PDB Short entry for 2K2B HEADER TRANSPORT PROTEIN 31-MAR-08 2K2B TITLE SPARSE-CONSTRAINT SOLUTION NMR STRUCTURE OF MICELLE-SOLUBLIZED TITLE 2 CYTOSOLIC AMINO TERMINAL DOMAIN OF C. ELEGANS MECHANOSENSORY ION TITLE 3 CHANNEL SUBUNIT MEC-4. NEW YORK CONSORTIUM ON MEMBRANE PROTEIN TITLE 4 STRUCTURE (NYCOMPS) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEGENERIN MEC-4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CYTOSOLIC DOMAIN: RESIDUES 1-103; COMPND 5 SYNONYM: MECHANOSENSORY ABNORMALITY PROTEIN 4; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAENORHABDITIS ELEGANS; SOURCE 3 ORGANISM_COMMON: NEMATODE; SOURCE 4 ORGANISM_TAXID: 6239; SOURCE 5 STRAIN: BRISTOL N2; SOURCE 6 GENE: MEC-4, MEC-13, T01C8.7; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21C KEYWDS MEMBRANE ASSOCIATED, MINIMAL CONSTRAINT, DETERGENT SOLUBILIZED, KEYWDS 2 GLYCOPROTEIN, ION TRANSPORT, IONIC CHANNEL, NEURODEGENERATION, KEYWDS 3 SODIUM, SODIUM CHANNEL, SODIUM TRANSPORT, TRANSMEMBRANE, TRANSPORT, KEYWDS 4 TRANSPORT PROTEIN, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 5 INITIATIVE, NEW YORK CONSORTIUM ON MEMBRANE PROTEIN STRUCTURE, KEYWDS 6 NYCOMPS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.K.EVERETT,G.LIU,M.A.DRISCOLL,G.T.MONTELIONE,NEW YORK CONSORTIUM ON AUTHOR 2 MEMBRANE PROTEIN STRUCTURE (NYCOMPS) REVDAT 3 16-MAR-22 2K2B 1 TITLE REMARK SEQADV REVDAT 2 24-FEB-09 2K2B 1 VERSN REVDAT 1 21-OCT-08 2K2B 0 JRNL AUTH J.K.EVERETT,G.LIU,M.A.DRISCOLL,G.T.MONTELIONE JRNL TITL SPARSE-CONSTRAINT SOLUTION NMR STRUCTURE OF JRNL TITL 2 MICELLE-SOLUBLIZED CYTOSOLIC AMINO TERMINAL DOMAIN OF C. JRNL TITL 3 ELEGANS MECHANOSENSORY ION CHANNEL SUBUNIT MEC-4. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 1.0.6 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: EXPLICIT WATER REFINEMENT REMARK 4 REMARK 4 2K2B COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000100586. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 0.025 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.5 MM [U-100% 13C; U-100% 15N; REMARK 210 100% 2H; ILV METHYL 1H; FY RING REMARK 210 1H] MEC4, 25 MM SODIUM PHOSPHATE, REMARK 210 5 MM ZWITTERGENT 3-12, 25 MM REMARK 210 SODIUM CHLORIDE, 5 MM TCEP, 95% REMARK 210 H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCA; 3D HN(CO)CA; 3D HCACO; 2D REMARK 210 1H-1H NOESY; 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AUTOASSIGN 2.4.0, CNS 1.2, REMARK 210 SPARKY 3.110 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 250 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: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 9 PRO A 16 C - N - CA ANGL. DEV. = 9.1 DEGREES 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 GLN A 11 88.43 -60.11 REMARK 500 1 LEU A 13 -103.32 -122.21 REMARK 500 1 ARG A 14 36.76 -154.23 REMARK 500 1 VAL A 23 97.99 -57.17 REMARK 500 1 TYR A 24 47.04 -84.04 REMARK 500 1 PHE A 37 81.76 68.97 REMARK 500 1 VAL A 38 18.47 47.19 REMARK 500 1 GLU A 40 142.87 178.03 REMARK 500 1 GLU A 45 -34.21 -134.62 REMARK 500 1 TYR A 49 -159.74 39.87 REMARK 500 1 PHE A 53 -54.45 -128.41 REMARK 500 1 SER A 58 -165.25 -109.62 REMARK 500 1 PRO A 71 71.52 -65.34 REMARK 500 1 TYR A 89 43.62 -84.59 REMARK 500 1 HIS A 94 78.81 61.17 REMARK 500 1 ILE A 96 103.42 59.34 REMARK 500 1 MET A 98 -64.48 -126.02 REMARK 500 2 GLN A 11 -84.39 -94.83 REMARK 500 2 ARG A 14 -168.02 -102.75 REMARK 500 2 VAL A 38 -94.33 -131.25 REMARK 500 2 GLU A 40 141.37 170.24 REMARK 500 2 PHE A 47 -62.85 66.48 REMARK 500 2 TYR A 49 95.22 -60.21 REMARK 500 2 GLU A 51 -61.22 -131.88 REMARK 500 2 LEU A 64 28.91 43.19 REMARK 500 2 ILE A 65 36.17 38.56 REMARK 500 2 GLU A 68 6.64 49.39 REMARK 500 2 PRO A 71 7.65 -68.92 REMARK 500 2 MET A 98 -107.28 -98.53 REMARK 500 2 PRO A 103 -163.94 -70.14 REMARK 500 3 SER A 2 -76.89 51.47 REMARK 500 3 LEU A 13 95.01 62.75 REMARK 500 3 PHE A 37 64.79 64.80 REMARK 500 3 VAL A 38 -48.37 61.56 REMARK 500 3 THR A 39 29.88 -73.95 REMARK 500 3 PHE A 47 -66.69 70.65 REMARK 500 3 GLU A 51 -63.50 67.66 REMARK 500 3 SER A 58 -47.69 -157.85 REMARK 500 3 GLN A 61 106.04 -167.24 REMARK 500 3 CYS A 62 -174.04 -174.58 REMARK 500 3 LEU A 64 -47.70 73.21 REMARK 500 3 GLU A 68 -80.21 62.59 REMARK 500 3 PRO A 71 -9.48 -58.07 REMARK 500 3 PHE A 87 -63.15 -91.32 REMARK 500 3 TYR A 89 44.84 -89.32 REMARK 500 3 HIS A 94 88.36 -46.40 REMARK 500 3 HIS A 110 -146.70 -81.99 REMARK 500 4 SER A 2 -74.10 59.67 REMARK 500 4 HIS A 12 109.42 -56.85 REMARK 500 4 LEU A 13 46.76 72.05 REMARK 500 REMARK 500 THIS ENTRY HAS 314 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: WR65 RELATED DB: TARGETDB DBREF 2K2B A 1 103 UNP P24612 MEC4_CAEEL 1 103 SEQADV 2K2B LEU A 104 UNP P24612 EXPRESSION TAG SEQADV 2K2B GLU A 105 UNP P24612 EXPRESSION TAG SEQADV 2K2B HIS A 106 UNP P24612 EXPRESSION TAG SEQADV 2K2B HIS A 107 UNP P24612 EXPRESSION TAG SEQADV 2K2B HIS A 108 UNP P24612 EXPRESSION TAG SEQADV 2K2B HIS A 109 UNP P24612 EXPRESSION TAG SEQADV 2K2B HIS A 110 UNP P24612 EXPRESSION TAG SEQADV 2K2B HIS A 111 UNP P24612 EXPRESSION TAG SEQRES 1 A 111 MET SER TRP MET GLN ASN LEU LYS ASN TYR GLN HIS LEU SEQRES 2 A 111 ARG ASP PRO SER GLU TYR MET SER GLN VAL TYR GLY ASP SEQRES 3 A 111 PRO LEU ALA TYR LEU GLN GLU THR THR LYS PHE VAL THR SEQRES 4 A 111 GLU ARG GLU TYR TYR GLU ASP PHE GLY TYR GLY GLU CYS SEQRES 5 A 111 PHE ASN SER THR GLU SER GLU VAL GLN CYS GLU LEU ILE SEQRES 6 A 111 THR GLY GLU PHE ASP PRO LYS LEU LEU PRO TYR ASP LYS SEQRES 7 A 111 ARG LEU ALA TRP HIS PHE LYS GLU PHE CYS TYR LYS THR SEQRES 8 A 111 SER ALA HIS GLY ILE PRO MET ILE GLY GLU ALA PRO LEU SEQRES 9 A 111 GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 MET A 1 ASN A 9 1 9 HELIX 2 2 PRO A 16 VAL A 23 1 8 HELIX 3 3 ASP A 26 PHE A 37 1 12 HELIX 4 4 GLU A 40 ASP A 46 1 7 HELIX 5 5 ASP A 77 CYS A 88 1 12 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