PDB Short entry for 5FIH HEADER TRANSFERASE 25-SEP-15 5FIH TITLE SACCHAROMYCES CEREVISIAE GAS2P (E176Q MUTANT) IN COMPLEX WITH TITLE 2 LAMINARITETRAOSE AND LAMINARIPENTAOSE CAVEAT 5FIH SER A 139 HAS WRONG CHIRALITY AT ATOM CA COMPND MOL_ID: 1; COMPND 2 MOLECULE: 1,3-BETA-GLUCANOSYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.4.1.-; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_TAXID: 4932; SOURCE 4 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: X33; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PPICZALPHAA KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR L.RAICH,V.BORODKIN,D.M.F.VAN AALTEN,R.HURTADO-GUERRERO,C.ROVIRA REVDAT 5 29-JUL-20 5FIH 1 CAVEAT COMPND REMARK HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 16-JAN-19 5FIH 1 JRNL REVDAT 3 30-MAR-16 5FIH 1 JRNL REVDAT 2 02-MAR-16 5FIH 1 JRNL REVDAT 1 17-FEB-16 5FIH 0 JRNL AUTH L.RAICH,V.BORODKIN,W.FANG,J.CASTRO-LOPEZ,D.M.VAN AALTEN, JRNL AUTH 2 R.HURTADO-GUERRERO,C.ROVIRA JRNL TITL A TRAPPED COVALENT INTERMEDIATE OF A GLYCOSIDE HYDROLASE ON JRNL TITL 2 THE PATHWAY TO TRANSGLYCOSYLATION. INSIGHTS FROM EXPERIMENTS JRNL TITL 3 AND QUANTUM MECHANICS/MOLECULAR MECHANICS SIMULATIONS. JRNL REF J. AM. CHEM. SOC. V. 138 3325 2016 JRNL REFN ESSN 1520-5126 JRNL PMID 26859322 JRNL DOI 10.1021/JACS.5B10092 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 48067 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.200 REMARK 3 FREE R VALUE TEST SET COUNT : 582 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3220 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.43 REMARK 3 BIN R VALUE (WORKING SET) : 0.2770 REMARK 3 BIN FREE R VALUE SET COUNT : 34 REMARK 3 BIN FREE R VALUE : 0.3860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3492 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 100 REMARK 3 SOLVENT ATOMS : 261 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.46000 REMARK 3 B22 (A**2) : 0.21000 REMARK 3 B33 (A**2) : 0.25000 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): 0.136 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.740 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.928 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3686 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5002 ; 1.332 ; 2.015 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 431 ; 5.554 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 176 ;32.526 ;24.773 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 600 ;13.822 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;15.605 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 556 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2759 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2177 ; 0.647 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3513 ; 1.231 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1509 ; 1.845 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1489 ; 3.057 ; 4.500 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 : 1.20 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 5FIH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1290065171. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49626 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 30.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.43000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2W61 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 25.05750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 74.95800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.12900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 74.95800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.05750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.12900 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: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 465 ASN A 2 REMARK 465 LYS A 3 REMARK 465 LYS A 4 REMARK 465 GLN A 5 REMARK 465 ASN A 6 REMARK 465 PHE A 7 REMARK 465 TYR A 8 REMARK 465 ALA A 9 REMARK 465 ALA A 10 REMARK 465 ILE A 11 REMARK 465 ILE A 12 REMARK 465 VAL A 13 REMARK 465 ALA A 14 REMARK 465 ILE A 15 REMARK 465 PHE A 16 REMARK 465 LEU A 17 REMARK 465 CYS A 18 REMARK 465 LEU A 19 REMARK 465 GLN A 20 REMARK 465 LEU A 21 REMARK 465 SER A 22 REMARK 465 HIS A 23 REMARK 465 GLY A 24 REMARK 465 SER A 25 REMARK 465 SER A 26 REMARK 465 GLY A 27 REMARK 465 VAL A 28 REMARK 465 ARG A 63 REMARK 465 SER A 64 REMARK 465 GLU A 65 REMARK 465 GLU A 66 REMARK 465 GLU A 67 REMARK 465 LEU A 68 REMARK 465 SER A 69 REMARK 465 ASN A 70 REMARK 465 ALA A 71 REMARK 465 ASN A 72 REMARK 465 GLY A 73 REMARK 465 ALA A 74 REMARK 465 PHE A 75 REMARK 465 TYR A 353 REMARK 465 LEU A 354 REMARK 465 THR A 355 REMARK 465 ALA A 356 REMARK 465 LYS A 357 REMARK 465 GLU A 358 REMARK 465 PRO A 359 REMARK 465 THR A 360 REMARK 465 GLU A 361 REMARK 465 VAL A 362 REMARK 465 GLU A 363 REMARK 465 GLY A 405 REMARK 465 ALA A 406 REMARK 465 GLU A 407 REMARK 465 SER A 408 REMARK 465 LEU A 483 REMARK 465 THR A 484 REMARK 465 SER A 485 REMARK 465 GLU A 486 REMARK 465 SER A 487 REMARK 465 ILE A 488 REMARK 465 TYR A 501 REMARK 465 ASN A 502 REMARK 465 HIS A 503 REMARK 465 GLY A 504 REMARK 465 ASP A 505 REMARK 465 TYR A 506 REMARK 465 SER A 507 REMARK 465 LYS A 508 REMARK 465 SER A 509 REMARK 465 ASP A 510 REMARK 465 PRO A 511 REMARK 465 SER A 512 REMARK 465 ARG A 513 REMARK 465 SER A 514 REMARK 465 LYS A 515 REMARK 465 GLU A 516 REMARK 465 SER A 517 REMARK 465 LEU A 518 REMARK 465 ASN A 519 REMARK 465 VAL A 520 REMARK 465 LYS A 521 REMARK 465 TYR A 522 REMARK 465 PRO A 523 REMARK 465 SER A 524 REMARK 465 SER A 525 REMARK 465 GLU A 526 REMARK 465 GLU A 527 REMARK 465 ARG A 528 REMARK 465 GLU A 529 REMARK 465 ASN A 530 REMARK 465 ASP A 531 REMARK 465 GLY A 532 REMARK 465 THR A 533 REMARK 465 ILE A 534 REMARK 465 ALA A 535 REMARK 465 PHE A 536 REMARK 465 LYS A 537 REMARK 465 THR A 538 REMARK 465 SER A 539 REMARK 465 GLY A 540 REMARK 465 PHE A 541 REMARK 465 VAL A 542 REMARK 465 ILE A 543 REMARK 465 LEU A 544 REMARK 465 LEU A 545 REMARK 465 ILE A 546 REMARK 465 SER A 547 REMARK 465 MET A 548 REMARK 465 ILE A 549 REMARK 465 ALA A 550 REMARK 465 ALA A 551 REMARK 465 GLY A 552 REMARK 465 ILE A 553 REMARK 465 LEU A 554 REMARK 465 LEU A 555 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 CB VAL A 444 O HOH A 2231 2.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 139 N SER A 139 CA 1.740 REMARK 500 SER A 139 N SER A 139 CA 1.650 REMARK 500 SER A 139 CA SER A 139 CB -1.446 REMARK 500 SER A 139 CA SER A 139 CB -0.991 REMARK 500 SER A 139 CB SER A 139 OG -0.238 REMARK 500 SER A 139 CB SER A 139 OG -0.807 REMARK 500 SER A 139 CA SER A 139 C 1.836 REMARK 500 SER A 139 CA SER A 139 C 1.460 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 SER A 139 C - N - CA ANGL. DEV. = -23.1 DEGREES REMARK 500 SER A 139 C - N - CA ANGL. DEV. = -18.2 DEGREES REMARK 500 SER A 139 CB - CA - C ANGL. DEV. = -32.8 DEGREES REMARK 500 SER A 139 CB - CA - C ANGL. DEV. = 18.5 DEGREES REMARK 500 SER A 139 N - CA - CB ANGL. DEV. = -13.5 DEGREES REMARK 500 SER A 139 CA - CB - OG ANGL. DEV. = 25.9 DEGREES REMARK 500 SER A 139 N - CA - C ANGL. DEV. = -65.4 DEGREES REMARK 500 SER A 139 N - CA - C ANGL. DEV. = -61.7 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 GLN A 176 55.50 38.48 REMARK 500 VAL A 177 -75.43 -71.16 REMARK 500 ASN A 183 32.09 -140.35 REMARK 500 VAL A 374 -53.45 -126.43 REMARK 500 PRO A 467 44.61 -77.72 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 ILE A 138 SER A 139 -127.45 REMARK 500 ILE A 138 SER A 139 -135.55 REMARK 500 SER A 139 ILE A 140 136.41 REMARK 500 SER A 139 ILE A 140 137.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AB" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. DBREF 5FIH A 1 555 UNP N1P1N2 N1P1N2_YEASC 1 555 SEQADV 5FIH GLN A 176 UNP N1P1N2 GLU 176 ENGINEERED MUTATION SEQADV 5FIH ASP A 498 UNP N1P1N2 ASN 498 ENGINEERED MUTATION SEQADV 5FIH ASP A 510 UNP N1P1N2 ASN 510 ENGINEERED MUTATION SEQRES 1 A 555 MET ASN LYS LYS GLN ASN PHE TYR ALA ALA ILE ILE VAL SEQRES 2 A 555 ALA ILE PHE LEU CYS LEU GLN LEU SER HIS GLY SER SER SEQRES 3 A 555 GLY VAL SER PHE GLU LYS THR PRO ALA ILE LYS ILE VAL SEQRES 4 A 555 GLY ASN LYS PHE PHE ASP SER GLU SER GLY GLU GLN PHE SEQRES 5 A 555 PHE ILE LYS GLY ILE ALA TYR GLN LEU GLN ARG SER GLU SEQRES 6 A 555 GLU GLU LEU SER ASN ALA ASN GLY ALA PHE GLU THR SER SEQRES 7 A 555 TYR ILE ASP ALA LEU ALA ASP PRO LYS ILE CYS LEU ARG SEQRES 8 A 555 ASP ILE PRO PHE LEU LYS MET LEU GLY VAL ASN THR LEU SEQRES 9 A 555 ARG VAL TYR ALA ILE ASP PRO THR LYS SER HIS ASP ILE SEQRES 10 A 555 CYS MET GLU ALA LEU SER ALA GLU GLY MET TYR VAL LEU SEQRES 11 A 555 LEU ASP LEU SER GLU PRO ASP ILE SER ILE ASN ARG GLU SEQRES 12 A 555 ASN PRO SER TRP ASP VAL HIS ILE PHE GLU ARG TYR LYS SEQRES 13 A 555 SER VAL ILE ASP ALA MET SER SER PHE PRO ASN LEU LEU SEQRES 14 A 555 GLY TYR PHE ALA GLY ASN GLN VAL THR ASN ASP HIS THR SEQRES 15 A 555 ASN THR PHE ALA SER PRO PHE VAL LYS ALA ALA ILE ARG SEQRES 16 A 555 ASP ALA LYS GLU TYR ILE SER HIS SER ASN HIS ARG LYS SEQRES 17 A 555 ILE PRO VAL GLY TYR SER THR ASN ASP ASP ALA MET THR SEQRES 18 A 555 ARG ASP ASN LEU ALA ARG TYR PHE VAL CYS GLY ASP VAL SEQRES 19 A 555 LYS ALA ASP PHE TYR GLY ILE ASN MET TYR GLU TRP CYS SEQRES 20 A 555 GLY TYR SER THR TYR GLY THR SER GLY TYR ARG GLU ARG SEQRES 21 A 555 THR LYS GLU PHE GLU GLY TYR PRO ILE PRO VAL PHE PHE SEQRES 22 A 555 SER GLU PHE GLY CYS ASN LEU VAL ARG PRO ARG PRO PHE SEQRES 23 A 555 THR GLU VAL SER ALA LEU TYR GLY ASN LYS MET SER SER SEQRES 24 A 555 VAL TRP SER GLY GLY LEU ALA TYR MET TYR PHE GLU GLU SEQRES 25 A 555 GLU ASN GLU TYR GLY VAL VAL LYS ILE ASN ASP ASN ASP SEQRES 26 A 555 GLY VAL ASP ILE LEU PRO ASP PHE LYS ASN LEU LYS LYS SEQRES 27 A 555 GLU PHE ALA LYS ALA ASP PRO LYS GLY ILE THR GLU GLU SEQRES 28 A 555 GLU TYR LEU THR ALA LYS GLU PRO THR GLU VAL GLU SER SEQRES 29 A 555 VAL GLU CYS PRO HIS ILE ALA VAL GLY VAL TRP GLU ALA SEQRES 30 A 555 ASN GLU LYS LEU PRO GLU THR PRO ASP ARG SER LYS CYS SEQRES 31 A 555 ALA CYS LEU ASP GLU ILE LEU PRO CYS GLU ILE VAL PRO SEQRES 32 A 555 PHE GLY ALA GLU SER GLY LYS TYR GLU GLU TYR PHE SER SEQRES 33 A 555 TYR LEU CYS SER LYS VAL ASP CYS SER ASP ILE LEU ALA SEQRES 34 A 555 ASN GLY LYS THR GLY GLU TYR GLY GLU PHE SER ASP CYS SEQRES 35 A 555 SER VAL GLU GLN LYS LEU SER LEU GLN LEU SER LYS LEU SEQRES 36 A 555 TYR CYS LYS ILE GLY ALA ASN ASP ARG HIS CYS PRO LEU SEQRES 37 A 555 ASN ASP LYS ASN VAL TYR PHE ASN LEU GLU SER LEU GLN SEQRES 38 A 555 PRO LEU THR SER GLU SER ILE CYS LYS ASN VAL PHE ASP SEQRES 39 A 555 SER ILE ARG ASP ILE THR TYR ASN HIS GLY ASP TYR SER SEQRES 40 A 555 LYS SER ASP PRO SER ARG SER LYS GLU SER LEU ASN VAL SEQRES 41 A 555 LYS TYR PRO SER SER GLU GLU ARG GLU ASN ASP GLY THR SEQRES 42 A 555 ILE ALA PHE LYS THR SER GLY PHE VAL ILE LEU LEU ILE SEQRES 43 A 555 SER MET ILE ALA ALA GLY ILE LEU LEU HET GLC B 1 11 HET BGC B 2 11 HET BGC B 3 11 HET BGC B 4 11 HET BGC C 1 12 HET BGC C 2 11 HET GLC C 3 11 HET BGC C 4 11 HET BGC C 5 11 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM BGC BETA-D-GLUCOPYRANOSE FORMUL 2 GLC 2(C6 H12 O6) FORMUL 2 BGC 7(C6 H12 O6) FORMUL 4 HOH *261(H2 O) HELIX 1 1 ASP A 81 ALA A 84 5 4 HELIX 2 2 ASP A 85 GLY A 100 1 16 HELIX 3 3 HIS A 115 GLU A 125 1 11 HELIX 4 4 ASP A 148 SER A 163 1 16 HELIX 5 5 ASN A 183 PHE A 185 5 3 HELIX 6 6 ALA A 186 SER A 204 1 19 HELIX 7 7 THR A 221 PHE A 229 1 9 HELIX 8 8 THR A 251 GLY A 256 1 6 HELIX 9 9 GLY A 256 GLU A 265 1 10 HELIX 10 10 THR A 287 TYR A 293 1 7 HELIX 11 11 GLY A 294 SER A 299 1 6 HELIX 12 12 PRO A 331 ALA A 343 1 13 HELIX 13 13 ASP A 386 LEU A 397 1 12 HELIX 14 14 GLY A 409 CYS A 419 1 11 HELIX 15 15 ASP A 423 ILE A 427 5 5 HELIX 16 16 SER A 443 GLY A 460 1 18 HELIX 17 17 LEU A 477 GLN A 481 5 5 HELIX 18 18 CYS A 489 THR A 500 1 12 SHEET 1 AA 2 ILE A 36 VAL A 39 0 SHEET 2 AA 2 LYS A 42 ASP A 45 -1 O LYS A 42 N VAL A 39 SHEET 1 AB 9 ILE A 54 ALA A 58 0 SHEET 2 AB 9 GLY A 303 ALA A 306 1 O GLY A 304 N GLY A 56 SHEET 3 AB 9 VAL A 271 PHE A 276 1 O PHE A 273 N LEU A 305 SHEET 4 AB 9 TYR A 239 MET A 243 1 O TYR A 239 N PHE A 272 SHEET 5 AB 9 VAL A 211 THR A 215 1 O TYR A 213 N GLY A 240 SHEET 6 AB 9 LEU A 168 ASN A 175 1 O TYR A 171 N GLY A 212 SHEET 7 AB 9 TYR A 128 ASP A 132 1 O VAL A 129 N LEU A 169 SHEET 8 AB 9 THR A 103 VAL A 106 1 O LEU A 104 N LEU A 130 SHEET 9 AB 9 ILE A 54 ALA A 58 1 O ILE A 57 N ARG A 105 SHEET 1 AC 2 VAL A 319 ILE A 321 0 SHEET 2 AC 2 VAL A 327 ILE A 329 -1 O ASP A 328 N LYS A 320 SHEET 1 AD 2 CYS A 399 ILE A 401 0 SHEET 2 AD 2 VAL A 473 PHE A 475 -1 O TYR A 474 N GLU A 400 SHEET 1 AE 2 ALA A 429 ASN A 430 0 SHEET 2 AE 2 GLU A 435 TYR A 436 -1 O GLU A 435 N ASN A 430 SSBOND 1 CYS A 89 CYS A 118 1555 1555 2.03 SSBOND 2 CYS A 231 CYS A 367 1555 1555 2.03 SSBOND 3 CYS A 247 CYS A 278 1555 1555 2.03 SSBOND 4 CYS A 390 CYS A 442 1555 1555 2.04 SSBOND 5 CYS A 392 CYS A 489 1555 1555 2.04 SSBOND 6 CYS A 399 CYS A 466 1555 1555 2.05 SSBOND 7 CYS A 419 CYS A 424 1555 1555 2.01 LINK OE1 GLU A 275 C1 GLC B 1 1555 1555 1.52 LINK O3 GLC B 1 C1 BGC B 2 1555 1555 1.40 LINK O3 BGC B 2 C1 BGC B 3 1555 1555 1.44 LINK O3 BGC B 3 C1 BGC B 4 1555 1555 1.40 LINK O3 BGC C 1 C1 BGC C 2 1555 1555 1.45 LINK O3 BGC C 2 C1 GLC C 3 1555 1555 1.46 LINK O3 GLC C 3 C1 BGC C 4 1555 1555 1.43 LINK O3 BGC C 4 C1 BGC C 5 1555 1555 1.48 CISPEP 1 ARG A 282 PRO A 283 0 -11.75 CISPEP 2 TYR A 307 MET A 308 0 -5.82 CRYST1 50.115 70.258 149.916 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 0.019954 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014233 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006670 0.00000