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(-) Description

Title :  CRYSTAL STRUCTURES OF LGR4 AND ITS COMPLEX WITH R-SPONDIN1
 
Authors :  Y. Xu, K. Rajashankar, D. Robev
Date :  02 Jul 13  (Deposition) - 07 Aug 13  (Release) - 25 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.19
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Lrr, Hormone Receptor-Signaling Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Xu, Y. Xu, K. R. Rajashankar, D. Robev, D. B. Nikolov
Crystal Structures Of Lgr4 And Its Complex With R-Spondin1.
Structure V. 21 1683 2013
PubMed-ID: 23891289  |  Reference-DOI: 10.1016/J.STR.2013.07.001

(-) Compounds

Molecule 1 - LEUCINE-RICH REPEAT-CONTAINING G-PROTEIN COUPLED RECEPTOR 4
    Chains: A
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293 CELLS
    Expression System Common: HUMAN
    Expression System Plasmid: PCDNA3.1
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: EXTRACELLULAR DOMAIN RESIDUES 23-454
    Gene: LGR4
    Mutation: YES
    Organism Common: WESTERN CLAWED FROG
    Organism Scientific: XENOPUS (SILURANA) TROPICALIS
    Organism Taxid: 8364
 
Molecule 2 - R-SPONDIN-1
    Chains: B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293 CELLS
    Expression System Common: HUMAN
    Expression System Plasmid: PCDNA3.1
    Expression System Taxid: 9606
    Expression System Vector Type: PLASMID
    Fragment: FU 1 AND FU 2 REPEAT RESIDUES 33-144
    Gene: R-SPONDIN1, RSPO1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ROOF PLATE-SPECIFIC SPONDIN-1, HRSPO1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4LI2)

(-) Sites  (0, 0)

(no "Site" information available for 4LI2)

(-) SS Bonds  (11, 11)

Asymmetric/Biological Unit
No.Residues
1A:32 -A:38
2A:36 -A:46
3A:342 -A:367
4B:40 -B:47
5B:44 -B:53
6B:56 -B:75
7B:79 -B:94
8B:97 -B:105
9B:102 -B:111
10B:114 -B:125
11B:129 -B:142

(-) Cis Peptide Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1Gly A:48 -Lys A:49
2Lys A:49 -Gly A:50
3Asn A:447 -Pro A:448
4Asn A:449 -Phe A:450
5Phe A:450 -Lys A:451
6Pro B:58 -Lys B:59
7Gln B:71 -Val B:72
8Pro B:81 -Gly B:82
9Glu B:131 -Gly B:132

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4LI2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4LI2)

(-) Exons   (0, 0)

(no "Exon" information available for 4LI2)

(-) 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:422
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......ee.....ee...................ee.......ee............eee.......ee............eee.....................eee.....................eee.........hhhhhh......eee.......ee............eee.......ee............eee.........hhhhhhh....eee.......ee............eee.......ee............eeee...................eeee....................eee...................eee.......ee............eee.......ee.hhh........eee..................eee......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4li2 A  31 PCPAPCACDLDGGADCSGKGLVTVPDGLSVFTHSLDLSMNNITKLPEGAFKGFPYLEELRLAGNDLSIIHPMALSGLKELKVLTLQNNQLKTVPSESLKGLVSLQSLRLDANHIVTVPEDSFEGLVQLRHLWLDDNSLTEVPIRPLSNLPSLQALTLALNKISHIPDYAFSNLSSLVVLHLHNNKIRTLGPHSFHGLDNLEALDLNYNNLIDFPDSIRSLPNLKELGFHSNSITIIPDGAFVKNPLLRTIHLYDNPLSFVGNSAFQNLSDLHFLIIRGASNVQWFPNLTGTNNLESLTLTGTKIRSIPIKFCQEQKMLRTLDLSYNEISALVGFEGCSSLEEVYLQNNQIQEVQNETFQGLAALRMLDLSRNRIHTIHKEAFVTLKALTNLDLSFNDLTAFPTAGLHGLNQLKLTGNPNFKE 452
                                    40        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  


Chain B from PDB  Type:PROTEIN  Length:103
                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.....eeee....eee.....eee......ee..........ee.....eeee.....eeee....eee..eee.................. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 4li2 B  37 SQACAKGCELCSEVNGCLKCSPKLFILLEQVGVCLPSCPPGYFDARNPDMNKCIKCKIEHCEACFSHNFCTKCKEGLYLHKGRCYPACPEGSSAANGTMECSS 144
                                    46        56        71        81        91       101       111       121       131       141   
                                                       65|                                                                         
                                                        71
   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 4LI2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4LI2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4LI2)

(-) Gene Ontology  (30, 32)

Asymmetric/Biological Unit(hide GO term definitions)

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  Sites
(no "Sites" information available for 4li2)
 
  Cis Peptide Bonds
    Asn A:447 - Pro A:448   [ RasMol ]  
    Asn A:449 - Phe A:450   [ RasMol ]  
    Gln B:71 - Val B:72   [ RasMol ]  
    Glu B:131 - Gly B:132   [ RasMol ]  
    Gly A:48 - Lys A:49   [ RasMol ]  
    Lys A:49 - Gly A:50   [ RasMol ]  
    Phe A:450 - Lys A:451   [ RasMol ]  
    Pro B:58 - Lys B:59   [ RasMol ]  
    Pro B:81 - Gly B:82   [ RasMol ]  
 

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  RSPO1_HUMAN | Q2MKA7
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 Related Entries

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

UniProtKB/Swiss-Prot
        LGR4_XENTR | B0BLW3: 4li1
        RSPO1_HUMAN | Q2MKA7: 4bso 4bsp 4bsr 4bss 4bst 4bsu 4cdk 4kng 4kt1 4qxf

(-) Related Entries Specified in the PDB File

4li1