2XR1,2YCB,3AF5


Conserved Protein Domain Family
KH-II_CPSF_arch_rpt2

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cd02410: KH-II_CPSF_arch_rpt2 
second type II K-homology (KH) RNA-binding domain found in archaeal cleavage and polyadenylation specificity factor (CPSF) and similar proteins
The archaeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup of enzymes within the metallo-beta-lactamase fold. Within the CPSF family, all archaeal genomes contain one member with two N-terminal type II K-homology (KH) domains and one without. This family includes the CPSF homologs from archaea possessing N-terminal KH domains. This model corresponds to the second KH domain of CPSF, which is a canonical type II KH domain that contains the signature motif GXXG (where X represents any amino acid).
Statistics
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PSSM-Id: 411781
Aligned: 23 rows
Threshold Bit Score: 113.504
Created: 31-Jan-2005
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
putative RNAGXXG motif
Conserved site includes 13 residues -Click on image for an interactive view with Cn3D
Feature 1:putative RNA binding site [nucleic acid binding site]
Evidence:
  • Comment:Based on the structure evidence that Mycobacterium tuberculosis NusA binds RNA.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                     #     #  #  #  ##  ##  #     ####               
2XR1_A         77 PEDSISIIEEVVPKESvISSYYFDpdsGEVIIEAEKPGLVIGKHGATLREITKQIgWIPKVVRTPPIKSRTVKNIR 152 Methanosarcina mazei
3AF5_A         82 PEEAEKLIFEIVPKEAeITNIAFDpsvGEVLIEAKKPGLVIGKNGETLRLITQKVkWAPKVVRTPPLQSQTIYSIR 157 Pyrococcus horikos...
2496166        72 PEIAKQKILEIVPEEAeITNFVFDantGEVIIESKKPGLVIGKEGKTLEMIKKAIrWAPKPVRTPPIQSETIKAIR 147 Methanocaldococcus...
Q5JH24         79 PEKAEELIKQLVPPEAeITNISFDpsvGEVLIEARKPGLVIGKNGETLRLITQKVhWAPRVVRTPPIQSQTIYSIR 154 Thermococcus kodak...
Q8U124         82 PEEAEKLILEIVPKEAeITNISFDpsvGEVLIEAKKPGLVIGKNGETLRLITEKVrWAPKVVRTPPLQSQTIYLIR 157 Pyrococcus furiosus
Q6LZD5         72 PDIAKDKILKIVPEDAeITNCIFDantGEVIIESKKPGLVIGKEGSTLEDIKKAIqWAPKPVRTPPIPSDTIKAIR 147 Methanococcus mari...
jgi:Msed_2254  72 KKETIEIIKNFVPAEAqISDIKFDdelGEVLIKAKKPGLVIGKRGLIQQKIFMDTyWRPVIIREPPIKSRTVEGVL 147 Metallosphaera sed...
jgi:Igni_0009  75 RKEAAELINKIVGEGGeIVELQFEpstGEVIIITNKPGYVVGKGGHRLRKILTATgWKPVVMRNPPLKSNVISTIR 150 Ignicoccus hospita...
OYT27901       75 EDETVEIIKQIVPPEAgITSIFFDeisGVVEIEAEKPGYVIGKEGQTLRRILAETlWHPRVVRTPPIHSATIAQTR 150 Thermofilum sp. ex...
RLE50209       60 KEKAIEIIKENIPNEIsLNEIFFDdsfGEAIIEVDKPGLMISKYGENLKSIMIKTgWKPRVTRKSPMKSTTLDWVK 135 Candidatus Verstra...

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