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(-) Description

Title :  CRYSTAL STRUCTURE OF MEDICAGO TRUNCATULA NODULIN 13 (MTN13) IN COMPLEX WITH TRANS-ZEATIN
 
Authors :  M. Ruszkowski, K. Tusnio, A. Ciesielska, K. Brzezinski, M. Dauter, Z. D M. Sikorski, M. Jaskolski
Date :  05 Mar 13  (Deposition) - 20 Mar 13  (Release) - 15 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Pr-10 Fold, Nodulin, Nodulation, Legume-Bacteria Symbiosis, Nitrogen Fixation, Cytokinin Binding, Plant Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Ruszkowski, K. Szpotkowski, M. Sikorski, M. Jaskolski
The Landscape Of Cytokinin Binding By A Plant Nodulin.
Acta Crystallogr. , Sect. D V. 69 2365 2013
PubMed-ID: 24311578  |  Reference-DOI: 10.1107/S0907444913021975
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MTN13 PROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET TOPO 151D
    Expression System StrainBL21 MAGIC
    Expression System Taxid511693
    Expression System Vector TypePLASMID
    GeneMTN13
    Organism CommonBARREL MEDIC
    Organism ScientificMEDICAGO TRUNCATULA
    Organism Taxid3880

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (2x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric Unit (3, 5)
No.NameCountTypeFull Name
1MLI1Ligand/IonMALONATE ION
2NA3Ligand/IonSODIUM ION
3ZEA1Ligand/Ion(2E)-2-METHYL-4-(9H-PURIN-6-YLAMINO)BUT-2-EN-1-OL
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1MLI2Ligand/IonMALONATE ION
2NA-1Ligand/IonSODIUM ION
3ZEA2Ligand/Ion(2E)-2-METHYL-4-(9H-PURIN-6-YLAMINO)BUT-2-EN-1-OL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:61 , ASP A:62 , THR A:66 , GLN A:68 , TYR A:82 , ILE A:98 , PHE A:100 , TYR A:133 , GLY A:137 , ARG A:140 , PHE A:141BINDING SITE FOR RESIDUE ZEA A 201
2AC2SOFTWAREGLY A:87 , ILE A:88 , ALA A:89 , HOH A:385 , HOH A:389BINDING SITE FOR RESIDUE MLI A 202
3AC3SOFTWAREPHE A:59 , GLY A:61 , HOH A:345 , HOH A:346 , HOH A:347 , HOH A:348BINDING SITE FOR RESIDUE NA A 203
4AC4SOFTWAREASP A:62 , SER A:65 , THR A:66 , HOH A:328 , HOH A:395BINDING SITE FOR RESIDUE NA A 204
5AC5SOFTWARETHR A:0 , GLY A:124 , HOH A:302 , HOH A:416BINDING SITE FOR RESIDUE NA A 205

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:PROTEIN  Length:163
                                                                                                                                                                                                   
               SCOP domains d4jhga_ A: automated matches                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhh...eeeeeeee.......eeeeee.....eeeeeeeeee....eeeeee..........eeeeeeeeeeee.....eeeeeeeeeee.......hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jhg A  -4 IDPFTMGVITSESEYVSSLSAEKLYRGIVEDGNIIYPKALPRFIEKAETLEGDGGPGTIKKLTFVGDFGSTKQHIDMVDRENCAYTYSVYEGIALSDQPLEKIVFEFKLVPTPEEGCIVKSTTKYYTKGDDIELSKDYLEAGIERFEGFTKAVESFLLANPDY 158
                                     5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155   

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 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        NOD13_MEDTR | P933304gy9 4jhh 4jhi

(-) Related Entries Specified in the PDB File

1icx CRYSTAL STRUCTURE OF PATHOGENESIS-RELATED PROTEIN LLPR10.1A FROM YELLOW LUPINE
2qim CRYSTAL STRUCTURE OF PATHOGENESIS-RELATED PROTEIN LLPR- 10.2B FROM YELLOW LUPINE IN COMPLEX WITH CYTOKININ
3us7 CRYSTAL STRUCTURE OF PHYTOHORMONE BINDING PROTEIN FROM MEDICAGO TRUNCATULA IN COMPLEX WITH GIBBERELLIC ACID (GA3)
4gy9 CRYSTAL STRUCTURE OF MEDICAGO TRUNCATULA NODULIN 13 (MTN13) IN COMPLEX WITH N6-ISOPENTENYLADENINE (2IP)
4jhh CRYSTAL STRUCTURE OF MEDICAGO TRUNCATULA NODULIN 13 (MTN13) IN COMPLEX WITH KINETIN
4jhi CRYSTAL STRUCTURE OF MEDICAGO TRUNCATULA NODULIN 13 (MTN13) IN COMPLEX WITH N6-BENZYLADENINE