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(-) Description

Title :  CRYSTAL STRUCTURE OF MEDICAGO TRUNCATULA NODULIN 13 (MTN13) IN COMPLEX WITH N6-BENZYLADENINE
 
Authors :  M. Ruszkowski, M. Sikorski, M. Jaskolski
Date :  05 Mar 13  (Deposition) - 04 Dec 13  (Release) - 08 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
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
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET TOPO 151D
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: MTN13
    Organism Common: BARREL MEDIC
    Organism Scientific: MEDICAGO TRUNCATULA
    Organism Taxid: 3880

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1EMU1Ligand/IonN-BENZYL-9H-PURIN-6-AMINE
2NA1Ligand/IonSODIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1EMU2Ligand/IonN-BENZYL-9H-PURIN-6-AMINE
2NA-1Ligand/IonSODIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:59 , GLY A:61 , ALA A:89 , HOH A:314BINDING SITE FOR RESIDUE NA A 201
2AC2SOFTWAREGLY A:61 , ASP A:62 , PHE A:63 , THR A:66 , GLN A:68 , TYR A:82 , VAL A:84 , PHE A:100 , GLY A:137 , ARG A:140BINDING SITE FOR RESIDUE EMU A 202

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4JHI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4JHI)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:162
                                                                                                                                                                                                  
               SCOP domains d4jhia_ 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
                 4jhi A  -3 DPFTMGVITSESEYVSSLSAEKLYRGIVEDGNIIYPKALPRFIEKAETLEGDGGPGTIKKLTFVGDFGSTKQHIDMVDRENCAYTYSVYEGIALSDQPLEKIVFEFKLVPTPEEGCIVKSTTKYYTKGDDIELSKDYLEAGIERFEGFTKAVESFLLANPDY 158
                                     6        16        26        36        46        56        66        76        86        96       106       116       126       136       146       156
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

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 Related Entries

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

UniProtKB/Swiss-Prot
        NOD13_MEDTR | P93330: 4gy9 4jhg 4jhh

(-) Related Entries Specified in the PDB File

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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)
4jhg CRYSTAL STRUCTURE OF MEDICAGO TRUNCATULA NODULIN 13 (MTN13) IN COMPLEX WITH TRANS-ZEATIN
4jhh CRYSTAL STRUCTURE OF MEDICAGO TRUNCATULA NODULIN 13 (MTN13) IN COMPLEX WITH KINETIN