5MS0,1HH2,1K0R,1L2F,1K0R,4MTN,5LM7,5LM9,2ASB,6FLQ,6GOV


Conserved Protein Domain Family
KH-II_NusA_rpt2

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cd22529: KH-II_NusA_rpt2 
second type II K-homology (KH) RNA-binding domain found in transcription termination/antitermination protein NusA and similar proteins
NusA, also called N utilization substance protein A or transcription termination/antitermination L factor, is an essential multifunctional transcription elongation factor that participates in both transcription termination and antitermination. NusA anti-termination function plays an important role in the expression of ribosomal rrn operons. During transcription of many other genes, NusA-induced RNA polymerase pausing provides a mechanism for synchronizing transcription and translation. In prokaryotes, the N-terminal RNA polymerase-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, the S1 and two K-homology, KH1 and KH2. The K-homology (KH) domains of NusA belong to the type II KH RNA-binding domain superfamily. This model corresponds to the second KH domain of NusA and similar proteins.
Statistics
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PSSM-Id: 411786
Aligned: 55 rows
Threshold Bit Score: 67.9478
Created: 31-Aug-2020
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
RNA bindingGXXG motif
Conserved site includes 20 residues -Click on image for an interactive view with Cn3D
Feature 1:RNA binding site [nucleic acid binding site]
Evidence:
  • Structure:2ASB; Mycobacterium tuberculosis NusA in complex with RNA, contacts at 4A
    View structure with Cn3D
  • Structure:5MS0; Escherichia coli transcription termination/antitermination protein NusA binds RNA, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                  ##                           ##### #####  ##  ##     #### 
5MS0_M       281 NPAQFVINAMAPAd-vASIVVDEd-----kHTMDIAVEAGNLAQAIGRNGQNVRLASQLSG-WELNVM 341 Escherichia coli K-12
2ASB_A       159 DPARFVANALSPAkvvSVSVIDQt-----aRAARVVVPDFQLSLAIGKEGQNARLAARLTG-WRIDIR 220 Mycobacterium tuberculosis
1352607      314 DKLKFLINAILPAe-vIGYNILQdde--rdTSIEVVVPANQIANVFGFKGVNIRLISNLTGwNSVDVY 378 Mycoplasma genitalium G37
BAC43901     282 DPKQFLVNACHPEk-iVGVEITDdedipgsKIVTIVCPEESLIKLIGKNGINVRLLSKLTG-WSIDII 347 Mycoplasma penetrans HF-2
ABC45425     282 DPQELIARALSPAe-pTNVSLNQde---dpPRARVEVPADEVSQAIGKRGVNIKLASQLTG-YEIDVY 344 Salinibacter ruber DSM 13855
WP_005874171 286 NTALFIQRALSPAr-iSSIRLLEa-----eHKAEVFLRPEEVPLAIGKNASNIKLASGLTG-YQIEVF 346 Porphyromonas gingivalis
WP_007278464 277 DEEEYVREAFKPNp-iEEVEIDQd-----gRLIKLLVSEESYKSIVGRDGENIRLTEELMD-WDIEVE 337 Lentisphaera araneosa
WP_010882964 280 VSTELLQNLLYPIe-iQKIAILEd-----dKVIAIVVNDADYATVIGKRGINARLISHILD-YELEVQ 340 Chlamydia pneumoniae
WP_012414836 306 DVTTMIMNSIAPAr-aNSVKIISae----eKKALIIVPDDQLAIAIGKDWQNIKLASKLTG-WELEVK 367 Elusimicrobium minutum
WP_014546933 298 NFDVFVQRSLAPAs-vLKMFPVPd-----tDRIVIIVDDENLAQAIGKGGQNVELAGRLVD-RKLDVH 358 Fibrobacter succinogenes

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