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Conserved domains on  [gi|90111483|ref|NP_417237|]
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type I-E CRISPR system Cascade subunit CasD [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

type I-E CRISPR-associated protein Cas5/CasD( domain architecture ID 10797570)

type I-E CRISPR-associated protein Cas5/CasD is a component of Cascade, which participates in CRISPR interference, the third stage of CRISPR immunity; Cascade binds both crRNA and in a sequence-specific manner negatively supercoiled dsDNA target

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
casD_Cas5e TIGR01868
CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI; CRISPR is a term for Clustered, ...
 3-216 6.60e-99

CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI; CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is part of the ECOLI subtype CRISPR/Cas locus, and now characterized as part of the CASCADE complex of that system. It shares a small N-terminal homology region with members of several other CRISPR/Cas subtypes, and we view the families that share this region as being Cas5.


:

Pssm-ID: 273842  Cd Length: 216  Bit Score: 286.31  E-value: 6.60e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483     3 SYLILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTSSLQALSESVQFAVRCD---ELILDDRRVSv 79
Cdd:TIGR01868   1 SYLLLRLEGPLQAWGTVSRFGERDTLDFPTRSGLLGLLAAALGIRRDEPERLQELQDRLQFAVRVDregVVLRDFQTAG- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483    80 TGLRDYHTVLGAREDYRGLKSHETIQTWREYLCDASFTVALWLTPHATMVISELEKAVLKPRYTPYLGRRSCPLTHPLFL 159
Cdd:TIGR01868  80 TGKRKRRTLLWGKPEGRGASYGATIVTRREYLGDASFTVALELPAAATPALDEIAAALRRPVWPLYLGRKSCVPTRPLFL 159

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 90111483   160 GTCQASDPQKALLNYEPVGGDIYSEESVTGHHLKFTARDEPMITLPRQFASREWYVI 216
Cdd:TIGR01868 160 KEVVAATVQEALAAYPPDGNDRQREVEGPATHTILNDVDVRFDRKGRQFATRRIREI 216
 
Name Accession Description Interval E-value
casD_Cas5e TIGR01868
CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI; CRISPR is a term for Clustered, ...
 3-216 6.60e-99

CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI; CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is part of the ECOLI subtype CRISPR/Cas locus, and now characterized as part of the CASCADE complex of that system. It shares a small N-terminal homology region with members of several other CRISPR/Cas subtypes, and we view the families that share this region as being Cas5.


Pssm-ID: 273842  Cd Length: 216  Bit Score: 286.31  E-value: 6.60e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483     3 SYLILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTSSLQALSESVQFAVRCD---ELILDDRRVSv 79
Cdd:TIGR01868   1 SYLLLRLEGPLQAWGTVSRFGERDTLDFPTRSGLLGLLAAALGIRRDEPERLQELQDRLQFAVRVDregVVLRDFQTAG- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483    80 TGLRDYHTVLGAREDYRGLKSHETIQTWREYLCDASFTVALWLTPHATMVISELEKAVLKPRYTPYLGRRSCPLTHPLFL 159
Cdd:TIGR01868  80 TGKRKRRTLLWGKPEGRGASYGATIVTRREYLGDASFTVALELPAAATPALDEIAAALRRPVWPLYLGRKSCVPTRPLFL 159

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 90111483   160 GTCQASDPQKALLNYEPVGGDIYSEESVTGHHLKFTARDEPMITLPRQFASREWYVI 216
Cdd:TIGR01868 160 KEVVAATVQEALAAYPPDGNDRQREVEGPATHTILNDVDVRFDRKGRQFATRRIREI 216
Cas5_I-E cd09645
CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly ...
 5-185 2.70e-43

CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex


Pssm-ID: 187776  Cd Length: 137  Bit Score: 142.30  E-value: 2.70e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483   5 LILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTSSLQALSESvqfavrcdelilddrrvsvtglrd 84
Cdd:cd09645   1 LLLRLAGPLQSWGEVSRFGRRDTGDFPTKSALLGLLAAALGIRRDEPERLLALLRF------------------------ 56

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483  85 yhtvlgaredyrglksheTIQTWREYLCDASFTVALwlTPHATMVISELEKAVLKPRYTPYLGRRSCPLTHPLFLGTCQA 164
Cdd:cd09645  57 ------------------TILSYRDYLADAVFTVAL--TEGAEPLLEELAAALRSPVFPLYLGRKSCPPARPLFLGLFEA 116

                       170       180
                ....*....|....*....|.
gi 90111483 165 SDPQKALLNYEPVGGDIYSEE 185
Cdd:cd09645 117 DAPEAALALLPAPALRVRQRR 137
Cas_Cas5d pfam09704
CRISPR-associated protein (Cas_Cas5); CRISPR is a term for Clustered, Regularly Interspaced ...
 4-181 4.18e-25

CRISPR-associated protein (Cas_Cas5); CRISPR is a term for Clustered, Regularly Interspaced Short Palindromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This small Cas family is represented by CT1134 of Chlorobium tepidum.


Pssm-ID: 430764  Cd Length: 215  Bit Score: 97.91  E-value: 4.18e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483     4 YLILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTssLQALSESVQFAVRcdelilDDRRVSVTGLR 83
Cdd:pfam09704   1 TLLLRLEGPLASFGRPERKVGRETYPVPTPSAVLGILAAALGIRRDED--LDELKPALRWGVR------SDRRGELLRYG 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483    84 DYHTVLGAREDYR-------GLKSHETIQTWREYLCDASFTVALWLTPHATmVISELEKAVLKPRYTPYLGRRSC--PLT 154
Cdd:pfam09704  73 DYHTVQTRTLPYRrdersadRKQRAGTVLRDRAYLADAHFEVALSGDEDEK-HLEILARALRKPQWPLYLGRKECpvPVE 151

                         170       180
                  ....*....|....*....|....*..
gi 90111483   155 HPLFLGTCQASDPQKALLNYEPVGGDI 181
Cdd:pfam09704 152 PVEFEDVGEAEGLYDALGELPPKVEGI 178
Cas5 COG1688
CRISPR/Cas system-associated protein Cas5, RAMP superfamily [Defense mechanisms]; CRISPR/Cas ...
 96-151 1.18e-04

CRISPR/Cas system-associated protein Cas5, RAMP superfamily [Defense mechanisms]; CRISPR/Cas system-associated protein Cas5, RAMP superfamily is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 441294  Cd Length: 210  Bit Score: 41.61  E-value: 1.18e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 90111483  96 RGLKSHETIQTWREYLCDASFTValWLTPHATMVISELEKAVLKPRYTPYLGRRSC 151
Cdd:COG1688  80 RGSKEGGRTPIGREYLFNPRLRI--YIVGEDEELLEELKEALEKPVYTLSLGRSED 133
 
Name Accession Description Interval E-value
casD_Cas5e TIGR01868
CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI; CRISPR is a term for Clustered, ...
 3-216 6.60e-99

CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI; CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is part of the ECOLI subtype CRISPR/Cas locus, and now characterized as part of the CASCADE complex of that system. It shares a small N-terminal homology region with members of several other CRISPR/Cas subtypes, and we view the families that share this region as being Cas5.


Pssm-ID: 273842  Cd Length: 216  Bit Score: 286.31  E-value: 6.60e-99
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483     3 SYLILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTSSLQALSESVQFAVRCD---ELILDDRRVSv 79
Cdd:TIGR01868   1 SYLLLRLEGPLQAWGTVSRFGERDTLDFPTRSGLLGLLAAALGIRRDEPERLQELQDRLQFAVRVDregVVLRDFQTAG- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483    80 TGLRDYHTVLGAREDYRGLKSHETIQTWREYLCDASFTVALWLTPHATMVISELEKAVLKPRYTPYLGRRSCPLTHPLFL 159
Cdd:TIGR01868  80 TGKRKRRTLLWGKPEGRGASYGATIVTRREYLGDASFTVALELPAAATPALDEIAAALRRPVWPLYLGRKSCVPTRPLFL 159

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 90111483   160 GTCQASDPQKALLNYEPVGGDIYSEESVTGHHLKFTARDEPMITLPRQFASREWYVI 216
Cdd:TIGR01868 160 KEVVAATVQEALAAYPPDGNDRQREVEGPATHTILNDVDVRFDRKGRQFATRRIREI 216
Cas5_I-E cd09645
CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly ...
 5-185 2.70e-43

CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex


Pssm-ID: 187776  Cd Length: 137  Bit Score: 142.30  E-value: 2.70e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483   5 LILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTSSLQALSESvqfavrcdelilddrrvsvtglrd 84
Cdd:cd09645   1 LLLRLAGPLQSWGEVSRFGRRDTGDFPTKSALLGLLAAALGIRRDEPERLLALLRF------------------------ 56

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483  85 yhtvlgaredyrglksheTIQTWREYLCDASFTVALwlTPHATMVISELEKAVLKPRYTPYLGRRSCPLTHPLFLGTCQA 164
Cdd:cd09645  57 ------------------TILSYRDYLADAVFTVAL--TEGAEPLLEELAAALRSPVFPLYLGRKSCPPARPLFLGLFEA 116

                       170       180
                ....*....|....*....|.
gi 90111483 165 SDPQKALLNYEPVGGDIYSEE 185
Cdd:cd09645 117 DAPEAALALLPAPALRVRQRR 137
Cas5_I-E cd09756
CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly ...
 5-183 5.73e-42

CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex


Pssm-ID: 187886  Cd Length: 135  Bit Score: 138.83  E-value: 5.73e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483   5 LILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTSSLQALSESvqfavrcdelilddrrvsvtglrd 84
Cdd:cd09756   1 LLLRLEGPLQSWGEVSRFGRRDTGDFPTKSALLGLLAAALGIRRDEPEELLALLRF------------------------ 56

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483  85 yhtvlgaredyrglksheTIQTWREYLCDASFTVALwlTPHATMVISELEKAVLKPRYTPYLGRRSCPLTHPLFLGTCQA 164
Cdd:cd09756  57 ------------------TILSYRDYLADAVFTVAL--TEGAPPLLEELAAALRSPVFPLYLGRKSCPPARPLFLGLFEA 116

                       170
                ....*....|....*....
gi 90111483 165 SDPQKALLNYEPVGGDIYS 183
Cdd:cd09756 117 ADLLAALAALPWQASRAQR 135
Cas5_I cd09693
CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly ...
 5-197 3.19e-34

CRISPR/Cas system-associated RAMP superfamily protein Cas5; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex


Pssm-ID: 187824  Cd Length: 202  Bit Score: 121.05  E-value: 3.19e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483   5 LILRLAGPMQAWGQPTFEGTRPTGRFPTRSGllgllgaclgI-----------QRDDTSSLQALSeSVQFAVRCDELILD 73
Cdd:cd09693   1 LLLRLEGPLASFGRPSTKEERPTYPVPTPSA----------LlgllaaalgkeRRDDIDELAVLK-ILAFAVRRNEPGSK 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483  74 drrvsvtgLRDYHTVLG---AREDYRGLKSHETIQTWREYLCDASFTVALWlTPHATMVISELEKAVLKPRYTPYLGRRS 150
Cdd:cd09693  70 --------LRDYHTAQGgkrKLEGEDRKKRAGTILSDREYLADAVFVVALS-NEGDEYLLEELRKALGQPRFPLYLGRKE 140

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|
gi 90111483 151 CPLTHPLFLGTCQASDPQKALLNYEPVGGDIYSEESVTGH---HLKFTAR 197
Cdd:cd09693 141 CLVSVPLVEGVVGLGEALKAYEGEEDLGSMLGDEEFEDGLdplRRRFGRR 190
Cas_Cas5d pfam09704
CRISPR-associated protein (Cas_Cas5); CRISPR is a term for Clustered, Regularly Interspaced ...
 4-181 4.18e-25

CRISPR-associated protein (Cas_Cas5); CRISPR is a term for Clustered, Regularly Interspaced Short Palindromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This small Cas family is represented by CT1134 of Chlorobium tepidum.


Pssm-ID: 430764  Cd Length: 215  Bit Score: 97.91  E-value: 4.18e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483     4 YLILRLAGPMQAWGQPTFEGTRPTGRFPTRSGLLGLLGACLGIQRDDTssLQALSESVQFAVRcdelilDDRRVSVTGLR 83
Cdd:pfam09704   1 TLLLRLEGPLASFGRPERKVGRETYPVPTPSAVLGILAAALGIRRDED--LDELKPALRWGVR------SDRRGELLRYG 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 90111483    84 DYHTVLGAREDYR-------GLKSHETIQTWREYLCDASFTVALWLTPHATmVISELEKAVLKPRYTPYLGRRSC--PLT 154
Cdd:pfam09704  73 DYHTVQTRTLPYRrdersadRKQRAGTVLRDRAYLADAHFEVALSGDEDEK-HLEILARALRKPQWPLYLGRKECpvPVE 151

                         170       180
                  ....*....|....*....|....*..
gi 90111483   155 HPLFLGTCQASDPQKALLNYEPVGGDI 181
Cdd:pfam09704 152 PVEFEDVGEAEGLYDALGELPPKVEGI 178
CRISPR_cas5 TIGR02593
CRISPR-associated protein Cas5, N-terminal domain; This model represents a shared N-terminal ...
 5-35 6.01e-05

CRISPR-associated protein Cas5, N-terminal domain; This model represents a shared N-terminal domain, about 43 amino acids in length, common to a number of related protein families each of which is associated with a distinct subtype of CRISPR/cas system, where CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeat and Cas is an abbreviation for CRISPR-associated. Members of this family are widely distributed enough that we designated the family Cas5. Homology appears remote, or absent, between the more C-terminal regions different subfamilies of these proteins, which typically are 210 to 265 amino acids in total length. Cas5 proteins of six different CRISPR/cas subtypes so far defined are described by respective full-length models TIGR01868, TIGR01876, TIGR01895, TIGR01874, TIGR02586, and TIGR02592. The best characterized protein in this family is DevS or Myxococcus xanthus, a Cas protein that appears to participate in a species-specific developmental pathway.


Pssm-ID: 274218 [Multi-domain]  Cd Length: 42  Bit Score: 39.32  E-value: 6.01e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 90111483     5 LILRLAGPMQAWGQPTFEGTRPTGRFPTRSG 35
Cdd:TIGR02593   1 LLLRLRGPLASFRKPETFGERPTYPVPPPSA 31
Cas5 COG1688
CRISPR/Cas system-associated protein Cas5, RAMP superfamily [Defense mechanisms]; CRISPR/Cas ...
 96-151 1.18e-04

CRISPR/Cas system-associated protein Cas5, RAMP superfamily [Defense mechanisms]; CRISPR/Cas system-associated protein Cas5, RAMP superfamily is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 441294  Cd Length: 210  Bit Score: 41.61  E-value: 1.18e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 90111483  96 RGLKSHETIQTWREYLCDASFTValWLTPHATMVISELEKAVLKPRYTPYLGRRSC 151
Cdd:COG1688  80 RGSKEGGRTPIGREYLFNPRLRI--YIVGEDEELLEELKEALEKPVYTLSLGRSED 133
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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