10 20 30 40 50 60 70 80 2KMM - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 31-JUL-09 2KMM
TITLE SOLUTION NMR STRUCTURE OF THE TGS DOMAIN OF PG1808 FROM TITLE 2 PORPHYROMONAS GINGIVALIS. NORTHEAST STRUCTURAL GENOMICS TITLE 3 CONSORTIUM TARGET PGR122A (418-481)
COMPND MOL_ID: 1; COMPND 2 MOLECULE: GUANOSINE-3',5'-BIS(DIPHOSPHATE) 3'- COMPND 3 PYROPHOSPHOHYDROLASE; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: SEQUENCE DATABASE RESIDUES 418-481; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PORPHYROMONAS GINGIVALIS; SOURCE 3 ORGANISM_TAXID: 837; SOURCE 4 GENE: PG1808, PG_1808, SPOT; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) PMGK; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET 21-23C
KEYWDS METHODS DEVELOPMENT, TGS DOMAIN, PREDOMINANTLY BETA-SHEET KEYWDS 2 STRUCTURE, PORPHYROMONAS GINGIVALIS, HYDROLASE, STRUCTURAL KEYWDS 3 GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, NORTHEAST KEYWDS 4 STRUCTURAL GENOMICS CONSORTIUM, NESG
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR Y.YANG,T.A.RAMELOT,J.R.CORT,D.LEE,C.CICCOSANTI,K.HAMILTON, AUTHOR 2 R.NAIR,B.ROST,T.B.ACTON,R.XIAO,G.SWAPNA,J.K.EVERETT, AUTHOR 3 G.T.MONTELIONE,M.A.KENNEDY,NORTHEAST STRUCTURAL GENOMICS AUTHOR 4 CONSORTIUM (NESG)
REVDAT 1 10-NOV-09 2KMM 0
JRNL AUTH Y.YANG,T.A.RAMELOT,J.R.CORT,D.LEE,C.CICCOSANTI, JRNL AUTH 2 K.HAMILTON,R.NAIR,B.ROST,T.B.ACTON,R.XIAO,G.SWAPNA, JRNL AUTH 3 J.K.EVERETT,G.T.MONTELIONE,M.A.KENNEDY JRNL TITL SOLUTION NMR STRUCTURE OF THE TGS DOMAIN OF PG1808 JRNL TITL 2 FROM PORPHYROMONAS GINGIVALIS. NORTHEAST STRUCTURAL JRNL TITL 3 GENOMICS CONSORTIUM TARGET PGR122A (418-481) JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2, PSVS 1.3 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS), BHATTACHARYA AND MONTELIONE (PSVS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: XPLOR-NIH-2.20 WITH HBDB
REMARK 4 REMARK 4 2KMM COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-09. REMARK 100 THE RCSB ID CODE IS RCSB101308.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 0.2 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.2 MM [U-100% 13C; U-100% REMARK 210 15N] TGS DOMAIN OF PG1808, 20 REMARK 210 MM AMMONIUM ACETATE, 200 MM REMARK 210 SODIUM CHLORIDE, 5 MM CALCIUM REMARK 210 CHLORIDE, 10 MM DTT, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O; REMARK 210 0.9 MM [U-5% 13C; U-100% 15N] REMARK 210 TGS DOMAIN OF PG1808, 20 MM REMARK 210 AMMONIUM ACETATE, 200 MM REMARK 210 SODIUM CHLORIDE, 5 MM CALCIUM REMARK 210 CHLORIDE, 10 MM DTT, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O; REMARK 210 1.2 MM [U-100% 13C; U-100% REMARK 210 15N] TGS DOMAIN OF PG1808, 20 REMARK 210 MM AMMONIUM ACETATE, 200 MM REMARK 210 SODIUM CHLORIDE, 5 MM CALCIUM REMARK 210 CHLORIDE, 10 MM DTT, 0.02 % REMARK 210 SODIUM AZIDE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C REMARK 210 HSQC; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY; 3D HNCO; 3D HNCA; REMARK 210 3D HNCACB; 3D CBCA(CO)NH; 3D REMARK 210 HN(CO)CA; 3D HBHA(CO)NH; 3D REMARK 210 H(CCO)NH; 3D C(CO)NH; 3D HCCH- REMARK 210 TOCSY; 3D HCCH-COSY; 3D (H)CCH REMARK 210 -TOCSY; 4D CC NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 850 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; AVANCEIII REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2008, VNMR 6.1C, REMARK 210 TOPSPIN 2.1.3, AUTOSTRUCTURE REMARK 210 2.2.1, X-PLOR_NIH 2.20, SPARKY REMARK 210 3.113, AUTOASSIGN 2.30, REMARK 210 PDBSTAT 5.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 150 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 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 HG1 THR A 423 H LYS A 425 1.36 REMARK 500 HG1 THR A 423 H LYS A 425 1.37 REMARK 500 HD1 HIS A 486 H HIS A 488 1.41 REMARK 500 HG SER A 478 HZ1 LYS A 480 1.47 REMARK 500 HG SER A 478 HZ2 LYS A 480 1.48 REMARK 500 HG1 THR A 423 H LYS A 425 1.50 REMARK 500 HG1 THR A 423 H LYS A 425 1.51 REMARK 500 H MET A 420 HG SER A 470 1.56 REMARK 500 H MET A 420 HG SER A 470 1.59 REMARK 500 O HIS A 484 H HIS A 486 1.59 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 LEU A 444 -73.77 -68.16 REMARK 500 1 HIS A 459 10.38 55.33 REMARK 500 1 LYS A 480 34.63 39.14 REMARK 500 1 HIS A 485 19.11 55.67 REMARK 500 2 LEU A 444 -81.10 -48.44 REMARK 500 2 HIS A 445 20.46 -151.24 REMARK 500 2 SER A 446 -37.72 68.52 REMARK 500 2 HIS A 459 13.82 54.86 REMARK 500 2 LYS A 480 98.98 -53.57 REMARK 500 2 SER A 481 70.56 -173.28 REMARK 500 2 HIS A 484 90.35 41.36 REMARK 500 2 HIS A 486 179.82 51.14 REMARK 500 2 HIS A 487 166.71 55.06 REMARK 500 3 LEU A 444 -70.93 -64.08 REMARK 500 3 SER A 446 -71.01 -92.45 REMARK 500 3 HIS A 459 14.04 56.41 REMARK 500 3 SER A 481 -124.11 -146.31 REMARK 500 3 LEU A 482 1.30 59.20 REMARK 500 3 HIS A 485 127.27 69.42 REMARK 500 3 HIS A 486 92.65 52.12 REMARK 500 3 HIS A 488 -1.77 -151.90 REMARK 500 4 LEU A 444 -77.98 -68.96 REMARK 500 4 HIS A 445 -151.18 -124.29 REMARK 500 4 SER A 446 -70.49 -128.54 REMARK 500 4 HIS A 451 28.04 -78.60 REMARK 500 4 HIS A 459 12.03 57.15 REMARK 500 4 HIS A 487 72.94 52.71 REMARK 500 5 ALA A 435 173.23 -59.36 REMARK 500 5 SER A 446 -61.72 -101.58 REMARK 500 5 HIS A 459 12.99 56.94 REMARK 500 5 SER A 479 32.68 -77.27 REMARK 500 5 SER A 481 107.88 -46.09 REMARK 500 5 LEU A 482 6.12 56.29 REMARK 500 5 GLU A 483 -168.51 46.81 REMARK 500 6 SER A 446 -60.53 -103.41 REMARK 500 6 HIS A 459 13.27 54.17 REMARK 500 6 SER A 479 17.80 54.45 REMARK 500 7 HIS A 445 -120.30 -162.12 REMARK 500 7 SER A 446 -68.77 -158.83 REMARK 500 7 HIS A 459 16.27 57.55 REMARK 500 7 GLU A 483 166.33 55.14 REMARK 500 7 HIS A 488 95.48 45.71 REMARK 500 8 HIS A 445 -120.20 -161.97 REMARK 500 8 SER A 446 -76.53 -152.93 REMARK 500 8 HIS A 459 13.64 58.83 REMARK 500 8 SER A 479 30.19 -75.82 REMARK 500 8 GLU A 483 104.87 57.54 REMARK 500 9 HIS A 445 -126.78 -161.93 REMARK 500 9 SER A 446 -64.70 -146.63 REMARK 500 9 HIS A 451 42.35 -103.29 REMARK 500 REMARK 500 THIS ENTRY HAS 116 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: PGR122A RELATED DB: TARGETDB REMARK 900 RELATED ID: 16434 RELATED DB: BMRB
DBREF 2KMM A 418 481 UNP Q7MAV5 Q7MAV5_PORGI 418 481
SEQADV 2KMM MET A 417 UNP Q7MAV5 INITIATING METHIONINE SEQADV 2KMM LEU A 482 UNP Q7MAV5 EXPRESSION TAG SEQADV 2KMM GLU A 483 UNP Q7MAV5 EXPRESSION TAG SEQADV 2KMM HIS A 484 UNP Q7MAV5 EXPRESSION TAG SEQADV 2KMM HIS A 485 UNP Q7MAV5 EXPRESSION TAG SEQADV 2KMM HIS A 486 UNP Q7MAV5 EXPRESSION TAG SEQADV 2KMM HIS A 487 UNP Q7MAV5 EXPRESSION TAG SEQADV 2KMM HIS A 488 UNP Q7MAV5 EXPRESSION TAG SEQADV 2KMM HIS A 489 UNP Q7MAV5 EXPRESSION TAG
SEQRES 1 A 73 MET GLU VAL MET VAL PHE THR PRO LYS GLY GLU ILE LYS SEQRES 2 A 73 ARG LEU PRO GLN GLY ALA THR ALA LEU ASP PHE ALA TYR SEQRES 3 A 73 SER LEU HIS SER ASP LEU GLY ASP HIS CYS ILE GLY ALA SEQRES 4 A 73 LYS VAL ASN HIS LYS LEU VAL PRO LEU SER TYR VAL LEU SEQRES 5 A 73 ASN SER GLY ASP GLN VAL GLU VAL LEU SER SER LYS SER SEQRES 6 A 73 LEU GLU HIS HIS HIS HIS HIS HIS
HELIX 1 1 THR A 436 HIS A 445 1 10 HELIX 2 2 SER A 446 HIS A 451 1 6
SHEET 1 A 2 VAL A 419 PHE A 422 0 SHEET 2 A 2 ILE A 428 LEU A 431 -1 O LEU A 431 N VAL A 419 SHEET 1 B 3 LYS A 460 LEU A 461 0 SHEET 2 B 3 CYS A 452 VAL A 457 -1 N VAL A 457 O LYS A 460 SHEET 3 B 3 VAL A 474 SER A 478 -1 O GLU A 475 N LYS A 456
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