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Conserved domains on  [gi|1040695797|ref|XP_017212638|]
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putative methyltransferase NSUN6 isoform X1 [Danio rerio]

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 ...
 193-459 5.76e-62

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: 207.55  E-value: 5.76e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 193 AIRMTE--PLYQSPSF-DGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSK 269
Cdd:COG0144   211 GLRLEGpgPVTALPGFrEGLFS----VQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHR 286

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 270 MEKILRNAQMLKLDCIKAyccnsIHAVSSDPAQEYtegppfpEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQ 346
Cdd:COG0144   287 LKRLRENLARLGLSNVEV-----VVADARELLEWL-------PGKFDRVLLDAPCSGTGtlrRHPDIKWRRTPEDIAELA 354

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 347 PLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEEQVSWALKTFPCLTLQPQVPHVGSEGMLGAGlsceQRRLlqrfrpel 426
Cdd:COG0144   355 ALQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLALTDGG----YLRL-------- 422

                         250       260       270
                  ....*....|....*....|....*....|...
gi 1040695797 427 gwtgerftfslekLPQDANQDtiGFFIAKFSKR 459
Cdd:COG0144   423 -------------LPHRHGTD--GFFIARLRKK 440
PUA_NSun6-like cd21150
PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The ...
 112-200 1.33e-47

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: 158.77  E-value: 1.33e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 112 VIVGSQCGSAVLRGAHVFTPGIISTHKFMKAGDVVSVFSDVEGKCTRGAT-EFNGKKVFVGNGVSEVNRSELFSSDKPGR 190
Cdd:cd21150     3 VIVDRKCGEAVLRGAHVFAPGVLGAPPGLKKGDKVSVYADLEGKCKRGLTkPFEGRKVFVGNGIALMSRKDLFRGNNKPS 82

                          90
                  ....*....|
gi 1040695797 191 GLAIRMTEPL 200
Cdd:cd21150    83 GIAVEMTEPV 92
 
Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 193-459 5.76e-62

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: 207.55  E-value: 5.76e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 193 AIRMTE--PLYQSPSF-DGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSK 269
Cdd:COG0144   211 GLRLEGpgPVTALPGFrEGLFS----VQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHR 286

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 270 MEKILRNAQMLKLDCIKAyccnsIHAVSSDPAQEYtegppfpEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQ 346
Cdd:COG0144   287 LKRLRENLARLGLSNVEV-----VVADARELLEWL-------PGKFDRVLLDAPCSGTGtlrRHPDIKWRRTPEDIAELA 354

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 347 PLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEEQVSWALKTFPCLTLQPQVPHVGSEGMLGAGlsceQRRLlqrfrpel 426
Cdd:COG0144   355 ALQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLALTDGG----YLRL-------- 422

                         250       260       270
                  ....*....|....*....|....*....|...
gi 1040695797 427 gwtgerftfslekLPQDANQDtiGFFIAKFSKR 459
Cdd:COG0144   423 -------------LPHRHGTD--GFFIARLRKK 440
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
202-459 2.55e-53

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 185.00  E-value: 2.55e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 202 QSPSF-DGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQML 280
Cdd:PRK14902  223 GTDLFkDGLIT----IQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRL 298

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 281 KLDCIKAYCCNsihavSSDPAQEYtegppfpEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAV 357
Cdd:PRK14902  299 GLTNIETKALD-----ARKVHEKF-------AEKFDKILVDAPCSGLGvirRKPDIKYNKTKEDIESLQEIQLEILESVA 366

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 358 RLLKSGGVLVYSTCTVTLAENEEQVSWALKTFPCLTLQPqvphvgsegmlgaglsceqrrlLQRFRPElGWTGERFTFSL 437
Cdd:PRK14902  367 QYLKKGGILVYSTCTIEKEENEEVIEAFLEEHPEFELVP----------------------LQHEKPD-ELVYEVKDGYL 423

                         250       260
                  ....*....|....*....|..
gi 1040695797 438 EKLPQDANQDtiGFFIAKFSKR 459
Cdd:PRK14902  424 QILPNDYGTD--GFFIAKLRKK 443
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 226-456 5.39e-51

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: 171.45  E-value: 5.39e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 226 YVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQmlKLDCIKAYCCNSihavssdPAQEYT 305
Cdd:pfam01189   2 ILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIH--RLGVTNTIILNG-------DGRQPD 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 306 EGPpfPEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEEQV 382
Cdd:pfam01189  73 QWL--GGVLFDRILLDAPCSGTGvirRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVI 150

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1040695797 383 SWALKTFPCLTLQPQVPHvgseGMLGAGLSceqrrllqrfrpelgwtgerFTFSLEKLPQDANQDtiGFFIAKF 456
Cdd:pfam01189 151 EYFLQKHPDVELVPTPLF----EPVGLAIG--------------------EQPTLRLLPHTHNGD--GFFIAKL 198
PUA_NSun6-like cd21150
PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The ...
 112-200 1.33e-47

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: 158.77  E-value: 1.33e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 112 VIVGSQCGSAVLRGAHVFTPGIISTHKFMKAGDVVSVFSDVEGKCTRGAT-EFNGKKVFVGNGVSEVNRSELFSSDKPGR 190
Cdd:cd21150     3 VIVDRKCGEAVLRGAHVFAPGVLGAPPGLKKGDKVSVYADLEGKCKRGLTkPFEGRKVFVGNGIALMSRKDLFRGNNKPS 82

                          90
                  ....*....|
gi 1040695797 191 GLAIRMTEPL 200
Cdd:cd21150    83 GIAVEMTEPV 92
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 215-458 9.60e-42

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


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 149.15  E-value: 9.60e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 215 FLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQmlKLDCIKAYCCNSih 294
Cdd:TIGR00446  54 YPQEASSMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNIN--RMGVLNTIVINA-- 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 295 avssdpaqeytEGPPFPE--ESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAVRLLKSGGVLVYS 369
Cdd:TIGR00446 130 -----------DGRKFGAylLKFDAILLDAPCSGEGvirKDPSRKRNWSEEDIKYCSLLQKELIDAAIDALKPGGVLVYS 198

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 370 TCTVTLAENEEQVSWALKTFPCLTLqpqVPHVGSEgMLGAGLSCEQRRLLQRFRPElgwtgerftfsleklpqdaNQDTI 449
Cdd:TIGR00446 199 TCSLEVEENEEVIDYILRKRPDVVE---EIIKGDE-FFGINIGKGEVKGALRVFPQ-------------------NYDCE 255


                  ....*....
gi 1040695797 450 GFFIAKFSK 458
Cdd:TIGR00446 256 GFFVAKLRK 264
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 235-369 2.40e-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: 54.74  E-value: 2.40e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 235 RVLDMCAAPGGKTTHIASLMGnqGVVVALEKVRSKMEKILRNAQMLKLDCIKAYCCNSihavssdpaqeyTEGPPFPEES 314
Cdd:cd02440     1 RVLDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDA------------EELPPEADES 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1040695797 315 FDRILLDAPCsglgqrpnmsyswslkevCSYQPLQRKLFTTAVRLLKSGGVLVYS 369
Cdd:cd02440    67 FDVIISDPPL------------------HHLVEDLARFLEEARRLLKPGGVLVLT 103
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
112-200 2.80e-04

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


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 39.16  E-value: 2.80e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797  112 VIVGSQCGSAVLRGAHVFTPGIISTHKFMKAGDVVSVfsdvegkctrgateFNGKKVFVGNGVSEVNRSELFSSDkpGRG 191
Cdd:smart00359   3 VVVDDGAEKAILNGASLLAPGVVRVDGDIKEGDVVVI--------------VDEKGEPLGIGLANMSSEEIARIK--GKG 66


                   ....*....
gi 1040695797  192 LAIRMTEPL 200
Cdd:smart00359  67 LAVKVRRAV 75
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 120-195 9.48e-03

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: 36.69  E-value: 9.48e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1040695797 120 SAVLRGAHVFTPGIISTHKFMKAGDVVSVfsdVEGKctrgatefngKKVFVGNGVSEVNRSELFSSDKpgrGLAIR 195
Cdd:COG2016    84 KFVSNGADVMRPGIVEADGEIKEGDIVVI---VEEK----------HGKPLAVGRALVDGEEMVEGKK---GKAVK 143
 
Name Accession Description Interval E-value
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 193-459 5.76e-62

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: 207.55  E-value: 5.76e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 193 AIRMTE--PLYQSPSF-DGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSK 269
Cdd:COG0144   211 GLRLEGpgPVTALPGFrEGLFS----VQDEASQLVALLLDPKPGERVLDLCAAPGGKTLHLAELMGNKGRVVAVDISEHR 286

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 270 MEKILRNAQMLKLDCIKAyccnsIHAVSSDPAQEYtegppfpEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQ 346
Cdd:COG0144   287 LKRLRENLARLGLSNVEV-----VVADARELLEWL-------PGKFDRVLLDAPCSGTGtlrRHPDIKWRRTPEDIAELA 354

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 347 PLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEEQVSWALKTFPCLTLQPQVPHVGSEGMLGAGlsceQRRLlqrfrpel 426
Cdd:COG0144   355 ALQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLALTDGG----YLRL-------- 422

                         250       260       270
                  ....*....|....*....|....*....|...
gi 1040695797 427 gwtgerftfslekLPQDANQDtiGFFIAKFSKR 459
Cdd:COG0144   423 -------------LPHRHGTD--GFFIARLRKK 440
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
202-459 2.55e-53

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 185.00  E-value: 2.55e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 202 QSPSF-DGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQML 280
Cdd:PRK14902  223 GTDLFkDGLIT----IQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRL 298

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 281 KLDCIKAYCCNsihavSSDPAQEYtegppfpEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAV 357
Cdd:PRK14902  299 GLTNIETKALD-----ARKVHEKF-------AEKFDKILVDAPCSGLGvirRKPDIKYNKTKEDIESLQEIQLEILESVA 366

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 358 RLLKSGGVLVYSTCTVTLAENEEQVSWALKTFPCLTLQPqvphvgsegmlgaglsceqrrlLQRFRPElGWTGERFTFSL 437
Cdd:PRK14902  367 QYLKKGGILVYSTCTIEKEENEEVIEAFLEEHPEFELVP----------------------LQHEKPD-ELVYEVKDGYL 423

                         250       260
                  ....*....|....*....|..
gi 1040695797 438 EKLPQDANQDtiGFFIAKFSKR 459
Cdd:PRK14902  424 QILPNDYGTD--GFFIAKLRKK 443
PRK14901 PRK14901
16S rRNA methyltransferase B; Provisional
 224-459 2.37e-52

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237856 [Multi-domain]  Cd Length: 434  Bit Score: 182.05  E-value: 2.37e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 224 VGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQMLKLdcikayccNSIHAVSSDpAQE 303
Cdd:PRK14901  244 VAPLLDPQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGL--------KSIKILAAD-SRN 314

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 304 YTEGPPFPEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEE 380
Cdd:PRK14901  315 LLELKPQWRGYFDRILLDAPCSGLGtlhRHPDARWRQTPEKIQELAPLQAELLESLAPLLKPGGTLVYATCTLHPAENEA 394

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1040695797 381 QVSWALKTFPCLTLQPQVPHVgsegmlgaglsceqrrllqrfrpelgwtgerftfslekLPQDANQDtiGFFIAKFSKR 459
Cdd:PRK14901  395 QIEQFLARHPDWKLEPPKQKI--------------------------------------WPHRQDGD--GFFMAVLRKK 433
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 226-456 5.39e-51

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: 171.45  E-value: 5.39e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 226 YVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQmlKLDCIKAYCCNSihavssdPAQEYT 305
Cdd:pfam01189   2 ILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIH--RLGVTNTIILNG-------DGRQPD 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 306 EGPpfPEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEEQV 382
Cdd:pfam01189  73 QWL--GGVLFDRILLDAPCSGTGvirRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVI 150

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1040695797 383 SWALKTFPCLTLQPQVPHvgseGMLGAGLSceqrrllqrfrpelgwtgerFTFSLEKLPQDANQDtiGFFIAKF 456
Cdd:pfam01189 151 EYFLQKHPDVELVPTPLF----EPVGLAIG--------------------EQPTLRLLPHTHNGD--GFFIAKL 198
PUA_NSun6-like cd21150
PUA RNA-binding domain of the SAM-dependent methyltransferase NSun6 and similar proteins; The ...
 112-200 1.33e-47

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: 158.77  E-value: 1.33e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 112 VIVGSQCGSAVLRGAHVFTPGIISTHKFMKAGDVVSVFSDVEGKCTRGAT-EFNGKKVFVGNGVSEVNRSELFSSDKPGR 190
Cdd:cd21150     3 VIVDRKCGEAVLRGAHVFAPGVLGAPPGLKKGDKVSVYADLEGKCKRGLTkPFEGRKVFVGNGIALMSRKDLFRGNNKPS 82

                          90
                  ....*....|
gi 1040695797 191 GLAIRMTEPL 200
Cdd:cd21150    83 GIAVEMTEPV 92
PRK14904 PRK14904
16S rRNA methyltransferase B; Provisional
 197-396 8.02e-42

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237858 [Multi-domain]  Cd Length: 445  Bit Score: 154.06  E-value: 8.02e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 197 TEPLYQspsfDGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRN 276
Cdd:PRK14904  223 FEPFLK----LGLVS----VQNPTQALACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSH 294

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 277 AQMLKLDCIKAYCcnsihavssDPAQEYTegppfPEESFDRILLDAPCSG---LGQRPNMSYSWSLKEVCSYQPLQRKLF 353
Cdd:PRK14904  295 ASALGITIIETIE---------GDARSFS-----PEEQPDAILLDAPCTGtgvLGRRAELRWKLTPEKLAELVGLQAELL 360

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1040695797 354 TTAVRLLKSGGVLVYSTCTVTLAENEEQVSWALKTFPCLTLQP 396
Cdd:PRK14904  361 DHAASLLKPGGVLVYATCSIEPEENELQIEAFLQRHPEFSAEP 403
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 215-458 9.60e-42

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


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 149.15  E-value: 9.60e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 215 FLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQmlKLDCIKAYCCNSih 294
Cdd:TIGR00446  54 YPQEASSMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNIN--RMGVLNTIVINA-- 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 295 avssdpaqeytEGPPFPE--ESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAVRLLKSGGVLVYS 369
Cdd:TIGR00446 130 -----------DGRKFGAylLKFDAILLDAPCSGEGvirKDPSRKRNWSEEDIKYCSLLQKELIDAAIDALKPGGVLVYS 198

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 370 TCTVTLAENEEQVSWALKTFPCLTLqpqVPHVGSEgMLGAGLSCEQRRLLQRFRPElgwtgerftfsleklpqdaNQDTI 449
Cdd:TIGR00446 199 TCSLEVEENEEVIDYILRKRPDVVE---EIIKGDE-FFGINIGKGEVKGALRVFPQ-------------------NYDCE 255


                  ....*....
gi 1040695797 450 GFFIAKFSK 458
Cdd:TIGR00446 256 GFFVAKLRK 264
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 181-459 2.49e-40

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: 149.63  E-value: 2.49e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 181 ELFSSDKPGRGLAIRMTEPLYQSPSF-DGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGnQGV 259
Cdd:TIGR00563 190 KGFPHDLAPDAVRLETPAAVHALPGFeEGWVT----VQDASAQWVATWLAPQNEETILDACAAPGGKTTHILELAP-QAQ 264

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 260 VVALEKVRSKMEKILRNAQMLKLdcikayccnSIHAVSSDPAQEYtEGPPFPEESFDRILLDAPCSGLG---QRPNMSYS 336
Cdd:TIGR00563 265 VVALDIHEHRLKRVYENLKRLGL---------TIKAETKDGDGRG-PSQWAENEQFDRILLDAPCSATGvirRHPDIKWL 334

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 337 WSLKEVCSYQPLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEEQVswalktfpcltlqpqvphvgsegmlgaglsceqR 416
Cdd:TIGR00563 335 RKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVLPEENSEQI---------------------------------K 381

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*..
gi 1040695797 417 RLLQRFRP-ELGWTGER---FTFSLEKLPQDANQDtiGFFIAKFSKR 459
Cdd:TIGR00563 382 AFLQEHPDfPFEKTGTPeqvRDGGLQILPHAEEGD--GFFYAKLIKK 426
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
225-459 6.48e-33

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


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 129.15  E-value: 6.48e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 225 GYVLGPRPGERVLDMCAAPGGKTTHIASLmGNQGVVVALEKVRSKMEKILRNAQMLKLdciKAYCcnsIHAVSSDPAQEY 304
Cdd:PRK10901  237 ATLLAPQNGERVLDACAAPGGKTAHILEL-APQAQVVALDIDAQRLERVRENLQRLGL---KATV---IVGDARDPAQWW 309

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 305 TEGPpfpeesFDRILLDAPCSGLG-----------QRPNmsyswslkEVCSYQPLQRKLFTTAVRLLKSGGVLVYSTCTV 373
Cdd:PRK10901  310 DGQP------FDRILLDAPCSATGvirrhpdikwlRRPE--------DIAALAALQSEILDALWPLLKPGGTLLYATCSI 375

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 374 TLAENEEQVSWALKTFPCLTLQPQVPHVGSEGMLgaglsceqrrllqrfrpelgwtgerftfslekLPQDANQDtiGFFI 453
Cdd:PRK10901  376 LPEENEQQIKAFLARHPDAELLDTGTPQQPGRQL--------------------------------LPGEEDGD--GFFY 421


                  ....*.
gi 1040695797 454 AKFSKR 459
Cdd:PRK10901  422 ALLIKR 427
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 234-390 6.26e-31

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


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 124.25  E-value: 6.26e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 234 ERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMeKILrnaqmlkldcikayccnsiHA-VS----SDPAQEYTEGP 308
Cdd:PRK11933  115 QRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRV-KVL-------------------HAnISrcgvSNVALTHFDGR 174

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 309 PFPE---ESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQRKLFTTAVRLLKSGGVLVYSTCTVTLAENEEQV 382
Cdd:PRK11933  175 VFGAalpETFDAILLDAPCSGEGtvrKDPDALKNWSPESNLEIAATQRELIESAFHALKPGGTLVYSTCTLNREENQAVC 254


                  ....*...
gi 1040695797 383 SWALKTFP 390
Cdd:PRK11933  255 LWLKETYP 262
PRK14903 PRK14903
16S rRNA methyltransferase B; Provisional
 195-382 1.49e-27

16S rRNA methyltransferase B; Provisional


Pssm-ID: 184896 [Multi-domain]  Cd Length: 431  Bit Score: 114.20  E-value: 1.49e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 195 RMTEPLYQSPSF-DGVLTdelfLQNLPSVVVGYVLGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKI 273
Cdd:PRK14903  203 KLGVNMNDSRVIkDGLAT----VQGESSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLV 278

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 274 LRNAQMLKLDCIKAYCCNsihavssdpAQEYTEgppFPEESFDRILLDAPCSGLG---QRPNMSYSWSLKEVCSYQPLQR 350
Cdd:PRK14903  279 EKHAKRLKLSSIEIKIAD---------AERLTE---YVQDTFDRILVDAPCTSLGtarNHPEVLRRVNKEDFKKLSEIQL 346

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1040695797 351 KLFTTAVRLLKSGGVLVYSTCTVTLAENEEQV 382
Cdd:PRK14903  347 RIVSQAWKLLEKGGILLYSTCTVTKEENTEVV 378
PUA cd07953
PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) ...
 112-199 1.35e-12

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: 62.70  E-value: 1.35e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 112 VIVGSQCGSAVLRGAHVFTPGIISTHKFMKAGDVVSVFSDvegkctrgatefngKKVFVGNGVSEVNRSELfssDKPGRG 191
Cdd:cd07953     3 VVVDKGAEKAVLNGADLMAPGVVSADGDFKRGDLVRIVSE--------------GGRPLAIGVAEMSSDEM---KEELKG 65


                  ....*...
gi 1040695797 192 LAIRMTEP 199
Cdd:cd07953    66 IAVRVLHF 73
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 235-369 2.40e-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: 54.74  E-value: 2.40e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 235 RVLDMCAAPGGKTTHIASLMGnqGVVVALEKVRSKMEKILRNAQMLKLDCIKAYCCNSihavssdpaqeyTEGPPFPEES 314
Cdd:cd02440     1 RVLDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDA------------EELPPEADES 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1040695797 315 FDRILLDAPCsglgqrpnmsyswslkevCSYQPLQRKLFTTAVRLLKSGGVLVYS 369
Cdd:cd02440    67 FDVIISDPPL------------------HHLVEDLARFLEEARRLLKPGGVLVLT 103
Trm11 COG1041
tRNA G10 N-methylase Trm11 [Translation, ribosomal structure and biogenesis]; tRNA G10 ...
 229-370 4.06e-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: 44.17  E-value: 4.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 229 GPRPGERVLD-MCaapGGKTTHI-ASLMGnqGVVVALEkVRSKMEKILR-NaqmlkldcIKAYCCNSIHAVSSDpAQEyt 305
Cdd:COG1041    23 GAKEGDTVLDpFC---GTGTILIeAGLLG--RRVIGSD-IDPKMVEGAReN--------LEHYGYEDADVIRGD-ARD-- 85

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1040695797 306 egPPFPEESFDRILLDAPcsgLGQrpnmSYSWSLKEVCSyqpLQRKLFTTAVRLLKSGGVLVYST 370
Cdd:COG1041    86 --LPLADESVDAIVTDPP---YGR----SSKISGEELLE---LYEKALEEAARVLKPGGRVVIVT 138
Gcd14 COG2519
tRNA A58 N-methylase Trm61 [Translation, ribosomal structure and biogenesis]; tRNA A58 ...
 228-383 6.42e-05

tRNA A58 N-methylase Trm61 [Translation, ribosomal structure and biogenesis]; tRNA A58 N-methylase Trm61 is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 442009 [Multi-domain]  Cd Length: 249  Bit Score: 44.38  E-value: 6.42e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 228 LGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKvRSKMEKI-LRNAQMLKLDcikayccNSIHAVSSDPAQEyte 306
Cdd:COG2519    87 LDIFPGARVLEAGTGSGALTLALARAVGPEGKVYSYER-REDFAEIaRKNLERFGLP-------DNVELKLGDIREG--- 155

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1040695797 307 gppFPEESFDRILLDapcsglgqrpnmsyswsLKEVCSYQPlqrklftTAVRLLKSGGVLV-YSTCTvtlaeneEQVS 383
Cdd:COG2519   156 ---IDEGDVDAVFLD-----------------MPDPWEALE-------AVAKALKPGGVLVaYVPTV-------NQVS 199
Methyltransf_31 pfam13847
Methyltransferase domain; This family appears to have methyltransferase activity.
 230-383 9.45e-05

Methyltransferase domain; This family appears to have methyltransferase activity.


Pssm-ID: 463998 [Multi-domain]  Cd Length: 150  Bit Score: 42.40  E-value: 9.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 230 PRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEKVRSKMEKILRNAQMLKLDCIKAYCCNsIHAVSSDpaqeytegpp 309
Cdd:pfam13847   1 IDKGMRVLDLGCGTGHLSFELAEELGPNAEVVGIDISEEAIEKARENAQKLGFDNVEFEQGD-IEELPEL---------- 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1040695797 310 FPEESFDRILLDapcsglgqrpnmsyswslkEVCSYQPLQRKLFTTAVRLLKSGGVLVYSTCtVTLAENEEQVS 383
Cdd:pfam13847  70 LEDDKFDVVISN-------------------CVLNHIPDPDKVLQEILRVLKPGGRLIISDP-DSLAELPAHVK 123
UbiE COG2226
Ubiquinone/menaquinone biosynthesis C-methylase UbiE/MenG [Coenzyme transport and metabolism]; ...
 228-367 1.69e-04

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: 41.52  E-value: 1.69e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 228 LGPRPGERVLDMCAAPGGKTTHIASLmGNQGVVV-----ALEKVRSKMEKILRNAQMLKLDCikayccnsihavssdpaq 302
Cdd:COG2226    18 LGLRPGARVLDLGCGTGRLALALAER-GARVTGVdispeMLELARERAAEAGLNVEFVVGDA------------------ 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1040695797 303 eytEGPPFPEESFDRILLdapcsglgqrpnmsySWSLKEVcsyqPLQRKLFTTAVRLLKSGGVLV 367
Cdd:COG2226    79 ---EDLPFPDGSFDLVIS---------------SFVLHHL----PDPERALAEIARVLKPGGRLV 121
PUA smart00359
Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase;
112-200 2.80e-04

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


Pssm-ID: 214635 [Multi-domain]  Cd Length: 76  Bit Score: 39.16  E-value: 2.80e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797  112 VIVGSQCGSAVLRGAHVFTPGIISTHKFMKAGDVVSVfsdvegkctrgateFNGKKVFVGNGVSEVNRSELFSSDkpGRG 191
Cdd:smart00359   3 VVVDDGAEKAILNGASLLAPGVVRVDGDIKEGDVVVI--------------VDEKGEPLGIGLANMSSEEIARIK--GKG 66


                   ....*....
gi 1040695797  192 LAIRMTEPL 200
Cdd:smart00359  67 LAVKVRRAV 75
PRK08317 PRK08317
hypothetical protein; Provisional
 228-367 6.27e-04

hypothetical protein; Provisional


Pssm-ID: 181382 [Multi-domain]  Cd Length: 241  Bit Score: 41.46  E-value: 6.27e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1040695797 228 LGPRPGERVLDMCAAPGGKTTHIASLMGNQGVVVALEkvrskmekilRNAQMLKLDCIKAYCCNSIHAVSSDPAQeyteG 307
Cdd:PRK08317   15 LAVQPGDRVLDVGCGPGNDARELARRVGPEGRVVGID----------RSEAMLALAKERAAGLGPNVEFVRGDAD----G 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1040695797 308 PPFPEESFDRilldapcsglgqrpnmsyswslkeVCSYQPLQ-----RKLFTTAVRLLKSGGVLV 367
Cdd:PRK08317   81 LPFPDGSFDA------------------------VRSDRVLQhledpARALAEIARVLRPGGRVV 121
RlmE COG0293
23S rRNA U2552 (ribose-2'-O)-methylase RlmE/FtsJ [Translation, ribosomal structure and ...
 231-263 1.71e-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: 39.67  E-value: 1.71e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1040695797 231 RPGERVLDMCAAPGGKTTHIASLMGNQGVVVAL 263
Cdd:COG0293    49 KPGMRVVDLGAAPGGWSQVAAKRVGGKGRVIAL 81
Tma20 COG2016
Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ...
 120-195 9.48e-03

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: 36.69  E-value: 9.48e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1040695797 120 SAVLRGAHVFTPGIISTHKFMKAGDVVSVfsdVEGKctrgatefngKKVFVGNGVSEVNRSELFSSDKpgrGLAIR 195
Cdd:COG2016    84 KFVSNGADVMRPGIVEADGEIKEGDIVVI---VEEK----------HGKPLAVGRALVDGEEMVEGKK---GKAVK 143
PUA_TruB_thermotogae cd21905
PUA RNA-binding domain of the thermotogae tRNA pseudouridine synthase B; The RNA-binding PUA ...
 111-155 9.60e-03

PUA RNA-binding domain of the thermotogae tRNA pseudouridine synthase B; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Members of the thermotogae subfamily of pseudouridine synthases TruB are modules that assist in the binding and positioning (guide and/or substrate) of RNA to the pseudouridine synthase complex. Pseudouridine synthases are enzymes that are responsible for post-translational modifications of RNAs by specifically isomerizing uracil residues. The pseudouridine synthase TruB (also called tRNA pseudouridylate synthase B or Psi55 synthase) is responsible for synthesis of pseudouridine from uracil-55 in the psi GC loop of elongator tRNAs.


Pssm-ID: 409300 [Multi-domain]  Cd Length: 78  Bit Score: 34.91  E-value: 9.60e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1040695797 111 AVIVGSQCGSAVLRGAHVFTPGIISTHKFMKaGDVVSVFsDVEGK 155
Cdd:cd21905     3 KVVVNEESSKRVLNGSQIHLEDVIEVEGFFK-GELVRIF-DEEGN 45
 
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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