Psyllid ID: psy17868

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------21
Protein Sequence
MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKDLTEDILDNCFNIYE
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHccccHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHccHHHHHHHHccccccccccccccccccccccHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHcHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHccHHHHHHHHHcccHHHHHHHHHHccccccccccccEEEcccccccccccccEcccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccEEEccccccEEEccccccccEccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
maargllknpglfsganrtpmsCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIenkfhvqspcrshfvnlnkgskyeeesegkFFQEEMSSVKKQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHfvnlnkgskyeeesegkFFQEEMSSVKKQVAKDLTEDILDNCFNIYE
Flexible Loop (DISEMBL)
maargllknpglfsganrTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKDLTEDILDNCFNIYE
Low Complexity Region (SEG)
MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNLNkgskyeeesegkffqeeMSSVKKQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHFVNLNkgskyeeesegkffqeeMSSVKKQVAKDLTEDILDNCFNIYE
Disordered region (IsUnstruct)
*****************RTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNL********************************DILDNCL******QLNSLYSGVEILDFIENKFHVQSSCRSHFVNL*****************************LTEDILDNCFNI**
Disordered Region (DISOPRED)
MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNLNKGSKYEEESEGKF*******************ILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHFVN**************************VAKDLTEDILDNCFNIYE
Disordered Region (DISEMBL)
MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNLNKG********************KQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHFVNLNKG*********************QVAKDLTEDILDNCFNIYE
Disordered Region (DISPRO)
*AARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNLNKGSKYEE*S*GKFFQEEMSSVKKQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKDLTEDILDNCFNIYE
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNSLYSGVEILDFIENKFHVQSPCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEILDFIENKFHVQSSCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKDLTEDILDNCFNIYE
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	208	2.2.26 [Sep-21-2011]
Q32M08	324	tRNA-dihydrouridine(20a/2	yes	N/A	0.360	0.231	0.410	5e-12
O95620	317	tRNA-dihydrouridine(20a/2	yes	N/A	0.370	0.242	0.387	7e-12
O74553	326	tRNA-dihydrouridine(20a/2	yes	N/A	0.379	0.242	0.349	1e-07
Q09504	284	Uncharacterized tRNA-dihy	yes	N/A	0.370	0.271	0.325	4e-06

>sp|Q32M08|DUS4L_MOUSE tRNA-dihydrouridine(20a/20b) synthase [NAD(P)+]-like OS=Mus musculus GN=Dus4l PE=2 SV=1

 Score = 70.9 bits (172), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 47/78 (60%), Gaps = 3/78 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
           M ARGLL NP +F+G   TP+ CI +WV +       FM F  HL++M +K+ S QEK  
Sbjct: 238 MVARGLLANPAMFAGYEETPLKCIWDWVDISLELGTPFMCFHQHLMYMMEKITSRQEKRV 297

Query: 58  LNSLYSGVEILDFIENKF 75
            N+L S   +LD++ + +
Sbjct: 298 FNALSSTSAVLDYLTDHY 315

Catalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs.
Mus musculus (taxid: 10090)
EC: 1EC: .EC: 3EC: .EC: 1EC: .EC: -

>sp|O95620|DUS4L_HUMAN tRNA-dihydrouridine(20a/20b) synthase [NAD(P)+]-like OS=Homo sapiens GN=DUS4L PE=2 SV=2

 Score = 70.5 bits (171), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 3/80 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
           M ARGLL NP +F+G   TP+ CI +WV +       +M F  HL++M +K+ S QEK  
Sbjct: 238 MVARGLLANPAMFAGYEETPLKCIWDWVDIALELGTPYMCFHQHLMYMMEKITSRQEKRV 297

Query: 58  LNSLYSGVEILDFIENKFHV 77
            N+L S   I+D++ + + +
Sbjct: 298 FNALSSTSAIIDYLTDHYGI 317

Catalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs.

Homo sapiens (taxid: 9606)

EC: 1

EC: .

EC: 3

EC: .

EC: 1

EC: .

EC: -

>sp|O74553|DUS4_SCHPO tRNA-dihydrouridine(20a/20b) synthase [NAD(P)+] OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=dus4 PE=3 SV=1

 Score = 56.6 bits (135), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/83 (34%), Positives = 48/83 (57%), Gaps = 4/83 (4%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEE--WVSMKHN-HFMTFLHHLVFMCDKLLSSQEKDQ 57
           M+ARGLL+NP LF+G   TP  C+E   W S  ++ +F  F HHL  M  ++ + +E+  
Sbjct: 230 MSARGLLENPALFAGYEETPWGCVERFLWYSTSYSLNFHLFYHHLTTMMGQMTTKRERMT 289

Query: 58  LNSLYSGVEILDFIENKFHVQSP 80
           +    S   ++D+++  F V+ P
Sbjct: 290 IPK-DSFASVMDWLDEHFVVRRP 311

Catalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 1

EC: .

EC: 3

EC: .

EC: 1

EC: .

EC: 9

EC: 0

>sp|Q09504|YQI2_CAEEL Uncharacterized tRNA-dihydrouridine synthase-like protein C45G9.2 OS=Caenorhabditis elegans GN=C45G9.2 PE=3 SV=2

 Score = 51.2 bits (121), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 3/80 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFL---HHLVFMCDKLLSSQEKDQ 57
           MAA GLL NP LF+G   TP  C+E ++ +   + + +L    HL +M   + S+Q++  
Sbjct: 205 MAANGLLDNPALFAGHEHTPSDCVENFMRLSREYGLDWLLYHQHLQYMLRPVFSAQQRRV 264

Query: 58  LNSLYSGVEILDFIENKFHV 77
            N L   + I  F+ N   +
Sbjct: 265 FNELNGRLAIDHFLNNLLDI 284

Catalyzes the synthesis of dihydrouridine, a modified base found in the D-loop of most tRNAs.

Caenorhabditis elegans (taxid: 6239)

EC: 1

EC: .

EC: -

EC: .

EC: -

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	208
328713887	350	PREDICTED: tRNA-dihydrouridine synthase	0.370	0.22	0.428	4e-16
383848070	349	PREDICTED: tRNA-dihydrouridine(20a/20b)	0.514	0.306	0.375	1e-12
260818049	347	hypothetical protein BRAFLDRAFT_129997 [	0.370	0.221	0.387	2e-12
126340537	317	PREDICTED: tRNA-dihydrouridine synthase	0.360	0.236	0.435	2e-12
327273572	325	PREDICTED: tRNA-dihydrouridine synthase	0.375	0.24	0.419	2e-12
51513200	308	MGC79829 protein [Xenopus (Silurana) tro	0.375	0.253	0.395	3e-12
307208699	351	tRNA-dihydrouridine synthase 4-like [Har	0.379	0.225	0.414	3e-12
89266831	324	dihydrouridine synthase 4-like (S. cerev	0.375	0.240	0.395	3e-12
349501068	315	tRNA-dihydrouridine synthase 4-like [Xen	0.375	0.247	0.395	3e-12
395539169	317	PREDICTED: tRNA-dihydrouridine(20a/20b)	0.360	0.236	0.423	4e-12

>gi|328713887|ref|XP_001951826.2| PREDICTED: tRNA-dihydrouridine synthase 4-like [Acyrthosiphon pisum]

 Score = 90.1 bits (222), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 56/77 (72%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNHFMTFLHHLVFMCDKLLSSQEKDQLNS 60
           M+ARG+L NPGLF+G   TP+S +++W+++KH +F+ F HHLVFMC++LL    +   N 
Sbjct: 227 MSARGILHNPGLFAGYQTTPLSAVQDWLNIKHTNFLWFHHHLVFMCERLLPKTARKTFNQ 286

Query: 61  LYSGVEILDFIENKFHV 77
           L +  +++ F+E++ H+
Sbjct: 287 LRTASDVVSFLEDQLHI 303

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383848070|ref|XP_003699675.1| PREDICTED: tRNA-dihydrouridine(20a/20b) synthase [NAD(P)+]-like [Megachile rotundata]

 Score = 79.0 bits (193), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/120 (37%), Positives = 66/120 (55%), Gaps = 13/120 (10%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWV---SMKHNHFMTFLHHLVFMCDKLLSSQEKDQ 57
           MAARG+L NP LFSG + TP+ CI++W+   S+    F+ F HHLVFM +KLL  + +  
Sbjct: 224 MAARGILTNPALFSGHSVTPLDCIQDWLDITSVIPTQFLCFHHHLVFMLEKLLPKKSRIF 283

Query: 58  LNSLYSGVEILDFIENKFHVQSPCRSHFVNLNKGSKYEEESEGKFFQEEMSSVKKQVAKD 117
            N+L +   +L+F+EN + ++          N  SK  E  +  F    M    K +AKD
Sbjct: 284 FNNLQNKTAVLEFLENTYGIKP---------NNNSKLFEPIKCNFKVPNMKC-NKFIAKD 333

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

>gi|260818049|ref|XP_002603897.1| hypothetical protein BRAFLDRAFT_129997 [Branchiostoma floridae] gi|229289221|gb|EEN59908.1| hypothetical protein BRAFLDRAFT_129997 [Branchiostoma floridae]

 Score = 78.6 bits (192), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 53/80 (66%), Gaps = 3/80 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
           MAARG+L+NPG+++G ++TP+ C+++WV +      HF  F HHL++M +++    EK  
Sbjct: 237 MAARGILQNPGMYAGYDQTPLQCVQDWVDISLKLGTHFTCFHHHLMYMFERVTPKSEKRV 296

Query: 58  LNSLYSGVEILDFIENKFHV 77
            N+L S   +LD++E  + V
Sbjct: 297 FNALTSTAAVLDYLEEHYGV 316

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|126340537|ref|XP_001363271.1| PREDICTED: tRNA-dihydrouridine synthase 4-like [Monodelphis domestica]

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 49/78 (62%), Gaps = 3/78 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
           M ARGLL NP +F+G   TP+ CI +WV +   H   FM F HHL++M +++ S QEK  
Sbjct: 238 MVARGLLANPAMFAGYKETPLKCIWDWVDIALEHGTPFMCFHHHLMYMMERITSKQEKKM 297

Query: 58  LNSLYSGVEILDFIENKF 75
            NSL S   +LD++ + +
Sbjct: 298 FNSLSSTTAVLDYLTDHY 315

Source: Monodelphis domestica

Species: Monodelphis domestica

Genus: Monodelphis

Family: Didelphidae

Order: Didelphimorphia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|327273572|ref|XP_003221554.1| PREDICTED: tRNA-dihydrouridine synthase 4-like [Anolis carolinensis]

 Score = 78.2 bits (191), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 51/81 (62%), Gaps = 3/81 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
           M ARGLL NP +F+G   TP+ C+++WV +   H   FM F HHL++M +++ S QEK  
Sbjct: 245 MVARGLLANPAMFAGYEETPLECVQDWVHIALEHGTPFMCFHHHLMYMLERITSKQEKKI 304

Query: 58  LNSLYSGVEILDFIENKFHVQ 78
            N L S   +LD++ + + VQ
Sbjct: 305 FNVLSSTSAVLDYLRDNYGVQ 325

Source: Anolis carolinensis

Species: Anolis carolinensis

Genus: Anolis

Family: Iguanidae

Order: Squamata

Phylum: Chordata

Superkingdom: Eukaryota

>gi|51513200|gb|AAH80375.1| MGC79829 protein [Xenopus (Silurana) tropicalis]

 Score = 77.8 bits (190), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 32/81 (39%), Positives = 51/81 (62%), Gaps = 3/81 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
           MAARGLL NP +F+G   TP++CI++W+ +   H   F    HHL++M +++ S QEK  
Sbjct: 228 MAARGLLANPAMFAGYEETPLACIQDWIDITLEHGTPFTCLHHHLIYMMERITSKQEKRV 287

Query: 58  LNSLYSGVEILDFIENKFHVQ 78
            N L S   +LD++ + + +Q
Sbjct: 288 FNVLSSTSAVLDYLRDHYGIQ 308

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|307208699|gb|EFN85989.1| tRNA-dihydrouridine synthase 4-like [Harpegnathos saltator]

 Score = 77.4 bits (189), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 34/82 (41%), Positives = 55/82 (67%), Gaps = 3/82 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWV---SMKHNHFMTFLHHLVFMCDKLLSSQEKDQ 57
           M+ARG+L NP LFSG + TP+ CI++W+   S     F  F HHLVFM +K+L  +++  
Sbjct: 224 MSARGILTNPALFSGHSTTPLICIQDWLDIASTIPTEFQCFHHHLVFMLEKVLPKKDRVL 283

Query: 58  LNSLYSGVEILDFIENKFHVQS 79
            N+L + + +LDF+EN ++++ 
Sbjct: 284 FNNLQNKLSVLDFLENYYNIRP 305

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|89266831|emb|CAJ83965.1| dihydrouridine synthase 4-like (S. cerevisiae) [Xenopus (Silurana) tropicalis]

 Score = 77.4 bits (189), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 32/81 (39%), Positives = 51/81 (62%), Gaps = 3/81 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
           MAARGLL NP +F+G   TP++CI++W+ +   H   F    HHL++M +++ S QEK  
Sbjct: 244 MAARGLLANPAMFAGYEETPLACIQDWIDITLEHGTPFTCLHHHLIYMMERITSKQEKRV 303

Query: 58  LNSLYSGVEILDFIENKFHVQ 78
            N L S   +LD++ + + +Q
Sbjct: 304 FNVLSSTSAVLDYLRDHYGIQ 324

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|349501068|ref|NP_001007929.2| tRNA-dihydrouridine synthase 4-like [Xenopus (Silurana) tropicalis]

 Score = 77.4 bits (189), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 32/81 (39%), Positives = 51/81 (62%), Gaps = 3/81 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
           MAARGLL NP +F+G   TP++CI++W+ +   H   F    HHL++M +++ S QEK  
Sbjct: 235 MAARGLLANPAMFAGYEETPLACIQDWIDITLEHGTPFTCLHHHLIYMMERITSKQEKRV 294

Query: 58  LNSLYSGVEILDFIENKFHVQ 78
            N L S   +LD++ + + +Q
Sbjct: 295 FNVLSSTSAVLDYLRDHYGIQ 315

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|395539169|ref|XP_003771545.1| PREDICTED: tRNA-dihydrouridine(20a/20b) synthase [NAD(P)+]-like [Sarcophilus harrisii]

 Score = 77.0 bits (188), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 49/78 (62%), Gaps = 3/78 (3%)

Query: 1   MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
           M ARGLL NP +F+G   TP+ CI +WV +   H   FM F HHL++M +++ S QEK  
Sbjct: 238 MVARGLLANPAMFAGYKETPLKCIWDWVDIALEHGTPFMCFHHHLMYMMERITSKQEKKV 297

Query: 58  LNSLYSGVEILDFIENKF 75
            N+L S   +LD++ + +
Sbjct: 298 FNALSSTTAVLDYLTDHY 315

Source: Sarcophilus harrisii

Species: Sarcophilus harrisii

Genus: Sarcophilus

Family: Dasyuridae

Order: Dasyuromorphia

Class: Mammalia

Phylum: Chordata

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	208
UNIPROTKB|F1NHN2	307	DUS4L "tRNA-dihydrouridine syn	0.379	0.257	0.414	5.7e-13
ZFIN|ZDB-GENE-040801-233	307	dus4l "dihydrouridine synthase	0.360	0.244	0.397	1.6e-12
MGI|MGI:1919166	324	Dus4l "dihydrouridine synthase	0.399	0.256	0.395	9.3e-12
UNIPROTKB|E2RRJ8	317	DUS4L "Uncharacterized protein	0.370	0.242	0.387	1.1e-11
UNIPROTKB|D4A0T1	321	Dus4l "Protein Dus4l" [Rattus	0.360	0.233	0.397	3.3e-11
RGD|1311445	324	Dus4l "dihydrouridine synthase	0.360	0.231	0.397	3.4e-11
UNIPROTKB|O95620	317	DUS4L "tRNA-dihydrouridine(20a	0.370	0.242	0.387	5.3e-11
DICTYBASE|DDB_G0291360	344	dus4l "tRNA-dihydrouridine syn	0.360	0.218	0.367	3.8e-09
POMBASE|SPCC777.15	326	SPCC777.15 "tRNA dihydrouridin	0.379	0.242	0.349	9.4e-09
FB|FBgn0032750	396	CG10495 [Drosophila melanogast	0.375	0.196	0.344	1.4e-08

UNIPROTKB|F1NHN2 DUS4L "tRNA-dihydrouridine synthase" [Gallus gallus (taxid:9031)]

 Score = 174 (66.3 bits), Expect = 5.7e-13, P = 5.7e-13
 Identities = 34/82 (41%), Positives = 50/82 (60%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
             M ARGLL NP +F+G   TP+ CI++WV +   H   F  F HHL++M +++ S QEK  
Sbjct:   226 MVARGLLANPAMFAGYEETPLKCIQDWVDIALEHGTPFTCFHHHLMYMMERITSKQEKKV 285

Query:    58 LNSLYSGVEILDFIENKFHVQS 79
              N L S   +LD++ + + V S
Sbjct:   286 FNILSSTSAVLDYLGHHYGVCS 307

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-040801-233 dus4l "dihydrouridine synthase 4-like (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 170 (64.9 bits), Expect = 1.6e-12, P = 1.6e-12
 Identities = 31/78 (39%), Positives = 47/78 (60%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHNH---FMTFLHHLVFMCDKLLSSQEKDQ 57
             M+ARGLL NP +FSG   TP+ C+ +WV +   H   F  F HHL+ M +++ S  E+  
Sbjct:   227 MSARGLLSNPAMFSGFEETPLQCVWDWVDIAAEHGTPFTCFHHHLIHMLERITSQPERRV 286

Query:    58 LNSLYSGVEILDFIENKF 75
              N+L S   ++DF+ N +
Sbjct:   287 FNNLSSTSAVIDFLHNTY 304

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0016491 "oxidoreductase activity" evidence=IEA

MGI|MGI:1919166 Dus4l "dihydrouridine synthase 4-like (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 164 (62.8 bits), Expect = 9.3e-12, P = 9.3e-12
 Identities = 34/86 (39%), Positives = 51/86 (59%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
             M ARGLL NP +F+G   TP+ CI +WV +       FM F  HL++M +K+ S QEK  
Sbjct:   238 MVARGLLANPAMFAGYEETPLKCIWDWVDISLELGTPFMCFHQHLMYMMEKITSRQEKRV 297

Query:    58 LNSLYSGVEILDFIENKFHVQSPCRS 83
              N+L S   +LD++ + +  +S  +S
Sbjct:   298 FNALSSTSAVLDYLTDHYGDESLSKS 323

GO:0003824 "catalytic activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0008033 "tRNA processing" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

UNIPROTKB|E2RRJ8 DUS4L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 163 (62.4 bits), Expect = 1.1e-11, P = 1.1e-11
 Identities = 31/80 (38%), Positives = 49/80 (61%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
             M ARGLL NP +F+G N TP+ CI +W+ +       +M F  HL++M +K+ S QEK  
Sbjct:   238 MVARGLLANPAMFAGYNETPLQCIWDWIDIALELGTPYMCFHQHLMYMMEKITSRQEKRV 297

Query:    58 LNSLYSGVEILDFIENKFHV 77
              N+L S   +LD++ + + +
Sbjct:   298 FNALSSTSAVLDYLTDHYGI 317

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

UNIPROTKB|D4A0T1 Dus4l "Protein Dus4l" [Rattus norvegicus (taxid:10116)]

 Score = 159 (61.0 bits), Expect = 3.3e-11, P = 3.3e-11
 Identities = 31/78 (39%), Positives = 47/78 (60%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
             M ARGLL NP +F+G   TP+ C+ +WV +       FM F  HL++M +K+ S QEK  
Sbjct:   238 MVARGLLANPAMFAGYEETPLKCVWDWVDIALELGTPFMCFHQHLMYMMEKITSRQEKRV 297

Query:    58 LNSLYSGVEILDFIENKF 75
              N+L S   +LD++ + +
Sbjct:   298 FNALSSTSAVLDYLTDHY 315

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

RGD|1311445 Dus4l "dihydrouridine synthase 4-like (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]

 Score = 159 (61.0 bits), Expect = 3.4e-11, P = 3.4e-11
 Identities = 31/78 (39%), Positives = 47/78 (60%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
             M ARGLL NP +F+G   TP+ C+ +WV +       FM F  HL++M +K+ S QEK  
Sbjct:   238 MVARGLLANPAMFAGYEETPLKCVWDWVDIALELGTPFMCFHQHLMYMMEKITSRQEKRV 297

Query:    58 LNSLYSGVEILDFIENKF 75
              N+L S   +LD++ + +
Sbjct:   298 FNALSSTSAVLDYLTDHY 315

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

UNIPROTKB|O95620 DUS4L "tRNA-dihydrouridine(20a/20b) synthase [NAD(P)+]-like" [Homo sapiens (taxid:9606)]

 Score = 157 (60.3 bits), Expect = 5.3e-11, P = 5.3e-11
 Identities = 31/80 (38%), Positives = 48/80 (60%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMK---HNHFMTFLHHLVFMCDKLLSSQEKDQ 57
             M ARGLL NP +F+G   TP+ CI +WV +       +M F  HL++M +K+ S QEK  
Sbjct:   238 MVARGLLANPAMFAGYEETPLKCIWDWVDIALELGTPYMCFHQHLMYMMEKITSRQEKRV 297

Query:    58 LNSLYSGVEILDFIENKFHV 77
              N+L S   I+D++ + + +
Sbjct:   298 FNALSSTSAIIDYLTDHYGI 317

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

DICTYBASE|DDB_G0291360 dus4l "tRNA-dihydrouridine synthase 4-like protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 141 (54.7 bits), Expect = 3.8e-09, P = 3.8e-09
 Identities = 29/79 (36%), Positives = 49/79 (62%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEEWVSMKHN----HFMTFLHHLVFMCDKLLSSQEKD 56
             M+ARGLL NP LF G ++TP+ CI++++++       H + F  HL++M  +  +  EK 
Sbjct:   264 MSARGLLTNPALFQGYDKTPIECIKDFINIYSEYGGLHPVIFHRHLMYMLYEYHNKNEKS 323

Query:    57 QLNSLYSGVEILDFIENKF 75
             + N L +   I+D+I +KF
Sbjct:   324 EFNKLSTISGIMDYINDKF 342

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA;ISS

GO:0008033 "tRNA processing" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0002943 "tRNA dihydrouridine synthesis" evidence=IEA;ISS

GO:0006400 "tRNA modification" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS

GO:0016491 "oxidoreductase activity" evidence=IEA

POMBASE|SPCC777.15 SPCC777.15 "tRNA dihydrouridine synthase Dus4 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 137 (53.3 bits), Expect = 9.4e-09, P = 9.4e-09
 Identities = 29/83 (34%), Positives = 48/83 (57%)

Query:     1 MAARGLLKNPGLFSGANRTPMSCIEE--WVSMKHN-HFMTFLHHLVFMCDKLLSSQEKDQ 57
             M+ARGLL+NP LF+G   TP  C+E   W S  ++ +F  F HHL  M  ++ + +E+  
Sbjct:   230 MSARGLLENPALFAGYEETPWGCVERFLWYSTSYSLNFHLFYHHLTTMMGQMTTKRERMT 289

Query:    58 LNSLYSGVEILDFIENKFHVQSP 80
             +    S   ++D+++  F V+ P
Sbjct:   290 IPK-DSFASVMDWLDEHFVVRRP 311

GO:0005739 "mitochondrion" evidence=IDA

GO:0006400 "tRNA modification" evidence=ISO

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=ISO

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

FB|FBgn0032750 CG10495 [Drosophila melanogaster (taxid:7227)]

 Score = 137 (53.3 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 30/87 (34%), Positives = 48/87 (55%)

Query:     1 MAARGLLKNPGLFSG----ANRTPMSCIEEWVSMKHNH-----FMTFLHHLVFMCDKLLS 51
             MAARGLL NP LF+        TP+SC+++W+ +         F  F HHL FM    + 
Sbjct:   238 MAARGLLANPALFNSNYPDGKTTPLSCVQQWLDIASAAGDNLLFQCFHHHLTFMYSAQMK 297

Query:    52 SQEKDQLNSLYSGVEILDFIENKFHVQ 78
                + Q NSL S  +++DF++  ++++
Sbjct:   298 RDLRVQFNSLGSKEQVVDFLKEHYNLE 324

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

GO:0017150 "tRNA dihydrouridine synthase activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	208
KOG2335|consensus	358		99.71
TIGR00737	319	nifR3_yhdG putative TIM-barrel protein, nifR3 fami	97.86
PRK10415	321	tRNA-dihydrouridine synthase B; Provisional	97.59
PF01207	309	Dus: Dihydrouridine synthase (Dus); InterPro: IPR0	97.1
TIGR00742	318	yjbN tRNA dihydrouridine synthase A. Members of th	97.07
PRK10550	312	tRNA-dihydrouridine synthase C; Provisional	96.71
COG0042	323	tRNA-dihydrouridine synthase [Translation, ribosom	96.26
PRK11815	333	tRNA-dihydrouridine synthase A; Provisional	94.3

>KOG2335|consensus

Probab=99.71  E-value=7.7e-18  Score=154.51  Aligned_cols=81  Identities=38%  Similarity=0.609  Sum_probs=74.4

Q ss_pred             CccccCCcCCcCC--CCCCCChhHHHHHHHHHhh-h---h-HHHHHHHHHHHHhhhcCHH--HHHHHHccCCHHHHHHHH
Q psy17868          1 MAARGLLKNPGLF--SGANRTPMSCIEEWVSMKH-N---H-FMTFLHHLVFMCDKLLSSQ--EKDQLNSLYSGVEILDFI   71 (208)
Q Consensus         1 MSARGLLaNPALF--AGy~~TPWEcVeEYLdLa~-l---P-FslIhhHLfkMLe~~LsKd--LR~eLNsL~S~~eVVDfL   71 (208)
                      |||||+|+|||+|  +||.++||+|+++|++++. .   + ++++|+||++|++++++..  +|..+|.+++...+++|+
T Consensus       231 M~arglL~NPa~F~~~~~~~~~~~~~~~~l~~~~e~~g~~~~~~~~~Hl~~m~~~~~~~~~~~r~~~~~~~~~~~~~~~l  310 (358)
T KOG2335|consen  231 MSARGLLYNPALFLTAGYGPTPWGCVEEYLDIAREFGGLSSFSLIRHHLFKMLRPLLSIHQDLRRDLAALNSCESVIDFL  310 (358)
T ss_pred             EecchhhcCchhhccCCCCCCHHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHhhhHHHHHHHhhccchhhHHHHH
Confidence            9999999999999  9999999999999999999 3   3 9999999999999999764  799999999999999999


Q ss_pred             h-hhccccCCC
Q psy17868         72 E-NKFHVQSPC   81 (208)
Q Consensus        72 d-e~f~LkR~~   81 (208)
                      . .++.+++.+
T Consensus       311 ~~~~~~v~~~~  321 (358)
T KOG2335|consen  311 EELVLMVRKRV  321 (358)
T ss_pred             HHHHHHHHhhh
Confidence            9 778776644

>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family

Probab=97.86  E-value=2.3e-05  Score=68.93  Aligned_cols=75  Identities=21%  Similarity=0.327  Sum_probs=59.6

Q ss_pred             CccccCCcCCcCCC--------CCCCC------hhHHHHHHHHHhh------hhHHHHHHHHHHHHhhh-cCHHHHHHHH
Q psy17868          1 MAARGLLKNPGLFS--------GANRT------PMSCIEEWVSMKH------NHFMTFLHHLVFMCDKL-LSSQEKDQLN   59 (208)
Q Consensus         1 MSARGLLaNPALFA--------Gy~~T------PWEcVeEYLdLa~------lPFslIhhHLfkMLe~~-LsKdLR~eLN   59 (208)
                      |.+||+|+||.||.        |...+      ..+++.+|++++.      .++..+++|+.+++... ..++.|..++
T Consensus       220 migR~~l~~P~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~r~~~~  299 (319)
T TIGR00737       220 MIGRGALGNPWLFRQIEQYLTTGKYKPPPTFAEKLDAILRHLQLLADYYGESKGLRIARKHIAWYLKGFPGNAALRQTLN  299 (319)
T ss_pred             EEChhhhhCChHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhcCCcHHHHHHHHH
Confidence            78999999999986        32221      2366778887764      45788999999998655 4678999999


Q ss_pred             ccCCHHHHHHHHhhhc
Q psy17868         60 SLYSGVEILDFIENKF   75 (208)
Q Consensus        60 sL~S~~eVVDfLde~f   75 (208)
                      ++++..++.+++++-+
T Consensus       300 ~~~~~~~~~~~~~~~~  315 (319)
T TIGR00737       300 HASSFQEVKQLLDDFF  315 (319)
T ss_pred             cCCCHHHHHHHHHHHH
Confidence            9999999999998754

Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.

>PRK10415 tRNA-dihydrouridine synthase B; Provisional

Probab=97.59  E-value=0.0001  Score=65.85  Aligned_cols=75  Identities=19%  Similarity=0.270  Sum_probs=56.4

Q ss_pred             CccccCCcCCcCCCCC----------CCChh-HH---HHHHHHHhh------hhHHHHHHHHHHHHhhh-cCHHHHHHHH
Q psy17868          1 MAARGLLKNPGLFSGA----------NRTPM-SC---IEEWVSMKH------NHFMTFLHHLVFMCDKL-LSSQEKDQLN   59 (208)
Q Consensus         1 MSARGLLaNPALFAGy----------~~TPW-Ec---VeEYLdLa~------lPFslIhhHLfkMLe~~-LsKdLR~eLN   59 (208)
                      |.+||+|.||.||...          .+++| +.   +.++++...      .++..+|.|+.+++... -.+++|..++
T Consensus       222 miGR~~l~nP~if~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rk~~~~y~~~~~~~~~~r~~~~  301 (321)
T PRK10415        222 MIGRAAQGRPWIFREIQHYLDTGELLPPLPLAEVKRLLCAHVRELHDFYGPAKGYRIARKHVSWYLQEHAPNDQFRRTFN  301 (321)
T ss_pred             EEChHhhcCChHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            7899999999999542          23345 33   333333322      46788999999998877 4678999999


Q ss_pred             ccCCHHHHHHHHhhhc
Q psy17868         60 SLYSGVEILDFIENKF   75 (208)
Q Consensus        60 sL~S~~eVVDfLde~f   75 (208)
                      .++|+.++.+++++.+
T Consensus       302 ~~~~~~~~~~~~~~~~  317 (321)
T PRK10415        302 AIEDASEQLEALEAYF  317 (321)
T ss_pred             cCCCHHHHHHHHHHHH
Confidence            9999999999998754

>PF01207 Dus: Dihydrouridine synthase (Dus); InterPro: IPR001269 Members of this family catalyse the reduction of the 5,6-double bond of a uridine residue on tRNA

Probab=97.10  E-value=8.3e-05  Score=65.96  Aligned_cols=74  Identities=24%  Similarity=0.328  Sum_probs=40.9

Q ss_pred             CccccCCcCCcCCCC-------CCCChhHHHHHHHHHhh-------------hhHHHHHHHHHHHHhhh-cCHHHHHHHH
Q psy17868          1 MAARGLLKNPGLFSG-------ANRTPMSCIEEWVSMKH-------------NHFMTFLHHLVFMCDKL-LSSQEKDQLN   59 (208)
Q Consensus         1 MSARGLLaNPALFAG-------y~~TPWEcVeEYLdLa~-------------lPFslIhhHLfkMLe~~-LsKdLR~eLN   59 (208)
                      |.|||+|.||.||++       .....+. +.+++++..             ..+..++.|+..++... ..+..|..++
T Consensus       211 MigRgal~nP~lf~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~y~~~~~~~~~~r~~l~  289 (309)
T PF01207_consen  211 MIGRGALGNPWLFREIDQIKEGEPEPFPP-IAERLDIILRHYDYMEEFYGEEKALRQMRKHLKWYFKGFPGARKFRRELN  289 (309)
T ss_dssp             EESHHHCC-CCHHCHHHCHHHHTT--S---HHHHHHHHHHHHHHHHHHHHCCHHHHHHHTTCCCCTTTSTTHHHHHHHHC
T ss_pred             EEchhhhhcCHHhhhhhhhccCCCCCCCc-hhHHHHHHHHHHHHHHHHhccCchHHHHHHHHHHHHccCCcHHHHHHHHH
Confidence            899999999999993       2222222 333333333             22233333333333332 1357999999


Q ss_pred             ccCCHHHHHHHHhhhc
Q psy17868         60 SLYSGVEILDFIENKF   75 (208)
Q Consensus        60 sL~S~~eVVDfLde~f   75 (208)
                      ++.+..++.+.|++.|
T Consensus       290 ~~~~~~e~~~~l~~~~  305 (309)
T PF01207_consen  290 KCKTLEEFLELLEEAF  305 (309)
T ss_dssp             CH-SHHHHHHHH----
T ss_pred             hhCCHHHHhhhhcccc
Confidence            9999999999998544

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 (P53759 from SWISSPROT) from Saccharomyces cerevisiae (Baker's yeast) acts on pre-tRNA-Phe, while Dus 2 (P53720 from SWISSPROT) 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 []. ; GO: 0017150 tRNA dihydrouridine synthase activity, 0050660 flavin adenine dinucleotide binding, 0008033 tRNA processing, 0055114 oxidation-reduction process; PDB: 1VHN_A 3B0P_A 3B0V_D 3B0U_Y.

>TIGR00742 yjbN tRNA dihydrouridine synthase A

Probab=97.07  E-value=0.00037  Score=62.72  Aligned_cols=74  Identities=16%  Similarity=0.138  Sum_probs=55.5

Q ss_pred             CccccCCcCCcCCCCC----------CCChhHHHHHHHHHhh------hhHHHHHHHHHHHHhhhc-CHHHHHHHHccCC
Q psy17868          1 MAARGLLKNPGLFSGA----------NRTPMSCIEEWVSMKH------NHFMTFLHHLVFMCDKLL-SSQEKDQLNSLYS   63 (208)
Q Consensus         1 MSARGLLaNPALFAGy----------~~TPWEcVeEYLdLa~------lPFslIhhHLfkMLe~~L-sKdLR~eLNsL~S   63 (208)
                      |.+||+|.||.||...          .+++++.++.|++++.      ..+..+|.|+.+.+...- .++.|.+++...+
T Consensus       221 MigRgal~nP~if~~~~~~l~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~rk~~~~y~~g~~~~~~~r~~~~~~~~  300 (318)
T TIGR00742       221 MVGREAYENPYLLANVDREIFNETDEILTRKEIVEQMLPYIEEYLSQGLSLNHITRHLLGLFQGKPGAKQWRRYLSENAP  300 (318)
T ss_pred             EECHHHHhCCHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHccCCCHHHHHHHHHhccc
Confidence            8899999999999632          2466789888888877      357789999999877653 5789999988666


Q ss_pred             H-HHHHHHHhhh
Q psy17868         64 G-VEILDFIENK   74 (208)
Q Consensus        64 ~-~eVVDfLde~   74 (208)
                      . ....++|+..
T Consensus       301 ~~~~~~~~~~~~  312 (318)
T TIGR00742       301 KAGAGIEVLETA  312 (318)
T ss_pred             CCCCcHHHHHHH
Confidence            4 3444555543

Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.

>PRK10550 tRNA-dihydrouridine synthase C; Provisional

Probab=96.71  E-value=0.0034  Score=56.43  Aligned_cols=73  Identities=18%  Similarity=0.308  Sum_probs=53.4

Q ss_pred             CccccCCcCCcCCCC----CCCChh-H---HHHHHHHHhh------hhHHHHHHHHHHHHhhhc-CHHHHHHHHccCCHH
Q psy17868          1 MAARGLLKNPGLFSG----ANRTPM-S---CIEEWVSMKH------NHFMTFLHHLVFMCDKLL-SSQEKDQLNSLYSGV   65 (208)
Q Consensus         1 MSARGLLaNPALFAG----y~~TPW-E---cVeEYLdLa~------lPFslIhhHLfkMLe~~L-sKdLR~eLNsL~S~~   65 (208)
                      |.+||+|.||.||..    ...++| +   .+.+|+++..      ....-+|.|+.+++...- .++.|..++.+++..
T Consensus       222 miGRg~l~nP~lf~~~~~g~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~rk~~~~y~~~~~~~~~~r~~i~~~~~~~  301 (312)
T PRK10550        222 MIGRGALNIPNLSRVVKYNEPRMPWPEVVALLQKYTRLEKQGDTGLYHVARIKQWLGYLRKEYDEATELFQEIRALNNSP  301 (312)
T ss_pred             EEcHHhHhCcHHHHHhhcCCCCCCHHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhcCCcHHHHHHHHHcCCCHH
Confidence            789999999999973    322334 2   3456666643      123447889988877664 468899999999999


Q ss_pred             HHHHHHhh
Q psy17868         66 EILDFIEN   73 (208)
Q Consensus        66 eVVDfLde   73 (208)
                      ++.+.+++
T Consensus       302 e~~~~~~~  309 (312)
T PRK10550        302 DIARAIQA  309 (312)
T ss_pred             HHHHHHHh
Confidence            99888764

>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]

Probab=96.26  E-value=0.0094  Score=53.92  Aligned_cols=74  Identities=24%  Similarity=0.345  Sum_probs=55.8

Q ss_pred             CccccCCcCCcCCC-------CCCC-Chh----HHHHHHHHHhh-----hhHHHHHHHHHHHHhhhc-CHHHHHHHHccC
Q psy17868          1 MAARGLLKNPGLFS-------GANR-TPM----SCIEEWVSMKH-----NHFMTFLHHLVFMCDKLL-SSQEKDQLNSLY   62 (208)
Q Consensus         1 MSARGLLaNPALFA-------Gy~~-TPW----EcVeEYLdLa~-----lPFslIhhHLfkMLe~~L-sKdLR~eLNsL~   62 (208)
                      |.+||.+.||.||.       |... .+|    +++.+|++...     .++..++.|+.+++...- .++.|..++++.
T Consensus       226 MigRga~~nP~l~~~i~~~~~g~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~r~h~~~~~~~~~~a~~~r~~~~~~~  305 (323)
T COG0042         226 MIGRGALGNPWLFRQIDYLETGELLPPTLAEVLDILREHLELLLEYYGKKGLRRLRKHLGYYLKGLPGARELRRALNKAE  305 (323)
T ss_pred             EEcHHHccCCcHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHhhcCccHHHHHHHHhccC
Confidence            89999999999976       3332 334    34445555544     567889999999988875 568899999999


Q ss_pred             CHHHHHHHHhhh
Q psy17868         63 SGVEILDFIENK   74 (208)
Q Consensus        63 S~~eVVDfLde~   74 (208)
                      +..++.+.|+..
T Consensus       306 ~~~~~~~~l~~~  317 (323)
T COG0042         306 DGAEVRRALEAV  317 (323)
T ss_pred             cHHHHHHHHHHH
Confidence            999987777654

>PRK11815 tRNA-dihydrouridine synthase A; Provisional

Probab=94.30  E-value=0.022  Score=51.37  Aligned_cols=74  Identities=14%  Similarity=0.161  Sum_probs=52.4

Q ss_pred             CccccCCcCCcCCCC-------CC---CChhHHHHHHHHHhh-h-----hHHHHHHHHHHHHhhhc-CHHHHHHHHccCC
Q psy17868          1 MAARGLLKNPGLFSG-------AN---RTPMSCIEEWVSMKH-N-----HFMTFLHHLVFMCDKLL-SSQEKDQLNSLYS   63 (208)
Q Consensus         1 MSARGLLaNPALFAG-------y~---~TPWEcVeEYLdLa~-l-----PFslIhhHLfkMLe~~L-sKdLR~eLNsL~S   63 (208)
                      |.+||+|.||.+|..       ..   +++-+.++.|++++. .     ....+|.|+.+.+...- .+..|.+++...+
T Consensus       231 mIGRa~l~nP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rk~~~~y~~~~~~~~~~r~~~~~~~~  310 (333)
T PRK11815        231 MIGRAAYHNPYLLAEVDRELFGEPAPPLSRSEVLEAMLPYIERHLAQGGRLNHITRHMLGLFQGLPGARAWRRYLSENAH  310 (333)
T ss_pred             EEcHHHHhCCHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHcCCCCHHHHHHHHHhhcc
Confidence            789999999999963       22   233488888888877 2     36789999999887664 5678999987755


Q ss_pred             H-HHHHHHHhhh
Q psy17868         64 G-VEILDFIENK   74 (208)
Q Consensus        64 ~-~eVVDfLde~   74 (208)
                      . ...+|+|++-
T Consensus       311 ~~~~~~~~~~~~  322 (333)
T PRK11815        311 KPGAGIEVLEEA  322 (333)
T ss_pred             cCCCCHHHHHHH
Confidence            2 2233666543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	208
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.6 bits (94), Expect = 2e-04
 Identities = 28/174 (16%), Positives = 52/174 (29%), Gaps = 68/174 (39%)

Query: 33  NHFMTFL-HHLVFMCDKLLSSQEKDQLNSLYSGVEILD--FIENKF-HVQSP--CRSHFV 86
            +F + + HHL      +   +       ++     LD  F+E K  H  +        +
Sbjct: 471 QYFYSHIGHHL----KNIEHPERMTLFRMVF-----LDFRFLEQKIRHDSTAWNASGSIL 521

Query: 87  N-LNKGSKYEEESEGKFFQEEMSSVKKQVAKDLMEDILDNCLSSQEKDQLNSLYSGVEIL 145
           N L +   Y+      +                   I DN    +    +N+      IL
Sbjct: 522 NTLQQLKFYK-----PY-------------------ICDNDPKYERL--VNA------IL 549

Query: 146 DFIENKFHVQSSCRSHFVNL------NKGSKYEEESEGKFFQEEMSSVKKQVAK 193
           DF+      ++   S + +L       +     EE+             KQV +
Sbjct: 550 DFLPK--IEENLICSKYTDLLRIALMAEDEAIFEEAH------------KQVQR 589

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	208
1vhn_A	318	Putative flavin oxidoreducatase; structural genomi	97.38
3b0p_A	350	TRNA-dihydrouridine synthase; TIM barrel, oxidored	96.33

>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown function; HET: FMN; 1.59A {Thermotoga maritima} SCOP: c.1.4.1

Probab=97.38  E-value=0.0001  Score=63.28  Aligned_cols=77  Identities=13%  Similarity=0.205  Sum_probs=60.7

Q ss_pred             CccccCCcCCcCCC--------CCCC--Ch---hHHHHHHHHHhh------hhHHHHHHHHHHHHhhhc-CHHHHHHHHc
Q psy17868          1 MAARGLLKNPGLFS--------GANR--TP---MSCIEEWVSMKH------NHFMTFLHHLVFMCDKLL-SSQEKDQLNS   60 (208)
Q Consensus         1 MSARGLLaNPALFA--------Gy~~--TP---WEcVeEYLdLa~------lPFslIhhHLfkMLe~~L-sKdLR~eLNs   60 (208)
                      |.+||+|.||.||.        |..+  ++   ++++.+|++++.      ..+..++.|+.+|+...- .++.|..++.
T Consensus       211 ~iGR~~l~~P~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~  290 (318)
T 1vhn_A          211 LVARGAIGRPWIFKQIKDFLRSGKYSEPSREEILRTFERHLELLIKTKGERKAVVEMRKFLAGYTKDLKGARRFREKVMK  290 (318)
T ss_dssp             EESGGGTTCTTHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHTTTCTTHHHHHHHHTT
T ss_pred             EECHHHHhCcchHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHhcCCChHHHHHHHHc
Confidence            67899999999985        6211  21   467778888875      257789999999986653 5789999999


Q ss_pred             cCCHHHHHHHHhhhccc
Q psy17868         61 LYSGVEILDFIENKFHV   77 (208)
Q Consensus        61 L~S~~eVVDfLde~f~L   77 (208)
                      +++..++.+.|++.+.-
T Consensus       291 ~~~~~~~~~~~~~~~~~  307 (318)
T 1vhn_A          291 IEEVQILKEMFYNFIKE  307 (318)
T ss_dssp             CCCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            99999999999987643

>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN; 1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*

Probab=96.33  E-value=0.00067  Score=59.50  Aligned_cols=74  Identities=11%  Similarity=0.047  Sum_probs=59.3

Q ss_pred             CccccCCcCCcCCCCC---------CCChhHHHHHHHHHhh------hhHHHHHHHHHHHHhhhc-CHHHHHHHHccCCH
Q psy17868          1 MAARGLLKNPGLFSGA---------NRTPMSCIEEWVSMKH------NHFMTFLHHLVFMCDKLL-SSQEKDQLNSLYSG   64 (208)
Q Consensus         1 MSARGLLaNPALFAGy---------~~TPWEcVeEYLdLa~------lPFslIhhHLfkMLe~~L-sKdLR~eLNsL~S~   64 (208)
                      |.+||+|.||.||...         .+++.++++.|+++..      .+...++.|+.++++..- .+..|..|+...+.
T Consensus       223 ~iGRa~l~~P~l~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~kh~~~~~~g~~~~~~~r~~l~~~~~~  302 (350)
T 3b0p_A          223 MLGRAVYEDPFVLEEADRRVFGLPRRPSRLEVARRMRAYLEEEVLKGTPPWAVLRHMLNLFRGRPKGRLWRRLLSEGRSL  302 (350)
T ss_dssp             EECHHHHHCGGGGTTHHHHTTCCSCCCCHHHHHHHHHHHHHHHHHHTCCHHHHHTTSTTTTTTSTTHHHHHHHHHHHCSH
T ss_pred             EECHHHHhCcHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHccCCCHHHHHHHHHCCCCH
Confidence            6789999999998742         2355688888888877      346789999998877664 56899999999999


Q ss_pred             HHHHHHHhhh
Q psy17868         65 VEILDFIENK   74 (208)
Q Consensus        65 ~eVVDfLde~   74 (208)
                      .++.+.|++-
T Consensus       303 ~~~~~~l~~~  312 (350)
T 3b0p_A          303 QALDRALRLM  312 (350)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998888773

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	208
d1vhna_	305	Putative flavin oxidoreducatase TM0096 {Thermotoga	97.73

>d1vhna_ c.1.4.1 (A:) Putative flavin oxidoreducatase TM0096 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: FMN-linked oxidoreductases
family: FMN-linked oxidoreductases
domain: Putative flavin oxidoreducatase TM0096
species: Thermotoga maritima [TaxId: 2336]

Probab=97.73  E-value=1.4e-05  Score=67.13  Aligned_cols=74  Identities=12%  Similarity=0.177  Sum_probs=55.8

Q ss_pred             CccccCCcCCcCCCC--------C--CCCh---hHHHHHHHHHhh------hhHHHHHHHHHHHHhhh-cCHHHHHHHHc
Q psy17868          1 MAARGLLKNPGLFSG--------A--NRTP---MSCIEEWVSMKH------NHFMTFLHHLVFMCDKL-LSSQEKDQLNS   60 (208)
Q Consensus         1 MSARGLLaNPALFAG--------y--~~TP---WEcVeEYLdLa~------lPFslIhhHLfkMLe~~-LsKdLR~eLNs   60 (208)
                      |.+||.|.||.||+.        .  .+++   .+++.+|+++..      .+...++.|+.+++... -.+..|..++.
T Consensus       207 MiGRgal~nP~if~~i~~~l~~~~~~~~~~~e~~~~~~~~~~~~~~~~g~~~~l~~~rkhl~~~~kg~p~ak~~R~~l~~  286 (305)
T d1vhna_         207 LVARGAIGRPWIFKQIKDFLRSGKYSEPSREEILRTFERHLELLIKTKGERKAVVEMRKFLAGYTKDLKGARRFREKVMK  286 (305)
T ss_dssp             EESGGGTTCTTHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHTTTCTTHHHHHHHHTT
T ss_pred             ehhHHHHHhhhHhhhhhhhhcCCCcccchhHHHHHhHHHHHHHHHHhcCcchHHHHHHHHHHHHHcCCCcHHHHHHHHHh
Confidence            899999999999963        2  2233   355666776665      34556788998887655 35789999999


Q ss_pred             cCCHHHHHHHHhhh
Q psy17868         61 LYSGVEILDFIENK   74 (208)
Q Consensus        61 L~S~~eVVDfLde~   74 (208)
                      +++..++.++|++-
T Consensus       287 ~~~~~el~~~l~~~  300 (305)
T d1vhna_         287 IEEVQILKEMFYNF  300 (305)
T ss_dssp             CCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99999999988764