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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN FIBROBLAST GROWTH FACTOR RECEPTOR 1 KINASE DOMAIN IN COMPLEX WITH PYRAZOLAMINOPYRIMIDINE 1
 
Authors :  R. A. Norman, T. Klein
Date :  12 Nov 13  (Deposition) - 18 Dec 13  (Release) - 16 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.57
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Kinase, Atp Binding, Phosphorylation, Trans-Membrane, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. Klein, J. Tucker, G. A. Holdgate, R. A. Norman, A. L. Breeze
Fgfr1 Kinase Inhibitors: Close Regioisomers Adopt Divergent Binding Modes And Display Distinct Biophysical Signatures.
Acs Med Chem Lett V. 5 166 2014
PubMed-ID: 24900792  |  Reference-DOI: 10.1021/ML4004205

(-) Compounds

Molecule 1 - FIBROBLAST GROWTH FACTOR RECEPTOR 1
    ChainsA, B
    EC Number2.7.10.1
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    FragmentKINASE DOMAIN (UNP RESIDUES 458-765)
    GeneFGFR1, BFGFR, CEK, FGFBR, FLG, FLT2, HBGFR
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymFGFR-1, BASIC FIBROBLAST GROWTH FACTOR RECEPTOR 1, B BFGF-R- 1, FMS-LIKE TYROSINE KINASE 2, FLT-2, N-SAM, PROTO-ONC FGR

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric/Biological Unit (3, 9)
No.NameCountTypeFull Name
12K52Ligand/IonN~4~-{5-[2-(3,5-DIMETHOXYPHENYL)ETHYL]-1H-PYRAZOL-3-YL}-N~2~-[(3-METHYL-1,2-OXAZOL-5-YL)METHYL]PYRIMIDINE-2,4-DIAMINE
2EDO4Ligand/Ion1,2-ETHANEDIOL
3SO43Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:701 , ARG A:718 , MET A:719 , TRP A:737BINDING SITE FOR RESIDUE EDO A 801
2AC2SOFTWARETHR A:746 , PHE A:747 , LYS A:748 , HOH A:903BINDING SITE FOR RESIDUE EDO A 802
3AC3SOFTWAREARG A:470 , LYS A:618 , HIS A:679BINDING SITE FOR RESIDUE EDO A 803
4AC4SOFTWAREARG A:577 , SER A:699 , HOH A:908BINDING SITE FOR RESIDUE EDO A 804
5AC5SOFTWAREGLY A:539 , LYS A:540 , LYS A:618BINDING SITE FOR RESIDUE SO4 A 805
6AC6SOFTWAREARG A:570 , ARG A:627 , THR A:657 , ASN A:659 , ARG A:661 , HOH A:905BINDING SITE FOR RESIDUE SO4 A 806
7AC7SOFTWARELEU A:484 , GLY A:485 , GLU A:486 , GLY A:487 , VAL A:492 , ALA A:512 , LYS A:514 , GLU A:531 , ILE A:545 , VAL A:561 , GLU A:562 , ALA A:564 , GLY A:567 , LEU A:630 , ASP A:641 , PHE A:642 , HOH A:946BINDING SITE FOR RESIDUE 2K5 A 807
8AC8SOFTWAREARG B:570 , ARG B:627 , THR B:657 , ASN B:659 , ARG B:661 , HOH B:934BINDING SITE FOR RESIDUE SO4 B 801
9AC9SOFTWARELEU B:484 , VAL B:492 , ALA B:512 , LYS B:514 , GLU B:531 , ILE B:545 , VAL B:561 , GLU B:562 , ALA B:564 , ASP B:641 , PHE B:642 , HOH B:935BINDING SITE FOR RESIDUE 2K5 B 802

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NK9)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asp A:503 -Lys A:504

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NK9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NK9)

(-) Exons   (0, 0)

(no "Exon" information available for 4NK9)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:281
                                                                                                                                                                                                                                                                                                                         
               SCOP domains d4nk9a_ A: Fibroblast growth factor receptor 1                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh.eeeeeeeee....eeeeeeee........eeeeeeee.....hhhhhhhhhhhhhhhhhhh.......eeeee......eeee......hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee...............hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nk9 A 464 ELPEDPRWELPRDRLVLGKPLGEGAFGQVVLAEAIGLDDKPNRVTKVAVKMLKSDATEKDLSDLISEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLQARRPPEQLSSKDLVSCAYQVARGMEYLASKKCIHRDLAARNVLVTEDNVMKIADFGIDYYKKTTNGRLPVKWMAPEALFDRIYTHQSDVWSFGVLLWEIFTLGGSPYPGVPVEELFKLLKEGHRMDKPSNCTNELYMMMRDCWHAVPSQRPTFKQLVEDLDRIVALTSNQE 765
                                   473       483       493       504       514       524       534       544       554       564       574    || 597       607       617       627       637     ||654       664       674       684       694       704       714       724       734       744       754       764 
                                                               501|                                                                         579|                                               643|                                                                                                                  
                                                                503                                                                          593                                                651                                                                                                                  

Chain B from PDB  Type:PROTEIN  Length:282
                                                                                                                                                                                                                                                                                                                          
               SCOP domains d4nk9b_ B: Fibroblast growth factor receptor 1                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..............hhh.eeeeeeeee....eeeeeeee.......eeeeeeee.....hhhhhhhhhhhhhhhhhhh.......eeeee......eeee......hhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee..............hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4nk9 B 460 VSEYELPEDPRWELPRDRLVLGKPLGEGAFGQVVLAEAIGLDKPNRVTKVAVKMLKSDATEKDLSDLISEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLQARRPPQLSSKDLVSCAYQVARGMEYLASKKCIHRDLAARNVLVTEDNVMKIADFGDYYKKTTNGRLPVKWMAPEALFDRIYTHQSDVWSFGVLLWEIFTLGGSPYPGVPVEELFKLLKEGHRMDKPSNCTNELYMMMRDCWHAVPSQRPTFKQLVEDLDRIVALTSNQE 765
                                   469       479       489       499  ||   511       521       531       541       551       561       571       595       605       615       625       635       653       663       673       683       693       703       713       723       733       743       753       763  
                                                                    502|                                                                       579|                                              643|                                                                                                                 
                                                                     505                                                                        594                                               652                                                                                                                 

   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NK9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NK9)

(-) Gene Ontology  (99, 99)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:503 - Lys A:504   [ RasMol ]  
 

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        FGFR1_HUMAN | P113621agw 1cvs 1evt 1fgi 1fgk 1fq9 1xr0 2cr3 2fgi 3c4f 3dpk 3gqi 3gql 3js2 3krj 3krl 3kxx 3ky2 3ojv 3rhx 3tt0 4f63 4f64 4f65 4nka 4nks 4rwi 4rwj 4rwk 4rwl 4uwb 4uwc 4uwy 4v01 4v04 4v05 4wun 4zsa 5a46 5a4c 5am6 5am7 5b7v 5ew8 5flf 5uq0 5ur1 5vnd

(-) Related Entries Specified in the PDB File

4f63 4f64 4f65 4nka 4nks