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Conserved domains on  [gi|385198061|ref|NP_001245238|]
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probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform 3 [Homo sapiens]

Protein Classification

NOL1/NOP2/SUN domain family protein( domain architecture ID 1003105)

NOL1/NOP2/SUN domain (NSUN) family protein such as mammalian nucleolar protein NOP2 which is required for nucleolar maturation and ribosome biogenesis

Gene Ontology:  GO:0003723|GO:0000027|GO:0008173|GO:0001510

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
nop2p super family cl33194
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 345-619 5.04e-117

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


The actual alignment was detected with superfamily member TIGR00446:

Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 355.62  E-value: 5.04e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  345 LRTNTLKTRRRDLAQALINRGVNLDPLGKWSKtgLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDM 424
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYF--FEVKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  425 CCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGGFDRVLLDAPCSGTGVISK 504
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  505 DPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTgldFGQEG 583
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 385198061  584 FTRFRERrfhPSLRSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
 
Name Accession Description Interval E-value
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 345-619 5.04e-117

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


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 355.62  E-value: 5.04e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  345 LRTNTLKTRRRDLAQALINRGVNLDPLGKWSKtgLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDM 424
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYF--FEVKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  425 CCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGGFDRVLLDAPCSGTGVISK 504
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  505 DPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTgldFGQEG 583
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 385198061  584 FTRFRERrfhPSLRSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 270-619 3.60e-108

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: 339.29  E-value: 3.60e-108
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 270 QRVHKRIQDIV-GILRDFGAQREEGRSRSeylnRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTN 348
Cdd:COG0144  107 EAVGPGAAGLVnAVLRRVLREREALLAAA----DPVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVN 182

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 349 TLKTRRRDLAQALINRGVNLDPlGKWSKTGLVVyDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAP 428
Cdd:COG0144  183 TLKASREELLARLAEEGIEAEP-TPLSPDGLRL-EGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERVLDLCAAP 260

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 429 GGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPA 507
Cdd:COG0144  261 GGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELLEWLPGkFDRVLLDAPCSGTGTLRRHPD 340

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 508 VKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTGLDFGQEGFTR 586
Cdd:COG0144  341 IKWRRTPEDIAELAALQRELLDAAARLL----KPGGRLVYSTCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTD 416

                        330       340       350
                 ....*....|....*....|....*....|...
gi 385198061 587 frerrfhpslRSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:COG0144  417 ----------GGYLRLLPHRHGTDGFFIARLRK 439
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 410-618 2.04e-103

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: 317.83  E-value: 2.04e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  410 VMALAPQEHERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG--F 487
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGGvlF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  488 DRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKK 567
Cdd:pfam01189  81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLL----KPGGVLVYSTCSVLPEENEAVIEYFLQK 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 385198061  568 R-NVRLVPT------GLDFGQEgftrfrerrfhpslrSTRRFYPHTHNMDGFFIAKFK 618
Cdd:pfam01189 157 HpDVELVPTplfepvGLAIGEQ---------------PTLRLLPHTHNGDGFFIAKLR 199
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
271-619 6.49e-86

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 280.91  E-value: 6.49e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 271 RVHKRIQDIV-GILRDFgaQREEGRSRSEyLNRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTNT 349
Cdd:PRK14902 109 RGHKGIAKFVnGVLRNI--LREGLPDIDE-IKDPVKRLSIKYSHPVWLVKRWIDQYGEEKAEKILESLNEPPKASIRVNT 185

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 350 LKTRRRDLAQALINRGVNLDPlGKWSKTGLVVydSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPG 429
Cdd:PRK14902 186 LKISVEELIEKLEEEGYEVEE-SLLSPEALVI--EKGNIAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPG 262

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 430 GKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPAV 508
Cdd:PRK14902 263 GKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEkFDKILVDAPCSGLGVIRRKPDI 342

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 509 KTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKKrnvrlvptGLDFGQEGFTRFR 588
Cdd:PRK14902 343 KYNKTKEDIESLQEIQLEIL----ESVAQYLKKGGILVYSTCTIEKEENEEVIEAFLEE--------HPEFELVPLQHEK 410

                        330       340       350
                 ....*....|....*....|....*....|..
gi 385198061 589 -ERRFHPSLRSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:PRK14902 411 pDELVYEVKDGYLQILPNDYGTDGFFIAKLRK 442
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 420-548 1.75e-05

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: 44.34  E-value: 1.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 420 RILDMCCAPGGKTSYMAQLMKntGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKV-VGGFDRVLLDAPCsg 498
Cdd:cd02440    1 RVLDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEaDESFDVIISDPPL-- 76

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 385198061 499 tgviskdpavktnkdekdilrcaHLQKELLLSAIDSVNATSKTGGYLVYC 548
Cdd:cd02440   77 -----------------------HHLVEDLARFLEEARRLLKPGGVLVLT 103
 
Name Accession Description Interval E-value
nop2p TIGR00446
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ...
 345-619 5.04e-117

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


Pssm-ID: 188051 [Multi-domain]  Cd Length: 264  Bit Score: 355.62  E-value: 5.04e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  345 LRTNTLKTRRRDLAQALINRGVNLDPLGKWSKtgLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDM 424
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYF--FEVKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  425 CCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGGFDRVLLDAPCSGTGVISK 504
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  505 DPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTgldFGQEG 583
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 385198061  584 FTRFRERrfhPSLRSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 270-619 3.60e-108

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: 339.29  E-value: 3.60e-108
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 270 QRVHKRIQDIV-GILRDFGAQREEGRSRSeylnRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTN 348
Cdd:COG0144  107 EAVGPGAAGLVnAVLRRVLREREALLAAA----DPVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVN 182

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 349 TLKTRRRDLAQALINRGVNLDPlGKWSKTGLVVyDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAP 428
Cdd:COG0144  183 TLKASREELLARLAEEGIEAEP-TPLSPDGLRL-EGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERVLDLCAAP 260

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 429 GGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPA 507
Cdd:COG0144  261 GGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELLEWLPGkFDRVLLDAPCSGTGTLRRHPD 340

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 508 VKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTGLDFGQEGFTR 586
Cdd:COG0144  341 IKWRRTPEDIAELAALQRELLDAAARLL----KPGGRLVYSTCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTD 416

                        330       340       350
                 ....*....|....*....|....*....|...
gi 385198061 587 frerrfhpslRSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:COG0144  417 ----------GGYLRLLPHRHGTDGFFIARLRK 439
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 410-618 2.04e-103

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: 317.83  E-value: 2.04e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  410 VMALAPQEHERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG--F 487
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGGvlF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  488 DRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKK 567
Cdd:pfam01189  81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLL----KPGGVLVYSTCSVLPEENEAVIEYFLQK 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 385198061  568 R-NVRLVPT------GLDFGQEgftrfrerrfhpslrSTRRFYPHTHNMDGFFIAKFK 618
Cdd:pfam01189 157 HpDVELVPTplfepvGLAIGEQ---------------PTLRLLPHTHNGDGFFIAKLR 199
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
271-619 6.49e-86

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 280.91  E-value: 6.49e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 271 RVHKRIQDIV-GILRDFgaQREEGRSRSEyLNRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTNT 349
Cdd:PRK14902 109 RGHKGIAKFVnGVLRNI--LREGLPDIDE-IKDPVKRLSIKYSHPVWLVKRWIDQYGEEKAEKILESLNEPPKASIRVNT 185

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 350 LKTRRRDLAQALINRGVNLDPlGKWSKTGLVVydSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPG 429
Cdd:PRK14902 186 LKISVEELIEKLEEEGYEVEE-SLLSPEALVI--EKGNIAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPG 262

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 430 GKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPAV 508
Cdd:PRK14902 263 GKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEkFDKILVDAPCSGLGVIRRKPDI 342

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 509 KTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKKrnvrlvptGLDFGQEGFTRFR 588
Cdd:PRK14902 343 KYNKTKEDIESLQEIQLEIL----ESVAQYLKKGGILVYSTCTIEKEENEEVIEAFLEE--------HPEFELVPLQHEK 410

                        330       340       350
                 ....*....|....*....|....*....|..
gi 385198061 589 -ERRFHPSLRSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:PRK14902 411 pDELVYEVKDGYLQILPNDYGTDGFFIAKLRK 442
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 332-625 5.06e-59

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


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 208.61  E-value: 5.06e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 332 EFLEANEVPRPVTLRTNTLKTRRRDLAQALINRGVNLDPLgKWSKTGLVV---YDSSVPIGATPEYLAGHYMLQGASSML 408
Cdd:PRK11933  24 DFIAACQRPLRRSIRVNTLKISVADFLQLMAPYGWTLTPI-PWCEEGFWIerdDEDALPLGNTAEHLSGLFYIQEASSML 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 409 PVMAL-APQEH-ERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFpkvvGG 486
Cdd:PRK11933 103 PVAALfADDNApQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANISRCGVSNVALTHFDGRVF----GA 178

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 487 -----FDRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVV 561
Cdd:PRK11933 179 alpetFDAILLDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHAL----KPGGTLVYSTCTLNREENQAVC 254

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 385198061 562 DYaLKKR---NVRLVPTGLDFGQ-------EGFtrfrerrFHpslrstrrFYPHTHNMDGFFIAKFKKfSNSIP 625
Cdd:PRK11933 255 LW-LKETypdAVEFEPLGDLFPGaekalteEGF-------LH--------VFPQIYDSEGFFVARLRK-TASVP 311
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 273-619 2.59e-53

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: 191.62  E-value: 2.59e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  273 HKRIQDIV-GILRDFgaQREEgrsrsEYLNRLKKDLAIYYSYGDFLLGKLMDLFPLSElVEFLEANEVPRPVTLRTNTLK 351
Cdd:TIGR00563 103 RKGLKGLVnGVLRRF--QREQ-----EELLAEFNALDARYLHPEWLVKRLQKAYPGQW-QSICEANNQRPPMWLRINRTK 174

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  352 TRRRDLAQALINRGVNLDPLGKWSKTglVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGK 431
Cdd:TIGR00563 175 HSRDEWLALLAEAGMKGFPHDLAPDA--VRLETPAAVHALPGFEEGWVTVQDASAQWVATWLAPQNEETILDACAAPGGK 252

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  432 TSYMAQLMKNtGVILANDANAERLKSVVGNLHRLGVTnTIISHYDGRQ----FPKVVGGFDRVLLDAPCSGTGVISKDPA 507
Cdd:TIGR00563 253 TTHILELAPQ-AQVVALDIHEHRLKRVYENLKRLGLT-IKAETKDGDGrgpsQWAENEQFDRILLDAPCSATGVIRRHPD 330

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061  508 VKTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDyalkkrnvrlvptglDFGQEGFTR- 586
Cdd:TIGR00563 331 IKWLRKPRDIAELAELQSEIL----DAIWPLLKTGGTLVYATCSVLPEENSEQIK---------------AFLQEHPDFp 391

                         330       340       350
                  ....*....|....*....|....*....|....
gi 385198061  587 FRERRFHPSLRSTR-RFYPHTHNMDGFFIAKFKK 619
Cdd:TIGR00563 392 FEKTGTPEQVRDGGlQILPHAEEGDGFFYAKLIK 425
PRK14901 PRK14901
16S rRNA methyltransferase B; Provisional
 281-619 3.27e-53

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237856 [Multi-domain]  Cd Length: 434  Bit Score: 191.30  E-value: 3.27e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 281 GILRDFGAQREEGRSRSEYLNRLKKdLAIYYSYGDFLLGKLMDLFPLSELVEFLEA-NEVPrPVTLRTNTLKTRRRDLAQ 359
Cdd:PRK14901 118 GILRQYLRAREAGDPLPLPEDPIER-LAILHSFPDWLVKLWLEWLGLEEAEQLCKWfNQPP-SLDLRINPLRTSLEEVQA 195

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 360 ALINRGVNLDPLGKwSKTGLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGKTSYMAQLM 439
Cdd:PRK14901 196 ALAEAGITATPIPG-LPQGLRLTGNPGSIRQLPGYEEGWWTVQDRSAQLVAPLLDPQPGEVILDACAAPGGKTTHIAELM 274

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 440 KNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQF----PKVVGGFDRVLLDAPCSGTGVISKDPAVKTNKDEK 515
Cdd:PRK14901 275 GDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLlelkPQWRGYFDRILLDAPCSGLGTLHRHPDARWRQTPE 354

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 516 DILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDyalkkrnvrlvptgldfgqegftRFRERrfHPS 595
Cdd:PRK14901 355 KIQELAPLQAELLESLAPLL----KPGGTLVYATCTLHPAENEAQIE-----------------------QFLAR--HPD 405

                        330       340
                 ....*....|....*....|....*..
gi 385198061 596 LRS---TRRFYPHTHNMDGFFIAKFKK 619
Cdd:PRK14901 406 WKLeppKQKIWPHRQDGDGFFMAVLRK 432
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
281-619 8.42e-52

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


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 187.32  E-value: 8.42e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 281 GILRDFgaQREegrsRSEYLNRLKKDLAIYYSYGDFLLGKLMDLFPlSELVEFLEANEVPRPVTLRTNTLKTRRRDLAQA 360
Cdd:PRK10901 117 AVLRRF--QRE----QEELLAELQADPVARYNHPSWLIKRLKKAYP-EQWQAILAANNQRPPMWLRVNRRHHSRDAYLAL 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 361 LINRGVNLDPlGKWSKTGLVVyDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGKTSYMAQLMK 440
Cdd:PRK10901 190 LAEAGIEAFP-HAVGPDAIRL-ETPVPVHQLPGFAEGWVSVQDAAAQLAATLLAPQNGERVLDACAAPGGKTAHILELAP 267

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 441 NTGVIlANDANAERLKSVVGNLHRLGVTNTII--------SHYDGRQfpkvvggFDRVLLDAPCSGTGVISKDPAVKTNK 512
Cdd:PRK10901 268 QAQVV-ALDIDAQRLERVRENLQRLGLKATVIvgdardpaQWWDGQP-------FDRILLDAPCSATGVIRRHPDIKWLR 339

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 513 DEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTGLDFGqegftrfrerr 591
Cdd:PRK10901 340 RPEDIAALAALQSEIL----DALWPLLKPGGTLLYATCSILPEENEQQIKAFLARHpDAELLDTGTPQQ----------- 404

                        330       340
                 ....*....|....*....|....*...
gi 385198061 592 fhpslrSTRRFYPHTHNMDGFFIAKFKK 619
Cdd:PRK10901 405 ------PGRQLLPGEEDGDGFFYALLIK 426
PRK14903 PRK14903
16S rRNA methyltransferase B; Provisional
 305-575 5.84e-37

16S rRNA methyltransferase B; Provisional


Pssm-ID: 184896 [Multi-domain]  Cd Length: 431  Bit Score: 144.63  E-value: 5.84e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 305 KDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTNTLKTRRRDLAQALINRGVNLDPlGKWSKTGLVVYDS 384
Cdd:PRK14903 126 KELHLKYSHPKWLVNYWRSFLPEEAVLRIMEWNQEPLPTMLRVNSLAITREEVIKILAEEGTEAVP-GKHSPFSLIVRKL 204

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 385 SVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHR 464
Cdd:PRK14903 205 GVNMNDSRVIKDGLATVQGESSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKR 284

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 465 LGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGG 543
Cdd:PRK14903 285 LKLSSIEIKIADAERLTEYVQDtFDRILVDAPCTSLGTARNHPEVLRRVNKEDFKKLSEIQLRIVSQAWKLL----EKGG 360

                        250       260       270
                 ....*....|....*....|....*....|...
gi 385198061 544 YLVYCTCSITVEENEWVV-DYALKKRNVRLVPT 575
Cdd:PRK14903 361 ILLYSTCTVTKEENTEVVkRFVYEQKDAEVIDI 393
PRK14904 PRK14904
16S rRNA methyltransferase B; Provisional
 268-567 2.31e-34

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237858 [Multi-domain]  Cd Length: 445  Bit Score: 137.11  E-value: 2.31e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 268 DLQRVHK--RIQDIV-GILRDFGAQREEGRSRSEYLNRLKKdLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVT 344
Cdd:PRK14904 104 KLARKYKgeHMAKLVnGVLRNISPETISLDEWLKGMPEAER-LSLLYSHPEWLLERWIARYGEERTEAMLSYNNQAPLFG 182

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 345 LRTNTLKTRRRDLAQALINRGVnldplgKWSKTGLVVYDSSVPIGATPEYLA-GHYMLQGASSMLPVMALAPQEHERILD 423
Cdd:PRK14904 183 FRINRLKTTPEKFLAAPADASV------TFEKSGLPNFFLSKDFSLFEPFLKlGLVSVQNPTQALACLLLNPQPGSTVLD 256

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 424 MCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVtnTIIS--HYDGRQFPKvVGGFDRVLLDAPCSGTGV 501
Cdd:PRK14904 257 LCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGI--TIIEtiEGDARSFSP-EEQPDAILLDAPCTGTGV 333

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 385198061 502 ISKDPAVKTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKK 567
Cdd:PRK14904 334 LGRRAELRWKLTPEKLAELVGLQAELL----DHAASLLKPGGVLVYATCSIEPEENELQIEAFLQR 395
Methyltr_RsmF_N pfam17125
N-terminal domain of 16S rRNA methyltransferase RsmF; This is the N-terminal domain of the ...
 328-406 6.83e-10

N-terminal domain of 16S rRNA methyltransferase RsmF; This is the N-terminal domain of the RsmF methyl transferase. RsmF is a multi-site-specific methyltransferase that is responsible for the synthesis of three modifications on cytidines in 16S ribosomal RNA. The N-terminus is critical for stabilising the catalytic core of the enzyme.


Pssm-ID: 465356 [Multi-domain]  Cd Length: 88  Bit Score: 56.33  E-value: 6.83e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 385198061  328 SELVEFLEANEVPRPVTLRTNTLKTRRRDLAQALinrGVNLDPLgKWSKTGLvVYDSSVPIGATPEYLAGHYMLQGASS 406
Cdd:pfam17125  15 DEYEAFLAAYDEPRPVGLRVNTLKISVEEFLKLS---PFELEPV-PWCEEGF-YLEERPRPGKHPYHHAGLYYIQEPSA 88
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 420-548 1.75e-05

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: 44.34  E-value: 1.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198061 420 RILDMCCAPGGKTSYMAQLMKntGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKV-VGGFDRVLLDAPCsg 498
Cdd:cd02440    1 RVLDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEaDESFDVIISDPPL-- 76

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 385198061 499 tgviskdpavktnkdekdilrcaHLQKELLLSAIDSVNATSKTGGYLVYC 548
Cdd:cd02440   77 -----------------------HHLVEDLARFLEEARRLLKPGGVLVLT 103
 
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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