 55.74 REMARK 500 ARG B 180 -113.03 -77.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 MET A 375 HIS A 376 32.82 REMARK 500 GLU B 161 PHE B 162 140.71 REMARK 500 REMARK 500 REMARK: NULL 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 600 DBREF 5BWA A 1 461 UNP P11926 DCOR_HUMAN 1 461 DBREF 5BWA B 69 228 UNP P54368 OAZ1_HUMAN 69 228 SEQRES 1 A 461 MET ASN ASN PHE GLY ASN GLU GLU PHE ASP CYS HIS PHE SEQRES 2 A 461 LEU ASP GLU GLY PHE THR ALA LYS ASP ILE LEU ASP GLN SEQRES 3 A 461 LYS ILE ASN GLU VAL SER SER SER ASP ASP LYS ASP ALA SEQRES 4 A 461 PHE TYR VAL ALA ASP LEU GLY ASP ILE LEU LYS LYS HIS SEQRES 5 A 461 LEU ARG TRP LEU LYS ALA LEU PRO ARG VAL THR PRO PHE SEQRES 6 A 461 TYR ALA VAL LYS CYS ASN ASP SER LYS ALA ILE VAL LYS SEQRES 7 A 461 THR LEU ALA ALA THR GLY THR GLY PHE ASP CYS ALA SER SEQRES 8 A 461 LYS THR GLU ILE GLN LEU VAL GLN SER LEU GLY VAL PRO SEQRES 9 A 461 PRO GLU ARG ILE ILE TYR ALA ASN PRO CYS LYS GLN VAL SEQRES 10 A 461 SER GLN ILE LYS TYR ALA ALA ASN ASN GLY VAL GLN MET SEQRES 11 A 461 MET THR PHE ASP SER GLU VAL GLU LEU MET LYS VAL ALA SEQRES 12 A 461 ARG ALA HIS PRO LYS ALA LYS LEU VAL LEU ARG ILE ALA SEQRES 13 A 461 THR ASP ASP SER LYS ALA VAL CYS ARG LEU SER VAL LYS SEQRES 14 A 461 PHE GLY ALA THR LEU ARG THR SER ARG LEU LEU LEU GLU SEQRES 15 A 461 ARG ALA LYS GLU LEU ASN ILE ASP VAL VAL GLY VAL SER SEQRES 16 A 461 PHE HIS VAL GLY SER GLY CYS THR ASP PRO GLU THR PHE SEQRES 17 A 461 VAL GLN ALA ILE SER ASP ALA ARG CYS VAL PHE ASP MET SEQRES 18 A 461 GLY ALA GLU VAL GLY PHE SER MET TYR LEU LEU ASP ILE SEQRES 19 A 461 GLY GLY GLY PHE PRO GLY SER GLU ASP VAL LYS LEU LYS SEQRES 20 A 461 PHE GLU GLU ILE THR GLY VAL ILE ASN PRO ALA LEU ASP SEQRES 21 A 461 LYS TYR PHE PRO SER ASP SER GLY VAL ARG ILE ILE ALA SEQRES 22 A 461 GLU PRO GLY ARG TYR TYR VAL ALA SER ALA PHE THR LEU SEQRES 23 A 461 ALA VAL ASN ILE ILE ALA LYS LYS ILE VAL LEU LYS GLU SEQRES 24 A 461 GLN THR GLY SER ASP ASP GLU ASP GLU SER SER GLU GLN SEQRES 25 A 461 THR PHE MET TYR TYR VAL ASN ASP GLY VAL TYR GLY SER SEQRES 26 A 461 PHE ASN CYS ILE LEU TYR ASP HIS ALA HIS VAL LYS PRO SEQRES 27 A 461 LEU LEU GLN LYS ARG PRO LYS PRO ASP GLU LYS TYR TYR SEQRES 28 A 461 SER SER SER ILE TRP GLY PRO THR CYS ASP GLY LEU ASP SEQRES 29 A 461 ARG ILE VAL GLU ARG CYS ASP LEU PRO GLU MET HIS VAL SEQRES 30 A 461 GLY ASP TRP MET LEU PHE GLU ASN MET GLY ALA TYR THR SEQRES 31 A 461 VAL ALA ALA ALA SER THR PHE ASN GLY PHE GLN ARG PRO SEQRES 32 A 461 THR ILE TYR TYR VAL MET SER GLY PRO ALA TRP GLN LEU SEQRES 33 A 461 MET GLN GLN PHE GLN ASN PRO ASP PHE PRO PRO GLU VAL SEQRES 34 A 461 GLU GLU GLN ASP ALA SER THR LEU PRO VAL SER CYS ALA SEQRES 35 A 461 TRP GLU SER GLY MET LYS ARG HIS ARG ALA ALA CYS ALA SEQRES 36 A 461 SER ALA SER ILE ASN VAL SEQRES 1 B 160 ASP ALA PRO HIS PRO PRO LEU LYS ILE PRO GLY GLY ARG SEQRES 2 B 160 GLY ASN SER GLN ARG ASP HIS ASN LEU SER ALA ASN LEU SEQRES 3 B 160 PHE TYR SER ASP ASP ARG LEU ASN VAL THR GLU GLU LEU SEQRES 4 B 160 THR SER ASN ASP LYS THR ARG ILE LEU ASN VAL GLN SER SEQRES 5 B 160 ARG LEU THR ASP ALA LYS ARG ILE ASN TRP ARG THR VAL SEQRES 6 B 160 LEU SER GLY GLY SER LEU TYR ILE GLU ILE PRO GLY GLY SEQRES 7 B 160 ALA LEU PRO GLU GLY SER LYS ASP SER PHE ALA VAL LEU SEQRES 8 B 160 LEU GLU PHE ALA GLU GLU GLN LEU ARG ALA ASP HIS VAL SEQRES 9 B 160 PHE ILE CYS PHE HIS LYS ASN ARG GLU ASP ARG ALA ALA SEQRES 10 B 160 LEU LEU ARG THR PHE SER PHE LEU GLY PHE GLU ILE VAL SEQRES 11 B 160 ARG PRO GLY HIS PRO LEU VAL PRO LYS ARG PRO ASP ALA SEQRES 12 B 160 CYS PHE MET ALA TYR THR PHE GLU ARG GLU SER SER GLY SEQRES 13 B 160 GLU GLU GLU GLU HET PLP A 600 16 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PLP C8 H10 N O6 P HELIX 1 AA1 ASP A 22 ILE A 28 1 7 HELIX 2 AA2 LEU A 45 LEU A 59 1 15 HELIX 3 AA3 LYS A 69 ASN A 71 5 3 HELIX 4 AA4 SER A 73 GLY A 84 1 12 HELIX 5 AA5 SER A 91 LEU A 101 1 11 HELIX 6 AA6 GLN A 116 ASN A 125 1 10 HELIX 7 AA7 SER A 135 HIS A 146 1 12 HELIX 8 AA8 THR A 173 GLU A 186 1 14 HELIX 9 AA9 ASP A 204 GLU A 206 5 3 HELIX 10 AB1 THR A 207 GLY A 226 1 20 HELIX 11 AB2 PHE A 248 PHE A 263 1 16 HELIX 12 AB3 GLY A 276 ALA A 281 1 6 HELIX 13 AB4 ASN A 327 ASP A 332 1 6 HELIX 14 AB5 LYS B 153 GLU B 165 1 13 HELIX 15 AB6 ASP B 182 LEU B 193 1 12 SHEET 1 AA1 5 ARG A 365 CYS A 370 0 SHEET 2 AA1 5 SER A 353 TRP A 356 -1 N SER A 353 O CYS A 370 SHEET 3 AA1 5 THR A 313 VAL A 318 1 N TYR A 316 O TRP A 356 SHEET 4 AA1 5 PHE A 284 VAL A 296 -1 N ILE A 291 O TYR A 317 SHEET 5 AA1 5 TRP A 380 GLU A 384 -1 O MET A 381 N VAL A 288 SHEET 1 AA2 6 ARG A 365 CYS A 370 0 SHEET 2 AA2 6 SER A 353 TRP A 356 -1 N SER A 353 O CYS A 370 SHEET 3 AA2 6 THR A 313 VAL A 318 1 N TYR A 316 O TRP A 356 SHEET 4 AA2 6 PHE A 284 VAL A 296 -1 N ILE A 291 O TYR A 317 SHEET 5 AA2 6 PHE A 40 ASP A 44 -1 N PHE A 40 O ALA A 287 SHEET 6 AA2 6 THR A 404 VAL A 408 1 O THR A 404 N TYR A 41 SHEET 1 AA3 9 THR A 63 ALA A 67 0 SHEET 2 AA3 9 GLY A 86 CYS A 89 1 O GLY A 86 N TYR A 66 SHEET 3 AA3 9 ILE A 108 TYR A 110 1 O ILE A 109 N PHE A 87 SHEET 4 AA3 9 MET A 130 PHE A 133 1 O MET A 130 N TYR A 110 SHEET 5 AA3 9 LYS A 150 ARG A 154 1 O ARG A 154 N PHE A 133 SHEET 6 AA3 9 VAL A 191 SER A 195 1 O VAL A 192 N LEU A 151 SHEET 7 AA3 9 LEU A 231 ASP A 233 1 O ASP A 233 N VAL A 194 SHEET 8 AA3 9 ILE A 271 ALA A 273 1 O ILE A 272 N LEU A 232 SHEET 9 AA3 9 THR A 63 ALA A 67 1 N THR A 63 O ILE A 271 SHEET 1 AA4 8 TYR B 96 SER B 97 0 SHEET 2 AA4 8 ASN B 102 GLU B 105 -1 O VAL B 103 N TYR B 96 SHEET 3 AA4 8 ILE B 115 SER B 120 -1 O ASN B 117 N THR B 104 SHEET 4 AA4 8 ILE B 128 SER B 135 -1 O TRP B 130 N VAL B 118 SHEET 5 AA4 8 SER B 138 GLU B 142 -1 O TYR B 140 N VAL B 133 SHEET 6 AA4 8 HIS B 171 HIS B 177 1 O PHE B 173 N LEU B 139 SHEET 7 AA4 8 ALA B 211 THR B 217 -1 O CYS B 212 N PHE B 176 SHEET 8 AA4 8 PHE B 195 ILE B 197 -1 N GLU B 196 O ALA B 215 CISPEP 1 ASN A 398 GLY A 399 0 -0.24 CISPEP 2 LYS B 112 THR B 113 0 5.27 CISPEP 3 GLY B 146 ALA B 147 0 4.78 CISPEP 4 SER B 152 LYS B 153 0 9.37 CISPEP 5 PHE B 162 ALA B 163 0 15.21 CISPEP 6 LYS B 178 ASN B 179 0 -15.78 CISPEP 7 ASN B 179 ARG B 180 0 -24.40 SITE 1 AC1 9 LYS A 69 ASP A 88 ALA A 111 HIS A 197 SITE 2 AC1 9 GLY A 237 GLU A 274 GLY A 276 ARG A 277 SITE 3 AC1 9 TYR A 389 CRYST1 53.154 74.084 157.083 90.00 90.00 90.00 P 21 21 21 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 0.018813 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013498 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006366 0.00000