3J4V,1FJG,1I94,1I97,1P6G,1P87,1PNS,1VS5,2GY9,3BBN,3FIC,1VOZ,4WT8,5O5J


Conserved Protein Domain Family
KH-II_30S_S3

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cd02412: KH-II_30S_S3 
type II K-homology (KH) RNA-binding domain found in 30S ribosomal protein S3 and similar proteins
30S ribosomal protein S3, also called small ribosomal subunit protein uS3, is part of the head region of the 30S ribosomal subunit and binds to the lower part of the 30S subunit head. It may also bind mRNA in the 70S ribosome, positioning it for translation. S3 protein is believed to interact with mRNA as it threads its way from the latch into the channel. Members of this family contain only one canonical type II K-homology (KH) domain that has the signature motif GXXG (where X represents any amino acid).
Statistics
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PSSM-Id: 411783
Aligned: 128 rows
Threshold Bit Score: 73.6321
Created: 18-Feb-2005
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
RNA bindingGXXG motif
Conserved site includes 6 residues -Click on image for an interactive view with Cn3D
Feature 1:RNA binding site [nucleic acid binding site]
Evidence:
  • Structure:3J4V: Escherichia coli 30S ribosomal protein S3 binds 16S ribosomal RNA; contacts at 4A
    View structure with Cn3D
  • Structure:1FJG: Thermus thermophilus 30S ribosomal protein S3 binds 16S ribosomal RNA; contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1     ####    #                  #                                                    
3J4V_C      2 GQKVHPNGIRLGIvkpWNSTWFAn--tKEFADNLDSDFKVRQYLTKELak----------------------asVSRIVI 57  Escherichia coli K-12
133928      2 GQKVHPLGFRLGItksHSSFWYVe--rRHYASFVKEDIVIRNFMNKELle----------------------tlISLIKI 57  Euglena gracilis
P56365      2 GQKVHPIGFRLGItqkHRSYWCTt--pQKSALWIQDASFLRNFIKKKYig----------------------agITHIEI 57  Chlorella vulgaris
Q9TL20      2 GQKIHPLGFRLGItqqHRSTWFAp--rKLYVSWIHEERQLRDYLKTRLad----------------------agVANVQL 57  Nephroselmis olivacea
Q08365      2 GQKVHPLGFRVGItkkHQSQWFArfqkYAYSQSVFEDHMLRTTLVNLFsnlekesalatkqsknrgatqpkapkITQIKI 81  Chlamydomonas rein...
Q4G359      2 GQKTHPTGFRIGInksHDSTWFAn--yGTYGEILKEDYKIRKFFENDWgtly------------------nkagVSKVEI 61  Emiliania huxleyi
Q3ZJ85      2 GQKIHPLGFRLGItqeHRSKWYAk--aSDYPRLVLEDKKLRDNLFKQYpk----------------------anIVDIII 57  Tupiella akineta
Q1KVX7      2 GQKIHPLGFRVGItkkHQSVWFArfhkHQYAQSVLEDRFLRKNLLKLLpqlfqkkl----------nnspnmpkISHIQI 71  Tetradesmus obliquus
Q0P3L7      2 GQKVHPIGFRIGVtqtHRSQWFAk--pKDYAKLVEEDLLIREFAESRLpd----------------------agISRINI 57  Ostreococcus tauri
Q20F10      2 GQKVHPLGFRLGVtqkHRSQWFAk--pQEYSQLVLEDHFLREELNKRFpn----------------------sgIIDLFI 57  Oltmannsiellopsis ...
Feature 1                                                                                     
3J4V_C     58 ERpa-----------kSIRVTIHTAR--------PGIVIGKKG-------EDVEKLRKVVADIag-------------vp 98  Escherichia coli K-12
133928     58 ERiyefs-----eqrnNTIVYIHVAR--------PERVIGRDG-------QGLSRIRDILIDRmnyllg------ktpri 111 Euglena gracilis
P56365     58 QRqdv--------dspSLGIQIYAAR--------LRQIAGNDS-------KGLERLQEELVKQlqifyrkrnlvepgtih 114 Chlorella vulgaris
Q9TL20     58 TRqs-----------dRIEVEIHTAC--------PGAIVGRTG-------QGLEILREDIQKRlpk-----------vrr 100 Nephroselmis olivacea
Q08365     82 ERgli---------pyEIGIQIHSNDclsitkaiDNIKVSKDLv------TNLQKTRKYLFKAgtqlkn-----asmqvs 141 Chlamydomonas rein...
Q4G359     62 KRkv-----------nQLELLIHAAR--------PKAIAGTADe-----eSTFSTLRAQIKKLtnnpkq------trikv 111 Emiliania huxleyi
Q3ZJ85     58 KRrqttqdletkesvdVIEVSIYTAV--------PGKIIGRSK-------ATITELKESLEKLcqldrmk---hnlpqir 119 Tupiella akineta
Q1KVX7     72 VRgli---------pyEIGIQIHAQNc-------HMIKSAFEGl------EVQPNFVHNLLKNh---------------- 113 Tetradesmus obliquus
Q0P3L7     58 SRqv-----------dRIEIEFFTAR--------PRALVGAKG-------ETLTQLRDEIKAKlpd-----------trn 100 Ostreococcus tauri
Q20F10     58 QRkvd---------rtQVEVEIRTTR--------PGLLVGRKRqncdklkQLRDELQVELNKFrakngv------sptak 114 Oltmannsiellopsis ...
Feature 1                
3J4V_C     99 AQINIAEVRKP 109 Escherichia coli K-12
133928    112 ITCKVVGVTSP 122 Euglena gracilis
P56365    115 LRLSVKPLRAP 125 Chlorella vulgaris
Q9TL20    101 VIVHVVEIANP 111 Nephroselmis olivacea
Q08365    142 DNLNVAEGENS 152 Chlamydomonas reinhardtii
Q4G359    112 IQVNKMETESV 122 Emiliania huxleyi
Q3ZJ85    120 IILTILKVQNP 130 Tupiella akineta
Q1KVX7    114 LILEKNSVKKT 124 Tetradesmus obliquus
Q0P3L7    101 VALYVTKTQQP 111 Ostreococcus tauri
Q20F10    115 VALQVTTVQNK 125 Oltmannsiellopsis viridis

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