Citrus Sinensis ID: 030702

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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---
Protein Sequence
MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKYV
Secondary Structure (PSIPRED)
cEEEEEccccccEEEEEEEccEEEEEHHHHHHHHccccEEEEccccEEccHHHHHHHHHccccccccHHHHHHHHHccccEEEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccEEEEEcccccccccccccccEEEEEEEccc
Secondary Structure Prediction (SSPRO)
ccEEEcccccEEEEEcEEccccEEEcHHHHHHHHHHccEEEEccccccccHHHHHHHHHcccccccHHHHHHHHHHHHccEEEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccEEEEEccccccccccccccEEEEEEEEEcc
Coil and Loop (DISEMBL)
MAEVVEKKgkmwtttgivrngktycsIEETLFLAEIGALylldnndlclpLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIvgrhgvpwivkipkgrdinitsdpvslqvtpkrhgvmdvepkeESSLVALFYNIqinevrpvfdvylpnrkfkkscpgdpsfllyltckyv
Flexible Loop (DISEMBL)
maevvekkgkmwtttgivrngktYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIpkgrdinitsdpvslqvtpkrhgVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRkfkkscpgdpsfllyltckyv
Low Complexity Region (SEG)
MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKYV
Disordered region (IsUnstruct)
*********KMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSL******************SLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKY*
Disordered Region (DISOPRED)
MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVP**************************H**********************NEVRPVFDVYLPNRK****CPGDPSFLLYLTCKYV
Disordered Region (DISEMBL)
MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKYV
Disordered Region (DISPRO)
*AEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVK*********************************SSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKYV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKYV
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	173	2.2.26 [Sep-21-2011]
Q8C2A2	525	tRNA-splicing endonucleas	yes	no	0.560	0.184	0.34	1e-07
Q7Z6J9	526	tRNA-splicing endonucleas	yes	no	0.606	0.199	0.314	2e-07

>sp|Q8C2A2|SEN54_MOUSE tRNA-splicing endonuclease subunit Sen54 OS=Mus musculus GN=Tsen54 PE=2 SV=2

 Score = 56.2 bits (134), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 34/100 (34%), Positives = 53/100 (53%), Gaps = 3/100 (3%)

Query: 3   EVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEK 62
           E+    GK W T G    G+     EE L+L E G++ L    DL L ++E Y+ +  E 
Sbjct: 90  ELTSPAGKFWQTMGYSEEGRQRLHPEEALYLLECGSIQLF-YQDLPLSIQEAYQLLLTED 148

Query: 63  SGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINI 102
           +  S+  ++V+ HLK LGY+V R  +  +V  P  R +N+
Sbjct: 149 T-LSFLQYQVFSHLKRLGYVVRRFQLSSVVS-PYERQLNL 186

Non-catalytic subunit of the tRNA-splicing endonuclease complex, a complex responsible for identification and cleavage of the splice sites in pre-tRNA. It cleaves pre-tRNA at the 5' and 3' splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-OH termini. There are no conserved sequences at the splice sites, but the intron is invariably located at the same site in the gene, placing the splice sites an invariant distance from the constant structural features of the tRNA body. The tRNA splicing endonuclease is also involved in mRNA processing via its association with pre-mRNA 3' end processing factors, establishing a link between pre-tRNA splicing and pre-mRNA 3' end formation, suggesting that the endonuclease subunits function in multiple RNA-processing events.
Mus musculus (taxid: 10090)

>sp|Q7Z6J9|SEN54_HUMAN tRNA-splicing endonuclease subunit Sen54 OS=Homo sapiens GN=TSEN54 PE=1 SV=3

 Score = 55.5 bits (132), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 34/108 (31%), Positives = 57/108 (52%), Gaps = 3/108 (2%)

Query: 3   EVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEK 62
           E+    GK W T G    G+     EE L+L E G+++L  + DL L ++E Y+ +  + 
Sbjct: 90  ELKSPAGKFWQTMGFSEQGRQRLHPEEALYLLECGSIHLF-HQDLPLSIQEAYQLLLTDH 148

Query: 63  SGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQ 110
           +  ++  ++V+ HLK LGY+V R   P  V  P  R +N+ +    L+
Sbjct: 149 T-VTFLQYQVFSHLKRLGYVVRRFQ-PSSVLSPYERQLNLDASVQHLE 194

Non-catalytic subunit of the tRNA-splicing endonuclease complex, a complex responsible for identification and cleavage of the splice sites in pre-tRNA. It cleaves pre-tRNA at the 5' and 3' splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-OH termini. There are no conserved sequences at the splice sites, but the intron is invariably located at the same site in the gene, placing the splice sites an invariant distance from the constant structural features of the tRNA body. The tRNA splicing endonuclease is also involved in mRNA processing via its association with pre-mRNA 3' end processing factors, establishing a link between pre-tRNA splicing and pre-mRNA 3' end formation, suggesting that the endonuclease subunits function in multiple RNA-processing events.

Homo sapiens (taxid: 9606)

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	173
224134699	283	predicted protein [Populus trichocarpa]	0.942	0.575	0.613	6e-54
225441894	255	PREDICTED: uncharacterized protein LOC10	0.936	0.635	0.597	7e-50
297739626	281	unnamed protein product [Vitis vinifera]	0.936	0.576	0.597	8e-50
147790314	1843	hypothetical protein VITISV_010199 [Viti	0.936	0.087	0.591	1e-49
255572755	261	conserved hypothetical protein [Ricinus	0.924	0.613	0.603	6e-49
356503431	264	PREDICTED: uncharacterized protein LOC10	0.947	0.621	0.555	8e-48
449449845	267	PREDICTED: uncharacterized protein LOC10	0.953	0.617	0.549	7e-47
356570446	272	PREDICTED: uncharacterized protein LOC10	0.976	0.621	0.546	5e-45
240255663	254	uncharacterized protein [Arabidopsis tha	0.867	0.590	0.514	3e-41
297817060	256	At3g57360 [Arabidopsis lyrata subsp. lyr	0.895	0.605	0.506	3e-39

>gi|224134699|ref|XP_002327468.1| predicted protein [Populus trichocarpa] gi|222836022|gb|EEE74443.1| predicted protein [Populus trichocarpa]

 Score =  215 bits (547), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 103/168 (61%), Positives = 129/168 (76%), Gaps = 5/168 (2%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
           MAEV+EKKGKMW TTGIVRNGKT+C IEETLFLAEIGAL ++D+ND CL LK+I++K++ 
Sbjct: 52  MAEVIEKKGKMWITTGIVRNGKTFCLIEETLFLAEIGALLVMDDNDECLALKDIHKKMSE 111

Query: 61  EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMD 120
           E++GCSWELFEVY+HLKSLGY+VGRHGVPW +K      +   S P S Q T + + V  
Sbjct: 112 ERNGCSWELFEVYKHLKSLGYVVGRHGVPWSMK-----GVENNSKPCSSQGTIQNNRVEG 166

Query: 121 VEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYL 168
           VE    +  V +  N+Q++E+R  FDVYLPN KF+KS PGDP+FLL L
Sbjct: 167 VEENSITCAVQMLSNLQVDELRLNFDVYLPNSKFRKSSPGDPAFLLCL 214

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225441894|ref|XP_002284389.1| PREDICTED: uncharacterized protein LOC100257347 [Vitis vinifera]

 Score =  201 bits (512), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 101/169 (59%), Positives = 124/169 (73%), Gaps = 7/169 (4%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
           MAEVVE KGKMWTTTG++ +GK YCSIEETLFLAE+GAL+LLD+ND+ + LK IY+K++ 
Sbjct: 48  MAEVVEMKGKMWTTTGMLHSGKIYCSIEETLFLAELGALHLLDDNDVPISLKGIYDKVSQ 107

Query: 61  EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMD 120
            K GC WE FE YRHLKSLGYIVGRHG+PW  K  K       +   S Q TP+ +   D
Sbjct: 108 GKCGCCWESFEAYRHLKSLGYIVGRHGIPWTSKGAK-------TCLDSHQGTPEGNSRTD 160

Query: 121 VEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLT 169
              +EE+S + L  N+ I EV+ +FDVYLPN KF+KS PGDPSF+L LT
Sbjct: 161 EGSEEENSTIELVNNMHITEVKLLFDVYLPNSKFRKSSPGDPSFVLCLT 209

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297739626|emb|CBI29808.3| unnamed protein product [Vitis vinifera]

 Score =  201 bits (511), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 101/169 (59%), Positives = 124/169 (73%), Gaps = 7/169 (4%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
           MAEVVE KGKMWTTTG++ +GK YCSIEETLFLAE+GAL+LLD+ND+ + LK IY+K++ 
Sbjct: 74  MAEVVEMKGKMWTTTGMLHSGKIYCSIEETLFLAELGALHLLDDNDVPISLKGIYDKVSQ 133

Query: 61  EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMD 120
            K GC WE FE YRHLKSLGYIVGRHG+PW  K  K       +   S Q TP+ +   D
Sbjct: 134 GKCGCCWESFEAYRHLKSLGYIVGRHGIPWTSKGAK-------TCLDSHQGTPEGNSRTD 186

Query: 121 VEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLT 169
              +EE+S + L  N+ I EV+ +FDVYLPN KF+KS PGDPSF+L LT
Sbjct: 187 EGSEEENSTIELVNNMHITEVKLLFDVYLPNSKFRKSSPGDPSFVLCLT 235

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147790314|emb|CAN74373.1| hypothetical protein VITISV_010199 [Vitis vinifera]

 Score =  201 bits (510), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 100/169 (59%), Positives = 123/169 (72%), Gaps = 7/169 (4%)

Query: 1    MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
            MAEVVE KGKMWTTTG++ +GK YCSIEETLFLAE+GAL+LLD+ D+ + LK IY+K++ 
Sbjct: 1077 MAEVVEMKGKMWTTTGMLHSGKIYCSIEETLFLAELGALHLLDDXDVPISLKGIYDKVSQ 1136

Query: 61   EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMD 120
             K GC WE FE YRHLKSLGYIVGRHG+PW     KG    + S     Q TP+ +   D
Sbjct: 1137 GKCGCCWESFEAYRHLKSLGYIVGRHGIPW---TSKGXKTCLDSH----QGTPEGNSRTD 1189

Query: 121  VEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLT 169
               +EE+S + L  N+ I EV+ +FDVYLPN KF+KS PGDPSF+L LT
Sbjct: 1190 XGSEEENSTIELVNNMHITEVKLLFDVYLPNSKFRKSSPGDPSFVLCLT 1238

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572755|ref|XP_002527310.1| conserved hypothetical protein [Ricinus communis] gi|223533310|gb|EEF35062.1| conserved hypothetical protein [Ricinus communis]

 Score =  198 bits (504), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 102/169 (60%), Positives = 125/169 (73%), Gaps = 9/169 (5%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
           MAE+VEKKGK+WT TGI R+GKTYCSIEETLFLAE+GAL L+D+   CL LK++Y K+  
Sbjct: 54  MAELVEKKGKLWTNTGIARSGKTYCSIEETLFLAELGALVLMDDEGTCLSLKDLYGKMGY 113

Query: 61  EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHG-VM 119
           +KSGC  ELFEVYRHLKSLGYIVGRHGVPW +   KG      SD      T + +G V+
Sbjct: 114 QKSGCCSELFEVYRHLKSLGYIVGRHGVPWSM---KGVKSTCQSDS-----THENNGVVI 165

Query: 120 DVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYL 168
           D E KE +S+V    N+Q++E+R  FDVYLPN KF+KS PG+P+F L L
Sbjct: 166 DNEVKETASIVQRLRNLQVDELRLDFDVYLPNSKFRKSSPGEPAFFLCL 214

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356503431|ref|XP_003520512.1| PREDICTED: uncharacterized protein LOC100811412 [Glycine max]

 Score =  194 bits (494), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 95/171 (55%), Positives = 125/171 (73%), Gaps = 7/171 (4%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
           M +++EK GKMW TTGIVR+GK Y SIEETL+L E+GAL LLDN    + L E YEK+A+
Sbjct: 24  MGDIIEKNGKMWVTTGIVRSGKIYSSIEETLYLMELGALDLLDNGGRSISLTETYEKVAS 83

Query: 61  EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVMD 120
            KSGC WELF+VYRHLKS+GYI+GRHGV W +K      I +  + + L+   +   + D
Sbjct: 84  GKSGCCWELFDVYRHLKSIGYIIGRHGVAWSLK-----SIKVPINLLLLKSQKEIEQLED 138

Query: 121 VEPKEESSL--VALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLT 169
           ++ K E S+  + LF  +Q+N++RP FDVYLPN +F+KSCPGDPSFLLYL+
Sbjct: 139 IDSKSELSINELWLFGEMQVNDLRPDFDVYLPNSRFRKSCPGDPSFLLYLS 189

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449845|ref|XP_004142675.1| PREDICTED: uncharacterized protein LOC101210680 [Cucumis sativus] gi|449525862|ref|XP_004169935.1| PREDICTED: uncharacterized LOC101210680 [Cucumis sativus]

 Score =  191 bits (486), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 95/173 (54%), Positives = 126/173 (72%), Gaps = 8/173 (4%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
           MAEV+E KG +WTTTGIVR GK YCSIEETLFL E+GAL+LLD+++  L LK++Y+K+A 
Sbjct: 59  MAEVLENKGSLWTTTGIVRCGKIYCSIEETLFLIEVGALHLLDHDNSSLSLKDVYKKVAE 118

Query: 61  EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSD-PVSLQVTPKRHGVM 119
            +SG  WE FEVYRHLKSLGYIVG+H VPW +K       N+ +D  +S   + +  G  
Sbjct: 119 GRSGRLWEQFEVYRHLKSLGYIVGKHRVPWSLK-------NVRNDCDISSPSSTENKGAS 171

Query: 120 DVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKY 172
           DV+  +E S+  L   IQ++EV P+FDV+LP+ KF+KS PGDP+F++ LT  Y
Sbjct: 172 DVKSDDEQSICRLLNAIQLDEVTPIFDVFLPHNKFRKSSPGDPNFMVCLTRGY 224

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356570446|ref|XP_003553398.1| PREDICTED: uncharacterized protein LOC100782940 [Glycine max]

 Score =  185 bits (470), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 94/172 (54%), Positives = 119/172 (69%), Gaps = 3/172 (1%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
           M EV+EK GKMW TTGIVR+GK Y SIEETL+L E+GAL+L+DN    + L E+YEK+A+
Sbjct: 56  MGEVIEKNGKMWVTTGIVRSGKIYSSIEETLYLMELGALHLVDNGGRSISLTEMYEKVAS 115

Query: 61  EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVK--IPKGRDINITSDPVSLQVTPKRHGV 118
            KSGC WELFEVYRHLKSLGYI+G HGV W +K  I + +  +   D      +      
Sbjct: 116 GKSGCCWELFEVYRHLKSLGYIIGCHGVAWSLKKIIGEHKKSHRQHDFAHSNKSISHFSF 175

Query: 119 MDVEPKEESSLV-ALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLT 169
           +    +   S+   LF  +QIN++RP FDVYLPN +F+KS PGDPSFLLYL+
Sbjct: 176 LTNAFRALVSICHKLFGKLQINDLRPDFDVYLPNSRFRKSSPGDPSFLLYLS 227

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|240255663|ref|NP_191295.4| uncharacterized protein [Arabidopsis thaliana] gi|50198814|gb|AAT70440.1| At3g57360 [Arabidopsis thaliana] gi|51972142|gb|AAU15175.1| At3g57360 [Arabidopsis thaliana] gi|332646125|gb|AEE79646.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  172 bits (437), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 87/169 (51%), Positives = 116/169 (68%), Gaps = 19/169 (11%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDN-NDLCLPLKEIYEKIA 59
           MAEV  K+GK+WTTTGI+R+GKTYC IEE L+L+EIG L +L N +D+ +PLK++YEKIA
Sbjct: 52  MAEVEVKRGKLWTTTGIIRSGKTYCFIEEALYLSEIGELQILGNEDDIVIPLKDLYEKIA 111

Query: 60  NEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKI---PKGRDINITSDPVSLQVTPKRH 116
            EKSGCSWE +EVYR+LK LGYI+GRHGV W +K    P G + +  +            
Sbjct: 112 EEKSGCSWENYEVYRYLKGLGYILGRHGVSWTLKDAARPNGEEESACAGEC--------- 162

Query: 117 GVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFL 165
                 P +  ++  L  ++QI + + VFDVYLPN +FKKS PG+PSF+
Sbjct: 163 ------PADNDTVTKLLGDMQICDAKAVFDVYLPNSRFKKSSPGEPSFV 205

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297817060|ref|XP_002876413.1| At3g57360 [Arabidopsis lyrata subsp. lyrata] gi|297322251|gb|EFH52672.1| At3g57360 [Arabidopsis lyrata subsp. lyrata]

 Score =  166 bits (420), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 84/166 (50%), Positives = 116/166 (69%), Gaps = 11/166 (6%)

Query: 1   MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDN-NDLCLPLKEIYEKIA 59
           MAEV  K+GK+WTTTGI+R+GKTYC IEE L+L+EIG L +L N +D+ +PLK++YEK+A
Sbjct: 52  MAEVEVKRGKLWTTTGIIRSGKTYCFIEEALYLSEIGELQILSNEDDIVIPLKDLYEKMA 111

Query: 60  NEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGVM 119
            EKSGCSW+ +EVYR+LK LGYI+GR+G+ W +K     D  IT      +       + 
Sbjct: 112 EEKSGCSWDNYEVYRYLKGLGYILGRNGISWTLK-----DAAITRPNGEEESACAGECLE 166

Query: 120 DVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFL 165
           D     + ++  L  ++QI + + VFDVYLPN +FKKS PG+PSF+
Sbjct: 167 D-----KDTVTKLLGDMQICDAKAVFDVYLPNSRFKKSSPGEPSFV 207

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

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	173
TAIR|locus:2082553	254	AT3G57360 "AT3G57360" [Arabido	0.867	0.590	0.514	2e-40
ZFIN|ZDB-GENE-050522-454	891	tsen54 "tRNA splicing endonucl	0.647	0.125	0.327	7.2e-12
MGI|MGI:1923515	525	Tsen54 "tRNA splicing endonucl	0.560	0.184	0.34	9.8e-11
RGD|1597379	525	Tsen54 "tRNA splicing endonucl	0.560	0.184	0.34	9.8e-11
UNIPROTKB|F1N9B2	530	TSEN54 "Uncharacterized protei	0.583	0.190	0.336	2.8e-10
UNIPROTKB|E1BJ21	528	TSEN54 "Uncharacterized protei	0.635	0.208	0.327	6.6e-09
UNIPROTKB|Q7Z6J9	526	TSEN54 "tRNA-splicing endonucl	0.606	0.199	0.314	1.4e-08
UNIPROTKB|E2RAR4	531	TSEN54 "Uncharacterized protei	0.606	0.197	0.314	1.4e-08
FB|FBgn0036266	383	CG5626 [Drosophila melanogaste	0.497	0.224	0.337	9.9e-07

TAIR|locus:2082553 AT3G57360 "AT3G57360" [Arabidopsis thaliana (taxid:3702)]

 Score = 430 (156.4 bits), Expect = 2.0e-40, P = 2.0e-40
 Identities = 87/169 (51%), Positives = 116/169 (68%)

Query:     1 MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDN-NDLCLPLKEIYEKIA 59
             MAEV  K+GK+WTTTGI+R+GKTYC IEE L+L+EIG L +L N +D+ +PLK++YEKIA
Sbjct:    52 MAEVEVKRGKLWTTTGIIRSGKTYCFIEEALYLSEIGELQILGNEDDIVIPLKDLYEKIA 111

Query:    60 NEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKI---PKGRDINITSDPVSLQVTPKRH 116
              EKSGCSWE +EVYR+LK LGYI+GRHGV W +K    P G + +  +            
Sbjct:   112 EEKSGCSWENYEVYRYLKGLGYILGRHGVSWTLKDAARPNGEEESACAGEC--------- 162

Query:   117 GVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFL 165
                   P +  ++  L  ++QI + + VFDVYLPN +FKKS PG+PSF+
Sbjct:   163 ------PADNDTVTKLLGDMQICDAKAVFDVYLPNSRFKKSSPGEPSFV 205

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-050522-454 tsen54 "tRNA splicing endonuclease 54 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 143 (55.4 bits), Expect = 7.2e-12, Sum P(2) = 7.2e-12
 Identities = 38/116 (32%), Positives = 57/116 (49%)

Query:     1 MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
             + E+    GK W T G    GK Y   EE L+L E G + +    DL L +++ YE+  +
Sbjct:    89 LVELQSPAGKFWQTMGFSERGKQYLQPEEALYLMECGNVQVF-YRDLPLSIQDGYERFLS 147

Query:    61 EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINI-TSDPVSLQVTPKR 115
               +  +   ++V+ HLK LGY+V R   P  V     R +N+  SD    Q+  KR
Sbjct:   148 SDT-VTLHQYQVFGHLKRLGYVVNRFD-PSSVSSTYERQLNLPASDKQKKQLKRKR 201

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0005230 "extracellular ligand-gated ion channel activity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0048854 "brain morphogenesis" evidence=IMP

MGI|MGI:1923515 Tsen54 "tRNA splicing endonuclease 54 homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 141 (54.7 bits), Expect = 9.8e-11, Sum P(2) = 9.8e-11
 Identities = 34/100 (34%), Positives = 53/100 (53%)

Query:     3 EVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEK 62
             E+    GK W T G    G+     EE L+L E G++ L    DL L ++E Y+ +  E 
Sbjct:    90 ELTSPAGKFWQTMGYSEEGRQRLHPEEALYLLECGSIQLF-YQDLPLSIQEAYQLLLTED 148

Query:    63 SGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINI 102
             +  S+  ++V+ HLK LGY+V R  +  +V  P  R +N+
Sbjct:   149 T-LSFLQYQVFSHLKRLGYVVRRFQLSSVVS-PYERQLNL 186

GO:0003674 "molecular_function" evidence=ND

GO:0004519 "endonuclease activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0006388 "tRNA splicing, via endonucleolytic cleavage and ligation" evidence=ISO

GO:0006397 "mRNA processing" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

RGD|1597379 Tsen54 "tRNA splicing endonuclease 54 homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]

 Score = 141 (54.7 bits), Expect = 9.8e-11, Sum P(2) = 9.8e-11
 Identities = 34/100 (34%), Positives = 53/100 (53%)

Query:     3 EVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEK 62
             E+    GK W T G    G+     EE L+L E G++ L    DL L ++E Y+ +  E 
Sbjct:    90 ELTSPAGKFWQTMGYSEEGRQRLHPEEALYLLECGSIQLF-YQDLPLSIQEAYQLLLTED 148

Query:    63 SGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINI 102
             +  S+  ++V+ HLK LGY+V R  +  +V  P  R +N+
Sbjct:   149 T-LSFLQYQVFSHLKRLGYVVRRFQLSSVVS-PYERQLNL 186

GO:0006388 "tRNA splicing, via endonucleolytic cleavage and ligation" evidence=IEA;ISO

UNIPROTKB|F1N9B2 TSEN54 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 134 (52.2 bits), Expect = 2.8e-10, Sum P(2) = 2.8e-10
 Identities = 35/104 (33%), Positives = 55/104 (52%)

Query:     1 MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
             + E+    GK W T G    GK     EE L+L E G+L L    D+ + ++E YE + +
Sbjct:    87 VVELESPAGKFWHTMGFSERGKQCLLPEEALYLLECGSLQLF-YKDVPMSVREAYEILLS 145

Query:    61 EKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITS 104
             +++  +   ++V+ HLK LG+IV R   P  V  P  R +N+ S
Sbjct:   146 QEA-MNLLHYQVFSHLKQLGFIVLRFN-PSTVLSPYERQLNLES 187

GO:0006388 "tRNA splicing, via endonucleolytic cleavage and ligation" evidence=IEA

UNIPROTKB|E1BJ21 TSEN54 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 142 (55.0 bits), Expect = 6.6e-09, P = 6.6e-09
 Identities = 37/113 (32%), Positives = 57/113 (50%)

Query:     3 EVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEK 62
             E+    GK W T G    G+     EE L+L E G++ L  + DL L ++E Y+ +  E 
Sbjct:    90 ELKSPAGKFWQTMGFSEQGRQRLHPEEALYLLECGSIQLF-HQDLPLSIQEAYQLLLTED 148

Query:    63 SGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVTPKR 115
             +  ++  ++V+ HLK LGY+V R   P  V  P  R +N+      L+   KR
Sbjct:   149 T-VTFLQYQVFSHLKRLGYVVRRFQ-PSSVLSPYERQLNLDGGAQCLEGKRKR 199

GO:0006388 "tRNA splicing, via endonucleolytic cleavage and ligation" evidence=IEA

UNIPROTKB|Q7Z6J9 TSEN54 "tRNA-splicing endonuclease subunit Sen54" [Homo sapiens (taxid:9606)]

 Score = 139 (54.0 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 34/108 (31%), Positives = 57/108 (52%)

Query:     3 EVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEK 62
             E+    GK W T G    G+     EE L+L E G+++L  + DL L ++E Y+ +  + 
Sbjct:    90 ELKSPAGKFWQTMGFSEQGRQRLHPEEALYLLECGSIHLF-HQDLPLSIQEAYQLLLTDH 148

Query:    63 SGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQ 110
             +  ++  ++V+ HLK LGY+V R   P  V  P  R +N+ +    L+
Sbjct:   149 T-VTFLQYQVFSHLKRLGYVVRRFQ-PSSVLSPYERQLNLDASVQHLE 194

GO:0006397 "mRNA processing" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0006388 "tRNA splicing, via endonucleolytic cleavage and ligation" evidence=IDA

UNIPROTKB|E2RAR4 TSEN54 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 139 (54.0 bits), Expect = 1.4e-08, P = 1.4e-08
 Identities = 34/108 (31%), Positives = 55/108 (50%)

Query:     3 EVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEK 62
             E+    GK W T G    G+     EE L+L E G++ L  + DL L ++E Y+ +  E 
Sbjct:    90 ELKSPAGKFWQTMGFSEQGRQRLHPEEALYLLECGSIQLF-HQDLPLSIQEAYQLLLTED 148

Query:    63 SGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQ 110
             +  ++  ++V+ HLK LGY+V R   P  +  P  R +N+      L+
Sbjct:   149 A-VTFLQYQVFSHLKRLGYVVRRFQ-PGSILSPYERQLNLDGSAQCLE 194

GO:0006388 "tRNA splicing, via endonucleolytic cleavage and ligation" evidence=IEA

FB|FBgn0036266 CG5626 [Drosophila melanogaster (taxid:7227)]

 Score = 101 (40.6 bits), Expect = 9.9e-07, Sum P(2) = 9.9e-07
 Identities = 30/89 (33%), Positives = 43/89 (48%)

Query:     1 MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN 60
             +AEV  K GK +   G    GK Y    E +FL E+G L L +   L + +++ Y  +  
Sbjct:    88 VAEVKRKDGK-FENFGYSEQGKLYLEYYEAMFLLEVGRLQL-EYCGLVVSIEQAYVLLLG 145

Query:    61 EKSGCSWELFEVYRHLKSLGYIVGRHGVP 89
             E     +  + VY  L   GYIV +H VP
Sbjct:   146 ELESERYTNYLVYSALSRSGYIVVKH-VP 173

GO:0004017 "adenylate kinase activity" evidence=ISS

---

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 Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00440184 hypothetical protein (283 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	173
pfam12928	72	pfam12928, tRNA_int_end_N2, tRNA-splicing endonucl	3e-13
PRK09297	169	PRK09297, PRK09297, tRNA-splicing endonuclease sub	4e-04

>gnl|CDD|221860 pfam12928, tRNA_int_end_N2, tRNA-splicing endonuclease subunit sen54 N-term

 Score = 61.5 bits (150), Expect = 3e-13
 Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 1  MAEVVEKKGKMWTTTGIV-RNGKTYCSIEETLFLAEIGALYLLDNN 45
          MAEV   KGK + T G   RNGKT+   EE L+L E G+L +    
Sbjct: 27 MAEVTRAKGKFFKTMGRADRNGKTWLLPEEALYLLERGSLQIYWPG 72

This is an N-terminal family of archaeal and metazoan sen54 proteins that forms one of the tRNA-splicing endonuclease subunits. Length = 72

>gnl|CDD|236459 PRK09297, PRK09297, tRNA-splicing endonuclease subunit alpha; Reviewed

 Score = 38.7 bits (91), Expect = 4e-04
 Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 3/59 (5%)

Query: 26 SIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN-EKSGCSWELFEVYRHLKSLGYIV 83
          S+ E L+L E G L ++D +   L  +E+YE      +       + VY+ L+  GYIV
Sbjct: 38 SLIEALYLVEKGWLEVVDKDGELLSFEELYELAREIIEKFDI--KYLVYKDLRDRGYIV 94

Length = 169

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	173
KOG4772	364	consensus Predicted tRNA-splicing endonuclease sub	100.0
PF12928	72	tRNA_int_end_N2: tRNA-splicing endonuclease subuni	99.69
PRK09297	169	tRNA-splicing endonuclease subunit alpha; Reviewed	99.48
TIGR00324	170	endA tRNA intron endonuclease. The enzyme catalyse	99.42
PRK09300	330	tRNA splicing endonuclease; Reviewed	99.22
COG1676	181	SEN2 tRNA splicing endonuclease [Translation, ribo	99.11
PRK09300	330	tRNA splicing endonuclease; Reviewed	98.96
PF02778	67	tRNA_int_endo_N: tRNA intron endonuclease, N-termi	98.71
PRK09539	124	tRNA-splicing endonuclease subunit beta; Reviewed	96.42
KOG4685	271	consensus tRNA splicing endonuclease SEN2 [Transla	96.27
PF01974	85	tRNA_int_endo: tRNA intron endonuclease, catalytic	92.49

>KOG4772 consensus Predicted tRNA-splicing endonuclease subunit [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.3e-35  Score=252.73  Aligned_cols=169  Identities=36%  Similarity=0.502  Sum_probs=119.6

Q ss_pred             CcEEecccCccccceeeEeCCeEEEeHHHHHHHHhcC-cEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhcccc
Q 030702            1 MAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIG-ALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSL   79 (173)
Q Consensus         1 ~A~V~~~kG~~~~~~G~~~~~~l~L~peEalYL~ErG-~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~   79 (173)
                      ||+|.+++|++|+|||+++.|++||.+||||||+||| ...+...++++||++++|+.+.++..  +||+|+||+||||+
T Consensus        88 mAeVekk~Gkl~~TmG~adsgklyl~~eEalYL~ErG~l~~cg~e~~I~~sl~dLys~~~s~~~--s~enYlVyahLkrl  165 (364)
T KOG4772|consen   88 MAEVEKKRGKLWTTMGIADSGKLYLFIEEALYLSERGELQSCGHEDDIVISLKDLYSEIASEKY--SMENYLVYAHLKRL  165 (364)
T ss_pred             eeeEeecCCcceeeeeeeccCceEEeHHHHHHHHHhhhhhhhcCccchhhHHHHHHHHHhhhhc--chhHHHHHHHHHhc
Confidence            7999999999999999999888999999999999999 44565667999999999999998765  59999999999999


Q ss_pred             CeEEEecCCCccccC---CCCCcccc----ccCCc--------cccccCCCCC----Cc-----cCCCCChhH-HH----
Q 030702           80 GYIVGRHGVPWIVKI---PKGRDINI----TSDPV--------SLQVTPKRHG----VM-----DVEPKEESS-LV----  130 (173)
Q Consensus        80 GYiV~r~~~~~~~~~---~~~~~~~~----~~~~~--------~~~~~~~~~~----~~-----~~~~~sy~~-I~----  130 (173)
                      ||||.||+++-..+.   +.+.-++.    ..++.        +++.-++.+.    .+     ....+++.+ +|    
T Consensus       166 Gfiv~rhn~~~~~~~e~~~~~kiw~~k~a~~~~L~~p~~i~es~~f~~~~~r~~~~s~LL~d~~~~d~~~v~Dp~yLp~~  245 (364)
T KOG4772|consen  166 GFIVKRHNVPAAVKTEFFPLKKIWTLKDAITWRLLSPSKIQESSCFSEFFYRRDTVSKLLYDMLICDARSVFDPVYLPNS  245 (364)
T ss_pred             ceeeeccCCCcccccccccHHHHHHHHHHHhccCCCchhhhhhhhhhhhhhhhhHHHHHHHhhhhcccccccchhcCcch
Confidence            999999997622211   10000100    00000        1111001000    00     111111111 11    


Q ss_pred             HHHhcccCCCCceeEEEeCCCCCCccCCCCCCcEEEEEeec
Q 030702          131 ALFYNIQINEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCK  171 (173)
Q Consensus       131 ~~l~~~~~~~~~i~f~V~kP~~~FkK~~P~~PDF~i~V~~k  171 (173)
                      +...-...+|+.++|++|||.++|+|+.|+.|||+|||+|+
T Consensus       246 ~~k~~~k~spie~tfs~~kpfS~fgks~~s~pdf~v~v~~~  286 (364)
T KOG4772|consen  246 QFKEFQKSSPIEPTFSFVKPFSNFGKSDPSLPDFQVFVYNK  286 (364)
T ss_pred             hhhhhcccCCCCCcceeecccccccCCCCCCCceeEEEEec
Confidence            01111246899999999999999999999999999999997

>PF12928 tRNA_int_end_N2: tRNA-splicing endonuclease subunit sen54 N-term; InterPro: IPR024336 tRNA-splicing endonucleases (3

Probab=99.69  E-value=1.6e-17  Score=116.69  Aligned_cols=44  Identities=43%  Similarity=0.575  Sum_probs=41.5

Q ss_pred             CcEEecccCcccccee-eEeCCeEEEeHHHHHHHHhcCcEEEEcC
Q 030702            1 MAEVVEKKGKMWTTTG-IVRNGKTYCSIEETLFLAEIGALYLLDN   44 (173)
Q Consensus         1 ~A~V~~~kG~~~~~~G-~~~~~~l~L~peEalYL~ErG~L~~~~~   44 (173)
                      +|+|+++||+||++|| ...++++||+|||||||+|||+|+|+++
T Consensus        27 ~a~v~~~rG~~~~~mG~~~~~~~~~L~pEEalyLvErGsL~l~~~   71 (72)
T PF12928_consen   27 MAEVTHPRGKFFQTMGRADRGGKLWLLPEEALYLVERGSLDLWWP   71 (72)
T ss_pred             EEEEECCcCCcHHhcCCccCCCeEEEeHHHHHHHHhcCcEEEEeC
Confidence            5899999999999999 6699999999999999999999999964

1.27.9 from EC) catalyse the endonucleolytic cleavage of pre tRNA at the 5' and 3' splice sites to release the intron and produces two half tRNA molecules bearing 5' hydroxyl and 2', 3'-cyclic phosphate termini [, ]. The genes encoding these proteins are homologous in eukaryotes and archea. The eukaryotic tRNA-splicing endonucleases are heterotetrameric while the archaeal endonucleases can be split into homodimeric and homotetrameric subgroups. This entry represents the N-terminal domain of Sen54, a non-catalytic subunit of the tRNA-splicing endonuclease complex. Defects in human Sen54 are a cause of pontocerebellar hypoplasia type 4 [].

>PRK09297 tRNA-splicing endonuclease subunit alpha; Reviewed

Probab=99.48  E-value=1.7e-14  Score=116.01  Aligned_cols=72  Identities=28%  Similarity=0.328  Sum_probs=65.3

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      -+|+..++.+.|+|+||+||+|+|.|++.+.++.+||++|+++.+...+. .++.+|.||+|||++||+|+..
T Consensus        26 ~yG~~~~~~L~Ls~~Ea~yL~~~g~L~v~~~~~~~~s~~el~~~~~~~~~-~F~~~y~VY~dLr~rG~~vk~G   97 (169)
T PRK09297         26 FYGKLLGNPLELSLIEALYLVEKGWLEVVDKDGELLSFEELYELAREIIE-KFDIKYLVYKDLRDRGYIVKSG   97 (169)
T ss_pred             CcCCccCCcEEEcHHHHHHHHHCCCEEEEcCCCcccCHHHHHHHHHhccc-cHHHHhHHHHHHHHCCCccCCC
Confidence            56888899999999999999999999999877888999999999987554 6789999999999999999764

>TIGR00324 endA tRNA intron endonuclease

Probab=99.42  E-value=1.2e-13  Score=111.35  Aligned_cols=72  Identities=22%  Similarity=0.357  Sum_probs=64.8

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      -+|+..++.+.|+|+||+||+++|+|++.+.++.+||.+++++.+...+. .++.+|.||+|||++||+|+..
T Consensus        27 ~yG~~~~~~l~LsliEa~yL~~~g~l~v~~~~~~~ls~~el~~~~~~~~~-~f~~~y~VY~dLR~rG~~vk~G   98 (170)
T TIGR00324        27 EYGNLDGDSLNLSLIESLYLIDLGKLRLIRSDSEPLSREELSDLARKVER-GFMRKYLVYKDLRDRGYVVKTG   98 (170)
T ss_pred             cCCCCcCCccEEeHHHHHHHHhCCcEEEEcCCCCcCCHHHHHHHHHhccc-cHHHhhHHHHHHHHCCCEecCC
Confidence            46777888999999999999999999998777889999999999986554 5789999999999999999876

The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and 3' splice sites to release the intron and produces two half tRNA molecules bearing 5' hydroxyl and 2', 3'-cyclic phosphate termini. The genes are homologous in Eucarya and Archea. The two yeast genes have been functionally studied (PubMed:97344075) and are two subunits of a heterotetramer enzyme in yeast the other two subunits of which have no known homologs.

>PRK09300 tRNA splicing endonuclease; Reviewed

Probab=99.22  E-value=1.1e-11  Score=109.32  Aligned_cols=67  Identities=16%  Similarity=0.241  Sum_probs=60.0

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      -+|+..++.|.|+|.||+||+|+|.|++. .   .+|++|+++.+... . .+..+|.||++||++||+|+..
T Consensus        25 ~YG~~~g~~L~LslvEalYL~~~g~l~v~-~---~~~~eel~~~~~~~-~-~f~~~y~VY~dLR~rGy~vk~g   91 (330)
T PRK09300         25 GYGRPKGDGLELAPVEAAYLLFRGKIEIV-D---GLGFRDLFARASLR-P-NFELRYLVYKDLRERGYYVQPG   91 (330)
T ss_pred             CCCcCCCCeeEEcHHHHHHHHHcCCEEEe-c---CCCHHHHHHHhhhc-c-cchheehHHHHHHHCCceeccC
Confidence            46899999999999999999999999997 2   29999999998865 2 5789999999999999999984

>COG1676 SEN2 tRNA splicing endonuclease [Translation, ribosomal structure and biogenesis]

Probab=99.11  E-value=1e-10  Score=95.41  Aligned_cols=71  Identities=28%  Similarity=0.379  Sum_probs=63.5

Q ss_pred             eeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           15 TGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        15 ~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      .|...+..+.|++.||+||.|+|.|.+.+.++.++|++|++.+.....+ .+..+|.||++||++||+|+..
T Consensus        38 ~~~~~~~~l~ls~~ea~yl~e~g~l~~~~~~~~~~s~eel~~~~~~~~~-~f~~~y~VY~dLr~rG~vvktG  108 (181)
T COG1676          38 IGTTERDPLQLSLIEALYLAERGFLKVESRDGKILSFEELMDLGAEKEE-SFDERYLVYRDLRDRGYVVKTG  108 (181)
T ss_pred             ccccccccceecHHHHHHHhhcceEeeccCCCccccHHHHHHHHhhccc-ccceeeeehhhHHhCceEECcc
Confidence            4445567899999999999999999999888899999999999987764 6899999999999999999865

>PRK09300 tRNA splicing endonuclease; Reviewed

Probab=98.96  E-value=3.5e-10  Score=99.74  Aligned_cols=73  Identities=23%  Similarity=0.273  Sum_probs=61.1

Q ss_pred             ceeeE-eCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec---CCC
Q 030702           14 TTGIV-RNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH---GVP   89 (173)
Q Consensus        14 ~~G~~-~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~---~~~   89 (173)
                      .+|+. .+..+.|+++||+||+++|+|++     ..||++++.+.+...+. .+..+|.||+|||++||+|+..   +..
T Consensus       189 ~YG~~~~~~~L~LslvEA~yL~~~g~L~v-----~~~~~~el~~~~~~~~~-~F~~~y~VY~dLR~rG~~vk~G~KFG~D  262 (330)
T PRK09300        189 FYGKPLDGRRLQLSLVEAAYLLERGVLSV-----EILDADEFVERAREVEG-EFDRKLAVYRDLRERGFVPKTGFKFGSD  262 (330)
T ss_pred             CCCCCCCCCceeECHHHHHHHHhCCCEEE-----eeCCHHHHHHHHhhccc-chHhhhHHHHHHHHCCCEecCCcccCce
Confidence            35765 34499999999999999999999     36999999999987554 5889999999999999999887   544


Q ss_pred             ccc
Q 030702           90 WIV   92 (173)
Q Consensus        90 ~~~   92 (173)
                      +..
T Consensus       263 F~v  265 (330)
T PRK09300        263 FRV  265 (330)
T ss_pred             EEE
Confidence            443

>PF02778 tRNA_int_endo_N: tRNA intron endonuclease, N-terminal domain; InterPro: IPR006678 This entry represents a 2-layer alpha/beta domain found at the N-terminal in homotetrameric tRNA-intron endonucleases [], and as domains 1 (N-terminal) and 3 in the homodimeric enzymes []

Probab=98.71  E-value=2.5e-08  Score=69.22  Aligned_cols=40  Identities=25%  Similarity=0.419  Sum_probs=36.0

Q ss_pred             eee-EeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHH
Q 030702           15 TGI-VRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIY   55 (173)
Q Consensus        15 ~G~-~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y   55 (173)
                      +|+ ..++++.|+++||+||+++|+|+|. .+|.+||.+|++
T Consensus        27 YG~~~~~~~L~LslvEa~YL~~~g~l~v~-~~g~~ls~~el~   67 (67)
T PF02778_consen   27 YGKPLDDERLQLSLVEALYLLEKGKLEVY-EDGKKLSFEELW   67 (67)
T ss_dssp             -SEECETSCEEEEHHHHHHHHHTTSEEEE-TTSCEE-HHHHH
T ss_pred             CCCCCCCCcEEEeHHHHHHHHhCCcEEEe-eCCcCCCHHHhC
Confidence            788 6999999999999999999999998 889999999985

tRNA-intron endonucleases (3.1.27.9 from EC) remove tRNA introns by cleaving pre-tRNA at the 5'- and 3'-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-hydroxyl termini []. These enzymes recognise a pseudosymmetric substrate in which 2 bulged loops of 3 bases are separated by a stem of 4 bp []. Although homotetrameric enzymes contain four active sites, only two participate in the cleavage, and should therefore, be considered as a dimer of dimers.; GO: 0000213 tRNA-intron endonuclease activity, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1A79_D 2CV8_A 3P1Z_B 3AJV_B 3IEY_A 2ZYZ_D 2GJW_D 1R0V_A 3P1Y_C 1R11_B ....

>PRK09539 tRNA-splicing endonuclease subunit beta; Reviewed

Probab=96.42  E-value=0.0013  Score=50.90  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=20.2

Q ss_pred             CCcceeeeehhccccCeEEEec
Q 030702           65 CSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        65 ~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      ..+.+|.||+|||++||+|++.
T Consensus        33 ~~~~kylVYkDLR~RGyvVk~G   54 (124)
T PRK09539         33 VNWDKVDVFVDLKQRGRKTIDG   54 (124)
T ss_pred             cccceEEEehhHHhCCCeeccC
Confidence            4699999999999999999886

>KOG4685 consensus tRNA splicing endonuclease SEN2 [Translation, ribosomal structure and biogenesis]

Probab=96.27  E-value=0.0021  Score=55.24  Aligned_cols=62  Identities=23%  Similarity=0.352  Sum_probs=53.4

Q ss_pred             eEEEeHHHHHHHH-hcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEe
Q 030702           22 KTYCSIEETLFLA-EIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGR   85 (173)
Q Consensus        22 ~l~L~peEalYL~-ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r   85 (173)
                      -|.|+||||.||. .-++|.|. .+-.+++..+++..+..... .+---|.+|.|||..|+||+.
T Consensus       112 ~LqLs~eEAffL~y~lkci~I~-~~k~l~~~v~~w~am~~~~~-~F~~~y~~y~hlrskGWvvrs  174 (271)
T KOG4685|consen  112 WLQLSPEEAFFLSYALKCIKIS-LNKCLLNEVDLWTAMRSLQP-NFGKLYKAYHHLRSKGWVVRS  174 (271)
T ss_pred             HhhcCHHHHHHHHhhhceeEEe-hhhccccHHHHHHHHhhcch-hhHHHHHHHHHHHHcCcEecc
Confidence            4789999999996 56889998 55788999999999887553 678889999999999999987

>PF01974 tRNA_int_endo: tRNA intron endonuclease, catalytic C-terminal domain; InterPro: IPR006677 This entry represents a 3-layer alpha/beta/alpha domain found as the catalytic domain at the C-terminal in homotetrameric tRNA-intron endonucleases [], and as domains 2 and 4 (C-terminal) in the homodimeric enzymes []

Probab=92.49  E-value=0.018  Score=40.94  Aligned_cols=20  Identities=45%  Similarity=0.968  Sum_probs=17.3

Q ss_pred             cceeeeehhccccCeEEEec
Q 030702           67 WELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        67 ~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      +.+|.||++||++||+|+..
T Consensus         2 ~~~y~vY~dLr~rG~~v~~G   21 (85)
T PF01974_consen    2 WRKYAVYRDLRSRGYVVKPG   21 (85)
T ss_dssp             HHHHHHHHHHHHTT-EEEEE
T ss_pred             chhhHHHHHHHHCCCEECcc
Confidence            56899999999999999877

tRNA-intron endonucleases (3.1.27.9 from EC) remove tRNA introns by cleaving pre-tRNA at the 5'- and 3'-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-hydroxyl termini []. These enzymes recognise a pseudosymmetric substrate in which 2 bulged loops of 3 bases are separated by a stem of 4 bp []. Although homotetrameric enzymes contain four active sites, only two participate in the cleavage, and should therefore, be considered as a dimer of dimers.; GO: 0000213 tRNA-intron endonuclease activity, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 3IEY_B 3IF0_X 2CV8_A 3P1Z_B 3AJV_B 2GJW_D 1R0V_A 3P1Y_C 1R11_B 1RLV_A ....

---

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	173
1a79_A	171	TRNA endonuclease; 2.28A {Methanocaldococcus janna	2e-06
2zyz_B	183	TRNA-splicing endonuclease; crenarchaea, heterotet	4e-05
2cv8_A	180	TRNA-splicing endonuclease; tRNA-intron endonuclea	4e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05
3iey_B	153	NEQ261; protein heterodimer, endonuclease, hydrola	1e-04
3iey_A	154	TRNA-splicing endonuclease; protein heterodimer, e	1e-04
3ajv_A	190	Putative uncharacterized protein; ENDA, archaea cr	2e-04
3ajv_B	186	TRNA-splicing endonuclease; ENDA, archaea crenarch	5e-04
1r0v_A	305	ENDA, tRNA-intron endonuclease, intron endonucleas	8e-04

>1a79_A TRNA endonuclease; 2.28A {Methanocaldococcus jannaschii} SCOP: c.52.2.1 d.75.1.1 Length = 171

 Score = 44.6 bits (105), Expect = 2e-06
 Identities = 25/106 (23%), Positives = 47/106 (44%), Gaps = 5/106 (4%)

Query: 16  GIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRH 75
           G V       S+ E L+L  +G L +   ++  L  +E+YE  A          + VY+ 
Sbjct: 28  GNVEGNFLSLSLVEALYLINLGWLEVKYKDNKPLSFEELYE-YARNVEERLCLKYLVYKD 86

Query: 76  LKSLGYIVG---RHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGV 118
           L++ GYIV    ++G  + +   +G +I+       ++V P+    
Sbjct: 87  LRTRGYIVKTGLKYGADFRL-YERGANIDKEHSVYLVKVFPEDSSF 131

>2zyz_B TRNA-splicing endonuclease; crenarchaea, heterotetramer, RNA PROC endonuclease, hydrolase, tRNA processing; 1.70A {Pyrobaculum aerophilum} Length = 183

 Score = 41.2 bits (96), Expect = 4e-05
 Identities = 17/71 (23%), Positives = 37/71 (52%), Gaps = 4/71 (5%)

Query: 25  CSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIV- 83
             + E L+LAE G L ++  +   +  +E+   +  E+     E++++Y++ + LGY+V 
Sbjct: 50  LGLYEALYLAEKGRLKVMGEDGREVAPEELAA-LGRERMRNFDEIYKIYKYFRDLGYVVK 108

Query: 84  --GRHGVPWIV 92
              + G  + V
Sbjct: 109 SGLKFGALFSV 119

>2cv8_A TRNA-splicing endonuclease; tRNA-intron endonuclease, structural genomics, NPPSFA; 2.80A {Sulfolobus tokodaii} Length = 180

 Score = 41.1 bits (96), Expect = 4e-05
 Identities = 20/87 (22%), Positives = 39/87 (44%), Gaps = 5/87 (5%)

Query: 9   GKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWE 68
           G     +    N +   S+ E ++L + G L ++ N +  L  + +Y+ I   +      
Sbjct: 32  GISKPKSAEEINSELILSLIEGVYLVKKGKLEIVSNGER-LDFERLYQ-IGVTQIPRFRI 89

Query: 69  LFEVYRHLKSLGYIVG---RHGVPWIV 92
           L+ VY  L+  GY+V    ++G  + V
Sbjct: 90  LYSVYEDLREKGYVVRSGIKYGADFAV 116

>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 = 41.0 bits (95), Expect = 8e-05
 Identities = 33/181 (18%), Positives = 59/181 (32%), Gaps = 42/181 (23%)

Query: 9   GKMWTTTGIVRNGKTYCSIEETLFLAEIGALY----LLDN-NDLCLPLKEIY----EKIA 59
           GK W    +  + K  C ++  +F   +        +L+    L   +   +    +  +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221

Query: 60  NEKSGCSWELFEVYRHLKSLGY----IVGRHGVPWIVKIPKG-----------RDINITS 104
           N K        E+ R LKS  Y    +V  + V    K               R   +T 
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLN-V-QNAKAWNAFNLSCKILLTTRFKQVT- 278

Query: 105 DPVSLQVTPKR---HGVMDVEPKEESSLVALFYNIQINEVRPVFDVYLPNRKFKKSCPGD 161
           D +S   T      H  M + P E  SL+  + + +  +        LP    ++    +
Sbjct: 279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD--------LP----REVLTTN 326

Query: 162 P 162
           P
Sbjct: 327 P 327

>3iey_B NEQ261; protein heterodimer, endonuclease, hydrolase, nuclease, tRNA processing, hydrolase-RNA binding protein complex; 2.11A {Nanoarchaeum equitans} PDB: 3if0_X Length = 153

 Score = 39.5 bits (92), Expect = 1e-04
 Identities = 16/96 (16%), Positives = 31/96 (32%), Gaps = 5/96 (5%)

Query: 27  IEETLFLAEIGALYLLDNNDLCLPLKEIYE----KIANEKSGCSWELFEVYRHLKSLGYI 82
           +   + ++E   L++L N        ++ E    K   +K    WE++   + L   GY 
Sbjct: 17  MGNYIKISEPELLFVLRNKPQIKDRLKLDEKTIIKEGVKKYKNFWEIYYTVKDLILRGYR 76

Query: 83  VGRHGVPWIVKIPKGRDINITSDPVSLQVTPKRHGV 118
           V   G    +   KG           +        +
Sbjct: 77  VRFDGFFIEL-YEKGIIPGTIEQDYLVYPVSGEIRM 111

>3iey_A TRNA-splicing endonuclease; protein heterodimer, endonuclease, hydrolase, nuclease, tRNA processing, hydrolase-RNA binding protein complex; 2.11A {Nanoarchaeum equitans} Length = 154

 Score = 39.2 bits (91), Expect = 1e-04
 Identities = 15/85 (17%), Positives = 29/85 (34%), Gaps = 6/85 (7%)

Query: 25  CSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVG 84
             + E  +L + G L + + +D  L  +E  +             ++ Y+ L+  GY +G
Sbjct: 17  LPLIEAYYLLDKGELEVYE-DDKKLSKEEFLK-KCLTYDERFLIRYKAYKELRDKGYTLG 74

Query: 85  RH---GVPWIVKIPKGRDINITSDP 106
                G  + V    G         
Sbjct: 75  TALKFGADFRV-YDIGVIPKKGKRS 98

>3ajv_A Putative uncharacterized protein; ENDA, archaea crenarch hydrolase; 1.70A {Aeropyrum pernix} PDB: 3p1z_A Length = 190

 Score = 39.6 bits (92), Expect = 2e-04
 Identities = 12/68 (17%), Positives = 22/68 (32%), Gaps = 8/68 (11%)

Query: 16  GIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRH 75
           G +R G+      E  + A  G L + +       ++ I     +       +   VY  
Sbjct: 60  GYLRKGRL--EPLEAAYQASRGMLCMGETRGWAAAVEVIAGLGLS------LDTALVYFD 111

Query: 76  LKSLGYIV 83
           L+  G   
Sbjct: 112 LRRKGRKP 119

>3ajv_B TRNA-splicing endonuclease; ENDA, archaea crenarch hydrolase; 1.70A {Aeropyrum pernix} PDB: 3p1z_B Length = 186

 Score = 38.2 bits (88), Expect = 5e-04
 Identities = 19/81 (23%), Positives = 38/81 (46%), Gaps = 5/81 (6%)

Query: 15  TGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYR 74
            G    G    S+ E+L+LAE G L +   +   + ++++  + A   +     L+ +YR
Sbjct: 46  RGADFEGPLRLSLIESLYLAEKGVLEVAKPDGSSVGVEDL--RTAVRGNPRFSMLYNIYR 103

Query: 75  HLKSLGYIVG---RHGVPWIV 92
            L+  G++V    + G  + V
Sbjct: 104 DLRERGFVVRSGLKFGSDFAV 124

>1r0v_A ENDA, tRNA-intron endonuclease, intron endonuclease; RNA splicing, X-RAY crystallography, translati hydrolase; 2.00A {Archaeoglobus fulgidus} SCOP: c.52.2.1 c.52.2.1 d.75.1.1 PDB: 1r11_A 1rlv_A 2gjw_A* 3p1y_A Length = 305

 Score = 37.8 bits (87), Expect = 8e-04
 Identities = 10/57 (17%), Positives = 18/57 (31%)

Query: 27 IEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIV 83
            + ++L  +  +YL           E     A  +       + VY  L+  G  V
Sbjct: 24 RGDKIYLHPLEVVYLQIKGIESFGELEDVLSWAESRMEDFSTYYFVYEDLRDRGNKV 80

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	173
2ohc_A	289	TRNA-splicing endonuclease; intron, hydrolase; 2.5	99.51
3iey_A	154	TRNA-splicing endonuclease; protein heterodimer, e	99.48
2zyz_B	183	TRNA-splicing endonuclease; crenarchaea, heterotet	99.46
1a79_A	171	TRNA endonuclease; 2.28A {Methanocaldococcus janna	99.44
2cv8_A	180	TRNA-splicing endonuclease; tRNA-intron endonuclea	99.39
3ajv_B	186	TRNA-splicing endonuclease; ENDA, archaea crenarch	99.32
3iey_B	153	NEQ261; protein heterodimer, endonuclease, hydrola	99.26
3ajv_A	190	Putative uncharacterized protein; ENDA, archaea cr	99.11
1r0v_A	305	ENDA, tRNA-intron endonuclease, intron endonucleas	98.94
4fz2_A	395	TRNA intron endonuclease; tRNA splicing endonuclea	98.89
1r0v_A	305	ENDA, tRNA-intron endonuclease, intron endonucleas	98.74
4fz2_A	395	TRNA intron endonuclease; tRNA splicing endonuclea	98.65
2ohc_A	289	TRNA-splicing endonuclease; intron, hydrolase; 2.5	97.54
2zyz_A	116	Putative uncharacterized protein PAE0789; crenarch	92.8

>2ohc_A TRNA-splicing endonuclease; intron, hydrolase; 2.50A {Thermoplasma acidophilum} PDB: 2ohe_A

Probab=99.51  E-value=3e-15  Score=128.33  Aligned_cols=78  Identities=17%  Similarity=0.274  Sum_probs=71.3

Q ss_pred             cEEecccCcccc----ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhcc
Q 030702            2 AEVVEKKGKMWT----TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLK   77 (173)
Q Consensus         2 A~V~~~kG~~~~----~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lk   77 (173)
                      ..|++++|+++.    +||+.+++.++|+|+||+||++||.|++.    .+||++++++.+       ++.+|.||++||
T Consensus        11 ~~v~~~~~~~~~~~~y~~G~~~~~~l~L~p~Ea~YLl~rg~l~i~----~~~~~~~~~~~~-------~~~~y~VY~DLr   79 (289)
T 2ohc_A           11 FFIEDGKSKNYIIGKYKIGYLSGDNLILDPYECLYLYFKGRISFQ----NSDSFRDLFDTV-------TFDRYVAYEILK   79 (289)
T ss_dssp             EEESTTCCHHHHHHHHCCCEEETTEEECCHHHHHHHHHTTCEEES----STTHHHHHHHHS-------CHHHHHHHHHHH
T ss_pred             EEecCCCCCceEecceeeceEcCCEEEEcHHHHHHHHhcCCEEEe----cCCCHHHHHHhh-------hhhhEeehhhHH
Confidence            478999999999    99999999999999999999999999995    478999999877       599999999999


Q ss_pred             ccCeEEEecCCCc
Q 030702           78 SLGYIVGRHGVPW   90 (173)
Q Consensus        78 r~GYiV~r~~~~~   90 (173)
                      ++||.|.+.+...
T Consensus        80 ~rG~~v~~~g~dF   92 (289)
T 2ohc_A           80 NKGYRVKEDSGLI   92 (289)
T ss_dssp             TTTCEEEEETTEE
T ss_pred             hCCceEeeCCccE
Confidence            9999999986433

>3iey_A TRNA-splicing endonuclease; protein heterodimer, endonuclease, hydrolase, nuclease, tRNA processing, hydrolase-RNA binding protein complex; 2.11A {Nanoarchaeum equitans}

Probab=99.48  E-value=5.3e-15  Score=116.43  Aligned_cols=66  Identities=20%  Similarity=0.303  Sum_probs=54.2

Q ss_pred             eCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           19 RNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        19 ~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      .-..++|+||||+||+|+|+|+|. ++|.+||+|++++.+.+.+. .++.+|.||+|||++||+|+..
T Consensus        11 ~~e~L~Ls~~EA~YL~~~G~L~v~-~~~~~ls~~el~~~~~~~~~-~f~~~y~vY~dLr~rG~~vk~G   76 (154)
T 3iey_A           11 LVDDKELPLIEAYYLLDKGELEVY-EDDKKLSKEEFLKKCLTYDE-RFLIRYKAYKELRDKGYTLGTA   76 (154)
T ss_dssp             ECC--CEEHHHHHHHHHHTSCCCC-SCCC----HHHHHHHHHHCT-THHHHHHHHHHHHHTTCEEEEE
T ss_pred             ccceEEEcHHHHHHHHHCCCEEEE-ECCCcCCHHHHHHHHHhcCc-cHHHHHHHHHHHHHCCcEECCC
Confidence            346799999999999999999998 47899999999999997654 7899999999999999999876

>2zyz_B TRNA-splicing endonuclease; crenarchaea, heterotetramer, RNA PROC endonuclease, hydrolase, tRNA processing; 1.70A {Pyrobaculum aerophilum}

Probab=99.46  E-value=2.2e-14  Score=115.27  Aligned_cols=65  Identities=22%  Similarity=0.351  Sum_probs=60.3

Q ss_pred             CeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           21 GKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        21 ~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      ..|+|+||||+||+|+|+|+|.+.+|.+||.+++++.+...++ .++.+|.||+|||++||+|+..
T Consensus        46 ~~L~Ls~eEa~yL~~~g~l~v~d~~~~~ls~~el~~~~~~~~~-~f~~~y~vy~~lr~~G~~v~~G  110 (183)
T 2zyz_B           46 APLILGLYEALYLAEKGRLKVMGEDGREVAPEELAALGRERMR-NFDEIYKIYKYFRDLGYVVKSG  110 (183)
T ss_dssp             SCEEEEHHHHHHHHHTTSCEEECTTSCEECHHHHHHHHHHHST-THHHHHHHHHHHHHTTCEEEEC
T ss_pred             ceEEeeHHHHHHHHHCCCEEEECCCCCcCCHHHHHHHHhhhcc-cHHHHHHHHHHHHHCCeEeccc
Confidence            6799999999999999999999877899999999999887554 7899999999999999999987

>1a79_A TRNA endonuclease; 2.28A {Methanocaldococcus jannaschii} SCOP: c.52.2.1 d.75.1.1

Probab=99.44  E-value=4.8e-14  Score=112.16  Aligned_cols=73  Identities=27%  Similarity=0.363  Sum_probs=64.8

Q ss_pred             cceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           13 TTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        13 ~~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      .-+|+..+..+.|+||||+||+++|.|+|.+.+..+||.+++++.+...+. .++.+|.||+|||++||+|+..
T Consensus        25 ~~yG~~~~~~L~Ls~~Ea~yL~~~g~l~v~~~~~~~l~~~el~~~~~~~~~-~f~~~y~VY~dLr~rG~~v~~G   97 (171)
T 1a79_A           25 RHYGNVEGNFLSLSLVEALYLINLGWLEVKYKDNKPLSFEELYEYARNVEE-RLCLKYLVYKDLRTRGYIVKTG   97 (171)
T ss_dssp             TTCSEECSSCEEEEHHHHHHHHHHTCEEEECSSSSCCCHHHHHHHHHHHCT-THHHHHHHHHHHHHTTCEEEEC
T ss_pred             CcCceEcCCeEEEeHHHHHHHHHcCCEEEEeCCCCCCCHHHHHHHHHhccc-cHHHHhHHHHHHHHCCeEeccc
Confidence            467888889999999999999999999999654455999999999987554 5899999999999999999986

>2cv8_A TRNA-splicing endonuclease; tRNA-intron endonuclease, structural genomics, NPPSFA; 2.80A {Sulfolobus tokodaii}

Probab=99.39  E-value=1e-13  Score=111.12  Aligned_cols=65  Identities=25%  Similarity=0.394  Sum_probs=59.1

Q ss_pred             CCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           20 NGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        20 ~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      +..|+|+||||+||+|+|+|.|.+ +|.+||.+++++.+...++ .++.+|.||+|||++||+|+..
T Consensus        43 ~~~L~Ls~eEA~yL~~~g~l~v~d-~~~~ls~~el~~~~~~~~~-~f~~~y~VY~~Lr~~G~~v~~G  107 (180)
T 2cv8_A           43 NSELILSLIEGVYLVKKGKLEIVS-NGERLDFERLYQIGVTQIP-RFRILYSVYEDLREKGYVVRSG  107 (180)
T ss_dssp             -CCEEEEHHHHHHHHHTTSCEEEE-TTEEECHHHHHHHHHHHST-THHHHHHHHHHHHHTTCEEEEC
T ss_pred             CceEEEeHHHHHHHHHCCCEEEee-CCCCCCHHHHHHHHhhhcc-cHHHHhHHHHHHHhCCeEeccc
Confidence            467999999999999999999984 6899999999999987664 7899999999999999999987

>3ajv_B TRNA-splicing endonuclease; ENDA, archaea crenarch hydrolase; 1.70A {Aeropyrum pernix} PDB: 3p1z_B

Probab=99.32  E-value=5.3e-13  Score=107.63  Aligned_cols=64  Identities=23%  Similarity=0.394  Sum_probs=57.5

Q ss_pred             CeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           21 GKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        21 ~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      ..|.|++|||+||+|+|+|+|.+.+|.+||.+++++. ...+ ..++.+|.||+|||++||+|+..
T Consensus        52 ~~L~Ls~~Ea~yL~~~g~l~v~~~~~~~ls~~el~~~-~~~~-~~f~~~y~VY~dLr~rG~~v~~G  115 (186)
T 3ajv_B           52 GPLRLSLIESLYLAEKGVLEVAKPDGSSVGVEDLRTA-VRGN-PRFSMLYNIYRDLRERGFVVRSG  115 (186)
T ss_dssp             CCEEEEHHHHHHHHHTTSEEEECTTSCEECHHHHHHH-HHTS-HHHHHHHHHHHHHHHTTCEEEEC
T ss_pred             ceEEEeHHHHHHHHHCCCEEEECCCCCcCCHHHHHHH-hhcc-chHHHHhhHHHHHHhCceEeccc
Confidence            6799999999999999999999777899999999999 3333 35899999999999999999887

>3iey_B NEQ261; protein heterodimer, endonuclease, hydrolase, nuclease, tRNA processing, hydrolase-RNA binding protein complex; 2.11A {Nanoarchaeum equitans} PDB: 3if0_X

Probab=99.26  E-value=1.7e-13  Score=107.74  Aligned_cols=73  Identities=22%  Similarity=0.183  Sum_probs=65.0

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEecCCCc
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPW   90 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~~~~~   90 (173)
                      -+|+..++.|.|+|+||+||+ +|+|++.  +|.+||++++.+.+...+. .++.+|.||+|||++||+|+..+..+
T Consensus        12 ~~G~~~~~~L~Ls~~EA~yL~-~g~l~v~--~~~~l~~~~l~~~~~~~~~-~F~~~y~VY~dLR~rG~~vk~GG~DF   84 (153)
T 3iey_B           12 YLGYNMGNYIKISEPELLFVL-RNKPQIK--DRLKLDEKTIIKEGVKKYK-NFWEIYYTVKDLILRGYRVRFDGFFI   84 (153)
T ss_dssp             TCSEECSSSEECCHHHHHHHH-HHCTHHH--HHHTCCHHHHHHHHHHHCT-THHHHHHHHHHHHHTTCEEEECSSSE
T ss_pred             eeeeEcCCEEEECHHHHHHHh-cCCEEec--cCCcCCHHHHHHHHHhcCc-chhhhhHHHHHHHHCCCEEeeCCCeE
Confidence            479999999999999999999 9999984  5789999999999986553 68999999999999999999985444

>3ajv_A Putative uncharacterized protein; ENDA, archaea crenarch hydrolase; 1.70A {Aeropyrum pernix} PDB: 3p1z_A

Probab=99.11  E-value=1.7e-11  Score=99.41  Aligned_cols=66  Identities=24%  Similarity=0.184  Sum_probs=57.3

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEecC
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHG   87 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~~   87 (173)
                      .+|..+++.  |+|+||+||+++|.|++    +..+|++++++.+.. . +.+..+|.||+|||++||+|+...
T Consensus        58 ~yG~~~~~~--Ls~vEAlYL~~~G~L~v----~~~~~~~eL~~~~~~-~-~~f~~kY~VYkDLR~RGy~Vk~G~  123 (190)
T 3ajv_A           58 RIGYLRKGR--LEPLEAAYQASRGMLCM----GETRGWAAAVEVIAG-L-GLSLDTALVYFDLRRKGRKPLVGV  123 (190)
T ss_dssp             HHTSEETTE--ECHHHHHHHHHHTCEEE----TTBCHHHHHHHHHHH-T-TCCHHHHHHHHHHHHTTCCCEECS
T ss_pred             ccccccCCe--ECHHHHHHHHhcCcEee----cCCCCHHHHHHHHhh-C-CCcceEEEeHHHHHhCCCEEeecC
Confidence            478877777  99999999999999987    357899999999876 3 367899999999999999999874

>1r0v_A ENDA, tRNA-intron endonuclease, intron endonuclease; RNA splicing, X-RAY crystallography, translati hydrolase; 2.00A {Archaeoglobus fulgidus} SCOP: c.52.2.1 c.52.2.1 d.75.1.1 PDB: 1r11_A 1rlv_A 2gjw_A* 3p1y_A

Probab=98.94  E-value=2.7e-10  Score=98.21  Aligned_cols=67  Identities=30%  Similarity=0.439  Sum_probs=58.9

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      -+|+..++.|.|+++||+||+++|+|+|. ..|    .+++.+.+...+. .++.+|.||+|||++||+|+..
T Consensus       170 ~yG~~~~~~L~Lsl~EA~yL~~~g~L~v~-~~~----~~el~~~~~~~~~-~f~~~y~VY~dLR~rG~vvk~G  236 (305)
T 1r0v_A          170 FYGSEKGDLVTLSLIESLYLLDLGKLNLL-NAD----REELVKRAREVER-NFDRRYEVYRNLKERGFVVKTG  236 (305)
T ss_dssp             CCSEEETTEEEECHHHHHHHHHHTCEEET-TCC----HHHHHHHHHHHST-THHHHHHHHHHHHHTTCEEEEC
T ss_pred             CCCcccCCeeEEcHHHHHHHHhcCcEEEe-cCC----HHHHHHHHhhcCc-chhhhhhHHHHHHHCCCEeccC
Confidence            57888889999999999999999999996 333    3999999887554 6899999999999999999987

>4fz2_A TRNA intron endonuclease; tRNA splicing endonuclease, hydrolase; 2.25A {Candidatus micrarchaeum acidiphilum}

Probab=98.89  E-value=5.4e-10  Score=99.20  Aligned_cols=71  Identities=21%  Similarity=0.323  Sum_probs=64.0

Q ss_pred             eeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEecC
Q 030702           15 TGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHG   87 (173)
Q Consensus        15 ~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~~   87 (173)
                      +|+..++++.|++.||+||+++|.+...+.+|..+|++++.+.+..+.  .++.+|.||++||.+||+|++..
T Consensus        30 FGrp~g~~L~LS~~EAaYLl~~~krl~vd~~gk~ls~eelle~~~~~r--~f~~kylVYkDLReRG~~Vk~~g  100 (395)
T 4fz2_A           30 FGEYRAGKLMLEVEEGLYLVDVRKAACTDENSKPVSFNDIAGVFIKRK--KLMARYFTFKDWRDRGLIIKSPG  100 (395)
T ss_dssp             CSEEETTEEEECHHHHHHHHHHSCCEEECTTSCBCCHHHHHHHTTTST--THHHHHHHHHHHHHTTCCEESCC
T ss_pred             CCCccCCceEEEehhhhHHHHhCCeeeeccCCCcCCHHHHHHHHHhch--hHHHHHHHHHHHHhcCccccccc
Confidence            799999999999999999999998887788899999999998877643  47899999999999999999754

>1r0v_A ENDA, tRNA-intron endonuclease, intron endonuclease; RNA splicing, X-RAY crystallography, translati hydrolase; 2.00A {Archaeoglobus fulgidus} SCOP: c.52.2.1 c.52.2.1 d.75.1.1 PDB: 1r11_A 1rlv_A 2gjw_A* 3p1y_A

Probab=98.74  E-value=4.3e-10  Score=96.93  Aligned_cols=65  Identities=20%  Similarity=0.252  Sum_probs=20.7

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      -+|+..++.+.|+|+||+||+++|. ++.  ++  |  +++++.+...+. .++.+|.||+|||++||.|+..
T Consensus        19 ~yG~~~~~~l~L~~~Ea~YL~~~~~-~i~--~~--~--~~l~~~~~~~~~-~~~~~y~VY~DLR~RGy~v~~g   83 (305)
T 1r0v_A           19 GFGVKRGDKIYLHPLEVVYLQIKGI-ESF--GE--L--EDVLSWAESRME-DFSTYYFVYEDLRDRGNKVKIQ   83 (305)
T ss_dssp             ---------------------------------------------------CHHHHHHHHHHHHHTTCCCEEE
T ss_pred             cCCcccCCEEEEeHHHHHHHHHcCC-chH--hh--H--HHHHHHHHhccc-chhhheehHHHHHhCCcEeeeC
Confidence            5788899999999999999999999 886  23  3  899988865443 6899999999999999999887

>4fz2_A TRNA intron endonuclease; tRNA splicing endonuclease, hydrolase; 2.25A {Candidatus micrarchaeum acidiphilum}

Probab=98.65  E-value=1e-08  Score=90.99  Aligned_cols=61  Identities=23%  Similarity=0.426  Sum_probs=54.4

Q ss_pred             CCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEec
Q 030702           20 NGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        20 ~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      .+.+.|+++||+||+|+|.|++.     .+|.+++.+.+...+. .+..+|.||+|||.+||+|+..
T Consensus       166 ~~~LqLSlvEA~YL~~~G~L~V~-----~~s~~el~~~~~~~~~-~F~~kY~VY~dLR~rG~vvksG  226 (395)
T 4fz2_A          166 GNLNKLDIYETLFLIDMGVISIK-----NFTRAQIVNIASARRT-DIMKLYDVYKDWRTKGYVVKTG  226 (395)
T ss_dssp             CCCEEECHHHHHHHHHTTCEEES-----SCCHHHHHHHHHHHCT-THHHHHHHHHHHHTTTCEEEEE
T ss_pred             CcceeecHHHHHHHHhCCCEEee-----cCCHHHHHHHHhhcch-hhhhhhHHHHHHHHCCCEeCcC
Confidence            45789999999999999999995     3899999999987664 6889999999999999999854

>2ohc_A TRNA-splicing endonuclease; intron, hydrolase; 2.50A {Thermoplasma acidophilum} PDB: 2ohe_A

Probab=97.54  E-value=1.7e-05  Score=67.80  Aligned_cols=47  Identities=19%  Similarity=0.068  Sum_probs=36.7

Q ss_pred             cceeeEeC-CeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHccCCCCCcceeeeehhccccCeEEEecC
Q 030702           13 TTTGIVRN-GKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHG   87 (173)
Q Consensus        13 ~~~G~~~~-~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~~~~~~~~~~Y~VY~~Lkr~GYiV~r~~   87 (173)
                      .-+|+..+ ++| |+++||+||++                       ...+. . .  |.||+|||++||+|+..-
T Consensus       173 ~~yG~~~~~~~L-Lsl~Ea~yL~~-----------------------~~~~~-~-f--y~VY~dLR~rG~vvk~G~  220 (289)
T 2ohc_A          173 WWIGTAFHGFRL-LTENEANYISG-----------------------NHSAS-Q-V--DMVYSDLVGRGCIVKTGF  220 (289)
T ss_dssp             TTSSEEETTEEE-ECHHHHHHHTT-----------------------CTTSS-H-H--HHHHHHHHHTTCEEEECG
T ss_pred             hhcCCcCCCccc-CCHHHHHHHhh-----------------------cccch-h-H--HHHHHHHHHCCCEEcccc
Confidence            45788866 789 99999999999                       11111 1 2  999999999999998763

>2zyz_A Putative uncharacterized protein PAE0789; crenarchaea, heterotetramer, RNA PROC endonuclease, hydrolase, tRNA processing; 1.70A {Pyrobaculum aerophilum}

Probab=92.80  E-value=0.016  Score=43.26  Aligned_cols=21  Identities=24%  Similarity=0.284  Sum_probs=19.1

Q ss_pred             CCcceeeeehhccccCeEEEe
Q 030702           65 CSWELFEVYRHLKSLGYIVGR   85 (173)
Q Consensus        65 ~~~~~Y~VY~~Lkr~GYiV~r   85 (173)
                      ....+|.||++||++||+|+.
T Consensus        21 ~~~l~y~VYkDLR~RG~~vk~   41 (116)
T 2zyz_A           21 MDVLQEQVFKDLKSRGFKIIE   41 (116)
T ss_dssp             CCHHHHHHHHHHHTTTCEEEE
T ss_pred             ccceeeHHHHHHHHCCCcccE
Confidence            457789999999999999999

---

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	173
d1a79a2	74	Tetrameric tRNA splicing endonuclease, N-terminal	98.9
d1r0va2	91	Dimeric tRNA splicing endonuclease, domains 2 and	92.0
d1a79a1	97	Tetrameric tRNA splicing endonuclease, C-terminal	90.4
d1r11a3	58	Dimeric tRNA splicing endonuclease, domains 1 and	88.83
d1r0va3	75	Dimeric tRNA splicing endonuclease, domains 1 and	83.37

>d1a79a2 d.75.1.1 (A:9-82) Tetrameric tRNA splicing endonuclease, N-terminal domain {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a+b)
fold: MutS N-terminal domain-like
superfamily: tRNA-intron endonuclease N-terminal domain-like
family: tRNA-intron endonuclease N-terminal domain-like
domain: Tetrameric tRNA splicing endonuclease, N-terminal domain
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.90  E-value=1e-09  Score=75.04  Aligned_cols=47  Identities=28%  Similarity=0.345  Sum_probs=43.6

Q ss_pred             ceeeEeCCeEEEeHHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHc
Q 030702           14 TTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIAN   60 (173)
Q Consensus        14 ~~G~~~~~~l~L~peEalYL~ErG~L~~~~~~g~~lSlq~~y~l~~~   60 (173)
                      .+|+..++++.|+|.||+||+++|.|++.+.+|.+||++++++++..
T Consensus        26 gYG~~~~~~l~Ls~~EalYLl~~gkl~v~~~~gk~lsfe~l~~~a~~   72 (74)
T d1a79a2          26 HYGNVEGNFLSLSLVEALYLINLGWLEVKYKDNKPLSFEELYEYARN   72 (74)
T ss_dssp             TCSEECSSCEEEEHHHHHHHHHHTCEEEECSSSSCCCHHHHHHHHHH
T ss_pred             cCCCCcCCeEEEeHHHHHHHHhcCcEEEecCCCCCCCHHHHHHHHhc
Confidence            47999999999999999999999999998778999999999998764

>d1r0va2 c.52.2.1 (A:215-305) Dimeric tRNA splicing endonuclease, domains 2 and 4 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: tRNA-intron endonuclease catalytic domain-like
family: tRNA-intron endonuclease catalytic domain-like
domain: Dimeric tRNA splicing endonuclease, domains 2 and 4
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=92.00  E-value=0.0068  Score=41.51  Aligned_cols=28  Identities=36%  Similarity=0.528  Sum_probs=22.1

Q ss_pred             CcceeeeehhccccCeEEEec---CCCcccc
Q 030702           66 SWELFEVYRHLKSLGYIVGRH---GVPWIVK   93 (173)
Q Consensus        66 ~~~~Y~VY~~Lkr~GYiV~r~---~~~~~~~   93 (173)
                      +..+|.||++||++||+|+..   +..|...
T Consensus         2 F~~~y~vy~~lr~~G~vv~~G~KfG~df~vY   32 (91)
T d1r0va2           2 FDRRYEVYRNLKERGFVVKTGFKFGSEFRVY   32 (91)
T ss_dssp             HHHHHHHHHHHHHTTCEEEECGGGTSSEEEE
T ss_pred             hHHHhHHHHHHHHCCCEECCCcccCccEEEE
Confidence            357899999999999999987   4455443

>d1a79a1 c.52.2.1 (A:83-179) Tetrameric tRNA splicing endonuclease, C-terminal domain {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: tRNA-intron endonuclease catalytic domain-like
family: tRNA-intron endonuclease catalytic domain-like
domain: Tetrameric tRNA splicing endonuclease, C-terminal domain
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.40  E-value=0.017  Score=39.66  Aligned_cols=21  Identities=33%  Similarity=0.535  Sum_probs=18.4

Q ss_pred             CcceeeeehhccccCeEEEec
Q 030702           66 SWELFEVYRHLKSLGYIVGRH   86 (173)
Q Consensus        66 ~~~~Y~VY~~Lkr~GYiV~r~   86 (173)
                      +.-+|.||++||++||+|...
T Consensus         3 ~~~ky~Vy~dLr~rG~~v~~G   23 (97)
T d1a79a1           3 LCLKYLVYKDLRTRGYIVKTG   23 (97)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEC
T ss_pred             hhhhhHHHHHHHHCCCEEeec
Confidence            356899999999999999765

>d1r11a3 d.75.1.1 (A:3-60) Dimeric tRNA splicing endonuclease, domains 1 and 3 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: MutS N-terminal domain-like
superfamily: tRNA-intron endonuclease N-terminal domain-like
family: tRNA-intron endonuclease N-terminal domain-like
domain: Dimeric tRNA splicing endonuclease, domains 1 and 3
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.83  E-value=0.13  Score=31.47  Aligned_cols=27  Identities=26%  Similarity=0.331  Sum_probs=23.0

Q ss_pred             ccceeeEeCCeEEEeHHHHHHHHhcCc
Q 030702           12 WTTTGIVRNGKTYCSIEETLFLAEIGA   38 (173)
Q Consensus        12 ~~~~G~~~~~~l~L~peEalYL~ErG~   38 (173)
                      -+.+|.-+++++||+|.|.+||.=.|.
T Consensus        15 rrgfgvkrgdkiylhplevvylqikgi   41 (58)
T d1r11a3          15 RRGFGVKRGDKIYLHPLEVVYLQIKGI   41 (58)
T ss_dssp             TTTCSEESSSEEEECHHHHHHHHHHTS
T ss_pred             hcccccccCCEEEeeeeeEEEEEEecc
Confidence            355788899999999999999987773

>d1r0va3 d.75.1.1 (A:140-214) Dimeric tRNA splicing endonuclease, domains 1 and 3 {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: MutS N-terminal domain-like
superfamily: tRNA-intron endonuclease N-terminal domain-like
family: tRNA-intron endonuclease N-terminal domain-like
domain: Dimeric tRNA splicing endonuclease, domains 1 and 3
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.37  E-value=0.61  Score=29.55  Aligned_cols=29  Identities=31%  Similarity=0.489  Sum_probs=25.4

Q ss_pred             eeeEeCCeEEEeHHHHHHHHhcCcEEEEc
Q 030702           15 TGIVRNGKTYCSIEETLFLAEIGALYLLD   43 (173)
Q Consensus        15 ~G~~~~~~l~L~peEalYL~ErG~L~~~~   43 (173)
                      +|.-.++-+-|+..|.|||++.|+|.+..
T Consensus        32 ygsekgdlvtlslieslylldlgklnlln   60 (75)
T d1r0va3          32 YGSEKGDLVTLSLIESLYLLDLGKLNLLN   60 (75)
T ss_dssp             CSEEETTEEEECHHHHHHHHHHTCEEETT
T ss_pred             ccCccCCEeehHHHHHHHHHccccccccc
Confidence            46667888999999999999999999973