HEADER METAL BINDING PROTEIN 24-JAN-24 8VSX TITLE NMR STRUCTURE OF GCAP5 R22A COMPND MOL_ID: 1; COMPND 2 MOLECULE: GUANYLYL CYCLASE-ACTIVATING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GUANYLATE CYCLASE ACTIVATOR 1A; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: GUCA1E, GUCA1E; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS EF-HAND, GCAP5, PHOTOTRANSDUCTION, RETINAL GUANYLYL CYCLASE, METAL KEYWDS 2 BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR D.L.CUDIA,J.B.AMES REVDAT 1 08-MAY-24 8VSX 0 JRNL AUTH D.L.CUDIA,E.O.AHOULOU,A.BEJ,A.N.JANSSEN,A.SCHOLTEN,K.W.KOCH, JRNL AUTH 2 J.B.AMES JRNL TITL NMR STRUCTURE OF RETINAL GUANYLATE CYCLASE ACTIVATING JRNL TITL 2 PROTEIN 5 (GCAP5) WITH R22A MUTATION THAT ABOLISHES JRNL TITL 3 DIMERIZATION AND ENHANCES CYCLASE ACTIVATION. JRNL REF BIOCHEMISTRY 2024 JRNL REFN ISSN 0006-2960 JRNL PMID 38662574 JRNL DOI 10.1021/ACS.BIOCHEM.4C00046 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8VSX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1000281147. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 305 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 5 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.75 MM [U-100% 15N] GUANYLYL REMARK 210 CYCLASE ACTIVATING PROTEIN-5 REMARK 210 (GCAP5) WITH R22A MUTATION, 5 MM REMARK 210 [U-99% 2H] TRIS-D11, 2 MM [U-99% REMARK 210 2H] DTT-D10, 93% H2O/7% D2O; REMARK 210 0.75 MM [U-100% 13C; U-100% 15N] REMARK 210 GUANYLYL CYCLASE ACTIVATING REMARK 210 PROTEIN-5 (GCAP5) WITH R22A REMARK 210 MUTATION, 5 MM [U-99% 2H] TRIS- REMARK 210 D11, 2 MM [U-99% 2H] DTT-D10, 93% REMARK 210 H2O/7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCACB; 3D HNCACBI; 3D CBCA(CO) REMARK 210 NH; 3D HN(COCA)CB; 3D HBHA(CO)NH; REMARK 210 3D HBHANH; 2D (HB)CB(CGCD)HD; REMARK 210 2D HBCBCGCDCEHE; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 3D HCCH-TOCSY; 3D REMARK 210 C(CO)NH; 3D 1H-13C NOESY REMARK 210 ALIPHATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRFAM-SPARKY, X-PLOR REMARK 210 NIH REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 1-10 REMARK 465 RES C SSSEQI REMARK 465 ASP A 184 REMARK 465 SER A 185 REMARK 465 TYR A 186 REMARK 465 ILE A 187 REMARK 465 GLU A 188 REMARK 465 GLN A 189 REMARK 465 GLU A 190 REMARK 465 ALA A 191 REMARK 465 GLU A 192 REMARK 465 ILE A 193 REMARK 465 ILE A 194 REMARK 465 GLU A 195 REMARK 465 ASP A 196 REMARK 465 GLN A 197 REMARK 465 ALA A 198 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 O TRP A 93 H LEU A 97 1.51 REMARK 500 O ASP A 161 H LYS A 163 1.55 REMARK 500 O ALA A 134 H PHE A 138 1.57 REMARK 500 O SER A 48 H SER A 51 1.58 REMARK 500 O PHE A 42 O TYR A 182 2.18 REMARK 500 O LYS A 39 O PHE A 42 2.19 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 ASP A 3 -130.25 21.81 REMARK 500 1 SER A 4 -170.02 64.02 REMARK 500 1 MET A 7 -167.50 36.86 REMARK 500 1 LYS A 16 119.25 36.37 REMARK 500 1 CYS A 17 -56.40 -122.93 REMARK 500 1 HIS A 18 -36.62 150.57 REMARK 500 1 CYS A 28 162.10 85.22 REMARK 500 1 PRO A 29 77.47 -69.18 REMARK 500 1 GLN A 32 131.15 97.15 REMARK 500 1 LEU A 44 160.53 166.86 REMARK 500 1 LEU A 47 -57.20 -159.14 REMARK 500 1 SER A 48 -132.04 -145.18 REMARK 500 1 ILE A 64 89.25 26.44 REMARK 500 1 ASP A 65 -69.01 68.20 REMARK 500 1 MET A 73 -53.82 -167.84 REMARK 500 1 PHE A 98 -34.87 141.78 REMARK 500 1 ASP A 101 -88.25 -17.76 REMARK 500 1 LYS A 108 -71.20 72.43 REMARK 500 1 ILE A 121 5.76 -68.88 REMARK 500 1 ASP A 161 -46.47 76.85 REMARK 500 1 GLU A 162 -54.72 66.31 REMARK 500 1 ASP A 173 -159.90 -82.33 REMARK 500 1 LEU A 174 -60.41 -108.16 REMARK 500 1 TYR A 182 153.57 166.85 REMARK 500 2 ASP A 3 -127.12 33.19 REMARK 500 2 SER A 5 73.52 65.96 REMARK 500 2 SER A 6 -140.54 69.94 REMARK 500 2 LYS A 16 109.95 45.64 REMARK 500 2 CYS A 17 84.41 -159.63 REMARK 500 2 HIS A 18 -28.07 -26.29 REMARK 500 2 SER A 30 -45.54 -132.11 REMARK 500 2 GLN A 32 121.60 70.18 REMARK 500 2 ASP A 65 -119.82 -132.08 REMARK 500 2 ASP A 67 15.22 85.67 REMARK 500 2 MET A 73 -45.41 147.10 REMARK 500 2 LYS A 84 -143.30 -126.76 REMARK 500 2 PHE A 98 64.41 -101.11 REMARK 500 2 MET A 100 91.96 176.35 REMARK 500 2 ASP A 101 -33.51 172.87 REMARK 500 2 LYS A 108 -42.31 68.13 REMARK 500 2 ASN A 122 -74.75 58.53 REMARK 500 2 GLU A 127 -96.24 172.86 REMARK 500 2 ALA A 160 -110.82 -15.61 REMARK 500 2 ASP A 173 -141.06 172.97 REMARK 500 2 LEU A 174 -155.65 -132.62 REMARK 500 2 THR A 175 -85.69 35.66 REMARK 500 3 LYS A 16 150.40 44.45 REMARK 500 3 CYS A 17 21.32 -178.75 REMARK 500 3 HIS A 18 -37.55 68.12 REMARK 500 3 GLN A 32 120.03 57.05 REMARK 500 REMARK 500 THIS ENTRY HAS 200 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 51783 RELATED DB: BMRB REMARK 900 RELATED ID: 51784 RELATED DB: BMRB DBREF 8VSX A 2 198 UNP Q5MAC8 Q5MAC8_DANRE 2 198 SEQADV 8VSX MYR A 1 UNP Q5MAC8 EXPRESSION TAG SEQADV 8VSX ALA A 22 UNP Q5MAC8 ARG 22 ENGINEERED MUTATION SEQRES 1 A 198 MYR GLY ASP SER SER SER MET SER ALA THR GLU LEU SER SEQRES 2 A 198 ALA CYS LYS CYS HIS GLN TRP TYR ALA LYS PHE MET THR SEQRES 3 A 198 GLU CYS PRO SER GLY GLN LEU THR PHE TYR GLU PHE LYS SEQRES 4 A 198 LYS PHE PHE GLY LEU LYS ASN LEU SER GLU LYS SER ASN SEQRES 5 A 198 ALA TYR VAL ASN THR MET PHE LYS THR PHE ASP ILE ASP SEQRES 6 A 198 ASP ASP GLY CYS ILE ASP PHE MET GLU TYR VAL ALA ALA SEQRES 7 A 198 LEU SER LEU VAL LEU LYS GLY GLY VAL GLN GLN LYS LEU SEQRES 8 A 198 ARG TRP TYR PHE LYS LEU PHE ASP MET ASP GLY SER GLY SEQRES 9 A 198 CYS ILE ASP LYS ASP GLU LEU LEU LEU ILE PHE LYS ALA SEQRES 10 A 198 VAL GLN ALA ILE ASN GLY ALA GLU PRO GLU ILE SER ALA SEQRES 11 A 198 GLU ASP LEU ALA ASP ILE VAL PHE ASN LYS ILE ASP VAL SEQRES 12 A 198 ASN GLY ASP GLY GLU LEU SER LEU GLU GLU PHE MET GLU SEQRES 13 A 198 GLY ILE SER ALA ASP GLU LYS ILE SER GLU MET LEU THR SEQRES 14 A 198 GLN SER LEU ASP LEU THR ARG ILE VAL SER ASN ILE TYR SEQRES 15 A 198 ASN ASP SER TYR ILE GLU GLN GLU ALA GLU ILE ILE GLU SEQRES 16 A 198 ASP GLN ALA HET MYR A 1 42 HETNAM MYR MYRISTIC ACID FORMUL 1 MYR C14 H28 O2 HELIX 1 AA1 SER A 8 LYS A 16 1 9 HELIX 2 AA2 GLN A 19 GLU A 27 1 9 HELIX 3 AA3 THR A 34 PHE A 42 1 9 HELIX 4 AA4 SER A 48 ASP A 63 1 16 HELIX 5 AA5 GLU A 74 LEU A 83 1 10 HELIX 6 AA6 GLY A 86 LEU A 97 1 12 HELIX 7 AA7 LYS A 108 ALA A 120 1 13 HELIX 8 AA8 SER A 129 ASP A 142 1 14 HELIX 9 AA9 SER A 150 ALA A 160 1 11 HELIX 10 AB1 GLU A 162 LEU A 172 1 11 HELIX 11 AB2 LEU A 174 TYR A 182 1 9 LINK C1 MYR A 1 N GLY A 2 1555 1555 1.33 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 MODEL 1 HETATM 1 C1 MYR A 1 -2.396 43.657 43.790 1.00 0.00 C HETATM 2 O1 MYR A 1 -1.175 43.521 43.873 1.00 0.00 O HETATM 3 C2 MYR A 1 -3.060 44.978 44.163 1.00 0.00 C HETATM 4 C3 MYR A 1 -3.222 45.851 42.918 1.00 0.00 C HETATM 5 C4 MYR A 1 -1.943 46.660 42.694 1.00 0.00 C HETATM 6 C5 MYR A 1 -0.923 45.805 41.939 1.00 0.00 C HETATM 7 C6 MYR A 1 0.014 46.714 41.143 1.00 0.00 C HETATM 8 C7 MYR A 1 1.129 47.225 42.058 1.00 0.00 C HETATM 9 C8 MYR A 1 0.658 48.490 42.778 1.00 0.00 C HETATM 10 C9 MYR A 1 1.547 48.744 43.998 1.00 0.00 C HETATM 11 C10 MYR A 1 0.920 48.095 45.232 1.00 0.00 C HETATM 12 C11 MYR A 1 0.621 49.170 46.280 1.00 0.00 C HETATM 13 C12 MYR A 1 0.997 48.639 47.663 1.00 0.00 C HETATM 14 C13 MYR A 1 0.605 49.653 48.739 1.00 0.00 C HETATM 15 C14 MYR A 1 1.337 49.311 50.038 1.00 0.00 C HETATM 16 H21 MYR A 1 -2.449 45.495 44.886 1.00 0.00 H HETATM 17 H22 MYR A 1 -4.032 44.781 44.591 1.00 0.00 H HETATM 18 H31 MYR A 1 -4.055 46.524 43.055 1.00 0.00 H HETATM 19 H32 MYR A 1 -3.405 45.222 42.059 1.00 0.00 H HETATM 20 H41 MYR A 1 -1.532 46.953 43.648 1.00 0.00 H HETATM 21 H42 MYR A 1 -2.173 47.542 42.115 1.00 0.00 H HETATM 22 H51 MYR A 1 -1.441 45.140 41.263 1.00 0.00 H HETATM 23 H52 MYR A 1 -0.348 45.224 42.645 1.00 0.00 H HETATM 24 H61 MYR A 1 -0.543 47.554 40.753 1.00 0.00 H HETATM 25 H62 MYR A 1 0.446 46.159 40.324 1.00 0.00 H HETATM 26 H71 MYR A 1 2.004 47.452 41.467 1.00 0.00 H HETATM 27 H72 MYR A 1 1.374 46.465 42.785 1.00 0.00 H HETATM 28 H81 MYR A 1 -0.365 48.362 43.099 1.00 0.00 H HETATM 29 H82 MYR A 1 0.723 49.332 42.105 1.00 0.00 H HETATM 30 H91 MYR A 1 1.641 49.808 44.159 1.00 0.00 H HETATM 31 H92 MYR A 1 2.525 48.318 43.825 1.00 0.00 H HETATM 32 H101 MYR A 1 1.607 47.371 45.647 1.00 0.00 H HETATM 33 H102 MYR A 1 0.002 47.599 44.952 1.00 0.00 H HETATM 34 H111 MYR A 1 -0.431 49.414 46.258 1.00 0.00 H HETATM 35 H112 MYR A 1 1.201 50.056 46.063 1.00 0.00 H HETATM 36 H121 MYR A 1 2.061 48.473 47.701 1.00 0.00 H HETATM 37 H122 MYR A 1 0.480 47.708 47.843 1.00 0.00 H HETATM 38 H131 MYR A 1 -0.461 49.613 48.903 1.00 0.00 H HETATM 39 H132 MYR A 1 0.885 50.646 48.418 1.00 0.00 H HETATM 40 H141 MYR A 1 1.363 50.181 50.678 1.00 0.00 H HETATM 41 H142 MYR A 1 0.818 48.508 50.542 1.00 0.00 H HETATM 42 H143 MYR A 1 2.346 49.000 49.811 1.00 0.00 H