1K8W,1SGV


Conserved Protein Domain Family
PseudoU_synth_TruB_like
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cd00506: PseudoU_synth_TruB_like 
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Pseudouridine synthase, TruB family.
This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruB, Saccharomyces cerevisiae Pus4, M. tuberculosis TruB, S. cerevisiae Cbf5 and human dyskerin. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruB, M. tuberculosis TruB and S. cerevisiae Pus4, make psi55 in the T loop of tRNAs. Pus4 catalyses the formation of psi55 in both cytoplasmic and mitochondrial tRNAs. Psi55 is almost universally conserved. S. cerevisiae Cbf5 and human dyskerin are nucleolar proteins that, with the help of guide RNAs, make the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Cbf5/Dyskerin is the catalytic subunit of eukaryotic box H/ACA small nucleolar ribonucleoprotein (snoRNP) particles. Mutations in human dyskerin cause X-linked dyskeratosis congenitas.
Links
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Statistics
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PSSM-Id: 211323
Aligned: 5 rows
Threshold Bit Score: 242.83
Created: 7-Mar-2002
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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RNA bindingactive site
Conserved site includes 30 residues -Click on image for an interactive view with Cn3D
Feature 1:RNA binding site [nucleic acid binding site]
Evidence:
  • Structure:1K8W_A: binds tRNA, defined using 3.5 A contacts
  • Comment:TruB gains access to its substrate by flipping out nucleotide 55 of the T stem.
  • Comment:Hinged bending in the central beta sheet of the catalytic module appears to act as clamp to position the tRNA substrate and may facilitate base flipping.
  • Structure:1SGV_B, Mycobacterium tuberculosis TruB, disordered thumb region which reorders upon binding RNA
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1                   # #  #                                                              #
1K8W_A        26 GVLLLDKPQGMSSNDALQKVKRIYNAn---------------------------------------------------RA 54  Escherichia coli
1SGV_B         7 GIVVIDKPAGMTSHDVVGRCRRIFATr---------------------------------------------------RV 35  Mycobacterium t...
O60832        90 GFINLDKPSNPSSHEVVAWIRRILRVe---------------------------------------------------KT 118 human
NP_001002200   3 GLFAVYKPQGVHWKLVRDTIESNFLKalnssppaaprrevqfqllssgenstskelilspsmvpsladhplvtgpqfhKV 82  zebrafish
XP_421776     19 GLFAVYKPKGPTSAAVLNLLKERLLAeagvqtkd------------------------------------kkrkrqalKI 62  chicken

Feature 1        ##   #####             #  ##  #     # #                                         
1K8W_A        55 GHT--GALDPLATGMLPICLGEATKFSQYLLd--sDKRYRVIARLGqrtdtsdadgqi-veerpvtfsaeQLAAALDTFR 129 Escherichia coli
1SGV_B        36 GHA--GTLDPMATGVLVIGIERATKILGLLTa--aPKSYAATIRLGqttstedaegqvlqsvpakhltieAIDAAMERLR 111 Mycobacterium t...
O60832       119 GHS--GTLDPKVTGCLIVCIERATRLVKSQQs--aGKEYVGIVRLHnaie-----------------ggtQLSRALETLT 177 human
NP_001002200  83 HVGvgHRLDAFSSGVLVLGVGKGNSVLEHLCkshvTRDYTIEGEFGkatdnfshtgrviekttydhithdKLERVLAMLQ 162 zebrafish
XP_421776     63 GHG--GTLDSAATGVLVVGIGKGTKLLKTILa--gSKKYTAIGLLGratdtldatgkvteekpydqvtksDLENVLQKFT 138 chicken

Feature 1                 #####                    #                            ######           
1K8W_A       130 GDIEQIPSMYSALKyqgkklyeyarqgievpreaRPITVYELLFIRHEg----nELELEIHCSKGTYIRTIIDDLGEKLG 205 Escherichia coli
1SGV_B       112 GEIRQVPSSVSAIKvggrrayrlarqgrsvqleaRPIRIDRFELLAARrrdqliDIDVEIDCSSGTYIRALARDLGDALG 191 Mycobacterium t...
O60832       178 GALFQRPPLIAAVKrq-----------------lRVRTIYESKMIEYDpe--rrLGIFWVSCEAGTYIRTLCVHLGLLLG 238 human
NP_001002200 163 GSNQKALITYSQVDlqtqeayelaargllypdgkSPPILTGLRCIKFNpp--hfTLEVRCVNETQKYLRKLIHEVGLELL 240 zebrafish
XP_421776    139 GDIMQVPPLYSALKrdgerlstlmkrgeaveakpARPVRVYSLSLRQFqp---pLFTLDVECGGGFYVRSLVSDIGKELS 215 chicken

Feature 1                 #                  
1K8W_A       206 CGAHVIYLRRLAvskyp-vermVTLEHL 232 Escherichia coli
1SGV_B       192 VGGHVTALRRTRvgrfe-ldqaRSLDDL 218 Mycobacterium tuberculosis
O60832       239 VGGQMQELRRVRsgvmsekdhmVTMHDV 266 human
NP_001002200 241 ASAVCTKVRRTRdgpfk-venaLTRQHW 267 zebrafish
XP_421776    216 TCASIQELTRTKhgpf--tleeHALHED 241 chicken

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