PDB Short entry for 1BY1 HEADER TRANSPORT PROTEIN 22-OCT-98 1BY1 TITLE DBL HOMOLOGY DOMAIN FROM BETA-PIX COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (PIX); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DBL HOMOLOGY DOMAIN; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS RHO-GTPASE EXCHANGE FACTOR, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.AGHAZADEH,K.ZHU,T.J.KUBISESKI,G.A.LIU,T.PAWSON,Y.ZHENG,M.K.ROSEN REVDAT 4 16-FEB-22 1BY1 1 REMARK SEQADV REVDAT 3 24-FEB-09 1BY1 1 VERSN REVDAT 2 29-MAR-05 1BY1 1 JRNL REVDAT 1 24-OCT-99 1BY1 0 JRNL AUTH B.AGHAZADEH,K.ZHU,T.J.KUBISESKI,G.A.LIU,T.PAWSON,Y.ZHENG, JRNL AUTH 2 M.K.ROSEN JRNL TITL STRUCTURE AND MUTAGENESIS OF THE DBL HOMOLOGY DOMAIN JRNL REF NAT.STRUCT.BIOL. V. 5 1098 1998 JRNL REFN ISSN 1072-8368 JRNL PMID 9846881 JRNL DOI 10.1038/4209 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.3, X-PLOR 3.851 REMARK 3 AUTHORS : A.BRUNGER, M.NILGES REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: X-PLOR 3.851 WAS USED IN COMBINATION REMARK 3 WITH ARIA (REF. M. NILGES) REMARK 4 REMARK 4 1BY1 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000007323. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 311 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 150MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY TOCSY 2D; NOESY TOCSY 3D REMARK 210 THROUGH BOND TRANSFER EXPERIMENTS REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW, ARIA, X-PLOR, REMARK 210 CNS REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING A COMBINATION OF TRIPLE REMARK 210 - AND QUADRUPLE- RESONANCE NMR EXPERIMENTS ON 13C/ 15N AND REMARK 210 PARTIALLY OR FULLY DEUTERATED SAMPLES WITH SELECTIVE METHYL REMARK 210 LABELING AT VALINE,LEUCINE AND ISOLEUCINES. 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 O PHE A 67 H LEU A 71 1.53 REMARK 500 O LEU A 22 H ASN A 26 1.56 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 ASP A 5 -33.00 173.97 REMARK 500 1 ASN A 10 111.58 166.20 REMARK 500 1 THR A 34 -71.36 -66.87 REMARK 500 1 LEU A 36 -71.56 -51.74 REMARK 500 1 GLU A 47 -73.25 -43.84 REMARK 500 1 LEU A 49 40.43 -104.65 REMARK 500 1 SER A 50 -82.58 -58.98 REMARK 500 1 ALA A 52 -65.47 68.85 REMARK 500 1 TYR A 56 -86.89 -85.99 REMARK 500 1 LEU A 57 -67.42 -90.68 REMARK 500 1 ASN A 60 -74.05 -89.96 REMARK 500 1 PRO A 82 84.95 -36.11 REMARK 500 1 ALA A 84 -64.06 68.99 REMARK 500 1 GLN A 85 41.09 -152.18 REMARK 500 1 GLN A 86 172.35 -48.17 REMARK 500 1 ARG A 87 99.48 -169.12 REMARK 500 1 PRO A 97 -34.64 -39.27 REMARK 500 1 LEU A 117 -73.10 -61.20 REMARK 500 1 GLU A 129 -90.28 -59.16 REMARK 500 1 THR A 130 26.08 46.10 REMARK 500 1 LYS A 131 -63.71 164.65 REMARK 500 1 ALA A 133 -174.82 -62.15 REMARK 500 1 SER A 134 -156.08 -62.13 REMARK 500 1 PRO A 136 49.58 -72.45 REMARK 500 1 LEU A 141 -81.26 -49.05 REMARK 500 1 HIS A 165 -67.34 68.84 REMARK 500 1 GLU A 167 -82.85 65.86 REMARK 500 1 ASP A 168 178.90 64.98 REMARK 500 1 TYR A 169 -38.97 -179.24 REMARK 500 1 THR A 171 -163.19 -170.56 REMARK 500 1 ASP A 172 -67.23 69.10 REMARK 500 1 ARG A 196 102.74 -43.98 REMARK 500 1 LEU A 201 59.31 38.34 REMARK 500 1 GLN A 202 -56.81 -121.23 REMARK 500 1 THR A 205 57.69 -160.29 REMARK 500 1 ALA A 207 43.35 -106.94 REMARK 500 2 LYS A 2 -69.78 67.31 REMARK 500 2 ASP A 5 36.07 -173.18 REMARK 500 2 ILE A 9 132.74 54.60 REMARK 500 2 LYS A 11 -48.75 -161.61 REMARK 500 2 THR A 34 -73.31 -64.53 REMARK 500 2 GLU A 47 -80.29 -46.64 REMARK 500 2 SER A 50 -157.73 -57.39 REMARK 500 2 SER A 51 159.64 -43.31 REMARK 500 2 ALA A 52 -57.99 75.07 REMARK 500 2 TYR A 56 -90.09 -88.22 REMARK 500 2 LEU A 57 -77.45 -90.12 REMARK 500 2 ASN A 60 -71.91 -91.50 REMARK 500 2 LEU A 81 -174.00 -57.41 REMARK 500 2 PRO A 82 61.72 -66.71 REMARK 500 REMARK 500 THIS ENTRY HAS 709 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1BY1 A 1 209 UNP Q14155 ARHG7_HUMAN 81 289 SEQADV 1BY1 MET A 1 UNP Q14155 PRO 81 CLONING ARTIFACT SEQRES 1 A 209 MET LYS GLY PHE ASP THR THR ALA ILE ASN LYS SER TYR SEQRES 2 A 209 TYR ASN VAL VAL LEU GLN ASN ILE LEU GLU THR GLU ASN SEQRES 3 A 209 GLU TYR SER LYS GLU LEU GLN THR VAL LEU SER THR TYR SEQRES 4 A 209 LEU ARG PRO LEU GLN THR SER GLU LYS LEU SER SER ALA SEQRES 5 A 209 ASN ILE SER TYR LEU MET GLY ASN LEU GLU GLU ILE CYS SEQRES 6 A 209 SER PHE GLN GLN MET LEU VAL GLN SER LEU GLU GLU CYS SEQRES 7 A 209 THR LYS LEU PRO GLU ALA GLN GLN ARG VAL GLY GLY CYS SEQRES 8 A 209 PHE LEU ASN LEU MET PRO GLN MET LYS THR LEU TYR LEU SEQRES 9 A 209 THR TYR CYS ALA ASN HIS PRO SER ALA VAL ASN VAL LEU SEQRES 10 A 209 THR GLU HIS SER GLU GLU LEU GLY GLU PHE MET GLU THR SEQRES 11 A 209 LYS GLY ALA SER SER PRO GLY ILE LEU VAL LEU THR THR SEQRES 12 A 209 GLY LEU SER LYS PRO PHE MET ARG LEU ASP LYS TYR PRO SEQRES 13 A 209 THR LEU LEU LYS GLU LEU GLU ARG HIS MET GLU ASP TYR SEQRES 14 A 209 HIS THR ASP ARG GLN ASP ILE GLN LYS SER MET ALA ALA SEQRES 15 A 209 PHE LYS ASN LEU SER ALA GLN CYS GLN GLU VAL ARG LYS SEQRES 16 A 209 ARG LYS GLU LEU GLU LEU GLN ILE LEU THR GLU ALA ILE SEQRES 17 A 209 ARG HELIX 1 1 TYR A 13 THR A 45 1 33 HELIX 2 2 ASN A 53 TYR A 56 1 4 HELIX 3 3 MET A 58 LYS A 80 1 23 HELIX 4 4 VAL A 88 HIS A 120 1 33 HELIX 5 5 LEU A 124 PHE A 127 1 4 HELIX 6 6 VAL A 140 LYS A 147 1 8 HELIX 7 7 ARG A 151 ARG A 164 5 14 HELIX 8 8 ARG A 173 LYS A 195 5 23 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