PDB Short entry for 2MXC HEADER PROTEIN TRANSPORT 20-DEC-14 2MXC TITLE SOLUTION STRUCTURE OF THE FULL LENGTH SORTING NEXIN 3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SORTING NEXIN-3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PROTEIN SDP3; COMPND 5 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: SNX3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_COMMON: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28 KEYWDS PI3P, SNX3, MEMBRANE, ENDOSOME, PROTEIN TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.M.L.LENOIR,S.S.R.RAJESH,J.J.G.GRUENBERG,M.M.O.OVERDUIN,J.J.K.KAUR REVDAT 3 14-JUN-23 2MXC 1 REMARK SEQADV REVDAT 2 18-APR-18 2MXC 1 JRNL REVDAT 1 04-MAY-16 2MXC 0 JRNL AUTH M.LENOIR,C.USTUNEL,S.RAJESH,J.KAUR,D.MOREAU,J.GRUENBERG, JRNL AUTH 2 M.OVERDUIN JRNL TITL PHOSPHORYLATION OF CONSERVED PHOSPHOINOSITIDE BINDING POCKET JRNL TITL 2 REGULATES SORTING NEXIN MEMBRANE TARGETING. JRNL REF NAT COMMUN V. 9 993 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 29520003 JRNL DOI 10.1038/S41467-018-03370-1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CCPNMR ANALYSIS 2.2, ARIA REMARK 3 AUTHORS : CCPN (CCPNMR ANALYSIS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MXC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000104161. 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 : 0.100 REMARK 210 PRESSURE : 1.000 ATM REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-100% 13C; U-100% 15N] REMARK 210 SNX3FL, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC/HMQC; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HNCO; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HN(CA)CO; 3D HCCH- REMARK 210 TOCSY; 3D 1H-13C NOESY; 3D 1H- REMARK 210 15N NOESY; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : UNITYINOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPNMR ANALYSIS 2.2, NMRPIPE REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 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 GLU A 3 -52.79 -134.46 REMARK 500 1 ASP A 7 -164.93 -102.53 REMARK 500 1 ARG A 9 -87.94 62.23 REMARK 500 1 ARG A 10 -94.01 -157.32 REMARK 500 1 LEU A 11 -82.18 64.19 REMARK 500 1 ILE A 12 146.91 71.50 REMARK 500 1 PRO A 15 103.17 -56.58 REMARK 500 1 ASN A 17 -168.65 62.14 REMARK 500 1 ALA A 21 -58.96 -157.83 REMARK 500 1 PRO A 25 -9.03 -56.49 REMARK 500 1 ASN A 27 -178.37 58.14 REMARK 500 1 SER A 34 -165.70 -179.33 REMARK 500 1 LYS A 61 -66.50 71.35 REMARK 500 1 LYS A 63 -46.18 70.45 REMARK 500 1 VAL A 88 27.87 -66.42 REMARK 500 1 ALA A 96 -85.23 -127.70 REMARK 500 1 PRO A 102 -172.86 -68.14 REMARK 500 1 PHE A 103 -86.61 -105.65 REMARK 500 1 ARG A 104 -75.57 65.19 REMARK 500 1 ASP A 106 -69.96 65.93 REMARK 500 1 ASP A 147 -116.75 53.06 REMARK 500 1 GLU A 148 -35.15 -134.89 REMARK 500 1 TYR A 154 -174.20 -65.57 REMARK 500 2 HIS A -4 -82.74 63.82 REMARK 500 2 HIS A -3 33.19 -145.90 REMARK 500 2 GLU A 3 -58.80 -159.29 REMARK 500 2 VAL A 5 -157.17 44.40 REMARK 500 2 ARG A 9 143.68 70.82 REMARK 500 2 LEU A 11 -71.41 -153.68 REMARK 500 2 ILE A 12 -159.56 63.40 REMARK 500 2 THR A 13 112.59 72.81 REMARK 500 2 ALA A 21 -46.41 -153.00 REMARK 500 2 PRO A 25 -14.67 -48.63 REMARK 500 2 ASN A 27 -177.37 58.13 REMARK 500 2 SER A 34 -161.97 178.85 REMARK 500 2 ASN A 35 73.42 62.50 REMARK 500 2 LYS A 61 -64.33 71.49 REMARK 500 2 LYS A 63 -43.43 70.68 REMARK 500 2 VAL A 88 32.53 -69.19 REMARK 500 2 LYS A 95 -25.55 -144.55 REMARK 500 2 ALA A 96 -82.32 -90.85 REMARK 500 2 PRO A 102 -161.38 -67.25 REMARK 500 2 PHE A 103 -80.35 -106.97 REMARK 500 2 ARG A 104 -64.99 68.38 REMARK 500 2 ASP A 106 -71.41 65.64 REMARK 500 2 ASP A 147 -179.32 61.96 REMARK 500 2 TYR A 154 -171.43 -64.18 REMARK 500 2 SER A 157 -154.04 -140.59 REMARK 500 2 HIS A 161 -174.86 62.15 REMARK 500 3 HIS A -2 97.82 -65.99 REMARK 500 REMARK 500 THIS ENTRY HAS 455 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25402 RELATED DB: BMRB DBREF 2MXC A 2 162 UNP O60493 SNX3_HUMAN 2 162 SEQADV 2MXC MET A -9 UNP O60493 EXPRESSION TAG SEQADV 2MXC ALA A -8 UNP O60493 EXPRESSION TAG SEQADV 2MXC HIS A -7 UNP O60493 EXPRESSION TAG SEQADV 2MXC HIS A -6 UNP O60493 EXPRESSION TAG SEQADV 2MXC HIS A -5 UNP O60493 EXPRESSION TAG SEQADV 2MXC HIS A -4 UNP O60493 EXPRESSION TAG SEQADV 2MXC HIS A -3 UNP O60493 EXPRESSION TAG SEQADV 2MXC HIS A -2 UNP O60493 EXPRESSION TAG SEQADV 2MXC VAL A -1 UNP O60493 EXPRESSION TAG SEQADV 2MXC GLY A 0 UNP O60493 EXPRESSION TAG SEQADV 2MXC THR A 1 UNP O60493 EXPRESSION TAG SEQRES 1 A 172 MET ALA HIS HIS HIS HIS HIS HIS VAL GLY THR ALA GLU SEQRES 2 A 172 THR VAL ALA ASP THR ARG ARG LEU ILE THR LYS PRO GLN SEQRES 3 A 172 ASN LEU ASN ASP ALA TYR GLY PRO PRO SER ASN PHE LEU SEQRES 4 A 172 GLU ILE ASP VAL SER ASN PRO GLN THR VAL GLY VAL GLY SEQRES 5 A 172 ARG GLY ARG PHE THR THR TYR GLU ILE ARG VAL LYS THR SEQRES 6 A 172 ASN LEU PRO ILE PHE LYS LEU LYS GLU SER THR VAL ARG SEQRES 7 A 172 ARG ARG TYR SER ASP PHE GLU TRP LEU ARG SER GLU LEU SEQRES 8 A 172 GLU ARG GLU SER LYS VAL VAL VAL PRO PRO LEU PRO GLY SEQRES 9 A 172 LYS ALA PHE LEU ARG GLN LEU PRO PHE ARG GLY ASP ASP SEQRES 10 A 172 GLY ILE PHE ASP ASP ASN PHE ILE GLU GLU ARG LYS GLN SEQRES 11 A 172 GLY LEU GLU GLN PHE ILE ASN LYS VAL ALA GLY HIS PRO SEQRES 12 A 172 LEU ALA GLN ASN GLU ARG CYS LEU HIS MET PHE LEU GLN SEQRES 13 A 172 ASP GLU ILE ILE ASP LYS SER TYR THR PRO SER LYS ILE SEQRES 14 A 172 ARG HIS ALA HELIX 1 1 TYR A 71 SER A 85 1 15 HELIX 2 2 ALA A 96 GLN A 100 5 5 HELIX 3 3 ASP A 111 ALA A 130 1 20 HELIX 4 4 ARG A 139 GLN A 146 1 8 SHEET 1 A 3 LEU A 29 THR A 38 0 SHEET 2 A 3 THR A 47 THR A 55 -1 O GLU A 50 N SER A 34 SHEET 3 A 3 GLU A 64 ARG A 70 -1 O ARG A 69 N TYR A 49 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