NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|385198059|ref|NP_001245237|]
View 

probable 28S rRNA (cytosine(4447)-C(5))-methyltransferase isoform 2 [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

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 312-586 8.27e-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: 354.47  E-value: 8.27e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  312 LRTNTLKTRRRDLAQALINRGVNLDPLGKWSKtgLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDM 391
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYF--FEVKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  392 CCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGGFDRVLLDAPCSGTGVISK 471
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  472 DPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTgldFGQEG 550
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 385198059  551 FTRFRERrfhPSLRSTRRFYPHTHNMDGFFIAKFKK 586
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 ...
 312-586 8.27e-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: 354.47  E-value: 8.27e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  312 LRTNTLKTRRRDLAQALINRGVNLDPLGKWSKtgLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDM 391
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYF--FEVKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  392 CCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGGFDRVLLDAPCSGTGVISK 471
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  472 DPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTgldFGQEG 550
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 385198059  551 FTRFRERrfhPSLRSTRRFYPHTHNMDGFFIAKFKK 586
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 237-586 4.54e-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: 338.14  E-value: 4.54e-108
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 237 QRVHKRIQDIV-GILRDFGAQREEGRSRSeylnRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTN 315
Cdd:COG0144  107 EAVGPGAAGLVnAVLRRVLREREALLAAA----DPVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVN 182

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 316 TLKTRRRDLAQALINRGVNLDPlGKWSKTGLVVyDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAP 395
Cdd:COG0144  183 TLKASREELLARLAEEGIEAEP-TPLSPDGLRL-EGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERVLDLCAAP 260

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 396 GGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPA 474
Cdd:COG0144  261 GGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELLEWLPGkFDRVLLDAPCSGTGTLRRHPD 340

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 475 VKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTGLDFGQEGFTR 553
Cdd:COG0144  341 IKWRRTPEDIAELAALQRELLDAAARLL----KPGGRLVYSTCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTD 416

                        330       340       350
                 ....*....|....*....|....*....|...
gi 385198059 554 frerrfhpslRSTRRFYPHTHNMDGFFIAKFKK 586
Cdd:COG0144  417 ----------GGYLRLLPHRHGTDGFFIARLRK 439
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 377-585 9.93e-104

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: 9.93e-104
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  377 VMALAPQEHERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG--F 454
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGGvlF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  455 DRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKK 534
Cdd:pfam01189  81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLL----KPGGVLVYSTCSVLPEENEAVIEYFLQK 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 385198059  535 R-NVRLVPT------GLDFGQEgftrfrerrfhpslrSTRRFYPHTHNMDGFFIAKFK 585
Cdd:pfam01189 157 HpDVELVPTplfepvGLAIGEQ---------------PTLRLLPHTHNGDGFFIAKLR 199
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
238-586 3.47e-86

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 280.91  E-value: 3.47e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 238 RVHKRIQDIV-GILRDFgaQREEGRSRSEyLNRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTNT 316
Cdd:PRK14902 109 RGHKGIAKFVnGVLRNI--LREGLPDIDE-IKDPVKRLSIKYSHPVWLVKRWIDQYGEEKAEKILESLNEPPKASIRVNT 185

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 317 LKTRRRDLAQALINRGVNLDPlGKWSKTGLVVydSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPG 396
Cdd:PRK14902 186 LKISVEELIEKLEEEGYEVEE-SLLSPEALVI--EKGNIAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPG 262

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 397 GKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPAV 475
Cdd:PRK14902 263 GKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEkFDKILVDAPCSGLGVIRRKPDI 342

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 476 KTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKKrnvrlvptGLDFGQEGFTRFR 555
Cdd:PRK14902 343 KYNKTKEDIESLQEIQLEIL----ESVAQYLKKGGILVYSTCTIEKEENEEVIEAFLEE--------HPEFELVPLQHEK 410

                        330       340       350
                 ....*....|....*....|....*....|..
gi 385198059 556 -ERRFHPSLRSTRRFYPHTHNMDGFFIAKFKK 586
Cdd:PRK14902 411 pDELVYEVKDGYLQILPNDYGTDGFFIAKLRK 442
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 387-515 1.68e-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: 1.68e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 387 RILDMCCAPGGKTSYMAQLMKntGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKV-VGGFDRVLLDAPCsg 465
Cdd:cd02440    1 RVLDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEaDESFDVIISDPPL-- 76

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 385198059 466 tgviskdpavktnkdekdilrcaHLQKELLLSAIDSVNATSKTGGYLVYC 515
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 ...
 312-586 8.27e-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: 354.47  E-value: 8.27e-117
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  312 LRTNTLKTRRRDLAQALINRGVNLDPLGKWSKtgLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDM 391
Cdd:TIGR00446   1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYF--FEVKESPFSIGSTPEYLFGYYYPQEASSMIPPIALEPREDERVLDM 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  392 CCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGGFDRVLLDAPCSGTGVISK 471
Cdd:TIGR00446  79 AAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKFGAYLLKFDAILLDAPCSGEGVIRK 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  472 DPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTgldFGQEG 550
Cdd:TIGR00446 159 DPSRKRNWSEEDIKYCSLLQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRpDVVEEII---KGDEF 231

                         250       260       270
                  ....*....|....*....|....*....|....*.
gi 385198059  551 FTRFRERrfhPSLRSTRRFYPHTHNMDGFFIAKFKK 586
Cdd:TIGR00446 232 FGINIGK---GEVKGALRVFPQNYDCEGFFVAKLRK 264
RsmB COG0144
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ...
 237-586 4.54e-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: 338.14  E-value: 4.54e-108
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 237 QRVHKRIQDIV-GILRDFGAQREEGRSRSeylnRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTN 315
Cdd:COG0144  107 EAVGPGAAGLVnAVLRRVLREREALLAAA----DPVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNEPPPLDLRVN 182

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 316 TLKTRRRDLAQALINRGVNLDPlGKWSKTGLVVyDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAP 395
Cdd:COG0144  183 TLKASREELLARLAEEGIEAEP-TPLSPDGLRL-EGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERVLDLCAAP 260

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 396 GGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPA 474
Cdd:COG0144  261 GGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELLEWLPGkFDRVLLDAPCSGTGTLRRHPD 340

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 475 VKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTGLDFGQEGFTR 553
Cdd:COG0144  341 IKWRRTPEDIAELAALQRELLDAAARLL----KPGGRLVYSTCSLLPEENEEVVEAFLARHpDFELVPLAELLPGLALTD 416

                        330       340       350
                 ....*....|....*....|....*....|...
gi 385198059 554 frerrfhpslRSTRRFYPHTHNMDGFFIAKFKK 586
Cdd:COG0144  417 ----------GGYLRLLPHRHGTDGFFIARLRK 439
Methyltr_RsmB-F pfam01189
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ...
 377-585 9.93e-104

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: 9.93e-104
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  377 VMALAPQEHERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG--F 454
Cdd:pfam01189   1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQWLGGvlF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  455 DRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDYALKK 534
Cdd:pfam01189  81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLL----KPGGVLVYSTCSVLPEENEAVIEYFLQK 156

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 385198059  535 R-NVRLVPT------GLDFGQEgftrfrerrfhpslrSTRRFYPHTHNMDGFFIAKFK 585
Cdd:pfam01189 157 HpDVELVPTplfepvGLAIGEQ---------------PTLRLLPHTHNGDGFFIAKLR 199
PRK14902 PRK14902
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
238-586 3.47e-86

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


Pssm-ID: 237857 [Multi-domain]  Cd Length: 444  Bit Score: 280.91  E-value: 3.47e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 238 RVHKRIQDIV-GILRDFgaQREEGRSRSEyLNRLKKDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTNT 316
Cdd:PRK14902 109 RGHKGIAKFVnGVLRNI--LREGLPDIDE-IKDPVKRLSIKYSHPVWLVKRWIDQYGEEKAEKILESLNEPPKASIRVNT 185

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 317 LKTRRRDLAQALINRGVNLDPlGKWSKTGLVVydSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPG 396
Cdd:PRK14902 186 LKISVEELIEKLEEEGYEVEE-SLLSPEALVI--EKGNIAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPG 262

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 397 GKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPAV 475
Cdd:PRK14902 263 GKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEkFDKILVDAPCSGLGVIRRKPDI 342

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 476 KTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKKrnvrlvptGLDFGQEGFTRFR 555
Cdd:PRK14902 343 KYNKTKEDIESLQEIQLEIL----ESVAQYLKKGGILVYSTCTIEKEENEEVIEAFLEE--------HPEFELVPLQHEK 410

                        330       340       350
                 ....*....|....*....|....*....|..
gi 385198059 556 -ERRFHPSLRSTRRFYPHTHNMDGFFIAKFKK 586
Cdd:PRK14902 411 pDELVYEVKDGYLQILPNDYGTDGFFIAKLRK 442
yebU PRK11933
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
 299-592 2.54e-59

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


Pssm-ID: 183387 [Multi-domain]  Cd Length: 470  Bit Score: 208.99  E-value: 2.54e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 299 EFLEANEVPRPVTLRTNTLKTRRRDLAQALINRGVNLDPLgKWSKTGLVV---YDSSVPIGATPEYLAGHYMLQGASSML 375
Cdd:PRK11933  24 DFIAACQRPLRRSIRVNTLKISVADFLQLMAPYGWTLTPI-PWCEEGFWIerdDEDALPLGNTAEHLSGLFYIQEASSML 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 376 PVMAL-APQEH-ERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFpkvvGG 453
Cdd:PRK11933 103 PVAALfADDNApQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANISRCGVSNVALTHFDGRVF----GA 178

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 454 -----FDRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVV 528
Cdd:PRK11933 179 alpetFDAILLDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHAL----KPGGTLVYSTCTLNREENQAVC 254

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 385198059 529 DYaLKKR---NVRLVPTGLDFGQ-------EGFtrfrerrFHpslrstrrFYPHTHNMDGFFIAKFKKfSNSIP 592
Cdd:PRK11933 255 LW-LKETypdAVEFEPLGDLFPGaekalteEGF-------LH--------VFPQIYDSEGFFVARLRK-TASVP 311
PRK14901 PRK14901
16S rRNA methyltransferase B; Provisional
 248-586 1.36e-53

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237856 [Multi-domain]  Cd Length: 434  Bit Score: 192.07  E-value: 1.36e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 248 GILRDFGAQREEGRSRSEYLNRLKKdLAIYYSYGDFLLGKLMDLFPLSELVEFLEA-NEVPrPVTLRTNTLKTRRRDLAQ 326
Cdd:PRK14901 118 GILRQYLRAREAGDPLPLPEDPIER-LAILHSFPDWLVKLWLEWLGLEEAEQLCKWfNQPP-SLDLRINPLRTSLEEVQA 195

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 327 ALINRGVNLDPLGKwSKTGLVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGKTSYMAQLM 406
Cdd:PRK14901 196 ALAEAGITATPIPG-LPQGLRLTGNPGSIRQLPGYEEGWWTVQDRSAQLVAPLLDPQPGEVILDACAAPGGKTTHIAELM 274

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 407 KNTGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQF----PKVVGGFDRVLLDAPCSGTGVISKDPAVKTNKDEK 482
Cdd:PRK14901 275 GDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLlelkPQWRGYFDRILLDAPCSGLGTLHRHPDARWRQTPE 354

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 483 DILRCAHLQKELLLSAIDSVnatsKTGGYLVYCTCSITVEENEWVVDyalkkrnvrlvptgldfgqegftRFRERrfHPS 562
Cdd:PRK14901 355 KIQELAPLQAELLESLAPLL----KPGGTLVYATCTLHPAENEAQIE-----------------------QFLAR--HPD 405

                        330       340
                 ....*....|....*....|....*..
gi 385198059 563 LRS---TRRFYPHTHNMDGFFIAKFKK 586
Cdd:PRK14901 406 WKLeppKQKIWPHRQDGDGFFMAVLRK 432
rsmB TIGR00563
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ...
 240-586 1.97e-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: 1.97e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  240 HKRIQDIV-GILRDFgaQREEgrsrsEYLNRLKKDLAIYYSYGDFLLGKLMDLFPLSElVEFLEANEVPRPVTLRTNTLK 318
Cdd:TIGR00563 103 RKGLKGLVnGVLRRF--QREQ-----EELLAEFNALDARYLHPEWLVKRLQKAYPGQW-QSICEANNQRPPMWLRINRTK 174

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  319 TRRRDLAQALINRGVNLDPLGKWSKTglVVYDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGK 398
Cdd:TIGR00563 175 HSRDEWLALLAEAGMKGFPHDLAPDA--VRLETPAAVHALPGFEEGWVTVQDASAQWVATWLAPQNEETILDACAAPGGK 252

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  399 TSYMAQLMKNtGVILANDANAERLKSVVGNLHRLGVTnTIISHYDGRQ----FPKVVGGFDRVLLDAPCSGTGVISKDPA 474
Cdd:TIGR00563 253 TTHILELAPQ-AQVVALDIHEHRLKRVYENLKRLGLT-IKAETKDGDGrgpsQWAENEQFDRILLDAPCSATGVIRRHPD 330

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059  475 VKTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDyalkkrnvrlvptglDFGQEGFTR- 553
Cdd:TIGR00563 331 IKWLRKPRDIAELAELQSEIL----DAIWPLLKTGGTLVYATCSVLPEENSEQIK---------------AFLQEHPDFp 391

                         330       340       350
                  ....*....|....*....|....*....|....
gi 385198059  554 FRERRFHPSLRSTR-RFYPHTHNMDGFFIAKFKK 586
Cdd:TIGR00563 392 FEKTGTPEQVRDGGlQILPHAEEGDGFFYAKLIK 425
PRK10901 PRK10901
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
248-586 5.93e-52

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


Pssm-ID: 236790 [Multi-domain]  Cd Length: 427  Bit Score: 187.32  E-value: 5.93e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 248 GILRDFgaQREegrsRSEYLNRLKKDLAIYYSYGDFLLGKLMDLFPlSELVEFLEANEVPRPVTLRTNTLKTRRRDLAQA 327
Cdd:PRK10901 117 AVLRRF--QRE----QEELLAELQADPVARYNHPSWLIKRLKKAYP-EQWQAILAANNQRPPMWLRVNRRHHSRDAYLAL 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 328 LINRGVNLDPlGKWSKTGLVVyDSSVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGKTSYMAQLMK 407
Cdd:PRK10901 190 LAEAGIEAFP-HAVGPDAIRL-ETPVPVHQLPGFAEGWVSVQDAAAQLAATLLAPQNGERVLDACAAPGGKTAHILELAP 267

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 408 NTGVIlANDANAERLKSVVGNLHRLGVTNTII--------SHYDGRQfpkvvggFDRVLLDAPCSGTGVISKDPAVKTNK 479
Cdd:PRK10901 268 QAQVV-ALDIDAQRLERVRENLQRLGLKATVIvgdardpaQWWDGQP-------FDRILLDAPCSATGVIRRHPDIKWLR 339

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 480 DEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKKR-NVRLVPTGLDFGqegftrfrerr 558
Cdd:PRK10901 340 RPEDIAALAALQSEIL----DALWPLLKPGGTLLYATCSILPEENEQQIKAFLARHpDAELLDTGTPQQ----------- 404

                        330       340
                 ....*....|....*....|....*...
gi 385198059 559 fhpslrSTRRFYPHTHNMDGFFIAKFKK 586
Cdd:PRK10901 405 ------PGRQLLPGEEDGDGFFYALLIK 426
PRK14903 PRK14903
16S rRNA methyltransferase B; Provisional
 272-542 7.31e-37

16S rRNA methyltransferase B; Provisional


Pssm-ID: 184896 [Multi-domain]  Cd Length: 431  Bit Score: 144.24  E-value: 7.31e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 272 KDLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVTLRTNTLKTRRRDLAQALINRGVNLDPlGKWSKTGLVVYDS 351
Cdd:PRK14903 126 KELHLKYSHPKWLVNYWRSFLPEEAVLRIMEWNQEPLPTMLRVNSLAITREEVIKILAEEGTEAVP-GKHSPFSLIVRKL 204

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 352 SVPIGATPEYLAGHYMLQGASSMLPVMALAPQEHERILDMCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHR 431
Cdd:PRK14903 205 GVNMNDSRVIKDGLATVQGESSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKR 284

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 432 LGVTNTIISHYDGRQFPKVVGG-FDRVLLDAPCSGTGVISKDPAVKTNKDEKDILRCAHLQKELLLSAIDSVnatsKTGG 510
Cdd:PRK14903 285 LKLSSIEIKIADAERLTEYVQDtFDRILVDAPCTSLGTARNHPEVLRRVNKEDFKKLSEIQLRIVSQAWKLL----EKGG 360

                        250       260       270
                 ....*....|....*....|....*....|...
gi 385198059 511 YLVYCTCSITVEENEWVV-DYALKKRNVRLVPT 542
Cdd:PRK14903 361 ILLYSTCTVTKEENTEVVkRFVYEQKDAEVIDI 393
PRK14904 PRK14904
16S rRNA methyltransferase B; Provisional
 235-534 2.64e-34

16S rRNA methyltransferase B; Provisional


Pssm-ID: 237858 [Multi-domain]  Cd Length: 445  Bit Score: 136.73  E-value: 2.64e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 235 DLQRVHK--RIQDIV-GILRDFGAQREEGRSRSEYLNRLKKdLAIYYSYGDFLLGKLMDLFPLSELVEFLEANEVPRPVT 311
Cdd:PRK14904 104 KLARKYKgeHMAKLVnGVLRNISPETISLDEWLKGMPEAER-LSLLYSHPEWLLERWIARYGEERTEAMLSYNNQAPLFG 182

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 312 LRTNTLKTRRRDLAQALINRGVnldplgKWSKTGLVVYDSSVPIGATPEYLA-GHYMLQGASSMLPVMALAPQEHERILD 390
Cdd:PRK14904 183 FRINRLKTTPEKFLAAPADASV------TFEKSGLPNFFLSKDFSLFEPFLKlGLVSVQNPTQALACLLLNPQPGSTVLD 256

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 391 MCCAPGGKTSYMAQLMKNTGVILANDANAERLKSVVGNLHRLGVtnTIIS--HYDGRQFPKvVGGFDRVLLDAPCSGTGV 468
Cdd:PRK14904 257 LCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGI--TIIEtiEGDARSFSP-EEQPDAILLDAPCTGTGV 333

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 385198059 469 ISKDPAVKTNKDEKDILRCAHLQKELLlsaiDSVNATSKTGGYLVYCTCSITVEENEWVVDYALKK 534
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 ...
 295-373 5.66e-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: 56.72  E-value: 5.66e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 385198059  295 SELVEFLEANEVPRPVTLRTNTLKTRRRDLAQALinrGVNLDPLgKWSKTGLvVYDSSVPIGATPEYLAGHYMLQGASS 373
Cdd:pfam17125  15 DEYEAFLAAYDEPRPVGLRVNTLKISVEEFLKLS---PFELEPV-PWCEEGF-YLEERPRPGKHPYHHAGLYYIQEPSA 88
AdoMet_MTases cd02440
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ...
 387-515 1.68e-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: 1.68e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 385198059 387 RILDMCCAPGGKTSYMAQLMKntGVILANDANAERLKSVVGNLHRLGVTNTIISHYDGRQFPKV-VGGFDRVLLDAPCsg 465
Cdd:cd02440    1 RVLDLGCGTGALALALASGPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEaDESFDVIISDPPL-- 76

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 385198059 466 tgviskdpavktnkdekdilrcaHLQKELLLSAIDSVNATSKTGGYLVYC 515
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH