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Conserved domains on  [gi|672082432|ref|XP_008770091|]
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tRNA (cytosine(72)-C(5))-methyltransferase NSUN6 isoform X1 [Rattus norvegicus]

Protein Classification

RsmB/NOP family class I SAM-dependent RNA methyltransferase( domain architecture ID 15340246)

RsmB/NOP family class I SAM-dependent RNA methyltransferase similar to tRNA (cytosine(34)-C(5))-methyltransferase, which methylates cytosine at specific positions of intron-containing tRNA(Leu)(CAA) precursors and tRNA(Gly)(GCC) precursors

CATH:  2.20.25.110
EC:  2.1.1.-
Gene Ontology:  GO:1904047|GO:0008168|GO:0003723
PubMed:  12504684|12826405
SCOP:  3000118

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 194-411 1.54e-68

16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification


:

Pssm-ID: 439914 [Multi-domain]  Cd Length: 441  Bit Score: 225.27  E-value: 1.54e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 194 GIRMTEPIYLS--PSFDNvlsGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKV 271
Cdd:COG0144  211 GLRLEGPGPVTalPGFRE---GLFSVQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRL 287

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 272 TKLKQNASLLGLHSIRAFCFDATKALKlevmdgvdgappFLPESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQP 348
Cdd:COG0144  288 KRLRENLARLGLSNVEVVVADARELLE------------WLPGKFDRVLLDAPCSGTGtlrRHPDIKWRRTPEDIAELAA 355

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672082432 349 LQRKLLNVAVRLLKPGGVLVYSTCTVTLAENEEQVAWALRTFPCLQLQPQEPQIGGEGMLGAG 411
Cdd:COG0144  356 LQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLALTDGG 418
PUA_NSun6-like cd21150
PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The ...
 112-201 1.52e-50

PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this subfamily contain PUA domains that co-occur with SAM-dependent methyltransferase domains and may play roles as cytosine-C(5)-methyltransferases specific for tRNAs or rRNAs. Nsun6 binding to its tRNA substrates requires the presence of a 3'-CCA sequence, which is precisely recognized primarily through interactions with residues from the PUA domain, where the molecular surface of the PUA domain snugly fits onto each nucleotide residue of the CCA end. Human RNA:m5C methyltransferase NSun6 (hNSun6) plays a major role in bone metastasis and could be a valuable therapeutic target for bone metastasis and therapy-resistant tumors.


:

Pssm-ID: 409292 [Multi-domain]  Cd Length: 92  Bit Score: 166.85  E-value: 1.52e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 112 EVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDIKGKCKKGA-KEFDGTKVFLGNGISELSRKDIFNGLPDL 190
Cdd:cd21150    2 EVIVDRKCGEAVLRGAHVFAPGVLGAPPGLKKGDKVSVYADLEGKCKRGLtKPFEGRKVFVGNGIALMSRKDLFRGNNKP 81

                         90
                 ....*....|.
gi 672082432 191 KGIGIRMTEPI 201
Cdd:cd21150   82 SGIAVEMTEPV 92
 
Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 194-411 1.54e-68

16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 439914 [Multi-domain]  Cd Length: 441  Bit Score: 225.27  E-value: 1.54e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 194 GIRMTEPIYLS--PSFDNvlsGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKV 271
Cdd:COG0144  211 GLRLEGPGPVTalPGFRE---GLFSVQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRL 287

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 272 TKLKQNASLLGLHSIRAFCFDATKALKlevmdgvdgappFLPESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQP 348
Cdd:COG0144  288 KRLRENLARLGLSNVEVVVADARELLE------------WLPGKFDRVLLDAPCSGTGtlrRHPDIKWRRTPEDIAELAA 355

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672082432 349 LQRKLLNVAVRLLKPGGVLVYSTCTVTLAENEEQVAWALRTFPCLQLQPQEPQIGGEGMLGAG 411
Cdd:COG0144  356 LQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLALTDGG 418
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
204-391 2.64e-62

16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 209.26  E-value: 2.64e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 204 SPSFDNvlsGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGL 283
Cdd:PRK14902 224 TDLFKD---GLITIQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGL 300

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 284 HSIRAFCFDATKalklevmdgvdgAPPFLPESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRL 360
Cdd:PRK14902 301 TNIETKALDARK------------VHEKFAEKFDKILVDAPCSGLGvirRKPDIKYNKTKEDIESLQEIQLEILESVAQY 368

                        170       180       190
                 ....*....|....*....|....*....|.
gi 672082432 361 LKPGGVLVYSTCTVTLAENEEQVAWALRTFP 391
Cdd:PRK14902 369 LKKGGILVYSTCTIEKEENEEVIEAFLEEHP 399
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 226-463 1.29e-52

16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) position of cytosine 2870 (m5C2870) in 25S rRNA.


Pssm-ID: 426109 [Multi-domain]  Cd Length: 199  Bit Score: 176.08  E-value: 1.29e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  226 AHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKalklevmdgv 305
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQ---------- 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  306 dgaPPFLP--ESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRLLKPGGVLVYSTCTVTLAENE 380
Cdd:pfam01189  71 ---PDQWLggVLFDRILLDAPCSGTGvirRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENE 147

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  381 EQVAWALRTFPCLQLQPqepqIGGEGMLGAGLSLEQLKqlqRFDPcvvPLESMDtnslgdarredviwlankdciGFFIA 460
Cdd:pfam01189 148 AVIEYFLQKHPDVELVP----TPLFEPVGLAIGEQPTL---RLLP---HTHNGD---------------------GFFIA 196


                  ...
gi 672082432  461 KFL 463
Cdd:pfam01189 197 KLR 199
PUA_NSun6-like cd21150
PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The ...
 112-201 1.52e-50

PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this subfamily contain PUA domains that co-occur with SAM-dependent methyltransferase domains and may play roles as cytosine-C(5)-methyltransferases specific for tRNAs or rRNAs. Nsun6 binding to its tRNA substrates requires the presence of a 3'-CCA sequence, which is precisely recognized primarily through interactions with residues from the PUA domain, where the molecular surface of the PUA domain snugly fits onto each nucleotide residue of the CCA end. Human RNA:m5C methyltransferase NSun6 (hNSun6) plays a major role in bone metastasis and could be a valuable therapeutic target for bone metastasis and therapy-resistant tumors.


Pssm-ID: 409292 [Multi-domain]  Cd Length: 92  Bit Score: 166.85  E-value: 1.52e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 112 EVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDIKGKCKKGA-KEFDGTKVFLGNGISELSRKDIFNGLPDL 190
Cdd:cd21150    2 EVIVDRKCGEAVLRGAHVFAPGVLGAPPGLKKGDKVSVYADLEGKCKRGLtKPFEGRKVFVGNGIALMSRKDLFRGNNKP 81

                         90
                 ....*....|.
gi 672082432 191 KGIGIRMTEPI 201
Cdd:cd21150   82 SGIAVEMTEPV 92
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 211-464 2.58e-47

NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 164.18  E-value: 2.58e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  211 LSGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFC 290
Cdd:TIGR00446  49 LFGYYYPQEASSMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVIN 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  291 FDATKalklevmdgvdgAPPFLPEsFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRLLKPGGVL 367
Cdd:TIGR00446 129 ADGRK------------FGAYLLK-FDAILLDAPCSGEGvirKDPSRKRNWSEEDIKYCSLLQKELIDAAIDALKPGGVL 195

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  368 VYSTCTVTLAENEEQVAWALRTFPCLQLqpqEPQIGGEgMLGAGLSLEQLKQLQRFDPcvvplesmdtnslgdarredvi 447
Cdd:TIGR00446 196 VYSTCSLEVEENEEVIDYILRKRPDVVE---EIIKGDE-FFGINIGKGEVKGALRVFP---------------------- 249

                         250
                  ....*....|....*..
gi 672082432  448 wlANKDCIGFFIAKFLK 464
Cdd:TIGR00446 250 --QNYDCEGFFVAKLRK 264
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 236-370 3.72e-09

S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).


Pssm-ID: 100107 [Multi-domain]  Cd Length: 107  Bit Score: 53.97  E-value: 3.72e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 236 KILDLCAAPGGKTTHIAAlmRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKAlklevmdgvdgaPPFLPES 315
Cdd:cd02440    1 RVLDLGCGTGALALALAS--GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEEL------------PPEADES 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 672082432 316 FDRILLDAPCSGLgqrpnmactwtlkevtsyQPLQRKLLNVAVRLLKPGGVLVYS 370
Cdd:cd02440   67 FDVIISDPPLHHL------------------VEDLARFLEEARRLLKPGGVLVLT 103
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
112-201 2.04e-07

Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 48.41  E-value: 2.04e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432   112 EVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYsDIKGKckkgakefdgtkvFLGNGISELSRKDIFNglPDLK 191
Cdd:smart00359   2 KVVVDDGAEKAILNGASLLAPGVVRVDGDIKEGDVVVIV-DEKGE-------------PLGIGLANMSSEEIAR--IKGK 65

                           90
                   ....*....|
gi 672082432   192 GIGIRMTEPI 201
Cdd:smart00359  66 GLAVKVRRAV 75
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 91-183 5.41e-04

Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441619 [Multi-domain]  Cd Length: 154  Bit Score: 40.54  E-value: 5.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  91 LPDVLLIPMTGPRKNIerqqceVIV--GAQcgNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDIKGKckkgakefdgtk 168
Cdd:COG2016   60 FPTLRGLLKYPPEKPV------VTVdmGAV--KFVSNGADVMRPGIVEADGEIKEGDIVVIVEEKHGK------------ 119

                         90
                 ....*....|....*
gi 672082432 169 vFLGNGISELSRKDI 183
Cdd:COG2016  120 -PLAVGRALVDGEEM 133
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 112-183 2.81e-03

PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was detected also in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in the regulation of the expression of other genes. It is predicted that the PUA domain is an RNA binding domain.


Pssm-ID: 426278 [Multi-domain]  Cd Length: 74  Bit Score: 36.31  E-value: 2.81e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672082432  112 EVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDiKGKckkgakefdgtkvFLGNGISELSRKDI 183
Cdd:pfam01472   2 RVVVDDGAVKAILNGASLLAPGVVRVDGDFRKGDEVVVVTE-KGE-------------LVAVGLANYSSEEL 59
 
Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 194-411 1.54e-68

16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 439914 [Multi-domain]  Cd Length: 441  Bit Score: 225.27  E-value: 1.54e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 194 GIRMTEPIYLS--PSFDNvlsGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKV 271
Cdd:COG0144  211 GLRLEGPGPVTalPGFRE---GLFSVQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRL 287

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 272 TKLKQNASLLGLHSIRAFCFDATKALKlevmdgvdgappFLPESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQP 348
Cdd:COG0144  288 KRLRENLARLGLSNVEVVVADARELLE------------WLPGKFDRVLLDAPCSGTGtlrRHPDIKWRRTPEDIAELAA 355

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 672082432 349 LQRKLLNVAVRLLKPGGVLVYSTCTVTLAENEEQVAWALRTFPCLQLQPQEPQIGGEGMLGAG 411
Cdd:COG0144  356 LQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLALTDGG 418
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
204-391 2.64e-62

16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 209.26  E-value: 2.64e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 204 SPSFDNvlsGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGL 283
Cdd:PRK14902 224 TDLFKD---GLITIQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGL 300

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 284 HSIRAFCFDATKalklevmdgvdgAPPFLPESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRL 360
Cdd:PRK14902 301 TNIETKALDARK------------VHEKFAEKFDKILVDAPCSGLGvirRKPDIKYNKTKEDIESLQEIQLEILESVAQY 368

                        170       180       190
                 ....*....|....*....|....*....|.
gi 672082432 361 LKPGGVLVYSTCTVTLAENEEQVAWALRTFP 391
Cdd:PRK14902 369 LKKGGILVYSTCTIEKEENEEVIEAFLEEHP 399
PRK14901 PRK14901
16S rRNA methyltransferase B; Provisional
 225-413 6.39e-60

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237856 [Multi-domain]  Cd Length: 434  Bit Score: 202.47  E-value: 6.39e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 225 VAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKALklevmdg 304
Cdd:PRK14901 244 VAPLLDPQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLL------- 316

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 305 vDGAPPFLpESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRLLKPGGVLVYSTCTVTLAENEE 381
Cdd:PRK14901 317 -ELKPQWR-GYFDRILLDAPCSGLGtlhRHPDARWRQTPEKIQELAPLQAELLESLAPLLKPGGTLVYATCTLHPAENEA 394

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 672082432 382 QVAWALRTFPCLQLQPQEPQI-----GGEGMLGAGLS 413
Cdd:PRK14901 395 QIEQFLARHPDWKLEPPKQKIwphrqDGDGFFMAVLR 431
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 226-463 1.29e-52

16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) position of cytosine 2870 (m5C2870) in 25S rRNA.


Pssm-ID: 426109 [Multi-domain]  Cd Length: 199  Bit Score: 176.08  E-value: 1.29e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  226 AHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKalklevmdgv 305
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQ---------- 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  306 dgaPPFLP--ESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRLLKPGGVLVYSTCTVTLAENE 380
Cdd:pfam01189  71 ---PDQWLggVLFDRILLDAPCSGTGvirRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENE 147

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  381 EQVAWALRTFPCLQLQPqepqIGGEGMLGAGLSLEQLKqlqRFDPcvvPLESMDtnslgdarredviwlankdciGFFIA 460
Cdd:pfam01189 148 AVIEYFLQKHPDVELVP----TPLFEPVGLAIGEQPTL---RLLP---HTHNGD---------------------GFFIA 196


                  ...
gi 672082432  461 KFL 463
Cdd:pfam01189 197 KLR 199
PUA_NSun6-like cd21150
PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The ...
 112-201 1.52e-50

PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of this subfamily contain PUA domains that co-occur with SAM-dependent methyltransferase domains and may play roles as cytosine-C(5)-methyltransferases specific for tRNAs or rRNAs. Nsun6 binding to its tRNA substrates requires the presence of a 3'-CCA sequence, which is precisely recognized primarily through interactions with residues from the PUA domain, where the molecular surface of the PUA domain snugly fits onto each nucleotide residue of the CCA end. Human RNA:m5C methyltransferase NSun6 (hNSun6) plays a major role in bone metastasis and could be a valuable therapeutic target for bone metastasis and therapy-resistant tumors.


Pssm-ID: 409292 [Multi-domain]  Cd Length: 92  Bit Score: 166.85  E-value: 1.52e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 112 EVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDIKGKCKKGA-KEFDGTKVFLGNGISELSRKDIFNGLPDL 190
Cdd:cd21150    2 EVIVDRKCGEAVLRGAHVFAPGVLGAPPGLKKGDKVSVYADLEGKCKRGLtKPFEGRKVFVGNGIALMSRKDLFRGNNKP 81

                         90
                 ....*....|.
gi 672082432 191 KGIGIRMTEPI 201
Cdd:cd21150   82 SGIAVEMTEPV 92
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 211-464 2.58e-47

NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 164.18  E-value: 2.58e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  211 LSGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFC 290
Cdd:TIGR00446  49 LFGYYYPQEASSMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVIN 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  291 FDATKalklevmdgvdgAPPFLPEsFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRLLKPGGVL 367
Cdd:TIGR00446 129 ADGRK------------FGAYLLK-FDAILLDAPCSGEGvirKDPSRKRNWSEEDIKYCSLLQKELIDAAIDALKPGGVL 195

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  368 VYSTCTVTLAENEEQVAWALRTFPCLQLqpqEPQIGGEgMLGAGLSLEQLKQLQRFDPcvvplesmdtnslgdarredvi 447
Cdd:TIGR00446 196 VYSTCSLEVEENEEVIDYILRKRPDVVE---EIIKGDE-FFGINIGKGEVKGALRVFP---------------------- 249

                         250
                  ....*....|....*..
gi 672082432  448 wlANKDCIGFFIAKFLK 464
Cdd:TIGR00446 250 --QNYDCEGFFVAKLRK 264
PRK14904 PRK14904
16S rRNA methyltransferase B; Provisional
 201-397 3.43e-45

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237858 [Multi-domain]  Cd Length: 445  Bit Score: 163.69  E-value: 3.43e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 201 IYLSPSFDN----VLSGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQ 276
Cdd:PRK14904 214 FFLSKDFSLfepfLKLGLVSVQNPTQALACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRS 293

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 277 NASLLGLHSIRAFCFDATKalklevmdgvdgappFLPE-SFDRILLDAPCSG---LGQRPNMACTWTLKEVTSYQPLQRK 352
Cdd:PRK14904 294 HASALGITIIETIEGDARS---------------FSPEeQPDAILLDAPCTGtgvLGRRAELRWKLTPEKLAELVGLQAE 358

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 672082432 353 LLNVAVRLLKPGGVLVYSTCTVTLAENEEQVAWALRTFPCLQLQP 397
Cdd:PRK14904 359 LLDHAASLLKPGGVLVYATCSIEPEENELQIEAFLQRHPEFSAEP 403
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 200-404 1.64e-42

16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. The reading frame was originally interpreted as two reading frames, fmu and fmv. The recombinant protein from E. coli was shown to methylate only C967 of small subunit (16S) ribosomal RNA and to produce only m5C at that position. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 273141 [Multi-domain]  Cd Length: 426  Bit Score: 155.80  E-value: 1.64e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  200 PIYLSPSFDNvlsGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRdQGEVIALDKILTKVTKLKQNAS 279
Cdd:TIGR00563 208 AVHALPGFEE---GWVTVQDASAQWVATWLAPQNEETILDACAAPGGKTTHILELAP-QAQVVALDIHEHRLKRVYENLK 283

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  280 LLGLhsirafcfdatkALKLEVMDGVDGAPPFLPES--FDRILLDAPCSGLG---QRPNMacTWTLKEVTSYQ--PLQRK 352
Cdd:TIGR00563 284 RLGL------------TIKAETKDGDGRGPSQWAENeqFDRILLDAPCSATGvirRHPDI--KWLRKPRDIAElaELQSE 349

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 672082432  353 LLNVAVRLLKPGGVLVYSTCTVTLAENEEQVAWALRTFPCLQL----QPQEPQIGG 404
Cdd:TIGR00563 350 ILDAIWPLLKTGGTLVYATCSVLPEENSEQIKAFLQEHPDFPFektgTPEQVRDGG 405
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
226-398 1.08e-39

16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 148.03  E-value: 1.08e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 226 AHVLDPQPGEKILDLCAAPGGKTTHIAALmRDQGEVIALDKILTKVTKLKQNASLLGLHSiRAFCFDATKALKLevmdgV 305
Cdd:PRK10901 237 ATLLAPQNGERVLDACAAPGGKTAHILEL-APQAQVVALDIDAQRLERVRENLQRLGLKA-TVIVGDARDPAQW-----W 309

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 306 DGAPpflpesFDRILLDAPCSGLG-----------QRPNmactwtlkEVTSYQPLQRKLLNVAVRLLKPGGVLVYSTCTV 374
Cdd:PRK10901 310 DGQP------FDRILLDAPCSATGvirrhpdikwlRRPE--------DIAALAALQSEILDALWPLLKPGGTLLYATCSI 375

                        170       180
                 ....*....|....*....|....
gi 672082432 375 TLAENEEQVAWALRTFPCLQLQPQ 398
Cdd:PRK10901 376 LPEENEQQIKAFLARHPDAELLDT 399
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 211-391 4.93e-32

rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 127.72  E-value: 4.93e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 211 LSGYIFLQN----LPstVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSI 286
Cdd:PRK11933  89 LSGLFYIQEassmLP--VAALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANISRCGVSNV 166

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 287 RAFCFDATkalklevmdgVDGAppFLPESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRLLKP 363
Cdd:PRK11933 167 ALTHFDGR----------VFGA--ALPETFDAILLDAPCSGEGtvrKDPDALKNWSPESNLEIAATQRELIESAFHALKP 234

                        170       180
                 ....*....|....*....|....*...
gi 672082432 364 GGVLVYSTCTVTLAENEEQVAWALRTFP 391
Cdd:PRK11933 235 GGTLVYSTCTLNREENQAVCLWLKETYP 262
PRK14903 PRK14903
16S rRNA methyltransferase B; Provisional
 208-389 5.93e-32

16S rRNA methyltransferase B; Provisional


Pssm-ID: 184896 [Multi-domain]  Cd Length: 431  Bit Score: 126.91  E-value: 5.93e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 208 DNVLSGYIFLQNLPSTVVAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIR 287
Cdd:PRK14903 212 RVIKDGLATVQGESSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRLKLSSIE 291

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 288 AFCFDATKALKlevmdgvdgappFLPESFDRILLDAPCSGLG---QRPNMACTWTLKEVTSYQPLQRKLLNVAVRLLKPG 364
Cdd:PRK14903 292 IKIADAERLTE------------YVQDTFDRILVDAPCTSLGtarNHPEVLRRVNKEDFKKLSEIQLRIVSQAWKLLEKG 359

                        170       180
                 ....*....|....*....|....*.
gi 672082432 365 GVLVYSTCTVTLAENEEQV-AWALRT 389
Cdd:PRK14903 360 GILLYSTCTVTKEENTEVVkRFVYEQ 385
PUA cd07953
PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) ...
 111-200 1.22e-14

PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, and a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was also found in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in regulating the expression of other genes. It has been shown that the PUA domain acts as an RNA binding domain in at least some of the proteins involved in RNA metabolism.


Pssm-ID: 409289 [Multi-domain]  Cd Length: 73  Bit Score: 68.48  E-value: 1.22e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 111 CEVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDiKGKckkgakefdgtkvFLGNGISELSRKDIfngLPDL 190
Cdd:cd07953    1 PVVVVDKGAEKAVLNGADLMAPGVVSADGDFKRGDLVRIVSE-GGR-------------PLAIGVAEMSSDEM---KEEL 63

                         90
                 ....*....|
gi 672082432 191 KGIGIRMTEP 200
Cdd:cd07953   64 KGIAVRVLHF 73
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 236-370 3.72e-09

S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).


Pssm-ID: 100107 [Multi-domain]  Cd Length: 107  Bit Score: 53.97  E-value: 3.72e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 236 KILDLCAAPGGKTTHIAAlmRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKAlklevmdgvdgaPPFLPES 315
Cdd:cd02440    1 RVLDLGCGTGALALALAS--GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEEL------------PPEADES 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 672082432 316 FDRILLDAPCSGLgqrpnmactwtlkevtsyQPLQRKLLNVAVRLLKPGGVLVYS 370
Cdd:cd02440   67 FDVIISDPPLHHL------------------VEDLARFLEEARRLLKPGGVLVLT 103
UbiE COG2226
Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; ...
 207-368 4.22e-09

Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG is part of the Pathway/BioSystem: Biotin biosynthesis


Pssm-ID: 441828 [Multi-domain]  Cd Length: 143  Bit Score: 55.00  E-value: 4.22e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 207 FDNVLSGYIFLQNLpstvvAHVLDPQPGEKILDLCAAPGgktTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHsI 286
Cdd:COG2226    1 FDRVAARYDGREAL-----LAALGLRPGARVLDLGCGTG---RLALALAERGARVTGVDISPEMLELARERAAEAGLN-V 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 287 RAFCFDATkalklevmdgvdgAPPFLPESFDRILldapcsglgqrpnmaCTWTLKEVTSyqplQRKLLNVAVRLLKPGGV 366
Cdd:COG2226   72 EFVVGDAE-------------DLPFPDGSFDLVI---------------SSFVLHHLPD----PERALAEIARVLKPGGR 119


                 ..
gi 672082432 367 LV 368
Cdd:COG2226  120 LV 121
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
112-201 2.04e-07

Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 48.41  E-value: 2.04e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432   112 EVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYsDIKGKckkgakefdgtkvFLGNGISELSRKDIFNglPDLK 191
Cdd:smart00359   2 KVVVDDGAEKAILNGASLLAPGVVRVDGDIKEGDVVVIV-DEKGE-------------PLGIGLANMSSEEIAR--IKGK 65

                           90
                   ....*....|
gi 672082432   192 GIGIRMTEPI 201
Cdd:smart00359  66 GLAVKVRRAV 75
Methyltransf_31 pfam13847
Methyltransferase domain; This family appears to have methyltransferase activity.
 233-383 4.83e-06

Methyltransferase domain; This family appears to have methyltransferase activity.


Pssm-ID: 463998 [Multi-domain]  Cd Length: 150  Bit Score: 46.26  E-value: 4.83e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  233 PGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKALKLevmdgvdgappFL 312
Cdd:pfam13847   3 KGMRVLDLGCGTGHLSFELAEELGPNAEVVGIDISEEAIEKARENAQKLGFDNVEFEQGDIEELPEL-----------LE 71

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672082432  313 PESFDRILLDapcsglgqrpnmactwtlkEVTSYQPLQRKLLNVAVRLLKPGGVLVYSTCtVTLAENEEQV 383
Cdd:pfam13847  72 DDKFDVVISN-------------------CVLNHIPDPDKVLQEILRVLKPGGRLIISDP-DSLAELPAHV 122
Trm5 COG2520
tRNA G37 N-methylase Trm5 [Translation, ribosomal structure and biogenesis]; tRNA G37 ...
 233-369 2.26e-05

tRNA G37 N-methylase Trm5 [Translation, ribosomal structure and biogenesis]; tRNA G37 N-methylase Trm5 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 442010 [Multi-domain]  Cd Length: 333  Bit Score: 46.39  E-value: 2.26e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 233 PGEKILDLCAAPGGKTTHIAAlmRDQGEVIALDKILTKVTKLKQNASLLGL-HSIRAFCFDATKalklevmdgvdgAPPF 311
Cdd:COG2520  180 PGERVLDMFAGVGPFSIPIAK--RSGAKVVAIDINPDAVEYLKENIRLNKVeDRVTPILGDARE------------VAPE 245

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 672082432 312 LPESFDRILLDAPCSGLgqrpnmactwtlkevtsyqplqrKLLNVAVRLLKPGGVLVY 369
Cdd:COG2520  246 LEGKADRIIMNLPHSAD-----------------------EFLDAALRALKPGGVIHY 280
Trm11 COG1041
tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]; tRNA G10 ...
 232-371 8.75e-05

tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]; tRNA G10 N-methylase Trm11 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 440663 [Multi-domain]  Cd Length: 172  Bit Score: 43.01  E-value: 8.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 232 QPGEKILDLCAapGGKTTHIAALMRDqGEVIALDkILTK-VTKLKQNASLLGLHSIRAFCFDATKalklevmdgvdgaPP 310
Cdd:COG1041   25 KEGDTVLDPFC--GTGTILIEAGLLG-RRVIGSD-IDPKmVEGARENLEHYGYEDADVIRGDARD-------------LP 87

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 672082432 311 FLPESFDRILLDAPcsgLGQRPnmacTWTLKEVTSyqpLQRKLLNVAVRLLKPGGVLVYST 371
Cdd:COG1041   88 LADESVDAIVTDPP---YGRSS----KISGEELLE---LYEKALEEAARVLKPGGRVVIVT 138
RlmK COG1092
23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure ...
 234-388 1.08e-04

23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI [Translation, ribosomal structure and biogenesis]; 23S rRNA G2069 N7-methylase RlmK or C1962 C5-methylase RlmI is part of the Pathway/BioSystem: 23S rRNA modification


Pssm-ID: 440709 [Multi-domain]  Cd Length: 392  Bit Score: 44.40  E-value: 1.08e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 234 GEKILDLCAAPGGKTthIAALMRDQGEVIALDKILTKVTKLKQNASLLGL----HSIRAFCFDATKALKLEvmdgvdgap 309
Cdd:COG1092  217 GKRVLNLFSYTGGFS--VHAAAGGAKSVTSVDLSATALEWAKENAALNGLddrhEFVQADAFDWLRELARE--------- 285

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 310 pflPESFDRILLDAPC-----SGL--GQRpnmactwtlkevtSYqplqRKLLNVAVRLLKPGGVLVYSTCT--VTLAENE 380
Cdd:COG1092  286 ---GERFDLIILDPPAfakskKDLfdAQR-------------DY----KDLNRLALKLLAPGGILVTSSCSrhFSLDLFL 345


                 ....*...
gi 672082432 381 EQVAWALR 388
Cdd:COG1092  346 EILARAAR 353
Methyltransf_25 pfam13649
Methyltransferase domain; This family appears to be a methyltransferase domain.
 237-365 1.14e-04

Methyltransferase domain; This family appears to be a methyltransferase domain.


Pssm-ID: 463945 [Multi-domain]  Cd Length: 96  Bit Score: 41.01  E-value: 1.14e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  237 ILDLCAAPGGKTTHIAAlmRDQGEVIALDKILTKVTKLKQNASLLGLHsIRAFCFDATkalklevmdgvdgAPPFLPESF 316
Cdd:pfam13649   1 VLDLGCGTGRLTLALAR--RGGARVTGVDLSPEMLERARERAAEAGLN-VEFVQGDAE-------------DLPFPDGSF 64

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 672082432  317 DRILldapcsglgqrpnmaCTWTLKEVTsyQPLQRKLLNVAVRLLKPGG 365
Cdd:pfam13649  65 DLVV---------------SSGVLHHLP--DPDLEAALREIARVLKPGG 96
PRK14967 PRK14967
putative methyltransferase; Provisional
 233-417 1.18e-04

putative methyltransferase; Provisional


Pssm-ID: 184931 [Multi-domain]  Cd Length: 223  Bit Score: 43.50  E-value: 1.18e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 233 PGEKILDLCAAPGGKTTHIAALmrDQGEVIALDKILTKVTKLKQNASLLGLHsIRAFCFDATKALKLEVMDGVDGAPPFL 312
Cdd:PRK14967  36 PGRRVLDLCTGSGALAVAAAAA--GAGSVTAVDISRRAVRSARLNALLAGVD-VDVRRGDWARAVEFRPFDVVVSNPPYV 112

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 313 PESFDRilldAPCSGLGQrpnmacTWtlkevtSYQPLQRKLLN----VAVRLLKPGGVL--VYSTC---TVTLAENEEQ- 382
Cdd:PRK14967 113 PAPPDA----PPSRGPAR------AW------DAGPDGRAVLDrlcdAAPALLAPGGSLllVQSELsgvERTLTRLSEAg 176

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 672082432 383 -----VAWALRTF-PClqLQPQEPQIGGEGMLGAGLSLEQL 417
Cdd:PRK14967 177 ldaevVASQWIPFgPV--LRARAAWLERRGLLPPGQREEEL 215
FtsJ pfam01728
FtsJ-like methyltransferase; This family consists of FtsJ from various bacterial and archaeal ...
 233-368 1.30e-04

FtsJ-like methyltransferase; This family consists of FtsJ from various bacterial and archaeal sources FtsJ is a methyltransferase, but actually has no effect on cell division. FtsJ's substrate is the 23S rRNA. The 1.5 A crystal structure of FtsJ in complex with its cofactor S-adenosylmethionine revealed that FtsJ has a methyltransferase fold. This family also includes the N terminus of flaviviral NS5 protein. It has been hypothesized that the N-terminal domain of NS5 is a methyltransferase involved in viral RNA capping.


Pssm-ID: 426399  Cd Length: 179  Bit Score: 42.58  E-value: 1.30e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  233 PGEKILDLCAAPGGKTThiAALMRDQGEVIALDKILTKVTKLKQNAsllGLHSIRAFCFDATKALKLEvmdgvdgapPFL 312
Cdd:pfam01728  21 PGKTVLDLGAAPGGWSQ--VALQRGAGKVVGVDLGPMQLWKPRNDP---GVTFIQGDIRDPETLDLLE---------ELL 86

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 672082432  313 PESFDRILLDApcsglgqRPNMACTWTLKEVTSYQpLQRKLLNVAVRLLKPGGVLV 368
Cdd:pfam01728  87 GRKVDLVLSDG-------SPFISGNKVLDHLRSLD-LVKAALEVALELLRKGGNFV 134
UbiG COG2227
2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and ...
 233-371 2.12e-04

2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme transport and metabolism]; 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase is part of the Pathway/BioSystem: Ubiquinone biosynthesis


Pssm-ID: 441829 [Multi-domain]  Cd Length: 126  Bit Score: 41.16  E-value: 2.12e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 233 PGEKILDLCAAPGgkttHIAALMRDQG-EVIALDKILTKVTKLKQNASLLGlhsIRAFCFDATKAlklevmdgvdgapPF 311
Cdd:COG2227   24 AGGRVLDVGCGTG----RLALALARRGaDVTGVDISPEALEIARERAAELN---VDFVQGDLEDL-------------PL 83

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 312 LPESFDRILldapCSglgqrpnmactwtlkEVTSYQPLQRKLLNVAVRLLKPGGVLVYST 371
Cdd:COG2227   84 EDGSFDLVI----CS---------------EVLEHLPDPAALLRELARLLKPGGLLLLST 124
PRK08317 PRK08317
hypothetical protein; Provisional
 229-368 2.60e-04

hypothetical protein; Provisional


Pssm-ID: 181382 [Multi-domain]  Cd Length: 241  Bit Score: 42.62  E-value: 2.60e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 229 LDPQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKiltkvtklkqNASLLGLHSIRAfcfdATKALKLEVMDGVDGA 308
Cdd:PRK08317  15 LAVQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDR----------SEAMLALAKERA----AGLGPNVEFVRGDADG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 309 PPFLPESFDRILLDapcsglgqrpnmactwtlkEVTSYQPLQRKLLNVAVRLLKPGGVLV 368
Cdd:PRK08317  81 LPFPDGSFDAVRSD-------------------RVLQHLEDPARALAEIARVLRPGGRVV 121
SmtA COG0500
SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, ...
 225-370 2.61e-04

SAM-dependent methyltransferase [Secondary metabolites biosynthesis, transport and catabolism, General function prediction only];


Pssm-ID: 440266 [Multi-domain]  Cd Length: 199  Bit Score: 42.21  E-value: 2.61e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 225 VAHVLDPQPGEKILDLCAAPGGKTTHIAALMRDQgeVIALDKILTKVTKLKQNASLLGLHSIRafcfdatkalkLEVMDg 304
Cdd:COG0500   18 LALLERLPKGGRVLDLGCGTGRNLLALAARFGGR--VIGIDLSPEAIALARARAAKAGLGNVE-----------FLVAD- 83

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 672082432 305 VDGAPPFLPESFDRILLdapcsglgqrpNMACTWTLKEVtsyqplQRKLLNVAVRLLKPGGVLVYS 370
Cdd:COG0500   84 LAELDPLPAESFDLVVA-----------FGVLHHLPPEE------REALLRELARALKPGGVLLLS 132
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 91-183 5.41e-04

Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441619 [Multi-domain]  Cd Length: 154  Bit Score: 40.54  E-value: 5.41e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  91 LPDVLLIPMTGPRKNIerqqceVIV--GAQcgNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDIKGKckkgakefdgtk 168
Cdd:COG2016   60 FPTLRGLLKYPPEKPV------VTVdmGAV--KFVSNGADVMRPGIVEADGEIKEGDIVVIVEEKHGK------------ 119

                         90
                 ....*....|....*
gi 672082432 169 vFLGNGISELSRKDI 183
Cdd:COG2016  120 -PLAVGRALVDGEEM 133
rumA PRK13168
23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD;
229-327 7.01e-04

23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD;


Pssm-ID: 237291 [Multi-domain]  Cd Length: 443  Bit Score: 42.07  E-value: 7.01e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432 229 LDPQPGEKILDLCAAPGGKTTHIAalmRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKALKLEvmdgvdga 308
Cdd:PRK13168 293 LDPQPGDRVLDLFCGLGNFTLPLA---RQAAEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQ-------- 361

                         90
                 ....*....|....*....
gi 672082432 309 pPFLPESFDRILLDAPCSG 327
Cdd:PRK13168 362 -PWALGGFDKVLLDPPRAG 379
Ubie_methyltran pfam01209
ubiE/COQ5 methyltransferase family;
231-368 1.82e-03

ubiE/COQ5 methyltransferase family;


Pssm-ID: 395966 [Multi-domain]  Cd Length: 228  Bit Score: 39.73  E-value: 1.82e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 672082432  231 PQPGEKILDLCAAPGGKTTHIAALMRDQGEVIALDKILTKVTKLKQNASLLGLHSIRAFCFDATKAlklevmdgvdgapP 310
Cdd:pfam01209  40 VKRGNKFLDVAGGTGDWTFGLSDSAGSSGKVVGLDINENMLKEGEKKAKEEGKYNIEFLQGNAEEL-------------P 106

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 672082432  311 FLPESFDRILLdapcsGLGqrpnmactwtLKEVTSYQplqrKLLNVAVRLLKPGGVLV 368
Cdd:pfam01209 107 FEDDSFDIVTI-----SFG----------LRNFPDYL----KVLKEAFRVLKPGGRVV 145
RlmE COG0293
23S rRNA U2552 (ribose-2'-O)-methylase RlmE/FtsJ [Translation, ribosomal structure and ...
 233-265 2.47e-03

23S rRNA U2552 (ribose-2'-O)-methylase RlmE/FtsJ [Translation, ribosomal structure and biogenesis]; 23S rRNA U2552 (ribose-2'-O)-methylase RlmE/FtsJ is part of the Pathway/BioSystem: 23S rRNA modification


Pssm-ID: 440062 [Multi-domain]  Cd Length: 208  Bit Score: 39.28  E-value: 2.47e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 672082432 233 PGEKILDLCAAPGGKTTHIAALMRDQGEVIALD 265
Cdd:COG0293   50 PGMRVVDLGAAPGGWSQVAAKRVGGKGRVIALD 82
PUA pfam01472
PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, ...
 112-183 2.81e-03

PUA domain; The PUA domain named after Pseudouridine synthase and Archaeosine transglycosylase, was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was detected also in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in the regulation of the expression of other genes. It is predicted that the PUA domain is an RNA binding domain.


Pssm-ID: 426278 [Multi-domain]  Cd Length: 74  Bit Score: 36.31  E-value: 2.81e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 672082432  112 EVIVGAQCGNAVLRGAHVYVPGVVSASKFMKAGDVVSVYSDiKGKckkgakefdgtkvFLGNGISELSRKDI 183
Cdd:pfam01472   2 RVVVDDGAVKAILNGASLLAPGVVRVDGDFRKGDEVVVVTE-KGE-------------LVAVGLANYSSEEL 59
 
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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