3J43,3J20,6SW9,6TMF


Conserved Protein Domain Family
KH-II_30S_S3_arch
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cd02411: KH-II_30S_S3_arch 
type II K-homology (KH) RNA-binding domain found in archaeal 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 is believed to interact with mRNA as it threads its way from the latch into the channel. Members of this family are mainly from archaea and contain only one canonical type II K-homology (KH) domain that has the signature motif GXXG (where X represents any amino acid).
Links
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Statistics
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PSSM-Id: 411782
Aligned: 26 rows
Threshold Bit Score: 70.3107
Created: 31-Jan-2005
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
Download Cn3D
 
RNA bindingGXXG motif
Conserved site includes 4 residues -Click on image for an interactive view with Cn3D
Feature 1:RNA binding site [nucleic acid binding site]
Evidence:
  • Structure:3J43: Methanocaldococcus jannaschii 30S ribosomal protein S3p binds to 16S ribosomal RNA; contacts at 4A
    - View structure with Cn3D
  • Structure:6TMF: Thermococcus celer 30S ribosomal protein S3 binds to 16S ribosomal RNA; contacts at 4A
    - View structure with Cn3D
Download Cn3D for Viewing 3D StructureScroll to Sequence Alignment Display
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1     ####                                                                            
3J43_C      2 AIERy-FIREAVREMLIDEFLEKELrRAGYGGLDIkKTPLGTKVIIFAANPGYVIGRGGRRIRELTRILEkqFGLENPQI 80  Methanocaldococcus...
Q9YF78      4 KVVKh-FLNQGLLRTKIDEWLAQNFyEAGYSRVKVvQTSLGTNITIWAERPALIIGRRGATIRRLQEVFQtvFGLPNPRI 82  Aeropyrum pernix K1
Q9UXA0      3 NIKRy-FLEKSIVKVKIDEYLAKQYyNAEYAGVEVlKTPIGTRVIIYAGRPSMIIGRGGRNIKQLAQIFEkvFGLENPQI 81  Saccharolobus solf...
Q8ZWI0      9 PVYKk-ILEENKKKWMIKEFLEYRLsKYGYIDSEIlKTPLGTRIVIYAERPSRIIGRKGAIVKEISNILTtkLGVENPQI 87  Pyrobaculum aeroph...
A2BMC5      3 LIKRy-FIKKAMVQTQIDEYLAKRFyRAGYAGVQIiQFPLGTRVIIYAERPAMIIGRRGETIRQLAAIFEheFGLSNPQI 81  Hyperthermus butyl...
A3DNB3      4 PRVKsyFIDYSLKKVMLDEFLANYFkDAGYAGMELyKTPTGYRVVIYAEYPGRIIGRGGSIIRKLMTIMQthFGLENVNI 83  Staphylothermus ma...
A1RXG6      4 TARK--VISQGLQYMMLNEYLQRQLvRANYVHAQFfKTPIGTKVIVYAGVPGLVIGRKGANIKAIAEVLEreFGIENPQI 81  Thermofilum penden...
A8AA20      7 NIKKy-FLEQALTQVKVDEYLAYKFhSVGYSKVELqKTPMGTRVIIYAERSGAIIGRRGQTIKQITKVLEewFGIPNPQV 85  Ignicoccus hospita...
A0RVX9      2 TAVKs-VIRENYNMMKLREFLRENIkDSGFSGVEVeKNPRGTKITLHVTRPGIVIGRKGVGIRELTERLEkdFDLKSPQV 80  Cenarchaeum symbio...
VDK13305    3 TIRK--MIQDKFREMRMHDYLRDTVkDAGYSHSETtKTPMGTKVALHVTRPGLVIGRKGSGIRAITETLGteYELKNPQI 80  Nitrosopumilaceae ...

Feature 1             
3J43_C     81 EVEEIKNP 88  Methanocaldococcus jannaschii
Q9YF78     83 RVEQPENP 90  Aeropyrum pernix K1
Q9UXA0     82 TITNVENP 89  Saccharolobus solfataricus P2
Q8ZWI0     88 DVIDISKI 95  Pyrobaculum aerophilum str. IM2
A2BMC5     82 TVRRVENP 89  Hyperthermus butylicus DSM 5456
A3DNB3     84 TVSPVPDP 91  Staphylothermus marinus F1
A1RXG6     82 DVVEVPNQ 89  Thermofilum pendens Hrk 5
A8AA20     86 TVVKVEEP 93  Ignicoccus hospitalis KIN4/I
A0RVX9     81 DVKEIETP 88  Cenarchaeum symbiosum A
VDK13305   81 TVKEIQTP 88  Nitrosopumilaceae archaeon

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