Psyllid ID: psy10980

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-----
Protein Sequence
MKDGRVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTSNH
Secondary Structure (PSIPRED)
ccccccccccHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHHHHcHHHHHcHHHHHHHHHHcccHHHHHccccEEEEEccHHHHHHHHHHHHHcccccHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mkdgrvaspklvmeeapesyknVTDVVDTchavgiskktfklrpvAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTSNH
Flexible Loop (DISEMBL)
mkdgrvaspklvmeeapesyknvtdVVDTCHAVgiskktfklrpvaVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTSNH
Low Complexity Region (SEG)
MKDGRVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTSNH
Disordered region (IsUnstruct)
*******************YKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL****
Disordered Region (DISOPRED)
**********LVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILT***
Disordered Region (DISEMBL)
********PKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTSNH
Disordered Region (DISPRO)
*******SPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILT***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKDGRVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTSNH
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	105	2.2.26 [Sep-21-2011]
C3YN79	507	tRNA-splicing ligase RtcB	yes	N/A	0.438	0.090	0.913	3e-18
A7RKF6	505	tRNA-splicing ligase RtcB	N/A	N/A	0.438	0.091	0.891	6e-18
Q9VIW7	506	tRNA-splicing ligase RtcB	yes	N/A	0.438	0.090	0.869	3e-17
A8QC60	505	tRNA-splicing ligase RtcB	N/A	N/A	0.438	0.091	0.869	5e-17
A9CB42	505	tRNA-splicing ligase RtcB	N/A	N/A	0.438	0.091	0.869	5e-17
Q4R6X4	505	tRNA-splicing ligase RtcB	N/A	N/A	0.438	0.091	0.869	5e-17
Q561P3	505	tRNA-splicing ligase RtcB	yes	N/A	0.438	0.091	0.869	5e-17
Q6NZS4	505	tRNA-splicing ligase RtcB	yes	N/A	0.438	0.091	0.869	5e-17
Q19PY3	505	tRNA-splicing ligase RtcB	yes	N/A	0.438	0.091	0.869	5e-17
Q9Y3I0	505	tRNA-splicing ligase RtcB	yes	N/A	0.438	0.091	0.869	5e-17

>sp|C3YN79|RTCB_BRAFL tRNA-splicing ligase RtcB homolog OS=Branchiostoma floridae GN=BRAFLDRAFT_216547 PE=3 SV=1

 Score = 90.1 bits (222), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 42/46 (91%), Positives = 44/46 (95%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCHAVGISKK  KLRP+AVIKG
Sbjct: 462 RVASPKLVMEEAPESYKNVTDVVNTCHAVGISKKAIKLRPIAVIKG 507

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.
Branchiostoma floridae (taxid: 7739)
EC: 6EC: .EC: 5EC: .EC: 1EC: .EC: 3

>sp|A7RKF6|RTCB_NEMVE tRNA-splicing ligase RtcB homolog OS=Nematostella vectensis GN=v1g198406 PE=3 SV=1

 Score = 89.4 bits (220), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 41/46 (89%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCH+ GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVDTCHSAGISKKAIKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Nematostella vectensis (taxid: 45351)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|Q9VIW7|RTCB_DROME tRNA-splicing ligase RtcB homolog OS=Drosophila melanogaster GN=CG9987 PE=1 SV=1

 Score = 87.0 bits (214), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYK+VTDVVDTCHA GISKK  K+RP+AVIKG
Sbjct: 461 RVASPKLVMEEAPESYKDVTDVVDTCHAAGISKKCIKMRPIAVIKG 506

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Drosophila melanogaster (taxid: 7227)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|A8QC60|RTCB_BRUMA tRNA-splicing ligase RtcB homolog OS=Brugia malayi GN=Bm1_49220 PE=3 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK+ KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVNTCHEAGISKKSVKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Brugia malayi (taxid: 6279)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|A9CB42|RTCB_PAPAN tRNA-splicing ligase RtcB homolog OS=Papio anubis PE=3 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Papio anubis (taxid: 9555)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|Q4R6X4|RTCB_MACFA tRNA-splicing ligase RtcB homolog OS=Macaca fascicularis GN=QtsA-16939 PE=2 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Macaca fascicularis (taxid: 9541)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|Q561P3|RTCB_XENTR tRNA-splicing ligase RtcB homolog OS=Xenopus tropicalis PE=2 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Xenopus tropicalis (taxid: 8364)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|Q6NZS4|RTCB_DANRE tRNA-splicing ligase RtcB homolog OS=Danio rerio GN=zgc:76871 PE=2 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Danio rerio (taxid: 7955)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|Q19PY3|RTCB_PIG tRNA-splicing ligase RtcB homolog OS=Sus scrofa PE=2 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Sus scrofa (taxid: 9823)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

>sp|Q9Y3I0|RTCB_HUMAN tRNA-splicing ligase RtcB homolog OS=Homo sapiens GN=C22orf28 PE=1 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

Catalytic subunit of the tRNA-splicing ligase complex that acts by directly joining spliced tRNA halves to mature-sized tRNAs by incorporating the precursor-derived splice junction phosphate into the mature tRNA as a canonical 3',5'-phosphodiester. May act as a RNA ligase with broad substrate specificity, and may function toward other RNAs.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

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	105
321455578	505	hypothetical protein DAPPUDRAFT_302483 [	0.438	0.091	0.934	4e-17
357620999	506	hypothetical protein KGM_11149 [Danaus p	0.438	0.090	0.934	5e-17
221131263	505	PREDICTED: tRNA-splicing ligase RtcB hom	0.438	0.091	0.913	1e-16
260814944	507	hypothetical protein BRAFLDRAFT_216547 [	0.438	0.090	0.913	1e-16
193592101	506	PREDICTED: tRNA-splicing ligase RtcB hom	0.438	0.090	0.913	1e-16
443722955	446	hypothetical protein CAPTEDRAFT_227476 [	0.438	0.103	0.891	3e-16
156404055	505	predicted protein [Nematostella vectensi	0.438	0.091	0.891	3e-16
47208544	531	unnamed protein product [Tetraodon nigro	0.438	0.086	0.869	3e-16
340711363	506	PREDICTED: tRNA-splicing ligase RtcB hom	0.438	0.090	0.891	4e-16
350402329	506	PREDICTED: tRNA-splicing ligase RtcB hom	0.438	0.090	0.891	4e-16

>gi|321455578|gb|EFX66707.1| hypothetical protein DAPPUDRAFT_302483 [Daphnia pulex]

 Score = 92.0 bits (227), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 43/46 (93%), Positives = 44/46 (95%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCHA GISKKT KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVDTCHAAGISKKTVKLRPIAVIKG 505

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357620999|gb|EHJ72985.1| hypothetical protein KGM_11149 [Danaus plexippus]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 43/46 (93%), Positives = 44/46 (95%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCHA GISKKT KLRP+AVIKG
Sbjct: 461 RVASPKLVMEEAPESYKNVTDVVDTCHAAGISKKTVKLRPIAVIKG 506

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|221131263|ref|XP_002156922.1| PREDICTED: tRNA-splicing ligase RtcB homolog [Hydra magnipapillata]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCHA GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVDTCHAAGISKKAIKLRPIAVIKG 505

Source: Hydra magnipapillata

Species: Hydra magnipapillata

Genus: Hydra

Family: Hydridae

Order: Hydroida

Class: Hydrozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|260814944|ref|XP_002602173.1| hypothetical protein BRAFLDRAFT_216547 [Branchiostoma floridae] gi|327488435|sp|C3YN79.1|RTCB_BRAFL RecName: Full=tRNA-splicing ligase RtcB homolog gi|229287480|gb|EEN58185.1| hypothetical protein BRAFLDRAFT_216547 [Branchiostoma floridae]

 Score = 90.1 bits (222), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/46 (91%), Positives = 44/46 (95%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVV+TCHAVGISKK  KLRP+AVIKG
Sbjct: 462 RVASPKLVMEEAPESYKNVTDVVNTCHAVGISKKAIKLRPIAVIKG 507

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|193592101|ref|XP_001947227.1| PREDICTED: tRNA-splicing ligase RtcB homolog [Acyrthosiphon pisum]

 Score = 90.1 bits (222), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/46 (91%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCH  GISKKT KLRP+AVIKG
Sbjct: 461 RVASPKLVMEEAPESYKNVTDVVDTCHEAGISKKTVKLRPIAVIKG 506

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443722955|gb|ELU11596.1| hypothetical protein CAPTEDRAFT_227476 [Capitella teleta]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 41/46 (89%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCHA GIS+K  KLRP+AVIKG
Sbjct: 401 RVASPKLVMEEAPESYKNVTDVVDTCHAAGISEKAIKLRPIAVIKG 446

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|156404055|ref|XP_001640223.1| predicted protein [Nematostella vectensis] gi|327488441|sp|A7RKF6.1|RTCB_NEMVE RecName: Full=tRNA-splicing ligase RtcB homolog gi|156227356|gb|EDO48160.1| predicted protein [Nematostella vectensis]

 Score = 89.4 bits (220), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 41/46 (89%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCH+ GISKK  KLRP+AVIKG
Sbjct: 460 RVASPKLVMEEAPESYKNVTDVVDTCHSAGISKKAIKLRPIAVIKG 505

Source: Nematostella vectensis

Species: Nematostella vectensis

Genus: Nematostella

Family: Edwardsiidae

Order: Actiniaria

Class: Anthozoa

Phylum: Cnidaria

Superkingdom: Eukaryota

>gi|47208544|emb|CAF89494.1| unnamed protein product [Tetraodon nigroviridis]

 Score = 89.0 bits (219), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCH  GIS+K  KLRP+AVIKG
Sbjct: 486 RVASPKLVMEEAPESYKNVTDVVDTCHQAGISRKAIKLRPIAVIKG 531

Source: Tetraodon nigroviridis

Species: Tetraodon nigroviridis

Genus: Tetraodon

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|340711363|ref|XP_003394246.1| PREDICTED: tRNA-splicing ligase RtcB homolog [Bombus terrestris]

 Score = 89.0 bits (219), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 41/46 (89%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCHA GIS+K  KLRP+AVIKG
Sbjct: 461 RVASPKLVMEEAPESYKNVTDVVDTCHAAGISRKCIKLRPIAVIKG 506

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350402329|ref|XP_003486446.1| PREDICTED: tRNA-splicing ligase RtcB homolog [Bombus impatiens]

 Score = 89.0 bits (219), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 41/46 (89%), Positives = 43/46 (93%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           RVASPKLVMEEAPESYKNVTDVVDTCHA GIS+K  KLRP+AVIKG
Sbjct: 461 RVASPKLVMEEAPESYKNVTDVVDTCHAAGISRKCIKLRPIAVIKG 506

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	105
UNIPROTKB|F1NYI3	507	C1H22orf28 "Uncharacterized pr	0.438	0.090	0.891	2.1e-16
FB|FBgn0032781	506	CG9987 [Drosophila melanogaste	0.438	0.090	0.869	4.5e-16
ZFIN|ZDB-GENE-040426-2096	505	zgc:76871 "zgc:76871" [Danio r	0.438	0.091	0.869	9.5e-16
UNIPROTKB|Q561P3	505	Q561P3 "tRNA-splicing ligase R	0.438	0.091	0.869	9.5e-16
UNIPROTKB|Q5E9T9	505	Q5E9T9 "tRNA-splicing ligase R	0.438	0.091	0.869	9.5e-16
UNIPROTKB|Q9Y3I0	505	C22orf28 "tRNA-splicing ligase	0.438	0.091	0.869	9.5e-16
UNIPROTKB|F2Z5V0	505	C22orf28 "Uncharacterized prot	0.438	0.091	0.869	9.5e-16
UNIPROTKB|Q19PY3	505	Q19PY3 "tRNA-splicing ligase R	0.438	0.091	0.869	9.5e-16
UNIPROTKB|A9CB42	505	A9CB42 "tRNA-splicing ligase R	0.438	0.091	0.869	9.5e-16
UNIPROTKB|Q4R6X4	505	QtsA-16939 "tRNA-splicing liga	0.438	0.091	0.869	9.5e-16

UNIPROTKB|F1NYI3 C1H22orf28 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 211 (79.3 bits), Expect = 2.1e-16, P = 2.1e-16
 Identities = 41/46 (89%), Positives = 43/46 (93%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCHA GISKK  KLRP+AVIKG
Sbjct:   462 RVASPKLVMEEAPESYKNVTDVVNTCHAAGISKKAIKLRPIAVIKG 507

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0001890 "placenta development" evidence=IEA

GO:0003972 "RNA ligase (ATP) activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0017166 "vinculin binding" evidence=IEA

GO:0072669 "tRNA-splicing ligase complex" evidence=IEA

FB|FBgn0032781 CG9987 [Drosophila melanogaster (taxid:7227)]

 Score = 208 (78.3 bits), Expect = 4.5e-16, P = 4.5e-16
 Identities = 40/46 (86%), Positives = 43/46 (93%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYK+VTDVVDTCHA GISKK  K+RP+AVIKG
Sbjct:   461 RVASPKLVMEEAPESYKDVTDVVDTCHAAGISKKCIKMRPIAVIKG 506

GO:0022008 "neurogenesis" evidence=IMP

ZFIN|ZDB-GENE-040426-2096 zgc:76871 "zgc:76871" [Danio rerio (taxid:7955)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0003972 "RNA ligase (ATP) activity" evidence=IEA;ISS

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

GO:0072669 "tRNA-splicing ligase complex" evidence=ISS

GO:0016874 "ligase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

UNIPROTKB|Q561P3 Q561P3 "tRNA-splicing ligase RtcB homolog" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0003972 "RNA ligase (ATP) activity" evidence=ISS

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

GO:0072669 "tRNA-splicing ligase complex" evidence=ISS

UNIPROTKB|Q5E9T9 Q5E9T9 "tRNA-splicing ligase RtcB homolog" [Bos taurus (taxid:9913)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0001890 "placenta development" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0072669 "tRNA-splicing ligase complex" evidence=ISS

GO:0003972 "RNA ligase (ATP) activity" evidence=ISS

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0017166 "vinculin binding" evidence=IEA

UNIPROTKB|Q9Y3I0 C22orf28 "tRNA-splicing ligase RtcB homolog" [Homo sapiens (taxid:9606)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0005524 "ATP binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0001890 "placenta development" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0017166 "vinculin binding" evidence=IPI

GO:0007160 "cell-matrix adhesion" evidence=NAS

GO:0034446 "substrate adhesion-dependent cell spreading" evidence=NAS

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

GO:0003972 "RNA ligase (ATP) activity" evidence=IDA

GO:0072669 "tRNA-splicing ligase complex" evidence=IDA

UNIPROTKB|F2Z5V0 C22orf28 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0072669 "tRNA-splicing ligase complex" evidence=IEA

GO:0017166 "vinculin binding" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0003972 "RNA ligase (ATP) activity" evidence=IEA

GO:0001890 "placenta development" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

UNIPROTKB|Q19PY3 Q19PY3 "tRNA-splicing ligase RtcB homolog" [Sus scrofa (taxid:9823)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0072669 "tRNA-splicing ligase complex" evidence=ISS

GO:0003972 "RNA ligase (ATP) activity" evidence=ISS

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|A9CB42 A9CB42 "tRNA-splicing ligase RtcB homolog" [Papio anubis (taxid:9555)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0003972 "RNA ligase (ATP) activity" evidence=ISS

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

GO:0072669 "tRNA-splicing ligase complex" evidence=ISS

UNIPROTKB|Q4R6X4 QtsA-16939 "tRNA-splicing ligase RtcB homolog" [Macaca fascicularis (taxid:9541)]

 Score = 205 (77.2 bits), Expect = 9.5e-16, P = 9.5e-16
 Identities = 40/46 (86%), Positives = 42/46 (91%)

Query:     5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
             RVASPKLVMEEAPESYKNVTDVV+TCH  GISKK  KLRP+AVIKG
Sbjct:   460 RVASPKLVMEEAPESYKNVTDVVNTCHDAGISKKAIKLRPIAVIKG 505

GO:0003972 "RNA ligase (ATP) activity" evidence=ISS

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

GO:0072669 "tRNA-splicing ligase complex" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q58095	RTCB_METJA	3, ., 1, ., -, ., -	0.5581	0.4095	0.0444	yes	N/A
Q6AYT3	RTCB_RAT	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0910	yes	N/A
O29399	RTCB_ARCFU	6, ., 5, ., 1, ., -	0.5217	0.4380	0.0954	yes	N/A
C3YN79	RTCB_BRAFL	6, ., 5, ., 1, ., 3	0.9130	0.4380	0.0907	yes	N/A
Q8IIU6	RTCB_PLAF7	6, ., 5, ., 1, ., 3	0.8043	0.4380	0.0909	yes	N/A
Q4N1R8	RTCB_THEPA	6, ., 5, ., 1, ., 3	0.8043	0.4380	0.0907	yes	N/A
Q54Y09	RTCB_DICDI	6, ., 5, ., 1, ., 3	0.7826	0.4380	0.0905	yes	N/A
Q99LF4	RTCB_MOUSE	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0910	yes	N/A
Q6NZS4	RTCB_DANRE	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0910	yes	N/A
B3L4K9	RTCB_PLAKH	6, ., 5, ., 1, ., 3	0.7826	0.4380	0.0900	yes	N/A
Q7Q412	RTCB_ANOGA	6, ., 5, ., 1, ., 3	0.7826	0.4380	0.0909	yes	N/A
Q9Y3I0	RTCB_HUMAN	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0910	yes	N/A
A4S3S3	RTCB_OSTLU	6, ., 5, ., 1, ., 3	0.8043	0.4380	0.0894	yes	N/A
C1E9Y5	RTCB_MICSR	6, ., 5, ., 1, ., 3	0.8043	0.4380	0.0896	yes	N/A
Q9VIW7	RTCB_DROME	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0909	yes	N/A
Q5E9T9	RTCB_BOVIN	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0910	yes	N/A
Q561P3	RTCB_XENTR	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0910	yes	N/A
Q00ZY2	RTCB_OSTTA	6, ., 5, ., 1, ., 3	0.8043	0.4380	0.0893	yes	N/A
Q19PY3	RTCB_PIG	6, ., 5, ., 1, ., 3	0.8695	0.4380	0.0910	yes	N/A
P90838	RTCB_CAEEL	6, ., 5, ., 1, ., 3	0.8478	0.4380	0.0910	yes	N/A
Q4U923	RTCB_THEAN	6, ., 5, ., 1, ., 3	0.8043	0.4380	0.0893	yes	N/A

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

ID	Length	Definition	E-value
Query	105
pfam01139	419	pfam01139, UPF0027, Uncharacterized protein family	3e-15
COG1690	432	COG1690, RtcB, Uncharacterized conserved protein [	1e-13
pfam01139	419	pfam01139, UPF0027, Uncharacterized protein family	1e-11
COG1690	432	COG1690, RtcB, Uncharacterized conserved protein [	1e-09
TIGR03073	356	TIGR03073, release_rtcB, release factor H-coupled	7e-04
PRK09588	376	PRK09588, PRK09588, hypothetical protein; Reviewed	0.001

>gnl|CDD|216324 pfam01139, UPF0027, Uncharacterized protein family UPF0027

 Score = 69.2 bits (170), Expect = 3e-15
 Identities = 20/52 (38%), Positives = 33/52 (63%), Gaps = 2/52 (3%)

Query: 1   MKDG--RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           +  G  R  S K V++EAPE+YK++ +VV+     G+ +   +L+P+ VIKG
Sbjct: 368 LAGGIVRCRSRKGVLDEAPEAYKDIDEVVEAQEEAGLVRVVARLKPLGVIKG 419

Length = 419

>gnl|CDD|224604 COG1690, RtcB, Uncharacterized conserved protein [Function unknown]

 Score = 64.7 bits (158), Expect = 1e-13
 Identities = 20/46 (43%), Positives = 32/46 (69%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           R  S + V++EAPE+YK++ DV++  H  G+ +   +LRPV V+KG
Sbjct: 387 RATSERGVIDEAPEAYKDIDDVIEASHQSGLVEVVARLRPVGVVKG 432

Length = 432

>gnl|CDD|216324 pfam01139, UPF0027, Uncharacterized protein family UPF0027

 Score = 59.2 bits (144), Expect = 1e-11
 Identities = 19/38 (50%), Positives = 27/38 (71%)

Query: 64  FLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
           +L ++S+EGQDYL +MAAAAN+AW NR  +    R+  
Sbjct: 230 YLPLDSEEGQDYLAAMAAAANYAWANRQLIAHRVREAF 267

Length = 419

>gnl|CDD|224604 COG1690, RtcB, Uncharacterized conserved protein [Function unknown]

 Score = 53.1 bits (128), Expect = 1e-09
 Identities = 17/34 (50%), Positives = 24/34 (70%)

Query: 68  NSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
           +S++GQ YL +MAAAAN+A  NR  +T   R+ L
Sbjct: 254 DSEDGQAYLAAMAAAANYARANRQLITERVRRAL 287

Length = 432

>gnl|CDD|213769 TIGR03073, release_rtcB, release factor H-coupled RctB family protein

 Score = 37.0 bits (86), Expect = 7e-04
 Identities = 14/34 (41%), Positives = 21/34 (61%)

Query: 11  LVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRP 44
           L+ EEAPE+YK++  VV      G+ K   +L+P
Sbjct: 323 LIYEEAPEAYKSIDSVVGALLQAGLIKVVARLKP 356

Members of this family are related to RctB. RctB a protein of known structure but unknown function that often is encoded near RNA cyclase and therefore is suggested to be a tRNA or mRNA processing enzyme. This family of RctB-like proteins in encoded upstream of, and apparently is translationally coupled to, the putative peptide chain release factor RF-H (TIGR03072), product of the prfH gene. Note that a large deletion at the junction between this gene and the prfH gene in Escherichia coli K-12 marks both as probable pseudogenes [Protein synthesis, Other]. Length = 356

>gnl|CDD|181972 PRK09588, PRK09588, hypothetical protein; Reviewed

 Score = 36.5 bits (85), Expect = 0.001
 Identities = 15/41 (36%), Positives = 23/41 (56%)

Query: 10  KLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           +L+ EEAPE+YK++  V+      G+     +LRPV   K 
Sbjct: 333 QLIFEEAPEAYKSIESVIQDLVQAGLITPVARLRPVLTYKT 373

Length = 376

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	105
TIGR03073	356	release_rtcB release factor H-coupled RctB family	99.78
PRK09588	376	hypothetical protein; Reviewed	99.76
PF01139	420	RtcB: tRNA-splicing ligase RtcB; InterPro: IPR0012	99.75
COG1690	432	RtcB Uncharacterized conserved protein [Function u	99.53
KOG3833|consensus	505		99.52
PRK09588	376	hypothetical protein; Reviewed	98.92
PF01139	420	RtcB: tRNA-splicing ligase RtcB; InterPro: IPR0012	98.75
TIGR03073	356	release_rtcB release factor H-coupled RctB family	98.57
KOG3833|consensus	505		98.33
COG1690	432	RtcB Uncharacterized conserved protein [Function u	97.57

>TIGR03073 release_rtcB release factor H-coupled RctB family protein

Probab=99.78  E-value=4.3e-19  Score=142.74  Aligned_cols=64  Identities=22%  Similarity=0.122  Sum_probs=58.6

Q ss_pred             hhccccccccccEEEEEecCcc---------------cCcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy10980         40 FKLRPVAVIKGQIKSWYLCGKA---------------ESFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTS  103 (105)
Q Consensus        40 ~~~~plgv~kg~v~l~vHSGSR---------------~~~l~~~s~eg~~Yl~~m~~A~~fA~~NR~~ia~~i~~~l~~  103 (105)
                      ..++.+|+.+|++|||||||||               ..++|.+|+++++||.+|++|+|||++||++|+++++++|..
T Consensus       140 ~~a~~~Gl~~g~v~l~iHSGSRglG~~i~~~~~~~~~~~~l~~~s~~g~~Yl~~m~~A~~~A~~NR~~i~~~v~~~l~~  218 (356)
T TIGR03073       140 DALATLGLDAKQLLLLVHSGSRGLGQAILRRHVDYFGHNGLPEGSPAAAAYLAQHDDALRFAKANRQLIARRILQRLRA  218 (356)
T ss_pred             HHHHHcCCCCCcEEEEEecCCchhHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4567899999999999999999               135789999999999999999999999999999999999974

Members of this family are related to RctB. RctB a protein of known structure but unknown function that often is encoded near RNA cyclase and therefore is suggested to be a tRNA or mRNA processing enzyme. This family of RctB-like proteins in encoded upstream of, and apparently is translationally coupled to, the putative peptide chain release factor RF-H (TIGR03072), product of the prfH gene. Note that a large deletion at the junction between this gene and the prfH gene in Escherichia coli K-12 marks both as probable pseudogenes.

>PRK09588 hypothetical protein; Reviewed

Probab=99.76  E-value=1.3e-18  Score=140.82  Aligned_cols=64  Identities=20%  Similarity=0.122  Sum_probs=58.1

Q ss_pred             hhccccccccccEEEEEecCcc-------c--------CcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy10980         40 FKLRPVAVIKGQIKSWYLCGKA-------E--------SFLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQILTS  103 (105)
Q Consensus        40 ~~~~plgv~kg~v~l~vHSGSR-------~--------~~l~~~s~eg~~Yl~~m~~A~~fA~~NR~~ia~~i~~~l~~  103 (105)
                      ..++.+|+.+|++|||||||||       .        ..+|++|+++++||.+|++|+|||++||++|+++++++|..
T Consensus       151 ~~a~~~gl~~g~v~l~vHsGSRglG~~v~~~~~~~~~~~~l~~~s~~g~~Yl~~m~~A~~~A~~NR~~i~~~i~~~l~~  229 (376)
T PRK09588        151 ELFALLGLDADQLLLLVHSGSRGLGQAILRRHVASFGHNGLPEGSDDALAYLAEHDDALAFARANRQLIARRILQQLRA  229 (376)
T ss_pred             HHHHHcCCCCCcEEEEEecCCchhHHHHHHHHHHHhhhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            4567899999999999999999       1        22789999999999999999999999999999999999864

>PF01139 RtcB: tRNA-splicing ligase RtcB; InterPro: IPR001233 A number of uncharacterised proteins including Escherichia coli rtcB, Mycobacterium tuberculosis MtCY441

Probab=99.75  E-value=1.3e-18  Score=142.18  Aligned_cols=64  Identities=31%  Similarity=0.455  Sum_probs=53.8

Q ss_pred             hhcccccccc-ccEEEEEecCcc-----------------------------cCcccCCCHHHHHHHHHHHHHHHHHHHH
Q psy10980         40 FKLRPVAVIK-GQIKSWYLCGKA-----------------------------ESFLRINSKEGQDYLKSMAAAANFAWVN   89 (105)
Q Consensus        40 ~~~~plgv~k-g~v~l~vHSGSR-----------------------------~~~l~~~s~eg~~Yl~~m~~A~~fA~~N   89 (105)
                      ..+..+|+.+ |++|||||||||                             +.|+|++|+++++||.+|++|+|||++|
T Consensus       177 ~~a~~~gl~~~g~v~l~vHsGSRglG~~i~~~~~~~a~~~~~~~~~~~~~~~l~~l~~~s~~~~~Yl~~m~~A~~~A~~N  256 (420)
T PF01139_consen  177 EAANALGLDENGQVWLMVHSGSRGLGHQIAEYYIKKAKEQMKKYGIKLPDKDLAYLPLDSEEGQDYLKAMNAAQNYAFAN  256 (420)
T ss_dssp             HHHHHCT--T-TEEEEEEEE--CCHHHHHHHHHHHHHHCCHHHCT---SSCCG--EETTSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCccccceEEEEEecCCcHHHHHHHHHHHHHHHHHHHhcCCCCCCcccceecCCCHHHHHHHHHHHHHHHHHHHh
Confidence            5566788988 999999999999                             3578999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy10980         90 RSSMTFLCRQILTS  103 (105)
Q Consensus        90 R~~ia~~i~~~l~~  103 (105)
                      |++|+.+++++|.+
T Consensus       257 R~~i~~~i~~~l~~  270 (420)
T PF01139_consen  257 RQLIAHRILEALRD  270 (420)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999975

01., Caenorhabditis elegans F16A11.2 and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0682 belong to this family.; PDB: 2EPG_B 1UC2_B.

>COG1690 RtcB Uncharacterized conserved protein [Function unknown]

Probab=99.53  E-value=1.7e-14  Score=118.75  Aligned_cols=64  Identities=31%  Similarity=0.434  Sum_probs=58.0

Q ss_pred             hhccccccccccEEEEEecCcc-----------------------------cCcccCCCHHHHHHHHHHHHHHHHHHHHH
Q psy10980         40 FKLRPVAVIKGQIKSWYLCGKA-----------------------------ESFLRINSKEGQDYLKSMAAAANFAWVNR   90 (105)
Q Consensus        40 ~~~~plgv~kg~v~l~vHSGSR-----------------------------~~~l~~~s~eg~~Yl~~m~~A~~fA~~NR   90 (105)
                      .-.+..|+..+++|+|+|||||                             ++++|.+|+++++|+.+|++|+|||++||
T Consensus       197 ~~a~~~gl~~~~v~vm~hsGSrg~G~qi~~~~~~~~~~~~~~~~~~~~~~~la~~~~~s~e~~~y~~am~~A~~~a~~Nr  276 (432)
T COG1690         197 EAAAPMGLAEGTVWVMIHTGSRGLGHQIATDFVRLAEQAMGRYGIAVPDRQLACVPVDSEDGQAYLAAMAAAANYARANR  276 (432)
T ss_pred             hhHhhcCcccccEEEEEEeccccccchhHHHHHHHHHHhhhhhcccCcchhhhccccCCHHHHHHHHHHHHHHHHHHHhH
Confidence            5667788888999999999999                             34569999999999999999999999999


Q ss_pred             HHHHHHHHHHHhh
Q psy10980         91 SSMTFLCRQILTS  103 (105)
Q Consensus        91 ~~ia~~i~~~l~~  103 (105)
                      ++|++++++.|..
T Consensus       277 ~~i~~~~~~~~~~  289 (432)
T COG1690         277 QLITERVRRALQE  289 (432)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998864

>KOG3833|consensus

Probab=99.52  E-value=2.4e-14  Score=115.60  Aligned_cols=64  Identities=55%  Similarity=0.714  Sum_probs=58.5

Q ss_pred             hhccccccc-cccEEEEEecCcc-----------------------------cCcccCCCHHHHHHHHHHHHHHHHHHHH
Q psy10980         40 FKLRPVAVI-KGQIKSWYLCGKA-----------------------------ESFLRINSKEGQDYLKSMAAAANFAWVN   89 (105)
Q Consensus        40 ~~~~plgv~-kg~v~l~vHSGSR-----------------------------~~~l~~~s~eg~~Yl~~m~~A~~fA~~N   89 (105)
                      ..+.-.|+. ||||++|||||||                             ++..+++|.|+++||..|..|+||||.|
T Consensus       241 ~~A~~MGI~~kGQvvVMiH~GSRGlGHqVatdsLv~Mekamard~i~~nd~QLACarinS~Egq~Yl~~MaaAaNfAwVN  320 (505)
T KOG3833|consen  241 EAASKMGIDEKGQVVVMIHSGSRGLGHQVATDSLVKMEKAMARDKIVVNDRQLACARINSVEGQDYLKGMAAAANFAWVN  320 (505)
T ss_pred             hhhhhcCcCCCCcEEEEEecCCccccchhhHHHHHHHHHhhhccceeecchhhcccccCChhhHHHHHHHHhhhhhhhhh
Confidence            677888995 9999999999999                             3345999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy10980         90 RSSMTFLCRQILTS  103 (105)
Q Consensus        90 R~~ia~~i~~~l~~  103 (105)
                      |..|....+++|..
T Consensus       321 Rs~~Tf~~RqAF~K  334 (505)
T KOG3833|consen  321 RSSMTFLTRQAFAK  334 (505)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999975

>PRK09588 hypothetical protein; Reviewed

Probab=98.92  E-value=2e-10  Score=93.26  Aligned_cols=47  Identities=32%  Similarity=0.536  Sum_probs=44.6

Q ss_pred             cccCCccccccCcccccChhhhhhccccccchhhhhhcccccccccc
Q psy10980          5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQ   51 (105)
Q Consensus         5 ~~~~~~~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~plgv~kg~   51 (105)
                      .|++.+.+.||||+||||+++||+.+++.||+++|++++|++++||.
T Consensus       328 ~~~~~~~~~dEaP~AYKdi~~Vi~~~~~~gl~~vva~l~Pl~~~Kg~  374 (376)
T PRK09588        328 ICRDRQLIFEEAPEAYKSIESVIQDLVQAGLITPVARLRPVLTYKTS  374 (376)
T ss_pred             EECCCCcccccChhccCCHHHHHHhhhcCCceeEEEEEEEEEEEeCC
Confidence            56888899999999999999999999999999999999999999985

>PF01139 RtcB: tRNA-splicing ligase RtcB; InterPro: IPR001233 A number of uncharacterised proteins including Escherichia coli rtcB, Mycobacterium tuberculosis MtCY441

Probab=98.75  E-value=7.9e-10  Score=90.78  Aligned_cols=46  Identities=30%  Similarity=0.654  Sum_probs=38.9

Q ss_pred             cccCCccccccCcccccChhhhhhccccccchhhhhhccccccccc
Q psy10980          5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG   50 (105)
Q Consensus         5 ~~~~~~~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~plgv~kg   50 (105)
                      .|.+.+.+.||||+||||+++||+.+++.||+++|++++|++++||
T Consensus       375 ~~~~~~~~~dEaP~AYK~i~~Vi~~~~~~~l~~~v~~l~Pi~~~Kg  420 (420)
T PF01139_consen  375 ICSDKELLLDEAPMAYKDIEEVIDDQEEAGLAEVVARLKPILNIKG  420 (420)
T ss_dssp             EES-HHHHHHT-GGGB--HHHHHHHHHHCTSSEEEEEEEEEEEEE-
T ss_pred             EEecCCCchhhChhhcCCHHHHHHHHhhCCCeeEEEEEEEEEEEeC
Confidence            4677889999999999999999999999999999999999999986

01., Caenorhabditis elegans F16A11.2 and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0682 belong to this family.; PDB: 2EPG_B 1UC2_B.

>TIGR03073 release_rtcB release factor H-coupled RctB family protein

Probab=98.57  E-value=1.3e-08  Score=82.20  Aligned_cols=40  Identities=35%  Similarity=0.590  Sum_probs=38.1

Q ss_pred             cccCCccccccCcccccChhhhhhccccccchhhhhhccc
Q psy10980          5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRP   44 (105)
Q Consensus         5 ~~~~~~~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~p   44 (105)
                      .|++.+.+.||||+||||+++||+.+++.||+++|++++|
T Consensus       317 ~~~~~~~~~dEaP~AYKdi~~Vi~~~~~~gl~~~va~l~P  356 (356)
T TIGR03073       317 ICEDRQLIYEEAPEAYKSIDSVVGALLQAGLIKVVARLKP  356 (356)
T ss_pred             EECCCCcccccChhccCCHHHHHHhhhhCCceeEEEEEcC
Confidence            6788889999999999999999999999999999999998

Members of this family are related to RctB. RctB a protein of known structure but unknown function that often is encoded near RNA cyclase and therefore is suggested to be a tRNA or mRNA processing enzyme. This family of RctB-like proteins in encoded upstream of, and apparently is translationally coupled to, the putative peptide chain release factor RF-H (TIGR03072), product of the prfH gene. Note that a large deletion at the junction between this gene and the prfH gene in Escherichia coli K-12 marks both as probable pseudogenes.

>KOG3833|consensus

Probab=98.33  E-value=1.7e-07  Score=76.34  Aligned_cols=46  Identities=87%  Similarity=1.255  Sum_probs=44.2

Q ss_pred             cccCCccccccCcccccChhhhhhccccccchhhhhhccccccccc
Q psy10980          5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG   50 (105)
Q Consensus         5 ~~~~~~~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~plgv~kg   50 (105)
                      ++.+.+++.||||+.|||+.+||+.|...|+.+.+.+++|+.|+||
T Consensus       460 R~aSpklvmEEAPesYKdVtdVVdtc~~aGiskK~~klrPiaVIKG  505 (505)
T KOG3833|consen  460 RVASPKLVMEEAPESYKDVTDVVDTCDAAGISKKAIKLRPIAVIKG  505 (505)
T ss_pred             EeCCccchhhhCchhhhhHHHHhhhhhhcccchhhhcccceeeecC
Confidence            5789999999999999999999999999999999999999999986

>COG1690 RtcB Uncharacterized conserved protein [Function unknown]

Probab=97.57  E-value=2e-05  Score=65.41  Aligned_cols=40  Identities=45%  Similarity=0.858  Sum_probs=37.9

Q ss_pred             cccccCcccccChhhhhhccccccchhhhhhccccccccc
Q psy10980         11 LVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG   50 (105)
Q Consensus        11 ~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~plgv~kg   50 (105)
                      .+.||||+|||++++||+.+...+++..|++++|+++.||
T Consensus       393 ~~~eEap~ayK~vd~Vv~~~~~~~lv~~v~r~~pv~~~kg  432 (432)
T COG1690         393 GVIDEAPEAYKDIDDVIEASHQSGLVEVVARLRPVGVVKG  432 (432)
T ss_pred             eeeeecccccccHHHHHHHHHhcCceeeeeeeeeeEecCC
Confidence            4899999999999999999999999999999999999875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	105
2epg_A	487	Crystal Structure Of Ttha1785 Length = 487		2e-06
1uc2_A	481	Hypothetical Extein Protein Of Ph1602 From Pyrococc		1e-04
4dwr_B	487	Rna Ligase RtcbMN2+ COMPLEX Length = 487		1e-04

>pdb|2EPG|A Chain A, Crystal Structure Of Ttha1785 Length = 487

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 22/46 (47%), Positives = 30/46 (65%)
Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           R A+   V EE PE+YK+V+ VV+     GI KK  +LRP+ V+KG
Sbjct: 442 RAATRATVDEEXPEAYKDVSLVVEAVEGAGIGKKVARLRPLIVVKG 487

>pdb|1UC2|A Chain A, Hypothetical Extein Protein Of Ph1602 From Pyrococcus Horikoshii Length = 481

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/31 (54%), Positives = 21/31 (67%)
Query: 69  SKEGQDYLKSMAAAANFAWVNRSSMTFLCRQ 99
           S+EGQ Y  +M AAANFAW NR  +T   R+
Sbjct: 275 SEEGQRYFSAMKAAANFAWANRQMITHWVRE 305

>pdb|4DWR|B Chain B, Rna Ligase RtcbMN2+ COMPLEX Length = 487

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/31 (54%), Positives = 21/31 (67%)
Query: 69  SKEGQDYLKSMAAAANFAWVNRSSMTFLCRQ 99
           S+EGQ Y  +M AAANFAW NR  +T   R+
Sbjct: 275 SEEGQRYFSAMKAAANFAWANRQMITHWVRE 305

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	105
1uc2_A	481	PH1602, hypothetical protein PH1602; structural ge	4e-15
1uc2_A	481	PH1602, hypothetical protein PH1602; structural ge	9e-08
2epg_A	487	Hypothetical protein TTHA1785; alpha-beta fold, st	5e-15
2epg_A	487	Hypothetical protein TTHA1785; alpha-beta fold, st	2e-08

>1uc2_A PH1602, hypothetical protein PH1602; structural genomics, unknown function; HET: SUC; 2.15A {Pyrococcus horikoshii} SCOP: d.261.1.1 Length = 481

 Score = 68.6 bits (167), Expect = 4e-15
 Identities = 22/46 (47%), Positives = 30/46 (65%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           R AS ++V EEAP +YKNV +VV      GI+K   ++RP+ V KG
Sbjct: 436 RAASMRVVAEEAPGAYKNVDNVVKVVSEAGIAKLVARMRPIGVAKG 481

>1uc2_A PH1602, hypothetical protein PH1602; structural genomics, unknown function; HET: SUC; 2.15A {Pyrococcus horikoshii} SCOP: d.261.1.1 Length = 481

 Score = 47.4 bits (112), Expect = 9e-08
 Identities = 17/38 (44%), Positives = 22/38 (57%)

Query: 64  FLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
            +   S+EGQ Y  +M AAANFAW NR  +T   R+  
Sbjct: 270 SVPFQSEEGQRYFSAMKAAANFAWANRQMITHWVRESF 307

>2epg_A Hypothetical protein TTHA1785; alpha-beta fold, structural genomics, NPPSFA, national proje protein structural and functional analyses; 2.10A {Thermus thermophilus} Length = 487

 Score = 68.1 bits (166), Expect = 5e-15
 Identities = 22/46 (47%), Positives = 30/46 (65%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           R A+   V EE PE+YK+V+ VV+     GI KK  +LRP+ V+KG
Sbjct: 442 RAATRATVDEEMPEAYKDVSLVVEAVEGAGIGKKVARLRPLIVVKG 487

>2epg_A Hypothetical protein TTHA1785; alpha-beta fold, structural genomics, NPPSFA, national proje protein structural and functional analyses; 2.10A {Thermus thermophilus} Length = 487

 Score = 49.6 bits (118), Expect = 2e-08
 Identities = 19/38 (50%), Positives = 24/38 (63%)

Query: 64  FLRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
              I S EGQDYL++MAAAANFA+ NR  +    R+  
Sbjct: 282 AAPIKSPEGQDYLQAMAAAANFAFANRQLIAHFVREAF 319

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	105
2epg_A	487	Hypothetical protein TTHA1785; alpha-beta fold, st	99.8
4dwr_B	487	PHO HYP2 intein, tRNA-splicing ligase RTCB; RNA li	99.8
4dwr_B	487	PHO HYP2 intein, tRNA-splicing ligase RTCB; RNA li	98.84
2epg_A	487	Hypothetical protein TTHA1785; alpha-beta fold, st	98.79

>2epg_A Hypothetical protein TTHA1785; alpha-beta fold, structural genomics, NPPSFA, national proje protein structural and functional analyses; 2.10A {Thermus thermophilus}

Probab=99.80  E-value=3.3e-20  Score=152.98  Aligned_cols=64  Identities=36%  Similarity=0.497  Sum_probs=59.0

Q ss_pred             hhccccccccccEEEEEecCcc-----------------------------cCcccCCCHHHHHHHHHHHHHHHHHHHHH
Q psy10980         40 FKLRPVAVIKGQIKSWYLCGKA-----------------------------ESFLRINSKEGQDYLKSMAAAANFAWVNR   90 (105)
Q Consensus        40 ~~~~plgv~kg~v~l~vHSGSR-----------------------------~~~l~~~s~eg~~Yl~~m~~A~~fA~~NR   90 (105)
                      ..++.+|+.+|+||||||||||                             ++|+|++|++|++||.+|++|+|||++||
T Consensus       229 ~~a~~~Gl~~g~v~lmiHSGSRglG~qIa~~~~~~a~~~~~~~~i~~pd~~La~l~~~s~eg~~Yl~am~~A~nyA~~NR  308 (487)
T 2epg_A          229 EAALAFGLFKGQVTVLIHTGSRGLGHQVCQDYVERFLKVAPRYGIELVDKQLAAAPIKSPEGQDYLQAMAAAANFAFANR  308 (487)
T ss_dssp             HHHHHHTCCTTEEEEEEEECCHHHHHHHHHHHHHHHHTTHHHHTCCCSSGGGCCEETTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHhcCCCCCcEEEEEecCCchhHHHHHHHHHHHHHHHHHhcCCCCCCccceeEeCCCHHHHHHHHHHHHHHHHHHHhH
Confidence            4567789999999999999999                             36789999999999999999999999999


Q ss_pred             HHHHHHHHHHHhh
Q psy10980         91 SSMTFLCRQILTS  103 (105)
Q Consensus        91 ~~ia~~i~~~l~~  103 (105)
                      ++|+++++++|.+
T Consensus       309 ~~i~~~v~~~~~~  321 (487)
T 2epg_A          309 QLIAHFVREAFEK  321 (487)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999963

>4dwr_B PHO HYP2 intein, tRNA-splicing ligase RTCB; RNA ligase, Mn2+; HET: SUC; 1.48A {Pyrococcus horikoshii} PDB: 1uc2_A* 4dwq_A*

Probab=99.80  E-value=6.1e-20  Score=151.25  Aligned_cols=64  Identities=31%  Similarity=0.474  Sum_probs=59.3

Q ss_pred             hhccccccccccEEEEEecCcc-----------------------------cCcccCCCHHHHHHHHHHHHHHHHHHHHH
Q psy10980         40 FKLRPVAVIKGQIKSWYLCGKA-----------------------------ESFLRINSKEGQDYLKSMAAAANFAWVNR   90 (105)
Q Consensus        40 ~~~~plgv~kg~v~l~vHSGSR-----------------------------~~~l~~~s~eg~~Yl~~m~~A~~fA~~NR   90 (105)
                      ..++.+|+.+|+||||||||||                             +.++|++|++|++||.+|++|+|||++||
T Consensus       217 ~~a~~~Gl~~g~v~lmiHSGSRglG~~Ia~~~~~~a~~~~~~~~~~~pd~~la~~~~~s~eg~~Yl~am~~A~~yA~~NR  296 (487)
T 4dwr_B          217 EVAKAYGLFEGQVVVMVHTGSRGLGHQVASDYLRIMERAIRKYRIPWPDRELVSVPFQSEEGQRYFSAMKAAANFAWANR  296 (487)
T ss_dssp             HHHHHTTCCTTBEEEEEEECCHHHHHHHHHHHHHHHHHHHHHHTCCCCSTTCCCEETTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCcCcEEEEEECCCCcccHHHHHHHHHHHHHHHHHcCCCCCChhhccccCCCHHHHHHHHHHHHHHHHHHHhH
Confidence            5567899999999999999999                             45789999999999999999999999999


Q ss_pred             HHHHHHHHHHHhh
Q psy10980         91 SSMTFLCRQILTS  103 (105)
Q Consensus        91 ~~ia~~i~~~l~~  103 (105)
                      ++|+++++++|++
T Consensus       297 ~~i~~~v~~~~~~  309 (487)
T 4dwr_B          297 QMITHWVRESFQE  309 (487)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999864

>4dwr_B PHO HYP2 intein, tRNA-splicing ligase RTCB; RNA ligase, Mn2+; HET: SUC; 1.48A {Pyrococcus horikoshii} PDB: 1uc2_A* 4dwq_A*

Probab=98.84  E-value=2.2e-10  Score=94.39  Aligned_cols=46  Identities=46%  Similarity=0.715  Sum_probs=42.3

Q ss_pred             ccCCccccccCcccccChhhhhhccccccchhhhhhcccccccccc
Q psy10980          6 VASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQ   51 (105)
Q Consensus         6 ~~~~~~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~plgv~kg~   51 (105)
                      |.+.+.+.||||+|||||++||+.+.+.||+++|++++|++++||-
T Consensus       437 ~~~~~~v~dEaP~AYKdId~Vi~~~~~~gLv~vVa~LkPv~~iKGg  482 (487)
T 4dwr_B          437 AASMRVVAEEAPGAYKNVDNVVKVVSEAGIAKLVARMRPIGVAKGA  482 (487)
T ss_dssp             CSCSHHHHHTCGGGBCCHHHHHHHHHHHTSSEEEEEEEEEEEECCC
T ss_pred             ECCCCcCcccChhccCCHHHHHHHHHhcCCeEEEEEEEEEEEEecC
Confidence            4566778999999999999999999999999999999999999974

>2epg_A Hypothetical protein TTHA1785; alpha-beta fold, structural genomics, NPPSFA, national proje protein structural and functional analyses; 2.10A {Thermus thermophilus}

Probab=98.79  E-value=3.1e-10  Score=93.68  Aligned_cols=45  Identities=47%  Similarity=0.720  Sum_probs=28.1

Q ss_pred             ccCCccccccCcccccChhhhhhccccccchhhhhhccccccccc
Q psy10980          6 VASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG   50 (105)
Q Consensus         6 ~~~~~~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~plgv~kg   50 (105)
                      +.+.+++.||||+|||||++||+.+++.||+++|++++|++++||
T Consensus       443 ~~~~~~~~dEaP~AYKdId~Vv~~~~~~gLv~vVa~L~Pv~~iKG  487 (487)
T 2epg_A          443 AATRATVDEEMPEAYKDVSLVVEAVEGAGIGKKVARLRPLIVVKG  487 (487)
T ss_dssp             CC---------------CCHHHHHHHHHTSCEEEEEEEEEEEEEC
T ss_pred             ECCCCcCcccChhccCCHHHHHHhhhhCCCEEEEEEEEEEEEEcC
Confidence            345678899999999999999999999999999999999999996

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	105
d1uc2a_	480	d.261.1.1 (A:) Hypothetical protein PH1602 {Archae	9e-15
d1uc2a_	480	d.261.1.1 (A:) Hypothetical protein PH1602 {Archae	1e-07

>d1uc2a_ d.261.1.1 (A:) Hypothetical protein PH1602 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 480

class: Alpha and beta proteins (a+b)
fold: Hypothetical protein PH1602
superfamily: Hypothetical protein PH1602
family: Hypothetical protein PH1602
domain: Hypothetical protein PH1602
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

 Score = 66.2 bits (161), Expect = 9e-15
 Identities = 22/46 (47%), Positives = 30/46 (65%)

Query: 5   RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
           R AS ++V EEAP +YKNV +VV      GI+K   ++RP+ V KG
Sbjct: 435 RAASMRVVAEEAPGAYKNVDNVVKVVSEAGIAKLVARMRPIGVAKG 480

>d1uc2a_ d.261.1.1 (A:) Hypothetical protein PH1602 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 480

class: Alpha and beta proteins (a+b)
fold: Hypothetical protein PH1602
superfamily: Hypothetical protein PH1602
family: Hypothetical protein PH1602
domain: Hypothetical protein PH1602
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

 Score = 46.2 bits (109), Expect = 1e-07
 Identities = 17/37 (45%), Positives = 22/37 (59%)

Query: 65  LRINSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
           +   S+EGQ Y  +M AAANFAW NR  +T   R+  
Sbjct: 270 VPFQSEEGQRYFSAMKAAANFAWANRQMITHWVRESF 306

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	105
d1uc2a_	480	Hypothetical protein PH1602 {Archaeon Pyrococcus h	99.77
d1uc2a_	480	Hypothetical protein PH1602 {Archaeon Pyrococcus h	98.84

>d1uc2a_ d.261.1.1 (A:) Hypothetical protein PH1602 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a+b)
fold: Hypothetical protein PH1602
superfamily: Hypothetical protein PH1602
family: Hypothetical protein PH1602
domain: Hypothetical protein PH1602
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=99.77  E-value=1.6e-19  Score=146.55  Aligned_cols=64  Identities=31%  Similarity=0.474  Sum_probs=59.0

Q ss_pred             hhccccccccccEEEEEecCcc-----------------------------cCcccCCCHHHHHHHHHHHHHHHHHHHHH
Q psy10980         40 FKLRPVAVIKGQIKSWYLCGKA-----------------------------ESFLRINSKEGQDYLKSMAAAANFAWVNR   90 (105)
Q Consensus        40 ~~~~plgv~kg~v~l~vHSGSR-----------------------------~~~l~~~s~eg~~Yl~~m~~A~~fA~~NR   90 (105)
                      ..++.+|+.+|++|||||||||                             +.++|++|++|++||.+|++|+|||++||
T Consensus       216 ~~a~~~Gl~~g~v~lmiHSGSRglG~~V~~~y~~~~~~~~~~~~~~~pd~~la~~p~~s~~g~~Yl~aM~~A~nfA~~NR  295 (480)
T d1uc2a_         216 EVAKAYGLFEGQVVVMVHTGSRGLGHQVASDYLRIMERAIRKYRIPWPDRELVSVPFQSEEGQRYFSAMKAAANFAWANR  295 (480)
T ss_dssp             HHHHHTTCCTTBEEEEEEECCHHHHHHHHHHHHHHHHHHGGGSCCCCSSTTCCCEETTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCcCcEEEEEeCCCCcccHHHHHHHHHHHHHHHHhcCCCCCchhhccccCCCHHHHHHHHHHHHHHHHHHHhH
Confidence            5677899999999999999999                             24578999999999999999999999999


Q ss_pred             HHHHHHHHHHHhh
Q psy10980         91 SSMTFLCRQILTS  103 (105)
Q Consensus        91 ~~ia~~i~~~l~~  103 (105)
                      ++|+++++++|.+
T Consensus       296 ~~i~~~i~~~l~~  308 (480)
T d1uc2a_         296 QMITHWVRESFQE  308 (480)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999864

>d1uc2a_ d.261.1.1 (A:) Hypothetical protein PH1602 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a+b)
fold: Hypothetical protein PH1602
superfamily: Hypothetical protein PH1602
family: Hypothetical protein PH1602
domain: Hypothetical protein PH1602
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=98.84  E-value=7.6e-11  Score=95.07  Aligned_cols=45  Identities=47%  Similarity=0.733  Sum_probs=42.2

Q ss_pred             ccCCccccccCcccccChhhhhhccccccchhhhhhccccccccc
Q psy10980          6 VASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG   50 (105)
Q Consensus         6 ~~~~~~~~eeaP~aYk~~~~Vv~~~~~~~l~~~v~~~~plgv~kg   50 (105)
                      |.+.+.+.||||+||||+++||+.+++.||+++|++++|++++||
T Consensus       436 ~~~~~~l~dEAP~AYKdi~~Vi~~~~~~gl~~~VarlkPl~~iKG  480 (480)
T d1uc2a_         436 AASMRVVAEEAPGAYKNVDNVVKVVSEAGIAKLVARMRPIGVAKG  480 (480)
T ss_dssp             ESCHHHHHHTCGGGBCCHHHHHHHHHHHTSSEEEEEEEEEEEEEC
T ss_pred             ECCCCcccccCccccCCHHHHHHHHHhcCCeeEEEEEEEEEEecC
Confidence            556678899999999999999999999999999999999999997