HEADER CARTENOID BINDING PROTEIN 15-DEC-15 5FCY TITLE STRUCTURE OF ANABAENA (NOSTOC) SP. PCC 7120 RED CAROTENOID PROTEIN TITLE 2 BINDING A MIXTURE OF CAROTENOIDS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RED CAROTENOID PROTEIN (RCP); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOSTOC SP. (STRAIN PCC 7120 / UTEX 2576); SOURCE 3 ORGANISM_TAXID: 103690; SOURCE 4 STRAIN: PCC 7120 / UTEX 2576; SOURCE 5 GENE: ALL1123; SOURCE 6 EXPRESSION_SYSTEM: SYNECHOCYSTIS SP. PCC 6803; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 1148 KEYWDS CAROTENOID, PHOTOPROTECTION, CYANOBACTERIA, CARTENOID BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.SUTTER,R.L.LEVERRENZ,C.A.KERFELD REVDAT 3 27-SEP-23 5FCY 1 REMARK REVDAT 2 19-OCT-16 5FCY 1 JRNL REVDAT 1 27-JUL-16 5FCY 0 JRNL AUTH M.R.MELNICKI,R.L.LEVERENZ,M.SUTTER,R.LOPEZ-IGUAL,A.WILSON, JRNL AUTH 2 E.G.PAWLOWSKI,F.PERREAU,D.KIRILOVSKY,C.A.KERFELD JRNL TITL STRUCTURE, DIVERSITY, AND EVOLUTION OF A NEW FAMILY OF JRNL TITL 2 SOLUBLE CAROTENOID-BINDING PROTEINS IN CYANOBACTERIA. JRNL REF MOL PLANT V. 9 1379 2016 JRNL REFN ESSN 1752-9867 JRNL PMID 27392608 JRNL DOI 10.1016/J.MOLP.2016.06.009 REMARK 2 REMARK 2 RESOLUTION. 2.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_2152: ???) 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) : 2.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.020 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 5393 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.238 REMARK 3 R VALUE (WORKING SET) : 0.232 REMARK 3 FREE R VALUE : 0.292 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.010 REMARK 3 FREE R VALUE TEST SET COUNT : 540 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 32.4217 - 3.9800 1.00 1240 139 0.1966 0.2293 REMARK 3 2 3.9800 - 3.1599 1.00 1253 139 0.2328 0.3238 REMARK 3 3 3.1599 - 2.7607 1.00 1225 136 0.2899 0.3863 REMARK 3 4 2.7607 - 2.5084 0.90 1135 126 0.3050 0.3477 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) : 0.410 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.160 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 : 0.003 1165 REMARK 3 ANGLE : 0.719 1574 REMARK 3 CHIRALITY : 0.033 165 REMARK 3 PLANARITY : 0.004 209 REMARK 3 DIHEDRAL : 14.586 695 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 5FCY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1000215915. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00003 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5403 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.508 REMARK 200 RESOLUTION RANGE LOW (A) : 32.419 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.03100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 34.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.15600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AUTOSOL REMARK 200 STARTING MODEL: 4XB4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES PH 7.5, 10% 2-PROPANOL, REMARK 280 25% PEG 4000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 28.16733 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 14.08367 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 TOTAL BURIED SURFACE AREA: 1260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 KCAL/MOL 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. (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 THR A 2 REMARK 465 PHE A 3 REMARK 465 THR A 4 REMARK 465 GLN A 5 REMARK 465 THR A 6 REMARK 465 ASN A 7 REMARK 465 GLY A 38 REMARK 465 GLY A 39 REMARK 465 ALA A 40 REMARK 465 ILE A 41 REMARK 465 THR A 42 REMARK 465 PRO A 43 REMARK 465 ALA A 44 REMARK 465 ALA A 45 REMARK 465 PRO A 46 REMARK 465 GLY A 47 REMARK 465 ALA A 48 REMARK 465 SER A 49 REMARK 465 THR A 50 REMARK 465 VAL A 51 REMARK 465 GLU A 156 REMARK 465 ALA A 157 REMARK 465 LYS A 158 REMARK 465 ALA A 159 REMARK 465 GLY A 160 REMARK 465 ALA A 161 REMARK 465 GLU A 162 REMARK 465 ILE A 163 REMARK 465 HIS A 164 REMARK 465 HIS A 165 REMARK 465 HIS A 166 REMARK 465 HIS A 167 REMARK 465 HIS A 168 REMARK 465 HIS A 169 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 OE2 GLU A 126 O HOH A 301 2.08 REMARK 500 OG SER A 17 O HOH A 302 2.08 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 BCR A 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FCX RELATED DB: PDB DBREF 5FCY A 1 163 UNP Q8YXT8 Q8YXT8_NOSS1 1 163 SEQADV 5FCY HIS A 164 UNP Q8YXT8 EXPRESSION TAG SEQADV 5FCY HIS A 165 UNP Q8YXT8 EXPRESSION TAG SEQADV 5FCY HIS A 166 UNP Q8YXT8 EXPRESSION TAG SEQADV 5FCY HIS A 167 UNP Q8YXT8 EXPRESSION TAG SEQADV 5FCY HIS A 168 UNP Q8YXT8 EXPRESSION TAG SEQADV 5FCY HIS A 169 UNP Q8YXT8 EXPRESSION TAG SEQRES 1 A 169 MET THR PHE THR GLN THR ASN ASP PRO THR ILE ARG LYS SEQRES 2 A 169 TYR VAL GLN SER TRP GLN LYS LEU ASP VAL ASP GLU GLN SEQRES 3 A 169 LEU ALA LEU PHE TRP PHE ILE TYR LYS GLU MET GLY GLY SEQRES 4 A 169 ALA ILE THR PRO ALA ALA PRO GLY ALA SER THR VAL SER SEQRES 5 A 169 PRO ALA ILE ALA GLU GLY LEU PHE ASN GLN VAL LYS GLU SEQRES 6 A 169 LEU ASN HIS GLU GLN GLN LEU GLN LEU GLN ARG ASP LEU SEQRES 7 A 169 ILE ARG ARG VAL ASP ASN GLN LEU SER ARG GLU TYR GLY SEQRES 8 A 169 SER LEU GLY ASP THR THR LYS LEU LEU PHE TRP TYR LEU SEQRES 9 A 169 LEU SER GLN GLY MET ASP ASN ALA THR ILE VAL PRO PHE SEQRES 10 A 169 PRO ALA ASP TYR LYS LEU SER SER GLU SER GLN GLU LEU SEQRES 11 A 169 LEU GLU GLY ILE LYS GLY LEU GLY PHE GLU GLN GLN ILE SEQRES 12 A 169 THR LEU PHE ARG ASP TYR VAL SER PRO MET GLY ALA GLU SEQRES 13 A 169 ALA LYS ALA GLY ALA GLU ILE HIS HIS HIS HIS HIS HIS HET BCR A 201 96 HETNAM BCR BETA-CAROTENE FORMUL 2 BCR C40 H56 FORMUL 3 HOH *23(H2 O) HELIX 1 AA1 ASP A 8 LYS A 20 1 13 HELIX 2 AA2 ASP A 22 GLU A 36 1 15 HELIX 3 AA3 PRO A 53 GLU A 65 1 13 HELIX 4 AA4 ASN A 67 ARG A 80 1 14 HELIX 5 AA5 ASN A 84 SER A 92 1 9 HELIX 6 AA6 GLY A 94 ASN A 111 1 18 HELIX 7 AA7 SER A 124 LEU A 137 1 14 HELIX 8 AA8 GLY A 138 SER A 151 1 14 SITE 1 AC1 12 ASP A 24 LEU A 27 PHE A 30 TRP A 31 SITE 2 AC1 12 LEU A 72 GLN A 75 LEU A 100 TRP A 102 SITE 3 AC1 12 MET A 109 PHE A 117 PRO A 118 ILE A 143 CRYST1 58.373 58.373 42.251 90.00 90.00 120.00 P 32 3 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 0.017131 0.009891 0.000000 0.00000 SCALE2 0.000000 0.019781 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023668 0.00000