HEADER LIPID BINDING PROTEIN 25-NOV-10 3PPT TITLE REP1-NXSQ FATTY ACID TRANSPORTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: REP1-NCXSQ; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LOLIGO PEALEI; SOURCE 3 ORGANISM_COMMON: LONGFIN INSHORE SQUID; SOURCE 4 ORGANISM_TAXID: 6621; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS FATTY ACID TRANSPORTER, LIPID BINDING PROTEINS, SQUID NERVE, KEYWDS 2 REGULATORY FACTOR, BETA-SANDWICH, FATTY ACID, LIPID BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.BERBERIAN,M.BOLLO,E.HOWARD,A.COUSIDO-SIAH,A.MITSCHLER,D.AYOUB, AUTHOR 2 S.SANGLIER-CIANFERANI,A.VAN DORSSELAER,R.DIPOLO,L.BEAUGE,T.PETROVA, AUTHOR 3 C.SCHULZE-BRIESE,M.WANG,A.PODJARNY REVDAT 5 06-SEP-23 3PPT 1 REMARK SEQADV REVDAT 4 15-AUG-18 3PPT 1 COMPND REVDAT 3 23-JAN-13 3PPT 1 JRNL REVDAT 2 29-AUG-12 3PPT 1 JRNL REVDAT 1 21-DEC-11 3PPT 0 JRNL AUTH A.COUSIDO-SIAH,D.AYOUB,G.BERBERIAN,M.BOLLO,A.VAN DORSSELAER, JRNL AUTH 2 F.DEBAENE,R.DIPOLO,T.PETROVA,C.SCHULZE-BRIESE,V.OLIERIC, JRNL AUTH 3 A.ESTEVES,A.MITSCHLER,S.SANGLIER-CIANFERANI,L.BEAUGE, JRNL AUTH 4 A.PODJARNY JRNL TITL STRUCTURAL AND FUNCTIONAL STUDIES OF REP1-NCXSQ, A PROTEIN JRNL TITL 2 REGULATING THE SQUID NERVE NA+/CA2+ EXCHANGER. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 68 1098 2012 JRNL REFN ISSN 0907-4449 JRNL PMID 22948910 JRNL DOI 10.1107/S090744491202094X REMARK 2 REMARK 2 RESOLUTION. 1.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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) : 1.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.25 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 31468 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.136 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.171 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1595 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 30.2544 - 2.8470 0.96 2839 139 0.1440 0.1414 REMARK 3 2 2.8470 - 2.2600 1.00 2768 177 0.1453 0.2105 REMARK 3 3 2.2600 - 1.9744 1.00 2767 157 0.1273 0.1610 REMARK 3 4 1.9744 - 1.7939 0.99 2738 140 0.1299 0.1516 REMARK 3 5 1.7939 - 1.6653 0.99 2727 145 0.1137 0.1773 REMARK 3 6 1.6653 - 1.5671 0.99 2699 156 0.1112 0.1620 REMARK 3 7 1.5671 - 1.4887 0.99 2688 144 0.1140 0.1797 REMARK 3 8 1.4887 - 1.4239 0.98 2674 146 0.1311 0.1882 REMARK 3 9 1.4239 - 1.3690 0.99 2676 145 0.1327 0.1920 REMARK 3 10 1.3690 - 1.3218 0.98 2686 119 0.1508 0.2342 REMARK 3 11 1.3218 - 1.2805 0.96 2611 127 0.2139 0.2357 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 : 0.38 REMARK 3 B_SOL : 64.21 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.68330 REMARK 3 B22 (A**2) : 3.79520 REMARK 3 B33 (A**2) : -1.11190 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.008 1318 REMARK 3 ANGLE : 1.291 1791 REMARK 3 CHIRALITY : 0.078 195 REMARK 3 PLANARITY : 0.006 238 REMARK 3 DIHEDRAL : 12.371 535 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 3PPT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000062671. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-NOV-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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) : 0.9000 REMARK 200 MONOCHROMATOR : BARTELS MONOCHROMATOR WITH DUAL REMARK 200 CHANNEL CUT CRYSTALS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31531 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.280 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04300 REMARK 200 FOR THE DATA SET : 32.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.37600 REMARK 200 FOR SHELL : 4.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1YIV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% PEG 2000 MME, 0.2 M KCL, PH 6.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 20.16100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.24600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.79950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 30.24600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.16100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.79950 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: 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 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 GLU A 134 CD OE1 OE2 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 120 -121.63 47.19 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 PAM A 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YIV RELATED DB: PDB REMARK 900 STRUCTURE OF MYELIN P2 PROTEIN FROM EQUINE SPINAL CORD REMARK 900 RELATED ID: 3PP6 RELATED DB: PDB REMARK 900 REP1-NXSQ FATTY ACID TRANSPORTER Y128F MUTANT DBREF 3PPT A 2 132 UNP C4N147 C4N147_LOLPE 2 132 SEQADV 3PPT LEU A 133 UNP C4N147 EXPRESSION TAG SEQADV 3PPT GLU A 134 UNP C4N147 EXPRESSION TAG SEQRES 1 A 133 ALA ALA ASP LEU ALA GLY LYS TRP ILE LEU GLU SER SER SEQRES 2 A 133 GLU ASN PHE ASP ASP TYR MET LYS ALA VAL GLY VAL GLY SEQRES 3 A 133 MET VAL MET ARG LYS MET ALA ASN ALA ALA THR PRO THR SEQRES 4 A 133 GLN GLU ILE LYS ILE ASP GLY ASP SER TRP SER ILE LYS SEQRES 5 A 133 THR SER THR THR PHE LYS THR THR ASP ILE SER PHE THR SEQRES 6 A 133 ILE GLY GLN GLU PHE ASP GLU THR THR GLY ASP GLY ARG SEQRES 7 A 133 LYS ILE LYS THR THR CYS LYS ILE ASP GLY ASN ALA MET SEQRES 8 A 133 ILE GLN ASP GLN LYS GLY SER PRO ASP SER ILE LEU SER SEQRES 9 A 133 ARG GLU VAL LYS ASP GLY LYS MET HIS MET ILE LEU LYS SEQRES 10 A 133 VAL ASN ASP VAL VAL CYS THR ARG ILE TYR LYS ARG VAL SEQRES 11 A 133 ASP LEU GLU HET PAM A 500 18 HETNAM PAM PALMITOLEIC ACID FORMUL 2 PAM C16 H30 O2 FORMUL 3 HOH *252(H2 O) HELIX 1 1 ALA A 2 ALA A 6 5 5 HELIX 2 2 ASN A 16 GLY A 25 1 10 HELIX 3 3 GLY A 27 ALA A 37 1 11 SHEET 1 A10 THR A 60 THR A 66 0 SHEET 2 A10 SER A 49 SER A 55 -1 N TRP A 50 O PHE A 65 SHEET 3 A10 THR A 40 ASP A 46 -1 N ASP A 46 O SER A 49 SHEET 4 A10 GLY A 7 GLU A 15 -1 N GLY A 7 O ILE A 43 SHEET 5 A10 VAL A 122 VAL A 131 -1 O ILE A 127 N GLU A 12 SHEET 6 A10 LYS A 112 VAL A 119 -1 N VAL A 119 O VAL A 122 SHEET 7 A10 SER A 102 LYS A 109 -1 N GLU A 107 O HIS A 114 SHEET 8 A10 ALA A 91 LYS A 97 -1 N GLN A 94 O LEU A 104 SHEET 9 A10 LYS A 80 ASP A 88 -1 N LYS A 82 O LYS A 97 SHEET 10 A10 PHE A 71 THR A 74 -1 N PHE A 71 O THR A 83 CISPEP 1 SER A 99 PRO A 100 0 2.95 CISPEP 2 SER A 99 PRO A 100 0 2.47 SITE 1 AC1 13 MET A 30 GLN A 41 THR A 54 PHE A 58 SITE 2 AC1 13 LYS A 59 GLY A 76 ASP A 77 ARG A 79 SITE 3 AC1 13 MET A 115 ARG A 126 TYR A 128 HOH A 156 SITE 4 AC1 13 HOH A 337 CRYST1 40.322 49.599 60.492 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 0.024800 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020162 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016531 0.00000