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(-) Description

Title :  FGFR1 IN COMPLEX WITH PONATINIB.
 
Authors :  J. Tucker, T. Klein, J. Breed, A. Breeze, R. Overman, C. Phillips, R. A. N
Date :  10 Sep 14  (Deposition) - 10 Dec 14  (Release) - 17 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.12
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Tucker, T. Klein, J. Breed, A. L. Breeze, R. Overman, C. Phillips, R. A. Norman
Structural Insights Into Fgfr Kinase Isoform Selectivity: Diverse Binding Modes Of Azd4547 And Ponatinib In Complex With Fgfr1 And Fgfr4
Structure V. 22 1764 2014
PubMed-ID: 25465127  |  Reference-DOI: 10.1016/J.STR.2014.09.019

(-) Compounds

Molecule 1 - FIBROBLAST GROWTH FACTOR RECEPTOR 1 (FMS-RELATED TYROSINE KINASE 2, PFEIFFER SYNDROME), ISOFORM CRA_B
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: KINASE, UNP RESIDUES 22-359
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: FGFR1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 18)

Asymmetric Unit (3, 18)
No.NameCountTypeFull Name
10LI2Ligand/Ion3-(IMIDAZO[1,2-B]PYRIDAZIN-3-YLETHYNYL)-4-METHYL-N-{4-[(4-METHYLPIPERAZIN-1-YL)METHYL]-3-(TRIFLUOROMETHYL)PHENYL}BENZAMIDE
2EDO11Ligand/Ion1,2-ETHANEDIOL
3SO45Ligand/IonSULFATE ION
Biological Unit 1 (3, 11)
No.NameCountTypeFull Name
10LI1Ligand/Ion3-(IMIDAZO[1,2-B]PYRIDAZIN-3-YLETHYNYL)-4-METHYL-N-{4-[(4-METHYLPIPERAZIN-1-YL)METHYL]-3-(TRIFLUOROMETHYL)PHENYL}BENZAMIDE
2EDO6Ligand/Ion1,2-ETHANEDIOL
3SO44Ligand/IonSULFATE ION
Biological Unit 2 (3, 7)
No.NameCountTypeFull Name
10LI1Ligand/Ion3-(IMIDAZO[1,2-B]PYRIDAZIN-3-YLETHYNYL)-4-METHYL-N-{4-[(4-METHYLPIPERAZIN-1-YL)METHYL]-3-(TRIFLUOROMETHYL)PHENYL}BENZAMIDE
2EDO5Ligand/Ion1,2-ETHANEDIOL
3SO41Ligand/IonSULFATE ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:615 , THR A:746 , PHE A:747 , LYS A:748 , HOH A:2130 , HOH A:2206BINDING SITE FOR RESIDUE EDO A1766
02AC2SOFTWARETRP A:684 , TYR A:701 , ARG A:718 , MET A:719 , TRP A:737 , HOH A:2118BINDING SITE FOR RESIDUE EDO A1767
03AC3SOFTWARETRP B:684 , TYR B:701 , ARG B:718 , MET B:719 , TRP B:737 , HOH B:2139BINDING SITE FOR RESIDUE EDO B1766
04AC4SOFTWAREMET A:535 , GLY A:539 , ILE A:544 , ASN A:546 , LEU A:547BINDING SITE FOR RESIDUE EDO A1768
05AC5SOFTWAREARG A:470 , SO4 A:1773 , HOH A:2207BINDING SITE FOR RESIDUE EDO A1769
06AC6SOFTWARESER B:597 , PHE B:694 , ASN B:724 , CYS B:725 , THR B:726 , LEU B:729BINDING SITE FOR RESIDUE EDO B1767
07AC7SOFTWARELYS A:566 , TYR A:572 , ARG A:576BINDING SITE FOR RESIDUE EDO A1770
08AC8SOFTWARELYS A:748 , PRO B:474 , ARG B:475 , ASP B:476 , HOH B:2068BINDING SITE FOR RESIDUE EDO B1768
09AC9SOFTWAREGLU A:715 , HIS A:717BINDING SITE FOR RESIDUE EDO A1771
10BC1SOFTWAREPRO B:466 , GLU B:533 , LYS B:536BINDING SITE FOR RESIDUE EDO B1769
11BC2SOFTWARELYS B:566 , TYR B:572 , ARG B:576BINDING SITE FOR RESIDUE EDO B1770
12BC3SOFTWAREVAL A:492 , ALA A:512 , LYS A:514 , GLU A:531 , VAL A:561 , GLU A:562 , TYR A:563 , ALA A:564 , LEU A:614 , CYS A:619 , ILE A:620 , HIS A:621 , ARG A:622 , LEU A:630 , ILE A:639 , ALA A:640 , ASP A:641BINDING SITE FOR RESIDUE 0LI A1772
13BC4SOFTWAREVAL B:492 , ALA B:512 , LYS B:514 , GLU B:531 , VAL B:561 , GLU B:562 , TYR B:563 , ALA B:564 , LEU B:614 , CYS B:619 , ILE B:620 , HIS B:621 , ARG B:622 , LEU B:630 , ILE B:639 , ALA B:640 , ASP B:641BINDING SITE FOR RESIDUE 0LI B1771
14BC5SOFTWAREARG B:570 , ARG B:627 , THR B:657 , ASN B:659 , ARG B:661 , HOH B:2113 , HOH B:2201BINDING SITE FOR RESIDUE SO4 B1772
15BC6SOFTWAREARG A:470 , LYS A:618 , HIS A:679 , EDO A:1769 , HOH A:2208 , HOH A:2209BINDING SITE FOR RESIDUE SO4 A1773
16BC7SOFTWAREARG A:570 , ARG A:627 , THR A:657 , ASN A:659 , ARG A:661 , HOH A:2095 , HOH A:2210BINDING SITE FOR RESIDUE SO4 A1774
17BC8SOFTWAREGLY A:539 , LYS A:540 , LYS A:618 , HOH A:2037 , HOH A:2084BINDING SITE FOR RESIDUE SO4 A1775
18BC9SOFTWAREARG A:577 , GLY A:698 , SER A:699 , HOH A:2138 , HOH A:2211BINDING SITE FOR RESIDUE SO4 A1776

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4V04)

(-) Cis Peptide Bonds  (1, 1)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4V04)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4V04)

(-) Exons   (0, 0)

(no "Exon" information available for 4V04)

(-) Sequences/Alignments

Asymmetric 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:293
                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhh.eeeeeeee..eeeeeeee.........eeeeeeee.....hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhhh..................hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee................hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4v04 A 463 YELPEDPRWELPRDRLVLGKPLGEGQVVLAEAIGLDKDKPNRVTKVAVKMLKSDATEKDLSDLISEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLQARRPPGLEYSNPSHNPEEQLSSKDLVSCAYQVARGMEYLASKKCIHRDLAARNVLVTEDNVMKIADFGLIDYYKKTTNGRLPVKWMAPEALFDRIYTHQSDVWSFGVLLWEIFTLGGSPYPGVPVEELFKLLKEGHRMDKPSNCTNELYMMMRDCWHAVPSQRPTFKQLVEDLDRIVALTSNQE 765
                                   472       482   ||  495       505       515       525       535       545       555       565       575       586       596       606       616       626       636       652       662       672       682       692       702       712       722       732       742       752       762   
                                                 486|                                                                                           584|                                                       644|                                                                                                                  
                                                  490                                                                                            586                                                        651                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:289
                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................hhh.eeeeeeeee...eeeeeeeee.........eeeeeeeee....hhhhhhhhhhhhhhhhhhh.......eeeee......eeeee.....hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee.....eee................hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhh..........hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4v04 B 458 AGVSEYELPEDPRWELPRDRLVLGKPLGEGAFGQVVLAEAIGLDKDKPNRVTKVAVKMLKSDATEKDLSDLISEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLQARRPPEQLSSKDLVSCAYQVARGMEYLASKKCIHRDLAARNVLVTEDNVMKIADFGLIDYYKKTTNGRLPVKWMAPEALFDRIYTHQSDVWSFGVLLWEIFTLGGSPYPGVPVEELFKLLKEGHRMDKPSNCTNELYMMMRDCWHAVPSQRPTFKQLVEDLDRIVALTSNQE 765
                                   467       477       487       497       507       517       527       537       547       557       567       577 ||    600       610       620       630       640   ||  656       666       676       686       696       706       716       726       736       746       756         
                                                                                                                                                   579|                                                644|                                                                                                                  
                                                                                                                                                    593                                                 651
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (0, 0)

(no "SCOP Domain" information available for 4V04)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4V04)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4V04)

(-) Gene Ontology  (99, 108)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        D3DSX2_HUMAN | D3DSX2: 5a46
        FGFR1_HUMAN | P11362: 1agw 1cvs 1evt 1fgi 1fgk 1fq9 1xr0 2cr3 2fgi 3c4f 3dpk 3gqi 3gql 3js2 3krj 3krl 3kxx 3ky2 3ojv 3rhx 3tt0 4f63 4f64 4f65 4nk9 4nka 4nks 4rwi 4rwj 4rwk 4rwl 4uwb 4uwc 4uwy 4v01 4v05 4wun 4zsa 5a46 5a4c 5am6 5am7 5b7v 5ew8 5flf 5uq0 5ur1 5vnd
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        D3DSX2_HUMAN | D3DSX2: 4v01 4v05

(-) Related Entries Specified in the PDB File

4uxq FGFR4 IN COMPLEX WITH PONATINIB
4v01 FGFR1 IN COMPLEX WITH PONATINIB (CO-CRYSTALLISATION).
4v05 FGFR1 IN COMPLEX WITH AZD4547.