HEADER TRANSFERASE 16-DEC-05 2FEW TITLE COMPLEX OF ENZYME IIAMTL AND PHOSPHORYLATED ENZYME IIBMTL FROM TITLE 2 ESCHERICHIA COLI NMR, RESTRAINED REGULARIZED MEAN STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PTS SYSTEM MANNITOL-SPECIFIC EIICBA COMPONENT; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EIIA-MTL, PHOSPHOTRANSFERASE ENZYME II, A DOMAIN COMPONENT; COMPND 5 EC: 2.7.1.69; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: MANNITOL-SPECIFIC PTS SYSTEM ENZYME IIABC COMPONENTS; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: EIIB-MTL, PHOSPHOTRANSFERASE ENZYME II, B DOMAIN COMPONENT; COMPND 12 EC: 2.7.1.69; COMPND 13 ENGINEERED: YES; COMPND 14 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: GI698; SOURCE 5 GENE: MTLA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI O157:H7; SOURCE 10 ORGANISM_TAXID: 83334; SOURCE 11 STRAIN: GI698; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PHOSPHOTRANSFERASE, TRANSFERASE, KINASE, SUGAR TRANSPORT, COMPLEX KEYWDS 2 (TRANSFERASE-PHOSPHOCARRIER) EXPDTA SOLUTION NMR AUTHOR G.M.CLORE,J.Y.SUH REVDAT 4 20-OCT-21 2FEW 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 2FEW 1 VERSN REVDAT 2 25-APR-06 2FEW 1 JRNL REVDAT 1 07-FEB-06 2FEW 0 JRNL AUTH J.Y.SUH,M.CAI,D.C.WILLIAMS JR.,G.M.CLORE JRNL TITL SOLUTION STRUCTURE OF A POST-TRANSITION STATE ANALOG OF THE JRNL TITL 2 PHOSPHOTRANSFER REACTION BETWEEN THE A AND B CYTOPLASMIC JRNL TITL 3 DOMAINS OF THE MANNITOL TRANSPORTER IIMANNITOL OF THE JRNL TITL 4 ESCHERICHIA COLI PHOSPHOTRANSFERASE SYSTEM JRNL REF J.BIOL.CHEM. V. 281 8939 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16443929 JRNL DOI 10.1074/JBC.M513466200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH REMARK 3 AUTHORS : SCHWIETERS,KUSZEWSKI,TJANDRA,CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES WERE CALCULATED BY CONJOINED RIGID BODY/TORSION REMARK 3 ANGLE DYNAMICS (SCHWIETERS & CLORE (2001) J.MAGN.RESON 152, 288- REMARK 3 302) THE TARGET FUNCTIONS COMPRISES TERMS FOR THE EXPERIMENTAL NOE REMARK 3 RESTRAINTS AND SIDECHAIN TORSION ANGLE RESTRAINTS; A QUARTIC VAN REMARK 3 DER WAALS REPULSION TERM (NILGES ET AL. (1988) FEBS LETT. 229, 129- REMARK 3 136); A MULTIIMENSIONAL TORSION ANGLE DATABASE POTENTIAL OF MEAN REMARK 3 FORCE (CLORE & KUSZEWSKI (2002) J.AM.CHEM.SOC. 124, 2866-2867); REMARK 3 AND A RADIUS OF GYRATION POTENTIAL (KUSZEWSKI ET AL (1999) REMARK 3 J.AM.CHEM.SOC. 121, 2337-2338). THE STARTING COORDINATES OF REMARK 3 PHOSPHOIIBMTL ARE TAKEN FROM THE NMR STRUCTURE ((PDB ACCESSION REMARK 3 CODE 1VRV, SUH ET AL. (2005) J.MOL.BIOL. 353, 1129-1136). THE REMARK 3 STARTING STRUCTURE FOR IIAMTL IS TAKEN FROM THE COORDINATES OF REMARK 3 IIAMTL IN THE IIAMTL-HPR COMPLEX (PDB ACCESSION CODE 1J6T; REMARK 3 CORNILESCU ET AL. (2002) J.BIOL.CHEM. 277,42289-42298). THE REMARK 3 COORDINATES OF IIAMTL IN THIS COMPLEX ARE DERIVED FROM MOLECULE D REMARK 3 OF THE 1.8A RESOLUTION CRYSTAL STRUCTURE OF IIAMTL PDB ACCESSION REMARK 3 CODE 1A3A, VAN MONTFORT ET AL. STRUCTURE 5, 217-225 (1998)). IN REMARK 3 THE STRUCTURE DETERMINATION OF THE IIAMTL-PHOSPHOIIBMTL COMPLEX, REMARK 3 THE BACKBONE COORDINATES AND NON-INTERFACIAL SIDECHAINS ARE REMARK 3 TREATED AS RIGID BODIES THROUGHOUT WITH IIAMTL HELD FIXED AND REMARK 3 PHOSPHOIIBMTL ALLOWED TO ROTATE AND TRANSLATE. THE INTERFACIAL REMARK 3 SIDECHAINS ARE GIVEN FULL TORSIONAL DEGREES OF FREEDOM. REMARK 3 REMARK 3 IN THIS ENTRY THE LAST COLUMN REPRESENTS THE AVERAGE RMS REMARK 3 DIFFERENCE BETWEEN THE INDIVIDUAL SIMULATED ANNEALING REMARK 3 STRUCTURES (TOTAL OF 200) AND THE MEAN COORDINATE POSITIONS. IT REMARK 3 IS IMPORTANT TO NOTE THAT THE VALUES GIVEN FOR THE BACKBONE REMARK 3 ATOMS AND NON-INTERFACIAL SIDECHAINS PROVIDE ONLY A REMARK 3 MEASURE OF THE PRECISION WITH WHICH THE RELATIVE REMARK 3 OF THE TWO PROTEINS HAVE BEEN DETERMINED AND DOES REMARK 3 NOT TAKE INTO ACCOUNT THE ERRORS IN THE NMR COORDINATES REMARK 3 OF PHOSPHOIIBMTL AND THE XRAY/NMR COORDINATES OF IIAMTL. REMARK 3 REMARK 3 THE COORDINATES DEPOSITED CORRESPOND TO THE RESTRAINED REMARK 3 REGULARIZED MEAN COORDINATES. THE STRUCTURE IS BASED ON REMARK 3 84 INTERMOLECULAR NOE RESTRAINTS BETWEEN IIAMTL AND IIBMTL; REMARK 3 37 INTRAMOLECULAR NOE RESTRAINTS FOR IIAMTL AND 46 REMARK 3 46 INTRAMOLECULAR NOE RESTRAINTS FOR IIBMTL RELATED REMARK 3 ONLY TO INTERFACIAL SIDECHAINS; AND 55 SIDECHAIN TORSION ANGLE REMARK 3 RESTRAINTS (36 FOR IIAMTL AND 19 FOR IIBMTL) RELATED REMARK 3 TO INTERFACIAL SIDECHAINS ONLY. REMARK 3 DEVIATIONS FROM NOE DISTANCE RESTRAINTS: 0.009 A REMARK 3 DEVIATIONS FROM SIDECHAIN TORSION ANGLE RESTRAINTS: 0.31 DEG REMARK 3 DEVIATIONS FROM IDEALIZED GEOMETRY: BONDS 0.006A, REMARK 3 ANGLES: 0.9 DEG, IMPROPER TORSIONS 1.3 DEG. REMARK 4 REMARK 4 2FEW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-DEC-05. REMARK 100 THE DEPOSITION ID IS D_1000035795. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303.00 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 20 MM TRIS-D11 REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ; 800 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : DMX500; DMX600; DRX600; DRX750; REMARK 210 DRX800 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : CONJOINED RIGID BODY/TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : REGULARIZED MEAN STRUCTURE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE FOLLOWING EXPERIMENTS WERE CONDUCTED: (1) TRIPLE REMARK 210 RESONANCE FOR ASSIGNMENT OF PROTEINS; (2) QUANTITATIVE J REMARK 210 CORRELATION FOR COUPLING CONSTANTS; (3) 3D AND 4D HETERONUCLEAR REMARK 210 SEPARATED AND FILTERED NOE EXPERIMENTS; (4) IPAP EXPERIMENTS FOR REMARK 210 DIPOLAR COUPLINGS. DIPOLAR COUPLINGS WERE MEASURED IN A NEUTRAL REMARK 210 AXIALLY STRETCHED POLYACRYLAMIDE GEL. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 ASN A 3 REMARK 465 LYS A 148 REMARK 465 THR B 472 REMARK 465 GLU B 473 REMARK 465 ASN B 474 REMARK 465 GLU B 475 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 RES CSSEQI ATOMS REMARK 470 ARG A 147 O 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 HD1 HIS B 430 H ASP B 432 1.16 REMARK 500 HA LEU A 7 HD22 ASN A 11 1.26 REMARK 500 HH TYR A 42 H GLY A 66 1.30 REMARK 500 HG1 THR A 134 H SER A 136 1.31 REMARK 500 HH11 ARG A 99 HE2 HIS A 133 1.34 REMARK 500 HE ARG A 107 HD22 ASN A 108 1.35 REMARK 500 HE ARG A 107 ND2 ASN A 108 1.38 REMARK 500 HH22 ARG A 99 OE2 GLU A 129 1.39 REMARK 500 CD GLU A 41 HH21 ARG A 73 1.39 REMARK 500 O2P SEP B 384 H MET B 388 1.43 REMARK 500 O1P SEP B 384 H SER B 391 1.45 REMARK 500 OE2 GLU A 41 HH21 ARG A 73 1.51 REMARK 500 OE1 GLU A 41 HH21 ARG A 73 1.53 REMARK 500 OG SEP B 384 H GLY B 387 1.57 REMARK 500 OH TYR A 42 H GLY A 66 1.59 REMARK 500 OE1 GLU A 39 NH1 ARG A 73 1.88 REMARK 500 OE1 GLU A 41 NH2 ARG A 73 2.08 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 THR A 53 138.00 -172.46 REMARK 500 GLU A 110 32.15 -84.76 REMARK 500 ARG B 378 -3.03 -143.14 REMARK 500 ASP B 454 79.20 -61.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE NUMBERING: REMARK 999 IIAMTL: 4-147 (RESIDUES 1-3 ARE DISORDERED REMARK 999 IN SOLUTION AND NOT VISIBLE IN THE ELECTRON DENSITY REMARK 999 MAP OF THE CRYSTAL STRUCTURE OF THE FREE PROTEIN). REMARK 999 IN INTACT ENZYME IIMTL, THESE COORESPOND TO REMARK 999 RESIDUES 493-636 OF INTACT ENZYME IIMTL. REMARK 999 IIBMTL: 375-471 (CORRESPONDS TO NUMBERING IN INTACT IIMTL) REMARK 999 PHOSPHATE: RESIDUE 200 DBREF 2FEW A 2 148 UNP P00550 PTM3C_ECOLI 491 637 DBREF 2FEW B 375 475 GB 13363950 BAB37898 375 475 SEQADV 2FEW MET A 1 UNP P00550 INITIATING METHIONINE SEQADV 2FEW GLN A 65 UNP P00550 HIS 554 ENGINEERED MUTATION SEQADV 2FEW SEP B 384 GB 13363950 CYS 384 ENGINEERED MUTATION SEQRES 1 A 148 MET ALA ASN LEU PHE LYS LEU GLY ALA GLU ASN ILE PHE SEQRES 2 A 148 LEU GLY ARG LYS ALA ALA THR LYS GLU GLU ALA ILE ARG SEQRES 3 A 148 PHE ALA GLY GLU GLN LEU VAL LYS GLY GLY TYR VAL GLU SEQRES 4 A 148 PRO GLU TYR VAL GLN ALA MET LEU ASP ARG GLU LYS LEU SEQRES 5 A 148 THR PRO THR TYR LEU GLY GLU SER ILE ALA VAL PRO GLN SEQRES 6 A 148 GLY THR VAL GLU ALA LYS ASP ARG VAL LEU LYS THR GLY SEQRES 7 A 148 VAL VAL PHE CYS GLN TYR PRO GLU GLY VAL ARG PHE GLY SEQRES 8 A 148 GLU GLU GLU ASP ASP ILE ALA ARG LEU VAL ILE GLY ILE SEQRES 9 A 148 ALA ALA ARG ASN ASN GLU HIS ILE GLN VAL ILE THR SER SEQRES 10 A 148 LEU THR ASN ALA LEU ASP ASP GLU SER VAL ILE GLU ARG SEQRES 11 A 148 LEU ALA HIS THR THR SER VAL ASP GLU VAL LEU GLU LEU SEQRES 12 A 148 LEU ALA GLY ARG LYS SEQRES 1 B 101 SER HIS VAL ARG LYS ILE ILE VAL ALA SEP ASP ALA GLY SEQRES 2 B 101 MET GLY SER SER ALA MET GLY ALA GLY VAL LEU ARG LYS SEQRES 3 B 101 LYS ILE GLN ASP ALA GLY LEU SER GLN ILE SER VAL THR SEQRES 4 B 101 ASN SER ALA ILE ASN ASN LEU PRO PRO ASP VAL ASP LEU SEQRES 5 B 101 VAL ILE THR HIS ARG ASP LEU THR GLU ARG ALA MET ARG SEQRES 6 B 101 GLN VAL PRO GLN ALA GLN HIS ILE SER LEU THR ASN PHE SEQRES 7 B 101 LEU ASP SER GLY LEU TYR THR SER LEU THR GLU ARG LEU SEQRES 8 B 101 VAL ALA ALA GLN ARG HIS THR GLU ASN GLU MODRES 2FEW SEP B 384 SER PHOSPHOSERINE HET SEP B 384 14 HETNAM SEP PHOSPHOSERINE HETSYN SEP PHOSPHONOSERINE FORMUL 2 SEP C3 H8 N O6 P HELIX 1 1 GLY A 8 GLU A 10 5 3 HELIX 2 2 THR A 20 GLY A 35 1 16 HELIX 3 3 GLU A 41 THR A 53 1 13 HELIX 4 4 THR A 67 VAL A 74 5 8 HELIX 5 5 ALA A 106 ASN A 109 5 4 HELIX 6 6 GLU A 110 LEU A 122 1 13 HELIX 7 7 ASP A 124 THR A 134 1 11 HELIX 8 8 SER A 136 ALA A 145 1 10 HELIX 9 9 GLY B 389 ALA B 405 1 17 HELIX 10 10 ARG B 431 VAL B 441 1 11 HELIX 11 11 ASP B 454 HIS B 471 1 18 SHEET 1 A 4 ILE A 12 PHE A 13 0 SHEET 2 A 4 GLY A 78 ARG A 89 1 O GLN A 83 N PHE A 13 SHEET 3 A 4 ILE A 97 ALA A 105 -1 O ARG A 99 N TYR A 84 SHEET 4 A 4 ILE A 61 ALA A 62 1 N ALA A 62 O ILE A 102 SHEET 1 B 4 SER B 411 ALA B 416 0 SHEET 2 B 4 LYS B 379 SEP B 384 1 N VAL B 382 O SER B 415 SHEET 3 B 4 LEU B 426 HIS B 430 1 O ILE B 428 N ILE B 381 SHEET 4 B 4 GLN B 445 LEU B 449 1 O GLN B 445 N VAL B 427 LINK C ALA B 383 N SEP B 384 1555 1555 1.33 LINK C SEP B 384 N ASP B 385 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