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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ARABIDOPSIS RECEPTOR KINASE HAESA LRR ECTDOMAIN IN COMPLEX WITH THE PEPTIDE HORMONE IDL1.
 
Authors :  J. Santiago, M. Hothorn
Date :  24 Mar 16  (Deposition) - 20 Apr 16  (Release) - 28 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.56
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Membrane Receptor Kinase, Peptide Hormone Receptor, Signaling Complex, Plant Development, Organ Shedding, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Santiago, B. Brandt, M. Wildhagen, U. Hohmann, L. A. Hothorn, M. A. Butenko, M. Hothorn
Mechanistic Insight Into A Peptide Hormone Signaling Comple Mediating Floral Organ Abscission.
Elife V. 5 2016
PubMed-ID: 27058169  |  Reference-DOI: 10.7554/ELIFE.15075

(-) Compounds

Molecule 1 - RECEPTOR-LIKE PROTEIN KINASE 5
    Chains: A
    EC Number: 2.7.10.1, 2.7.11.1
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Cell Line: BTI38
    Expression System Common: CABBAGE LOOPER
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Fragment: ECTODOMAIN, RESIDUES 20-620
    Gene: RLK5, HAE, AT4G28490, F21O9.180
    Organ: FLOWERS
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: PROTEIN HAESA
    Tissue: ABSCISSION ZONE
 
Molecule 2 - PROTEIN IDA-LIKE 1
    Chains: B
    Engineered: YES
    Fragment: UNP RESIDUES 67-78
    Organism Common: MOUSE-EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 15)

Asymmetric/Biological Unit (5, 15)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2EDO1Ligand/Ion1,2-ETHANEDIOL
3HYP1Mod. Amino Acid4-HYDROXYPROLINE
4MAN1Ligand/IonALPHA-D-MANNOSE
5NAG11Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:566 , MET B:75 , ARG B:76 , HIS B:77binding site for residue EDO B 2000
2AC2SOFTWAREMET A:18 , ASN A:22 , SER A:74 , TYR A:97 , ASN A:98binding site for Poly-Saccharide residues NAG A 701 through NAG A 702 bound to ASN A 98
3AC3SOFTWAREVAL A:78 , ASN A:102binding site for Mono-Saccharide NAG A 703 bound to ASN A 102
4AC4SOFTWAREASN A:150 , MAN A:710binding site for Poly-Saccharide residues NAG A 704 through NAG A 705 bound to ASN A 150
5AC5SOFTWAREASN A:185binding site for Mono-Saccharide NAG A 706 bound to ASN A 185
6AC6SOFTWAREPHE A:245 , ASN A:246 , ASN A:269 , LYS A:541 , NAG A:705binding site for Poly-Saccharide residues NAG A 707 through MAN A 710 bound to ASN A 269
7AC7SOFTWARETHR A:257 , GLN A:258 , ASN A:282binding site for Mono-Saccharide NAG A 711 bound to ASN A 282
8AC8SOFTWAREASN A:532 , SER A:555 , SER A:556 , ASN A:576 , TYR A:579binding site for Poly-Saccharide residues NAG A 712 through NAG A 713 bound to ASN A 576

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:54 -A:61
2A:86 -A:113
3A:376 -A:402

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5IYV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5IYV)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5IYV)

(-) 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:588
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh.......hhhhh..hhhhh..eee.....eeeee......ee..hhhhhhh....eee....eeeee..hhhhh......eee....eeeee...hhhhhh....eee....eee...hhhhhhh....eee..........hhhhhhh....eee...........hhhhhhh....eee......ee..hhhhhhh....eee....eeee..hhhhhhh....eee....ee....hhhhhhh....eee....................eee......ee..hhhhhhh....eee....eeee.............eee....eeee.............eee....ee......hhhhh....eee......eee.hhhhhh.....eee....eeee..hhhhhhh....eee....eeee..hhhhhhh....eee....ee....hhhhhh.....eee......ee.............eee....eeee..hhhhhhh....eee....eeee..hhhhhhh...eee....eeeee.hhhhhhhhhhhhh....eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5iyv A  18 MGSLNQDATILRQAKLGLSDPAQSLSSWSDVTPCKWLGVSCDATSNVVSVDLSSFMLVGPFPSILCHLPSLHSLSLYNNSINGSLSADDFDTCHNLISLDLSENLLVGSIPKSLPFNLPNLKFLEISGNNLSDTIPSSFGEFRKLESLNLAGNFLSGTIPASLGNVTTLKELKLAYNLFSPSQIPSQLGNLTELQVLWLAGCNLVGPIPPSLSRLTSLVNLDLTFNQLTGSIPSWITQLKTVEQIELFNNSFSGELPESMGNMTTLKRFDASMNKLTGKIPDNLNLLNLESLNLFENMLEGPLPESITRSKTLSELKLFNNRLTGVLPSQLGANSPLQYVDLSYNRFSGEIPANVCGEGKLEYLILIDNSFSGEISNNLGKCKSLTRVRLSNNKLSGQIPHGFWGLPRLSLLELSDNSFTGSIPKTIIGAKNLSNLRISKNRFSGSIPNEIGSLNGIIEISGAENDFSGEIPESLVKLKQLSRLDLSKNQLSGEIPRELRGWKNLNELNLANNHLSGEIPKEVGILPVLNYLDLSSNQFSGEIPLELQNLKLNVLNLSYNHLSGKIPPLYANKIYAHDFIGNPGLCVD 608
                                    27        37        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600        
                                                       46|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
                                                        50                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:12
                                            
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author ............ Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                 5iyv B  67 LVPPSGpSMRHN  78
                                  | 76  
                                 73-HYP
   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 5IYV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (20, 21)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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        RLK5_ARATH | P47735: 5ixo 5ixq 5ixt 5iyx

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