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Conserved domains on  [gi|654546145|ref|WP_028013851|]
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MULTISPECIES: tRNA dihydrouridine(16) synthase DusC [Enterobacter]

Protein Classification

tRNA dihydrouridine(16) synthase DusC( domain architecture ID 10793415)

tRNA dihydrouridine(16) synthase DusC catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PRK10550 PRK10550
tRNA dihydrouridine(16) synthase DusC;
1-309 0e+00

tRNA dihydrouridine(16) synthase DusC;


:

Pssm-ID: 236713  Cd Length: 312  Bit Score: 679.22  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   1 MRVLLAPMEGVLDSLVRELLTEVNDYDLCVTEFLRVVDMLLPEKSFYRLCPELHRQSRTPSGTLVRIQLLGQYPEWLAEN 80
Cdd:PRK10550   1 MRVLLAPMEGVLDSLVRELLTEVNDYDLCITEFLRVVDQLLPVKVFHRLCPELHNASRTPSGTLVRIQLLGQYPQWLAEN 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  81 AARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVPSHLPVTVKVRLGWDSDARQFEIADAVQQA 160
Cdd:PRK10550  81 AARAVELGSWGVDLNCGCPSKTVNGSGGGATLLKDPELIYQGAKAMREAVPAHLPVTVKVRLGWDSGERKFEIADAVQQA 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 161 GATELVVHGRTKEDGYKAERINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKYN 240
Cdd:PRK10550 161 GATELVVHGRTKEDGYRAEHINWQAIGEIRQRLTIPVIANGEIWDWQSAQQCMAITGCDAVMIGRGALNIPNLSRVVKYN 240
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 654546145 241 EPRMPWADVVTLLQKYSRLEKQGDTGLYHVARIKQWLSYLRKEYSEALGLFQEIRTLQTSADIARVIQS 309
Cdd:PRK10550 241 EPRMPWPEVVALLQKYTRLEKQGDTGLYHVARIKQWLGYLRKEYDEATELFQEIRALNNSPDIARAIQA 309
 
Name Accession Description Interval E-value
PRK10550 PRK10550
tRNA dihydrouridine(16) synthase DusC;
1-309 0e+00

tRNA dihydrouridine(16) synthase DusC;


Pssm-ID: 236713  Cd Length: 312  Bit Score: 679.22  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   1 MRVLLAPMEGVLDSLVRELLTEVNDYDLCVTEFLRVVDMLLPEKSFYRLCPELHRQSRTPSGTLVRIQLLGQYPEWLAEN 80
Cdd:PRK10550   1 MRVLLAPMEGVLDSLVRELLTEVNDYDLCITEFLRVVDQLLPVKVFHRLCPELHNASRTPSGTLVRIQLLGQYPQWLAEN 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  81 AARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVPSHLPVTVKVRLGWDSDARQFEIADAVQQA 160
Cdd:PRK10550  81 AARAVELGSWGVDLNCGCPSKTVNGSGGGATLLKDPELIYQGAKAMREAVPAHLPVTVKVRLGWDSGERKFEIADAVQQA 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 161 GATELVVHGRTKEDGYKAERINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKYN 240
Cdd:PRK10550 161 GATELVVHGRTKEDGYRAEHINWQAIGEIRQRLTIPVIANGEIWDWQSAQQCMAITGCDAVMIGRGALNIPNLSRVVKYN 240
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 654546145 241 EPRMPWADVVTLLQKYSRLEKQGDTGLYHVARIKQWLSYLRKEYSEALGLFQEIRTLQTSADIARVIQS 309
Cdd:PRK10550 241 EPRMPWPEVVALLQKYTRLEKQGDTGLYHVARIKQWLGYLRKEYDEATELFQEIRALNNSPDIARAIQA 309
DusA COG0042
tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; ...
2-307 9.91e-116

tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; tRNA-dihydrouridine synthase is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 439812 [Multi-domain]  Cd Length: 310  Bit Score: 335.91  E-value: 9.91e-116
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   2 RVLLAPMEGVLDSLVRELLTEVNDyDLCVTEFLRVVDMLLPEKSFYRLCPelhrqsRTPSGTLVRIQLLGQYPEWLAENA 81
Cdd:COG0042    8 PLILAPMAGVTDRPFRRLCRELGA-GLLYTEMVSARALLHGNRKTRRLLD------FDPEEHPVAVQLFGSDPEELAEAA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  82 ARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVpsHLPVTVKVRLGWDSDARQF-EIADAVQQA 160
Cdd:COG0042   81 RIAEELGADEIDINMGCPVKKVTKGGAGAALLRDPELVAEIVKAVVEAV--DVPVTVKIRLGWDDDDENAlEFARIAEDA 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 161 GATELVVHGRTKEDGYKAErINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKYN 240
Cdd:COG0042  159 GAAALTVHGRTREQRYKGP-ADWDAIARVKEAVSIPVIGNGDIFSPEDAKRMLEETGCDGVMIGRGALGNPWLFREIDAY 237
                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546145 241 -----EPRMPWADVVTLLQKYSRLEKQGDTGLYHVARIKQWLSYLRKEYSEALGLFQEIRTLQTSADIARVI 307
Cdd:COG0042  238 laggeAPPPSLEEVLELLLEHLELLLEFYGERRGLRRMRKHLLWYFKGLPGARELRRRLSKAKSLAELLELL 309
Dus pfam01207
Dihydrouridine synthase (Dus); Members of this family catalyze the reduction of the 5,6-double ...
4-308 5.06e-113

Dihydrouridine synthase (Dus); Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archae. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. Dus 1 from Saccharomyces cerevisiae acts on pre-tRNA-Phe, while Dus 2 acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active as a single subunit, requiring NADPH or NADH, and is stimulated by the presence of FAD. Some family members may be targeted to the mitochondria and even have a role in mitochondria.


Pssm-ID: 426126  Cd Length: 309  Bit Score: 329.29  E-value: 5.06e-113
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145    4 LLAPMEGVLDSLVRELLTEVNDYDLCVTEFLRVVDMLLPEKSFYRLCPELHRQsrtpsgTLVRIQLLGQYPEWLAENAAR 83
Cdd:pfam01207   1 LLAPMAGVTDLPFRRLVREYGAGDLVYTEMVTAKAQLRPEKVRIRMLSELEEP------TPLAVQLGGSDPALLAEAAKL 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   84 AVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVPshLPVTVKVRLGWDSDARQ-FEIADAVQQAGA 162
Cdd:pfam01207  75 VEDRGADGIDINMGCPSKKVTRGGGGAALLRNPDLVAQIVKAVVKAVG--IPVTVKIRIGWDDSHENaVEIAKIVEDAGA 152
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  163 TELVVHGRTKEDGYKAeRINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKY--- 239
Cdd:pfam01207 153 QALTVHGRTRAQNYEG-TADWDAIKQVKQAVSIPVIANGDITDPEDAQRCLAYTGADGVMIGRGALGNPWLFAEQHTvkt 231
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  240 --NEPRMPWADVVT-LLQKYSRLEKQG--DTGLYHVARIKQWLSY-------LRKEYSEalgLFQEIRTLQTSADIARVI 307
Cdd:pfam01207 232 geFGPSPPLAEEAEkVLRHLPYLEEFLgeDKGLRHARKHLAWYLKgfpgaaeLRRELND---VFDPVEALINLDAALRAA 308

                  .
gi 654546145  308 Q 308
Cdd:pfam01207 309 N 309
DUS_like_FMN cd02801
Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze ...
2-241 2.20e-92

Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.


Pssm-ID: 239200 [Multi-domain]  Cd Length: 231  Bit Score: 273.99  E-value: 2.20e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   2 RVLLAPMEGVLDSLVRELLTEVNdYDLCVTEFLRVVDMLLPEKSFYRLCpelhrqSRTPSGTLVRIQLLGQYPEWLAENA 81
Cdd:cd02801    1 KLILAPMVGVTDLPFRLLCRRYG-ADLVYTEMISAKALLRGNRKRLRLL------TRNPEERPLIVQLGGSDPETLAEAA 73
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  82 ARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVPshLPVTVKVRLGWDSDARQFEIADAVQQAG 161
Cdd:cd02801   74 KIVEELGADGIDLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVP--IPVTVKIRLGWDDEEETLELAKALEDAG 151
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 162 ATELVVHGRTKEDGYKaERINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKYNE 241
Cdd:cd02801  152 ASALTVHGRTREQRYS-GPADWDYIAEIKEAVSIPVIANGDIFSLEDALRCLEQTGVDGVMIGRGALGNPWLFREIKELL 230
nifR3_yhdG TIGR00737
putative TIM-barrel protein, nifR3 family; This model represents one branch of COG0042 ...
2-231 7.78e-60

putative TIM-barrel protein, nifR3 family; This model represents one branch of COG0042 (Predicted TIM-barrel enzymes, possibly dehydrogenases, nifR3 family). This branch includes NifR3 itself, from Rhodobacter capsulatus. It excludes a broadly distributed but more sparsely populated subfamily that contains sll0926 from Synechocystis PCC6803, HI0634 from Haemophilus influenzae, and BB0225 from Borrelia burgdorferi. It also excludes a shorter and more distant archaeal subfamily.The function of nifR3, a member of this family, is unknown, but it is found in an operon with nitrogen-sensing two component regulators in Rhodobacter capsulatus.Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. [Unknown function, General]


Pssm-ID: 129820  Cd Length: 319  Bit Score: 193.73  E-value: 7.78e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145    2 RVLLAPMEGVLDSLVRELLTEVNDyDLCVTEFLRVVDML-LPEKSfyrlcpeLHRQSRTPSGTLVRIQLLGQYPEWLAEN 80
Cdd:TIGR00737   9 RVVLAPMAGVTDSPFRRLVAEYGA-GLTVCEMVSSEAIVyDSQRT-------MRLLDIAEDETPISVQLFGSDPDTMAEA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   81 AARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVpsHLPVTVKVRLGWDSDARQF-EIADAVQQ 159
Cdd:TIGR00737  81 AKINEELGADIIDINMGCPVPKITKKGAGSALLRDPDLIGKIVKAVVDAV--DIPVTVKIRIGWDDAHINAvEAARIAED 158
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546145  160 AGATELVVHGRTKEDGYKAERiNWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVP 231
Cdd:TIGR00737 159 AGAQAVTLHGRTRAQGYSGEA-NWDIIARVKQAVRIPVIGNGDIFSPEDAKAMLETTGCDGVMIGRGALGNP 229
 
Name Accession Description Interval E-value
PRK10550 PRK10550
tRNA dihydrouridine(16) synthase DusC;
1-309 0e+00

tRNA dihydrouridine(16) synthase DusC;


Pssm-ID: 236713  Cd Length: 312  Bit Score: 679.22  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   1 MRVLLAPMEGVLDSLVRELLTEVNDYDLCVTEFLRVVDMLLPEKSFYRLCPELHRQSRTPSGTLVRIQLLGQYPEWLAEN 80
Cdd:PRK10550   1 MRVLLAPMEGVLDSLVRELLTEVNDYDLCITEFLRVVDQLLPVKVFHRLCPELHNASRTPSGTLVRIQLLGQYPQWLAEN 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  81 AARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVPSHLPVTVKVRLGWDSDARQFEIADAVQQA 160
Cdd:PRK10550  81 AARAVELGSWGVDLNCGCPSKTVNGSGGGATLLKDPELIYQGAKAMREAVPAHLPVTVKVRLGWDSGERKFEIADAVQQA 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 161 GATELVVHGRTKEDGYKAERINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKYN 240
Cdd:PRK10550 161 GATELVVHGRTKEDGYRAEHINWQAIGEIRQRLTIPVIANGEIWDWQSAQQCMAITGCDAVMIGRGALNIPNLSRVVKYN 240
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 654546145 241 EPRMPWADVVTLLQKYSRLEKQGDTGLYHVARIKQWLSYLRKEYSEALGLFQEIRTLQTSADIARVIQS 309
Cdd:PRK10550 241 EPRMPWPEVVALLQKYTRLEKQGDTGLYHVARIKQWLGYLRKEYDEATELFQEIRALNNSPDIARAIQA 309
DusA COG0042
tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; ...
2-307 9.91e-116

tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; tRNA-dihydrouridine synthase is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 439812 [Multi-domain]  Cd Length: 310  Bit Score: 335.91  E-value: 9.91e-116
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   2 RVLLAPMEGVLDSLVRELLTEVNDyDLCVTEFLRVVDMLLPEKSFYRLCPelhrqsRTPSGTLVRIQLLGQYPEWLAENA 81
Cdd:COG0042    8 PLILAPMAGVTDRPFRRLCRELGA-GLLYTEMVSARALLHGNRKTRRLLD------FDPEEHPVAVQLFGSDPEELAEAA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  82 ARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVpsHLPVTVKVRLGWDSDARQF-EIADAVQQA 160
Cdd:COG0042   81 RIAEELGADEIDINMGCPVKKVTKGGAGAALLRDPELVAEIVKAVVEAV--DVPVTVKIRLGWDDDDENAlEFARIAEDA 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 161 GATELVVHGRTKEDGYKAErINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKYN 240
Cdd:COG0042  159 GAAALTVHGRTREQRYKGP-ADWDAIARVKEAVSIPVIGNGDIFSPEDAKRMLEETGCDGVMIGRGALGNPWLFREIDAY 237
                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546145 241 -----EPRMPWADVVTLLQKYSRLEKQGDTGLYHVARIKQWLSYLRKEYSEALGLFQEIRTLQTSADIARVI 307
Cdd:COG0042  238 laggeAPPPSLEEVLELLLEHLELLLEFYGERRGLRRMRKHLLWYFKGLPGARELRRRLSKAKSLAELLELL 309
Dus pfam01207
Dihydrouridine synthase (Dus); Members of this family catalyze the reduction of the 5,6-double ...
4-308 5.06e-113

Dihydrouridine synthase (Dus); Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archae. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. Dus 1 from Saccharomyces cerevisiae acts on pre-tRNA-Phe, while Dus 2 acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active as a single subunit, requiring NADPH or NADH, and is stimulated by the presence of FAD. Some family members may be targeted to the mitochondria and even have a role in mitochondria.


Pssm-ID: 426126  Cd Length: 309  Bit Score: 329.29  E-value: 5.06e-113
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145    4 LLAPMEGVLDSLVRELLTEVNDYDLCVTEFLRVVDMLLPEKSFYRLCPELHRQsrtpsgTLVRIQLLGQYPEWLAENAAR 83
Cdd:pfam01207   1 LLAPMAGVTDLPFRRLVREYGAGDLVYTEMVTAKAQLRPEKVRIRMLSELEEP------TPLAVQLGGSDPALLAEAAKL 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   84 AVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVPshLPVTVKVRLGWDSDARQ-FEIADAVQQAGA 162
Cdd:pfam01207  75 VEDRGADGIDINMGCPSKKVTRGGGGAALLRNPDLVAQIVKAVVKAVG--IPVTVKIRIGWDDSHENaVEIAKIVEDAGA 152
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  163 TELVVHGRTKEDGYKAeRINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKY--- 239
Cdd:pfam01207 153 QALTVHGRTRAQNYEG-TADWDAIKQVKQAVSIPVIANGDITDPEDAQRCLAYTGADGVMIGRGALGNPWLFAEQHTvkt 231
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  240 --NEPRMPWADVVT-LLQKYSRLEKQG--DTGLYHVARIKQWLSY-------LRKEYSEalgLFQEIRTLQTSADIARVI 307
Cdd:pfam01207 232 geFGPSPPLAEEAEkVLRHLPYLEEFLgeDKGLRHARKHLAWYLKgfpgaaeLRRELND---VFDPVEALINLDAALRAA 308

                  .
gi 654546145  308 Q 308
Cdd:pfam01207 309 N 309
DUS_like_FMN cd02801
Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze ...
2-241 2.20e-92

Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.


Pssm-ID: 239200 [Multi-domain]  Cd Length: 231  Bit Score: 273.99  E-value: 2.20e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   2 RVLLAPMEGVLDSLVRELLTEVNdYDLCVTEFLRVVDMLLPEKSFYRLCpelhrqSRTPSGTLVRIQLLGQYPEWLAENA 81
Cdd:cd02801    1 KLILAPMVGVTDLPFRLLCRRYG-ADLVYTEMISAKALLRGNRKRLRLL------TRNPEERPLIVQLGGSDPETLAEAA 73
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  82 ARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVPshLPVTVKVRLGWDSDARQFEIADAVQQAG 161
Cdd:cd02801   74 KIVEELGADGIDLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVP--IPVTVKIRLGWDDEEETLELAKALEDAG 151
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 162 ATELVVHGRTKEDGYKaERINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKYNE 241
Cdd:cd02801  152 ASALTVHGRTREQRYS-GPADWDYIAEIKEAVSIPVIANGDIFSLEDALRCLEQTGVDGVMIGRGALGNPWLFREIKELL 230
nifR3_yhdG TIGR00737
putative TIM-barrel protein, nifR3 family; This model represents one branch of COG0042 ...
2-231 7.78e-60

putative TIM-barrel protein, nifR3 family; This model represents one branch of COG0042 (Predicted TIM-barrel enzymes, possibly dehydrogenases, nifR3 family). This branch includes NifR3 itself, from Rhodobacter capsulatus. It excludes a broadly distributed but more sparsely populated subfamily that contains sll0926 from Synechocystis PCC6803, HI0634 from Haemophilus influenzae, and BB0225 from Borrelia burgdorferi. It also excludes a shorter and more distant archaeal subfamily.The function of nifR3, a member of this family, is unknown, but it is found in an operon with nitrogen-sensing two component regulators in Rhodobacter capsulatus.Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. [Unknown function, General]


Pssm-ID: 129820  Cd Length: 319  Bit Score: 193.73  E-value: 7.78e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145    2 RVLLAPMEGVLDSLVRELLTEVNDyDLCVTEFLRVVDML-LPEKSfyrlcpeLHRQSRTPSGTLVRIQLLGQYPEWLAEN 80
Cdd:TIGR00737   9 RVVLAPMAGVTDSPFRRLVAEYGA-GLTVCEMVSSEAIVyDSQRT-------MRLLDIAEDETPISVQLFGSDPDTMAEA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   81 AARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVpsHLPVTVKVRLGWDSDARQF-EIADAVQQ 159
Cdd:TIGR00737  81 AKINEELGADIIDINMGCPVPKITKKGAGSALLRDPDLIGKIVKAVVDAV--DIPVTVKIRIGWDDAHINAvEAARIAED 158
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546145  160 AGATELVVHGRTKEDGYKAERiNWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVP 231
Cdd:TIGR00737 159 AGAQAVTLHGRTRAQGYSGEA-NWDIIARVKQAVRIPVIGNGDIFSPEDAKAMLETTGCDGVMIGRGALGNP 229
PRK10415 PRK10415
tRNA-dihydrouridine synthase B; Provisional
2-258 3.02e-36

tRNA-dihydrouridine synthase B; Provisional


Pssm-ID: 182440  Cd Length: 321  Bit Score: 132.40  E-value: 3.02e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145   2 RVLLAPMEGVLDSLVRELLTEVNdydlcvtEFLRVVDMLLPEKSFYRLCPELHRQSRTPSGTLVRIQLLGQYPEWLAENA 81
Cdd:PRK10415  11 RLIAAPMAGITDRPFRTLCYEMG-------AGLTVSEMMSSNPQVWESDKSRLRMVHIDEPGIRTVQIAGSDPKEMADAA 83
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  82 ARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAVpsHLPVTVKVRLGWDSDARQ-FEIADAVQQA 160
Cdd:PRK10415  84 RINVESGAQIIDINMGCPAKKVNRKLAGSALLQYPDLVKSILTEVVNAV--DVPVTLKIRTGWAPEHRNcVEIAQLAEDC 161
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 161 GATELVVHGRTKEDGYKAErINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNLSRVVKY- 239
Cdd:PRK10415 162 GIQALTIHGRTRACLFNGE-AEYDSIRAVKQKVSIPVIANGDITDPLKARAVLDYTGADALMIGRAAQGRPWIFREIQHy 240
                        250       260
                 ....*....|....*....|....
gi 654546145 240 ---NE--PRMPWADVVTLLQKYSR 258
Cdd:PRK10415 241 ldtGEllPPLPLAEVKRLLCAHVR 264
PRK11815 PRK11815
tRNA dihydrouridine(20/20a) synthase DusA;
65-292 4.90e-23

tRNA dihydrouridine(20/20a) synthase DusA;


Pssm-ID: 236991 [Multi-domain]  Cd Length: 333  Bit Score: 97.13  E-value: 4.90e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  65 VRIQLLGQYPEWLAENAARAVALGSYGVDLNCGCPSKLVNgSGG-GATLLKDPELIYRGAKAMREAVPshLPVTVKVRLG 143
Cdd:PRK11815  67 VALQLGGSDPADLAEAAKLAEDWGYDEINLNVGCPSDRVQ-NGRfGACLMAEPELVADCVKAMKDAVS--IPVTVKHRIG 143
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 144 WD---SDARQFEIADAVQQAGATELVVHGR--------TKEDgykaeRinwqaigEI--------------RKRLTIpVI 198
Cdd:PRK11815 144 IDdqdSYEFLCDFVDTVAEAGCDTFIVHARkawlkglsPKEN-----R-------EIppldydrvyrlkrdFPHLTI-EI 210
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 199 aNGEIWDYESAQACLKatGCDAVMIGRGALNVPNL-----SRVvkYNEPRMP--WADVVTLLQKYsrLEKQGDTG--LYH 269
Cdd:PRK11815 211 -NGGIKTLEEAKEHLQ--HVDGVMIGRAAYHNPYLlaevdREL--FGEPAPPlsRSEVLEAMLPY--IERHLAQGgrLNH 283
                        250       260
                 ....*....|....*....|...
gi 654546145 270 VARikqwlsylrkeysEALGLFQ 292
Cdd:PRK11815 284 ITR-------------HMLGLFQ 293
OYE_like_FMN_family cd02803
Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme ...
124-233 3.70e-12

Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.


Pssm-ID: 239201 [Multi-domain]  Cd Length: 327  Bit Score: 66.06  E-value: 3.70e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 124 KAMREAVPSHLPVTVK------VRLGWD-SDARqfEIADAVQQAGATELVV-------HGRTKEDGYKAERINWQAIGEI 189
Cdd:cd02803  199 AAVREAVGPDFPVGVRlsaddfVPGGLTlEEAI--EIAKALEEAGVDALHVsggsyesPPPIIPPPYVPEGYFLELAEKI 276
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 654546145 190 RKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNL 233
Cdd:cd02803  277 KKAVKIPVIAVGGIRDPEVAEEILAEGKADLVALGRALLADPDL 320
FadH COG1902
2,4-dienoyl-CoA reductase or related NADH-dependent reductase, Old Yellow Enzyme (OYE) family ...
124-228 1.16e-11

2,4-dienoyl-CoA reductase or related NADH-dependent reductase, Old Yellow Enzyme (OYE) family [Energy production and conversion];


Pssm-ID: 441506 [Multi-domain]  Cd Length: 365  Bit Score: 64.81  E-value: 1.16e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 124 KAMREAVPSHLPVTVK------VRLGWD-SDARqfEIADAVQQAGATEL-VVHGRTKEDG--YKAERINWQA--IGEIRK 191
Cdd:COG1902  207 EAVRAAVGPDFPVGVRlsptdfVEGGLTlEESV--ELAKALEEAGVDYLhVSSGGYEPDAmiPTIVPEGYQLpfAARIRK 284
                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 654546145 192 RLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGAL 228
Cdd:COG1902  285 AVGIPVIAVGGITTPEQAEAALASGDADLVALGRPLL 321
arch_FMN cd02911
Archeal FMN-binding domain. This family of archaeal proteins are part of the NAD(P)H-dependent ...
78-238 1.07e-09

Archeal FMN-binding domain. This family of archaeal proteins are part of the NAD(P)H-dependent flavin oxidoreductase (oxidored) FMN-binding family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN. The specific function of this group is unknown.


Pssm-ID: 239237 [Multi-domain]  Cd Length: 233  Bit Score: 57.72  E-value: 1.07e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  78 AENAARAVALGSYGVDLNCGCPSKLVNGSGGGATLLKDPELIYRGAKAMREAvpsHLPVTVKVRLGWDSDARqfEIADAV 157
Cdd:cd02911   87 LLNAAALVAKNAAILEINAHCRQPEMVEAGAGEALLKDPERLSEFIKALKET---GVPVSVKIRAGVDVDDE--ELARLI 161
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 158 QQAGAteLVVHGRTKEDGYKAErinWQAIGEIRKRLTIpvIANGEIWDYESAQACLKAtGCDAVMIGRGALNvPNLSRVV 237
Cdd:cd02911  162 EKAGA--DIIHVDAMDPGNHAD---LKKIRDISTELFI--IGNNSVTTIESAKEMFSY-GADMVSVARASLP-ENIEWLV 232

                 .
gi 654546145 238 K 238
Cdd:cd02911  233 E 233
OYE_YqiM_FMN cd02932
Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress ...
123-233 1.08e-09

Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing agent. The YqjM enzyme exists as a homotetramer that is assembled as a dimer of catalytically dependent dimers, while other OYE members exist only as monomers or dimers. Moreover, the protein displays a shared active site architecture where an arginine finger at the COOH terminus of one monomer extends into the active site of the adjacent monomer and is directly involved in substrate recognition. Another remarkable difference in the binding of the ligand in YqjM is represented by the contribution of the NH2-terminal tyrosine instead of a COOH-terminal tyrosine in OYE and its homologs.


Pssm-ID: 239242 [Multi-domain]  Cd Length: 336  Bit Score: 58.66  E-value: 1.08e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 123 AKAMREAVPSHLPVTVkvRL--------GWD-SDARQFeiADAVQQAGAtELV------VHGRTK---EDGYK---AERI 181
Cdd:cd02932  211 VDAVRAVWPEDKPLFV--RIsatdwvegGWDlEDSVEL--AKALKELGV-DLIdvssggNSPAQKipvGPGYQvpfAERI 285
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 654546145 182 nwqaigeiRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGRGALNVPNL 233
Cdd:cd02932  286 --------RQEAGIPVIAVGLITDPEQAEAILESGRADLVALGRELLRNPYW 329
DHOD_DHPD_FMN cd02810
Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding ...
39-229 4.66e-08

Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.


Pssm-ID: 239204 [Multi-domain]  Cd Length: 289  Bit Score: 53.51  E-value: 4.66e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  39 MLLPEKSFYRLCPE-LHRQSRTPSGTLVrIQLLGQYPEWLAENAARAVALGSYGVDLNCGCPsklvNGsGGGATLLKDPE 117
Cdd:cd02810   75 FGLPNLGLDVWLQDiAKAKKEFPGQPLI-ASVGGSSKEDYVELARKIERAGAKALELNLSCP----NV-GGGRQLGQDPE 148
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 118 LIYRGAKAMREAVPshLPVTVKvrLGWDSDARQFE-IADAVQQAGATELVVHGRT------KED-------------GYK 177
Cdd:cd02810  149 AVANLLKAVKAAVD--IPLLVK--LSPYFDLEDIVeLAKAAERAGADGLTAINTIsgrvvdLKTvgpgpkrgtgglsGAP 224
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 654546145 178 AERINWQAIGEIRKRL--TIPVIANGEIWDYESAQACLKAtGCDAVMIGRGALN 229
Cdd:cd02810  225 IRPLALRWVARLAARLqlDIPIIGVGGIDSGEDVLEMLMA-GASAVQVATALMW 277
PyrD COG0167
Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Dihydroorotate ...
75-263 1.08e-07

Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Dihydroorotate dehydrogenase is part of the Pathway/BioSystem: Pyrimidine biosynthesis


Pssm-ID: 439937 [Multi-domain]  Cd Length: 296  Bit Score: 52.38  E-value: 1.08e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  75 EWLAenAARAVAlgSYGVD---LNCGCPsklvNGSGGGATLLKDPELIYRGAKAMREAVpsHLPVTVKvrLGWD-SDARq 150
Cdd:COG0167  106 DYVE--LARRLA--DAGADyleLNISCP----NTPGGGRALGQDPEALAELLAAVKAAT--DKPVLVK--LAPDlTDIV- 172
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 151 fEIADAVQQAGATELVVHGRTKE-----DGYKAERINWQA--------------IGEIRKRL--TIPVIANGEIWDYESA 209
Cdd:COG0167  173 -EIARAAEEAGADGVIAINTTLGraidlETRRPVLANEAGglsgpalkpialrmVREVAQAVggDIPIIGVGGISTAEDA 251
                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 654546145 210 QACLKAtGCDAVMIGRGALnvpnlsrvvkYNEPRMPwADVVTLLQKYsrLEKQG 263
Cdd:COG0167  252 LEFILA-GASAVQVGTALF----------YEGPGLV-RRIIRGLEAY--LEEKG 291
DHOD_1B_like cd04740
Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation ...
84-224 3.98e-06

Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.


Pssm-ID: 240091 [Multi-domain]  Cd Length: 296  Bit Score: 47.54  E-value: 3.98e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  84 AVALGSYGVD---LNCGCPsklvNGSGGGATLLKDPELIYRGAKAMREAVPshLPVTVKvrLG-WDSDArqFEIADAVQQ 159
Cdd:cd04740  108 AEKLADAGADaieLNISCP----NVKGGGMAFGTDPEAVAEIVKAVKKATD--VPVIVK--LTpNVTDI--VEIARAAEE 177
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 160 AGAtelvvhgrtkeDGY------KAERINWQ------------------------AIGEIRKRLTIPVIANGEIWDYESA 209
Cdd:cd04740  178 AGA-----------DGLtlintlKGMAIDIEtrkpilgnvtgglsgpaikpialrMVYQVYKAVEIPIIGVGGIASGEDA 246
                        170
                 ....*....|....*
gi 654546145 210 QACLKAtGCDAVMIG 224
Cdd:cd04740  247 LEFLMA-GASAVQVG 260
His_biosynth pfam00977
Histidine biosynthesis protein; Proteins involved in steps 4 and 6 of the histidine ...
113-225 4.31e-05

Histidine biosynthesis protein; Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in this family. Histidine is formed by several complex and distinct biochemical reactions catalyzed by eight enzymes. The enzymes in this Pfam entry are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. The structure of HisA is known to be a TIM barrel fold. In some archaeal HisA proteins the TIM barrel is composed of two tandem repeats of a half barrel. This family belong to the common phosphate binding site TIM barrel family.


Pssm-ID: 425971  Cd Length: 228  Bit Score: 44.01  E-value: 4.31e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  113 LKDPELIyrgaKAMREAVPSHLPV--------TVKVRlGW--DSDARQFEIADAVQQAGATELVVHGRTKeDGYKAErIN 182
Cdd:pfam00977 106 VKNPELI----KEAAEKFGSQCIVvaidarrgKVAIN-GWreDTGIDAVEWAKELEELGAGEILLTDIDR-DGTLSG-PD 178
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 654546145  183 WQAIGEIRKRLTIPVIANGEIWDYESAQAcLKATGCDAVMIGR 225
Cdd:pfam00977 179 LELTRELAEAVNIPVIASGGVGSLEDLKE-LFTEGVDGVIAGS 220
NanE cd04729
N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to ...
175-224 7.29e-04

N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of related sugars that are found as a component of glycoproteins, gangliosides, and other sialoglycoconjugates.


Pssm-ID: 240080 [Multi-domain]  Cd Length: 219  Bit Score: 40.25  E-value: 7.29e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 654546145 175 GYKAERIN-----WQAIGEIRKRLTIPVIANGEIWDYESAQACLKAtGCDAVMIG 224
Cdd:cd04729  153 GYTEETAKtedpdFELLKELRKALGIPVIAEGRINSPEQAAKALEL-GADAVVVG 206
PRK08255 PRK08255
bifunctional salicylyl-CoA 5-hydroxylase/oxidoreductase;
124-225 8.99e-04

bifunctional salicylyl-CoA 5-hydroxylase/oxidoreductase;


Pssm-ID: 236203 [Multi-domain]  Cd Length: 765  Bit Score: 40.69  E-value: 8.99e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 124 KAMREAVPSHLPVTVK------VRLGWDSDArQFEIADAVQQAGA------------TELVVHGRTKEDGYkAERInwqa 185
Cdd:PRK08255 609 RAVRAVWPAEKPMSVRisahdwVEGGNTPDD-AVEIARAFKAAGAdlidvssgqvskDEKPVYGRMYQTPF-ADRI---- 682
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 654546145 186 igeiRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIGR 225
Cdd:PRK08255 683 ----RNEAGIATIAVGAISEADHVNSIIAAGRADLCALAR 718
His_biosynth pfam00977
Histidine biosynthesis protein; Proteins involved in steps 4 and 6 of the histidine ...
152-233 1.03e-03

Histidine biosynthesis protein; Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in this family. Histidine is formed by several complex and distinct biochemical reactions catalyzed by eight enzymes. The enzymes in this Pfam entry are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. The structure of HisA is known to be a TIM barrel fold. In some archaeal HisA proteins the TIM barrel is composed of two tandem repeats of a half barrel. This family belong to the common phosphate binding site TIM barrel family.


Pssm-ID: 425971  Cd Length: 228  Bit Score: 39.77  E-value: 1.03e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  152 EIADAVQQAGATELVV-------HGRtkedgykaeRINWQAIGEIRKRLTIPVIANGEIWDYESAQACLKAtGCDAVMIG 224
Cdd:pfam00977  33 ELAKRYEEEGADELHFvdldaakEGR---------PVNLDVVEEIAEEVFIPVQVGGGIRSLEDVERLLSA-GADRVIIG 102

                  ....*....
gi 654546145  225 RGALNVPNL 233
Cdd:pfam00977 103 TAAVKNPEL 111
PRK07259 PRK07259
dihydroorotate dehydrogenase;
91-166 1.28e-03

dihydroorotate dehydrogenase;


Pssm-ID: 235982  Cd Length: 301  Bit Score: 39.75  E-value: 1.28e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  91 GVDLNCGCPsklvNGSGGGATLLKDPELIYRGAKAMREAVpsHLPVTVK----VrlgwdSDARqfEIADAVQQAGATELV 166
Cdd:PRK07259 121 AIELNISCP----NVKHGGMAFGTDPELAYEVVKAVKEVV--KVPVIVKltpnV-----TDIV--EIAKAAEEAGADGLS 187
RspA COG4948
L-alanine-DL-glutamate epimerase or related enzyme of enolase superfamily [Cell wall/membrane ...
74-223 5.33e-03

L-alanine-DL-glutamate epimerase or related enzyme of enolase superfamily [Cell wall/membrane/envelope biogenesis, General function prediction only]; L-alanine-DL-glutamate epimerase or related enzyme of enolase superfamily is part of the Pathway/BioSystem: Non-phosphorylated Entner-Doudoroff pathway


Pssm-ID: 443975 [Multi-domain]  Cd Length: 359  Bit Score: 37.88  E-value: 5.33e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145  74 PEWLAENAARAVALG--SYGVDLncgcpsklvngsgGGATLLKDPELIyrgaKAMREAVPSHLPVTVKVRLGWD-SDARQ 150
Cdd:COG4948  138 PEEMAEEAREAVARGfrALKLKV-------------GGPDPEEDVERV----RAVREAVGPDARLRVDANGAWTlEEAIR 200
                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 654546145 151 FeiADAVQQAGAtELVvhgrtkEDGYKAEriNWQAIGEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMI 223
Cdd:COG4948  201 L--LRALEDLGL-EWI------EQPLPAE--DLEGLAELRRATPVPIAADESLTSRADFRRLIEAGAVDIVNI 262
HisF cd04731
The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol ...
113-224 7.20e-03

The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.


Pssm-ID: 240082  Cd Length: 243  Bit Score: 37.45  E-value: 7.20e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 113 LKDPELIYRGAK------------AMREAVPSHLPVTVKVRLGWDSDARQFeiADAVQQAGATELVVH-----GrTKeDG 175
Cdd:cd04731  104 VENPELIREIAKrfgsqcvvvsidAKRRGDGGYEVYTHGGRKPTGLDAVEW--AKEVEELGAGEILLTsmdrdG-TK-KG 179
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 654546145 176 YKAERINwqaigEIRKRLTIPVIANGEIWDYESAQACLKATGCDAVMIG 224
Cdd:cd04731  180 YDLELIR-----AVSSAVNIPVIASGGAGKPEHFVEAFEEGGADAALAA 223
NPD_like cd04730
2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes ...
152-224 9.84e-03

2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.


Pssm-ID: 240081 [Multi-domain]  Cd Length: 236  Bit Score: 36.69  E-value: 9.84e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546145 152 EIADAVQQAGATELVV-------HGRTKEDGYKAErinwqaIGEIRKRLTIPVIANGEIWDYESAQACLKAtGCDAVMIG 224
Cdd:cd04730  113 EEARKAEAAGADALVAqgaeaggHRGTFDIGTFAL------VPEVRDAVDIPVIAAGGIADGRGIAAALAL-GADGVQMG 185
 
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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