|
Name |
Accession |
Description |
Interval |
E-value |
| rSAM_six_Cys |
TIGR03974 |
SCIFF radical SAM maturase; Members of this protein family are predicted radical SAM enzymes ... |
2-453 |
0e+00 |
|
SCIFF radical SAM maturase; Members of this protein family are predicted radical SAM enzymes universally associated with Six Cysteines in Forty-Five protein, or SCIFF (family TIGR03973), a predicted ribosomal natural product precursor that is nearly universal in the class Clostridia. Similarity of this family to radical SAM maturases (PqqE and subtilosin A maturase) found in the vicinity of other peptide precursors suggests this protein is the SCIFF radical SAM maturase. [Cellular processes, Biosynthesis of natural products]
Pssm-ID: 274892 [Multi-domain] Cd Length: 451 Bit Score: 796.46 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 2 IHQYKLNGYNIVLDTYSGSVHVVDDLAYEIIMLYENTPMVEILSMMQEKYKYDFhvSEKEIRETIADIEELKRDGKLFTD 81
Cdd:TIGR03974 1 IHQYKNNGYNIVLDVNSGSVHVVDDVTYDVIALYEEGKDKETPEEIKEKLKGKY--SEEDIEEAYDEITELKEAGQLFTE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 82 DDYKDLSIDLIN-RPTYVKALCLNVAHTCNLSCEYCFASQGKYNGNRAIMSYEVGKRAIDFLLENSGNHQNLDVDFFGGE 160
Cdd:TIGR03974 79 DIYEDYIIDFKKmRKTVVKALCLHVAHDCNLACKYCFAEEGEYHGRRALMSFEVGKKALDFLIANSGSRRNLEVDFFGGE 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 161 PLMAWKTVKQIVAYARNKEKEYKKTFRFTFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIV 240
Cdd:TIGR03974 159 PLMNFDVVKDLVAYGRSIEKEHNKNFRFTLTTNGVLLNDEIIEFANKEMSNVVLSLDGRKEVNDRMRPTRNGKGSYDLIV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 241 PKFQEFVEKRGDKEYYVRGTYTHNNVDFTNDIYHIADLGFNKISMEPVICNPREPYALGEEDLLEIYNQYEILSKEMLNR 320
Cdd:TIGR03974 239 PKFQKLVESRGQKKYYVRGTFTHNNLDFSKDVLHLADLGFKQISVEPVVADPEEPYALTEEDLPIIFEEYEKLAKEMIKR 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 321 EEKGSGFTFYHYMLDLSEGPCVQKRISGCGSGTEYLAITPWGEIFPCHQFVGEEEYSMGNIWDGITKTEIQSQFKKSNCY 400
Cdd:TIGR03974 319 KKEGKGFNFFHFMIDLTGGPCVYKRLSGCGSGTEYLAVTPWGDLYPCHQFVGNEEFKMGNVFDGITNTDIRDEFKKCNVY 398
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|...
gi 446503973 401 SKTECQECWAQLYCSGGCPANTIHATGSLKGTHEFSCKIFRKRIECSMMVKVA 453
Cdd:TIGR03974 399 SKEKCKDCWARFYCSGGCAANSYNFTGDINDPYDLGCELQRKRIECAIMIKAA 451
|
|
| AslB |
COG0641 |
Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, ... |
99-451 |
1.79e-121 |
|
Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 440406 [Multi-domain] Cd Length: 349 Bit Score: 358.53 E-value: 1.79e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 99 KALCLNVAHTCNLSCEYCFASQGKYNGNRaIMSYEVGKRAIDFLLENSGNHQNLDVDFFGGEPLMAWKTVKQIVAYARNK 178
Cdd:COG0641 1 KALVLKPTSRCNLRCSYCYYSEGDEGSRR-RMSEETAEKAIDFLIESSGPGKELTITFFGGEPLLNFDFIKEIVEYARKY 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 179 EKeYKKTFRFTFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIVPKFQEFVEKrgDKEYYVR 258
Cdd:COG0641 80 AK-KGKKIRFSIQTNGTLLDDEWIDFLKENGFSVGISLDGPKEIHDRNRVTKNGKGSFDRVMRNIKLLKEH--GVEVNIR 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 259 GTYTHNNVDFTNDIY-HIADLGFNKISMEPVICNPREPYALGEEDLLEIYNQYEilsKEMLnrEEKGSGFTFYHYMLDLS 337
Cdd:COG0641 157 CTVTRENLDDPEELYdFLKELGFRSIQFNPVVEEGEADYSLTPEDYGEFLIELF---DEWL--ERDGGKIFVREFDILLA 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 338 EGPcvQKRISGC-GSGTEYLAITPWGEIFPCHQFVGEEEYSMGNIWDG----ITKTEIQSQF-KKSNCYSKTECQECWAQ 411
Cdd:COG0641 232 GLL--PPCSSPCvGAGGNYLVVDPDGDIYPCDEFVGDPEFRLGNVFDGslaeLLDSPKLRAFgREKNVLLDEECRSCPYL 309
|
330 340 350 360
....*....|....*....|....*....|....*....|
gi 446503973 412 LYCSGGCPANTIHATGSLKGTHEFSCKIFRKRIECSMMVK 451
Cdd:COG0641 310 PLCGGGCPANRYAETGDGFKPYSYYCELYKKLFEHALRLE 349
|
|
| SPASM_CteB-like |
cd21124 |
Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar ... |
346-441 |
3.72e-33 |
|
Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar proteins; Clostridium thermocellum sactionine bond-forming enzyme CteB is a radical S-adenosylmethionine (SAM) enzyme that catalyzes the formation of the requisite thioether bridge between a cysteine and the alpha-carbon of an opposing amino acid that is required in sactipeptide biosynthesis. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM (RS) enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster. CteB contains two auxillary 4Fe-4S clusters in its SPASM domain; the auxillary cluster nearest the RS site, called AuxI, exhibits an open coordination site in the absence of peptide substrate, which is coordinated by a peptidyl-cysteine residue in the bound state.
Pssm-ID: 410615 [Multi-domain] Cd Length: 96 Bit Score: 120.54 E-value: 3.72e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 346 ISGCGSGTEYLAITPWGEIFPCHQFVGEEEYSMGNIWDGITKTEIQSQFKKSNCYSKTECQECWAQLYCSGGCPANTIHA 425
Cdd:cd21124 1 LSGCGAGHEYFAVDPDGDIYPCHRFVGMEEYRMGNVYDGSSLMELQSEFWKRHVENKEECRECWARFYCGGGCPANSYAE 80
|
90
....*....|....*.
gi 446503973 426 TGSLKGTHEFSCKIFR 441
Cdd:cd21124 81 NGDIRTPYEPYCEIYK 96
|
|
| PRK13758 |
PRK13758 |
anaerobic sulfatase-maturase; Provisional |
109-421 |
6.42e-18 |
|
anaerobic sulfatase-maturase; Provisional
Pssm-ID: 172296 [Multi-domain] Cd Length: 370 Bit Score: 84.97 E-value: 6.42e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCFASQgkYNGNRAIMSYEVGKraiDFLLE-------NSGNhQNLDVDFFGGEP-LMAWKTVKQIVAYARNKEK 180
Cdd:PRK13758 15 CNLKCTYCFYHS--LSDNRNVKSYGIMR---DEVLEsmvkrvlNEAE-GHCSFAFQGGEPtLAGLEFFEELMELQRKHNY 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 181 EYKKTFrFTFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIVPKFQEFveKRGDKEYYVRGT 260
Cdd:PRK13758 89 KNLKIY-NSLQTNGTLIDESWAKFLSENKFLVGLSMDGPKEIHNLNRKDCCGLDTFSKVERAAELF--KKYKVEFNILCV 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 261 YTHNNVDFTNDIYHI---ADLGFNKI--SMEPvICNPRE--PYALGEEDLLEIYNQ-YEILSKEMLNreekgSGFTFYHY 332
Cdd:PRK13758 166 VTSNTARHVNKIYKYfkeKDFKFLQFinCLDP-LYEEKGkyNYSLKPKDYTKFLKNlFDLWYEDFLN-----GNRVSIRY 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 333 MLDLSEGPCVQKRISGCGSGT---EYLaITPWGEIFPCHQFVgEEEYSMGNIWDGITK----TEIQSQFKKSNCYSKTEC 405
Cdd:PRK13758 240 FDGLLETILLGKSSSCGMNGTctcQFV-VESDGSVYPCDFYV-LDKWRLGNIQDMTMKelfeTNKNHEFIKSSFKVHEEC 317
|
330
....*....|....*..
gi 446503973 406 QEC-WAQLyCSGGCPAN 421
Cdd:PRK13758 318 KKCkWFPL-CKGGCRRC 333
|
|
| Fer4_12 |
pfam13353 |
4Fe-4S single cluster domain; This family includes proteins containing domains which bind to ... |
109-241 |
9.72e-12 |
|
4Fe-4S single cluster domain; This family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich.
Pssm-ID: 433138 [Multi-domain] Cd Length: 137 Bit Score: 62.19 E-value: 9.72e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCFASQGK-YNGNRaIMSYEVGKRAIDFLLENSGNhqnlDVDFFGGEPLMAWKTVKQIVAYARnKEKEYKKTFR 187
Cdd:pfam13353 15 CNHHCKGCFNPETWdFKYGK-PFTEELEDEIIEDLAKPYIQ----GLTLSGGEPLLNAEALLELVKRVR-EECPEKDIWL 88
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 446503973 188 FTFTTNGMLLNDEITDFLNQemhnVVLSLDGrKKVHDYLRKTVNGRGSYNHIVP 241
Cdd:pfam13353 89 WTGYTFEELQSKDQLELLKL----IDVLVDG-KFEQSLKDPSLRFRGSSNQRII 137
|
|
| rSAM_mat_DarW |
NF041300 |
radical SAM/SPASM peptide maturase DarW; DarW is a radical SAM/SPASM domain-containing peptide ... |
109-419 |
5.44e-10 |
|
radical SAM/SPASM peptide maturase DarW; DarW is a radical SAM/SPASM domain-containing peptide maturase most closely related to the darobactin maturase DarE.
Pssm-ID: 469197 [Multi-domain] Cd Length: 415 Bit Score: 61.05 E-value: 5.44e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCfasQGKYNGNRAIMSYEVGKRAIDFLLENSGNHQnLDVDFFGGEPLMAWKTVKQIVAYARNKEKEYKKTFRF 188
Cdd:NF041300 51 CNLRCTYC---RSWAEGPNQTMTFDVLARAVREALSMPGLHG-VEFVWHGGEVTLLKPKVFKKLIWLQQQFRQPGQEVRN 126
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 189 TFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIVPKFQEfVEKRG---------DKEyyVRG 259
Cdd:NF041300 127 SIQTNATHLTDEWIEFLSELGMGVGVSIDGPPEVHDRRRLDKDGRPTSSRVAGGIAR-LRQAGiphgalvvvDRE--LID 203
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 260 TYTHNNVDFTNDIyHIADLGFNKISMEPVICNPREPyalgeEDLLEIYNQYEILSKEMLN---REEKGSGF--TFYHYML 334
Cdd:NF041300 204 AGAERLLGYLAEI-GLDKISFLNVLPENDPDDPEIV-----KSTYFTFPEYVRFLTETFDvwwNSYRDRMEirEFRDLIP 277
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 335 DLSEGpcvqKRISGC----GSGTEYLAITPWGEIFPCHQFVGEEEYSMGN-----IWDGITKTEIQSQFKKSNCYSKTEC 405
Cdd:NF041300 278 KMSVG----AKPIGCywmgNCMGRYVTLEANGDLAPCDKYRGDPGSILGNvmhspMADIIRTSGYLADAKKEASDAKTRM 353
|
330
....*....|....*
gi 446503973 406 QEC-WAQLyCSGGCP 419
Cdd:NF041300 354 APCkWFHV-CQGGCP 367
|
|
| N_Twi_rSAM |
NF033640 |
twitch domain-containing radical SAM protein; Members of this family are unusual among radical ... |
108-228 |
1.05e-08 |
|
twitch domain-containing radical SAM protein; Members of this family are unusual among radical SAM proteins in several ways. First, the N-terminal region consists of an iron-sulfur cluster-binding twitch domain (half of a SPASM domain), something usually found C-terminal to the radical SAM domain. Second, the radical SAM domains in many of the members of this family score poorly vs. the Pfam HMM, PF04055 (version 19), used to identify radical SAM. Lastly, the majority of members sequenced to date come from uncultured bacteria from marine or aquifer sources rather than from conventionally cultured bacterial isolates. The function is unknown.
Pssm-ID: 468123 [Multi-domain] Cd Length: 396 Bit Score: 56.89 E-value: 1.05e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 108 TCNLSCEYC--FAS----------QGKYNGNRAIMSYEVGKRAIDFLLENSgnhQNLD-VDFFGGEPLMA---WKTVKQI 171
Cdd:NF033640 119 LCNLKCRMCgpHSSsswakeakklGGPKLGDKKKISWFEDEEFWKWLEELL---PSLKeIYFAGGEPLLIkehYKLLEKL 195
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446503973 172 VayarnkEKEYKKTFRFTFTTNGMLLNDEITDFLN--QEMHNVVL--SLDGRKKVHDYLRK 228
Cdd:NF033640 196 V------EKGRAKNIELRYNTNLTVLPDKLKDLLDlwKKFKSVSIsaSIDGVGERNEYIRY 250
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| rSAM_six_Cys |
TIGR03974 |
SCIFF radical SAM maturase; Members of this protein family are predicted radical SAM enzymes ... |
2-453 |
0e+00 |
|
SCIFF radical SAM maturase; Members of this protein family are predicted radical SAM enzymes universally associated with Six Cysteines in Forty-Five protein, or SCIFF (family TIGR03973), a predicted ribosomal natural product precursor that is nearly universal in the class Clostridia. Similarity of this family to radical SAM maturases (PqqE and subtilosin A maturase) found in the vicinity of other peptide precursors suggests this protein is the SCIFF radical SAM maturase. [Cellular processes, Biosynthesis of natural products]
Pssm-ID: 274892 [Multi-domain] Cd Length: 451 Bit Score: 796.46 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 2 IHQYKLNGYNIVLDTYSGSVHVVDDLAYEIIMLYENTPMVEILSMMQEKYKYDFhvSEKEIRETIADIEELKRDGKLFTD 81
Cdd:TIGR03974 1 IHQYKNNGYNIVLDVNSGSVHVVDDVTYDVIALYEEGKDKETPEEIKEKLKGKY--SEEDIEEAYDEITELKEAGQLFTE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 82 DDYKDLSIDLIN-RPTYVKALCLNVAHTCNLSCEYCFASQGKYNGNRAIMSYEVGKRAIDFLLENSGNHQNLDVDFFGGE 160
Cdd:TIGR03974 79 DIYEDYIIDFKKmRKTVVKALCLHVAHDCNLACKYCFAEEGEYHGRRALMSFEVGKKALDFLIANSGSRRNLEVDFFGGE 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 161 PLMAWKTVKQIVAYARNKEKEYKKTFRFTFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIV 240
Cdd:TIGR03974 159 PLMNFDVVKDLVAYGRSIEKEHNKNFRFTLTTNGVLLNDEIIEFANKEMSNVVLSLDGRKEVNDRMRPTRNGKGSYDLIV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 241 PKFQEFVEKRGDKEYYVRGTYTHNNVDFTNDIYHIADLGFNKISMEPVICNPREPYALGEEDLLEIYNQYEILSKEMLNR 320
Cdd:TIGR03974 239 PKFQKLVESRGQKKYYVRGTFTHNNLDFSKDVLHLADLGFKQISVEPVVADPEEPYALTEEDLPIIFEEYEKLAKEMIKR 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 321 EEKGSGFTFYHYMLDLSEGPCVQKRISGCGSGTEYLAITPWGEIFPCHQFVGEEEYSMGNIWDGITKTEIQSQFKKSNCY 400
Cdd:TIGR03974 319 KKEGKGFNFFHFMIDLTGGPCVYKRLSGCGSGTEYLAVTPWGDLYPCHQFVGNEEFKMGNVFDGITNTDIRDEFKKCNVY 398
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|...
gi 446503973 401 SKTECQECWAQLYCSGGCPANTIHATGSLKGTHEFSCKIFRKRIECSMMVKVA 453
Cdd:TIGR03974 399 SKEKCKDCWARFYCSGGCAANSYNFTGDINDPYDLGCELQRKRIECAIMIKAA 451
|
|
| AslB |
COG0641 |
Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, ... |
99-451 |
1.79e-121 |
|
Sulfatase maturation enzyme AslB, radical SAM superfamily [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 440406 [Multi-domain] Cd Length: 349 Bit Score: 358.53 E-value: 1.79e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 99 KALCLNVAHTCNLSCEYCFASQGKYNGNRaIMSYEVGKRAIDFLLENSGNHQNLDVDFFGGEPLMAWKTVKQIVAYARNK 178
Cdd:COG0641 1 KALVLKPTSRCNLRCSYCYYSEGDEGSRR-RMSEETAEKAIDFLIESSGPGKELTITFFGGEPLLNFDFIKEIVEYARKY 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 179 EKeYKKTFRFTFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIVPKFQEFVEKrgDKEYYVR 258
Cdd:COG0641 80 AK-KGKKIRFSIQTNGTLLDDEWIDFLKENGFSVGISLDGPKEIHDRNRVTKNGKGSFDRVMRNIKLLKEH--GVEVNIR 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 259 GTYTHNNVDFTNDIY-HIADLGFNKISMEPVICNPREPYALGEEDLLEIYNQYEilsKEMLnrEEKGSGFTFYHYMLDLS 337
Cdd:COG0641 157 CTVTRENLDDPEELYdFLKELGFRSIQFNPVVEEGEADYSLTPEDYGEFLIELF---DEWL--ERDGGKIFVREFDILLA 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 338 EGPcvQKRISGC-GSGTEYLAITPWGEIFPCHQFVGEEEYSMGNIWDG----ITKTEIQSQF-KKSNCYSKTECQECWAQ 411
Cdd:COG0641 232 GLL--PPCSSPCvGAGGNYLVVDPDGDIYPCDEFVGDPEFRLGNVFDGslaeLLDSPKLRAFgREKNVLLDEECRSCPYL 309
|
330 340 350 360
....*....|....*....|....*....|....*....|
gi 446503973 412 LYCSGGCPANTIHATGSLKGTHEFSCKIFRKRIECSMMVK 451
Cdd:COG0641 310 PLCGGGCPANRYAETGDGFKPYSYYCELYKKLFEHALRLE 349
|
|
| SPASM_CteB-like |
cd21124 |
Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar ... |
346-441 |
3.72e-33 |
|
Iron-sulfur cluster-binding SPASM domain of sactionine bond-forming enzyme CteB and similar proteins; Clostridium thermocellum sactionine bond-forming enzyme CteB is a radical S-adenosylmethionine (SAM) enzyme that catalyzes the formation of the requisite thioether bridge between a cysteine and the alpha-carbon of an opposing amino acid that is required in sactipeptide biosynthesis. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM (RS) enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster. CteB contains two auxillary 4Fe-4S clusters in its SPASM domain; the auxillary cluster nearest the RS site, called AuxI, exhibits an open coordination site in the absence of peptide substrate, which is coordinated by a peptidyl-cysteine residue in the bound state.
Pssm-ID: 410615 [Multi-domain] Cd Length: 96 Bit Score: 120.54 E-value: 3.72e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 346 ISGCGSGTEYLAITPWGEIFPCHQFVGEEEYSMGNIWDGITKTEIQSQFKKSNCYSKTECQECWAQLYCSGGCPANTIHA 425
Cdd:cd21124 1 LSGCGAGHEYFAVDPDGDIYPCHRFVGMEEYRMGNVYDGSSLMELQSEFWKRHVENKEECRECWARFYCGGGCPANSYAE 80
|
90
....*....|....*.
gi 446503973 426 TGSLKGTHEFSCKIFR 441
Cdd:cd21124 81 NGDIRTPYEPYCEIYK 96
|
|
| rSAM_Cxxx_rpt |
TIGR04115 |
radical SAM peptide maturase, CXXX-repeat target family; Members of this radical SAM domain ... |
99-444 |
1.86e-30 |
|
radical SAM peptide maturase, CXXX-repeat target family; Members of this radical SAM domain protein are predicted peptide maturases, similar to PqqE, AlbA, the mycofactocin radical SAM maturase, and many others that share the peptide modification radical SAM protein C-terminal additional 4Fe4S-binding domain (TIGR04085). Members co-occur with a protein of unknown function that may be a chaperone or immunity protein and with a peptide that may have twelve or more cysteines occurring regularly spaced every fourth residue. These Cys residues tend to be flanked by residues with small side chains that provide minimal steric hindrance to crosslink formation by the radical SAM enzyme as in the subtilosin A system.
Pssm-ID: 200366 [Multi-domain] Cd Length: 359 Bit Score: 121.15 E-value: 1.86e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 99 KALCLNVAHTCNLSCEYCFASqGKYNGNRaiMSYEVGKRAIDFLLENSGN--HQNLDVDFFGGEPLMAWKTVKQIVAYAR 176
Cdd:TIGR04115 2 KSITFIVTDDCQLACKYCYQT-GKNKNKR--MSFETAKKAVDYILSGNKGfgEPSVIWDFIGGEPLLEIELIDRICDYIK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 177 NKEKE----YKKTFRFTFTTNGMLLNDE-ITDFLNQEMHNVVLSL--DGRKKVHDYLRKTVNGRGSYNHIVPKFQEFVEK 249
Cdd:TIGR04115 79 NRMIElnhpWFNSYRFSFSTNGVCYFEEkVQRFIQKNNQHLSISItiDGTKEKHDSCRVFPDGRGSYDLVVSNAPLWLNQ 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 250 RGDKEYYVrgTYTHNNVDFTND-IYHIADLGFNKISMEPVICNPREPY--ALGEEDLLEIYNQyeILSKEMLNreekgsg 326
Cdd:TIGR04115 159 FPYASTKV--TIAPADVPHVKEsVTHLIDLGYNEVNINCVYEEGWQMGddTVFEDQLKKLADY--ILEHDMYN------- 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 327 fTFYHYMLDLSEG---PCVQKRISGCGSGTeYLAITPWGEIFPCHQFV-----GEEEYSMGNIWDGITKTEIQSQFKKSN 398
Cdd:TIGR04115 228 -DYYCSFFSENFGhplDCKLDNENWCGGGV-MLAVDPDGIFYPCLRFAeyslrQKEAYSIGNVDDGIDRNRVRPFLKLDR 305
|
330 340 350 360
....*....|....*....|....*....|....*....|....*....
gi 446503973 399 CYSKT-ECQECWAQLYCSgGCPANT--IHATGSLKGTHEFSCKIFRKRI 444
Cdd:TIGR04115 306 RTQSTdECINCPVASGCA-WCQGYNydVAGTPTIYQRATYICDMHKARV 353
|
|
| sulfatase_rSAM |
TIGR03942 |
anaerobic sulfatase-maturating enzyme; Members of this protein family are radical SAM family ... |
109-454 |
1.10e-23 |
|
anaerobic sulfatase-maturating enzyme; Members of this protein family are radical SAM family enzymes, maturases that prepare the oxygen-sensitive radical required in the active site of anaerobic sulfatases. This maturase role has led to many misleading legacy annotations suggesting that this enzyme maturase is instead a sulfatase regulatory protein. All members of the seed alignment are radical SAM enzymes encoded next to or near an anaerobic sulfatase. Note that a single genome may encode more than one sulfatase/maturase pair. [Protein fate, Protein modification and repair]
Pssm-ID: 188457 [Multi-domain] Cd Length: 363 Bit Score: 101.92 E-value: 1.10e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCFASQGK--YNGNRAIMSYEVGKRAIDFLLEnSGNHQNLDVDFFGGEP-LMAWKTVKQIVAYarnkEKEYK-- 183
Cdd:TIGR03942 11 CNLDCDYCFYLEKEdlYPKPKPKMSDETLETFIKQYIA-SQDGPEVNFAWQGGEPtLAGLDFYRKAVEL----QQRYApg 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 184 KTFRFTFTTNGMLLNDEITDFLNQemHN--VVLSLDGRKKVHDYLRKTVNGRGSYNHIVpKFQEFVEKRGdKEYYVRGTY 261
Cdd:TIGR03942 86 KTISNSLQTNGILLNDEWAEFFKE--HNflVGISIDGPKELHDKYRVTKSGKGTFERVM-RALKLLKEHN-VEFNTLTVV 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 262 THNNVDFTNDIY-HIADLGFNKISMEPVI-----CNPREPYALGEED----LLEIYNQYEilskemlnREEKGSGF--TF 329
Cdd:TIGR03942 162 NNHNARHGKEVYrFLKELGSRYMQFIPCVepdnaTREVTDWSVTPKDygrfLCDVFDEWV--------KNDVGRVFirNF 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 330 YHYM---LDLSEGPCVQKRIsgCGSGteyLAITPWGEIFPCHQFVgEEEYSMGNIWDG----ITKTEIQSQF--KKSNCY 400
Cdd:TIGR03942 234 ENALaiwLGNPSQSCVHSPT--CGQN---LVVESNGDVYSCDHYV-YPEYKLGNINETslaeMASSEKQKQFgqAKSLSL 307
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*..
gi 446503973 401 SKtECQECWAQLYCSGGCPANTIHATGSLKGTHEFSC---KIFRKRIEcSMMVKVAQ 454
Cdd:TIGR03942 308 PE-KCRRCDVLFLCNGGCPKHRILATPGGENGHNYLCagyKAFFSHTL-PYLQAMAE 362
|
|
| geopep_mat_rSAM |
TIGR04280 |
putative geopeptide radical SAM maturase; This family is the radical SAM/SPASM domain putative ... |
67-431 |
1.81e-22 |
|
putative geopeptide radical SAM maturase; This family is the radical SAM/SPASM domain putative peptide maturase for geopeptide, described by model TIGR04229. The SPASM domain (see model TIGR04085) frequently marks peptide-modifying radical SAM enzymes.
Pssm-ID: 275100 [Multi-domain] Cd Length: 428 Bit Score: 99.40 E-value: 1.81e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 67 ADIEELKRDGKLFTDDDYKDLS----IDLINRPTYVKA--LCLNVAhtCNLSCEYCFasQGKYNGNRAiMSYEVGKRAID 140
Cdd:TIGR04280 48 AEAETLSRLGFLVEDREAEREEmrslFDRINRERRHFAaiVVLNLD--CNLACPYCF--EGPFRGKRY-MDDATADLLVS 122
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 141 FLLENS-GNHQNLDVDFFGGEPLMAWKTVKQIVAYARNKEKEYKKTFRFTFTTNGMLLNDEIT-DFLNQEMHNVVLSLDG 218
Cdd:TIGR04280 123 YLVRERlAQGRDVSLDFYGGEPLLSLDLIRRIATPLKAAAASRGLSFSFSLVTNGTLLTRDVVeELLPLGLTGAKVTLDG 202
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 219 RKKVHDYLRKTVNGRGSYNHIVPKFQEFVEKRGDKeyyVRGTYTHNNV-DFTNDIYHIADLGFNKISMEPVICNPREPYA 297
Cdd:TIGR04280 203 PPEIHDRQRPFVSGKGSFDTIVANLKAVCDLIAIQ---IGGNYTRENYrEFPRLLDLLLAEGLTPERLALVRFSPVVSRA 279
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 298 lGEEDLLE------------IYNQYEILSKEMLNReekgsGFTfyhyMLDLSEGPCVQKrisgcgsGTEYLAITPWGEIF 365
Cdd:TIGR04280 280 -GGAALPDfnsgcassnepwLIEASLFLREETLKR-----GYP----VPKLRPGACMVE-------LEDDLVVNHDGTLY 342
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446503973 366 PCHQFVGEEEYSMGNIWDGItkteiqSQFKKS---NCYSKTECQECWAQLYCSGGCPANTIHATGSLKG 431
Cdd:TIGR04280 343 KCPAFMGREGLAVGSLADGL------SDYRDShglDLWKNEECLDCAYLPLCFGGCRFLTLLKTGAIDG 405
|
|
| SkfB |
COG0535 |
Radical SAM superfamily maturase, SkfB/NifB/PqqE family [Cell cycle control, cell division, ... |
101-240 |
5.60e-21 |
|
Radical SAM superfamily maturase, SkfB/NifB/PqqE family [Cell cycle control, cell division, chromosome partitioning, Coenzyme transport and metabolism];
Pssm-ID: 440301 [Multi-domain] Cd Length: 159 Bit Score: 89.19 E-value: 5.60e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 101 LCLNVAHTCNLSCEYCFASQGKYNGNRaiMSYEVGKRAIDFLLEnsgnHQNLDVDFFGGEPLMaWKTVKQIVAYARnkek 180
Cdd:COG0535 2 LQIELTNRCNLRCKHCYADAGPKRPGE--LSTEEAKRILDELAE----LGVKVVGLTGGEPLL-RPDLFELVEYAK---- 70
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446503973 181 eyKKTFRFTFTTNGMLLNDEITDFLNQE-MHNVVLSLDG-RKKVHDYLRKtvnGRGSYNHIV 240
Cdd:COG0535 71 --ELGIRVNLSTNGTLLTEELAERLAEAgLDHVTISLDGvDPETHDKIRG---VPGAFDKVL 127
|
|
| rSAM_more_4Fe4S |
TIGR04085 |
radical SAM additional 4Fe4S-binding SPASM domain; This domain contains regions binding ... |
349-437 |
9.99e-21 |
|
radical SAM additional 4Fe4S-binding SPASM domain; This domain contains regions binding additional 4Fe4S clusters found in various radical SAM proteins C-terminal to the domain described by model pfam04055. Radical SAM enzymes with this domain tend to be involved in protein modification, including anaerobic sulfatase maturation proteins, a quinohemoprotein amine dehydrogenase biogenesis protein, the Pep1357-cyclizing radical SAM enzyme, and various bacteriocin biosynthesis proteins. The motif CxxCxxxxxCxxxC is nearly invariant for members of this family, although PqqE has a variant form. We name this domain SPASM for Subtilosin, PQQ, Anaerobic Sulfatase, and Mycofactocin.
Pssm-ID: 274968 [Multi-domain] Cd Length: 93 Bit Score: 86.48 E-value: 9.99e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 349 CGSGTEYLAITPWGEIFPCHQFVgEEEYSMGNIWDG----ITKTEIQSQFKKS-NCYSKTECQECWAQLYCSGGCPANTI 423
Cdd:TIGR04085 1 CGAGRNSLVVDPDGDVYPCDHFV-YPEYKLGNIREDsleeILNSSKQLEFGRWkSPKLPEECRSCKYLPLCGGGCPANRY 79
|
90
....*....|....
gi 446503973 424 HATGSLKGTHEFSC 437
Cdd:TIGR04085 80 LKTGDINGPKNPLC 93
|
|
| rSAM_pep_methan |
TIGR04083 |
putative peptide-modifying radical SAM enzyme, Mhun_1560 family; Members of this family are ... |
109-431 |
1.72e-19 |
|
putative peptide-modifying radical SAM enzyme, Mhun_1560 family; Members of this family are radical SAM enzymes, homologous to a variety of other peptide-modifying radical SAM, and found primarily in methanogenic archaea.
Pssm-ID: 274966 [Multi-domain] Cd Length: 376 Bit Score: 89.79 E-value: 1.72e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCFASQGkyngNRAIMSYEVGKRAIDFLLENSGNhqNLDVDFFGGEPLMA-WKTVKQivAYARNKEKEYKKTFR 187
Cdd:TIGR04083 10 CPSKCKYCWSSEE----TSPVMSIDTVKDIVEWLKDFRDD--RVTFTFHGGEPLLAgADFYRQ--ALPLLSEGLAHLKPE 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 188 FTFTTNGMLLNDEITDFLNQemHNVVL--SLDGRKKVHDYLRktvnGRGSYNHIVPKFQEFVEKRGDKEYYVrgTYTHNN 265
Cdd:TIGR04083 82 FAMQTNLWLMTPELAEIFAE--YNVPIgsSIDGPEEINDYQR----GEGYYQKTMKGYEIAKEHGLDVRFIC--TFTSYS 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 266 VDFTNDIY-HIADLGFNkISMEPVICNPR----EPYALGEEDL-----------LEIYNQYEILSKEMLNR---EEKGSG 326
Cdd:TIGR04083 154 VKQKEEIFnFFLENGFT-LKLHPALPSLRsdnpGEWALDPEEYgellvylldkyLENMDKIEVMNINDLCRcvfTRRGTV 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 327 FTFYHYMldlsegpcvqkrisgcgsGTEYlAITPWGEIFPCHQFVGEEEYSMGNIWDGITKTEIQS--------QFKKsn 398
Cdd:TIGR04083 233 CTFVDCM------------------GTTF-AVGPDGSIYPCYRFVGMPEYVMGNVRDRPTMEDLMEsdagklmlAFKE-- 291
|
330 340 350
....*....|....*....|....*....|....
gi 446503973 399 cYSKTECQECWAQLYCSGGCPANTIHAT-GSLKG 431
Cdd:TIGR04083 292 -YVDTHCAKCSHIKYCRGGCPYNAIAPTdGEIKG 324
|
|
| PRK13758 |
PRK13758 |
anaerobic sulfatase-maturase; Provisional |
109-421 |
6.42e-18 |
|
anaerobic sulfatase-maturase; Provisional
Pssm-ID: 172296 [Multi-domain] Cd Length: 370 Bit Score: 84.97 E-value: 6.42e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCFASQgkYNGNRAIMSYEVGKraiDFLLE-------NSGNhQNLDVDFFGGEP-LMAWKTVKQIVAYARNKEK 180
Cdd:PRK13758 15 CNLKCTYCFYHS--LSDNRNVKSYGIMR---DEVLEsmvkrvlNEAE-GHCSFAFQGGEPtLAGLEFFEELMELQRKHNY 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 181 EYKKTFrFTFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIVPKFQEFveKRGDKEYYVRGT 260
Cdd:PRK13758 89 KNLKIY-NSLQTNGTLIDESWAKFLSENKFLVGLSMDGPKEIHNLNRKDCCGLDTFSKVERAAELF--KKYKVEFNILCV 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 261 YTHNNVDFTNDIYHI---ADLGFNKI--SMEPvICNPRE--PYALGEEDLLEIYNQ-YEILSKEMLNreekgSGFTFYHY 332
Cdd:PRK13758 166 VTSNTARHVNKIYKYfkeKDFKFLQFinCLDP-LYEEKGkyNYSLKPKDYTKFLKNlFDLWYEDFLN-----GNRVSIRY 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 333 MLDLSEGPCVQKRISGCGSGT---EYLaITPWGEIFPCHQFVgEEEYSMGNIWDGITK----TEIQSQFKKSNCYSKTEC 405
Cdd:PRK13758 240 FDGLLETILLGKSSSCGMNGTctcQFV-VESDGSVYPCDFYV-LDKWRLGNIQDMTMKelfeTNKNHEFIKSSFKVHEEC 317
|
330
....*....|....*..
gi 446503973 406 QEC-WAQLyCSGGCPAN 421
Cdd:PRK13758 318 KKCkWFPL-CKGGCRRC 333
|
|
| PRK13745 |
PRK13745 |
anaerobic sulfatase-maturation protein; |
94-462 |
5.51e-14 |
|
anaerobic sulfatase-maturation protein;
Pssm-ID: 237489 [Multi-domain] Cd Length: 412 Bit Score: 73.36 E-value: 5.51e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 94 RPTYVkaLCLNVAHTCNLSCEYCFASQGK--YNGN-RAIMSYEVGKRAIDFLLENSGNHQNLdVDFFGGEPLMawktvKQ 170
Cdd:PRK13745 11 KPLYI--MLKPVGAVCNLACDYCYYLEKSklYQENpKHVMSDELLEKFIKEYINSQTMPQVL-FTWHGGETLM-----RP 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 171 IVAYARNKEKEYK----KTFRFTFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYnHIVPKFQEF 246
Cdd:PRK13745 83 LSFYKKALELQKKyargRQIDNCIQTNGTLLTDEWCEFFRENNFLVGVSIDGPQEFHDEYRKNKMGKPSF-VKVMKGINL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 247 VEKRGdKEYYVRGTYTHNNVDFTNDIYH-IADLGFNKISMEPVI------CNPREPYALGEEDLLEIyNQYEILSKEMLN 319
Cdd:PRK13745 162 LKKHG-VEWNAMAVVNDFNADYPLDFYHfFKELDCHYIQFAPIVerivshQDGRHLASLAQQEGGEL-APFSVTPEQWGN 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 320 ----------REEKGSgftFYHYMLD------LSEGPCVQKRISGCGSG--TEYLaitpwGEIFPCHQFVgEEEYSMGNI 381
Cdd:PRK13745 240 flctifdewvKEDVGK---YYIQLFDstlanwVGEQPGVCSMAKHCGHAgvMEFN-----GDVYSCDHFV-FPEYKLGNI 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 382 WDG----ITKTEIQSQFKKSNCYS-KTECQECWAQLYCSGGCPANTIHATGSLKGTHEFSCKIFRKRIEcsmmvKVAQSI 456
Cdd:PRK13745 311 YQQtlveMMYSERQTAFGTMKYKSlPTQCKECEYLFACHGECPKNRFCRTANGEPGLNYLCKGYHQFFK-----HVAPYM 385
|
....*.
gi 446503973 457 RAMKKE 462
Cdd:PRK13745 386 DFMKKE 391
|
|
| Fer4_12 |
pfam13353 |
4Fe-4S single cluster domain; This family includes proteins containing domains which bind to ... |
109-241 |
9.72e-12 |
|
4Fe-4S single cluster domain; This family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich.
Pssm-ID: 433138 [Multi-domain] Cd Length: 137 Bit Score: 62.19 E-value: 9.72e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCFASQGK-YNGNRaIMSYEVGKRAIDFLLENSGNhqnlDVDFFGGEPLMAWKTVKQIVAYARnKEKEYKKTFR 187
Cdd:pfam13353 15 CNHHCKGCFNPETWdFKYGK-PFTEELEDEIIEDLAKPYIQ----GLTLSGGEPLLNAEALLELVKRVR-EECPEKDIWL 88
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 446503973 188 FTFTTNGMLLNDEITDFLNQemhnVVLSLDGrKKVHDYLRKTVNGRGSYNHIVP 241
Cdd:pfam13353 89 WTGYTFEELQSKDQLELLKL----IDVLVDG-KFEQSLKDPSLRFRGSSNQRII 137
|
|
| SCM_rSAM_ScmE |
TIGR04250 |
SynChlorMet cassette radical SAM/SPASM protein ScmE; A biosynthesis cassette found in ... |
99-420 |
2.46e-11 |
|
SynChlorMet cassette radical SAM/SPASM protein ScmE; A biosynthesis cassette found in Syntrophobacter fumaroxidans MPOB, Chlorobium limicola DSM 245, Methanocella paludicola SANAE, and delta proteobacterium NaphS2 contains two PqqE-like radical SAM/SPASM domain proteins, a PqqD homolog, and a conserved hypothetical protein. These components suggest modification of a ribosomally produced peptide precursor, but the precursor has not been identified. Of the two PqqE homologs of the cassette, this family is the closer in sequence.
Pssm-ID: 211973 [Multi-domain] Cd Length: 358 Bit Score: 64.88 E-value: 2.46e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 99 KALCLNVAHTCNLSCEYC--FASQGKyngnraiMSYEVGKRAIDFLLENSGNHQNLDVDFFGGEPLMAWKTVKQIVAYAR 176
Cdd:TIGR04250 3 RSVDIDITGRCNLRCRYCshFSSAAE-------TPTDLETAEWLRFFRELNRCSVLRVVLSGGEPFMRSDFREIIDGIVK 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 177 NKekeykktFRFTFTTNGMLLNDEITDFL--NQEMHNVVLSLDG-RKKVHDYLRktvnGRGSynhivpkFQEFVE----- 248
Cdd:TIGR04250 76 NR-------MRFSILSNGTLITDAIASFLaaTRRCDYVQVSIDGsTPGTHDRLR----GTGS-------FLQAVEgiell 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 249 KRGDKEYYVRGTYTHNNVDftnDIYHIADLGFNKISMEPVICNPREPYAL--GEEDLLEIYNQYEILSKEMLNREEKGsg 326
Cdd:TIGR04250 138 RKHAIPVVVRVTIHRWNVD---DLRPIAALLLDDLGLPAFSTNAASYMGLcrSNTDDVQLDTAERTLAMEILLELEKE-- 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 327 ftfYHYMLDLSEGPCVQKR---------------------ISGCGSGTEYLAITPWGEIFPCHQFVGEE-----EYSMGN 380
Cdd:TIGR04250 213 ---YPGRISASAGPLADARtwasmeqaridqqgnmpgrgyLSGCGGIFMSLAVRADGVIVPCNQLSHIElgrinRDSLRE 289
|
330 340 350 360
....*....|....*....|....*....|....*....|...
gi 446503973 381 IWDGITKTEiqsQFKKSNCYSKTE---CQECWAQLYCSGGCPA 420
Cdd:TIGR04250 290 LWQNHPVLL---QLRNRVTIPLTDfefCKDCDYIPYCTGNCPA 329
|
|
| Radical_SAM |
pfam04055 |
Radical SAM superfamily; Radical SAM proteins catalyze diverse reactions, including unusual ... |
109-240 |
1.17e-10 |
|
Radical SAM superfamily; Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation.
Pssm-ID: 427681 [Multi-domain] Cd Length: 159 Bit Score: 59.85 E-value: 1.17e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCFASQGKYNGNRAIMSYEVGKRAIDFLLENSGNHqnldVDFFGGEPLMAWKTVKQIVAYARNKEKEYkktFRF 188
Cdd:pfam04055 5 CNLRCTYCAFPSIRARGKGRELSPEEILEEAKELKRLGVEV----VILGGGEPLLLPDLVELLERLLKLELAEG---IRI 77
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 446503973 189 TFTTNGMLLNDEITDFL-NQEMHNVVLSLDGrkkVHDYLRKTVNGRGSYNHIV 240
Cdd:pfam04055 78 TLETNGTLLDEELLELLkEAGLDRVSIGLES---GDDEVLKLINRGHTFEEVL 127
|
|
| rSAM_mat_DarW |
NF041300 |
radical SAM/SPASM peptide maturase DarW; DarW is a radical SAM/SPASM domain-containing peptide ... |
109-419 |
5.44e-10 |
|
radical SAM/SPASM peptide maturase DarW; DarW is a radical SAM/SPASM domain-containing peptide maturase most closely related to the darobactin maturase DarE.
Pssm-ID: 469197 [Multi-domain] Cd Length: 415 Bit Score: 61.05 E-value: 5.44e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 109 CNLSCEYCfasQGKYNGNRAIMSYEVGKRAIDFLLENSGNHQnLDVDFFGGEPLMAWKTVKQIVAYARNKEKEYKKTFRF 188
Cdd:NF041300 51 CNLRCTYC---RSWAEGPNQTMTFDVLARAVREALSMPGLHG-VEFVWHGGEVTLLKPKVFKKLIWLQQQFRQPGQEVRN 126
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 189 TFTTNGMLLNDEITDFLNQEMHNVVLSLDGRKKVHDYLRKTVNGRGSYNHIVPKFQEfVEKRG---------DKEyyVRG 259
Cdd:NF041300 127 SIQTNATHLTDEWIEFLSELGMGVGVSIDGPPEVHDRRRLDKDGRPTSSRVAGGIAR-LRQAGiphgalvvvDRE--LID 203
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 260 TYTHNNVDFTNDIyHIADLGFNKISMEPVICNPREPyalgeEDLLEIYNQYEILSKEMLN---REEKGSGF--TFYHYML 334
Cdd:NF041300 204 AGAERLLGYLAEI-GLDKISFLNVLPENDPDDPEIV-----KSTYFTFPEYVRFLTETFDvwwNSYRDRMEirEFRDLIP 277
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 335 DLSEGpcvqKRISGC----GSGTEYLAITPWGEIFPCHQFVGEEEYSMGN-----IWDGITKTEIQSQFKKSNCYSKTEC 405
Cdd:NF041300 278 KMSVG----AKPIGCywmgNCMGRYVTLEANGDLAPCDKYRGDPGSILGNvmhspMADIIRTSGYLADAKKEASDAKTRM 353
|
330
....*....|....*
gi 446503973 406 QEC-WAQLyCSGGCP 419
Cdd:NF041300 354 APCkWFHV-CQGGCP 367
|
|
| SPASM_AlbA-like |
cd21125 |
Iron-sulfur cluster-binding SPASM domain of antilisterial bacteriocin subtilosin biosynthesis ... |
348-429 |
7.49e-09 |
|
Iron-sulfur cluster-binding SPASM domain of antilisterial bacteriocin subtilosin biosynthesis protein AlbA and similar proteins; Bacillus subtilis antilisterial bacteriocin subtilosin biosynthesis protein AlbA is a radical S-adenosylmethionine (SAM) enzyme that catalyzes the formation of three thioether bonds in the post-translational modification of a linear peptide into the cyclic peptide subtilosin A. The thioether bonds formed are between the sulfur of three cysteine residues and the alpha-carbons of two phenylalanines and one threonine to produce a rigid cyclic peptide. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster. AlbA appears to contain one auxillary Fe-S cluster, similar to the auxillary 4Fe-4S cluster in Bacillus circulans butirosin biosynthetic enzyme BtrN.
Pssm-ID: 410616 [Multi-domain] Cd Length: 97 Bit Score: 52.88 E-value: 7.49e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 348 GCGSGTEYLAITPWGEIFPCHQFvGEEEYSMGNIWDG----ITKTEIQSQFKKSNCYSKTECQECWAQLYCSGGCPANTI 423
Cdd:cd21125 2 NCGAGWKSIVIDPDGEVYPCHLL-HPTEFKLGNIFEDslasILKNPVLEIWQTYDPRFSEHCKKCPFYGICGGGCIAKSL 80
|
....*.
gi 446503973 424 HATGSL 429
Cdd:cd21125 81 ISYGRF 86
|
|
| N_Twi_rSAM |
NF033640 |
twitch domain-containing radical SAM protein; Members of this family are unusual among radical ... |
108-228 |
1.05e-08 |
|
twitch domain-containing radical SAM protein; Members of this family are unusual among radical SAM proteins in several ways. First, the N-terminal region consists of an iron-sulfur cluster-binding twitch domain (half of a SPASM domain), something usually found C-terminal to the radical SAM domain. Second, the radical SAM domains in many of the members of this family score poorly vs. the Pfam HMM, PF04055 (version 19), used to identify radical SAM. Lastly, the majority of members sequenced to date come from uncultured bacteria from marine or aquifer sources rather than from conventionally cultured bacterial isolates. The function is unknown.
Pssm-ID: 468123 [Multi-domain] Cd Length: 396 Bit Score: 56.89 E-value: 1.05e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 108 TCNLSCEYC--FAS----------QGKYNGNRAIMSYEVGKRAIDFLLENSgnhQNLD-VDFFGGEPLMA---WKTVKQI 171
Cdd:NF033640 119 LCNLKCRMCgpHSSsswakeakklGGPKLGDKKKISWFEDEEFWKWLEELL---PSLKeIYFAGGEPLLIkehYKLLEKL 195
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446503973 172 VayarnkEKEYKKTFRFTFTTNGMLLNDEITDFLN--QEMHNVVL--SLDGRKKVHDYLRK 228
Cdd:NF033640 196 V------EKGRAKNIELRYNTNLTVLPDKLKDLLDlwKKFKSVSIsaSIDGVGERNEYIRY 250
|
|
| SPASM_anSME |
cd21120 |
Iron-sulfur cluster-binding SPASM domain of anaerobic sulfatase maturating enzyme; Anaerobic ... |
349-431 |
6.84e-07 |
|
Iron-sulfur cluster-binding SPASM domain of anaerobic sulfatase maturating enzyme; Anaerobic sulfatase maturating enzyme (anSME) is a radical S-adenosylmethionine (SAM) enzyme that catalyzes, under anaerobic conditions, the co- or post-translational modification of arylsulfatases to form a catalytically essential formylglycine (FGly) residue to perform their hydrolysis function, removing sulfate groups from a wide array of substrates. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM (RS) enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster; anSME contains two auxillary 4Fe-4S clusters in its SPASM domain.
Pssm-ID: 410611 [Multi-domain] Cd Length: 107 Bit Score: 47.66 E-value: 6.84e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 349 CGSgteYLAITPWGEIFPCHQFVgEEEYSMGNI----WDGITKTEIQSQFKKSNCYSKTECQECWAQLYCSGGCPANTIH 424
Cdd:cd21120 8 CGD---NLVVEHNGDVYPCDHFV-LPEYRLGNIqeqtLAELVDSEKQQQFGAQKFKLPAECKQCKYLFACHGGCPKHRFA 83
|
....*..
gi 446503973 425 ATGSLKG 431
Cdd:cd21120 84 KGPSEPG 90
|
|
| Radical_SAM |
cd01335 |
Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S ... |
103-307 |
7.40e-06 |
|
Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme of the biosynthesis of molybdopterin.
Pssm-ID: 100105 [Multi-domain] Cd Length: 204 Bit Score: 46.94 E-value: 7.40e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 103 LNVAHTCNLSCEYCFASQGKYNGNraiMSYEVGKRAIDFLLEnsgnHQNLDVDFF---GGEPLMaWKTVKQIVAYArnke 179
Cdd:cd01335 1 LELTRGCNLNCGFCSNPASKGRGP---ESPPEIEEILDIVLE----AKERGVEVViltGGEPLL-YPELAELLRRL---- 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 180 KEYKKTFRFTFTTNGMLLNDEITD-FLNQEMHNVVLSLDGrkKVHDYLRKTVNGRGSYNHIvpkFQEFVEKRG-DKEYYV 257
Cdd:cd01335 69 KKELPGFEISIETNGTLLTEELLKeLKELGLDGVGVSLDS--GDEEVADKIRGSGESFKER---LEALKELREaGLGLST 143
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 446503973 258 RGTYTHNNVD---------FTNDIYHIADLGFNKISMEPVICNPREPYALGEEDLLEIY 307
Cdd:cd01335 144 TLLVGLGDEDeeddleeleLLAEFRSPDRVSLFRLLPEEGTPLELAAPVVPAEKLLRLI 202
|
|
| SPASM |
pfam13186 |
Iron-sulfur cluster-binding domain; This domain occurs as an additional C-terminal iron-sulfur ... |
349-409 |
1.20e-03 |
|
Iron-sulfur cluster-binding domain; This domain occurs as an additional C-terminal iron-sulfur cluster binding domain in many radical SAM domain, pfam04055 proteins. The domain occurs in a number of proteins that modify a protein to become an active enzyme, or a peptide to become a ribosomal natural product. The domain is named SPASM because it occurs in the maturases of Subilitosin, PQQ, Anaerobic Sulfatases, and Mycofactocin.
Pssm-ID: 433020 [Multi-domain] Cd Length: 66 Bit Score: 37.46 E-value: 1.20e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446503973 349 CGSGTEYLAITPWGEIFPCHQFVGEEEYSMGN--------IWDGITKTEIQSQFKKSNCyskTECQECW 409
Cdd:pfam13186 1 CFAGWTSLVILPDGDVYPCFDDDFVGPIVLGNireqslaeIWNSPKYREFRKLGKFALI---ELCRDCP 66
|
|
| SurA_N_3 |
pfam13624 |
SurA N-terminal domain; This domain is found at the N-terminus of the chaperone SurA. It is a ... |
46-87 |
2.08e-03 |
|
SurA N-terminal domain; This domain is found at the N-terminus of the chaperone SurA. It is a helical domain of unknown function. The C-terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment.
Pssm-ID: 433358 [Multi-domain] Cd Length: 162 Bit Score: 38.71 E-value: 2.08e-03
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 446503973 46 MMQEKYKYDFHVSEKEIRETIADIEELKRDGKlFTDDDYKDL 87
Cdd:pfam13624 97 LLQEAKKLGLAVSDEEVRQAIASIPAFQEDGK-FDKERYRQL 137
|
|
| SPASM |
cd21109 |
Iron-sulfur cluster-binding SPASM domain; This iron-sulfur cluster-binding domain is named ... |
348-381 |
2.28e-03 |
|
Iron-sulfur cluster-binding SPASM domain; This iron-sulfur cluster-binding domain is named SPASM after the biochemically characterized members, AlbA, PqqE, anSME, and MftC, which are involved in Subtilosin A, Pyrroloquinoline quinone, Anaerobic Sulfatase, and Mycofactocin maturation, respectively. SPASM occurs as an additional C-terminal domain in many peptide-modifying enzymes of the radical S-adenosylmethionine (SAM) superfamily. Radical SAM enzymes are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster that is involved in the reductive cleavage of SAM and generates a 5'-deoxyadenosyl radical, which in turn abstracts a hydrogen from the appropriately positioned carbon atom of the substrate. Radical SAM enzymes with a C-terminal SPASM domain contain at least one other iron-sulfur cluster.
Pssm-ID: 410609 [Multi-domain] Cd Length: 65 Bit Score: 36.63 E-value: 2.28e-03
10 20 30
....*....|....*....|....*....|....
gi 446503973 348 GCGSGTEYLAITPWGEIFPCHQFVgEEEYSMGNI 381
Cdd:cd21109 1 PCPAPWTSLYITPDGDVYPCCFDV-NEELKLGNI 33
|
|
| MoaA2 |
COG1964 |
C-terminal domain of the GTP 3',8'-cyclase MoaA, radical SAM superfamily (molybdenum cofactor ... |
102-227 |
2.99e-03 |
|
C-terminal domain of the GTP 3',8'-cyclase MoaA, radical SAM superfamily (molybdenum cofactor biosynthesis) [Coenzyme transport and metabolism];
Pssm-ID: 441567 [Multi-domain] Cd Length: 473 Bit Score: 39.86 E-value: 2.99e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 102 CL---NVAHTCNLSCEYCFASQGKYNGNRAimSYEVGKRAIDFLLENSGnhqNLD-VDFFGGEPlmawkTVK----QIVA 173
Cdd:COG1964 95 CLaliEVTNRCNLNCPICFANSGPGYGYEP--SLEEIEKMLDALVREEG---EPDvVQFSGGEP-----TVHpdlfEILD 164
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 446503973 174 YARnkekeyKKTFRFT-FTTNGMLL--NDEITDFLNQEM--HNVVLSLDG-RKKVHDYLR 227
Cdd:COG1964 165 LAK------ERPIKHVmINTNGIRIakDPDFAERLAEAGplFEVYLQFDGlSDEPYRRLR 218
|
|
| |
