PDB Short entry for 2KOM HEADER SIGNALING PROTEIN 24-SEP-09 2KOM TITLE SOLUTION STRUCTURE OF HUMAR PAR-3B PDZ2 (RESIDUES 451-549) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PARTITIONING DEFECTIVE 3 HOMOLOG; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PDZ 2 DOMAIN; COMPND 5 SYNONYM: PARD-3, PAR-3, ATYPICAL PKC ISOTYPE-SPECIFIC-INTERACTING COMPND 6 PROTEIN, ASIP, CTCL TUMOR ANTIGEN SE2-5, PAR3-ALPHA; COMPND 7 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: PARD3, PAR3, PAR3A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SG130099[PREP4]; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PQE30-8HT KEYWDS PAR-3B, PDZ DOMAIN, PSI, STRUCTURAL GENOMICS, ALTERNATIVE SPLICING, KEYWDS 2 CELL CYCLE, CELL DIVISION, CELL JUNCTION, CELL MEMBRANE, COILED KEYWDS 3 COIL, CYTOPLASM, CYTOSKELETON, MEMBRANE, PHOSPHOPROTEIN, KEYWDS 4 POLYMORPHISM, TIGHT JUNCTION, SIGNALING PROTEIN, PROTEIN STRUCTURE KEYWDS 5 INITIATIVE, CENTER FOR EUKARYOTIC STRUCTURAL GENOMICS, CESG EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.F.VOLKMAN,R.C.TYLER,F.C.PETERSON,CENTER FOR EUKARYOTIC STRUCTURAL AUTHOR 2 GENOMICS (CESG) REVDAT 3 16-MAR-22 2KOM 1 REMARK SEQADV REVDAT 2 16-MAR-10 2KOM 1 JRNL REVDAT 1 10-NOV-09 2KOM 0 JRNL AUTH D.R.JENSEN,C.WOYTOVICH,M.LI,P.DUVNJAK,M.S.CASSIDY, JRNL AUTH 2 R.O.FREDERICK,L.F.BERGEMAN,F.C.PETERSON,B.F.VOLKMAN JRNL TITL RAPID, ROBOTIC, SMALL-SCALE PROTEIN PRODUCTION FOR NMR JRNL TITL 2 SCREENING AND STRUCTURE DETERMINATION. JRNL REF PROTEIN SCI. V. 19 570 2010 JRNL REFN ISSN 0961-8368 JRNL PMID 20073081 JRNL DOI 10.1002/PRO.335 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.9.3 REMARK 3 AUTHORS : REMARK 3 SCHWIETERS,C.D.,KUSZEWSKI,J.J.,TJANDRA,N.,CLORE,G.M. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES ARE BASED ON A TOTAL OF 1318 REMARK 3 NOE CONSTRAINTS (351 INTRA, 296 SEQUENTIAL, 178 MEDIUM, AND 520 REMARK 3 LONG RANGE) AND 99 PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS. REMARK 4 REMARK 4 2KOM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000101379. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 53 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 HPAR-3 PDZ2, 20 MM SODIUM REMARK 210 PHOSPHATE, 50 MM SODIUM CHLORIDE, REMARK 210 90 % H2O, 10 % D2O, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY (AROMATIC); 3D REMARK 210 HNCO; 3D HNCA; 3D HNCACB; 3D REMARK 210 HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 2.1, NMRPIPE 2007, XEASY REMARK 210 1.3, GARANT 2.1, CYANA 2.1 REMARK 210 METHOD USED : AUTOMATED METHODS WERE USED FOR REMARK 210 BACKBONE CHEMICAL SHIFT REMARK 210 ASSIGNMENT AND ITERATIVE NOE REMARK 210 REFINEMENT. FINAL STRUCTURES REMARK 210 WERE OBTAINED BY MOLECULAR REMARK 210 DYNAMICS IN EXPLICIT SOLVENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 MET A 429 REMARK 465 ARG A 430 REMARK 465 GLY A 431 REMARK 465 SER A 432 REMARK 465 HIS A 433 REMARK 465 HIS A 434 REMARK 465 HIS A 435 REMARK 465 HIS A 436 REMARK 465 HIS A 437 REMARK 465 HIS A 438 REMARK 465 HIS A 439 REMARK 465 HIS A 440 REMARK 465 GLY A 441 REMARK 465 SER A 442 REMARK 465 GLU A 443 REMARK 465 ASN A 444 REMARK 465 LEU A 445 REMARK 465 TYR A 446 REMARK 465 PHE A 447 REMARK 465 GLN A 448 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 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 1 THR A 453 -35.88 -139.79 REMARK 500 1 LYS A 454 89.74 64.22 REMARK 500 1 GLU A 469 56.10 -119.67 REMARK 500 1 ARG A 478 -83.76 -118.37 REMARK 500 1 ILE A 482 90.61 66.80 REMARK 500 1 SER A 485 -18.55 173.39 REMARK 500 1 ALA A 486 115.52 71.12 REMARK 500 1 PRO A 495 30.18 -71.28 REMARK 500 1 ARG A 496 -8.86 -159.70 REMARK 500 1 VAL A 520 99.94 -65.67 REMARK 500 1 THR A 534 -89.67 69.19 REMARK 500 1 LYS A 535 175.93 170.87 REMARK 500 1 GLU A 548 76.44 -119.08 REMARK 500 2 TYR A 451 148.56 65.84 REMARK 500 2 LYS A 454 86.87 63.57 REMARK 500 2 LEU A 471 95.81 -51.65 REMARK 500 2 ARG A 478 -68.24 -95.32 REMARK 500 2 ASP A 479 151.22 170.31 REMARK 500 2 THR A 481 70.17 53.09 REMARK 500 2 ILE A 482 -23.24 172.68 REMARK 500 2 ALA A 486 110.77 77.03 REMARK 500 2 LYS A 491 -61.30 -93.27 REMARK 500 2 THR A 534 -92.91 66.65 REMARK 500 2 LYS A 535 171.86 170.48 REMARK 500 2 GLU A 537 -79.26 -72.58 REMARK 500 2 GLU A 548 -177.49 69.70 REMARK 500 3 THR A 453 -73.18 -93.04 REMARK 500 3 THR A 468 -86.72 63.24 REMARK 500 3 LEU A 471 96.13 -43.83 REMARK 500 3 ARG A 478 -74.26 -95.14 REMARK 500 3 PRO A 495 24.68 -72.14 REMARK 500 3 ARG A 496 7.02 -160.29 REMARK 500 3 ASN A 515 -66.22 70.62 REMARK 500 3 THR A 534 -87.03 66.30 REMARK 500 3 LYS A 535 158.26 165.58 REMARK 500 4 LYS A 466 106.10 -59.73 REMARK 500 4 LEU A 471 89.10 57.37 REMARK 500 4 ASP A 479 148.90 70.44 REMARK 500 4 THR A 481 85.64 63.40 REMARK 500 4 ILE A 482 86.23 71.28 REMARK 500 4 SER A 485 -61.06 74.79 REMARK 500 4 ALA A 486 147.12 69.36 REMARK 500 4 PRO A 495 22.19 -69.02 REMARK 500 4 ARG A 496 -2.98 -160.07 REMARK 500 4 THR A 534 -2.88 63.85 REMARK 500 4 LYS A 535 146.40 70.13 REMARK 500 5 LYS A 466 88.01 -60.81 REMARK 500 5 THR A 468 -72.73 -48.99 REMARK 500 5 LEU A 471 85.51 69.16 REMARK 500 5 ASP A 479 109.14 -46.47 REMARK 500 REMARK 500 THIS ENTRY HAS 192 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2KOM A 451 549 UNP Q8TEW0 PARD3_HUMAN 451 549 SEQADV 2KOM MET A 429 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM ARG A 430 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM GLY A 431 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM SER A 432 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 433 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 434 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 435 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 436 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 437 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 438 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 439 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM HIS A 440 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM GLY A 441 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM SER A 442 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM GLU A 443 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM ASN A 444 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM LEU A 445 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM TYR A 446 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM PHE A 447 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM GLN A 448 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM GLY A 449 UNP Q8TEW0 EXPRESSION TAG SEQADV 2KOM SER A 450 UNP Q8TEW0 EXPRESSION TAG SEQRES 1 A 121 MET ARG GLY SER HIS HIS HIS HIS HIS HIS HIS HIS GLY SEQRES 2 A 121 SER GLU ASN LEU TYR PHE GLN GLY SER TYR ASN THR LYS SEQRES 3 A 121 LYS ILE GLY LYS ARG LEU ASN ILE GLN LEU LYS LYS GLY SEQRES 4 A 121 THR GLU GLY LEU GLY PHE SER ILE THR SER ARG ASP VAL SEQRES 5 A 121 THR ILE GLY GLY SER ALA PRO ILE TYR VAL LYS ASN ILE SEQRES 6 A 121 LEU PRO ARG GLY ALA ALA ILE GLN ASP GLY ARG LEU LYS SEQRES 7 A 121 ALA GLY ASP ARG LEU ILE GLU VAL ASN GLY VAL ASP LEU SEQRES 8 A 121 VAL GLY LYS SER GLN GLU GLU VAL VAL SER LEU LEU ARG SEQRES 9 A 121 SER THR LYS MET GLU GLY THR VAL SER LEU LEU VAL PHE SEQRES 10 A 121 ARG GLN GLU ASP HELIX 1 1 GLY A 497 ASP A 502 1 6 HELIX 2 2 SER A 523 THR A 534 1 12 SHEET 1 A 5 LYS A 458 LYS A 465 0 SHEET 2 A 5 THR A 539 ARG A 546 -1 O LEU A 542 N ILE A 462 SHEET 3 A 5 ARG A 510 VAL A 514 -1 N ILE A 512 O LEU A 543 SHEET 4 A 5 ILE A 488 ILE A 493 -1 N ILE A 488 O LEU A 511 SHEET 5 A 5 PHE A 473 THR A 476 -1 N THR A 476 O TYR A 489 SHEET 1 B 4 LYS A 458 LYS A 465 0 SHEET 2 B 4 THR A 539 ARG A 546 -1 O LEU A 542 N ILE A 462 SHEET 3 B 4 ARG A 510 VAL A 514 -1 N ILE A 512 O LEU A 543 SHEET 4 B 4 VAL A 517 ASP A 518 -1 O VAL A 517 N VAL A 514 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000