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(-) Description

Title :  FGFR1 LIGAND COMPLEX
 
Authors :  T. Klein, N. Vajpai, J. J. Phillips, G. Davies, G. A. Holdgate, C. Philli J. A. Tucker, R. A. Norman, A. S. Scott, D. R. Higazi, D. Lowe, G. S. Thomp A. L. Breeze
Date :  05 Jun 15  (Deposition) - 05 Aug 15  (Release) - 05 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.09
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Transferase, Kinase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Klein, N. Vajpai, J. J. Phillips, G. Davies, G. A. Holdgate, C. Phillips, J. A. Tucker, R. A. Norman, A. D. Scott, D. R. Higazi, D. Lowe, G. S. Thompson, A. L. Breeze
Structural And Dynamic Insights Into The Energetics Of Activation Loop Rearrangement In Fgfr1 Kinase.
Nat. Commun. V. 6 7877 2015
PubMed-ID: 26203596  |  Reference-DOI: 10.1038/NCOMMS8877

(-) 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: RESIDUES 461-765
    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
1EDO10Ligand/Ion1,2-ETHANEDIOL
2SO46Ligand/IonSULFATE ION
3XOJ2Ligand/Ion1-TERT-BUTYL-3-[2-[3-(DIETHYLAMINO)PROPYLAMINO]-6-(3,5-DIMETHOXYPHENYL)PYRIDO[2,3-D]PYRIMIDIN-7-YL]UREA
Biological Unit 1 (3, 11)
No.NameCountTypeFull Name
1EDO5Ligand/Ion1,2-ETHANEDIOL
2SO45Ligand/IonSULFATE ION
3XOJ1Ligand/Ion1-TERT-BUTYL-3-[2-[3-(DIETHYLAMINO)PROPYLAMINO]-6-(3,5-DIMETHOXYPHENYL)PYRIDO[2,3-D]PYRIMIDIN-7-YL]UREA
Biological Unit 2 (3, 7)
No.NameCountTypeFull Name
1EDO5Ligand/Ion1,2-ETHANEDIOL
2SO41Ligand/IonSULFATE ION
3XOJ1Ligand/Ion1-TERT-BUTYL-3-[2-[3-(DIETHYLAMINO)PROPYLAMINO]-6-(3,5-DIMETHOXYPHENYL)PYRIDO[2,3-D]PYRIMIDIN-7-YL]UREA

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:570 , ARG A:627 , THR A:657 , ASN A:659 , ARG A:661 , HOH A:2051 , HOH A:2091BINDING SITE FOR RESIDUE SO4 A1766
02AC2SOFTWAREGLY A:539 , LYS A:540 , LYS A:618 , HOH A:2034BINDING SITE FOR RESIDUE SO4 A1767
03AC3SOFTWARESER A:584 , TYR A:585 , ARG B:734BINDING SITE FOR RESIDUE SO4 A1768
04AC4SOFTWAREARG A:470 , LYS A:618 , HIS A:679 , HOH A:2006 , HOH A:2077 , HOH A:2198BINDING SITE FOR RESIDUE SO4 A1769
05AC5SOFTWARELYS A:566 , TYR A:572 , ARG A:576BINDING SITE FOR RESIDUE EDO A1770
06AC6SOFTWARELYS A:665 , GLY A:703 , VAL A:704 , GLU B:708BINDING SITE FOR RESIDUE EDO A1771
07AC7SOFTWARETRP A:684 , TYR A:701 , ARG A:718 , MET A:719 , TRP A:737 , HOH A:2115BINDING SITE FOR RESIDUE EDO A1772
08AC8SOFTWAREALA A:615 , THR A:746 , PHE A:747 , LYS A:748 , HOH A:2128BINDING SITE FOR RESIDUE EDO A1773
09AC9SOFTWARELEU A:484 , GLY A:485 , VAL A:492 , ALA A:512 , LYS A:514 , GLU A:531 , VAL A:559 , VAL A:561 , GLU A:562 , TYR A:563 , ALA A:564 , SER A:565 , LEU A:630 , ALA A:640 , ASP A:641 , PHE A:642 , HOH A:2026BINDING SITE FOR RESIDUE XOJ A1774
10BC1SOFTWAREARG B:570 , ARG B:627 , THR B:657 , ASN B:659 , ARG B:661 , HOH B:2062 , HOH B:2081BINDING SITE FOR RESIDUE SO4 B1766
11BC2SOFTWAREGLU A:708 , LYS B:656 , LYS B:665 , GLY B:703 , HOH B:2099BINDING SITE FOR RESIDUE EDO B1767
12BC3SOFTWARETRP B:684 , TYR B:701 , LEU B:713 , ARG B:718 , MET B:719 , TRP B:737 , HOH B:2102BINDING SITE FOR RESIDUE EDO B1768
13BC4SOFTWAREASP B:524 , ASP B:527BINDING SITE FOR RESIDUE EDO B1769
14BC5SOFTWARESER B:597 , ASN B:724 , CYS B:725 , THR B:726 , LEU B:729BINDING SITE FOR RESIDUE EDO B1770
15BC6SOFTWARELYS B:566 , TYR B:572 , ARG B:576BINDING SITE FOR RESIDUE EDO B1771
16BC7SOFTWARELEU B:484 , GLY B:485 , GLU B:486 , VAL B:492 , LYS B:514 , GLU B:531 , ILE B:545 , VAL B:561 , GLU B:562 , TYR B:563 , ALA B:564 , SER B:565 , LEU B:630 , ALA B:640 , ASP B:641 , PHE B:642 , HOH B:2031 , HOH B:2146BINDING SITE FOR RESIDUE XOJ B1772
17BC8SOFTWAREHOH A:2200 , ARG B:475 , ASP B:476 , HOH B:2014BINDING SITE FOR RESIDUE EDO A1776

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5A4C)

(-) 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 5A4C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5A4C)

(-) Exons   (0, 0)

(no "Exon" information available for 5A4C)

(-) 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:294
                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........hhh.eeeeeeee...eeeeeeee.........eeeeeeee.....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
                 5a4c A 464 ELPEDPRWELPRDRLVLGKPLGEFGQVVLAEAIGLDKDKPNRVTKVAVKMLKSDATEKDLSDLISEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLQARRPPGLEYSYNPSHNPEEQLSSKDLVSCAYQVARGMEYLASKKCIHRDLAARNVLVTEDNVMKIADFGLIDYYKKTTNGRLPVKWMAPEALFDRIYTHQSDVWSFGVLLWEIFTLGGSPYPGVPVEELFKLLKEGHRMDKPSNCTNELYMMMRDCWHAVPSQRPTFKQLVEDLDRIVALTSNQE 765
                                   473       483  ||   495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       651       661       671       681       691       701       711       721       731       741       751       761    
                                                486|                                                                                                                                                        644|                                                                                                                  
                                                 489                                                                                                                                                         651                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:286
                                                                                                                                                                                                                                                                                                                              
               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
                 5a4c B 459 GASEYELPEDPRWELPRDRLVLGKPLGEGAFGQVVLAEAIGLDPNRVTKVAVKMLKSDATEKDLSDLISEMEMMKMIGKHKNIINLLGACTQDGPLYVIVEYASKGNLREYLQARRPPEQLSSKDLVSCAYQVARGMEYLASKKCIHRDLAARNVLVTEDNVMKIADFGLAIDYYKKTTNGRLPVKWMAPEALFDRIYTHQSDVWSFGVLLWEIFTLGGSPYPGVPVEELFKLLKEGHRMDKPSNCTNELYMMMRDCWHAVPSQRPTFKQLVEDLDRIVALTSNQE 765
                                   468       478       488       498  ||   511       521       531       541       551       561       571       594       604       614       624       634       644||     659       669       679       689       699       709       719       729       739       749       759      
                                                                    501|                                                                       579|                                                 645|                                                                                                                  
                                                                     505                                                                        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 5A4C)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5A4C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5A4C)

(-) Gene Ontology  (99, 99)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        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 4v04 4v05 4wun 4zsa 5a46 5am6 5am7 5b7v 5ew8 5flf 5uq0 5ur1 5vnd

(-) Related Entries Specified in the PDB File

5a46 FGFR1 IN COMPLEX WITH DOVITINIB