HEADER SIGNALING PROTEIN/TRANSFERASE 24-AUG-07 2R25 TITLE COMPLEX OF YPD1 AND SLN1-R1 WITH BOUND MG2+ AND BEF3- COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHORELAY INTERMEDIATE PROTEIN YPD1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HISTIDINE-CONTAINING PHOSPHOTRANSFER PROTEIN YPD1, TYROSINE COMPND 5 PHOSPHATASE-DEPENDENT PROTEIN 1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: OSMOSENSING HISTIDINE PROTEIN KINASE SLN1; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 1086-1218; COMPND 11 SYNONYM: OSMOLARITY TWO-COMPONENT SYSTEM PROTEIN SLN1, TYROSINE COMPND 12 PHOSPHATASE-DEPENDENT PROTEIN 2; COMPND 13 EC: 2.7.13.3; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: YPD1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 11 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 12 ORGANISM_TAXID: 4932; SOURCE 13 GENE: SLN1, YPD2; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS ALPHA5-BETA5, RESPONSE REGULATOR, FOUR HELIX BUNDLE, HISTIDINE KEYWDS 2 PHOSPHOTRANSFER (HPT) PROTEIN, HISTIDINE KINASE (HK), CYTOPLASM, KEYWDS 3 NUCLEUS, PHOSPHORYLATION, TWO-COMPONENT REGULATORY SYSTEM, KEYWDS 4 GLYCOPROTEIN, MAGNESIUM, MEMBRANE, METAL-BINDING, TRANSFERASE, KEYWDS 5 TRANSMEMBRANE, SIGNALING PROTEIN-TRANSFERASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.M.COPELAND,X.ZHAO,A.S.SOARES,A.H.WEST REVDAT 4 30-AUG-23 2R25 1 REMARK LINK REVDAT 3 25-OCT-17 2R25 1 REMARK REVDAT 2 24-FEB-09 2R25 1 VERSN REVDAT 1 15-JAN-08 2R25 0 JRNL AUTH X.ZHAO,D.M.COPELAND,A.S.SOARES,A.H.WEST JRNL TITL CRYSTAL STRUCTURE OF A COMPLEX BETWEEN THE PHOSPHORELAY JRNL TITL 2 PROTEIN YPD1 AND THE RESPONSE REGULATOR DOMAIN OF SLN1 BOUND JRNL TITL 3 TO A PHOSPHORYL ANALOG JRNL REF J.MOL.BIOL. V. 375 1141 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 18076904 JRNL DOI 10.1016/J.JMB.2007.11.045 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 42989 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2168 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2928 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 164 REMARK 3 BIN FREE R VALUE : 0.4040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2377 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 238 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.103 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.107 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.075 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.761 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2505 ; 0.032 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3385 ; 2.565 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 318 ; 7.905 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;38.153 ;26.218 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 498 ;17.986 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;17.835 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 390 ; 0.252 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1857 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1324 ; 0.260 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1710 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 217 ; 0.203 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.445 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 39 ; 0.253 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 12 ; 0.142 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1546 ; 2.793 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2514 ; 3.995 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 974 ; 4.564 ; 4.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 868 ; 6.306 ; 6.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2R25 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-AUG-07. REMARK 100 THE DEPOSITION ID IS D_1000044330. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.900 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51329 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.39000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1QSP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2 M AMMONIUM SULFATE, 50 MM SODIUM REMARK 280 ACETATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K, PH 5.60 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 26.00650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.19600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.77200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.19600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.00650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.77200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2170 ANGSTROM**2 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 SER A 2 OG REMARK 470 SER B1087 OG REMARK 470 GLN B1214 O REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OE1 GLU B 1101 O HOH B 238 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU B 1101 O HOH A 203 4455 2.07 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 LEU A 138 CB - CG - CD1 ANGL. DEV. = 10.4 DEGREES REMARK 500 MET B1140 CB - CG - SD ANGL. DEV. = -19.5 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 ASP A 22 -77.57 63.92 REMARK 500 SER A 25 1.73 106.98 REMARK 500 ASP A 108 72.19 -100.35 REMARK 500 ASP A 129 -59.11 80.69 REMARK 500 SER B1087 -83.09 97.47 REMARK 500 GLU B1094 125.21 -171.92 REMARK 500 LYS B1149 -66.88 79.28 REMARK 500 ALA B1176 -157.53 123.51 REMARK 500 ALA B1211 -97.94 -11.42 REMARK 500 LYS B1217 80.75 143.12 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 GLY B 1164 TYR B 1165 -126.92 REMARK 500 PHE B 1175 ALA B 1176 30.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 1 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 159 O REMARK 620 2 HOH B 160 O 86.9 REMARK 620 3 ASP B1095 OD2 87.7 84.9 REMARK 620 4 ASP B1144 OD2 172.8 92.7 85.1 REMARK 620 5 GLN B1146 O 90.8 177.2 93.3 89.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BEF B 2 BE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B1144 OD1 REMARK 620 2 BEF B 2 F1 110.1 REMARK 620 3 BEF B 2 F2 105.7 111.2 REMARK 620 4 BEF B 2 F3 108.6 110.0 111.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 5 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B1138 O REMARK 620 2 TYR B1165 OH 62.7 REMARK 620 3 PRO B1168 O 159.8 137.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEF B 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QSP RELATED DB: PDB REMARK 900 RELATED ID: 1OXB RELATED DB: PDB REMARK 900 RELATED ID: 1OXK RELATED DB: PDB DBREF 2R25 A 1 167 UNP Q07688 YPD1_YEAST 1 167 DBREF 2R25 B 1086 1218 UNP P39928 SLN1_YEAST 1086 1218 SEQRES 1 A 167 MET SER THR ILE PRO SER GLU ILE ILE ASN TRP THR ILE SEQRES 2 A 167 LEU ASN GLU ILE ILE SER MET ASP ASP ASP ASP SER ASP SEQRES 3 A 167 PHE SER LYS GLY LEU ILE ILE GLN PHE ILE ASP GLN ALA SEQRES 4 A 167 GLN THR THR PHE ALA GLN MET GLN ARG GLN LEU ASP GLY SEQRES 5 A 167 GLU LYS ASN LEU THR GLU LEU ASP ASN LEU GLY HIS PHE SEQRES 6 A 167 LEU LYS GLY SER SER ALA ALA LEU GLY LEU GLN ARG ILE SEQRES 7 A 167 ALA TRP VAL CYS GLU ARG ILE GLN ASN LEU GLY ARG LYS SEQRES 8 A 167 MET GLU HIS PHE PHE PRO ASN LYS THR GLU LEU VAL ASN SEQRES 9 A 167 THR LEU SER ASP LYS SER ILE ILE ASN GLY ILE ASN ILE SEQRES 10 A 167 ASP GLU ASP ASP GLU GLU ILE LYS ILE GLN VAL ASP ASP SEQRES 11 A 167 LYS ASP GLU ASN SER ILE TYR LEU ILE LEU ILE ALA LYS SEQRES 12 A 167 ALA LEU ASN GLN SER ARG LEU GLU PHE LYS LEU ALA ARG SEQRES 13 A 167 ILE GLU LEU SER LYS TYR TYR ASN THR ASN LEU SEQRES 1 B 133 THR SER VAL LYS ILE LEU VAL VAL GLU ASP ASN HIS VAL SEQRES 2 B 133 ASN GLN GLU VAL ILE LYS ARG MET LEU ASN LEU GLU GLY SEQRES 3 B 133 ILE GLU ASN ILE GLU LEU ALA CYS ASP GLY GLN GLU ALA SEQRES 4 B 133 PHE ASP LYS VAL LYS GLU LEU THR SER LYS GLY GLU ASN SEQRES 5 B 133 TYR ASN MET ILE PHE MET ASP VAL GLN MET PRO LYS VAL SEQRES 6 B 133 ASP GLY LEU LEU SER THR LYS MET ILE ARG ARG ASP LEU SEQRES 7 B 133 GLY TYR THR SER PRO ILE VAL ALA LEU THR ALA PHE ALA SEQRES 8 B 133 ASP ASP SER ASN ILE LYS GLU CYS LEU GLU SER GLY MET SEQRES 9 B 133 ASN GLY PHE LEU SER LYS PRO ILE LYS ARG PRO LYS LEU SEQRES 10 B 133 LYS THR ILE LEU THR GLU PHE CYS ALA ALA TYR GLN GLY SEQRES 11 B 133 LYS LYS ASN HET MG B 1 1 HET NA B 5 1 HET BEF B 2 4 HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM BEF BERYLLIUM TRIFLUORIDE ION FORMUL 3 MG MG 2+ FORMUL 4 NA NA 1+ FORMUL 5 BEF BE F3 1- FORMUL 6 HOH *238(H2 O) HELIX 1 1 ASN A 10 MET A 20 1 11 HELIX 2 2 SER A 25 GLY A 52 1 28 HELIX 3 3 ASN A 55 LEU A 73 1 19 HELIX 4 4 LEU A 75 ARG A 90 1 16 HELIX 5 5 ASN A 98 ASN A 104 1 7 HELIX 6 6 ASP A 108 ASN A 113 5 6 HELIX 7 7 ASN A 134 TYR A 163 1 30 HELIX 8 8 ASN B 1096 GLU B 1110 1 15 HELIX 9 9 ASP B 1120 GLY B 1135 1 16 HELIX 10 10 ASP B 1151 LEU B 1163 1 13 HELIX 11 11 ASP B 1177 SER B 1187 1 11 HELIX 12 12 LYS B 1198 CYS B 1210 1 13 SHEET 1 A 5 ILE B1115 ALA B1118 0 SHEET 2 A 5 ILE B1090 VAL B1093 1 N VAL B1092 O GLU B1116 SHEET 3 A 5 MET B1140 MET B1143 1 O PHE B1142 N VAL B1093 SHEET 4 A 5 ILE B1169 THR B1173 1 O VAL B1170 N MET B1143 SHEET 5 A 5 GLY B1191 SER B1194 1 O LEU B1193 N ALA B1171 LINK MG MG B 1 O HOH B 159 1555 1555 2.03 LINK MG MG B 1 O HOH B 160 1555 1555 2.11 LINK MG MG B 1 OD2 ASP B1095 1555 1555 2.06 LINK MG MG B 1 OD2 ASP B1144 1555 1555 2.10 LINK MG MG B 1 O GLN B1146 1555 1555 2.13 LINK BE BEF B 2 OD1 ASP B1144 1555 1555 1.69 LINK NA NA B 5 O TYR B1138 1555 1555 2.50 LINK NA NA B 5 OH TYR B1165 1555 1555 2.23 LINK NA NA B 5 O PRO B1168 1555 1555 2.59 CISPEP 1 VAL A 128 ASP A 129 0 13.35 CISPEP 2 LYS B 1195 PRO B 1196 0 -1.14 CISPEP 3 LYS B 1216 LYS B 1217 0 -0.52 SITE 1 AC1 6 BEF B 2 HOH B 159 HOH B 160 ASP B1095 SITE 2 AC1 6 ASP B1144 GLN B1146 SITE 1 AC2 7 TYR B1138 ASN B1139 MET B1140 ILE B1141 SITE 2 AC2 7 TYR B1165 SER B1167 PRO B1168 SITE 1 AC3 11 HIS A 64 HOH A 184 MG B 1 HOH B 159 SITE 2 AC3 11 HOH B 160 ASP B1144 VAL B1145 GLN B1146 SITE 3 AC3 11 THR B1173 ALA B1174 LYS B1195 CRYST1 52.013 75.544 98.392 90.00 90.00 90.00 P 21 21 21 4 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 0.019226 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013237 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010163 0.00000