Conserved Protein Domain Family
CSD2

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pfam17876: CSD2 
Cold shock domain
Crystallographic structure analysis of E. coli wild-type RNase II revealed that the amino-terminal region starts with an alpha-helix followed by two consecutive five-stranded anti-parallel beta-barrels, identified as cold-shock domains (CSD1 and CSD2). This entry relates to CSD2 which lacks the typical sequence motifs RNPI and RNPII but contributes to RNA binding.
Statistics
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PSSM-Id: 496801
Aligned: 476 rows
Threshold Bit Score: 47.3954
Created: 19-Feb-2025
Updated: 28-Apr-2025
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
EDY83443      168 YVAPDDPRIIHDIYVPPPEESRldplPTVGSKVVVKLHEW-EQ-RhvN-PEGELIANLGKTHEPQAELMGVLHKYNLDPE 244
WP_036134188  193 FVVPDDRRIQRNVMIPADARMD----AQNGQLVVCELVHAaDTnRp---PIGRVLTVLGDRLTASLAVQAAIHGHELPHE 265 Aerolutibacter...
KQY52766      250 YVVPDDRRIQRNVQIPPDQRAE----AKHGQLVVAEITQApDS-R--RpPIGRVLTVLGERLTASLAVQAAIHGHDLPHE 322
WP_052106661  256 YVEPDDARIQRNVLIPPEHRGE----ARDGQLVVCEITRApEP-R--RaPLGRILTVLGDRLTASLAVQAAIHGHDIPHE 328 Novilysobacter...
WP_237577603  182 YVVPDDRRIQRNVLIPPGESHD----AKPGQLVVAELVQApDTsRp---PIGKVLAVLGDKLTASLAVEAAIHGHELPHE 254 Noviluteimonas...
EIT68225      178 YVIPDNPRVQQDLLIPPEARGG----AKQGQMVVAEITAPpGH-R--TlPVGKVIEILGDHLAPGMEIEAAIRAHNLPYV 250
Q1LSR0        166 FVVPDDSRLSFKIIIPPADRNN----ADVGCLVVVQLIQRpNR-N--IkAIGKIVEVLGDHINTSMVVDIALRSYALPYI 238 Baumannia cica...
KMV71401      164 FVVPDDSRLSFDILIEADPAMQ----ARMGAVVVVTLEKRpTR-R--MkAIGKITEILGDEMGTSLAVDMALRTHEIPNE 236
BAN97754      164 FVVPDDSRLSFDILIPAEETLN----ARMGSVVVVEIVQRaTR-R--SkAIGKITEILGDNMGTGLAVDMALRTHEIPHS 236
14_pfamImport   1 FVVPDDSRLCFDILIPKESING----ARMGNIVVAELTRRpGK-R--VqALGVITEVLGEKMGTSIAVDIALRKHEIPFT 73 
EDY83443      245 FP 246
WP_036134188  266 FP 267 Aerolutibacter daejeonensis
KQY52766      323 FP 324
WP_052106661  329 FP 330 Novilysobacter defluvii
WP_237577603  255 FP 256 Noviluteimonas dokdonensis
EIT68225      251 FP 252
Q1LSR0        239 WP 240 Baumannia cicadellinicola str. Hc (Homalodisca coagulata)
KMV71401      237 WP 238
BAN97754      237 WP 238
14_pfamImport  74 WP 75 
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