2GSC


Conserved Protein Domain Family
23S_rRNA_IVP_like

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cd16377: 23S_rRNA_IVP_like 
Click on image for an interactive view with Cn3D
23S rRNA-intervening sequence protein and similar proteins
A family of functionally uncharacterized bacterial proteins, some of which are encoded by an atypically large intervening sequence present within some 23S rRNA genes. The distantly related bAvd protein, which also forms a homopentamer of four-helix bundles, has been suggested to interact with nucleic acids and a reverse transcriptase.
Statistics
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PSSM-Id: 319869
View PSSM: cd16377
Aligned: 364 rows
Threshold Bit Score: 89.7569
Threshold Setting Gi: 818414499
Created: 28-Jan-2016
Updated: 18-Aug-2016
Structure
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Program:
Drawing:
Aligned Rows:
 
pentamer
Conserved site includes 28 residues -Click on image for an interactive view with Cn3D
Feature 1:pentamer interface [polypeptide binding site]
Evidence:
  • Structure:2GSC: conserved hypothetical cytosolic protein Xcc0516 from Xanthomonas campestris forms homopentamer, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1              ## ##  #   #        #    # #   #   #   #  ##            ## ##  ## ### ##  
2GSC_A        15 DAWRDSMELVEMIYRLTEVFPdq-erYGLTAQLRRAAVSIPSNIAEGAARrs--tPDYSRFLSIARGSLSELDTQVQIAA 91
gi 697780066  18 VVFQKAYKLSLKLHKLTLSMPke-eqYGLASQIRQASKSICANIAEGFGKqsvstAEFKRFILIAMGSADEMRVWLRYCF 96
gi 409957821  11 EVYRKAYFISLEIHKKTLEFPke-eqYGLASQLRNSSKSICGNIAEGFGKqsqskREFRRFLSMAIGSADETKVWLDYAK 89
gi 505004411   7 LVYAKAYQFAIRIVNAYKHLTeekkeFVLSKQLLKSGTSIGANIAEANGAis--kAEFKAKMSIAYKETLETKYWISLLK 84
gi 293079     11 DVFNRAYALSLKIDKISLEMPkf-eqLDLANQLRRSSKSICSNFAEGFAKqnfskREFKKYLIIAIGSANESALWLRYSK 89
gi 497645803  24 ELYRQAFLFQQAVFKVTQSFPke-erYSLTDQVRRSSRAVGANIAEAWSKrr-yeAHFLSKLTDADGELQETLHWLRTAY 101
gi 931544179  21 KVYQMAYRLAMDIFKISKSFPke-emYSLTNQVRRSSRSVCSNNAEAYRKrr-dpKHLSLRISDADSEASETLVWLDFAK 98
gi 780798271   9 VVYKRSFKLAMDIFWLTKKFPke-etYSLTSQINRSSRSITSNVSEGWAKrk-feLVFKQHLIHALGSASETETWLEFAL 86
gi 196177261  26 IIYQKAFDAAMTIFEISKQFPie-erYSLSDQIRRSSRAVCANLAEQARKrr-ykASFLAKLNDCEAESAETQVWLKFAV 103
gi 909540049  15 EVYRLAHKLAMDVFWISAGFPve-erYSLTDQIRRSSRSVAANIAEGWGKrk-ypLSFKKQLVDANGSLEETKSWIMFAR 92
                         90       100       110
                 ....*....|....*....|....*....|.
Feature 1                        ##  #          
2GSC_A        92 rlgySRSEDDQSVRRQVDLVFAKLTALMNAL 122
gi 697780066  97 dlgyLNEKTWVYFRNNYQDIAKMLKGLHKSW 127
gi 409957821  90 dlgyITESLYATWKRTYVDIAKMLSGLYKSW 120
gi 505004411  85 dtgyISEKAFESLYLDADEIGKMLFTIIQNT 115
gi 293079     90 dlgyITEDQYSEWSDECLQIAKILSKLAQIQ 120
gi 497645803 102 sckyLSKETCETLVNQASELGRILGSMITNH 132
gi 931544179  99 dcgyISLRTYKSLSAKYEEVGRMLGGIAKHA 129
gi 780798271  87 eckyIDEPTYKKHTDELEQIGKMLNKLYQNW 117
gi 196177261 104 kcqyISTEQGREIYHIYNQVLRGLVNMINHP 134
gi 909540049  93 dckyISIEQFDSLFPDYETLGGKLWRLEERW 123

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