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(-) Description

Title :  CRYSTAL STRUCTURE OF TRNA DEPENDENT LANTIBIOTIC DEHYDRATASE MIBB FROM MICROBISPORA SP. 107891
 
Authors :  Y. Hao, S. K. Nair
Date :  28 Oct 15  (Deposition) - 02 Mar 16  (Release) - 30 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.71
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Lantibiotic Dehydratase, Nai-107, Microbispora Sp. 107891, Trna Dependent, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Ortega, Y. Hao, M. C. Walker, S. Donadio, M. Sosio, S. K. Nair, W. A. Van Der Donk
Structure And Trna Specificity Of Mibb, A Lantibiotic Dehydratase From Actinobacteria Involved In Nai-107 Biosynthesis.
Cell Chem Biol V. 23 370 2016
PubMed-ID: 26877024  |  Reference-DOI: 10.1016/J.CHEMBIOL.2015.11.017

(-) Compounds

Molecule 1 - LANTIBIOTIC DEHYDRATASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: ROSETTA 2
    Expression System Taxid: 562
    Gene: MIBB
    Organism Scientific: MICROBISPORA CORALLINA
    Organism Taxid: 83302

 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 5EHK)

(-) Sites  (0, 0)

(no "Site" information available for 5EHK)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5EHK)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Trp A:444 -Pro A:445
2Trp B:444 -Pro B:445

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5EHK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5EHK)

(-) Exons   (0, 0)

(no "Exon" information available for 5EHK)

(-) 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:1036
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee..eeeeeee..hhhhhhhh....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeee...eeee....eeeeeehhhhhhhhhhhhhhhhhhhh..eeee....eee..eeeee........eeeee.hhhhhhhhhhh...eehhhhhhhhhhhh....hhhhhhhhhhhhh..eee.........hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.....eeeeee..eeeeeehhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh....ee..................................hhhhhhhhhhhhhh...eeeehhhhhhhhh....hhhhh..eeeeeeeee..hhhhhhh...eeee............hhhhh..hhhhhhhhhhhhhh........eeeeeee...hhhhhh.........eeeee........ee.hhh.eeeee....eeeee......eeee.....hhhhhhhhhhhhhhhhhh..........hhhhhhh.ee.eeee..eeee..eee.hhhh.......hhhhhhhhhhhhhhhhh...eeeee....eeeee..hhhhhhhhhhhhhhh...eeee...........hhhhheeeeeeee.......................eeeeee..hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhh.....eeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........ee.....eehhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5ehk A    4 DSPFRAWDVFMVRTPVHLSLLRAACEDGLMEAVELASPSLAGLLARVARGDTGGLKDKRLRRAALALLRYDIRMRTRPTPFGLFAGVSGGRFDTSAKWLAGTGHRTRTRADMEWLLSAVHRLERDRVLLAGVTVQAHQTLTVRGDRIVLDCPSALGKSTVSARRSPVVAEILGAARRPVLAGRLAQSVAQRFELPADRVTGLLADMAAQELLITALRPPLDGDDPLQHVLDVVAAAEARAGSPAEAMSSESAALVAALREVDARCHAYDRTAVGQGRRELAELIQSTRRVHPHDTPLHVDLRIDLEVRLPEVVRTEIERAAEALWRLSPPRRGMRALRRYHEAFLERYGADRAVPLLELLDDTRGLGPPAGYKWPPSETPAGPQEEPRRSAALARLVAKAARRGEREIVIDEETIAELAYDEAAPADLPNSLELGVHVVAPSLDELSAGTFRVVLAPGPGSHHAGATLGRFTGLLPDVDAESAARQAGRPLHIQDAVAADVAFIPRSGRAANLAHTPSYSGRRISVGLPDSGRAQEIPLDELGVGANLERLCLVHLPTGREVVPALPNMVSAFAQAPNPARLLFELGLEGQRLWEPWDWGALSEMPFLPGVRYGRTLLAAPLWRMDQLRGPADDSGPAADWDAALDRWRAEWNVPRRVLAVSMDQRLLLDLDDAWHRVLLRDELRRTPELIAQQVAGDEEGWLDFPGHLAEIVVPLERRDRHAARPPHIRATVSPTGAGGPWLYLRLRVPRRNQDDFLRDQVPVLVRAGIEHGADRWFFIRYSDTAGQHLRVRFRGEREKLWAGLLPEIGARLVEWQRQGLLAGHELGQYDPEYERYGGDALAEFTETAFQHDSAAAISLLRLTRRAGFRYTLDEVTAISAAALADAFGPPAPVVEPVPLVGGLQWAPDLFDGDPAAAWMSSTGGRRELPPDYRRDPARWQKLIDPTGGWPLLRADEDGCQVLAALESRDEAVRRFGTAYREAFRPTDSPSTQLRLVGSLLHMTCNRLIGGSAERERSVLGLARGAVQDNLNRRRH 1114
                                    13     || 82       |93       103       113       123       133       143       153       163       173       183       193       203       213      |230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770   ||  785       795       805   ||  818       828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      
                                          19|         90|                                                                                                                             220|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               774|                          809|                                                                                                                                                                                                                                                                                                             
                                           79          92                                                                                                                              228                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                780                           813                                                                                                                                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:1036
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee..eeeeeee..hhhhhhhh....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.......eeeeeeeee...eeee....eeeeeehhhhhhhhhhhhhhhhhhhh..eeee....eee..eeeee........eeeee.hhhhhhhhhhh...eehhhhhhhhhhhhh.....hhhhhhhhhhh..eee.........hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.....eeeeee..eeeeeehhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhh....ee..................................hhhhhhhhhhhhhh...eee.hhhhhhhhh....hhhhh..eeeeeeeee..hhhhhhh...eeee............hhhhh..hhhhhhhhhhhhhh........eeeeeee...hhhhhh.........eeeee........ee.hhh.eeeee....eeeee......eeee.....hhhhhhhhhhhhhhhhhh..........hhhhhhh.ee.eeee..eeee..eee.hhhh.......hhhhhhhhhhhhhhhh....eeeee....eeeee..hhhhhhhhhhhhhhh...eeee..hhhhh....hhhhheeeeeeee.......................eeeeee..hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeee.hhhhhhhhhhhhhhhhhhhhhhh.....eee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh........ee.....eehhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5ehk B    4 DSPFRAWDVFMVRTPVHLSLLRAACEDGLMEAVELASPSLAGLLARVARGDTGGLKDKRLRRAALALLRYDIRMRTRPTPFGLFAGVSGGRFDTSAKWLAGTGHRTRTRADMEWLLSAVHRLERDRVLLAGVTVQAHQTLTVRGDRIVLDCPSALGKSTVSARRSPVVAEILGAARRPVLAGRLAQSVAQRFELPADRVTGLLADMAAQELLITALRPPLDGDDPLQHVLDVVAAAEARAGSPAEAMSSESAALVAALREVDARCHAYDRTAVGQGRRELAELIQSTRRVHPHDTPLHVDLRIDLEVRLPEVVRTEIERAAEALWRLSPPRRGMRALRRYHEAFLERYGADRAVPLLELLDDTRGLGPPAGYKWPPSETPAGPQEEPRRSAALARLVAKAARRGEREIVIDEETIAELAYDEAAPADLPNSLELGVHVVAPSLDELSAGTFRVVLAPGPGSHHAGATLGRFTGLLPDVDAESAARQAGRPLHIQDAVAADVAFIPRSGRAANLAHTPSYSGRRISVGLPDSGRAQEIPLDELGVGANLERLCLVHLPTGREVVPALPNMVSAFAQAPNPARLLFELGLEGQRLWEPWDWGALSEMPFLPGVRYGRTLLAAPLWRMDQLRGPADDSGPAADWDAALDRWRAEWNVPRRVLAVSMDQRLLLDLDDAWHRVLLRDELRRTPELIAQQVAGDEEGWLDFPGHLAEIVVPLERRDRHAARPPHIRATVSPTGAGGPWLYLRLRVPRRNQDDFLRDQVPVLVRAGIEHGADRWFFIRYSDTAGQHLRVRFRGEREKLWAGLLPEIGARLVEWQRQGLLAGHELGQYDPEYERYGGDALAEFTETAFQHDSAAAISLLRLTRRAGFRYTLDEVTAISAAALADAFGPPAPVVEPVPLVGGLQWAPDLFDGDPAAAWMSSTGGRRELPPDYRRDPARWQKLIDPTGGWPLLRADEDGCQVLAALESRDEAVRRFGTAYREAFRPTDSPSTQLRLVGSLLHMTCNRLIGGSAERERSVLGLARGAVQDNLNRRRH 1114
                                    13     || 82       |93       103       113       123       133       143       153       163       173       183       193       203       213      |230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770   ||  785       795       805   ||  818       828       838       848       858       868       878       888       898       908       918       928       938       948       958       968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      
                                          19|         90|                                                                                                                             220|                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               774|                          809|                                                                                                                                                                                                                                                                                                             
                                           79          92                                                                                                                              228                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                780                           813
   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 5EHK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5EHK)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5EHK)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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  Cis Peptide Bonds
    Trp A:444 - Pro A:445   [ RasMol ]  
    Trp B:444 - Pro B:445   [ RasMol ]  
 

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