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(-) Description

Title :  CRYSTAL STRUCTURE OF MIL (MTH680), AN ARCHAEAL IMP4-LIKE PROTEIN
 
Authors :  C. L. Ng, A. A. Antson, M. Ortiz-Lombardia
Date :  06 Oct 04  (Deposition) - 19 Jan 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Archaeal Imp4-Brix Domain, Imp4 Domain, Brix Domain, Rna-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. L. Ng, D. Waterman, E. V. Koonin, A. A. Antson, M. Ortiz-Lombardia
Crystal Structure Of Mil (Mth680): Internal Duplication And Similarity Between The Imp4/Brix Domain And The Anticodon-Binding Domain Of Class Iia Aminoacyl-Trna Synthetases
Embo Rep. V. 6 140 2005
PubMed-ID: 15654320  |  Reference-DOI: 10.1038/SJ.EMBOR.7400328

(-) Compounds

Molecule 1 - PROBABLE BRIX-DOMAIN RIBOSOMAL BIOGENESIS PROTEIN
    Atcc: 29096
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Organism Scientific: METHANOTHERMOBACTER THERMAUTOTROPHICUS
    Organism Taxid: 145262
    Strain: DELTA H
    Synonym: MIL

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 14)

Asymmetric Unit (1, 14)
No.NameCountTypeFull Name
1MSE14Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 7)
No.NameCountTypeFull Name
1MSE7Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 7)
No.NameCountTypeFull Name
1MSE7Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1W94)

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:96 -A:104
2B:96 -B:104

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1W94)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W94)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BRIXPS50833 Brix domain profile.BRIX_METTH1-155
 		  2A:1-154
B:1-154
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BRIXPS50833 Brix domain profile.BRIX_METTH1-155
 		  1A:1-154
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BRIXPS50833 Brix domain profile.BRIX_METTH1-155
 		  1-
B:1-154

(-) Exons   (0, 0)

(no "Exon" information available for 1W94)

(-) 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:155
 aligned with BRIX_METTH | O26776 from UniProtKB/Swiss-Prot  Length:155

    Alignment length:155
                             1                                                                                                                                                         
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149     
           BRIX_METTH     - -MLLTTSRKPSQRTRSFSQRLSRIMGWRYINRGKMSLRDVLIEARGPVAVVSERHGNPARITFLDERGGERGYILFNPSFEMKKPELADKAVRVSSCPPGSEGLCNLMGLEVDESSSRDAWSIRTDEEYAWVMELMDARGTPAGFKLLIRDFRVG 154
               SCOP domains -d1w94a1 A:1-154 Probable ribosomal biogenesis protein                                                                                                      SCOP domains
               CATH domains 1w94A00 A:0-154 Probable brix-domain ribosomal biogenesis protein                                                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....hhhhhhhhhhhhhhhh.ee......hhhhhhhhhh..eeeeeee..eeeeeeee.....eeeeeeeeeee............ee......hhhhhhhhh.ee.......eeeee......eeeeee.....eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -BRIX  PDB: A:1-154 UniProt: 1-155                                                                                                                          PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w94 A   0 HmLLTTSRKPSQRTRSFSQRLSRImGWRYINRGKmSLRDVLIEARGPVAVVSERHGNPARITFLDERGGERGYILFNPSFEmKKPELADKAVRVSSCPPGSEGLCNLmGLEVDESSSRDAWSIRTDEEYAWVmELmDARGTPAGFKLLIRDFRVG 154
                             |       9        19    |   29    |   39        49        59        69        79 |      89        99       109       119       129  |  | 139       149     
                             |                     24-MSE    34-MSE                                         81-MSE                   107-MSE                  132-MSE                  
                             1-MSE                                                                                                                               135-MSE               


Chain B from PDB  Type:PROTEIN  Length:149
 aligned with BRIX_METTH | O26776 from UniProtKB/Swiss-Prot  Length:155

    Alignment length:154
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150    
           BRIX_METTH     1 MLLTTSRKPSQRTRSFSQRLSRIMGWRYINRGKMSLRDVLIEARGPVAVVSERHGNPARITFLDERGGERGYILFNPSFEMKKPELADKAVRVSSCPPGSEGLCNLMGLEVDESSSRDAWSIRTDEEYAWVMELMDARGTPAGFKLLIRDFRVG 154
               SCOP domains d1w94b1 B:1-154 Probable ribosomal biogenesis protein                                                                                                      SCOP domains
               CATH domains -1w94B00 B:2-154 Probable brix-domain ribosomal biogenesis protein                                                                                         CATH domains
           Pfam domains (1) --Brix-1w94B01 B:3-83                                                              ----------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) --Brix-1w94B02 B:3-83                                                              ----------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .eeee....hhhhhhhhhhhhhhhh.ee......hhhhhhhhhh..eeeeeee..eeeeeeee.....eeeeeeeeeee......---...ee......hhhhhhhhh.ee...--..eeeee......eeeeee.....eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE BRIX  PDB: B:1-154 UniProt: 1-155                                                                                                                          PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1w94 B   1 mLLTTSRKPSQRTRSFSQRLSRImGWRYINRGKmSLRDVLIEARGPVAVVSERHGNPARITFLDERGGERGYILFNPSFEmKKPE---KAVRVSSCPPGSEGLCNLmGLEVDES--RDAWSIRTDEEYAWVmELmDARGTPAGFKLLIRDFRVG 154
                            |       10        20   |    30   |    40        50        60        70        80|   |   90       100      |110   |  |120       130 |  |  140       150    
                            1-MSE                 24-MSE    34-MSE                                         81-MSE  89               107-MSE114  |            132-MSE                  
                                                                                                                                              117               135-MSE
   Legend:   → Mismatch (orange background)
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 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: Brix] (1)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (BRIX_METTH | O26776)
biological process
    GO:0042254    ribosome biogenesis    A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits; includes transport to the sites of protein synthesis.

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  1w94
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  BRIX_METTH | O26776
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