PDB Short entry for 1LFR HEADER TRANSFERASE 12-APR-02 1LFR TITLE THEORETICAL STRUCTURE OF HUMAN-CYCLIN DEPENDENT KINASE 5 TITLE 2 (CDK5) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELL DIVISION PROTEIN KINASE 5; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYCLIN-DEPENDENT KINASE 5, CDK5; COMPND 5 EC: 2.7.1.- SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN KEYWDS TRANSFERASE, SERINE/THREONINE-PROTEIN KINASE, ATP-BINDING, KEYWDS 2 CELL CYCLE, CELL DIVISION, PHOSPHORYLATION EXPDTA THEORETICAL MODEL AUTHOR K.NARAYANA,A.SRINIVASAREDDY,J.A.R.P.SARMA REVDAT 1 24-APR-02 1LFR 0 JRNL AUTH K.NARAYANA,A.SRINIVASAREDDY,J.A.R.P.SARMA JRNL TITL THEORETICAL STRUCTURE OF HUMAN CYCLIN-DEPENDENT JRNL TITL 2 KINASE 5 (CDK5) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.MEYERSON,G.H.ENDERS,C.L.WU,L.K.SU,C.GORKA, REMARK 1 AUTH 2 C.NELSON,E.HARLOW,L.H.TSAI REMARK 1 TITL A FAMILY OF HUMAN CDC2-RELATED PROTEIN KINASES REMARK 1 REF EMBO J. V. 11 2909 1992 REMARK 1 REFN ASTM EMJODG UK ISSN 0261-4189 REMARK 1 REFERENCE 2 REMARK 1 AUTH C.E.ARRIS,F.T.BOYLE,A.H.CALVERT,N.J.CURTIN, REMARK 1 AUTH 2 J.A.ENDICOTT,E.F.GARMAN,A.E.GIBSON,B.T.GOLDING, REMARK 1 AUTH 3 S.GRANT,R.J.GRIFFIN,P.JEWSBURY,L.N.JOHNSON, REMARK 1 AUTH 4 A.M.LAWRIE,D.R.NEWELL,M.E.NOBLE,E.A.SAUSVILLE, REMARK 1 AUTH 5 R.SCHULTZ,W.YU REMARK 1 TITL IDENTIFICATION OF NOVEL PURINE AND PYRIMIDINE REMARK 1 TITL 2 CYCLIN-DEPENDENT KINASE INHIBITORS WITH DISTINCT REMARK 1 TITL 3 MOLECULAR INTERACTIONS AND TUMOR CELL GROWTH REMARK 1 TITL 4 INHIBITION PROFILES. REMARK 1 REF J.MED.CHEM. V. 43 2797 2000 REMARK 1 REFN ASTM JMCMAR US ISSN 0022-2623 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: USED MODELER OF INSIGHTII,ACCELRYS REMARK 3 TO MODEL AND REFINE THE PROTEIN. REMARK 4 REMARK 4 1LFR COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-2002. REMARK 100 THE RCSB ID CODE IS RCSB015906. REMARK 220 REMARK 220 EXPERIMENTAL DETAILS REMARK 220 EXPERIMENT TYPE : THEORETICAL MODELLING REMARK 220 REMARK 220 REMARK: COMPARATIVE MODELLING REMARK 225 REMARK 225 THEORETICAL MODEL REMARK 225 THE COORDINATES IN THIS ENTRY REPRESENT A MODEL STRUCTURE. REMARK 225 PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND REMARK 225 SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE REMARK 225 RECORDS ARE MEANINGLESS. 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ALA A 148 C - N - CA ANGL. DEV. = 17.0 DEGREES REMARK 500 ARG A 149 CA - CB - CG ANGL. DEV. = 24.7 DEGREES REMARK 500 ARG A 149 CB - CG - CD ANGL. DEV. = 24.7 DEGREES REMARK 500 ARG A 149 N - CA - C ANGL. DEV. = 18.5 DEGREES REMARK 500 ARG A 149 C - N - CA ANGL. DEV. =-31.8 DEGREES REMARK 500 ARG A 149 CA - C - N ANGL. DEV. =-16.4 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 ASP A 38 -143.90 95.62 REMARK 500 ARG A 149 116.04 149.03 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 ALA A 148 ARG A 149 116.79 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1E1V RELATED DB: PDB REMARK 900 1E1V CHAIN A HAS 59% SEQUENCE SIMILARITY (2E-98) WITH CDK5 REMARK 900 RELATED ID: 1QMZ RELATED DB: PDB REMARK 900 1QMZ CHAIN A HAS 59% SEQUENCE SIMILARITY (4E-98) WITH CDK5 DBREF 1LFR A 1 292 UNP Q00535 CDK5_HUMAN 1 292 SEQRES 1 A 292 MET GLN LYS TYR GLU LYS LEU GLU LYS ILE GLY GLU GLY SEQRES 2 A 292 THR TYR GLY THR VAL PHE LYS ALA LYS ASN ARG GLU THR SEQRES 3 A 292 HIS GLU ILE VAL ALA LEU LYS ARG VAL ARG LEU ASP ASP SEQRES 4 A 292 ASP ASP GLU GLY VAL PRO SER SER ALA LEU ARG GLU ILE SEQRES 5 A 292 CYS LEU LEU LYS GLU LEU LYS HIS LYS ASN ILE VAL ARG SEQRES 6 A 292 LEU HIS ASP VAL LEU HIS SER ASP LYS LYS LEU THR LEU SEQRES 7 A 292 VAL PHE GLU PHE CYS ASP GLN ASP LEU LYS LYS TYR PHE SEQRES 8 A 292 ASP SER CYS ASN GLY ASP LEU ASP PRO GLU ILE VAL LYS SEQRES 9 A 292 SER PHE LEU PHE GLN LEU LEU LYS GLY LEU GLY PHE CYS SEQRES 10 A 292 HIS SER ARG ASN VAL LEU HIS ARG ASP LEU LYS PRO GLN SEQRES 11 A 292 ASN LEU LEU ILE ASN ARG ASN GLY GLU LEU LYS LEU ALA SEQRES 12 A 292 ASP PHE GLY LEU ALA ARG ALA PHE GLY ILE PRO VAL ARG SEQRES 13 A 292 CYS TYR SER ALA GLU VAL VAL THR LEU TRP TYR ARG PRO SEQRES 14 A 292 PRO ASP VAL LEU PHE GLY ALA LYS LEU TYR SER THR SER SEQRES 15 A 292 ILE ASP MET TRP SER ALA GLY CYS ILE PHE ALA GLU LEU SEQRES 16 A 292 ALA ASN ALA GLY ARG PRO LEU PHE PRO GLY ASN ASP VAL SEQRES 17 A 292 ASP ASP GLN LEU LYS ARG ILE PHE ARG LEU LEU GLY THR SEQRES 18 A 292 PRO THR GLU GLU GLN TRP PRO SER MET THR LYS LEU PRO SEQRES 19 A 292 ASP TYR LYS PRO TYR PRO MET TYR PRO ALA THR THR SER SEQRES 20 A 292 LEU VAL ASN VAL VAL PRO LYS LEU ASN ALA THR GLY ARG SEQRES 21 A 292 ASP LEU LEU GLN ASN LEU LEU LYS CYS ASN PRO VAL GLN SEQRES 22 A 292 ARG ILE SER ALA GLU GLU ALA LEU GLN HIS PRO TYR PHE SEQRES 23 A 292 SER ASP PHE CYS PRO PRO HELIX 1 1 PRO A 45 LEU A 58 1 14 HELIX 2 2 LEU A 87 ASP A 92 1 6 HELIX 3 3 ASP A 99 ARG A 120 1 22 HELIX 4 4 LYS A 128 GLN A 130 5 3 HELIX 5 5 GLY A 146 ALA A 150 5 5 HELIX 6 6 PRO A 169 PHE A 174 1 6 HELIX 7 7 THR A 181 ASN A 197 1 17 HELIX 8 8 ASP A 207 GLY A 220 1 14 HELIX 9 9 SER A 229 LEU A 233 5 5 HELIX 10 10 SER A 247 VAL A 252 1 6 HELIX 11 11 ASN A 256 LEU A 267 1 12 HELIX 12 12 SER A 276 HIS A 283 1 8 HELIX 13 13 PRO A 284 SER A 287 5 4 SHEET 1 A 5 TYR A 4 GLU A 12 0 SHEET 2 A 5 THR A 17 ASN A 23 -1 O LYS A 20 N GLU A 8 SHEET 3 A 5 ILE A 29 VAL A 35 -1 O LEU A 32 N PHE A 19 SHEET 4 A 5 LYS A 75 GLU A 81 -1 O LEU A 76 N VAL A 35 SHEET 5 A 5 LEU A 66 SER A 72 -1 N SER A 72 O LYS A 75 SHEET 1 B 3 GLN A 85 ASP A 86 0 SHEET 2 B 3 LEU A 132 ILE A 134 -1 O ILE A 134 N GLN A 85 SHEET 3 B 3 LEU A 140 LEU A 142 -1 O LYS A 141 N LEU A 133 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