HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 31-OCT-08 2KA7 TITLE NMR SOLUTION STRUCTURE OF TM0212 AT 40 C COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCINE CLEAVAGE SYSTEM H PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 GENE: GCVH, TM_0212; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET 25B KEYWDS PROTEIN, LIPOYL, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, UNKNOWN KEYWDS 3 FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.PEDRINI,T.HERRMANN,B.MOHANTY,M.GERALT,I.WILSON,K.WUTHRICH,JOINT AUTHOR 2 CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 08-MAY-24 2KA7 1 REMARK REVDAT 5 14-JUN-23 2KA7 1 REMARK REVDAT 4 19-FEB-20 2KA7 1 REMARK REVDAT 3 09-JAN-13 2KA7 1 JRNL REVDAT 2 20-JUN-12 2KA7 1 JRNL VERSN REVDAT 1 13-JAN-09 2KA7 0 JRNL AUTH P.SERRANO,B.PEDRINI,B.MOHANTY,M.GERALT,T.HERRMANN,K.WUTHRICH JRNL TITL THE J-UNIO PROTOCOL FOR AUTOMATED PROTEIN STRUCTURE JRNL TITL 2 DETERMINATION BY NMR IN SOLUTION. JRNL REF J.BIOMOL.NMR V. 53 341 2012 JRNL REFN ISSN 0925-2738 JRNL PMID 22752932 JRNL DOI 10.1007/S10858-012-9645-2 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : GAPRO, OPALP REMARK 3 AUTHORS : HILLER AND FIORITO (GAPRO), LUGINBUHL, GUNTERT, REMARK 3 BILLETER AND WUTHRICH (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KA7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000100870. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313.0 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2.4 MM [U-100% 13C; U-100% 15N] REMARK 210 TM0212, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 6D APSY HNCOCANH; 5D APSY REMARK 210 HACACONH; 5D APSY CBCACONH; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C REMARK 210 ALIPHATIC NOESY; 3D 1H-13C REMARK 210 AROMATIC NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : MATCH, ASCAN, ATNOS/CANDID, REMARK 210 CYANA REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 2 VAL A 35 CA - CB - CG1 ANGL. DEV. = 14.0 DEGREES REMARK 500 5 VAL A 35 CA - CB - CG1 ANGL. DEV. = 9.2 DEGREES REMARK 500 6 VAL A 35 CA - CB - CG1 ANGL. DEV. = 10.8 DEGREES REMARK 500 10 ARG A 45 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 10 ARG A 45 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 11 VAL A 35 CA - CB - CG1 ANGL. DEV. = 9.8 DEGREES REMARK 500 14 LEU A 108 CB - CG - CD1 ANGL. DEV. = 10.8 DEGREES REMARK 500 15 VAL A 35 CA - CB - CG1 ANGL. DEV. = 15.6 DEGREES REMARK 500 17 ARG A 45 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 17 VAL A 74 CA - CB - CG1 ANGL. DEV. = 10.3 DEGREES REMARK 500 20 ALA A 28 N - CA - CB ANGL. DEV. = -9.6 DEGREES REMARK 500 20 VAL A 74 CA - CB - CG1 ANGL. DEV. = 9.3 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 THR A 9 42.00 -109.18 REMARK 500 1 GLU A 16 -99.47 -120.15 REMARK 500 1 ASP A 17 -88.65 -69.25 REMARK 500 1 LEU A 32 -70.99 -79.70 REMARK 500 1 ASP A 34 34.18 -71.85 REMARK 500 1 VAL A 35 -113.55 -21.97 REMARK 500 1 VAL A 36 -41.62 164.38 REMARK 500 1 LYS A 49 37.21 -72.94 REMARK 500 1 VAL A 52 33.81 -69.84 REMARK 500 1 ALA A 54 48.01 -140.36 REMARK 500 1 LYS A 60 59.19 -160.97 REMARK 500 1 ALA A 67 153.36 -45.39 REMARK 500 1 VAL A 74 -1.83 -149.79 REMARK 500 1 ASP A 90 89.70 -151.95 REMARK 500 1 LEU A 97 -69.40 -96.85 REMARK 500 2 GLU A 16 -138.78 -80.90 REMARK 500 2 VAL A 36 -26.07 -146.85 REMARK 500 2 PRO A 41 -178.95 -68.20 REMARK 500 2 VAL A 43 12.66 -64.00 REMARK 500 2 LYS A 49 10.97 -66.81 REMARK 500 2 ALA A 54 39.63 -147.96 REMARK 500 2 SER A 58 -167.71 -105.60 REMARK 500 2 LYS A 60 72.57 -165.75 REMARK 500 2 VAL A 74 -3.80 -143.51 REMARK 500 2 ASP A 90 67.58 -156.11 REMARK 500 2 LEU A 97 -61.37 -108.93 REMARK 500 2 ASP A 113 171.64 -55.55 REMARK 500 3 LYS A 2 126.59 153.59 REMARK 500 3 GLU A 16 -101.36 -120.54 REMARK 500 3 ASP A 17 -77.57 -94.24 REMARK 500 3 ASP A 34 34.05 -80.69 REMARK 500 3 VAL A 35 -111.85 -23.06 REMARK 500 3 VAL A 36 -46.05 166.38 REMARK 500 3 LYS A 49 17.91 -67.83 REMARK 500 3 VAL A 52 21.20 -65.50 REMARK 500 3 VAL A 53 8.54 -62.84 REMARK 500 3 ALA A 54 51.48 -147.68 REMARK 500 3 ALA A 63 112.28 -160.04 REMARK 500 3 ALA A 67 124.84 -35.66 REMARK 500 3 VAL A 74 -11.28 -149.19 REMARK 500 3 ASP A 90 100.43 -169.16 REMARK 500 3 LEU A 97 -66.93 -100.30 REMARK 500 4 THR A 9 23.49 -75.22 REMARK 500 4 GLU A 16 -68.76 -122.17 REMARK 500 4 ASP A 17 -83.95 -120.76 REMARK 500 4 HIS A 27 -9.36 -57.63 REMARK 500 4 VAL A 36 -30.66 -172.84 REMARK 500 4 VAL A 43 11.36 -60.29 REMARK 500 4 LYS A 49 23.33 -74.99 REMARK 500 4 ALA A 54 46.31 -160.07 REMARK 500 REMARK 500 THIS ENTRY HAS 269 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASP A 34 VAL A 35 1 -135.21 REMARK 500 VAL A 59 LYS A 60 2 149.47 REMARK 500 GLY A 33 ASP A 34 3 -145.71 REMARK 500 ASP A 34 VAL A 35 3 -122.73 REMARK 500 VAL A 35 VAL A 36 4 -147.66 REMARK 500 VAL A 35 VAL A 36 6 -148.20 REMARK 500 GLU A 109 ASP A 110 8 147.97 REMARK 500 ALA A 61 ALA A 62 14 149.36 REMARK 500 VAL A 35 VAL A 36 15 -142.99 REMARK 500 VAL A 35 VAL A 36 16 -146.65 REMARK 500 ASP A 34 VAL A 35 19 -131.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 TYR A 117 0.09 SIDE CHAIN REMARK 500 3 TYR A 117 0.07 SIDE CHAIN REMARK 500 6 TYR A 37 0.09 SIDE CHAIN REMARK 500 7 TYR A 6 0.10 SIDE CHAIN REMARK 500 7 TYR A 117 0.07 SIDE CHAIN REMARK 500 9 TYR A 37 0.07 SIDE CHAIN REMARK 500 9 TYR A 117 0.11 SIDE CHAIN REMARK 500 12 TYR A 66 0.06 SIDE CHAIN REMARK 500 12 TYR A 117 0.14 SIDE CHAIN REMARK 500 13 TYR A 37 0.12 SIDE CHAIN REMARK 500 13 ARG A 45 0.08 SIDE CHAIN REMARK 500 15 TYR A 37 0.07 SIDE CHAIN REMARK 500 16 TYR A 6 0.07 SIDE CHAIN REMARK 500 16 TYR A 117 0.10 SIDE CHAIN REMARK 500 17 TYR A 66 0.08 SIDE CHAIN REMARK 500 17 TYR A 117 0.10 SIDE CHAIN REMARK 500 18 ARG A 45 0.10 SIDE CHAIN REMARK 500 20 TYR A 117 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZKO RELATED DB: PDB REMARK 900 X-RAY STRUCTURE REMARK 900 RELATED ID: 16016 RELATED DB: BMRB REMARK 900 RELATED ID: 282092 RELATED DB: TARGETDB DBREF 2KA7 A 1 124 UNP Q9WY55 GCSH_THEMA 1 124 SEQRES 1 A 124 MET LYS MET LYS LYS TYR THR LYS THR HIS GLU TRP VAL SEQRES 2 A 124 SER ILE GLU ASP LYS VAL ALA THR VAL GLY ILE THR ASN SEQRES 3 A 124 HIS ALA GLN GLU GLN LEU GLY ASP VAL VAL TYR VAL ASP SEQRES 4 A 124 LEU PRO GLU VAL GLY ARG GLU VAL LYS LYS GLY GLU VAL SEQRES 5 A 124 VAL ALA SER ILE GLU SER VAL LYS ALA ALA ALA ASP VAL SEQRES 6 A 124 TYR ALA PRO LEU SER GLY LYS ILE VAL GLU VAL ASN GLU SEQRES 7 A 124 LYS LEU ASP THR GLU PRO GLU LEU ILE ASN LYS ASP PRO SEQRES 8 A 124 GLU GLY GLU GLY TRP LEU PHE LYS MET GLU ILE SER ASP SEQRES 9 A 124 GLU GLY GLU LEU GLU ASP LEU LEU ASP GLU GLN ALA TYR SEQRES 10 A 124 GLN GLU PHE CYS ALA GLN GLU HELIX 1 1 THR A 25 GLY A 33 1 9 HELIX 2 2 GLU A 78 GLU A 83 1 6 HELIX 3 3 GLU A 85 ASP A 90 1 6 HELIX 4 4 ASP A 104 LEU A 111 5 8 HELIX 5 5 ASP A 113 ALA A 122 1 10 SHEET 1 A 5 GLU A 11 TRP A 12 0 SHEET 2 A 5 VAL A 19 ILE A 24 -1 O GLY A 23 N TRP A 12 SHEET 3 A 5 TRP A 96 ILE A 102 -1 O PHE A 98 N VAL A 22 SHEET 4 A 5 GLY A 71 VAL A 76 -1 N GLU A 75 O LYS A 99 SHEET 5 A 5 GLU A 46 VAL A 47 -1 N VAL A 47 O GLY A 71 SHEET 1 B 2 ILE A 56 SER A 58 0 SHEET 2 B 2 ALA A 61 ALA A 63 -1 O ALA A 61 N SER A 58 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