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Conserved domains on  [gi|968558752|ref|WP_058585936|]
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MULTISPECIES: YgiQ family radical SAM protein [unclassified Pseudoalteromonas]

Protein Classification

YgiQ family radical SAM protein( domain architecture ID 12862296)

YgiQ family radical SAM protein similar to Escherichia coli YgiQ

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
SAM_YgiQ TIGR03904
uncharacterized radical SAM protein YgiQ; Members of this family are fairly widespread ...
26-647 0e+00

uncharacterized radical SAM protein YgiQ; Members of this family are fairly widespread uncharacterized radical SAM family proteins, many of which are designated YgiQ. [Unknown function, Enzymes of unknown specificity]


:

Pssm-ID: 274847 [Multi-domain]  Cd Length: 559  Bit Score: 1028.59  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   26 FLPTTRAEMDALGWDSCDVIIVSGDAYVDHPSFGMAVIGRMLESQGFRVGIIAQPDWNSKDAFMALGKPNLFFGVTAGNM 105
Cdd:TIGR03904   1 FLPTTREEMEARGWDELDVILVTGDAYVDHPSFGAAIIGRLLESAGYRVGIIAQPDWRSPEDFKRLGRPRLFFGVTAGNM 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  106 DSMINRYTAEKRMRHDDAYTPGNIGGKRPDRAVVVYSQRCREAYKDVPLIIGGIEASLRRIAHYDYWQEKVRRSVLFDAK 185
Cdd:TIGR03904  81 DSMVNHYTAAKKRRSDDAYTPGGKAGKRPDRAVIVYTNLIREAFKDVPIIIGGIEASLRRFAHYDYWSDKVRRSILLDSK 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  186 ADILIYGNAERPLVEVAHRIAAGESVETIQDIRGTAVIRKEPLPGWRgsdstaidkigkidpipnpygaddvgcsksefk 265
Cdd:TIGR03904 161 ADLLVYGMGERAIVEIARRLAAGEPIKDIRDIRGTAYITKEKPEGWD--------------------------------- 207
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  266 kagidlsaeaakpitvqparpkpwektYVKLPAYEQVSVNKPLYAHASRILHQETNPGCARALFQRHGDRSIWVNPPAFP 345
Cdd:TIGR03904 208 ---------------------------YVELPSYEEVSADKEAYAEAFRLQYLEQDPINGRTLVQKHGDRYVVQNPPALP 260
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  346 LETEEMDGVFGLPYQRIPHPSYGDE-KIPAYEMIKTSVNIMRGCFGGCSFCSITEHEGRIIQSRSEQSIIDEIEQIRdRV 424
Cdd:TIGR03904 261 LSTEELDAVYALPYTRRPHPSYKKAgGIPAIEEIKFSITSHRGCFGGCSFCAITFHQGRIIQSRSEESILREAKRLT-KM 339
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  425 PGFTGVISDLGGPTANMYKLRCKSKKAESTCRRLSCVYPDICKHMDTDHTPTIELYKKARDVKGVKKILIASGVRYDLAV 504
Cdd:TIGR03904 340 PDFKGYISDVGGPTANMYGMSCKKQEKHGACRRKSCLFPKPCPNLKVDHSPYLELLRKLRKLPGVKKVFIRSGIRYDLLL 419
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  505 EDP--RYVKELVTHHVGGYLKIAPEHTEDGPLSKMMKPGMGAYDKFKELFDKYSKEAGKKQYLIPYFISAHPGTKDEDMV 582
Cdd:TIGR03904 420 ADKddEYLRELVRHHVSGQLKVAPEHISDKVLKLMGKPGIEVFERFKEKFEKINKKAGKKQYLVPYLISSHPGCTLKDMV 499
                         570       580       590       600       610       620
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 968558752  583 NMALWLKSNDFKLDQVQNFYPSPMANATTIYHTEMNSLRNiknntEQVPVPKGARQRRLHKAILR 647
Cdd:TIGR03904 500 ELAEYLKKLGFRPEQVQDFTPTPGTLSTCMYYTGLDPYTG-----EPVYVPKTPREKRLQRALLQ 559
DUF3362 super family cl38336
Domain of unknown function (DUF3362); This domain is functionally uncharacterized. This domain ...
596-725 1.22e-39

Domain of unknown function (DUF3362); This domain is functionally uncharacterized. This domain is found in bacteria and archaea. This presumed domain is typically between 117 to 158 amino acids in length.


The actual alignment was detected with superfamily member pfam11842:

Pssm-ID: 432120  Cd Length: 148  Bit Score: 143.02  E-value: 1.22e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  596 DQVQNFYPSPMANATTIYHTEMNSLRNIKNNTEQVPVPKGARQRRLHKAILRYHDPAGWPMIREALRKMGKANLIGKGPN 675
Cdd:pfam11842   1 DQVQTFYPTPMATATTMYHSGRNPLTKVGRQAEPVDVVRGERRRRLHKAFLRYHDPNNWPLLREALKSMGRADLIGNGKH 80
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 968558752  676 CLVP-----EEGRNEKAARGKGGKGRAAlTRHTGFSQFKKANtkpRVGKNKQRAK 725
Cdd:pfam11842  81 HLIPtfqpnGDGTYRSARRKNSTAGGGA-AARARKSQSAAAH---KAGQVQTQAS 131
 
Name Accession Description Interval E-value
SAM_YgiQ TIGR03904
uncharacterized radical SAM protein YgiQ; Members of this family are fairly widespread ...
26-647 0e+00

uncharacterized radical SAM protein YgiQ; Members of this family are fairly widespread uncharacterized radical SAM family proteins, many of which are designated YgiQ. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 274847 [Multi-domain]  Cd Length: 559  Bit Score: 1028.59  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   26 FLPTTRAEMDALGWDSCDVIIVSGDAYVDHPSFGMAVIGRMLESQGFRVGIIAQPDWNSKDAFMALGKPNLFFGVTAGNM 105
Cdd:TIGR03904   1 FLPTTREEMEARGWDELDVILVTGDAYVDHPSFGAAIIGRLLESAGYRVGIIAQPDWRSPEDFKRLGRPRLFFGVTAGNM 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  106 DSMINRYTAEKRMRHDDAYTPGNIGGKRPDRAVVVYSQRCREAYKDVPLIIGGIEASLRRIAHYDYWQEKVRRSVLFDAK 185
Cdd:TIGR03904  81 DSMVNHYTAAKKRRSDDAYTPGGKAGKRPDRAVIVYTNLIREAFKDVPIIIGGIEASLRRFAHYDYWSDKVRRSILLDSK 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  186 ADILIYGNAERPLVEVAHRIAAGESVETIQDIRGTAVIRKEPLPGWRgsdstaidkigkidpipnpygaddvgcsksefk 265
Cdd:TIGR03904 161 ADLLVYGMGERAIVEIARRLAAGEPIKDIRDIRGTAYITKEKPEGWD--------------------------------- 207
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  266 kagidlsaeaakpitvqparpkpwektYVKLPAYEQVSVNKPLYAHASRILHQETNPGCARALFQRHGDRSIWVNPPAFP 345
Cdd:TIGR03904 208 ---------------------------YVELPSYEEVSADKEAYAEAFRLQYLEQDPINGRTLVQKHGDRYVVQNPPALP 260
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  346 LETEEMDGVFGLPYQRIPHPSYGDE-KIPAYEMIKTSVNIMRGCFGGCSFCSITEHEGRIIQSRSEQSIIDEIEQIRdRV 424
Cdd:TIGR03904 261 LSTEELDAVYALPYTRRPHPSYKKAgGIPAIEEIKFSITSHRGCFGGCSFCAITFHQGRIIQSRSEESILREAKRLT-KM 339
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  425 PGFTGVISDLGGPTANMYKLRCKSKKAESTCRRLSCVYPDICKHMDTDHTPTIELYKKARDVKGVKKILIASGVRYDLAV 504
Cdd:TIGR03904 340 PDFKGYISDVGGPTANMYGMSCKKQEKHGACRRKSCLFPKPCPNLKVDHSPYLELLRKLRKLPGVKKVFIRSGIRYDLLL 419
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  505 EDP--RYVKELVTHHVGGYLKIAPEHTEDGPLSKMMKPGMGAYDKFKELFDKYSKEAGKKQYLIPYFISAHPGTKDEDMV 582
Cdd:TIGR03904 420 ADKddEYLRELVRHHVSGQLKVAPEHISDKVLKLMGKPGIEVFERFKEKFEKINKKAGKKQYLVPYLISSHPGCTLKDMV 499
                         570       580       590       600       610       620
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 968558752  583 NMALWLKSNDFKLDQVQNFYPSPMANATTIYHTEMNSLRNiknntEQVPVPKGARQRRLHKAILR 647
Cdd:TIGR03904 500 ELAEYLKKLGFRPEQVQDFTPTPGTLSTCMYYTGLDPYTG-----EPVYVPKTPREKRLQRALLQ 559
Radical_SAM_N pfam08497
Radical SAM N-terminal; This domain tends to occur to the N-terminus of the pfam04055 domain ...
26-381 0e+00

Radical SAM N-terminal; This domain tends to occur to the N-terminus of the pfam04055 domain in hypothetical bacterial proteins.


Pssm-ID: 462496  Cd Length: 299  Bit Score: 598.99  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   26 FLPTTRAEMDALGWDSCDVIIVSGDAYVDHPSFGMAVIGRMLESQGFRVGIIAQPDWNSKDAFMALGKPNLFFGVTAGNM 105
Cdd:pfam08497   1 FLPTSREEMEARGWDQLDFILVTGDAYVDHPSFGAAIIGRVLEAHGYRVGIIAQPDWKDPEDFKRLGRPRLFFGVSAGNM 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  106 DSMINRYTAEKRMRHDDAYTPGNIGGKRPDRAVVVYSQRCREAYKDVPLIIGGIEASLRRIAHYDYWQEKVRRSVLFDAK 185
Cdd:pfam08497  81 DSMVNHYTAAKKRRSDDAYTPGGKAGKRPDRATIVYTNLIREAYKDVPIIIGGIEASLRRFAHYDYWSDKVRRSILLDSK 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  186 ADILIYGNAERPLVEVAHRIAAGESVETIQDIRGTAVIRKEplpgwrgsdstaidkigkidpipnpygaddvgcsksefk 265
Cdd:pfam08497 161 ADLLVYGMGERAIVEIARRLAAGEDIKDITDIRGTAYKTKD--------------------------------------- 201
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  266 kagidlsaeaakpitvqpaRPKPWEKTYVKLPAYEQVSVNKPLYAHASRILHQETNPGCARALFQRHGDRS-IWVNPPAF 344
Cdd:pfam08497 202 -------------------EIYSKEKTYIELPSFEEVSADKKAYAEAFRLQYEETDPINAKALVQKHGDRRyVVQNPPAP 262
                         330       340       350
                  ....*....|....*....|....*....|....*..
gi 968558752  345 PLETEEMDGVFGLPYQRIPHPSYGDEKIPAYEMIKTS 381
Cdd:pfam08497 263 PLTTEELDAVYDLPYTRTPHPSYKKGGIPALEMIKFS 299
DUF3362 pfam11842
Domain of unknown function (DUF3362); This domain is functionally uncharacterized. This domain ...
596-725 1.22e-39

Domain of unknown function (DUF3362); This domain is functionally uncharacterized. This domain is found in bacteria and archaea. This presumed domain is typically between 117 to 158 amino acids in length.


Pssm-ID: 432120  Cd Length: 148  Bit Score: 143.02  E-value: 1.22e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  596 DQVQNFYPSPMANATTIYHTEMNSLRNIKNNTEQVPVPKGARQRRLHKAILRYHDPAGWPMIREALRKMGKANLIGKGPN 675
Cdd:pfam11842   1 DQVQTFYPTPMATATTMYHSGRNPLTKVGRQAEPVDVVRGERRRRLHKAFLRYHDPNNWPLLREALKSMGRADLIGNGKH 80
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 968558752  676 CLVP-----EEGRNEKAARGKGGKGRAAlTRHTGFSQFKKANtkpRVGKNKQRAK 725
Cdd:pfam11842  81 HLIPtfqpnGDGTYRSARRKNSTAGGGA-AARARKSQSAAAH---KAGQVQTQAS 131
YgiQ COG1032
Radical SAM superfamily enzyme YgiQ, UPF0313 family [General function prediction only];
43-605 4.75e-34

Radical SAM superfamily enzyme YgiQ, UPF0313 family [General function prediction only];


Pssm-ID: 440655 [Multi-domain]  Cd Length: 394  Bit Score: 134.69  E-value: 4.75e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  43 DVIIVSGDAYVDHPsFGMAVIGRMLESQGFRVGIIaqpDWNSK-----DAFMALGKPNLFFGVTAgnmdsminrYTAEKR 117
Cdd:COG1032    2 KVLLVYPPKYPVPP-LGLAYLAALLEEAGYEVRIV---DLNAEdrsleDLLKPLREDPDLVGISL---------YTPQYP 68
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 118 mrhddaytpgniggkrpdrAVVVYSQRCREAYKDVPLIIGGIEASLRriahYDYwqekvrrsvLFDAKADILIYGNAERP 197
Cdd:COG1032   69 -------------------NALELARLIKERNPGVPIVLGGPHASLN----PEE---------LLEPFADFVVIGEGEET 116
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 198 LVEVAHRIAAGESVEtiqDIRGTAvirkeplpgwrgsdstaidkigkidpipnpygaddvgcskseFKKAGidlsaeaak 277
Cdd:COG1032  117 LPELLEALEEGRDLA---DIPGLA------------------------------------------YRDDG--------- 142
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 278 pitvqparpkpwektyvklpayeqvsvnkplyahasrilhqetnpgcaralfqrhgdrSIWVNPPAFPLEteEMDgvfgl 357
Cdd:COG1032  143 ----------------------------------------------------------RIVQNPPRPLIE--DLD----- 157
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 358 pyqRIPHPSYGDEKIPAYEMIkTSVNIMRGCFGGCSFCSITEHEGRIIQSRSEQSIIDEIEQIRDRvpgfTGvISDLGGP 437
Cdd:COG1032  158 ---ELPFPAYDLLDLEAYHRR-ASIETSRGCPFGCSFCSISALYGRKVRYRSPESVVEEIEELVKR----YG-IREIFFV 228
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 438 TANMYklrCKSKKAESTCRRLscvypdickhmdtdhtptielykKARDVkgvkKILIASGVRYDLAveDPRYVKELVTHH 517
Cdd:COG1032  229 DDNFN---VDKKRLKELLEEL-----------------------IERGL----NVSFPSEVRVDLL--DEELLELLKKAG 276
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 518 VGGyLKIAPEHTEDGPLSKMMKPGMgaYDKFKELFDKySKEAGKKQYLipYFISAHPGTKDEDMVNMALWLKSNDFKLDQ 597
Cdd:COG1032  277 CRG-LFIGIESGSQRVLKAMNKGIT--VEDILEAVRL-LKKAGIRVKL--YFIIGLPGETEEDIEETIEFIKELGPDQAQ 350

                 ....*...
gi 968558752 598 VQNFYPSP 605
Cdd:COG1032  351 VSIFTPLP 358
Elp3 smart00729
Elongator protein 3, MiaB family, Radical SAM; This superfamily contains MoaA, NifB, PqqE, ...
378-608 2.06e-09

Elongator protein 3, MiaB family, Radical SAM; This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.


Pssm-ID: 214792 [Multi-domain]  Cd Length: 216  Bit Score: 58.18  E-value: 2.06e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   378 IKTSVNIMRGCFGGCSFCSITEHEGRIIqSRSEQSIIDEIEQIRDRVPGFTGVISD-LGGPTANMYklrckskkaestcr 456
Cdd:smart00729   1 PLALYIITRGCPRRCTFCSFPSLRGKLR-SRYLEALVREIELLAEKGEKEGLVGTVfIGGGTPTLL-------------- 65
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   457 rlscvypdickhmdtDHTPTIELYKKARDVKG-VKKILIASGVRYDLAveDPRYVKELVTHHVgGYLKIAPEHTEDgPLS 535
Cdd:smart00729  66 ---------------SPEQLEELLEAIREILGlAKDVEITIETRPDTL--TEELLEALKEAGV-NRVSLGVQSGDD-EVL 126
                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 968558752   536 KMMKPGMGaYDKFKELFDKySKEAGKKqYLIPYFISAHPGTKDEDMVNMALWLKSNDFKLDQVQNFYP---SPMAN 608
Cdd:smart00729 127 KAINRGHT-VEDVLEAVEL-LREAGPI-KVSTDLIVGLPGETEEDFEETLKLLKELGPDRVSIFPLSPrpgTPLAK 199
 
Name Accession Description Interval E-value
SAM_YgiQ TIGR03904
uncharacterized radical SAM protein YgiQ; Members of this family are fairly widespread ...
26-647 0e+00

uncharacterized radical SAM protein YgiQ; Members of this family are fairly widespread uncharacterized radical SAM family proteins, many of which are designated YgiQ. [Unknown function, Enzymes of unknown specificity]


Pssm-ID: 274847 [Multi-domain]  Cd Length: 559  Bit Score: 1028.59  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   26 FLPTTRAEMDALGWDSCDVIIVSGDAYVDHPSFGMAVIGRMLESQGFRVGIIAQPDWNSKDAFMALGKPNLFFGVTAGNM 105
Cdd:TIGR03904   1 FLPTTREEMEARGWDELDVILVTGDAYVDHPSFGAAIIGRLLESAGYRVGIIAQPDWRSPEDFKRLGRPRLFFGVTAGNM 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  106 DSMINRYTAEKRMRHDDAYTPGNIGGKRPDRAVVVYSQRCREAYKDVPLIIGGIEASLRRIAHYDYWQEKVRRSVLFDAK 185
Cdd:TIGR03904  81 DSMVNHYTAAKKRRSDDAYTPGGKAGKRPDRAVIVYTNLIREAFKDVPIIIGGIEASLRRFAHYDYWSDKVRRSILLDSK 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  186 ADILIYGNAERPLVEVAHRIAAGESVETIQDIRGTAVIRKEPLPGWRgsdstaidkigkidpipnpygaddvgcsksefk 265
Cdd:TIGR03904 161 ADLLVYGMGERAIVEIARRLAAGEPIKDIRDIRGTAYITKEKPEGWD--------------------------------- 207
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  266 kagidlsaeaakpitvqparpkpwektYVKLPAYEQVSVNKPLYAHASRILHQETNPGCARALFQRHGDRSIWVNPPAFP 345
Cdd:TIGR03904 208 ---------------------------YVELPSYEEVSADKEAYAEAFRLQYLEQDPINGRTLVQKHGDRYVVQNPPALP 260
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  346 LETEEMDGVFGLPYQRIPHPSYGDE-KIPAYEMIKTSVNIMRGCFGGCSFCSITEHEGRIIQSRSEQSIIDEIEQIRdRV 424
Cdd:TIGR03904 261 LSTEELDAVYALPYTRRPHPSYKKAgGIPAIEEIKFSITSHRGCFGGCSFCAITFHQGRIIQSRSEESILREAKRLT-KM 339
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  425 PGFTGVISDLGGPTANMYKLRCKSKKAESTCRRLSCVYPDICKHMDTDHTPTIELYKKARDVKGVKKILIASGVRYDLAV 504
Cdd:TIGR03904 340 PDFKGYISDVGGPTANMYGMSCKKQEKHGACRRKSCLFPKPCPNLKVDHSPYLELLRKLRKLPGVKKVFIRSGIRYDLLL 419
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  505 EDP--RYVKELVTHHVGGYLKIAPEHTEDGPLSKMMKPGMGAYDKFKELFDKYSKEAGKKQYLIPYFISAHPGTKDEDMV 582
Cdd:TIGR03904 420 ADKddEYLRELVRHHVSGQLKVAPEHISDKVLKLMGKPGIEVFERFKEKFEKINKKAGKKQYLVPYLISSHPGCTLKDMV 499
                         570       580       590       600       610       620
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 968558752  583 NMALWLKSNDFKLDQVQNFYPSPMANATTIYHTEMNSLRNiknntEQVPVPKGARQRRLHKAILR 647
Cdd:TIGR03904 500 ELAEYLKKLGFRPEQVQDFTPTPGTLSTCMYYTGLDPYTG-----EPVYVPKTPREKRLQRALLQ 559
Radical_SAM_N pfam08497
Radical SAM N-terminal; This domain tends to occur to the N-terminus of the pfam04055 domain ...
26-381 0e+00

Radical SAM N-terminal; This domain tends to occur to the N-terminus of the pfam04055 domain in hypothetical bacterial proteins.


Pssm-ID: 462496  Cd Length: 299  Bit Score: 598.99  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   26 FLPTTRAEMDALGWDSCDVIIVSGDAYVDHPSFGMAVIGRMLESQGFRVGIIAQPDWNSKDAFMALGKPNLFFGVTAGNM 105
Cdd:pfam08497   1 FLPTSREEMEARGWDQLDFILVTGDAYVDHPSFGAAIIGRVLEAHGYRVGIIAQPDWKDPEDFKRLGRPRLFFGVSAGNM 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  106 DSMINRYTAEKRMRHDDAYTPGNIGGKRPDRAVVVYSQRCREAYKDVPLIIGGIEASLRRIAHYDYWQEKVRRSVLFDAK 185
Cdd:pfam08497  81 DSMVNHYTAAKKRRSDDAYTPGGKAGKRPDRATIVYTNLIREAYKDVPIIIGGIEASLRRFAHYDYWSDKVRRSILLDSK 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  186 ADILIYGNAERPLVEVAHRIAAGESVETIQDIRGTAVIRKEplpgwrgsdstaidkigkidpipnpygaddvgcsksefk 265
Cdd:pfam08497 161 ADLLVYGMGERAIVEIARRLAAGEDIKDITDIRGTAYKTKD--------------------------------------- 201
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  266 kagidlsaeaakpitvqpaRPKPWEKTYVKLPAYEQVSVNKPLYAHASRILHQETNPGCARALFQRHGDRS-IWVNPPAF 344
Cdd:pfam08497 202 -------------------EIYSKEKTYIELPSFEEVSADKKAYAEAFRLQYEETDPINAKALVQKHGDRRyVVQNPPAP 262
                         330       340       350
                  ....*....|....*....|....*....|....*..
gi 968558752  345 PLETEEMDGVFGLPYQRIPHPSYGDEKIPAYEMIKTS 381
Cdd:pfam08497 263 PLTTEELDAVYDLPYTRTPHPSYKKGGIPALEMIKFS 299
DUF3362 pfam11842
Domain of unknown function (DUF3362); This domain is functionally uncharacterized. This domain ...
596-725 1.22e-39

Domain of unknown function (DUF3362); This domain is functionally uncharacterized. This domain is found in bacteria and archaea. This presumed domain is typically between 117 to 158 amino acids in length.


Pssm-ID: 432120  Cd Length: 148  Bit Score: 143.02  E-value: 1.22e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  596 DQVQNFYPSPMANATTIYHTEMNSLRNIKNNTEQVPVPKGARQRRLHKAILRYHDPAGWPMIREALRKMGKANLIGKGPN 675
Cdd:pfam11842   1 DQVQTFYPTPMATATTMYHSGRNPLTKVGRQAEPVDVVRGERRRRLHKAFLRYHDPNNWPLLREALKSMGRADLIGNGKH 80
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 968558752  676 CLVP-----EEGRNEKAARGKGGKGRAAlTRHTGFSQFKKANtkpRVGKNKQRAK 725
Cdd:pfam11842  81 HLIPtfqpnGDGTYRSARRKNSTAGGGA-AARARKSQSAAAH---KAGQVQTQAS 131
YgiQ COG1032
Radical SAM superfamily enzyme YgiQ, UPF0313 family [General function prediction only];
43-605 4.75e-34

Radical SAM superfamily enzyme YgiQ, UPF0313 family [General function prediction only];


Pssm-ID: 440655 [Multi-domain]  Cd Length: 394  Bit Score: 134.69  E-value: 4.75e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  43 DVIIVSGDAYVDHPsFGMAVIGRMLESQGFRVGIIaqpDWNSK-----DAFMALGKPNLFFGVTAgnmdsminrYTAEKR 117
Cdd:COG1032    2 KVLLVYPPKYPVPP-LGLAYLAALLEEAGYEVRIV---DLNAEdrsleDLLKPLREDPDLVGISL---------YTPQYP 68
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 118 mrhddaytpgniggkrpdrAVVVYSQRCREAYKDVPLIIGGIEASLRriahYDYwqekvrrsvLFDAKADILIYGNAERP 197
Cdd:COG1032   69 -------------------NALELARLIKERNPGVPIVLGGPHASLN----PEE---------LLEPFADFVVIGEGEET 116
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 198 LVEVAHRIAAGESVEtiqDIRGTAvirkeplpgwrgsdstaidkigkidpipnpygaddvgcskseFKKAGidlsaeaak 277
Cdd:COG1032  117 LPELLEALEEGRDLA---DIPGLA------------------------------------------YRDDG--------- 142
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 278 pitvqparpkpwektyvklpayeqvsvnkplyahasrilhqetnpgcaralfqrhgdrSIWVNPPAFPLEteEMDgvfgl 357
Cdd:COG1032  143 ----------------------------------------------------------RIVQNPPRPLIE--DLD----- 157
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 358 pyqRIPHPSYGDEKIPAYEMIkTSVNIMRGCFGGCSFCSITEHEGRIIQSRSEQSIIDEIEQIRDRvpgfTGvISDLGGP 437
Cdd:COG1032  158 ---ELPFPAYDLLDLEAYHRR-ASIETSRGCPFGCSFCSISALYGRKVRYRSPESVVEEIEELVKR----YG-IREIFFV 228
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 438 TANMYklrCKSKKAESTCRRLscvypdickhmdtdhtptielykKARDVkgvkKILIASGVRYDLAveDPRYVKELVTHH 517
Cdd:COG1032  229 DDNFN---VDKKRLKELLEEL-----------------------IERGL----NVSFPSEVRVDLL--DEELLELLKKAG 276
                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752 518 VGGyLKIAPEHTEDGPLSKMMKPGMgaYDKFKELFDKySKEAGKKQYLipYFISAHPGTKDEDMVNMALWLKSNDFKLDQ 597
Cdd:COG1032  277 CRG-LFIGIESGSQRVLKAMNKGIT--VEDILEAVRL-LKKAGIRVKL--YFIIGLPGETEEDIEETIEFIKELGPDQAQ 350

                 ....*...
gi 968558752 598 VQNFYPSP 605
Cdd:COG1032  351 VSIFTPLP 358
Elp3 smart00729
Elongator protein 3, MiaB family, Radical SAM; This superfamily contains MoaA, NifB, PqqE, ...
378-608 2.06e-09

Elongator protein 3, MiaB family, Radical SAM; This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.


Pssm-ID: 214792 [Multi-domain]  Cd Length: 216  Bit Score: 58.18  E-value: 2.06e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   378 IKTSVNIMRGCFGGCSFCSITEHEGRIIqSRSEQSIIDEIEQIRDRVPGFTGVISD-LGGPTANMYklrckskkaestcr 456
Cdd:smart00729   1 PLALYIITRGCPRRCTFCSFPSLRGKLR-SRYLEALVREIELLAEKGEKEGLVGTVfIGGGTPTLL-------------- 65
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752   457 rlscvypdickhmdtDHTPTIELYKKARDVKG-VKKILIASGVRYDLAveDPRYVKELVTHHVgGYLKIAPEHTEDgPLS 535
Cdd:smart00729  66 ---------------SPEQLEELLEAIREILGlAKDVEITIETRPDTL--TEELLEALKEAGV-NRVSLGVQSGDD-EVL 126
                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 968558752   536 KMMKPGMGaYDKFKELFDKySKEAGKKqYLIPYFISAHPGTKDEDMVNMALWLKSNDFKLDQVQNFYP---SPMAN 608
Cdd:smart00729 127 KAINRGHT-VEDVLEAVEL-LREAGPI-KVSTDLIVGLPGETEEDFEETLKLLKELGPDRVSIFPLSPrpgTPLAK 199
Radical_SAM pfam04055
Radical SAM superfamily; Radical SAM proteins catalyze diverse reactions, including unusual ...
384-584 1.11e-04

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: 43.28  E-value: 1.11e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  384 IMRGCFGGCSFCSITEHEGRI-IQSRSEQSIIDEIEQIRDRvpGFTGVIsdLGGPTANMYKlrckskkaestcrrlscvy 462
Cdd:pfam04055   1 ITRGCNLRCTYCAFPSIRARGkGRELSPEEILEEAKELKRL--GVEVVI--LGGGEPLLLP------------------- 57
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 968558752  463 pdickhmdtDHTPTIELYKKARDVKGVKKILIASGVRYDLavEDPRYVKELVTHHVGGYLKIAPEHTEdgplsKMMKPGm 542
Cdd:pfam04055  58 ---------DLVELLERLLKLELAEGIRITLETNGTLLDE--ELLELLKEAGLDRVSIGLESGDDEVL-----KLINRG- 120
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 968558752  543 GAYDKFKELFDKYsKEAGKKQYLIpyFISAHPGTKDEDMVNM 584
Cdd:pfam04055 121 HTFEEVLEALELL-REAGIPVVTD--NIVGLPGETDEDLEET 159
 
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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