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(-) Description

Title :  CRYSTAL STRUCTURE OF ISL1 LIM DOMAINS WITH LDB1 LIM-INTERACTION DOMAIN
 
Authors :  M. S. Gadd, D. A. Jacques, J. M. Guss, J. M. Matthews
Date :  21 Feb 13  (Deposition) - 19 Jun 13  (Release) - 21 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Zinc Finger, Transcriptional Complex, Zinc Binding, Nucleus, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. S. Gadd, D. A. Jacques, I. Nisevic, V. J. Craig, A. H. Kwan, J. M. Guss, J. M. Matthews
A Structural Basis For The Regulation Of The Lim-Homeodomai Protein Islet 1 (Isl1) By Intra- And Intermolecular Interactions.
J. Biol. Chem. V. 288 21924 2013
PubMed-ID: 23750000  |  Reference-DOI: 10.1074/JBC.M113.478586

(-) Compounds

Molecule 1 - INSULIN GENE ENHANCER PROTEIN ISL-1,LIM DOMAIN-BINDING PROTEIN 1
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX2T
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 11-138 AND UNP RESIDUES 300-330
    Gene: ISL1, LDB1, NLI
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: ISLET-1,LDB-1,CARBOXYL-TERMINAL LIM DOMAIN-BINDING PROTEIN 2,CLIM-2,LIM DOMAIN-BINDING FACTOR CLIM2,MLDB1,NUCLEAR LIM INTERACTOR

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1ZN12Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:17 , CYS A:20 , HIS A:39 , CYS A:42BINDING SITE FOR RESIDUE ZN A 401
02AC2SOFTWARECYS A:45 , CYS A:48 , CYS A:67 , ASP A:70BINDING SITE FOR RESIDUE ZN A 402
03AC3SOFTWARECYS A:79 , CYS A:82 , HIS A:101 , CYS A:104BINDING SITE FOR RESIDUE ZN A 403
04AC4SOFTWARECYS A:107 , CYS A:110 , CYS A:129 , ASP A:132BINDING SITE FOR RESIDUE ZN A 404
05AC5SOFTWARECYS B:107 , CYS B:110 , CYS B:129 , ASP B:132BINDING SITE FOR RESIDUE ZN B 401
06AC6SOFTWARECYS B:17 , CYS B:20 , HIS B:39 , CYS B:42BINDING SITE FOR RESIDUE ZN B 402
07AC7SOFTWARECYS B:45 , CYS B:48 , CYS B:67 , ASP B:70BINDING SITE FOR RESIDUE ZN B 403
08AC8SOFTWARECYS B:79 , CYS B:82 , HIS B:101 , CYS B:104BINDING SITE FOR RESIDUE ZN B 404
09AC9SOFTWARECYS C:17 , CYS C:20 , HIS C:39 , CYS C:42BINDING SITE FOR RESIDUE ZN C 401
10BC1SOFTWARECYS C:45 , CYS C:48 , CYS C:67 , ASP C:70BINDING SITE FOR RESIDUE ZN C 402
11BC2SOFTWARECYS C:79 , CYS C:82 , HIS C:101 , CYS C:104BINDING SITE FOR RESIDUE ZN C 403
12BC3SOFTWARECYS C:107 , CYS C:110 , CYS C:129 , ASP C:132BINDING SITE FOR RESIDUE ZN C 404

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:56 -C:56
2B:56 -B:56

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Ser A:33 -Pro A:34
2Ser B:33 -Pro B:34
3Ser C:33 -Pro C:34

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4JCJ)

(-) 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:144
                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..............eeeee...eeehhhhh.......hhhhh.eeeee..eeehhhhhhhhh...............eeeee..eeee.hhh.............eeee....eee.......ee....ee....eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4jcj A  14 ISLCVGCGNQIHDQYILRVSPDLEWHAACLKCAECNQYLDESCTCFVRDGKTYCKRDYIRLYGIKCAKCSIGFSKNDFVMRARSKVYHIECFRCVACSRQLIPGDEFALREDGLFCRADHDDVMVVGEPTLMDEDERLITRLEN 327
                                    23        33        43        53        63        73        83        93       103       113       123       133||     308 ||    323    
                                                                                                                                                  134|       310|           
                                                                                                                                                   300        316           


Chain B from PDB  Type:PROTEIN  Length:148
                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eeeee...eeehhhhh.............eeeee..eeehhhhhhhhhh..............eeeee..eeee.................eee......eehhhhhh..ee....ee.....eee..eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jcj B  13 LISLCVGCGNQIHDQYILRVSPDLEWHAACLKCAECNQYLDESCTCFVRDGKTYCKRDYIRLYGIKCAKCSIGFSKNDFVMRARSKVYHIECFRCVACSRQLIPGDEFALREDGLFCRADHDVVVMVVGEPTLMGDEDERLITRLENT 328
                                    22        32        42        52        62        72        82        92       102       112       122       132   ||  306   ||  320        
                                                                                                                                                     136|      310|             
                                                                                                                                                      301       315             


Chain C from PDB  Type:PROTEIN  Length:150
                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...............eeeee...eee............hhhhh.eeeee..eeehhhhhhhhhh..............eeeee..eeehhhhh.............eeeee..eeeehhhhh....ee....ee......eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4jcj C  13 LISLCVGCGNQIHDQYILRVSPDLEWHAACLKCAECNQYLDESCTCFVRDGKTYCKRDYIRLYGIKCAKCSIGFSKNDFVMRARSKVYHIECFRCVACSRQLIPGDEFALREDGLFCRADHDVVDVMVVGEPTLMGGDEDERLITRLENT 328
                                    22        32        42        52        62        72        82        92       102       112       122       132   ||  305     ||318       328
                                                                                                                                                     136|        311|             
                                                                                                                                                      300         315
   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 4JCJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (104, 115)

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  4jcj
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  ISL1_MOUSE | P61372
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  LDB1_MOUSE | P70662
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 Related Entries

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

UniProtKB/Swiss-Prot
        ISL1_MOUSE | P61372: 2rgt
        LDB1_MOUSE | P70662: 1j2o 1m3v 1rut 2jtn 2l6y 2l6z 2lxd

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