NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|255767208|ref|NP_388774|]
View 

tRNA (cytidine(34)-2'-O)-methyltransferase [Bacillus subtilis subsp. subtilis str. 168]

Protein Classification

tRNA (cytidine(34)-2'-O)-methyltransferase( domain architecture ID 10000715)

tRNA (cytidine(34)-2'-O)-methyltransferase TrmL catalyzes the methyl transfer from S-adenosyl-L-methionine to the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA)

EC:  2.1.1.207
Gene Ontology:  GO:0003723|GO:0008173|GO:1904047|GO:0141098|GO:0001510
SCOP:  4002340

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
TrmL COG0219
tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain [Translation, ...
 6-160 7.66e-102

tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain [Translation, ribosomal structure and biogenesis]; tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain is part of the Pathway/BioSystem: tRNA modification


:

Pssm-ID: 439989  Cd Length: 153  Bit Score: 288.47  E-value: 7.66e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKF 85
Cdd:COG0219    2 LHIVLYEPEIPQNTGNIIRLCAATGARLHLIEPLGFSLDDKKLKRAGLDYWELVDLTVHDSWEAFLEALPGGRLFLFTTK 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 255767208  86 GQQPHTSFDYTDLDedyFFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNYRDLK 160
Cdd:COG0219   82 GTKPYTDVDYQPGD---VLLFGRETAGLPEEVLAAPADQRLRIPMRPGVRSLNLSNAVAIVLYEALRQLGFPGLV 153
 
Name Accession Description Interval E-value
TrmL COG0219
tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain [Translation, ...
 6-160 7.66e-102

tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain [Translation, ribosomal structure and biogenesis]; tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 439989  Cd Length: 153  Bit Score: 288.47  E-value: 7.66e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKF 85
Cdd:COG0219    2 LHIVLYEPEIPQNTGNIIRLCAATGARLHLIEPLGFSLDDKKLKRAGLDYWELVDLTVHDSWEAFLEALPGGRLFLFTTK 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 255767208  86 GQQPHTSFDYTDLDedyFFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNYRDLK 160
Cdd:COG0219   82 GTKPYTDVDYQPGD---VLLFGRETAGLPEEVLAAPADQRLRIPMRPGVRSLNLSNAVAIVLYEALRQLGFPGLV 153
tRNA_yibK_trmL TIGR00185
tRNA (cytidine(34)-2'-O)-methyltransferase; TrmL (previously YibK) is responsible for 2 ...
 5-160 3.39e-95

tRNA (cytidine(34)-2'-O)-methyltransferase; TrmL (previously YibK) is responsible for 2'-O-methylation at tRNA(Leu) position 34. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 211559  Cd Length: 153  Bit Score: 271.98  E-value: 3.39e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208    5 ALHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITK 84
Cdd:TIGR00185   1 MLNIVLYEPEIPPNTGNIARTCAATGTRLHLIEPLGFFLDDKRLKRAGLDYWEFVQVFYHKSWEEFLEAEKPQKLFALTK 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 255767208   85 FGQQPHTSFDYTDLDedyFFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNYRDLK 160
Cdd:TIGR00185  81 KGTPAHSAVTYQDGD---YLMFGPETRGLPQSILDNLMEQKIRIPMTNDVRSLNLSNAVAIVVYEAWRQLGYPGLV 153
SpoU-like_TrmL cd18094
SAM-dependent tRNA methylase related to TrmL; tRNA (Um34/Cm34) methyltransferase TrmL ...
 7-154 3.68e-93

SAM-dependent tRNA methylase related to TrmL; tRNA (Um34/Cm34) methyltransferase TrmL catalyzes the methyl transfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH at position 34 in both tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349967  Cd Length: 145  Bit Score: 266.24  E-value: 3.68e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   7 HVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKFG 86
Cdd:cd18094    1 NIVLYEPEIPQNTGNIARTCAATGARLHLIEPLGFSLDDKRLKRAGLDYWDHVDLTVHDSWEAFLEALPPGRLFLFTTKG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 255767208  87 QQPHTSFDYTDldeDYFFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQ 154
Cdd:cd18094   81 TKPYTDFDFKP---GDYLVFGRESTGLPEEILDAFPDRRLRIPMRPKVRSLNLSNSVAIVLYEALRQL 145
PRK10358 PRK10358
tRNA (uridine(34)/cytosine(34)/5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase ...
 6-156 6.29e-47

tRNA (uridine(34)/cytosine(34)/5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase TrmL;


Pssm-ID: 182406  Cd Length: 157  Bit Score: 149.76  E-value: 6.29e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKF 85
Cdd:PRK10358   2 LNIVLFEPEIPPNTGNIIRLCANTGFRLHIIEPMGFAWDDKRLRRAGLDYHEFTAVTRHHDYAAFLEAENPQRLFALTTK 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 255767208  86 GQQPHTSFDYTDLDedyFFVFGRETSGLPKDLIQN-NMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNY 156
Cdd:PRK10358  82 GTPAHSAVSYQDGD---YLMFGPETRGLPASILDAlPAEQKIRIPMMPDSRSMNLSNAVSVVVYEAWRQLGY 150
SpoU_methylase pfam00588
SpoU rRNA Methylase family; This family of proteins probably use S-AdoMet.
 5-148 3.11e-43

SpoU rRNA Methylase family; This family of proteins probably use S-AdoMet.


Pssm-ID: 425768  Cd Length: 142  Bit Score: 139.97  E-value: 3.11e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208    5 ALHVVLYQPEIPANTGNIARTCAATN-TTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFIT 83
Cdd:pfam00588   1 PLVVVLDNIQDPGNLGAIIRTAAAFGaDGLILVEPRSADPYNPKAIRASAGALFHLPLVVVDNLEEALKDLKEAGYAVVA 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 255767208   84 KFGQQphTSFDYTDLDEDYFFVFGRETSGLPKDLIQNNmDRCLRLPMTEHVRSLNLSNTAAILVY 148
Cdd:pfam00588  81 TSLGG--KSLYEIDFPKKVALVFGNEGTGLSNEVLELC-DRLVRIPMSGDVESLNVAVAAAIALY 142
 
Name Accession Description Interval E-value
TrmL COG0219
tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain [Translation, ...
 6-160 7.66e-102

tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain [Translation, ribosomal structure and biogenesis]; tRNA(Leu) C34 or U34 (ribose-2'-O)-methylase TrmL, contains SPOUT domain is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 439989  Cd Length: 153  Bit Score: 288.47  E-value: 7.66e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKF 85
Cdd:COG0219    2 LHIVLYEPEIPQNTGNIIRLCAATGARLHLIEPLGFSLDDKKLKRAGLDYWELVDLTVHDSWEAFLEALPGGRLFLFTTK 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 255767208  86 GQQPHTSFDYTDLDedyFFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNYRDLK 160
Cdd:COG0219   82 GTKPYTDVDYQPGD---VLLFGRETAGLPEEVLAAPADQRLRIPMRPGVRSLNLSNAVAIVLYEALRQLGFPGLV 153
tRNA_yibK_trmL TIGR00185
tRNA (cytidine(34)-2'-O)-methyltransferase; TrmL (previously YibK) is responsible for 2 ...
 5-160 3.39e-95

tRNA (cytidine(34)-2'-O)-methyltransferase; TrmL (previously YibK) is responsible for 2'-O-methylation at tRNA(Leu) position 34. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 211559  Cd Length: 153  Bit Score: 271.98  E-value: 3.39e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208    5 ALHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITK 84
Cdd:TIGR00185   1 MLNIVLYEPEIPPNTGNIARTCAATGTRLHLIEPLGFFLDDKRLKRAGLDYWEFVQVFYHKSWEEFLEAEKPQKLFALTK 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 255767208   85 FGQQPHTSFDYTDLDedyFFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNYRDLK 160
Cdd:TIGR00185  81 KGTPAHSAVTYQDGD---YLMFGPETRGLPQSILDNLMEQKIRIPMTNDVRSLNLSNAVAIVVYEAWRQLGYPGLV 153
SpoU-like_TrmL cd18094
SAM-dependent tRNA methylase related to TrmL; tRNA (Um34/Cm34) methyltransferase TrmL ...
 7-154 3.68e-93

SAM-dependent tRNA methylase related to TrmL; tRNA (Um34/Cm34) methyltransferase TrmL catalyzes the methyl transfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH at position 34 in both tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349967  Cd Length: 145  Bit Score: 266.24  E-value: 3.68e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   7 HVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKFG 86
Cdd:cd18094    1 NIVLYEPEIPQNTGNIARTCAATGARLHLIEPLGFSLDDKRLKRAGLDYWDHVDLTVHDSWEAFLEALPPGRLFLFTTKG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 255767208  87 QQPHTSFDYTDldeDYFFVFGRETSGLPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQ 154
Cdd:cd18094   81 TKPYTDFDFKP---GDYLVFGRESTGLPEEILDAFPDRRLRIPMRPKVRSLNLSNSVAIVLYEALRQL 145
PRK10358 PRK10358
tRNA (uridine(34)/cytosine(34)/5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase ...
 6-156 6.29e-47

tRNA (uridine(34)/cytosine(34)/5-carboxymethylaminomethyluridine(34)-2'-O)-methyltransferase TrmL;


Pssm-ID: 182406  Cd Length: 157  Bit Score: 149.76  E-value: 6.29e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKF 85
Cdd:PRK10358   2 LNIVLFEPEIPPNTGNIIRLCANTGFRLHIIEPMGFAWDDKRLRRAGLDYHEFTAVTRHHDYAAFLEAENPQRLFALTTK 81

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 255767208  86 GQQPHTSFDYTDLDedyFFVFGRETSGLPKDLIQN-NMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQNY 156
Cdd:PRK10358  82 GTPAHSAVSYQDGD---YLMFGPETRGLPASILDAlPAEQKIRIPMMPDSRSMNLSNAVSVVVYEAWRQLGY 150
SpoU_methylase pfam00588
SpoU rRNA Methylase family; This family of proteins probably use S-AdoMet.
 5-148 3.11e-43

SpoU rRNA Methylase family; This family of proteins probably use S-AdoMet.


Pssm-ID: 425768  Cd Length: 142  Bit Score: 139.97  E-value: 3.11e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208    5 ALHVVLYQPEIPANTGNIARTCAATN-TTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFIT 83
Cdd:pfam00588   1 PLVVVLDNIQDPGNLGAIIRTAAAFGaDGLILVEPRSADPYNPKAIRASAGALFHLPLVVVDNLEEALKDLKEAGYAVVA 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 255767208   84 KFGQQphTSFDYTDLDEDYFFVFGRETSGLPKDLIQNNmDRCLRLPMTEHVRSLNLSNTAAILVY 148
Cdd:pfam00588  81 TSLGG--KSLYEIDFPKKVALVFGNEGTGLSNEVLELC-DRLVRIPMSGDVESLNVAVAAAIALY 142
SpoU-like_family cd18082
SAM-dependent rRNA or tRNA methylase related to SpoU; RNA 2'-O ribose methyltransferase ...
 7-150 1.19e-34

SAM-dependent rRNA or tRNA methylase related to SpoU; RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349955  Cd Length: 145  Bit Score: 118.10  E-value: 1.19e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   7 HVVLYQPEIPANTGNIARTCAATNTT-LHLIRPLGFSTDDKMlKRAGLDYWEFVNVVYHDSLEELFEAYKKGKF----FF 81
Cdd:cd18082    1 HLVLDNIRSPGNIGSIFRTADAFGVEkIYLVGPTADIFDPKA-KRTSRGTHFSVPYERVDNFEEYLKSLKEEGYpligLE 79

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 255767208  82 ITKFGqQPHTSFDYtDLDEDYFFVFGRETSGLPKDLIqNNMDRCLRLPMTEHVRSLNLSNTAAILVYEA 150
Cdd:cd18082   80 LTDGS-IPLSEFKF-KKPKKIALIFGNERSGLSPELL-ALCDYTVHIPMSGKNSSLNVSVATGIALYEF 145
SpoU COG0566
tRNA G18 (ribose-2'-O)-methylase SpoU [Translation, ribosomal structure and biogenesis]; tRNA ...
 5-155 4.65e-16

tRNA G18 (ribose-2'-O)-methylase SpoU [Translation, ribosomal structure and biogenesis]; tRNA G18 (ribose-2'-O)-methylase SpoU is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 440332 [Multi-domain]  Cd Length: 265  Bit Score: 72.92  E-value: 4.65e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   5 ALHVVLYQPEIPANTGNIARTCAAtnttlhlirpLGFS----TDD-------KMLkRAGLDYWEFVNVVYHDSLEELFEA 73
Cdd:COG0566  115 PLLLVLDGVQDPGNLGAILRSAAA----------FGVDgvilPKRradpynpKVV-RASAGALFHVPVARVTNLADALEE 183

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208  74 YKKGKFFFITKFGQQPHTSFDYtDLDEDYFFVFGRETSGLPkDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQ 153
Cdd:COG0566  184 LKEAGFWVVGTDLDGEASLYEV-DLPGPVALVLGNEGKGLS-RLVLEACDELVRIPMAGGVESLNVAVAAAILLYEAARQ 261


                 ..
gi 255767208 154 QN 155
Cdd:COG0566  262 RR 263
SpoU-like_RNA-MTase cd18104
SAM-dependent RNA methylase related to SpoU-TrmH; RNA 2'-O ribose methyltransferase catalyzes ...
 8-154 1.61e-15

SAM-dependent RNA methylase related to SpoU-TrmH; RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349977  Cd Length: 146  Bit Score: 69.15  E-value: 1.61e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   8 VVLYQPEIPANTGNIARTCAATNTTLHLIrplgfsTDDKM------LKRAGLDYwEFVNVVYHDSLEELFEAYKKGKfff 81
Cdd:cd18104    3 LVLEGLEKPGNLGAILRSADAAGADAVIL------CDPKTdlfnpnVIRASLGA-VFTLPVAEASSEETLAWLKENK--- 72

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 255767208  82 ITKFGQQPHTSFDYTDldEDY----FFVFGRETSGLPKDLIqNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQ 154
Cdd:cd18104   73 IRILATTPKAEKLYYE--ADLrgpiAIVVGSESEGLSEFWL-KAADERVRIPMAGQADSLNVSVAAAILLYEALRQR 146
SpoU-like_rRNA-MTase cd18095
SAM-dependent rRNA methylase related to SpoU-TrmH; RNA 2'-O ribose methyltransferase catalyzes ...
 16-150 2.53e-15

SAM-dependent rRNA methylase related to SpoU-TrmH; RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349968  Cd Length: 143  Bit Score: 68.22  E-value: 2.53e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208  16 PANTGNIARTCAAtnttlhlirpLGFST-----------DDKMLkRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITK 84
Cdd:cd18095   11 PGNLGTIIRTAAA----------FGVDGvilskgtvdpyNPKVV-RASMGALFRLPIIRVDDLEELLEELKEAGYKVVAA 79

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 255767208  85 FGQQPHTSFDyTDLDEDYFFVFGRETSGLPKDlIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEA 150
Cdd:cd18095   80 DLDGGSSLYD-LDLPKPVALVLGNEGNGLSDE-LLELCDKRVTIPMSGGVESLNVAVAAAILLYEL 143
SpoU-like_TrmH cd18092
SAM-dependent tRNA methylase related to TrmH; TrmH catalyzes the transfer of the methyl group ...
 8-153 3.34e-12

SAM-dependent tRNA methylase related to TrmH; TrmH catalyzes the transfer of the methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the ribose of the universally conserved guanosine 18 (G18) position in tRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349965  Cd Length: 162  Bit Score: 60.56  E-value: 3.34e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   8 VVLyqpEIPANTGNIA---RTCAATN-TTLHLIRPlgfstDDKMLKR----AGLDYWefVNVVYHDSLEELFEAYK-KGK 78
Cdd:cd18092   19 VVL---ENVHDPHNASavlRTCDAFGvQDVHVIEP-----KNKFKKNrgvaMGADKW--LDVHRHDSTEECLAALKeQGY 88

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 255767208  79 FFFITKFGQQPhTSFDYTDLDEDYFFVFGRETSGLpKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQ 153
Cdd:cd18092   89 RIVATSLSPDA-VPLDELDYTRPTALVFGNEKDGV-SEEALAAADERVYIPMYGFVESLNVSVAAAIILYELQRQ 161
SpoU-like_TrmJ cd18093
SAM-dependent tRNA methylase related to TrmJ; tRNA methyltransferase TrmJ catalyzes the methyl ...
 6-149 1.20e-11

SAM-dependent tRNA methylase related to TrmJ; tRNA methyltransferase TrmJ catalyzes the methyl transfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH at position 32 in both tRNASer1 and tRNAGln2. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349966  Cd Length: 153  Bit Score: 59.05  E-value: 1.20e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATN-TTLHLIRPLGFSTDDKMLKRA--GLDYWEfvNVVYHDSLEElfeAYKKGKFFFI 82
Cdd:cd18093    1 IRVVLVEPQHPGNIGAVARAMKNFGlSDLRLVNPRCDDPEEAARALAsgAEDVLE--NAKVYDTLEE---ALADCDLVVA 75

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 255767208  83 T--KFGQQPHTSFDYTDLDEDYF---------FVFGRETSGLPKDLIQnNMDRCLRLPMTEHVRSLNLSNTAAILVYE 149
Cdd:cd18093   76 TtaRPRGLRRPLLTPRELAELLKehaaggkvaLVFGREDSGLTNEELA-LCDLLVTIPTNPEYPSLNLAQAVAIVLYE 152
SpoU-like cd18097
SAM-dependent rRNA or tRNA methylase related to SpoU; RNA 2'-O ribose methyltransferase ...
 6-150 1.96e-10

SAM-dependent rRNA or tRNA methylase related to SpoU; RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349970  Cd Length: 144  Bit Score: 55.65  E-value: 1.96e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATN-TTLHL----IRPlgfsTDDKMLKRA-GLDywEFVNVVYHDSLEELFEAYKkGKF 79
Cdd:cd18097    1 LVVVLDNLRSAHNVGSIFRTADAAGvEKIYLcgytPTP----PHPKVAKTAlGAE--ESVPWEHFEDTLEAVRALK-ARG 73

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 255767208  80 FFITKFgQQPHTSFDYTDLDED--YFFVFGRETSGLPKDLIqNNMDRCLRLPMTEHVRSLNLSNTAAILVYEA 150
Cdd:cd18097   74 YTIIAL-ETTENSVPLHEARLPrpLALVLGNEVRGVSPEVL-ALCDAVVEIPMFGRKNSLNVAVAAAVALYEL 144
TrmJ COG0565
tRNA C32,U32 (ribose-2'-O)-methylase TrmJ or a related methyltransferase [Translation, ...
 1-154 3.04e-09

tRNA C32,U32 (ribose-2'-O)-methylase TrmJ or a related methyltransferase [Translation, ribosomal structure and biogenesis]; tRNA C32,U32 (ribose-2'-O)-methylase TrmJ or a related methyltransferase is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 440331 [Multi-domain]  Cd Length: 237  Bit Score: 53.58  E-value: 3.04e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   1 MNIValhVVLYQPEIPANTGNIARTCAatN---TTLHLIRPLGFStDDKMLKRA--GLDYWEfvNVVYHDSLEELFEayk 75
Cdd:COG0565    2 DNIR---VVLVEPQHPGNIGAAARAMK--NfglSDLRLVNPRGWP-DEEARAMAsgADDVLE--NARVVDTLEEALA--- 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208  76 kgKFFFI--T--KFGQQPHTSFDYTDL---------DEDYFFVFGRETSGLPKDLIQnNMDRCLRLPMTEHVRSLNLSNT 142
Cdd:COG0565   71 --DCDLVvgTtaRPRELRKPVLTPREAaeellaraaGGKVALVFGRERSGLTNEELA-LCDALVTIPTNPEYPSLNLAQA 147

                        170
                 ....*....|..
gi 255767208 143 AAILVYEaLRQQ 154
Cdd:COG0565  148 VQVVAYE-LRKA 158
SpoU-like_RlmB cd18103
SAM-dependent rRNA methylase related to RlmB; 23S rRNA-M2G2251-MTase RlmB catalyzes the ...
 8-150 1.12e-08

SAM-dependent rRNA methylase related to RlmB; 23S rRNA-M2G2251-MTase RlmB catalyzes the methylation of guanosine 2251, a modification conserved in the peptidyltransferase domain of 23S rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349976  Cd Length: 143  Bit Score: 50.85  E-value: 1.12e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   8 VVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTD-DKMLKR-AGldYWEFVNVVYHDSLEELFEAYKKGKFFFI--T 83
Cdd:cd18103    3 LILDGITDPHNLGAIIRSAEAFGVDGVIIPKRRSAPLtPTVAKAsAG--ALEHLPIARVTNLARALEELKEAGFWIYgaD 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 255767208  84 KFGQQPHTSFDYTDldeDYFFVFGRETSGLPKdLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEA 150
Cdd:cd18103   81 GEAEKSLYDVDLTG---PLALVLGSEGKGLRR-LVLKNCDFLVKIPMAGKVDSLNVSVAAGIILYEI 143
SpoU-like_TRM3-like cd18091
SAM-dependent tRNA methylase related to TRM3; Yeast tRNA (guanosine(18)-2'-O) ...
 16-149 1.52e-07

SAM-dependent tRNA methylase related to TRM3; Yeast tRNA (guanosine(18)-2'-O)-methyltransferase TRM3 catalyzes the formation of 2'-O-methylguanosine at position 18 (Gm18) in various tRNAs. TRM3 is similar to C-terminal domain of TAR (HIV-1) RNA binding protein 1 (TARBP1), a protein binding to TAR, which functions as a RNA regulatory signal by forming a stable stem-loop structure to which transactivator protein Tat binds. The role of TARBP1 is believed to be to disengage RNA polymerase II from TAR during transcriptional elongation. TRM3 and the C-terminal methyltransferase domain of TARBP1 are members of the SPOUT methyltransferase superfamily.


Pssm-ID: 349964  Cd Length: 145  Bit Score: 47.91  E-value: 1.52e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208  16 PANTGNIARTCAATNTTLHLIRPLGFsTDDKMLKRAGLD--YWEFVNVVYHDSLEElFEAYKKGKFFFItkFG-QQPHTS 92
Cdd:cd18091   11 PPNLGGLCRTCEIFGVSKLVLPNLAV-VEDKQFKALSVSaeKWLPIEEVKPEDLLP-YLKEKKQEGYTI--VGlEQTANS 86

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 255767208  93 FDYTDLDedyfF------VFGRETSGLPKDLIQNnMDRCLRLPMTEHVRSLNLSNTAAILVYE 149
Cdd:cd18091   87 VSLHDFQ----FpkktvlVLGNEKEGIPAELLSL-LDVCVEIPQLGVIRSLNVHVSGAIAIYE 144
rRNA_methyl_3 TIGR00186
rRNA methylase, putative, group 3; this is part of the trmH (spoU) family of rRNA methylases ...
 8-153 3.19e-07

rRNA methylase, putative, group 3; this is part of the trmH (spoU) family of rRNA methylases [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 129290 [Multi-domain]  Cd Length: 237  Bit Score: 48.11  E-value: 3.19e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208    8 VVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFSTDDKMLKRAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKFGQ 87
Cdd:TIGR00186  93 LILDEITDPHNLGAILRTAEAFGVDGVILPKRRSAPLNSTVVKTSSGAVEYVPLARVTNLSRTITKLKESGFWTVGTDLD 172

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 255767208   88 QPHTsfDYT-DLDEDYFFVFGRETSGLPKdLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQ 153
Cdd:TIGR00186 173 AQDT--LYQvKLTKPLALVVGNEGEGVSR-LIKENCDFLIKIPMAGKVDSLNVSVAAGILLFEIKRQ 236
SpoU-like cd18096
SAM-dependent rRNA or tRNA methylase related to SpoU; RNA 2'-O ribose methyltransferase ...
 6-149 4.47e-07

SAM-dependent rRNA or tRNA methylase related to SpoU; RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349969  Cd Length: 140  Bit Score: 46.44  E-value: 4.47e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATN-TTLHLIRPLGFSTDDKMlkraGLDYWefVNVVYHDSLEELFEAYKKGKFFFIT- 83
Cdd:cd18096    1 LYLVLHNVAKRHNIGTIVRSANAFGvKEVHLVGRRKFNPFGAM----GTDRH--VKFRHFDTLAEAKEYLKERGIRLVGv 74

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208  84 --KFGQQP-HTsfdyTDLDEDYFFVFGRETSGLPKDlIQNNMDRCLRLPM-TEHVRSLNLSNTAAILVYE 149
Cdd:cd18096   75 eiVPGAEPiET----HPFPGDTAFVLGNEGTGLSDE-QLAICDGFVYIPQyGSGTASLNVSVAASIVLHH 139
SpoU-like_AviRb cd18107
SAM-dependent rRNA methylase related to AviRb; AviRb from Streptomyces viridochromogenes ...
 6-150 4.76e-06

SAM-dependent rRNA methylase related to AviRb; AviRb from Streptomyces viridochromogenes methylates the 2'-O atom of U2479 of the 23S ribosomal RNA. AviRb is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349980  Cd Length: 148  Bit Score: 43.92  E-value: 4.76e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATNTtlHLIRPLGFSTD--DKMLKRAGLDYWEFVNVVYHDSLEEL--FEAYKKGKFFF 81
Cdd:cd18107    1 LVVLFDRPTSPGNLGTIIRSADALGA--HGLVVTGHAADvyDPKTIRASTGSLFSLPIVRVPSNRELedWVEARKARGTP 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 255767208  82 ITKFGQQPHTSFDYTDLD--EDYFFVFGRETSGLPKdLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYEA 150
Cdd:cd18107   79 LQLVGTDEHGDHQIADHDftRPTLLLIGNETAGLSA-AWRELCDETVSIPMAGSASSLNAACAASIFLYEA 148
PRK10864 PRK10864
putative methyltransferase; Provisional
 16-154 1.46e-05

putative methyltransferase; Provisional


Pssm-ID: 236779 [Multi-domain]  Cd Length: 346  Bit Score: 43.61  E-value: 1.46e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208  16 PANTGNIARTCAatnttlHLIRPLGFSTDDKMLK-----RAGLDYWEFVNVVYHDSLEELFEAYKKGKFFFITKFGQQpH 90
Cdd:PRK10864 209 PHNLGGIMRSCA------HFGVKGVVVQDAALLEsgaaiRTAEGGAEHVQPITGDSFVDVLDDFRQAGYTIVTTSSHK-G 281

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 255767208  91 TSFDYTDLDEDYFFVFGRETSGLPKDLIQNNmDRCLRLPMTEHVRSLNLSNTAAILVYEALRQQ 154
Cdd:PRK10864 282 TPLFKASLPAKMVLVLGQEYDGLSDAARQQG-DLSVSIDGTGNVESLNVSVATGVLLAEWWRQN 344
PRK11081 PRK11081
tRNA guanosine-2'-O-methyltransferase; Provisional
 6-153 1.58e-05

tRNA guanosine-2'-O-methyltransferase; Provisional


Pssm-ID: 236837 [Multi-domain]  Cd Length: 229  Bit Score: 43.06  E-value: 1.58e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   6 LHVVLYQPEIPANTGNIARTCAATNT-TLHLIRPlgfstDDKMLKR----AGLDYWefVNVVYHDSLEELFEAYK-KGKF 79
Cdd:PRK11081  20 LTVCMEQVHKPHNVSAIIRTADAVGVhEVHAVWP-----GSRMRTMgstaAGSNSW--VQVKTHRTIGDAVAHLKgQGMQ 92

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 255767208  80 FFITKFGQqphTSFDYTDLDedYF----FVFGRETSGLPKDLIQNnMDRCLRLPMTEHVRSLNLSNTAAILVYEALRQ 153
Cdd:PRK11081  93 ILATHLSD---TAVDFREID--YTrptcILMGQEKTGISQEALAL-ADQDIIIPMIGMVQSLNVSVASALILYEAQRQ 164
SpoU-like_MRM1 cd18105
SAM-dependent rRNA methylase related to MRM1; MRM1 catalyzes the methylation of 2'-O-ribose ...
 105-149 7.69e-04

SAM-dependent rRNA methylase related to MRM1; MRM1 catalyzes the methylation of 2'-O-ribose residues G1145 to GmG residue of the mitochondrial 16S rRNA. MRM1 is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349978  Cd Length: 158  Bit Score: 37.88  E-value: 7.69e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 255767208 105 VFGRETSGLPKDlIQNNMDRCLRLPM-----TEHVRSLNLSNTAAILVYE 149
Cdd:cd18105  109 VLGNEGRGLRTN-IKNLCDYLVSIPGgrsaeNPGVDSLNVSVAAGILLHS 157
SpoU-like_RNA-MTase cd18109
SAM-dependent RNA methylase related to SpoU-TrmH; RNA 2'-O ribose methyltransferase catalyzes ...
 59-149 1.55e-03

SAM-dependent RNA methylase related to SpoU-TrmH; RNA 2'-O ribose methyltransferase catalyzes the methyltransfer from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of ribose in tRNA or rRNA. It is part of the SpoU family of MTases, a subfamily of the SPOUT methyltransferase superfamily. The SPOUT methyltransferase superfamily is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349982  Cd Length: 141  Bit Score: 36.75  E-value: 1.55e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208  59 VNVVYHDSLEELFEAykKGKFFFITKF--GQQPHTsfdyTDLDEDYFFVFGRETSGLPKDLIQNnMDRCLRLP-MTEHVR 135
Cdd:cd18109   54 VQIHYTDLPALLAEL--KKAFPVYGADldGENLYE----FTLPEKGILVMGNEGHGISPEVLKL-LTHRLTIPrYGKGAE 126

                         90
                 ....*....|....
gi 255767208 136 SLNLSNTAAILVYE 149
Cdd:cd18109  127 SLNVAVATAILLSE 140
SpoU-like_NHR cd18108
Nosiheptide-resistance methyltransferase (NHR); Nosiheptide-resistance methyltransferase (NHR) ...
 8-149 4.73e-03

Nosiheptide-resistance methyltransferase (NHR); Nosiheptide-resistance methyltransferase (NHR) confers resistance to the thiazole antibiotic nosiheptide via catalyzing 2'O-methylation of 23S rRNA at the nucleotide A1067. NHR is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349981  Cd Length: 144  Bit Score: 35.53  E-value: 4.73e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 255767208   8 VVLYQPEIPANTGNIARTCAATNTTLHLIRPLGFST-DDKMLKRAGLDYWEFVNVVYHDSLEelFEAYKKGKFFFITKFG 86
Cdd:cd18108    3 VVLDGVRIVGNIGAIVRTSLALGAAGIVLVDSDLATvADRRLLRASRGYVFSLPVVLADREE--AVAFLRDNDIPLMTLD 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 255767208  87 QQPHTSF-DYTDLDEDYFFVFGRETSGlPKDLIQNNMDRCLRLPMTEHVRSLNLSNTAAILVYE 149
Cdd:cd18108   81 ADGDVPVkELGDRPDRLALVFGSEKGG-PSGLFEEAAAGTVSIPMSSSTESLNVSVSAGIALHE 143
 
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