NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|503767368|ref|WP_014001444|]
View 

type III-A CRISPR-associated RAMP protein Csm3 [Mycobacterium canetti]

Protein Classification

type III-B CRISPR module-associated protein Cmr3( domain architecture ID 10176663)

type III-B CRISPR module-associated protein Cmr3 is part of the Cmr ribonucleoprotein complex which has divalent cation-dependent endoribonuclease activity specific for ssRNA complementary to the crRNA (target RNA), generating 5' hydroxy- and 3' phosphate or 2'-3' cyclic phosphate termini

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Csm3_III-A cd09684
CRISPR/Cas system-associated RAMP superfamily protein Csm3; CRISPR (Clustered Regularly ...
 6-224 8.41e-102

CRISPR/Cas system-associated RAMP superfamily protein Csm3; 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; RAMP superfamily protein


:

Pssm-ID: 187815  Cd Length: 215  Bit Score: 294.26  E-value: 8.41e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   6 AKIEITGTITVVTGLHIGAGDGFSAIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGADT---ETFYRKPNDDPA 82
Cdd:cd09684    1 GKIIITGTIEVLTGLHIGGSKEELKIGGTDSPVIRDPLTDLPYIPGSSLKGKIRSLLEKVLGLDYilkDKNQYECNQGDC 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  83 QIRRLFGDT-----KEYKTGRLVFRDTKLTNKDDLEAR-GAKTLTEVKFENAINRVTAKANPRQMERVIPGSEFAFSLVY 156
Cdd:cd09684   81 EVCRLFGSApnageGIKGPTRLIVRDAFLTEDTKKEAEsTDLPYTEIKFENAIDRITSKANPRQIERVPAGAKFKFELIY 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 503767368 157 EVSFGTPDEeqkaslpssdeiiEDFNAIARGLKLLELDYLGGSGTRGYGQVKFSDLKARAAVGTLDRS 224
Cdd:cd09684  161 SVYEGDDEE-------------EDFKNILEGLKLLEDDYLGGSGSRGYGKVKFRDIKLITKPGEYYEG 215
 
Name Accession Description Interval E-value
Csm3_III-A cd09684
CRISPR/Cas system-associated RAMP superfamily protein Csm3; CRISPR (Clustered Regularly ...
 6-224 8.41e-102

CRISPR/Cas system-associated RAMP superfamily protein Csm3; 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; RAMP superfamily protein


Pssm-ID: 187815  Cd Length: 215  Bit Score: 294.26  E-value: 8.41e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   6 AKIEITGTITVVTGLHIGAGDGFSAIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGADT---ETFYRKPNDDPA 82
Cdd:cd09684    1 GKIIITGTIEVLTGLHIGGSKEELKIGGTDSPVIRDPLTDLPYIPGSSLKGKIRSLLEKVLGLDYilkDKNQYECNQGDC 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  83 QIRRLFGDT-----KEYKTGRLVFRDTKLTNKDDLEAR-GAKTLTEVKFENAINRVTAKANPRQMERVIPGSEFAFSLVY 156
Cdd:cd09684   81 EVCRLFGSApnageGIKGPTRLIVRDAFLTEDTKKEAEsTDLPYTEIKFENAIDRITSKANPRQIERVPAGAKFKFELIY 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 503767368 157 EVSFGTPDEeqkaslpssdeiiEDFNAIARGLKLLELDYLGGSGTRGYGQVKFSDLKARAAVGTLDRS 224
Cdd:cd09684  161 SVYEGDDEE-------------EDFKNILEGLKLLEDDYLGGSGSRGYGKVKFRDIKLITKPGEYYEG 215
cas7_TM1809 TIGR02582
CRISPR type III-A/MTUBE-associated RAMP protein Csm3; Members of this CRISPR-associated (cas) ...
 5-209 7.20e-95

CRISPR type III-A/MTUBE-associated RAMP protein Csm3; Members of this CRISPR-associated (cas) gene family are found in the mtube subtype of CRISPR/cas locus and designated Csm3, for CRISPR/cas Subtype Mtube, protein 3.


Pssm-ID: 274212  Cd Length: 204  Bit Score: 276.18  E-value: 7.20e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368    5 YAKIEITGTITVVTGLHIGAGDGFSAIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGA-DTETFYRKPNDDPA- 82
Cdd:TIGR02582   1 KGKIIITGTIEVLTGLHIGGSKEELKIGGTDSPVIRDPLTDLPYIPGSSLKGKIRSLLERSLGAvSNKGKYRYHNCDPGe 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   83 -QIRRLFGDTKE------YKTGRLVFRDTKLTNK-DDLEARGAKTL--TEVKFENAINRVTAKANPRQMERVIPGSEFAF 152
Cdd:TIGR02582  81 cEVCRLFGSAPEndeesiKGPTRLIVRDAFLTEDtKEELARNDTDLpyTEIKFENAIDRITSKANPRQIERVPAGAKFKF 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 503767368  153 SLVYEVSFGtpdeeqkaslpssDEIIEDFNAIARGLKLLELDYLGGSGTRGYGQVKF 209
Cdd:TIGR02582 161 EIIYSVYEG-------------DEEEEDFKNILEGLKLLEDDYLGGSGSRGYGKVKF 204
Csm3 COG1337
CRISPR-Cas system type III CSM-effector complex subunit Csm3, RAMP superfamily Cas7 group ...
 5-215 6.35e-58

CRISPR-Cas system type III CSM-effector complex subunit Csm3, RAMP superfamily Cas7 group [Defense mechanisms]; CRISPR-Cas system type III CSM-effector complex subunit Csm3, RAMP superfamily Cas7 group is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 440948 [Multi-domain]  Cd Length: 212  Bit Score: 182.54  E-value: 6.35e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   5 YAKIEITGTITVVTGLHIGAGDGfSAIGAVDKPVVRDPLTKwPMIPGTSLKGKVRTLLSRQYGADTETFYRKpNDDPAQI 84
Cdd:COG1337    2 RNRIKITGTIELLTPLHIGSGKG-GGIGGVDNPVIRDPDGR-PYIPGSSLKGVLRSLLERLLRSLGGDVCEK-GEKSCPV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  85 RRLFGDTKEYKTGRLVFRDTKLTNKDdleargaktLTEVKFENAINRVTAKA---NPRQMERVIPGSEFAFSLVYEvsfg 161
Cdd:COG1337   79 CRLFGSPGEGLASRLIFSDAYLDEEA---------LTEIRTGVAIDRVTGTAadgALRDYEVVPAGTKFEGEIELE---- 145

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 503767368 162 tpdeeqkaslpssDEIIEDFNAIARGLKLLE--LDYLGGSGTRGYGQVKFSDLKAR 215
Cdd:COG1337  146 -------------NLDEEELGLLLLALKLLEegDDRLGGGKSRGLGRVKLELLEVT 188
RAMPs pfam03787
RAMP superfamily; The molecular function of these proteins is not yet known. However, they ...
 13-208 7.10e-19

RAMP superfamily; The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.


Pssm-ID: 397727 [Multi-domain]  Cd Length: 188  Bit Score: 81.22  E-value: 7.10e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   13 TITVVTGLHIGAGDgfsAIGAVDKPVVRDPLTKwPMIPGTSLKGKVRTLLSRQYGADTETFYRKPNDDPAQIRRLFGDTK 92
Cdd:pfam03787   1 KLETLTPLHIGGGE---ALGLLDPLVRRDVDGL-PYIPGSSIKGALRSWLRALLGGEEGEKLDELLKKECLEEELFGSTG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   93 EYKTGRLVFRDTKLTNKDDLEARGAKTL----------TEVKFENAINRVTAKANPrqmerviPGSEFAFSLVYEvsfGT 162
Cdd:pfam03787  77 EDRAGRVRFSDAYPVKIPLLEKKLALSEselkyllfpgTEIRTRVKIDRKTGTAKE-------KGGLFTLEVIPP---GT 146

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 503767368  163 PDEEQKASLPSsdeiiEDFNAIARGLKLLELD-YLGGSGTRGYGQVK 208
Cdd:pfam03787 147 VFFLTLDNLPD-----EDLELLLALLKLLLNFgGLGGKTRRGFGRLE 188
 
Name Accession Description Interval E-value
Csm3_III-A cd09684
CRISPR/Cas system-associated RAMP superfamily protein Csm3; CRISPR (Clustered Regularly ...
 6-224 8.41e-102

CRISPR/Cas system-associated RAMP superfamily protein Csm3; 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; RAMP superfamily protein


Pssm-ID: 187815  Cd Length: 215  Bit Score: 294.26  E-value: 8.41e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   6 AKIEITGTITVVTGLHIGAGDGFSAIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGADT---ETFYRKPNDDPA 82
Cdd:cd09684    1 GKIIITGTIEVLTGLHIGGSKEELKIGGTDSPVIRDPLTDLPYIPGSSLKGKIRSLLEKVLGLDYilkDKNQYECNQGDC 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  83 QIRRLFGDT-----KEYKTGRLVFRDTKLTNKDDLEAR-GAKTLTEVKFENAINRVTAKANPRQMERVIPGSEFAFSLVY 156
Cdd:cd09684   81 EVCRLFGSApnageGIKGPTRLIVRDAFLTEDTKKEAEsTDLPYTEIKFENAIDRITSKANPRQIERVPAGAKFKFELIY 160

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 503767368 157 EVSFGTPDEeqkaslpssdeiiEDFNAIARGLKLLELDYLGGSGTRGYGQVKFSDLKARAAVGTLDRS 224
Cdd:cd09684  161 SVYEGDDEE-------------EDFKNILEGLKLLEDDYLGGSGSRGYGKVKFRDIKLITKPGEYYEG 215
cas7_TM1809 TIGR02582
CRISPR type III-A/MTUBE-associated RAMP protein Csm3; Members of this CRISPR-associated (cas) ...
 5-209 7.20e-95

CRISPR type III-A/MTUBE-associated RAMP protein Csm3; Members of this CRISPR-associated (cas) gene family are found in the mtube subtype of CRISPR/cas locus and designated Csm3, for CRISPR/cas Subtype Mtube, protein 3.


Pssm-ID: 274212  Cd Length: 204  Bit Score: 276.18  E-value: 7.20e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368    5 YAKIEITGTITVVTGLHIGAGDGFSAIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGA-DTETFYRKPNDDPA- 82
Cdd:TIGR02582   1 KGKIIITGTIEVLTGLHIGGSKEELKIGGTDSPVIRDPLTDLPYIPGSSLKGKIRSLLERSLGAvSNKGKYRYHNCDPGe 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   83 -QIRRLFGDTKE------YKTGRLVFRDTKLTNK-DDLEARGAKTL--TEVKFENAINRVTAKANPRQMERVIPGSEFAF 152
Cdd:TIGR02582  81 cEVCRLFGSAPEndeesiKGPTRLIVRDAFLTEDtKEELARNDTDLpyTEIKFENAIDRITSKANPRQIERVPAGAKFKF 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 503767368  153 SLVYEVSFGtpdeeqkaslpssDEIIEDFNAIARGLKLLELDYLGGSGTRGYGQVKF 209
Cdd:TIGR02582 161 EIIYSVYEG-------------DEEEEDFKNILEGLKLLEDDYLGGSGSRGYGKVKF 204
Csm3 COG1337
CRISPR-Cas system type III CSM-effector complex subunit Csm3, RAMP superfamily Cas7 group ...
 5-215 6.35e-58

CRISPR-Cas system type III CSM-effector complex subunit Csm3, RAMP superfamily Cas7 group [Defense mechanisms]; CRISPR-Cas system type III CSM-effector complex subunit Csm3, RAMP superfamily Cas7 group is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 440948 [Multi-domain]  Cd Length: 212  Bit Score: 182.54  E-value: 6.35e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   5 YAKIEITGTITVVTGLHIGAGDGfSAIGAVDKPVVRDPLTKwPMIPGTSLKGKVRTLLSRQYGADTETFYRKpNDDPAQI 84
Cdd:COG1337    2 RNRIKITGTIELLTPLHIGSGKG-GGIGGVDNPVIRDPDGR-PYIPGSSLKGVLRSLLERLLRSLGGDVCEK-GEKSCPV 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  85 RRLFGDTKEYKTGRLVFRDTKLTNKDdleargaktLTEVKFENAINRVTAKA---NPRQMERVIPGSEFAFSLVYEvsfg 161
Cdd:COG1337   79 CRLFGSPGEGLASRLIFSDAYLDEEA---------LTEIRTGVAIDRVTGTAadgALRDYEVVPAGTKFEGEIELE---- 145

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 503767368 162 tpdeeqkaslpssDEIIEDFNAIARGLKLLE--LDYLGGSGTRGYGQVKFSDLKAR 215
Cdd:COG1337  146 -------------NLDEEELGLLLLALKLLEegDDRLGGGKSRGLGRVKLELLEVT 188
RAMPs pfam03787
RAMP superfamily; The molecular function of these proteins is not yet known. However, they ...
 13-208 7.10e-19

RAMP superfamily; The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.


Pssm-ID: 397727 [Multi-domain]  Cd Length: 188  Bit Score: 81.22  E-value: 7.10e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   13 TITVVTGLHIGAGDgfsAIGAVDKPVVRDPLTKwPMIPGTSLKGKVRTLLSRQYGADTETFYRKPNDDPAQIRRLFGDTK 92
Cdd:pfam03787   1 KLETLTPLHIGGGE---ALGLLDPLVRRDVDGL-PYIPGSSIKGALRSWLRALLGGEEGEKLDELLKKECLEEELFGSTG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   93 EYKTGRLVFRDTKLTNKDDLEARGAKTL----------TEVKFENAINRVTAKANPrqmerviPGSEFAFSLVYEvsfGT 162
Cdd:pfam03787  77 EDRAGRVRFSDAYPVKIPLLEKKLALSEselkyllfpgTEIRTRVKIDRKTGTAKE-------KGGLFTLEVIPP---GT 146

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 503767368  163 PDEEQKASLPSsdeiiEDFNAIARGLKLLELD-YLGGSGTRGYGQVK 208
Cdd:pfam03787 147 VFFLTLDNLPD-----EDLELLLALLKLLLNFgGLGGKTRRGFGRLE 188
RAMP_I_III cd09726
CRISPR/Cas system-associated RAMP superfamily protein; CRISPR (Clustered Regularly Interspaced ...
 16-205 3.57e-16

CRISPR/Cas system-associated RAMP superfamily protein; 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; RAMP superfamily proteins


Pssm-ID: 187857 [Multi-domain]  Cd Length: 177  Bit Score: 73.59  E-value: 3.57e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  16 VVTGLHIGAGDGFSAIgavDKPVVRDPLTKwPMIPGTSLKGKVRTLLsRQYGADTETFYRKPN--DDPAQIRRLFGDTKE 93
Cdd:cd09726    1 TLTPLHIGGGRSSGSL---DDIVRRDSTGL-PYIPGSSLKGALRSAL-EALGKILEALSEKEKkdDDKCLVEKLFGSEPD 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  94 ---YKTGRLVFRDTKLTNKDDLEARgaktlTEVKFENAINRVTAKANPRQM---ERVIPGSEFAFSLVYEVSFGTPDEEQ 167
Cdd:cd09726   76 egdDLAGRLRISDAYLVNIPVRKLR-----ILKRTGVAIDRITGEAADGSPfflEYVAKGGLFTFELTLDNGAGKAEDEE 150

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 503767368 168 kaslpSSDEIIEDFnaiargLKLLELDYLGGSGTRGYG 205
Cdd:cd09726  151 -----LLKELLKAL------LDLLTDLGLGAKRTRGFG 177
Csm3_III-A cd09683
CRISPR/Cas system-associated RAMP superfamily protein Csm3; CRISPR (Clustered Regularly ...
 7-213 1.11e-15

CRISPR/Cas system-associated RAMP superfamily protein Csm3; 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; RAMP superfamily protein


Pssm-ID: 187814 [Multi-domain]  Cd Length: 216  Bit Score: 72.98  E-value: 1.11e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   7 KIEITGTITVVTGLHIGAGDGFSAIGAvDKPVVRDPLTKwPMIPGTSLKGKVRTLLSR---------QYGADtETFYRKP 77
Cdd:cd09683    3 QTKISGILENQTPLRIGYGKSQEPTGP-DDPVIKDANGR-PIIPGSSFKGALRSLAERylkrrnlitCSWND-PDYWVCD 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  78 NDD----PAQIR-------------------RLFGdtKEYKTGRLVFRDTKLTNKDDLEARGAktltevkfenAINRVTA 134
Cdd:cd09683   80 PDDnkctSCNGKenyiedaletfwnktclpcILFG--SPWLASRVYILDAVAEEPSDQQRTMV----------AIDRDFG 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368 135 KANP---RQMERVIPGSEFAFSLVYEvsfGTPDEEQKASLPSSDEIIEDFNAIarglklleldylGGSGTRGYGQVKFSD 211
Cdd:cd09683  148 TALPghlYDFEYVEPGSVFNFSIFLE---NLNEWEIGALLTVLKTLITGGIFI------------GGKKSRGFGLVKLTS 212


                 ..
gi 503767368 212 LK 213
Cdd:cd09683  213 GE 214
Cmr4 COG1336
CRISPR-Cas system type III CMR-effector complex subunit Cmr4, RAMP superfamily Cas7 group ...
 17-106 1.11e-15

CRISPR-Cas system type III CMR-effector complex subunit Cmr4, RAMP superfamily Cas7 group [Defense mechanisms]; CRISPR-Cas system type III CMR-effector complex subunit Cmr4, RAMP superfamily Cas7 group is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 440947  Cd Length: 279  Bit Score: 74.15  E-value: 1.11e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  17 VTGLHIGAGdgfSAIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGadtetfyrkpNDDPAQIRRLFG---DTKE 93
Cdd:COG1336    9 LTPLHVGTG---QRLGVVDLPIQRERHTGFPIIPGSSLKGALRSYAEALYG----------KEDEELVCALFGpepDEGS 75

                         90
                 ....*....|...
gi 503767368  94 YKTGRLVFRDTKL 106
Cdd:COG1336   76 DHAGAVSFGDARL 88
cas_RAMP_Cmr4 TIGR02580
CRISPR type III-B/RAMP module RAMP protein Cmr4; This model represents a CRISPR-associated ...
 17-106 2.23e-13

CRISPR type III-B/RAMP module RAMP protein Cmr4; This model represents a CRISPR-associated protein from the family that includes TM1792 of Thermotoga maritima. This family is part of the broad RAMP superfamily (pfam03787) collection of CRISPR-associated proteins. It is the fourth of a recurring set of six proteins, four of are in the RAMP superfamily, that we designate the CRISPR RAMP module.


Pssm-ID: 274210  Cd Length: 280  Bit Score: 67.87  E-value: 2.23e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   17 VTGLHIGAGDgfSAIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGADTETfyrkpnddpAQIRRLFGDTKEYK- 95
Cdd:TIGR02580   8 LTPIHVGAGQ--SGIGVVDLPIQRERHTGYPIIYGSSLKGALRSYFIRQISRDKDE---------SKVECVFGNPKEEAe 76

                          90
                  ....*....|...
gi 503767368   96 --TGRLVFRDTKL 106
Cdd:TIGR02580  77 esAGKVVFSDARL 89
Cmr4_III-B cd09682
CRISPR/Cas system-associated RAMP superfamily protein Cmr4; CRISPR (Clustered Regularly ...
 17-106 4.57e-13

CRISPR/Cas system-associated RAMP superfamily protein Cmr4; 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; RAMP superfamily protein; This protein is a subunit of Cmr complex


Pssm-ID: 187813 [Multi-domain]  Cd Length: 242  Bit Score: 66.26  E-value: 4.57e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  17 VTGLHIGAGDGfsaIGAVDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRQYGADTETfyrkpnddpAQIRRLFGDTKEYK- 95
Cdd:cd09682    8 LTPLHVGAGQG---IGVVDLPIQRERHTGYPIIYGSSLKGALRSYFSAQIVDDKDE---------SKVECVFGGPKEEAe 75

                         90
                 ....*....|...
gi 503767368  96 --TGRLVFRDTKL 106
Cdd:cd09682   76 esAGKVVFSDARL 88
Csm5 COG1332
CRISPR-Cas system type III CSM-effector complex subunit Csm5, RAMP superfamily Cas7 group ...
 36-196 1.33e-05

CRISPR-Cas system type III CSM-effector complex subunit Csm5, RAMP superfamily Cas7 group [Defense mechanisms]; CRISPR-Cas system type III CSM-effector complex subunit Csm5, RAMP superfamily Cas7 group is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 440943  Cd Length: 371  Bit Score: 45.46  E-value: 1.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  36 KPVVRDPLTKwPMIPGTSLKGKVRTLLSRQY----GADTETFYRKPND---------DPAQIRRLFGdTKEYKTGRLVFR 102
Cdd:COG1332  106 RRFIKNGNGR-PYIPGSSLKGAIRTALLYHLlkknNEELEIVLNKIREklnkrfkkaAQALEKELFG-KRSGDPNYDLFR 183

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368 103 -----DTKLTNKDDLEARGAKTLTevkfenaINRVTAKANPRQMERVIPGSEFAFSLVYEVSFGTPDEEQKASLPSSDEI 177
Cdd:COG1332  184 alkvsDSNPISPDELEIYEKKIIN-------LKKGGKKGIPIYRECIKPGVKFSFSITLDSKLLKRFKNERGSKESLEDL 256

                        170
                 ....*....|....*....
gi 503767368 178 IEDFNAIARGLKLLELDYL 196
Cdd:COG1332  257 VEACNEFYRDLIEEELAFF 275
TIGR03986 TIGR03986
CRISPR-associated protein; Members of this protein family, part of the larger RAMP family, are ...
 3-85 4.92e-04

CRISPR-associated protein; Members of this protein family, part of the larger RAMP family, are found exclusively in species with CRISPR systems, in local contexts containing other RAMP (Repeat-Associated Mystery Proteins).


Pssm-ID: 274902 [Multi-domain]  Cd Length: 562  Bit Score: 40.83  E-value: 4.92e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368    3 TGYakieITGTITVVTGLHIGaGDGFSAIGAVDKPV--VRDPLTKwPMIPGTSLKGKVRTLLS-------RQYgADTETF 73
Cdd:TIGR03986  33 SGR----IECTLTTKTPLFIG-DSKKENNENQHKSYefFSDPDGK-PAIPGSSLRGMLRNLVEiltnskfRVF-NDKRLF 105

                          90
                  ....*....|..
gi 503767368   74 YRKPNDDPAQIR 85
Cdd:TIGR03986 106 YRDPAGRGGSYK 117
Cmr6 COG1604
CRISPR/Cas system CMR subunit Cmr6, Cas7 group, RAMP superfamily [Defense mechanisms]; CRISPR ...
 41-103 1.14e-03

CRISPR/Cas system CMR subunit Cmr6, Cas7 group, RAMP superfamily [Defense mechanisms]; CRISPR/Cas system CMR subunit Cmr6, Cas7 group, RAMP superfamily is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 441212  Cd Length: 239  Bit Score: 39.20  E-value: 1.14e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 503767368  41 DPLTKWPMIPGTSLKGKVRTLLSRQYGADTEtfyrkpndDPAQIRRLFGDTKEYKT---GRLVFRD 103
Cdd:COG1604   88 HHTYGVPYIPGSSIKGVVRAAAEELLAEADE--------DDEAIDKLFGTEPGDEEasaGKVIFFD 145
Cmr6_III-B cd09661
CRISPR/Cas system-associated RAMP superfamily protein Cmr6; CRISPR (Clustered Regularly ...
 5-103 1.21e-03

CRISPR/Cas system-associated RAMP superfamily protein Cmr6; 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; RAMP superfamily protein; This protein is a subunit of Cmr complex


Pssm-ID: 187792  Cd Length: 210  Bit Score: 38.90  E-value: 1.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   5 YAKIEITGTITVVTGLHIGAGDGFSAigavDKPVVRDPLTKWPMIPGTSLKGKVRTLLsrqYGADTETFYRKPNDDPAQ- 83
Cdd:cd09661   26 NNLCVIEFKLKTSSRLLVGLGTPHVY----ETGLTLDPIYGLPYIPGSAIKGVLRSYT---FEVLAREDYEEKDTVQKEe 98

                         90       100
                 ....*....|....*....|.
gi 503767368  84 -IRRLFGDTKEYktGRLVFRD 103
Cdd:cd09661   99 lASKLFGSQEKE--GELIFLD 117
cas_TM1791_cmr6 TIGR01898
CRISPR type III-B/RAMP module RAMP protein Cmr6; CRISPR is a term for Clustered Regularly ...
 13-103 3.61e-03

CRISPR type III-B/RAMP module RAMP protein Cmr6; 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, represented by TM1791 of Thermotoga maritima, is designated Cmr6 [sic], for CRISPR/Cas Ramp Module protein 6. This family is both closely related to and frequently encoded next to the TM1792 family of Cas proteins described by TIGR01867. The two proteins are fused in an example from Methanopyrus kandleri.


Pssm-ID: 213662  Cd Length: 176  Bit Score: 37.00  E-value: 3.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   13 TITVVTGLHIGAGDGFSAigavDKPVVRDPLTKWPMIPGTSLKGKVRTLLSRqygaDTETFYRKPNDDPAQ--IRRLFGD 90
Cdd:TIGR01898   2 KLKTSSRLLVGLGNPHIY----ETGLTLDPIYGLPYIPGSAIKGVLRSATFE----VLADEDKLSKGKVREelADKLFGT 73

                          90
                  ....*....|...
gi 503767368   91 TKEYktGRLVFRD 103
Cdd:TIGR01898  74 QERE--GELIFLD 84
cas_TM1807_csm5 TIGR01899
CRISPR type III-A/MTUBE-associated RAMP protein Csm5; CRISPR is a term for Clustered Regularly ...
 47-160 3.89e-03

CRISPR type III-A/MTUBE-associated RAMP protein Csm5; 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. Members of this cas gene family are found in the mtube subtype of CRISPR/cas locus and designated Csm5, for CRISPR/cas Subtype Mtube, protein 5.


Pssm-ID: 273863  Cd Length: 365  Bit Score: 37.83  E-value: 3.89e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368   47 PMIPGTSLKGKVRTLLSRQY----GADTETFYRKPNDDPAQIRRLFGDTKEYKTGRL----------VFRDTKLTNKDDL 112
Cdd:TIGR01899 110 PYIPGSSIKGAIRTALLWNYlkknPDLLEIVDDHLQKELRQYGRAFERKELKKNGISntipkdpvndVFRALKVSDSRPL 189

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 503767368  113 EargaKTLTEVkFENAINRVTAKANPRQMERVIPGSEFAFSLVYEVSF 160
Cdd:TIGR01899 190 R----TDRLIV-HRIKLNYNGRPGIPLYAECLDPGTTFSFNVKIDREE 232
Csm5_III-A cd09662
CRISPR/Cas system-associated RAMP superfamily protein Csm5; CRISPR (Clustered Regularly ...
 47-180 6.26e-03

CRISPR/Cas system-associated RAMP superfamily protein Csm5; 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; RAMP superfamily protein


Pssm-ID: 187793  Cd Length: 365  Bit Score: 37.07  E-value: 6.26e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368  47 PMIPGTSLKGKVRTLLSRQY----GADTETFYRKPNDDPAQIRRLFGDTKEYKTGRL----------VFRDTKLTNKDDL 112
Cdd:cd09662  109 PYIPGSSIKGAIRTALLWNYlkknTDLLTRVPNHLQKDLRQYGRAFERKELKKNGISntipkkivndVFRALKVSDSRPL 188

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 503767368 113 EargaKTLTEVkFENAINRVTAKANPRQMERVIPGSEFAFSLVYEVSFGT--PDEEQKASLPSSDEIIED 180
Cdd:cd09662  189 R----TSRLIV-HRIKLNYNGRPILPFYREFLDSGTTFSFNVKIDREELKrgLDRENERYLPCLPFNKLI 253
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH