PDB Short entry for 1KCX HEADER SIGNALING PROTEIN 11-NOV-01 1KCX TITLE X-RAY STRUCTURE OF NYSGRC TARGET T-45 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROPYRIMIDINASE RELATED PROTEIN-1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 8-525; COMPND 5 SYNONYM: DRP-1, CRMP-1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CRMP1 (8-525); SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: UT5600; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX6P1 KEYWDS ALPHA/BETA BARREL, STRUCTURAL GENOMICS, PSI, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS, KEYWDS 3 NYSGXRC, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR R.C.DEO,E.F.SCHMIDT,S.M.STRITTMATTER,S.K.BURLEY,NEW YORK SGX RESEARCH AUTHOR 2 CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 6 07-FEB-24 1KCX 1 REMARK REVDAT 5 03-FEB-21 1KCX 1 AUTHOR JRNL REVDAT 4 24-FEB-09 1KCX 1 VERSN REVDAT 3 01-MAR-05 1KCX 1 JRNL REVDAT 2 25-JAN-05 1KCX 1 AUTHOR KEYWDS REMARK REVDAT 1 05-AUG-03 1KCX 0 JRNL AUTH R.C.DEO,E.F.SCHMIDT,A.ELHABAZI,H.TOGASHI,S.K.BURLEY, JRNL AUTH 2 S.M.STRITTMATTER JRNL TITL STRUCTURAL BASES FOR CRMP FUNCTION IN PLEXIN-DEPENDENT JRNL TITL 2 SEMAPHORIN3A SIGNALING JRNL REF EMBO J. V. 23 9 2004 JRNL REFN ISSN 0261-4189 JRNL PMID 14685275 JRNL DOI 10.1038/SJ.EMBOJ.7600021 REMARK 2 REMARK 2 RESOLUTION. 2.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 76527 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 7653 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7282 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 804 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1KCX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-NOV-01. REMARK 100 THE DEPOSITION ID IS D_1000014822. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-00 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X9A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.984 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78239 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 REMARK 200 RESOLUTION RANGE LOW (A) : 24.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.4 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : 0.06300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.31300 REMARK 200 R SYM FOR SHELL (I) : 0.31300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: ISOPROPANOL, TRIS, AMMONIUM ACETATE, REMARK 280 PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 78.58250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 78.58250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 61.69800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 76.05550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 61.69800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 76.05550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 78.58250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 61.69800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 76.05550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 78.58250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 61.69800 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 76.05550 REMARK 290 SMTRY3 8 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 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. (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 SER A 8 REMARK 465 ILE A 9 REMARK 465 PRO A 10 REMARK 465 HIS A 11 REMARK 465 ILE A 12 REMARK 465 THR A 13 REMARK 465 SER A 14 REMARK 465 LEU A 491 REMARK 465 HIS A 492 REMARK 465 SER A 493 REMARK 465 VAL A 494 REMARK 465 SER A 495 REMARK 465 ARG A 496 REMARK 465 GLY A 497 REMARK 465 MET A 498 REMARK 465 TYR A 499 REMARK 465 ASP A 500 REMARK 465 GLY A 501 REMARK 465 PRO A 502 REMARK 465 VAL A 503 REMARK 465 TYR A 504 REMARK 465 GLU A 505 REMARK 465 VAL A 506 REMARK 465 PRO A 507 REMARK 465 ALA A 508 REMARK 465 THR A 509 REMARK 465 PRO A 510 REMARK 465 LYS A 511 REMARK 465 HIS A 512 REMARK 465 ALA A 513 REMARK 465 ALA A 514 REMARK 465 PRO A 515 REMARK 465 ALA A 516 REMARK 465 PRO A 517 REMARK 465 SER A 518 REMARK 465 ALA A 519 REMARK 465 LYS A 520 REMARK 465 SER A 521 REMARK 465 SER A 522 REMARK 465 PRO A 523 REMARK 465 SER A 524 REMARK 465 LYS A 525 REMARK 465 SER B 8 REMARK 465 ILE B 9 REMARK 465 PRO B 10 REMARK 465 HIS B 11 REMARK 465 ILE B 12 REMARK 465 THR B 13 REMARK 465 SER B 14 REMARK 465 LEU B 491 REMARK 465 HIS B 492 REMARK 465 SER B 493 REMARK 465 VAL B 494 REMARK 465 SER B 495 REMARK 465 ARG B 496 REMARK 465 GLY B 497 REMARK 465 MET B 498 REMARK 465 TYR B 499 REMARK 465 ASP B 500 REMARK 465 GLY B 501 REMARK 465 PRO B 502 REMARK 465 VAL B 503 REMARK 465 TYR B 504 REMARK 465 GLU B 505 REMARK 465 VAL B 506 REMARK 465 PRO B 507 REMARK 465 ALA B 508 REMARK 465 THR B 509 REMARK 465 PRO B 510 REMARK 465 LYS B 511 REMARK 465 HIS B 512 REMARK 465 ALA B 513 REMARK 465 ALA B 514 REMARK 465 PRO B 515 REMARK 465 ALA B 516 REMARK 465 PRO B 517 REMARK 465 SER B 518 REMARK 465 ALA B 519 REMARK 465 LYS B 520 REMARK 465 SER B 521 REMARK 465 SER B 522 REMARK 465 PRO B 523 REMARK 465 SER B 524 REMARK 465 LYS B 525 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 GLU A 47 CG CD OE1 OE2 REMARK 470 ASN A 48 CG OD1 ND2 REMARK 470 LEU A 49 CG CD1 CD2 REMARK 470 VAL A 51 CG1 CG2 REMARK 470 VAL A 343 CG1 CG2 REMARK 470 GLU B 47 CG CD OE1 OE2 REMARK 470 ASN B 48 CG OD1 ND2 REMARK 470 LEU B 49 CG CD1 CD2 REMARK 470 VAL B 51 CG1 CG2 REMARK 470 VAL B 343 CG1 CG2 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 SD MET A 417 OG SER A 442 2.11 REMARK 500 O TYR A 395 O LYS A 398 2.15 REMARK 500 O TYR B 395 O LYS B 398 2.17 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 O HOH A 758 O HOH A 758 4555 2.09 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 LYS A 416 CB LYS A 416 CG 0.251 REMARK 500 LYS A 416 CG LYS A 416 CD 0.338 REMARK 500 LYS A 416 CD LYS A 416 CE 0.193 REMARK 500 MET A 417 CG MET A 417 SD 0.359 REMARK 500 MET A 417 SD MET A 417 CE 0.483 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 ASP A 415 CB - CG - OD1 ANGL. DEV. = -6.2 DEGREES REMARK 500 ASP A 415 N - CA - C ANGL. DEV. = 16.9 DEGREES REMARK 500 LYS A 416 CD - CE - NZ ANGL. DEV. = 17.6 DEGREES REMARK 500 MET A 417 CG - SD - CE ANGL. DEV. = 14.7 DEGREES REMARK 500 MET A 417 N - CA - C ANGL. DEV. = 30.3 DEGREES REMARK 500 LYS A 418 C - N - CA ANGL. DEV. = -23.7 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 ASN A 48 141.28 -172.91 REMARK 500 LEU A 49 -160.62 52.24 REMARK 500 ILE A 50 9.15 106.93 REMARK 500 TYR A 170 63.80 68.19 REMARK 500 LEU A 173 -66.67 -124.00 REMARK 500 CYS A 334 60.87 -173.88 REMARK 500 SER A 385 -61.20 -153.78 REMARK 500 TYR A 395 -93.68 -37.38 REMARK 500 ASP A 415 35.55 -90.14 REMARK 500 LYS A 416 -168.86 176.43 REMARK 500 MET A 417 29.77 35.26 REMARK 500 ASN B 48 179.30 166.97 REMARK 500 LEU B 49 170.02 66.92 REMARK 500 ILE B 50 50.93 81.29 REMARK 500 GLU B 111 -163.40 -58.94 REMARK 500 PRO B 112 92.04 -67.06 REMARK 500 SER B 143 145.57 -173.64 REMARK 500 TYR B 170 57.29 71.04 REMARK 500 LEU B 173 -70.89 -117.55 REMARK 500 ASN B 247 66.88 68.75 REMARK 500 CYS B 334 55.70 -179.11 REMARK 500 ALA B 342 -7.83 -52.35 REMARK 500 VAL B 343 1.22 -63.18 REMARK 500 ASN B 347 99.31 -168.32 REMARK 500 SER B 385 -60.26 -152.69 REMARK 500 TYR B 395 -88.68 -36.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-T45 RELATED DB: TARGETDB DBREF 1KCX A 8 525 UNP P97427 DPYL1_MOUSE 8 525 DBREF 1KCX B 8 525 UNP P97427 DPYL1_MOUSE 8 525 SEQRES 1 A 518 SER ILE PRO HIS ILE THR SER ASP ARG LEU LEU ILE ARG SEQRES 2 A 518 GLY GLY ARG ILE ILE ASN ASP ASP GLN SER PHE TYR ALA SEQRES 3 A 518 ASP VAL TYR LEU GLU ASP GLY LEU ILE LYS GLN ILE GLY SEQRES 4 A 518 GLU ASN LEU ILE VAL PRO GLY GLY VAL LYS THR ILE GLU SEQRES 5 A 518 ALA ASN GLY ARG MET VAL ILE PRO GLY GLY ILE ASP VAL SEQRES 6 A 518 ASN THR TYR LEU GLN LYS PRO SER GLN GLY MET THR SER SEQRES 7 A 518 ALA ASP ASP PHE PHE GLN GLY THR LYS ALA ALA LEU ALA SEQRES 8 A 518 GLY GLY THR THR MET ILE ILE ASP HIS VAL VAL PRO GLU SEQRES 9 A 518 PRO GLY SER SER LEU LEU THR SER PHE GLU LYS TRP HIS SEQRES 10 A 518 GLU ALA ALA ASP THR LYS SER CYS CYS ASP TYR SER LEU SEQRES 11 A 518 HIS VAL ASP ILE THR SER TRP TYR ASP GLY VAL ARG GLU SEQRES 12 A 518 GLU LEU GLU VAL LEU VAL GLN ASP LYS GLY VAL ASN SER SEQRES 13 A 518 PHE GLN VAL TYR MET ALA TYR LYS ASP LEU TYR GLN MET SEQRES 14 A 518 SER ASP SER GLN LEU TYR GLU ALA PHE THR PHE LEU LYS SEQRES 15 A 518 GLY LEU GLY ALA VAL ILE LEU VAL HIS ALA GLU ASN GLY SEQRES 16 A 518 ASP LEU ILE ALA GLN GLU GLN LYS ARG ILE LEU GLU MET SEQRES 17 A 518 GLY ILE THR GLY PRO GLU GLY HIS ALA LEU SER ARG PRO SEQRES 18 A 518 GLU GLU LEU GLU ALA GLU ALA VAL PHE ARG ALA ILE ALA SEQRES 19 A 518 ILE ALA GLY ARG ILE ASN CYS PRO VAL TYR ILE THR LYS SEQRES 20 A 518 VAL MET SER LYS SER ALA ALA ASP ILE ILE ALA LEU ALA SEQRES 21 A 518 ARG LYS LYS GLY PRO LEU VAL PHE GLY GLU PRO ILE ALA SEQRES 22 A 518 ALA SER LEU GLY THR ASP GLY THR HIS TYR TRP SER LYS SEQRES 23 A 518 ASN TRP ALA LYS ALA ALA ALA PHE VAL THR SER PRO PRO SEQRES 24 A 518 LEU SER PRO ASP PRO THR THR PRO ASP TYR LEU THR SER SEQRES 25 A 518 LEU LEU ALA CYS GLY ASP LEU GLN VAL THR GLY SER GLY SEQRES 26 A 518 HIS CYS PRO TYR SER THR ALA GLN LYS ALA VAL GLY LYS SEQRES 27 A 518 ASP ASN PHE THR LEU ILE PRO GLU GLY VAL ASN GLY ILE SEQRES 28 A 518 GLU GLU ARG MET THR VAL VAL TRP ASP LYS ALA VAL ALA SEQRES 29 A 518 THR GLY LYS MET ASP GLU ASN GLN PHE VAL ALA VAL THR SEQRES 30 A 518 SER THR ASN ALA ALA LYS ILE PHE ASN LEU TYR PRO ARG SEQRES 31 A 518 LYS GLY ARG ILE ALA VAL GLY SER ASP ALA ASP VAL VAL SEQRES 32 A 518 ILE TRP ASP PRO ASP LYS MET LYS THR ILE THR ALA LYS SEQRES 33 A 518 SER HIS LYS SER THR VAL GLU TYR ASN ILE PHE GLU GLY SEQRES 34 A 518 MET GLU CYS HIS GLY SER PRO LEU VAL VAL ILE SER GLN SEQRES 35 A 518 GLY LYS ILE VAL PHE GLU ASP GLY ASN ILE SER VAL SER SEQRES 36 A 518 LYS GLY MET GLY ARG PHE ILE PRO ARG LYS PRO PHE PRO SEQRES 37 A 518 GLU HIS LEU TYR GLN ARG VAL ARG ILE ARG SER LYS VAL SEQRES 38 A 518 PHE GLY LEU HIS SER VAL SER ARG GLY MET TYR ASP GLY SEQRES 39 A 518 PRO VAL TYR GLU VAL PRO ALA THR PRO LYS HIS ALA ALA SEQRES 40 A 518 PRO ALA PRO SER ALA LYS SER SER PRO SER LYS SEQRES 1 B 518 SER ILE PRO HIS ILE THR SER ASP ARG LEU LEU ILE ARG SEQRES 2 B 518 GLY GLY ARG ILE ILE ASN ASP ASP GLN SER PHE TYR ALA SEQRES 3 B 518 ASP VAL TYR LEU GLU ASP GLY LEU ILE LYS GLN ILE GLY SEQRES 4 B 518 GLU ASN LEU ILE VAL PRO GLY GLY VAL LYS THR ILE GLU SEQRES 5 B 518 ALA ASN GLY ARG MET VAL ILE PRO GLY GLY ILE ASP VAL SEQRES 6 B 518 ASN THR TYR LEU GLN LYS PRO SER GLN GLY MET THR SER SEQRES 7 B 518 ALA ASP ASP PHE PHE GLN GLY THR LYS ALA ALA LEU ALA SEQRES 8 B 518 GLY GLY THR THR MET ILE ILE ASP HIS VAL VAL PRO GLU SEQRES 9 B 518 PRO GLY SER SER LEU LEU THR SER PHE GLU LYS TRP HIS SEQRES 10 B 518 GLU ALA ALA ASP THR LYS SER CYS CYS ASP TYR SER LEU SEQRES 11 B 518 HIS VAL ASP ILE THR SER TRP TYR ASP GLY VAL ARG GLU SEQRES 12 B 518 GLU LEU GLU VAL LEU VAL GLN ASP LYS GLY VAL ASN SER SEQRES 13 B 518 PHE GLN VAL TYR MET ALA TYR LYS ASP LEU TYR GLN MET SEQRES 14 B 518 SER ASP SER GLN LEU TYR GLU ALA PHE THR PHE LEU LYS SEQRES 15 B 518 GLY LEU GLY ALA VAL ILE LEU VAL HIS ALA GLU ASN GLY SEQRES 16 B 518 ASP LEU ILE ALA GLN GLU GLN LYS ARG ILE LEU GLU MET SEQRES 17 B 518 GLY ILE THR GLY PRO GLU GLY HIS ALA LEU SER ARG PRO SEQRES 18 B 518 GLU GLU LEU GLU ALA GLU ALA VAL PHE ARG ALA ILE ALA SEQRES 19 B 518 ILE ALA GLY ARG ILE ASN CYS PRO VAL TYR ILE THR LYS SEQRES 20 B 518 VAL MET SER LYS SER ALA ALA ASP ILE ILE ALA LEU ALA SEQRES 21 B 518 ARG LYS LYS GLY PRO LEU VAL PHE GLY GLU PRO ILE ALA SEQRES 22 B 518 ALA SER LEU GLY THR ASP GLY THR HIS TYR TRP SER LYS SEQRES 23 B 518 ASN TRP ALA LYS ALA ALA ALA PHE VAL THR SER PRO PRO SEQRES 24 B 518 LEU SER PRO ASP PRO THR THR PRO ASP TYR LEU THR SER SEQRES 25 B 518 LEU LEU ALA CYS GLY ASP LEU GLN VAL THR GLY SER GLY SEQRES 26 B 518 HIS CYS PRO TYR SER THR ALA GLN LYS ALA VAL GLY LYS SEQRES 27 B 518 ASP ASN PHE THR LEU ILE PRO GLU GLY VAL ASN GLY ILE SEQRES 28 B 518 GLU GLU ARG MET THR VAL VAL TRP ASP LYS ALA VAL ALA SEQRES 29 B 518 THR GLY LYS MET ASP GLU ASN GLN PHE VAL ALA VAL THR SEQRES 30 B 518 SER THR ASN ALA ALA LYS ILE PHE ASN LEU TYR PRO ARG SEQRES 31 B 518 LYS GLY ARG ILE ALA VAL GLY SER ASP ALA ASP VAL VAL SEQRES 32 B 518 ILE TRP ASP PRO ASP LYS MET LYS THR ILE THR ALA LYS SEQRES 33 B 518 SER HIS LYS SER THR VAL GLU TYR ASN ILE PHE GLU GLY SEQRES 34 B 518 MET GLU CYS HIS GLY SER PRO LEU VAL VAL ILE SER GLN SEQRES 35 B 518 GLY LYS ILE VAL PHE GLU ASP GLY ASN ILE SER VAL SER SEQRES 36 B 518 LYS GLY MET GLY ARG PHE ILE PRO ARG LYS PRO PHE PRO SEQRES 37 B 518 GLU HIS LEU TYR GLN ARG VAL ARG ILE ARG SER LYS VAL SEQRES 38 B 518 PHE GLY LEU HIS SER VAL SER ARG GLY MET TYR ASP GLY SEQRES 39 B 518 PRO VAL TYR GLU VAL PRO ALA THR PRO LYS HIS ALA ALA SEQRES 40 B 518 PRO ALA PRO SER ALA LYS SER SER PRO SER LYS FORMUL 3 HOH *804(H2 O) HELIX 1 1 ASP A 88 GLY A 99 1 12 HELIX 2 2 SER A 115 SER A 131 1 17 HELIX 3 3 GLY A 147 ASP A 158 1 12 HELIX 4 4 SER A 177 LEU A 191 1 15 HELIX 5 5 ASN A 201 MET A 215 1 15 HELIX 6 6 PRO A 220 ARG A 227 1 8 HELIX 7 7 GLU A 229 ASN A 247 1 19 HELIX 8 8 SER A 257 GLY A 271 1 15 HELIX 9 9 ILE A 279 THR A 285 1 7 HELIX 10 10 ASP A 286 SER A 292 5 7 HELIX 11 11 ASN A 294 PHE A 301 1 8 HELIX 12 12 THR A 312 CYS A 323 1 12 HELIX 13 13 SER A 337 ALA A 342 1 6 HELIX 14 15 ASN A 347 ILE A 351 5 5 HELIX 15 16 GLU A 360 VAL A 370 1 11 HELIX 16 17 ASP A 376 SER A 385 1 10 HELIX 17 18 SER A 385 PHE A 392 1 8 HELIX 18 19 PRO A 475 PHE A 489 1 15 HELIX 19 20 ASP B 88 GLY B 99 1 12 HELIX 20 21 SER B 115 SER B 131 1 17 HELIX 21 22 GLY B 147 ASP B 158 1 12 HELIX 22 23 SER B 177 LEU B 191 1 15 HELIX 23 24 ASN B 201 MET B 215 1 15 HELIX 24 25 PRO B 220 SER B 226 1 7 HELIX 25 26 PRO B 228 ASN B 247 1 20 HELIX 26 27 SER B 257 GLY B 271 1 15 HELIX 27 28 ILE B 279 THR B 285 1 7 HELIX 28 29 ASP B 286 SER B 292 5 7 HELIX 29 30 ASN B 294 ALA B 300 1 7 HELIX 30 31 THR B 312 CYS B 323 1 12 HELIX 31 32 SER B 337 ALA B 342 1 6 HELIX 32 34 ASN B 347 ILE B 351 5 5 HELIX 33 35 GLU B 360 VAL B 370 1 11 HELIX 34 36 ASP B 376 SER B 385 1 10 HELIX 35 37 SER B 385 PHE B 392 1 8 HELIX 36 38 PRO B 475 PHE B 489 1 15 SHEET 1 A 4 LEU A 41 GLY A 46 0 SHEET 2 A 4 ASP A 34 GLU A 38 -1 N TYR A 36 O GLN A 44 SHEET 3 A 4 LEU A 17 ARG A 20 -1 N LEU A 17 O LEU A 37 SHEET 4 A 4 LYS A 56 GLU A 59 1 O ILE A 58 N ARG A 20 SHEET 1 B 7 SER A 30 TYR A 32 0 SHEET 2 B 7 ARG A 23 ILE A 25 -1 N ILE A 24 O PHE A 31 SHEET 3 B 7 MET A 64 PRO A 67 1 O VAL A 65 N ARG A 23 SHEET 4 B 7 VAL A 409 THR A 419 -1 O VAL A 410 N ILE A 66 SHEET 5 B 7 GLU A 438 SER A 448 -1 O ILE A 447 N VAL A 409 SHEET 6 B 7 LYS A 451 GLU A 455 -1 O VAL A 453 N VAL A 446 SHEET 7 B 7 ASN A 458 ILE A 459 -1 O ASN A 458 N GLU A 455 SHEET 1 C 7 GLY A 69 THR A 74 0 SHEET 2 C 7 THR A 101 VAL A 108 1 O MET A 103 N ASP A 71 SHEET 3 C 7 ASP A 134 ILE A 141 1 O HIS A 138 N ASP A 106 SHEET 4 C 7 SER A 163 TYR A 167 1 O GLN A 165 N ILE A 141 SHEET 5 C 7 VAL A 194 HIS A 198 1 O LEU A 196 N PHE A 164 SHEET 6 C 7 VAL A 250 VAL A 255 1 O TYR A 251 N VAL A 197 SHEET 7 C 7 VAL A 274 PRO A 278 1 O PHE A 275 N ILE A 252 SHEET 1 D 2 PRO A 79 SER A 80 0 SHEET 2 D 2 MET A 83 THR A 84 -1 O MET A 83 N SER A 80 SHEET 1 E 4 LEU B 41 GLY B 46 0 SHEET 2 E 4 ASP B 34 GLU B 38 -1 N TYR B 36 O GLN B 44 SHEET 3 E 4 LEU B 17 ARG B 20 -1 N LEU B 17 O LEU B 37 SHEET 4 E 4 LYS B 56 GLU B 59 1 O ILE B 58 N ARG B 20 SHEET 1 F 7 SER B 30 TYR B 32 0 SHEET 2 F 7 ARG B 23 ILE B 25 -1 N ILE B 24 O PHE B 31 SHEET 3 F 7 MET B 64 PRO B 67 1 O VAL B 65 N ARG B 23 SHEET 4 F 7 VAL B 409 THR B 419 -1 O VAL B 410 N ILE B 66 SHEET 5 F 7 GLU B 438 SER B 448 -1 O ILE B 447 N VAL B 409 SHEET 6 F 7 LYS B 451 GLU B 455 -1 O VAL B 453 N VAL B 446 SHEET 7 F 7 ASN B 458 ILE B 459 -1 O ASN B 458 N GLU B 455 SHEET 1 G 7 GLY B 69 THR B 74 0 SHEET 2 G 7 THR B 101 VAL B 108 1 O MET B 103 N ASP B 71 SHEET 3 G 7 ASP B 134 ILE B 141 1 O HIS B 138 N ASP B 106 SHEET 4 G 7 SER B 163 TYR B 167 1 O GLN B 165 N ILE B 141 SHEET 5 G 7 VAL B 194 HIS B 198 1 O LEU B 196 N PHE B 164 SHEET 6 G 7 VAL B 250 VAL B 255 1 O TYR B 251 N VAL B 197 SHEET 7 G 7 VAL B 274 PRO B 278 1 O PHE B 275 N ILE B 252 SHEET 1 H 2 PRO B 79 SER B 80 0 SHEET 2 H 2 MET B 83 THR B 84 -1 O MET B 83 N SER B 80 CISPEP 1 SER A 304 PRO A 305 0 -0.69 CISPEP 2 SER B 304 PRO B 305 0 0.05 CRYST1 123.396 152.111 157.165 90.00 90.00 90.00 C 2 2 21 16 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 0.008104 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006574 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006363 0.00000