Citrus Sinensis ID: 040775

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180---
Protein Sequence
MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNAEA
Secondary Structure (PSIPRED)
ccccEEEEEEccHHHHHHHHHHHHHHHHcccccccccccccccEEEEEcccccHHHHHHHHHHHHcccccEEEEEccEEccccccEEEEEEEcccHHHHHHHHHHHHHHHHccccccccccccccccEEEEEccccHHHHHHHHHHHHHccccEEEEEEEEEEEEEcccEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEEcHHHHHHHHHHHHHHHHcccccEEEEccccccEEEEEcccccHHHHHHHHHHHHHHcccccEEEEEEccccccccEEEEcccccHHHHHHHHHHHHHHHHcccccccccccccccccccHHccccHHHHHHHHHHHHHcccccEEEEEEEEEEEEccHHHHEEEEccccccc
Coil and Loop (DISEMBL)
MSQGYAIElyfdpaleNQVLKAWNVLARRQISTQLIeiesrphitlfssptiepakLESIIKIHaskqeplplclstigsfcndnnvlflaptpsipllqFQSQLCEAFKRegiecgdefrpenwipycpvaqevpkTRMAEAFCVLRelklpvtgyaMDIGLVEYSPVRELFSFALGNNAEA
Flexible Loop (DISEMBL)
MSQGYAIELYFDPALENQVLKAWNVLARRQISTQlieiesrphitlfssptiEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGdefrpenwipycPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNAEA
Low Complexity Region (SEG)
MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNAEA
Disordered region (IsUnstruct)
****YAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFAL******
Disordered Region (DISOPRED)
**QGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSF*LG*****
Disordered Region (DISEMBL)
MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNAEA
Disordered Region (DISPRO)
*SQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALG*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNAEA
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

No hits with e-value below 0.001 by BLAST

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	183
225452536	183	PREDICTED: uncharacterized protein LOC10	1.0	1.0	0.814	1e-82
296087705	257	unnamed protein product [Vitis vinifera]	1.0	0.712	0.814	7e-82
147844702	183	hypothetical protein VITISV_002643 [Viti	1.0	1.0	0.808	1e-81
255552670	183	calmodulin binding protein, putative [Ri	1.0	1.0	0.786	1e-80
449449194	183	PREDICTED: uncharacterized protein LOC10	1.0	1.0	0.792	3e-80
224055517	184	predicted protein [Populus trichocarpa]	0.983	0.978	0.783	4e-79
224141313	181	predicted protein [Populus trichocarpa]	0.983	0.994	0.771	2e-76
294460847	183	unknown [Picea sitchensis]	1.0	1.0	0.699	1e-73
356550070	182	PREDICTED: uncharacterized protein LOC10	0.978	0.983	0.679	3e-69
388496900	182	unknown [Lotus japonicus] gi|388513163|g	0.972	0.978	0.657	5e-68

>gi|225452536|ref|XP_002279925.1| PREDICTED: uncharacterized protein LOC100249281 isoform 1 [Vitis vinifera]

 Score =  310 bits (795), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 149/183 (81%), Positives = 163/183 (89%)

Query: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
           MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSP IEPA+LE+I
Sbjct: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPLIEPARLENI 60

Query: 61  IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
           IK  A KQEPLPL  S+IGS  ND NVLFLAPTP++ LLQF SQLC+A K+EGIE G+E+
Sbjct: 61  IKSFAGKQEPLPLSFSSIGSLPNDKNVLFLAPTPTLSLLQFHSQLCDALKKEGIEIGEEY 120

Query: 121 RPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNN 180
           RP++WIP+CPVAQEVPK RM EAF VLR+LKLPVTGYAMDIGLVE+SPVRELFSF L N 
Sbjct: 121 RPDSWIPHCPVAQEVPKIRMGEAFSVLRDLKLPVTGYAMDIGLVEFSPVRELFSFVLSNT 180

Query: 181 AEA 183
            EA
Sbjct: 181 LEA 183

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087705|emb|CBI34961.3| unnamed protein product [Vitis vinifera]

 Score =  308 bits (789), Expect = 7e-82,   Method: Compositional matrix adjust.
 Identities = 149/183 (81%), Positives = 163/183 (89%)

Query: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
           MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSP IEPA+LE+I
Sbjct: 75  MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPLIEPARLENI 134

Query: 61  IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
           IK  A KQEPLPL  S+IGS  ND NVLFLAPTP++ LLQF SQLC+A K+EGIE G+E+
Sbjct: 135 IKSFAGKQEPLPLSFSSIGSLPNDKNVLFLAPTPTLSLLQFHSQLCDALKKEGIEIGEEY 194

Query: 121 RPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNN 180
           RP++WIP+CPVAQEVPK RM EAF VLR+LKLPVTGYAMDIGLVE+SPVRELFSF L N 
Sbjct: 195 RPDSWIPHCPVAQEVPKIRMGEAFSVLRDLKLPVTGYAMDIGLVEFSPVRELFSFVLSNT 254

Query: 181 AEA 183
            EA
Sbjct: 255 LEA 257

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147844702|emb|CAN82133.1| hypothetical protein VITISV_002643 [Vitis vinifera]

 Score =  307 bits (787), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 148/183 (80%), Positives = 162/183 (88%)

Query: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
           MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSP IEPA+LE+I
Sbjct: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPLIEPARLENI 60

Query: 61  IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
           IK  A KQEPL L  S+IGS  ND NVLFLAPTP++ LLQF SQLC+A K+EGIE G+E+
Sbjct: 61  IKSFAGKQEPLXLSFSSIGSLPNDKNVLFLAPTPTLSLLQFHSQLCDALKKEGIEIGEEY 120

Query: 121 RPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNN 180
           RP++WIP+CPVAQEVPK RM EAF VLR+LKLPVTGYAMDIGLVE+SPVRELFSF L N 
Sbjct: 121 RPDSWIPHCPVAQEVPKIRMGEAFSVLRDLKLPVTGYAMDIGLVEFSPVRELFSFVLSNT 180

Query: 181 AEA 183
            EA
Sbjct: 181 LEA 183

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552670|ref|XP_002517378.1| calmodulin binding protein, putative [Ricinus communis] gi|223543389|gb|EEF44920.1| calmodulin binding protein, putative [Ricinus communis]

 Score =  304 bits (778), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 144/183 (78%), Positives = 162/183 (88%)

Query: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
           MSQG+AIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITL+SS  +EP KLESI
Sbjct: 1   MSQGFAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLYSSSFVEPTKLESI 60

Query: 61  IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
           +K  ASKQEPLPL LS IG   NDNNVLFLAPTPS+ LLQFQSQLC+A K+EGIE  +E+
Sbjct: 61  VKTFASKQEPLPLSLSAIGGLPNDNNVLFLAPTPSLSLLQFQSQLCDALKKEGIEISEEY 120

Query: 121 RPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNN 180
           +P++WIPYC VAQ+VP+ R+ EAFCVLR+LKLPV+GYAMDIGLVE+SPVRELFSF LGN 
Sbjct: 121 KPDSWIPYCAVAQDVPRARIGEAFCVLRDLKLPVSGYAMDIGLVEFSPVRELFSFVLGNC 180

Query: 181 AEA 183
            E 
Sbjct: 181 VEG 183

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449194|ref|XP_004142350.1| PREDICTED: uncharacterized protein LOC101208638 [Cucumis sativus] gi|449492681|ref|XP_004159070.1| PREDICTED: uncharacterized protein LOC101226201 [Cucumis sativus]

 Score =  303 bits (775), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 145/183 (79%), Positives = 163/183 (89%)

Query: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
           MSQG+AIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFS+P +EP K+ESI
Sbjct: 1   MSQGFAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSTPFLEPTKVESI 60

Query: 61  IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
           +K  ASKQEPL L LS+IGS  +DNN+LFL P PSI LLQFQSQLCEA ++EGIE G+E+
Sbjct: 61  VKNFASKQEPLALSLSSIGSLPSDNNILFLGPAPSISLLQFQSQLCEAMRKEGIEIGEEY 120

Query: 121 RPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNN 180
           R  +WIP+C VAQEVPK RMAEAFCVLR+LKLPV+GYA+DIGLVE+SPVRELFSF LGN 
Sbjct: 121 RLGSWIPHCAVAQEVPKARMAEAFCVLRDLKLPVSGYAIDIGLVEFSPVRELFSFVLGNT 180

Query: 181 AEA 183
            EA
Sbjct: 181 VEA 183

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055517|ref|XP_002298518.1| predicted protein [Populus trichocarpa] gi|222845776|gb|EEE83323.1| predicted protein [Populus trichocarpa]

 Score =  299 bits (765), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 141/180 (78%), Positives = 157/180 (87%)

Query: 4   GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKI 63
           GYAIELYFDPALENQVLKAWNVLARRQIS+QLIEIESRPHITL+S+P I+P KLESIIK 
Sbjct: 5   GYAIELYFDPALENQVLKAWNVLARRQISSQLIEIESRPHITLYSTPFIDPTKLESIIKT 64

Query: 64  HASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPE 123
            ASKQEPLPL LSTIG   NDNN+LFLAPTPS+ LLQF SQLC+A ++EGIE  +E+RP+
Sbjct: 65  FASKQEPLPLSLSTIGCLPNDNNILFLAPTPSLSLLQFHSQLCDAMRKEGIEISEEYRPD 124

Query: 124 NWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNAEA 183
           NWIPYC VAQ+VPK RM E+ CVLR+LKLPV GYAMDIGLVE+SPVRE FSF LGN  E 
Sbjct: 125 NWIPYCAVAQDVPKARMGESLCVLRDLKLPVAGYAMDIGLVEFSPVREFFSFVLGNTLEG 184

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224141313|ref|XP_002324018.1| predicted protein [Populus trichocarpa] gi|222867020|gb|EEF04151.1| predicted protein [Populus trichocarpa]

 Score =  290 bits (742), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 142/184 (77%), Positives = 160/184 (86%), Gaps = 4/184 (2%)

Query: 1   MSQG-YAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLES 59
           MSQG YAIELY DPALENQVLKAWNVLARRQIS+QLIEIESRPH+TL+S+P I+P KLES
Sbjct: 1   MSQGGYAIELYLDPALENQVLKAWNVLARRQISSQLIEIESRPHLTLYSAPFIDPTKLES 60

Query: 60  IIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDE 119
           IIK  ASKQEPLPL LSTIG  C+ NN+LFLAPTP++ LLQF SQLC+A +REGIE  ++
Sbjct: 61  IIKTFASKQEPLPLSLSTIG--CH-NNLLFLAPTPTLSLLQFHSQLCDAMRREGIEISED 117

Query: 120 FRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGN 179
           +RPENWIPYC VAQ+VPK RMAE+ CVLR+LKLPV GYAMDIGLVE+SPVRE FSF LGN
Sbjct: 118 YRPENWIPYCAVAQDVPKARMAESLCVLRDLKLPVAGYAMDIGLVEFSPVREFFSFVLGN 177

Query: 180 NAEA 183
             E 
Sbjct: 178 TVEG 181

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294460847|gb|ADE75997.1| unknown [Picea sitchensis]

 Score =  281 bits (718), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 128/183 (69%), Positives = 155/183 (84%)

Query: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
           MSQGYA+ELYFDPALENQVLKAWNVLARRQISTQLIEIE+RPHITL SSPT++P KL++I
Sbjct: 1   MSQGYAVELYFDPALENQVLKAWNVLARRQISTQLIEIEARPHITLLSSPTLDPLKLQNI 60

Query: 61  IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
           I+  ++KQEPL L LS++GSF  D NVLFLAPTPS+ +L F  QL E  KR GIE GD +
Sbjct: 61  IRNFSAKQEPLALTLSSVGSFSTDENVLFLAPTPSLSILTFHGQLYELLKRGGIEAGDSY 120

Query: 121 RPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNN 180
           +P+NW+P+C VAQ+VP+ RMAEAF +LR+ KLP++GY +DIGLVE+SPVRE FSF LGN+
Sbjct: 121 QPDNWVPHCTVAQDVPRNRMAEAFSILRDFKLPISGYILDIGLVEFSPVREHFSFPLGND 180

Query: 181 AEA 183
            E 
Sbjct: 181 IET 183

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550070|ref|XP_003543413.1| PREDICTED: uncharacterized protein LOC100777475 [Glycine max]

 Score =  266 bits (680), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 123/181 (67%), Positives = 153/181 (84%), Gaps = 2/181 (1%)

Query: 3   QGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIK 62
           QG+AIELY +PALENQVLKAWNVLARRQIST+LIE+ESRPHITLFS+P +EP+KL+S++K
Sbjct: 4   QGFAIELYLEPALENQVLKAWNVLARRQISTELIEMESRPHITLFSAPFLEPSKLDSLLK 63

Query: 63  IHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRP 122
           + ASK +PLPL  S++ +F   NN+LFLAPTPS+ LL FQSQLC+A ++EGIE   EF  
Sbjct: 64  VFASKHDPLPLTFSSLATF--PNNLLFLAPTPSLSLLHFQSQLCDAIRKEGIEIAHEFAF 121

Query: 123 ENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNAE 182
            +WIPYC VA  VP+ RM EAF +LRELKLPV+GYAMD+ LV++SPVRE+FSF LGNN +
Sbjct: 122 NSWIPYCSVAHHVPQNRMPEAFSLLRELKLPVSGYAMDVALVQFSPVREIFSFVLGNNVD 181

Query: 183 A 183
           +
Sbjct: 182 S 182

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496900|gb|AFK36516.1| unknown [Lotus japonicus] gi|388513163|gb|AFK44643.1| unknown [Lotus japonicus]

 Score =  262 bits (669), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 117/178 (65%), Positives = 150/178 (84%)

Query: 4   GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKI 63
           GYAIELY DPALENQVLKAWNV+ARRQISTQLIE+ESRPHITLFS+P +EP+KLE ++K 
Sbjct: 2   GYAIELYMDPALENQVLKAWNVIARRQISTQLIEMESRPHITLFSTPFLEPSKLEPLLKT 61

Query: 64  HASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPE 123
            ++K +P PL  S++G+F  D+N LFL+PTPS+ LL FQSQLC+A ++EG++  DE+   
Sbjct: 62  LSTKHDPFPLSFSSVGAFPGDHNTLFLSPTPSLSLLHFQSQLCDAIRKEGVDVPDEYALG 121

Query: 124 NWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNNA 181
           +WIP+C VA +VPK RMAEAF +LR+LKLPV+GYA+D+ +V++SPVRELFSF LG  A
Sbjct: 122 SWIPFCSVAHQVPKARMAEAFSLLRDLKLPVSGYAVDVAVVQFSPVRELFSFVLGTTA 179

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	183
TAIR|locus:2173792	183	AT5G40190 [Arabidopsis thalian	1.0	1.0	0.683	1.3e-66
TAIR|locus:2091378	184	AT3G28140 [Arabidopsis thalian	1.0	0.994	0.684	4.7e-64

TAIR|locus:2173792 AT5G40190 [Arabidopsis thaliana (taxid:3702)]

 Score = 677 (243.4 bits), Expect = 1.3e-66, P = 1.3e-66
 Identities = 125/183 (68%), Positives = 154/183 (84%)

Query:     1 MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
             MS+GYAIELYFDPALENQVLKAWNV ARRQIST+LI  ESRPHITLFS+   +  +LES+
Sbjct:     1 MSEGYAIELYFDPALENQVLKAWNVFARRQISTKLINTESRPHITLFSTSFFDSTRLESV 60

Query:    61 IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
             IK   SKQEP+ +  STIGSF +DNNVLFL+PTPS+ LLQ Q+QLC+  K+E ++ G+E+
Sbjct:    61 IKNFVSKQEPISISFSTIGSFSSDNNVLFLSPTPSLSLLQLQTQLCDMLKKESVDIGEEY 120

Query:   121 RPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGNN 180
             R ++W+P+CPVA +VPK+RMAEAF VLR+LKLPV GY M+IGLVE+SPVRE+FSF LGN 
Sbjct:   121 RVDSWVPFCPVALDVPKSRMAEAFSVLRDLKLPVNGYGMEIGLVEFSPVREVFSFPLGNT 180

Query:   181 AEA 183
              E+
Sbjct:   181 LES 183

GO:0003824 "catalytic activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0016070 "RNA metabolic process" evidence=IEA

GO:0005516 "calmodulin binding" evidence=TAS;IPI

GO:0006661 "phosphatidylinositol biosynthetic process" evidence=RCA

TAIR|locus:2091378 AT3G28140 [Arabidopsis thaliana (taxid:3702)]

 Score = 653 (234.9 bits), Expect = 4.7e-64, P = 4.7e-64
 Identities = 126/184 (68%), Positives = 152/184 (82%)

Query:     1 MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPT-IEPAKLES 59
             MSQGYAIELYFDPALENQVLKAWNV ARRQIST LI  ESRPHITLFS+ + I+  KLE 
Sbjct:     1 MSQGYAIELYFDPALENQVLKAWNVFARRQISTYLINNESRPHITLFSTTSSIDSTKLEP 60

Query:    60 IIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDE 119
             IIK  +SKQEP+ L  S+IGSF +D+N LFL+PTPS+ L+Q Q QLCE  K+EG E G+E
Sbjct:    61 IIKSFSSKQEPISLSFSSIGSFSSDDNALFLSPTPSLSLIQLQLQLCEVIKKEGFEIGEE 120

Query:   120 FRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYSPVRELFSFALGN 179
             +R ++W+P+C VA +VPK+R++E F VLR+LKL V GYAMDIGLVE+SPVRE+FSF LGN
Sbjct:   121 YRVDSWVPFCSVAVDVPKSRISEGFLVLRDLKLLVYGYAMDIGLVEFSPVREVFSFGLGN 180

Query:   180 NAEA 183
             N E+
Sbjct:   181 NLES 184


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.321   0.137   0.413    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      183       183   0.00076  110 3  11 22  0.41    32
                                                     31  0.40    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  603 (64 KB)
  Total size of DFA:  165 KB (2097 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  17.21u 0.12s 17.33t   Elapsed:  00:00:00
  Total cpu time:  17.21u 0.12s 17.33t   Elapsed:  00:00:00
  Start:  Sat May 11 11:49:52 2013   End:  Sat May 11 11:49:52 2013

GO:0003824 "catalytic activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0016070 "RNA metabolic process" evidence=IEA

GO:0005516 "calmodulin binding" evidence=ISS

GO:0006661 "phosphatidylinositol biosynthetic process" evidence=RCA

---

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: GSVIVG00020786001 SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (183 aa) (Vitis vinifera)

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	183
pfam13563	152	pfam13563, 2_5_RNA_ligase2, 2'-5' RNA ligase super	2e-14
PRK13679	168	PRK13679, PRK13679, hypothetical protein; Provisio	7e-05

>gnl|CDD|222224 pfam13563, 2_5_RNA_ligase2, 2'-5' RNA ligase superfamily

 Score = 66.7 bits (163), Expect = 2e-14
 Identities = 28/128 (21%), Positives = 47/128 (36%), Gaps = 6/128 (4%)

Query: 41  RPHITLF--SSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPL 98
            PHITL           +L   +   A++  P  L L  +GSF     V++L    S  L
Sbjct: 25  PPHITLAYPFVADESLEELLEALARLAAETPPFELTLGGLGSFGGGR-VVYLKVEGSEEL 83

Query: 99  LQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYA 158
              ++ L EA     +       P  + P+  +A ++     A     L     P++   
Sbjct: 84  RALRAALREALPGHLLAQD---EPGPFTPHLTIAYKLDDAPAAALLEALARELPPISFTV 140

Query: 159 MDIGLVEY 166
            ++ LV  
Sbjct: 141 DELALVRR 148

This family contains proteins related to pfam02834. These proteins are likely to be enzymes, but they may not share the RNA ligase activity. Length = 152

>gnl|CDD|184236 PRK13679, PRK13679, hypothetical protein; Provisional

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 3/69 (4%)

Query: 42  PHITLFSSPTIEPAKLESIIK-IH--ASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPL 98
           PHITL     I   +L+SI++ +   AS+ +P  L ++ + SF   NNV++     +  L
Sbjct: 33  PHITLKEPFEISDEQLDSIVEELRAIASETKPFTLHVTKVSSFAPTNNVIYFKVEKTEEL 92

Query: 99  LQFQSQLCE 107
            +   +L  
Sbjct: 93  EELHERLHS 101

Length = 168

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	183
PRK13679	168	hypothetical protein; Provisional	99.96
COG1514	180	LigT 2'-5' RNA ligase [Translation, ribosomal stru	99.96
TIGR02258	179	2_5_ligase 2'-5' RNA ligase. This protein family c	99.95
PRK15124	176	2'-5' RNA ligase; Provisional	99.95
PF13563	153	2_5_RNA_ligase2: 2'-5' RNA ligase superfamily; PDB	99.92
PHA02574	149	57B hypothetical protein; Provisional	99.8
PF07823	196	CPDase: Cyclic phosphodiesterase-like protein; Int	99.76
PF10469	209	AKAP7_NLS: AKAP7 2'5' RNA ligase-like domain; Inte	99.67
PLN00108	257	unknown protein; Provisional	99.34
PF02834	87	LigT_PEase: LigT like Phosphoesterase; InterPro: I	99.24
TIGR03223	228	Phn_opern_protn putative phosphonate metabolism pr	98.98
PF05213	248	Corona_NS2A: Coronavirus NS2A protein; InterPro: I	98.94
PF09749	239	HVSL: Uncharacterised conserved protein; InterPro:	98.63
PHA02977	201	hypothetical protein; Provisional	98.51
PF02834	87	LigT_PEase: LigT like Phosphoesterase; InterPro: I	98.19
PF06299	160	DUF1045: Protein of unknown function (DUF1045); In	97.46
PF08302	257	tRNA_lig_CPD: Fungal tRNA ligase phosphodiesterase	96.82
PF07823	196	CPDase: Cyclic phosphodiesterase-like protein; Int	95.52
COG5255	239	Uncharacterized protein conserved in bacteria [Fun	95.44
KOG2814	345	consensus Transcription coactivator complex, P50 c	94.95
TIGR02258	179	2_5_ligase 2'-5' RNA ligase. This protein family c	94.76
PRK13679	168	hypothetical protein; Provisional	94.55
COG1514	180	LigT 2'-5' RNA ligase [Translation, ribosomal stru	94.02
PF13563	153	2_5_RNA_ligase2: 2'-5' RNA ligase superfamily; PDB	93.52
KOG3102	269	consensus Uncharacterized conserved protein [Funct	90.72
PRK15124	176	2'-5' RNA ligase; Provisional	88.48
PF11080	96	DUF2622: Protein of unknown function (DUF2622); In	84.94
PF08975	118	2H-phosphodiest: Domain of unknown function (DUF18	84.59

>PRK13679 hypothetical protein; Provisional

Probab=99.96  E-value=4e-28  Score=179.94  Aligned_cols=161  Identities=17%  Similarity=0.196  Sum_probs=133.4

Q ss_pred             eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChh---HHHHHHHHhhccCCCeeEEEceeee
Q 040775            4 GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPA---KLESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         4 ~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~---~l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      .|+|++.|++++.+.+.++++.+...     .  ...+|||||.+.++++.+   .+.+.+++++...+||+++++++|+
T Consensus         2 ~~~iai~~p~~~~~~l~~~~~~~~~~-----~--~~v~pHITL~f~g~~~~~~~~~l~~~l~~~~~~~~pf~l~l~~~~~   74 (168)
T PRK13679          2 KYGIVLFPSKKIQDFANSYRKRYDPH-----Y--ALIPPHITLKEPFEISDEQLDSIVEELRAIASETKPFTLHVTKVSS   74 (168)
T ss_pred             eeEEEEcCCHHHHHHHHHHHHhhCcc-----c--ccCCCceEEecCCCCCHHHHHHHHHHHHHHHhcCCCEEEEEecccc
Confidence            69999999999999999998777422     1  136789999988877764   4577788888888999999999999


Q ss_pred             eCCCCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcceEEEEeE
Q 040775           81 FCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMD  160 (183)
Q Consensus        81 F~~~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~~~~~v~~  160 (183)
                      |++.++|+|++++++++|.+||+++.+.+..    .   ...++|+|||||||..+.++..++...++....++.++|++
T Consensus        75 F~~~~~vl~l~~~~~~~L~~L~~~l~~~~~~----~---~~~~~f~PHiTlar~~~~~~~~~~~~~l~~~~~~~~~~v~~  147 (168)
T PRK13679         75 FAPTNNVIYFKVEKTEELEELHERLHSGDFY----G---EAEYAFVPHITIGQGLSDDEHEDVLGQLKMADVDHEETIDR  147 (168)
T ss_pred             CCCCCCEEEEEccCCHHHHHHHHHHHhcccc----c---ccCCCCCCeEEeeCCCCcHHHHHHHHHHhcCCcceeEEECe
Confidence            9865689999999889999999999875431    1   12356999999999888888999988887777778889999


Q ss_pred             EEEEeec---CceeEEEEECC
Q 040775          161 IGLVEYS---PVRELFSFALG  178 (183)
Q Consensus       161 i~L~~~~---p~~~l~~~~l~  178 (183)
                      |+|+...   .|+++.+|.||
T Consensus       148 i~L~~~~~~~~w~~~~~~~~~  168 (168)
T PRK13679        148 FHLLYQLENGSWTVYETFRLG  168 (168)
T ss_pred             EEEEEECCCCeEEEEEEeeCC
Confidence            9998663   59999999986

>COG1514 LigT 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=3.7e-28  Score=181.01  Aligned_cols=168  Identities=20%  Similarity=0.277  Sum_probs=137.6

Q ss_pred             eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhH---HHHHHHHhhccCCCeeEEEceeee
Q 040775            4 GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAK---LESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         4 ~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~---l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      .|+|++.+|+++.+++.++++.+.... ...+. ...++||||.|+++++++.   +.+++..++... ||+|+++|+|.
T Consensus         2 RlFiAl~~p~~i~~~i~~~~~~~~~~~-~~k~v-~~en~HiTL~flGev~e~~~~~l~~~l~~i~~~~-~f~i~l~g~g~   78 (180)
T COG1514           2 RLFIALDPPAEIAERLARIRARLKGAR-AIKWV-EPENLHITLKFLGEVDEDKADELIEALARIAAPE-PFPITLDGAGS   78 (180)
T ss_pred             eeEEEecCCHHHHHHHHHHHHhcCccc-ccccc-cccCceEEEEccCCcCchHHHHHHHHHHHhhcCC-ceEEEEeeEcc
Confidence            589999999999999999999999876 33333 6799999999999888765   456666766656 99999999999


Q ss_pred             eCC--CCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcceEEEE
Q 040775           81 FCN--DNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYA  158 (183)
Q Consensus        81 F~~--~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~~~~~v  158 (183)
                      |++  +++|+|+++.++++|.+|++.+.+.+...|.  .+  .+++|+|||||||......+.++...+...... ++.|
T Consensus        79 F~~~~~~rvi~~~v~~~~~L~~L~~~l~~~~~~~g~--~~--~~r~F~PHvTl~r~k~~~~~~~~~~~~~~~~~~-~~~v  153 (180)
T COG1514          79 FPNPRRPRVIWVGVEETEELRALAEELERALARLGL--RP--EERPFVPHVTLARVKSKDKLVEALGEFKNVEFG-EMEV  153 (180)
T ss_pred             cCCCCCCcEEEEcCCCcHHHHHHHHHHHHHHHhcCC--CC--CCCCcCCCEEEEeecccchhhhhhhhhcccccc-ceEe
Confidence            996  6899999998888899999999999998873  22  246799999999954455666666666654433 6789


Q ss_pred             eEEEEEeec-----C-ceeEEEEECCC
Q 040775          159 MDIGLVEYS-----P-VRELFSFALGN  179 (183)
Q Consensus       159 ~~i~L~~~~-----p-~~~l~~~~l~~  179 (183)
                      ++++|++|.     | |+.+.+|+|.+
T Consensus       154 d~~~L~~S~l~~~gp~Y~~~~~~~L~~  180 (180)
T COG1514         154 DRFSLYSSTLTPGGPIYETLKEFPLSG  180 (180)
T ss_pred             eEEEEEEEeeCCCCCEEEEEEEEecCC
Confidence            999999985     3 99999999975

>TIGR02258 2_5_ligase 2'-5' RNA ligase

Probab=99.95  E-value=9.1e-27  Score=174.21  Aligned_cols=166  Identities=19%  Similarity=0.206  Sum_probs=128.5

Q ss_pred             eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhHH---HHHHHHhhccCCCeeEEEceeee
Q 040775            4 GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKL---ESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         4 ~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~l---~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      .|||++.+++++.+++.++++.+.+......+ .+..++||||.|+++.+.+++   .+.+++++  ..+|+++++|+|+
T Consensus         2 R~FiAl~~p~~~~~~l~~~~~~l~~~~~~~r~-~~~~~~HiTL~flg~~~~~~~~~l~~~l~~~~--~~~f~l~l~~~~~   78 (179)
T TIGR02258         2 RLFIAIDLPPEIREQLSRIQRKLKSPLDGIKW-VPPENLHITLKFLGEVDEEQVEELEDALAKIA--EPPFTLKLEGIGV   78 (179)
T ss_pred             eEEEEecCCHHHHHHHHHHHHHhhccCCCcEE-CChHHCEEEEEEccCCCHHHHHHHHHHHHHhc--CCCeEEEEeeeee
Confidence            68999999999999999999999843222222 256788999999988877654   44566655  4679999999999


Q ss_pred             eCC--CCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChh-hHHHHHHHHHhCCcceEEE
Q 040775           81 FCN--DNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKT-RMAEAFCVLRELKLPVTGY  157 (183)
Q Consensus        81 F~~--~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~-~~~~~~~~~~~~~~~~~~~  157 (183)
                      |++  +++|+|++++.+++|.+||+++.+.+...|..    +++++|+|||||||..... .+.+.+..... ..+.+++
T Consensus        79 F~~~~~~~vl~l~~~~~~~L~~L~~~l~~~~~~~g~~----~~~~~f~PHiTlar~~~~~~~~~~~~~~~~~-~~~~~~~  153 (179)
T TIGR02258        79 FGNPKRPRVLWAGVEQSEELTQLHADLERELAKLGFS----KEERPFTPHITLARKKSGKPGVPEFLQEFAN-EEFGSFH  153 (179)
T ss_pred             CCCCCCCeEEEEeeCCCHHHHHHHHHHHHHHHHcCCC----CCCCCcCCCEEEEEecCCcHhHHHHHHHhCC-CCCCceE
Confidence            986  46899999988889999999999999988743    2446799999999944333 33333333322 3467889


Q ss_pred             EeEEEEEeec-----C-ceeEEEEEC
Q 040775          158 AMDIGLVEYS-----P-VRELFSFAL  177 (183)
Q Consensus       158 v~~i~L~~~~-----p-~~~l~~~~l  177 (183)
                      |++|+|++|.     + |+++++|||
T Consensus       154 v~~i~L~~S~~~~~g~~Y~~l~~~~l  179 (179)
T TIGR02258       154 VDEFHLYSSTLTPGGPIYEPLARFQL  179 (179)
T ss_pred             eeEEEEEEeeccCCCCcceEEEEEcC
Confidence            9999999985     2 999999997

This protein family consists of bacterial and archaeal proteins with two tandem copies of Pfam domain pfam02834. Members for which activity has been measured perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA. The physiological substrate(s) in prokaryotes may include small 2'-5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles.

>PRK15124 2'-5' RNA ligase; Provisional

Probab=99.95  E-value=8.8e-27  Score=173.93  Aligned_cols=164  Identities=15%  Similarity=0.188  Sum_probs=125.6

Q ss_pred             CceeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhHHHHHHHHhh-ccCCCeeEEEceeee
Q 040775            2 SQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHA-SKQEPLPLCLSTIGS   80 (183)
Q Consensus         2 ~~~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~l~~~l~~~~-~~~~pf~l~~~~~g~   80 (183)
                      +..+||++.+++++.+.+.++++.+..... ..+ .+..+.||||.|+++++++.+....+.+. ...+||+++++|+|+
T Consensus         4 ~~RlFiAl~~p~~~~~~l~~~~~~~~~~~~-~rw-v~~~nlHiTL~FlG~v~~~~~~~l~~~l~~~~~~pF~l~l~~~g~   81 (176)
T PRK15124          4 PKRLFFAIDLPDEIRQQIIHWRATHFPPEA-GRP-VAAANLHLTLAFLGEVSAEKQQALSQLAGRIRQPGFTLTLDDAGQ   81 (176)
T ss_pred             ceEEEEEeCCCHHHHHHHHHHHHHhccccC-ccc-ccccccEEEEEecCCCCHHHHHHHHHHHHhcccCCeEEEECcccC
Confidence            358999999999999999999988865322 222 25689999999999999887654443332 147899999999999


Q ss_pred             eCCCCcEEEEeec-CChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcceEEEEe
Q 040775           81 FCNDNNVLFLAPT-PSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAM  159 (183)
Q Consensus        81 F~~~~~vl~l~v~-~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~~~~~v~  159 (183)
                      |++ ++|+|++++ +++.|.+||+++.+.+...|..  .  +.++|+|||||||.......      +.....+.++.|+
T Consensus        82 Fp~-prvlwlg~~~~~~~L~~L~~~l~~~l~~~G~~--~--e~r~f~PHiTLaR~~~~~~~------~~~~~~~~~~~v~  150 (176)
T PRK15124         82 WPR-SRVVWLGMRQPPRGLLQLANMLRSQAARSGCY--Q--SPQPFHPHITLLRDASRPVA------IPPPGFNWSFPVT  150 (176)
T ss_pred             cCC-CCEEEEEcCCCCHHHHHHHHHHHHHHHHcCCC--C--CCCCCCCCEeeccCCCCccc------ccCCCCCCceEcC
Confidence            984 899999996 4579999999999999998842  2  34679999999994332110      1111223457799


Q ss_pred             EEEEEeec-----C-ceeEEEEECC
Q 040775          160 DIGLVEYS-----P-VRELFSFALG  178 (183)
Q Consensus       160 ~i~L~~~~-----p-~~~l~~~~l~  178 (183)
                      +++||+|.     | |+++++|+|.
T Consensus       151 ~~~L~~S~l~~~g~~Y~~l~~~~L~  175 (176)
T PRK15124        151 EFTLYASSFARGRTRYTPLQRWPLT  175 (176)
T ss_pred             EEEEEEEeccCCCCEEEEEEEEeCC
Confidence            99999985     2 9999999996

>PF13563 2_5_RNA_ligase2: 2'-5' RNA ligase superfamily; PDB: 1IUH_A

Probab=99.92  E-value=7.1e-25  Score=159.45  Aligned_cols=148  Identities=23%  Similarity=0.239  Sum_probs=85.2

Q ss_pred             eChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCCh--hHHHHHHHHhhccCCCeeEEEceeeeeCCCCcEE
Q 040775           11 FDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEP--AKLESIIKIHASKQEPLPLCLSTIGSFCNDNNVL   88 (183)
Q Consensus        11 ~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~--~~l~~~l~~~~~~~~pf~l~~~~~g~F~~~~~vl   88 (183)
                      ||+++.++|++++   .+.+... .  +..+|||||++....+.  +.+.+.+..++++.+||+++|+++++|++.+++|
T Consensus         1 pp~~~~~~i~~lr---~~~~~~~-~--~~~~pHITL~~~~~~~~~~~~~~~~l~~~~~~~~~f~l~l~~~~~F~~~~~vi   74 (153)
T PF13563_consen    1 PPDELAEEIEALR---RQKGDKR-Y--PRWPPHITLAFPFDIDDSLDELVEALARLAAGFPPFELRLDGFGSFPGKGRVI   74 (153)
T ss_dssp             ------------G---T-TTEEE-----GGG-EEEEEEEEE--GGGHHHHHHHHHHHHHS--EEEEEEEEEEESSSSSSE
T ss_pred             Ccccccccchhhh---cccCCCC-C--CCCCCEeEEEecCcccccHHHHHHHHHHHHccCCCeEEEEccEEEcCCCCCEE
Confidence            5677777777666   2322222 2  45779999987655544  7899999999988999999999999997535699


Q ss_pred             EEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcceEEEEeEEEEEeec
Q 040775           89 FLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMDIGLVEYS  167 (183)
Q Consensus        89 ~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~~~~~v~~i~L~~~~  167 (183)
                      |+.+.++.+|.+||++|.+.+...+...   +..++|+||||||++.......+++..++....+.+++|++|.|++++
T Consensus        75 ~l~~~~~~~L~~L~~~l~~~~~~~~~~~---~~~~~~~PHiTia~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~L~~~~  150 (153)
T PF13563_consen   75 FLNVEPSPELEALHRALREALRPFGFKQ---DSYRPFRPHITIARRLSPKQAAEAIEKLQSEFPPISFTVDELALVRSD  150 (153)
T ss_dssp             EEEEEE-HHHHHHHHHHHHHHHHHHGGG---GGGS----EEEEEEESS-----------------EEEEE-EEEEEEEE
T ss_pred             EEEcCCCHHHHHHHHHHHHHHHHcCCcc---ccCCCcceEEEEeccCCcchhHHHHHHHhCcCCCcEEEEeEEEEEEEC
Confidence            9999999999999999999998875211   111579999999998777777888888867778899999999999875

>PHA02574 57B hypothetical protein; Provisional

Probab=99.80  E-value=6.1e-19  Score=127.01  Aligned_cols=110  Identities=13%  Similarity=0.057  Sum_probs=88.2

Q ss_pred             ceeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhHHHHHHHHhhccCCCeeEEEceeeeeC
Q 040775            3 QGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFC   82 (183)
Q Consensus         3 ~~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~l~~~l~~~~~~~~pf~l~~~~~g~F~   82 (183)
                      ...+|++.+|+++.+++.++++++..    ... .+..+.|+||.|    +.+++.    .+....+||+++++|+|+|+
T Consensus         9 ~RlF~Al~~~~~~r~~L~~lq~~l~~----~r~-V~~enLHlTL~F----~~~~v~----~l~~~~~~F~l~l~glG~F~   75 (149)
T PHA02574          9 QGTYVAAKFSEATLDALERLQRTLRI----PNP-VPRDKLHSTIVY----SRVYVP----FIPASGSTEVASSGHLEVWE   75 (149)
T ss_pred             ceEEEEEcCCHHHHHHHHHHHHhccC----Ccc-cCHHHCEEEEec----CHHHhH----HHhccCCCeEEEeccccccC
Confidence            46899999999999999999999643    112 267999999988    233333    22335799999999999998


Q ss_pred             C-CCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeecc
Q 040775           83 N-DNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQE  134 (183)
Q Consensus        83 ~-~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~  134 (183)
                      + +++|+|+++. +++|.+|++++.+.+...+        .++|+|||||+|+
T Consensus        76 ~~~~rvlWlg~~-~~~L~~L~~~l~~~l~~~~--------~r~F~PHITLaR~  119 (149)
T PHA02574         76 TQDKNALVLVLE-SEYLQCRHKYARALGATHD--------FDDYTPHITLSYD  119 (149)
T ss_pred             CCCCCEEEEEeC-CHHHHHHHHHHHHHhhcCC--------CCCcCCcEEEeec
Confidence            4 5899999997 8999999999999988742        2359999999994

>PF07823 CPDase: Cyclic phosphodiesterase-like protein; InterPro: IPR012386 2',3' Cyclic nucleotide phosphodiesterases (CPDases) are enzymes that catalyse at least two distinct steps in the splicing of tRNA introns in eukaryotes

Probab=99.76  E-value=3.7e-17  Score=123.80  Aligned_cols=170  Identities=19%  Similarity=0.173  Sum_probs=99.4

Q ss_pred             eEEEEEeCh--hhHHHHHHHHHHHHHccCccccccCCCCCeeEEeec-CCCChhHHHHHHHHhhccCCCe-----eEEEc
Q 040775            5 YAIELYFDP--ALENQVLKAWNVLARRQISTQLIEIESRPHITLFSS-PTIEPAKLESIIKIHASKQEPL-----PLCLS   76 (183)
Q Consensus         5 y~i~l~~~~--~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~-~~~~~~~l~~~l~~~~~~~~pf-----~l~~~   76 (183)
                      |++|+.|++  ....+++.+++.|+....+. .  +...|||||... .-...+.+.+.|+..+...+++     .++|+
T Consensus         3 ~SlWl~P~~~~~~~~~L~~lI~~L~~~~~~~-~--p~F~PHiTL~s~i~~~~~~~~~~~L~~~~~~~~~~~~~~~~v~~~   79 (196)
T PF07823_consen    3 YSLWLVPPPGSPLYERLKTLISSLASLFPGS-P--PPFEPHITLTSGISLDSSDDVQKVLDSAAAALKPLPKNHFTVRFD   79 (196)
T ss_dssp             EEEEEEE-T--TTHHHHHHHHHHHHHHST------------EEEEEEEEE--HHHHHHHHHHHHHH-B-E-----EEEEE
T ss_pred             EEEEEcCCCCccHHHHHHHHHHHHHHHCCCC-C--CCcCCeEEEeCCCccCCHHHHHHHHHHHHHhccCcccceeEEEee
Confidence            999999999  99999999999999875432 1  468999999653 2225677888888888888998     99999


Q ss_pred             eeeeeCCCCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCC--CCCCCCCccceeeeec-cCChhhHHHHH---HHHHhC
Q 040775           77 TIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECG--DEFRPENWIPYCPVAQ-EVPKTRMAEAF---CVLREL  150 (183)
Q Consensus        77 ~~g~F~~~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~--~~~~~~~f~PHiTL~~-~~~~~~~~~~~---~~~~~~  150 (183)
                      ++..=...-+.+|+.+.++++|..|++.+++.+........  ......+|.||++|.| +++..+...+.   ..+.+.
T Consensus        80 ~v~~g~~yfq~vyl~v~~t~~L~~l~~~~r~~~~~~~~~~~~~~~~~~~~y~PHlSLlY~d~~~~e~~~~~~~~~~i~~~  159 (196)
T PF07823_consen   80 KVASGDKYFQCVYLEVEKTPELMSLAQIARELFVEGPPDEVKAAEWPREPYMPHLSLLYGDLPPEEKAEAAEIAQRIDDA  159 (196)
T ss_dssp             EEEEEEETTEEEEEEE---HHHHHHHCHHHHCT----------T----S----EEEEE-----HHHHHHHHHHHHHH-TT
T ss_pred             eEeeCCeEEEEEEEEecCChhHHHHHHHHHHHhhhccccccccccccCCCCCCeEEEEEcCCCcccHHHHHHHHHHhccc
Confidence            88664433589999999999999999999998743311000  0112357999999999 65554433222   222222


Q ss_pred             ------CcceEEEEeEEEEEeec----CceeEEEEEC
Q 040775          151 ------KLPVTGYAMDIGLVEYS----PVRELFSFAL  177 (183)
Q Consensus       151 ------~~~~~~~v~~i~L~~~~----p~~~l~~~~l  177 (183)
                            .....+.++++.||+.+    .|+++++++|
T Consensus       160 l~~~~~~~~~~~~~~~l~lv~t~g~v~~W~~l~~~~l  196 (196)
T PF07823_consen  160 LGVDSGISGLGWEGGELKLVRTDGPVEEWEVLASVDL  196 (196)
T ss_dssp             ------GTT-EEEEEEEEEEE--TT-TT-EEEEEEE-
T ss_pred             ccccccCCCCCEeccEEEEEEcCCCCCcEEEEEEEeC
Confidence                  12346678999999987    2999999876

The active site is characterised by two conserved histidine residues []. The enzyme has six cysteine residues, four of which are involved in forming two intra-molecular disulphide bridges. One of these bridges is involved in the catalytic activity of the enzyme as it opens when CPDase is semi-reduced []. Proteins in this entryand belong to 3.1.4.37 from EC and catalyse the reaction Nucleoside 2',3'-cyclic phosphate + H2O = nucleoside 2'-phosphate. ; GO: 0004112 cyclic-nucleotide phosphodiesterase activity; PDB: 1JH7_A 1JH6_B 1FSI_B.

>PF10469 AKAP7_NLS: AKAP7 2'5' RNA ligase-like domain; InterPro: IPR019510 This entry represents the N-terminal nuclear localisation signal-containing domain found in the cyclic AMP-dependent protein kinase A (PKA) anchor protein, AKAP7

Probab=99.67  E-value=7.6e-15  Score=112.40  Aligned_cols=172  Identities=17%  Similarity=0.237  Sum_probs=119.8

Q ss_pred             eeEEEEEe-ChhhHHHHHHHHHHHHHc--cCccccccCCCCCeeEEeecCCCC---hhHHHHHHHHhh----cc---CCC
Q 040775            4 GYAIELYF-DPALENQVLKAWNVLARR--QISTQLIEIESRPHITLFSSPTIE---PAKLESIIKIHA----SK---QEP   70 (183)
Q Consensus         4 ~y~i~l~~-~~~~~~~i~~~~~~l~~~--~~~~~~~~~~~~pHiTL~~~~~~~---~~~l~~~l~~~~----~~---~~p   70 (183)
                      +|||++.. ++++.+.++++++.+...  +.+.....+...+||||..+.=.+   .+.+.++|+.+.    ..   .+|
T Consensus         2 thFl~ipl~~~~i~~~~~~fq~~v~~~~~~~~~~~~i~~~~lHlTL~vl~L~~~~~i~~a~~~L~~~~~~i~~~~~~~~~   81 (209)
T PF10469_consen    2 THFLCIPLNSPEIQEKFKEFQNEVLSKDPGLDESAFIPPEKLHLTLGVLSLDTDEEIEKAKEALKSLKQEIKDQLQNPPP   81 (209)
T ss_pred             CeEEEEECCCHHHHHHHHHHHHHHHhhcCCCCHHHcCCcccceEEEEEeeCCCHHHHHHHHHHHHHHHHHHhhhccCCCC
Confidence            68999987 577889999999999864  441222237799999997763222   333444454442    11   499


Q ss_pred             eeEEEceeeeeCC---CCcEEEEeecCC---hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec-cC---Chh--
Q 040775           71 LPLCLSTIGSFCN---DNNVLFLAPTPS---IPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ-EV---PKT--  138 (183)
Q Consensus        71 f~l~~~~~g~F~~---~~~vl~l~v~~~---~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~-~~---~~~--  138 (183)
                      +.++|.|+|+|++   .++|+|+.+.++   ..|.++.+.|.+.+...|...... ....|.|||||++ +.   ...  
T Consensus        82 ~~i~l~Gl~~f~~d~~~~~VLya~v~~~~~~~~L~~l~~~l~~~f~~~Gl~~~~~-~~~~~~~H~Tl~n~~~~~~~~~~~  160 (209)
T PF10469_consen   82 LKITLKGLGYFNDDPSKARVLYAKVSEDSNSERLQELANKLRERFQEAGLLVTDD-RRFSFKPHITLMNTSYRKKKKRRQ  160 (209)
T ss_pred             ceEEeeechhhCCCCCcceEEEEcccccchHHHHHHHHHHHHHHHHHcCCccccc-cCCCcceEEEEEeccccccccccc
Confidence            9999999999995   248999999863   789999999999999998543222 2224899999998 32   011  


Q ss_pred             ----hHHHHHHHHHhCCcceEEEEeEEEEEeec---C----ceeEEEEEC
Q 040775          139 ----RMAEAFCVLRELKLPVTGYAMDIGLVEYS---P----VRELFSFAL  177 (183)
Q Consensus       139 ----~~~~~~~~~~~~~~~~~~~v~~i~L~~~~---p----~~~l~~~~l  177 (183)
                          ...+.+..+.+..+. ...|++|.|.+..   +    |..+++++|
T Consensus       161 ~~~~d~~~~~~~~~~~~fG-~~~v~~i~Lc~m~~~~~~dg~Y~~~~~i~l  209 (209)
T PF10469_consen  161 GNKFDASELLEKYKDFDFG-EQPVEEIQLCSMGSTKPSDGYYQCIASIPL  209 (209)
T ss_pred             cCccccHHHHHHcCCCccc-eEEECEEEEEeCCCCCCCCCeEEEEEEecC
Confidence                123444444443332 5678999998862   2    899999886

This protein anchors PKA for its role in regulating PKA-mediated gene transcription in both somatic cells and oocytes []. This domain carries the nuclear localisation signal (NLS) KKRKK, that indicates the cellular destiny of this anchor protein []. Binding to the regulatory subunits RI and RII of PKA is mediated via the RI-RII subunit-binding domain at the C terminus.

>PLN00108 unknown protein; Provisional

Probab=99.34  E-value=2.9e-10  Score=88.43  Aligned_cols=176  Identities=14%  Similarity=0.088  Sum_probs=117.1

Q ss_pred             CCceeEEEEEe--ChhhHHHHHHHHHHHHHc---------------cCccccccCCCCCeeEEeecC---CCChhHHHHH
Q 040775            1 MSQGYAIELYF--DPALENQVLKAWNVLARR---------------QISTQLIEIESRPHITLFSSP---TIEPAKLESI   60 (183)
Q Consensus         1 m~~~y~i~l~~--~~~~~~~i~~~~~~l~~~---------------~~~~~~~~~~~~pHiTL~~~~---~~~~~~l~~~   60 (183)
                      |...|||++-+  ++++.+.+.++++.+-+.               ++....--+...+||||..+.   +.+.++..+.
T Consensus        34 ~~~THFlavPL~~~p~i~~~~~~Fk~~Vl~~~~~~~~~f~~~l~~~gid~siF~~p~~LHLTLgmL~L~~~eev~kA~~~  113 (257)
T PLN00108         34 EVFTHFVSLPLAIYPDLKKNIEAFQNSVLGNNDKDPLKFQSTLAEMGIEKSIFVSPKTFHLTVVMLKLENNESVVKAQNI  113 (257)
T ss_pred             CCCCeEEEEEcCCCHHHHHHHHHHHHHHHhccccccccccccccccCCCHHHcCCCCceEEEEEEEEcCCHHHHHHHHHH
Confidence            45589999999  499999999999998763               222222125688999996643   2222333333


Q ss_pred             HHHhh------ccCCCeeEEEceeeeeCC---CCcEEEEeecCC---hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccce
Q 040775           61 IKIHA------SKQEPLPLCLSTIGSFCN---DNNVLFLAPTPS---IPLLQFQSQLCEAFKREGIECGDEFRPENWIPY  128 (183)
Q Consensus        61 l~~~~------~~~~pf~l~~~~~g~F~~---~~~vl~l~v~~~---~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PH  128 (183)
                      |+...      -.-.|+.|.+.|+++|..   ..+|||+.|+..   ..|+.+.+.+.+.|...|..... . .++..+|
T Consensus       114 L~s~~~~i~~~l~~~pl~I~lkGL~~Mnddps~~~VLYA~Ve~~~~~~rLq~~ad~i~~~F~~aGL~~~d-~-~~~vKLH  191 (257)
T PLN00108        114 LKSICSNVRQALKDRPVFIRLRGLDCMNGSLDKTRVLYAPVEEVGHEGRLLNACHVIIDAFENAGFAGKD-A-KSRLKLH  191 (257)
T ss_pred             HHHHHHHHHHhhCCCCeEEEEEeehhcCCCcccceEEEEeccccCchhHHHHHHHHHHHHHHHcCCcccc-c-CcceeeE
Confidence            33331      124899999999999975   358999998753   47999999999999999864322 1 1469999


Q ss_pred             eeeeccC----Ch-----hhHHHHHHHHHhCCcceEEEEeEEEEEee---c--C-ceeEEEEECCC
Q 040775          129 CPVAQEV----PK-----TRMAEAFCVLRELKLPVTGYAMDIGLVEY---S--P-VRELFSFALGN  179 (183)
Q Consensus       129 iTL~~~~----~~-----~~~~~~~~~~~~~~~~~~~~v~~i~L~~~---~--p-~~~l~~~~l~~  179 (183)
                      +||....    ..     =+..++++.+.+..+ -+..|++|.|-..   +  - |...++.+|.+
T Consensus       192 ~TlmNt~~rk~k~~k~~sFDA~~Il~~f~d~~F-G~~~i~~vhls~r~s~~~dGyY~~~~sl~~~~  256 (257)
T PLN00108        192 ATLMNASYRKDKSKKMDTFDAREIHKEFENKDW-GTYLIREAHISQRYKYDPNGYFHCCASLPFPH  256 (257)
T ss_pred             eEEechhhhhcccCccccccHHHHHHhccCccc-ceEEecEEEEEeecccCCCCCEEEEEEeecCC
Confidence            9999621    11     012234444444333 2567888877542   2  2 89999998865

>PF02834 LigT_PEase: LigT like Phosphoesterase; InterPro: IPR014051 This entry represents a domain found in a number of known and predicted phosphoesterases

Probab=99.24  E-value=4.1e-11  Score=79.08  Aligned_cols=81  Identities=20%  Similarity=0.207  Sum_probs=62.0

Q ss_pred             EEeChhhHHHHHHHHHHHHHcc-CccccccCCCCCeeEEeecCCCChhH---HHHHHHHhhccCCCeeEEEceeeeeCC-
Q 040775            9 LYFDPALENQVLKAWNVLARRQ-ISTQLIEIESRPHITLFSSPTIEPAK---LESIIKIHASKQEPLPLCLSTIGSFCN-   83 (183)
Q Consensus         9 l~~~~~~~~~i~~~~~~l~~~~-~~~~~~~~~~~pHiTL~~~~~~~~~~---l~~~l~~~~~~~~pf~l~~~~~g~F~~-   83 (183)
                      +.+++++.+++.++++.+.... ..+..+.+..+|||||.|.++.+.+.   +.+.++.++....||++++++++.|+. 
T Consensus         1 i~~p~~~~~~L~~l~~~l~~~~~~~~~r~~~~~~~HiTL~flg~~~~~~~~~l~~~l~~~~~~~~~f~~~~~~~~~f~s~   80 (87)
T PF02834_consen    1 IDLPEEIKEQLNQLQERLRQALPPLGIRWVRPFNPHITLAFLGEVPPDQLPELIEALANIASRFPPFTLTVDGFGLFPSR   80 (87)
T ss_dssp             EE-THHHHHHHHHHHHHHHHHCCSCTEEEGSCGGSEEEEEEEEEESHHHHHHHHHHHHHHHCCCB-EEEEEEEEEEEEEE
T ss_pred             CCCCHHHHHHHHHHHHHHhhhccccCCcccCCCCCeEEEEeCCCCCHHHHHHHHHHHHhhhccCCCeEEEEeEEEEeCCC
Confidence            4578999999999999999532 22222236799999999998877654   556677777789999999999999984 


Q ss_pred             -CCcEEE
Q 040775           84 -DNNVLF   89 (183)
Q Consensus        84 -~~~vl~   89 (183)
                       +++|+|
T Consensus        81 ~~~rvi~   87 (87)
T PF02834_consen   81 LRPRVIW   87 (87)
T ss_dssp             ETCEEEE
T ss_pred             CCCCCcC
Confidence             478888

These include bacterial and archaeal 2',5' RNA ligases, and a family of predicted phosphoesterases known as the YjcG family. The 2',5' RNA ligases perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA []. The physiological substrate(s) in prokaryotes may include small 2',5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles. This domain contains a conserved HXTX motif which is thought to be important for catalytic activity, as it is in the related enzyme cyclic nucleotide phosphodiesterase (CPDase) []. In 2',5' RNA ligase this domain is duplicated, with the two conserved motifs forming the proposed active site, which is analogous to that of CPDase [].; PDB: 1VGJ_A 1VDX_A 2FYH_A 2D4G_A.

>TIGR03223 Phn_opern_protn putative phosphonate metabolism protein

Probab=98.98  E-value=1.7e-08  Score=77.52  Aligned_cols=133  Identities=16%  Similarity=0.126  Sum_probs=94.4

Q ss_pred             CCCCeeEEee---c-CCCChhHHHHHHHHhhccCCCeeEE------EceeeeeCCCCcEEEEeecCChhHHHHHHHHHHH
Q 040775           39 ESRPHITLFS---S-PTIEPAKLESIIKIHASKQEPLPLC------LSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEA  108 (183)
Q Consensus        39 ~~~pHiTL~~---~-~~~~~~~l~~~l~~~~~~~~pf~l~------~~~~g~F~~~~~vl~l~v~~~~~L~~L~~~l~~~  108 (183)
                      +-..|+||..   + .+.+++.+.++++.+|....||++.      ++|+..|.  +      +.++.+|.+|+.++.+.
T Consensus        55 rYGfHaTLKaPFrLa~g~~~a~L~~al~~fA~~~~pf~i~~L~l~~Lg~FlAL~--P------~~~~~~L~~LAa~~V~~  126 (228)
T TIGR03223        55 RYGFHATLKAPFRLAPGVTEAELLAAVAAFAATRAPFALPPLRVALLGGFLALR--P------AAPCPALQALAAACVRE  126 (228)
T ss_pred             hcccceeecCCcccCCCCCHHHHHHHHHHHHhcCCCccCCcceeeeeCCEEEEe--e------CCCCHHHHHHHHHHHHh
Confidence            4668999942   3 5677899999999999999999876      55555544  2      45778999999998887


Q ss_pred             HHhcCCCCC------------------------CCCCCCCccceeeeeccCChhhHHHHHHHHHhCC---cceEEEEeEE
Q 040775          109 FKREGIECG------------------------DEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELK---LPVTGYAMDI  161 (183)
Q Consensus       109 l~~~~~~~~------------------------~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~---~~~~~~v~~i  161 (183)
                      +........                        ..|--+.|..||||.-+++.++...+...+...+   .+-...|++|
T Consensus       127 ~d~fRAPls~aelaRRr~~~Ls~~Q~~~L~~WGYPYV~deFrFHmTLTg~l~~~~~~~~~~~l~~~~~~~l~~p~~id~l  206 (228)
T TIGR03223       127 LDPFRAPLTEAELARRRPDQLTPRQRALLERWGYPYVLEEFRFHMTLTGRLDEEERAAVLARLEARFAPLLADPLAVDGL  206 (228)
T ss_pred             hhhccCCCCHHHHhhcCccCCCHHHHHHHHHcCCCceecceEEEEEecCCCChHHHHHHHHHHHHHhhhccCCCeeeeeE
Confidence            754311000                        1122245999999999888777765555555543   3335679999


Q ss_pred             EEEeec----CceeEEEEECCC
Q 040775          162 GLVEYS----PVRELFSFALGN  179 (183)
Q Consensus       162 ~L~~~~----p~~~l~~~~l~~  179 (183)
                      +|+.-+    |+.++..+||++
T Consensus       207 aLf~e~~~g~pF~~~~~~~l~~  228 (228)
T TIGR03223       207 ALFVEPEPGAPFRLIARVALAG  228 (228)
T ss_pred             EEEeccCCCCCcEEEEeecCCC
Confidence            998633    699999999975

This family of proteins is observed in the vicinity of other caharacterized genes involved in the catabolism of phosphonates via the3 C-P lyase system (GenProp0232), its function is unknown. These proteins are members of the somewhat broader pfam06299 model "Protein of unknown function (DUF1045)" which contains proteins found in a different genomic context as well.

>PF05213 Corona_NS2A: Coronavirus NS2A protein; InterPro: IPR007878 This entry is represented by Coronavirus non-structural protein 2A (32kDa); it is a family of uncharacterised viral proteins

Probab=98.94  E-value=1.4e-08  Score=76.02  Aligned_cols=133  Identities=14%  Similarity=0.163  Sum_probs=88.6

Q ss_pred             hHHHHHHHHHHHHHccCccccccCCCCCeeEEeec--CCCChhHHH----HHHHHhhccCCCeeEEEceeeeeCCCCcEE
Q 040775           15 LENQVLKAWNVLARRQISTQLIEIESRPHITLFSS--PTIEPAKLE----SIIKIHASKQEPLPLCLSTIGSFCNDNNVL   88 (183)
Q Consensus        15 ~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~--~~~~~~~l~----~~l~~~~~~~~pf~l~~~~~g~F~~~~~vl   88 (183)
                      .-....+++-+|-+.|.+...+   ..|||||..+  .+.+...+.    +.+++++  .....+++++.-..+   +..
T Consensus        20 f~~~~~~LQ~~~~~eG~d~k~Q---kaPHlSl~mL~Isd~~i~~V~~~iq~ViddM~--~~~~~it~tnp~MLg---~~y   91 (248)
T PF05213_consen   20 FMLNFKDLQFQLLEEGVDCKLQ---KAPHLSLGMLDISDEDIPDVETAIQKVIDDMV--WFEGDITFTNPHMLG---RCY   91 (248)
T ss_pred             HHHHHHHHHHHHHHcCCCcccc---ccCeeEEEEEEcChhhhhhHHHHHHHHHHHhh--cccceEEecCceeec---cEE
Confidence            3466788999999999887553   7799999654  444444444    4455544  344478887776664   455


Q ss_pred             EEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcceEEEE-----eEEEE
Q 040775           89 FLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYA-----MDIGL  163 (183)
Q Consensus        89 ~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~~~~~v-----~~i~L  163 (183)
                      -++|   ..+.+||.+|.+.+.+.|..+   ...+.|.||||||.-...+      ..++...+..++++     .++.+
T Consensus        92 V~nV---~Gv~slh~ki~n~~~~kgit~---gQSRmwIPHiTia~~~~~a------v~I~~~qFny~~~~n~~~~~rle~  159 (248)
T PF05213_consen   92 VANV---KGVLSLHDKIVNVFRKKGITF---GQSRMWIPHITIAQLNDAA------VRIKEKQFNYKITINPSSPARLEF  159 (248)
T ss_pred             EEec---ccHHHHHHHHHHHHHHhCcCc---Ccccccccceehhhhhchh------eEeccceeeeEeeccCCChhcCeE
Confidence            5555   459999999999999998654   3457799999999721111      11223345566666     66677


Q ss_pred             Eeec
Q 040775          164 VEYS  167 (183)
Q Consensus       164 ~~~~  167 (183)
                      ++..
T Consensus       160 VKlG  163 (248)
T PF05213_consen  160 VKLG  163 (248)
T ss_pred             EEcC
Confidence            7654

Members have a phosphoesterase module (2H) [] and are predicted to be involved in RNA modification. The viral group of 2H phosphoesterases contains proteins from two unrelated virus types: the type C rotaviruses (VP3 protein, IPR011181 from INTERPRO) that are double stranded multipartite RNA viruses and the coronaviruses (NS2 protein, this group) that are positive strand RNA viruses. Given that these viruses have vertebrate hosts, it is likely that the 2H phosphoesterase domain was derived from the host by one of virus groups followed by rapid sequence divergence []. Subsequently, it may have been exchanged between the viral families. Although the direction of the exchange is not clear, it is possible that a double stranded replicative form of a subgenomic RNA transcript of the coronavirus NS2 was stabilised by a rotavirus and incorporated into its multiple double stranded RNA genome []. These proteins can be utilised as novel drug targets because of their predicted RNA modification role.

>PF09749 HVSL: Uncharacterised conserved protein; InterPro: IPR019146 This entry is of proteins of approximately 300 residues conserved from plants to humans

Probab=98.63  E-value=3.2e-06  Score=66.05  Aligned_cols=125  Identities=15%  Similarity=0.055  Sum_probs=87.2

Q ss_pred             EEEEEeChhhHHHHHHHHHHHHHccCccccc---------cCCCCCeeEEe---ecCCCChhHHHHHHHHhh--ccCCCe
Q 040775            6 AIELYFDPALENQVLKAWNVLARRQISTQLI---------EIESRPHITLF---SSPTIEPAKLESIIKIHA--SKQEPL   71 (183)
Q Consensus         6 ~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~---------~~~~~pHiTL~---~~~~~~~~~l~~~l~~~~--~~~~pf   71 (183)
                      .|...++++....+.++.+++..........         ....++||+|.   .+.....+.+.+.|+...  ....+|
T Consensus        45 Yi~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~s~lg~~~~lHISLSr~~~lr~~~id~f~~~lr~~l~~~~~~~F  124 (239)
T PF09749_consen   45 YIEWPPSEDQRELLEKLISKANSICPKLHSEFEPLLYSDLGSPDPLHISLSRTFPLRTHQIDPFVDSLRQALRSSNIRPF  124 (239)
T ss_pred             EEEecCcHHHHHHHHHHHHHHHhhhhhhhhhcccccccccCCCCCeEEEeCCCccccHHHHHHHHHHHHHHHhhcCCceE
Confidence            3677788888888888888887753321110         02478999994   333334455666777777  789999


Q ss_pred             eEEEceeeeeCC--CCcE-EEEeecCC-hh-HHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec
Q 040775           72 PLCLSTIGSFCN--DNNV-LFLAPTPS-IP-LLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ  133 (183)
Q Consensus        72 ~l~~~~~g~F~~--~~~v-l~l~v~~~-~~-L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~  133 (183)
                      .+.|+++..|.+  +++. +-+.|..+ .. |..|.+.+.+++...|  ..+.| ..+-.|||+||.
T Consensus       125 ~v~f~~~~~~~N~e~TR~FL~l~V~~~~~~~l~~l~~~i~~~l~~~~--lp~~Y-~~~~~fHvSIAw  188 (239)
T PF09749_consen  125 YVSFSGLDVYTNDEKTRSFLALRVSEGSNNELKRLLDRINEVLKEFG--LPPFY-DEDPSFHVSIAW  188 (239)
T ss_pred             EEEeCceEEEecCCCCeEEEEEEecccccHHHHHHHHHHHHHHHHhC--CCccc-CCCCCCEEEEEE
Confidence            999999999997  3443 34444433 33 9999999999999987  34445 123799999998

It contains two conserved motifs, HxSL and FHVSL. The function is unknown.

>PHA02977 hypothetical protein; Provisional

Probab=98.51  E-value=2.2e-06  Score=60.74  Aligned_cols=92  Identities=17%  Similarity=0.195  Sum_probs=60.8

Q ss_pred             CCCCeeEEeecCCCCh----hHHHHHHHHhhccCCCeeEEEceeeeeCC---------CCcEEEEeecCChhHHHHHHHH
Q 040775           39 ESRPHITLFSSPTIEP----AKLESIIKIHASKQEPLPLCLSTIGSFCN---------DNNVLFLAPTPSIPLLQFQSQL  105 (183)
Q Consensus        39 ~~~pHiTL~~~~~~~~----~~l~~~l~~~~~~~~pf~l~~~~~g~F~~---------~~~vl~l~v~~~~~L~~L~~~l  105 (183)
                      ..+|||||.... .+.    +...+.+..  ...+.+++.....-+|+.         +...+-+.++.++.|..|+.-|
T Consensus        67 di~phitlgian-~dq~~~f~~fk~~~~d--~dl~sis~~cke~icfpqs~askelga~g~avvmkle~sddlkalrnvl  143 (201)
T PHA02977         67 DIFPHITLGIAN-KDQCDNFENFKELIKD--IDLQSISFTCKEEICFPQSNASKELGAKGCAVVMKLEASDDLKALRNVL  143 (201)
T ss_pred             CCCcceeeeccC-ccHhHHHHHHHHHhhc--ccceeEEEEeeeeEeccccchhhhhCcCccEEEEEEEechHHHHHHHHh
Confidence            388999996543 232    233444444  346777788888888985         2346788888899999999888


Q ss_pred             HHHHHhcCCCCCCCCCCCCccceeeeec
Q 040775          106 CEAFKREGIECGDEFRPENWIPYCPVAQ  133 (183)
Q Consensus       106 ~~~l~~~~~~~~~~~~~~~f~PHiTL~~  133 (183)
                      .++..--...+..--...+|.||||+||
T Consensus       144 ~n~vp~pkdifg~i~~d~~w~phitigy  171 (201)
T PHA02977        144 FNAVPCPKDIFGDILSDNPWCPHITIGY  171 (201)
T ss_pred             hcccCCcHHhhcccccCCCCCCceEEEe
Confidence            7655432111112223458999999999

>PF02834 LigT_PEase: LigT like Phosphoesterase; InterPro: IPR014051 This entry represents a domain found in a number of known and predicted phosphoesterases

Probab=98.19  E-value=9.6e-06  Score=53.18  Aligned_cols=72  Identities=26%  Similarity=0.225  Sum_probs=49.6

Q ss_pred             hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec--cCChhhHHHHHHHHHh---CCcceEEEEeEEEEEeec-Cc
Q 040775           96 IPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ--EVPKTRMAEAFCVLRE---LKLPVTGYAMDIGLVEYS-PV  169 (183)
Q Consensus        96 ~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~--~~~~~~~~~~~~~~~~---~~~~~~~~v~~i~L~~~~-p~  169 (183)
                      ++|.++++.+.+.+...|.  ..  . .++.|||||++  +.+++.+.++...+..   ...+++..+++++++.+. +.
T Consensus         9 ~~L~~l~~~l~~~~~~~~~--r~--~-~~~~~HiTL~flg~~~~~~~~~l~~~l~~~~~~~~~f~~~~~~~~~f~s~~~~   83 (87)
T PF02834_consen    9 EQLNQLQERLRQALPPLGI--RW--V-RPFNPHITLAFLGEVPPDQLPELIEALANIASRFPPFTLTVDGFGLFPSRLRP   83 (87)
T ss_dssp             HHHHHHHHHHHHHCCSCTE--EE--G-SCGGSEEEEEEEEEESHHHHHHHHHHHHHHHCCCB-EEEEEEEEEEEEEEETC
T ss_pred             HHHHHHHHHHhhhccccCC--cc--c-CCCCCeEEEEeCCCCCHHHHHHHHHHHHhhhccCCCeEEEEeEEEEeCCCCCC
Confidence            5688888888876655542  11  1 46999999999  5666666666555544   357889999999999875 33


Q ss_pred             eeE
Q 040775          170 REL  172 (183)
Q Consensus       170 ~~l  172 (183)
                      +++
T Consensus        84 rvi   86 (87)
T PF02834_consen   84 RVI   86 (87)
T ss_dssp             EEE
T ss_pred             CCc
Confidence            443

These include bacterial and archaeal 2',5' RNA ligases, and a family of predicted phosphoesterases known as the YjcG family. The 2',5' RNA ligases perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA []. The physiological substrate(s) in prokaryotes may include small 2',5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles. This domain contains a conserved HXTX motif which is thought to be important for catalytic activity, as it is in the related enzyme cyclic nucleotide phosphodiesterase (CPDase) []. In 2',5' RNA ligase this domain is duplicated, with the two conserved motifs forming the proposed active site, which is analogous to that of CPDase [].; PDB: 1VGJ_A 1VDX_A 2FYH_A 2D4G_A.

>PF06299 DUF1045: Protein of unknown function (DUF1045); InterPro: IPR009389 This family consists of several hypothetical proteins from Agrobacterium, Rhizobium and Brucella species

Probab=97.46  E-value=0.0029  Score=46.23  Aligned_cols=111  Identities=16%  Similarity=0.172  Sum_probs=74.9

Q ss_pred             CCCChhHHHHHHHHhhccCCCeeE---EEceeeeeCCCCcEEEEeec-CChhHHHHHHHHHHHHHhcCCCC---------
Q 040775           50 PTIEPAKLESIIKIHASKQEPLPL---CLSTIGSFCNDNNVLFLAPT-PSIPLLQFQSQLCEAFKREGIEC---------  116 (183)
Q Consensus        50 ~~~~~~~l~~~l~~~~~~~~pf~l---~~~~~g~F~~~~~vl~l~v~-~~~~L~~L~~~l~~~l~~~~~~~---------  116 (183)
                      ++.+++.+..+++.+|+...||++   .+..+|.|-      -|.+. ++.+|..|..++.+.+.......         
T Consensus        10 ~g~~~~~L~~a~~~~a~~~~pf~l~~L~v~~lg~Fl------ALvp~~~~~~L~~LAa~cV~~~d~fRAPls~aelaRR~   83 (160)
T PF06299_consen   10 EGASEADLLAALAAFAARFAPFELPGLEVARLGGFL------ALVPAGPCPALQALAAACVRAFDPFRAPLSEAELARRR   83 (160)
T ss_pred             CCCCHHHHHHHHHHHhccCCCccCCceeEeeECCEE------EEeeCCCCHHHHHHHHHHHHhhhhccCCCChHHHhhcC
Confidence            567888999999999999999964   456666553      34333 55789999988877666532110         


Q ss_pred             ---------------CCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcc---eEEEEeEEEEEee
Q 040775          117 ---------------GDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLP---VTGYAMDIGLVEY  166 (183)
Q Consensus       117 ---------------~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~---~~~~v~~i~L~~~  166 (183)
                                     ...|-=+.|+.||||.-+++.++...+...+...+.+   -...|++|+|+.-
T Consensus        84 ~~~Ls~~Q~~~L~rWGYPYV~deFRFHmTLTg~l~~~~~~~~~~~l~~~f~~~l~~p~~id~laLf~e  151 (160)
T PF06299_consen   84 PAGLSPRQRANLERWGYPYVMDEFRFHMTLTGRLDPAERARVEAALEAHFAPLLPEPLRIDSLALFGE  151 (160)
T ss_pred             cccCCHHHHHHHHHhCCCceeCcCEeeEEeCCCCCHHHHHHHHHHHHHHHHhhcCCCeeecceEEEec
Confidence                           0112224699999999988777766665555554322   3457899999853

The function of this family is unknown.

>PF08302 tRNA_lig_CPD: Fungal tRNA ligase phosphodiesterase domain; InterPro: IPR015965 This entry represents a phosphodiesterase domain found in fungal tRNA ligases []

Probab=96.82  E-value=0.036  Score=43.87  Aligned_cols=65  Identities=14%  Similarity=0.090  Sum_probs=38.8

Q ss_pred             CCeeEEEceeeeeCCCCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec---cCChhhHHHHHH
Q 040775           69 EPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ---EVPKTRMAEAFC  145 (183)
Q Consensus        69 ~pf~l~~~~~g~F~~~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~---~~~~~~~~~~~~  145 (183)
                      ..+++++..+- |.  .+++.+.|.-...-..-..     .        ......+..||||||.   .+.+-+-...+.
T Consensus       161 ~~~~v~L~rlv-wd--~rimai~V~~~~~~~~~~~-----~--------~~~~c~N~~~HITVGT~~~~VkP~eSN~Ll~  224 (257)
T PF08302_consen  161 GSCDVRLERLV-WD--DRIMAIVVRIVPPEDEEDE-----V--------PEWECTNKIPHITVGTRDPGVKPKESNDLLE  224 (257)
T ss_pred             ceEEEEEEEEE-EC--CcEEEEEEEccCccccccc-----c--------CCcccCCCCCEEEEEcCCCCCCcchHHHHHH
Confidence            45788888888 66  4888888863321100000     1        1112345799999997   455666666666


Q ss_pred             HHHh
Q 040775          146 VLRE  149 (183)
Q Consensus       146 ~~~~  149 (183)
                      .+.+
T Consensus       225 ~~~~  228 (257)
T PF08302_consen  225 RWLE  228 (257)
T ss_pred             HHHh
Confidence            6655

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>PF07823 CPDase: Cyclic phosphodiesterase-like protein; InterPro: IPR012386 2',3' Cyclic nucleotide phosphodiesterases (CPDases) are enzymes that catalyse at least two distinct steps in the splicing of tRNA introns in eukaryotes

Probab=95.52  E-value=0.086  Score=39.95  Aligned_cols=72  Identities=13%  Similarity=0.162  Sum_probs=32.3

Q ss_pred             cEEEEeecCChh-HHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeecc--C-ChhhHHHHHHHHHhCCcce-----EE
Q 040775           86 NVLFLAPTPSIP-LLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQE--V-PKTRMAEAFCVLRELKLPV-----TG  156 (183)
Q Consensus        86 ~vl~l~v~~~~~-L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~--~-~~~~~~~~~~~~~~~~~~~-----~~  156 (183)
                      -.||+-+.++.+ -..|...+ ..+...-+     ..+..|-|||||.-.  . +.+++.+.+........++     ..
T Consensus         3 ~SlWl~P~~~~~~~~~L~~lI-~~L~~~~~-----~~~p~F~PHiTL~s~i~~~~~~~~~~~L~~~~~~~~~~~~~~~~v   76 (196)
T PF07823_consen    3 YSLWLVPPPGSPLYERLKTLI-SSLASLFP-----GSPPPFEPHITLTSGISLDSSDDVQKVLDSAAAALKPLPKNHFTV   76 (196)
T ss_dssp             EEEEEEE-T--TTHHHHHHHH-HHHHHHST--------------EEEEEEEEE--HHHHHHHHHHHHHH-B-E-----EE
T ss_pred             EEEEEcCCCCccHHHHHHHHH-HHHHHHCC-----CCCCCcCCeEEEeCCCccCCHHHHHHHHHHHHHhccCcccceeEE
Confidence            468998876433 34444444 33333210     112469999999983  3 3455666655544444555     66


Q ss_pred             EEeEEEE
Q 040775          157 YAMDIGL  163 (183)
Q Consensus       157 ~v~~i~L  163 (183)
                      +++++..
T Consensus        77 ~~~~v~~   83 (196)
T PF07823_consen   77 RFDKVAS   83 (196)
T ss_dssp             EEEEEEE
T ss_pred             EeeeEee
Confidence            6666654

The active site is characterised by two conserved histidine residues []. The enzyme has six cysteine residues, four of which are involved in forming two intra-molecular disulphide bridges. One of these bridges is involved in the catalytic activity of the enzyme as it opens when CPDase is semi-reduced []. Proteins in this entryand belong to 3.1.4.37 from EC and catalyse the reaction Nucleoside 2',3'-cyclic phosphate + H2O = nucleoside 2'-phosphate. ; GO: 0004112 cyclic-nucleotide phosphodiesterase activity; PDB: 1JH7_A 1JH6_B 1FSI_B.

>COG5255 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.44  E-value=0.076  Score=40.17  Aligned_cols=110  Identities=15%  Similarity=0.179  Sum_probs=57.2

Q ss_pred             hhhHHHHHHHHHHHHHccCcccccc-CCCCCeeEEeec------------CCCCh----hHHHH----HHHHhhccCCCe
Q 040775           13 PALENQVLKAWNVLARRQISTQLIE-IESRPHITLFSS------------PTIEP----AKLES----IIKIHASKQEPL   71 (183)
Q Consensus        13 ~~~~~~i~~~~~~l~~~~~~~~~~~-~~~~pHiTL~~~------------~~~~~----~~l~~----~l~~~~~~~~pf   71 (183)
                      .++.+.+-.+++++.+.-....... |.+..|+|++..            .+++.    +.+..    .|+.+.--..+|
T Consensus        52 s~t~~vvl~i~~r~~~mpfadklt~tP~sSlHMTvfqg~~e~~R~~~~WpqdlPLDtpi~~~~~~~~erLk~F~l~~~~~  131 (239)
T COG5255          52 SDTEEVVLIIRSRYLEMPFADKLTFTPVSSLHMTVFQGLIEERRELPYWPQDLPLDTPIDAITDYYAERLKIFPLLDEEF  131 (239)
T ss_pred             CchHHHHHHHHHHhhccchhhhhccCCcchhhHHHHHHHhhhcccCCCCCccCCCCCcHHHHHHHHHHHHhcccCCchhh
Confidence            5667888888888887632222212 778899999642            12222    22222    222221111234


Q ss_pred             eEEEceeeeeCCCCcEEEEeecCC---hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec
Q 040775           72 PLCLSTIGSFCNDNNVLFLAPTPS---IPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ  133 (183)
Q Consensus        72 ~l~~~~~g~F~~~~~vl~l~v~~~---~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~  133 (183)
                      .+.+.+.+     |..+-+.+...   ..|.++++.+.+.+...    .+.  .+.|+.||||||
T Consensus       132 ~mrvte~r-----p~~i~v~paddad~~~l~~~Rd~ls~~~g~r----~P~--HDaY~FHITlgY  185 (239)
T COG5255         132 NMRVTEMR-----PQGILVEPADDADAKILEEWRDYLSEKFGYR----HPD--HDAYQFHITLGY  185 (239)
T ss_pred             cchhhccc-----ccceEeccCCHHHHHHHHHHHHHHhhhhccc----CCC--CcceEEEEEeee
Confidence            44443332     23333333222   24666666666654332    232  356999999998

>KOG2814 consensus Transcription coactivator complex, P50 component (LigT RNA ligase/phosphodiesterase family) [Transcription]

Probab=94.95  E-value=0.21  Score=40.47  Aligned_cols=93  Identities=18%  Similarity=0.186  Sum_probs=61.1

Q ss_pred             CCCCCeeEEeec---CCCChhHHHHHHHHh------hccCCCeeEEEceeeeeCCC---CcEEEEeecCCh---hHHHHH
Q 040775           38 IESRPHITLFSS---PTIEPAKLESIIKIH------ASKQEPLPLCLSTIGSFCND---NNVLFLAPTPSI---PLLQFQ  102 (183)
Q Consensus        38 ~~~~pHiTL~~~---~~~~~~~l~~~l~~~------~~~~~pf~l~~~~~g~F~~~---~~vl~l~v~~~~---~L~~L~  102 (183)
                      .....|+|+.++   .+.+..++.+.++..      ...-.|+.+.+.|+..+..+   .+|+|..|++..   -+....
T Consensus       174 ~p~~~HLTvgm~~L~~dd~vq~a~e~les~~~e~~~~~~~kp~~i~lkG~~~mnddP~~~kVLYAkv~~~~~e~~l~~~~  253 (345)
T KOG2814|consen  174 GPGTFHLTVGMLKLLNDDDVQKALEILESTFQEIRIDVGEKPLFIDLKGLDKMNDDPSLTKVLYAKVEPDDYEKFLQHRC  253 (345)
T ss_pred             CCceeeEEEEEEEecChHHHHHHHHHHHHHHHHHHhccCCCceeeeccchhhhcCCHhHheeeeeeccCcchHHHHHHHH
Confidence            457789999765   333333333333331      13568999999999999974   479999998653   355544


Q ss_pred             -HHHHHHHHhcCCCCCCCCCCCCccceeeeec
Q 040775          103 -SQLCEAFKREGIECGDEFRPENWIPYCPVAQ  133 (183)
Q Consensus       103 -~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~  133 (183)
                       +++-.++...|... .  ...+-.=|||+..
T Consensus       254 ~~~i~~~f~~~~li~-k--~~~~~kLH~TvmN  282 (345)
T KOG2814|consen  254 GERILERFVASGLIK-K--ESSSLKLHCTVMN  282 (345)
T ss_pred             HHHHHHHHHHhcchh-c--cccccEEEEEEeh
Confidence             66667777766433 1  2245788999984

>TIGR02258 2_5_ligase 2'-5' RNA ligase

Probab=94.76  E-value=0.29  Score=36.10  Aligned_cols=72  Identities=22%  Similarity=0.260  Sum_probs=44.4

Q ss_pred             EEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccc----eeeeec--cCChhhHHHHHHHHHhC-CcceEEEEeE
Q 040775           88 LFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIP----YCPVAQ--EVPKTRMAEAFCVLREL-KLPVTGYAMD  160 (183)
Q Consensus        88 l~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~P----HiTL~~--~~~~~~~~~~~~~~~~~-~~~~~~~v~~  160 (183)
                      +|+++.+++++.+.-.++.+.+....    .   ...|+|    ||||+.  ..+.+.+.++...+... ..+|+..+++
T Consensus         3 ~FiAl~~p~~~~~~l~~~~~~l~~~~----~---~~r~~~~~~~HiTL~flg~~~~~~~~~l~~~l~~~~~~~f~l~l~~   75 (179)
T TIGR02258         3 LFIAIDLPPEIREQLSRIQRKLKSPL----D---GIKWVPPENLHITLKFLGEVDEEQVEELEDALAKIAEPPFTLKLEG   75 (179)
T ss_pred             EEEEecCCHHHHHHHHHHHHHhhccC----C---CcEECChHHCEEEEEEccCCCHHHHHHHHHHHHHhcCCCeEEEEee
Confidence            57788777666665555555554211    1   123554    999986  55666666665555443 3457888888


Q ss_pred             EEEEee
Q 040775          161 IGLVEY  166 (183)
Q Consensus       161 i~L~~~  166 (183)
                      +..+..
T Consensus        76 ~~~F~~   81 (179)
T TIGR02258        76 IGVFGN   81 (179)
T ss_pred             eeeCCC
Confidence            888754

This protein family consists of bacterial and archaeal proteins with two tandem copies of Pfam domain pfam02834. Members for which activity has been measured perform a reversible, ATP-independent 2'-5'-ligation of what is presumably a non-phyiological substrate: half-tRNA splice intermediates from an intron-containing yeast tRNA. The physiological substrate(s) in prokaryotes may include small 2'-5'-link-containing oligonucleotides, perhaps with regulatory or biosynthetic roles.

>PRK13679 hypothetical protein; Provisional

Probab=94.55  E-value=0.27  Score=36.12  Aligned_cols=64  Identities=11%  Similarity=0.058  Sum_probs=37.9

Q ss_pred             HHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhHHHHHHHHhhccCCCeeEEEceeeeeC
Q 040775           16 ENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFC   82 (183)
Q Consensus        16 ~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~l~~~l~~~~~~~~pf~l~~~~~g~F~   82 (183)
                      ...+.++.+++....... .......|||||+-  ..+.+...++++.+.....++.+.++.+..|.
T Consensus        89 ~~~L~~L~~~l~~~~~~~-~~~~~f~PHiTlar--~~~~~~~~~~~~~l~~~~~~~~~~v~~i~L~~  152 (168)
T PRK13679         89 TEELEELHERLHSGDFYG-EAEYAFVPHITIGQ--GLSDDEHEDVLGQLKMADVDHEETIDRFHLLY  152 (168)
T ss_pred             CHHHHHHHHHHHhccccc-ccCCCCCCeEEeeC--CCCcHHHHHHHHHHhcCCcceeEEECeEEEEE
Confidence            457888888887643211 11134889999983  33445555555555444455566667766654

>COG1514 LigT 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]

Probab=94.02  E-value=0.44  Score=35.66  Aligned_cols=75  Identities=15%  Similarity=0.085  Sum_probs=49.5

Q ss_pred             EEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec--cCChhhHHHHHHHHHhCC-c-ceEEEEeEEEE
Q 040775           88 LFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ--EVPKTRMAEAFCVLRELK-L-PVTGYAMDIGL  163 (183)
Q Consensus        88 l~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~--~~~~~~~~~~~~~~~~~~-~-~~~~~v~~i~L  163 (183)
                      +|+.+..++++.+.-.++.+.+...+ .. ....  .-.+||||..  +++.+...++...+.+.- . +|+.++++++.
T Consensus         3 lFiAl~~p~~i~~~i~~~~~~~~~~~-~~-k~v~--~en~HiTL~flGev~e~~~~~l~~~l~~i~~~~~f~i~l~g~g~   78 (180)
T COG1514           3 LFIALDPPAEIAERLARIRARLKGAR-AI-KWVE--PENLHITLKFLGEVDEDKADELIEALARIAAPEPFPITLDGAGS   78 (180)
T ss_pred             eEEEecCCHHHHHHHHHHHHhcCccc-cc-cccc--ccCceEEEEccCCcCchHHHHHHHHHHHhhcCCceEEEEeeEcc
Confidence            57788888888777666666665543 11 1122  3689999998  666666555555544432 2 78889999988


Q ss_pred             Eee
Q 040775          164 VEY  166 (183)
Q Consensus       164 ~~~  166 (183)
                      +..
T Consensus        79 F~~   81 (180)
T COG1514          79 FPN   81 (180)
T ss_pred             cCC
Confidence            764

>PF13563 2_5_RNA_ligase2: 2'-5' RNA ligase superfamily; PDB: 1IUH_A

Probab=93.52  E-value=0.47  Score=33.67  Aligned_cols=74  Identities=16%  Similarity=0.144  Sum_probs=30.6

Q ss_pred             EEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhHHHHHHHHhhccCCCeeEEEceeeeeC
Q 040775            6 AIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFC   82 (183)
Q Consensus         6 ~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~l~~~l~~~~~~~~pf~l~~~~~g~F~   82 (183)
                      ++.+..++++.+.-.++.+.+...+...... ....|||||+-......  ....++.+.....+.+..++++..+.
T Consensus        75 ~l~~~~~~~L~~L~~~l~~~~~~~~~~~~~~-~~~~PHiTia~~~~~~~--~~~~~~~~~~~~~~~~~~v~~l~L~~  148 (153)
T PF13563_consen   75 FLNVEPSPELEALHRALREALRPFGFKQDSY-RPFRPHITIARRLSPKQ--AAEAIEKLQSEFPPISFTVDELALVR  148 (153)
T ss_dssp             EEEEEE-HHHHHHHHHHHHHHHHHHGGGGGG-S----EEEEEEESS-------------------EEEEE-EEEEEE
T ss_pred             EEEcCCCHHHHHHHHHHHHHHHHcCCccccC-CCcceEEEEeccCCcch--hHHHHHHHhCcCCCcEEEEeEEEEEE
Confidence            3444455666666666666666544332211 35899999975432211  23334444455788888888887765

>KOG3102 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.72  E-value=1.8  Score=33.20  Aligned_cols=91  Identities=10%  Similarity=0.100  Sum_probs=56.8

Q ss_pred             CCCCeeEEee---cCCCChhHHHHHHHHhhccCCCeeEEEceeeeeCCCCcE-EEEeecC-C---hhHHHHHHHHHHHHH
Q 040775           39 ESRPHITLFS---SPTIEPAKLESIIKIHASKQEPLPLCLSTIGSFCNDNNV-LFLAPTP-S---IPLLQFQSQLCEAFK  110 (183)
Q Consensus        39 ~~~pHiTL~~---~~~~~~~~l~~~l~~~~~~~~pf~l~~~~~g~F~~~~~v-l~l~v~~-~---~~L~~L~~~l~~~l~  110 (183)
                      +...||.|.-   +.--........|+.....+..|-++++++..|.+.-++ -|++.+- +   ..+.++-+.+.+++.
T Consensus       119 ~~~fHlSLsr~VvLr~HqI~~fi~~L~~~l~s~~rf~~t~n~~~iytN~e~TRtFi~leitt~~~~~~~~~i~~vd~Vm~  198 (269)
T KOG3102|consen  119 GREFHLSLSRNVVLRVHQINSFISMLRQKLQSQKRFLITFNKWEIYTNDEHTRTFISLEITTSGLSEISKQIDAVDEVMK  198 (269)
T ss_pred             cceEEEeeccceEEEeehhhHHHHHHHHHHhhhhhheEeecceEEEeccccceeEEEEEechhhHHHHHHHHHHHHHHHH
Confidence            5667888832   221123345556666666688899999999999973222 3444432 2   345556677777777


Q ss_pred             hcCCCCCCCCCCCCccceeeeec
Q 040775          111 REGIECGDEFRPENWIPYCPVAQ  133 (183)
Q Consensus       111 ~~~~~~~~~~~~~~f~PHiTL~~  133 (183)
                      .+.  ....|+. + .||++|+-
T Consensus       199 ~~n--L~~FY~D-P-sfHiSL~W  217 (269)
T KOG3102|consen  199 LHN--LPEFYKD-P-SFHISLVW  217 (269)
T ss_pred             HcC--chhhhcC-C-CCCceEEE
Confidence            765  3334542 3 89999986

>PRK15124 2'-5' RNA ligase; Provisional

Probab=88.48  E-value=3.2  Score=30.69  Aligned_cols=75  Identities=13%  Similarity=-0.083  Sum_probs=42.2

Q ss_pred             EEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec--cCChhhHHHHHHHHHhC-CcceEEEEeEEEE
Q 040775           87 VLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ--EVPKTRMAEAFCVLREL-KLPVTGYAMDIGL  163 (183)
Q Consensus        87 vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~--~~~~~~~~~~~~~~~~~-~~~~~~~v~~i~L  163 (183)
                      -+|+++...+++.+.-.++.+.+..... . ..-.+  =.-||||..  .++.+.+..+...+... ..||+..+++++.
T Consensus         6 RlFiAl~~p~~~~~~l~~~~~~~~~~~~-~-rwv~~--~nlHiTL~FlG~v~~~~~~~l~~~l~~~~~~pF~l~l~~~g~   81 (176)
T PRK15124          6 RLFFAIDLPDEIRQQIIHWRATHFPPEA-G-RPVAA--ANLHLTLAFLGEVSAEKQQALSQLAGRIRQPGFTLTLDDAGQ   81 (176)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHhccccC-c-ccccc--cccEEEEEecCCCCHHHHHHHHHHHHhcccCCeEEEECcccC
Confidence            4678876665554433333333322100 0 00011  234999997  77777777666666552 4678888888876


Q ss_pred             Ee
Q 040775          164 VE  165 (183)
Q Consensus       164 ~~  165 (183)
                      +.
T Consensus        82 Fp   83 (176)
T PRK15124         82 WP   83 (176)
T ss_pred             cC
Confidence            63

>PF11080 DUF2622: Protein of unknown function (DUF2622); InterPro: IPR022597 This family is conserved in the Enterobacteriaceae family

Probab=84.94  E-value=8.6  Score=25.67  Aligned_cols=78  Identities=19%  Similarity=0.213  Sum_probs=53.8

Q ss_pred             CCc----eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCee----EEeecCCCChhHHHHHHHHhhc--cCCC
Q 040775            1 MSQ----GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHI----TLFSSPTIEPAKLESIIKIHAS--KQEP   70 (183)
Q Consensus         1 m~~----~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHi----TL~~~~~~~~~~l~~~l~~~~~--~~~p   70 (183)
                      ||+    .|-|-+.+.++.-..+.++.++|...|...-.......||=    |.......+.+.+++..+.++.  --+.
T Consensus         1 ms~~~~~~YVVt~~~~e~~l~d~~~L~~~lt~~GF~~tl~D~~G~~HeLgtntfgl~S~l~~~eV~~la~~lae~algk~   80 (96)
T PF11080_consen    1 MSSSDITRYVVTFEYQEAGLTDINELNNHLTRAGFSTTLTDEDGNPHELGTNTFGLISALSAEEVAQLARGLAESALGKT   80 (96)
T ss_pred             CCCCcceEEEEEEEeccCChHHHHHHHHHHHhcCceeEEecCCCCEeecCCCeEEEEecCCHHHHHHHHHHHhhhhcCCC
Confidence            776    89999999999999999999999998776555445566662    3344456677777766666652  1233


Q ss_pred             eeEEEcee
Q 040775           71 LPLCLSTI   78 (183)
Q Consensus        71 f~l~~~~~   78 (183)
                      .+|.+.-+
T Consensus        81 p~V~V~t~   88 (96)
T PF11080_consen   81 PEVEVTTW   88 (96)
T ss_pred             CceEEEEH
Confidence            34544443

The function is not known.

>PF08975 2H-phosphodiest: Domain of unknown function (DUF1868); InterPro: IPR015069 This family consist of hypothetical bacterial proteins

Probab=84.59  E-value=4.7  Score=28.03  Aligned_cols=37  Identities=19%  Similarity=0.191  Sum_probs=25.0

Q ss_pred             ChhhHHHHHHHHHHHHHccC-ccccccCCCCCeeEEee
Q 040775           12 DPALENQVLKAWNVLARRQI-STQLIEIESRPHITLFS   48 (183)
Q Consensus        12 ~~~~~~~i~~~~~~l~~~~~-~~~~~~~~~~pHiTL~~   48 (183)
                      +.+....+.++++++++... ..+..-|....|+|++.
T Consensus        23 ~s~~~~al~~i~~~l~~~~~~~k~a~lP~sS~HMTVf~   60 (118)
T PF08975_consen   23 DSPFYAALLAIQQRLRESPFADKLAFLPPSSYHMTVFE   60 (118)
T ss_dssp             TSHHHHHHHHHHHHHHTSGGGGGEEE--GGG-EEEEEE
T ss_pred             CChHHHHHHHHHHHHHhCccccceEecCcchhhhhhhc
Confidence            45666889999999998643 33333378889999974

; PDB: 2FSQ_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	183
2d4g_A	171	Hypothetical protein BSU11850; beta barrel, alpha	5e-17
1jh6_A	189	Cyclic phosphodiesterase; ADP-ribose 1'',2''-cycli	2e-08
1vgj_A	184	Hypothetical protein PH0099; alpha+beta, LIGT-like	2e-05

>2d4g_A Hypothetical protein BSU11850; beta barrel, alpha helix, structural genomics, unknown function; 2.30A {Bacillus subtilis} Length = 171

 Score = 73.3 bits (180), Expect = 5e-17
 Identities = 27/145 (18%), Positives = 52/145 (35%), Gaps = 13/145 (8%)

Query: 40  SRPHITLFSSPTIEPAKLESIIKI---HASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSI 96
             PH+TL +S      K + ++      A +  PL L ++   SF   NNV+++   P+ 
Sbjct: 31  IPPHLTLRASFECAEEKADQLVSHLRNIAKESHPLVLKMTKYSSFAPVNNVIYIKAEPTE 90

Query: 97  PLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTG 156
            L     +L               +  N++P+  V Q +     ++    L+  ++    
Sbjct: 91  ELKTLNEKLYTGVLAGE-------QEYNFVPHVTVGQNLSDDEHSDVLGQLKMQEVSHEE 143

Query: 157 YAMDIGLVEY---SPVRELFSFALG 178
                 L+            +F LG
Sbjct: 144 IVDRFHLLYQLENGSWTVYETFLLG 168

>1jh6_A Cyclic phosphodiesterase; ADP-ribose 1'',2''-cyclic phosphate, RNA processing, 2',3'-C nucleotide phosphodiesterase, hydrolase; 1.80A {Arabidopsis thaliana} SCOP: d.61.1.1 PDB: 1fsi_A 1jh7_A* Length = 189

 Score = 50.9 bits (121), Expect = 2e-08
 Identities = 17/162 (10%), Positives = 46/162 (28%), Gaps = 14/162 (8%)

Query: 1   MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESI 60
               Y++    D   E +  K    L     +         PH+T+  S  +   + + +
Sbjct: 5   KKDVYSVWALPDEESEPRFKKLMEALRSE-FTGPRFV----PHVTVAVSAYLTADEAKKM 59

Query: 61  IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEF 120
            +      +     +  + +       +FL    +  +++        F           
Sbjct: 60  FESACDGLKAYTATVDRVSTGTFFFQCVFLLLQTTPEVMEAGEHCKNHFN--------CS 111

Query: 121 RPENWIPYCPVAQ-EVPKTRMAEAFCVLRELKLPVTGYAMDI 161
               ++P+  +   E+ +     A      L   + G +  +
Sbjct: 112 TTTPYMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSFRL 153

>1vgj_A Hypothetical protein PH0099; alpha+beta, LIGT-like, structural genomics, ligase; 1.94A {Pyrococcus horikoshii} PDB: 1vdx_A 2fyh_A Length = 184

 Score = 42.1 bits (99), Expect = 2e-05
 Identities = 18/85 (21%), Positives = 31/85 (36%), Gaps = 5/85 (5%)

Query: 43  HITLFSSPTIEPAKLESIIKI---HASKQEPLPLCLSTIGSFCNDNN--VLFLAPTPSIP 97
           HITL     I   + E I  I    A K +   + +  IG F N N   V++        
Sbjct: 40  HITLKFLGEITEEQAEEIKNILKKIAEKYKKHEVKVKGIGVFPNPNYIRVIWAGIENDEI 99

Query: 98  LLQFQSQLCEAFKREGIECGDEFRP 122
           + +   ++ +   + G +    F  
Sbjct: 100 IREMAREIEDELAKLGFKKEGNFVA 124

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	183
2d4g_A	171	Hypothetical protein BSU11850; beta barrel, alpha	99.96
1jh6_A	189	Cyclic phosphodiesterase; ADP-ribose 1'',2''-cycli	99.96
1iuh_A	198	2'-5' RNA ligase; riken structural genomics/proteo	99.96
1vgj_A	184	Hypothetical protein PH0099; alpha+beta, LIGT-like	99.96
2vfk_A	205	AKAP18 delta; APO, hydrolase; HET: AMP; 1.50A {Hom	99.94
2fsq_A	243	ATU0111 protein; alpha-beta barrel, structural gen	98.52
2d4g_A	171	Hypothetical protein BSU11850; beta barrel, alpha	95.36
1iuh_A	198	2'-5' RNA ligase; riken structural genomics/proteo	94.94
1jh6_A	189	Cyclic phosphodiesterase; ADP-ribose 1'',2''-cycli	93.94
1vgj_A	184	Hypothetical protein PH0099; alpha+beta, LIGT-like	93.76
2vfk_A	205	AKAP18 delta; APO, hydrolase; HET: AMP; 1.50A {Hom	91.97
2fsq_A	243	ATU0111 protein; alpha-beta barrel, structural gen	89.55

>2d4g_A Hypothetical protein BSU11850; beta barrel, alpha helix, structural genomics, unknown function; 2.30A {Bacillus subtilis}

Probab=99.96  E-value=6e-29  Score=183.38  Aligned_cols=163  Identities=20%  Similarity=0.235  Sum_probs=131.2

Q ss_pred             eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCCh---hHHHHHHHHhhccCCCeeEEEceeee
Q 040775            4 GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEP---AKLESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         4 ~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~---~~l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      .|+|++.|++++.+.+.++++++...    .   ...+|||||.++++++.   +.+.+.++++++..+||+++++|+|+
T Consensus         2 R~Fiai~~~~~~~~~l~~~~~~~~~~----~---~~v~pHiTL~f~g~~~~~~~~~l~~~l~~~~~~~~pf~l~l~~~g~   74 (171)
T 2d4g_A            2 KYGIVLFPSKKLQDLANSYRKRYDPS----Y---SLIPPHLTLRASFECAEEKADQLVSHLRNIAKESHPLVLKMTKYSS   74 (171)
T ss_dssp             EEEEEBCCCHHHHHHHHHHHHHHCGG----G---GTSCSCBCCSSCEECCGGGHHHHHHHHHHHHHTCCCEEEEEEEEEE
T ss_pred             eEEEEEeCCHHHHHHHHHHHHHhCcc----c---CCCCCeEEeecCCcCChHHHHHHHHHHHHHHccCCCEEEEECCcEE
Confidence            69999999999999999999998431    1   13667999988776664   45677888888889999999999999


Q ss_pred             eCCCCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcceEEEEeE
Q 040775           81 FCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPVTGYAMD  160 (183)
Q Consensus        81 F~~~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~~~~~v~~  160 (183)
                      |+++++|+|+++.++++|.+||+++.+.+...       ...++|+|||||||+...+.+.+++..++....+.+++|++
T Consensus        75 F~~~~~vl~l~~~~~~~L~~L~~~l~~~~~~~-------~~~~~f~PHiTLar~~~~~~~~~~~~~~~~~~~~~~~~v~~  147 (171)
T 2d4g_A           75 FAPVNNVIYIKAEPTEELKTLNEKLYTGVLAG-------EQEYNFVPHVTVGQNLSDDEHSDVLGQLKMQEVSHEEIVDR  147 (171)
T ss_dssp             CTTTCCCEEEEECCCHHHHHHHHHTTSGGGCS-------CCCSCCCCEEEEECSCCHHHHHHHHHHHTTSCCCEEEEECE
T ss_pred             eCCCCcEEEEEccCChHHHHHHHHHHhccccc-------ccCCCCCCeEEeecCCCHHHHHHHHHHhcCCCCceeEEECe
Confidence            98323499999998899999999999876542       13457999999999777766777776654444577899999


Q ss_pred             EEEEeec---CceeEEEEECCCC
Q 040775          161 IGLVEYS---PVRELFSFALGNN  180 (183)
Q Consensus       161 i~L~~~~---p~~~l~~~~l~~~  180 (183)
                      |+|+++.   .|+++++|||+++
T Consensus       148 i~L~~s~~g~~y~~l~~~~L~~~  170 (171)
T 2d4g_A          148 FHLLYQLENGSWTVYETFLLGRG  170 (171)
T ss_dssp             EEEEEECTTSCEEEEEEEECC--
T ss_pred             EEEEEECCCCcEEEEEEEecCCC
Confidence            9999985   3999999999764

>1jh6_A Cyclic phosphodiesterase; ADP-ribose 1'',2''-cyclic phosphate, RNA processing, 2',3'-C nucleotide phosphodiesterase, hydrolase; 1.80A {Arabidopsis thaliana} SCOP: d.61.1.1 PDB: 1fsi_A 1jh7_A*

Probab=99.96  E-value=3.3e-28  Score=182.53  Aligned_cols=167  Identities=10%  Similarity=0.028  Sum_probs=133.0

Q ss_pred             CCceeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhHHHHHHHHhhccCCCeeEEEceeee
Q 040775            1 MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         1 m~~~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      +++.|+|++.||+++.+++.++++.++.....     +..+|||||..--+.+.+.+.+.|++++.+.+||+++++|+|+
T Consensus         5 ~~~~~~f~~~pp~~~~~~l~~~~~~l~~~~~~-----~~~~~HiTLlG~~~~~~~~l~~~L~~~a~~~~pf~l~l~g~g~   79 (189)
T 1jh6_A            5 KKDVYSVWALPDEESEPRFKKLMEALRSEFTG-----PRFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRVST   79 (189)
T ss_dssp             CCEEEEEEEEECTTTHHHHHHHHHHHHHHHTC-----CCCCCCEEEEEEEEECHHHHHHHHHHHHHTCBCEEEEEEEEEE
T ss_pred             CCCcEEEEEECCHHHHHHHHHHHHHHHHHcCC-----CCCCCEEEEeCCCCCCHHHHHHHHHHHHhhCCCeEEEEcceec
Confidence            35689999999999999999999999875322     3489999994321223677889999998889999999999999


Q ss_pred             eCCCCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec-cCChhhHHHHHHHHHh---CCcceEE
Q 040775           81 FCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ-EVPKTRMAEAFCVLRE---LKLPVTG  156 (183)
Q Consensus        81 F~~~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~-~~~~~~~~~~~~~~~~---~~~~~~~  156 (183)
                      |...++|||++++++++|.+|++++.+.   .|.  .+   .++|+||||||| ++..+...++...++.   .....++
T Consensus        80 ~~~~~rvlw~~v~~~~~L~~L~~~v~~~---~g~--~~---~~~f~PHlTLar~~~~~~~~~~~~~~l~~~~~~~~~~~~  151 (189)
T 1jh6_A           80 GTFFFQCVFLLLQTTPEVMEAGEHCKNH---FNC--ST---TTPYMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSF  151 (189)
T ss_dssp             EEETTEEEEEEECCCHHHHHHHHHHHHH---TTC--CC---CSCCCCEEEEECCCCCHHHHHHHHHHHHHHCTTCTTCEE
T ss_pred             cCccceEEEEeecCCHHHHHHHHHHHHH---hCC--CC---CCCCCCeEEEEEecCCHHHHHHHHHHHHhhccCCCCCcE
Confidence            7666899999999899999999999886   332  12   257999999998 6666666666666542   2334578


Q ss_pred             EEeEEEEEeecC-------ceeEEEEECCCC
Q 040775          157 YAMDIGLVEYSP-------VRELFSFALGNN  180 (183)
Q Consensus       157 ~v~~i~L~~~~p-------~~~l~~~~l~~~  180 (183)
                      +|++|.||+++.       |..+++|+|+.+
T Consensus       152 ~v~~~~L~~s~~~~~~~~~w~l~~~~~~~~~  182 (189)
T 1jh6_A          152 RLNRLALCKTDTEDKTLETWETVAVCNLNPG  182 (189)
T ss_dssp             EEEEEEEEECCTTCTTCTTCEEEEEEECBC-
T ss_pred             EeeEEEEEEeCCCCCccCeEEEEEEEEcCCC
Confidence            999999999874       999999999864

>1iuh_A 2'-5' RNA ligase; riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.50A {Thermus thermophilus} SCOP: d.61.1.2

Probab=99.96  E-value=4.3e-29  Score=188.58  Aligned_cols=166  Identities=14%  Similarity=0.117  Sum_probs=129.9

Q ss_pred             eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhH---HHHHHHHhhccCCCeeEEEceeee
Q 040775            4 GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAK---LESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         4 ~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~---l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      .|||++.||+++.+.|.++++.+.. .....+. +..++||||.|+++++.+.   +.++++.+++..+||+++++|+|+
T Consensus         2 RlFial~~p~~~~~~l~~~~~~l~~-~~~~r~v-~~~~~HiTL~flgev~~~~~~~l~~~l~~~~~~~~pf~l~l~g~g~   79 (198)
T 1iuh_A            2 RLFYAVFLPEEVRAALVEAQTKVRP-FRGWKPV-PPHQLHLTLLFLGERPEEELPDYLALGHRLARLEAPFRARLRGTGY   79 (198)
T ss_dssp             EEEEEEECCHHHHHHHHHHHGGGTT-CTTEEEC-CGGGCEEEEEEEEECCGGGHHHHHHHHHHHHHHSCCEEEEEEEEEE
T ss_pred             EEEEEEeCCHHHHHHHHHHHHHhhh-hcCCccc-CCCCCEEEEEeCCcCCHHHHHHHHHHHHHHhccCCCeEEEEcceEE
Confidence            6999999999999999999999976 2222232 5688999999988777654   557788887789999999999999


Q ss_pred             eCC--CCcEEEEeecCChhHHHHHHHHHHHHHhc-CCC---CCCCCCCCCccceeeeeccCChhhHHHHHHHHHhCCcce
Q 040775           81 FCN--DNNVLFLAPTPSIPLLQFQSQLCEAFKRE-GIE---CGDEFRPENWIPYCPVAQEVPKTRMAEAFCVLRELKLPV  154 (183)
Q Consensus        81 F~~--~~~vl~l~v~~~~~L~~L~~~l~~~l~~~-~~~---~~~~~~~~~f~PHiTL~~~~~~~~~~~~~~~~~~~~~~~  154 (183)
                      |++  +++|||+++ ++++|.+||++|.+.+... |..   +..  ++++|+|||||||......  +    +.....++
T Consensus        80 F~~~~~p~vl~l~v-~~~~L~~L~~~l~~~l~~~~g~~~~~~~~--~~~~f~PHiTLar~~~~~~--~----l~~~l~~~  150 (198)
T 1iuh_A           80 FPNEGTPRVWFAKA-EAEGFLRLAEGLRAGVEELLGEEAVRIPG--WDKPFKPHITLARRKAPAP--R----VPPVLFGL  150 (198)
T ss_dssp             ESSSSSCSEEEEEE-ECHHHHHHHHHHHHHHHHHHGGGGGGSTT--TTSCCCCEEEEEEESSCCC--C----CCCCCCCE
T ss_pred             CCCCCCCCEEEEEC-CCHHHHHHHHHHHHHHHHhcCCCcccccC--CCCCCCCcEEeEeccCcch--h----HHHhhcCc
Confidence            996  368999999 8889999999999999887 610   111  2457999999999543222  1    11111266


Q ss_pred             EEEEeEEEEEeec------CceeEEEEECCCC
Q 040775          155 TGYAMDIGLVEYS------PVRELFSFALGNN  180 (183)
Q Consensus       155 ~~~v~~i~L~~~~------p~~~l~~~~l~~~  180 (183)
                      +++|++|+||+|.      .|+++++|+|++.
T Consensus       151 ~~~v~~~~L~~S~l~~~G~~y~~l~~~~L~~~  182 (198)
T 1iuh_A          151 EWPVEGFALVRSELKPKGPVYTVLEKFSLRGE  182 (198)
T ss_dssp             EEEECEEEEEEEEECSSSEEEEEEEEEECCCC
T ss_pred             eEEecEEEEEEEEeCCCCCeeeEEEEEECCCC
Confidence            8999999999875      3999999999864

>1vgj_A Hypothetical protein PH0099; alpha+beta, LIGT-like, structural genomics, ligase; 1.94A {Pyrococcus horikoshii} PDB: 1vdx_A 2fyh_A

Probab=99.96  E-value=6.7e-28  Score=179.64  Aligned_cols=167  Identities=15%  Similarity=0.167  Sum_probs=130.7

Q ss_pred             eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhH---HHHHHHHhhccCCCeeEEEceeee
Q 040775            4 GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAK---LESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         4 ~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~---l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      .|+|++.||+++.+.+.++++.+...+....+ .+..++||||.|+++++.+.   +.+.++.++...+||+++++|+|+
T Consensus         2 R~Fial~~p~~~~~~l~~~~~~l~~~~~~~~~-v~~~~lHiTL~flg~~~~~~~~~l~~~l~~~~~~~~pf~l~l~g~g~   80 (184)
T 1vgj_A            2 RAFIAIDVNESVRDSLVRAQDYIGSKEAKIKF-VERENLHITLKFLGEITEEQAEEIKNILKKIAEKYKKHEVKVKGIGV   80 (184)
T ss_dssp             EEEEEEECCHHHHHHHHHHHHHHCSSSEEEEE-CCGGGCEEEEEEEESCCHHHHHHHHHHHHHHHTTSBCEEEEEEEEEE
T ss_pred             eEEEEEcCCHHHHHHHHHHHHHHhhcCCCcEe-cCccccEEEEEeecCCCHHHHHHHHHHHHHHHccCCCeEEEEeeEee
Confidence            69999999999999999999999764212222 24466799999998887754   557788887789999999999999


Q ss_pred             eCC--CCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCChh---hHHHHHHHHHhCCcceE
Q 040775           81 FCN--DNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPKT---RMAEAFCVLRELKLPVT  155 (183)
Q Consensus        81 F~~--~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~~---~~~~~~~~~~~~~~~~~  155 (183)
                      |++  +++|+|+++.++++|.+|++++.+.+...|..  .  +. +|+|||||||.....   .+.+.+..+.. ..+.+
T Consensus        81 F~~~~~p~vl~~~v~~~~~L~~L~~~l~~~l~~~g~~--~--~~-~f~PHiTLar~~~~~~~~~~~~~~~~~~~-~~~~~  154 (184)
T 1vgj_A           81 FPNPNYIRVIWAGIENDEIIREMAREIEDELAKLGFK--K--EG-NFVAHITLGRVKFVKDKLGLTMKLKELAN-EDFGS  154 (184)
T ss_dssp             EECSSSEEEEEEEEETCHHHHHHHHHHHHHHHTTTCC--C--CC-CCCCEEEEEEEEEESCHHHHHHHHHHTTT-CEEEE
T ss_pred             CCCCCCCcEEEEEecCCHHHHHHHHHHHHHHHHcCCC--C--CC-CccceEEEEeecccCcHHHHHHHHHHhcC-CCCCc
Confidence            986  35899999988899999999999999988732  2  23 699999999943322   34444444332 23458


Q ss_pred             EEEeEEEEEeec--C----ceeEEEEEC
Q 040775          156 GYAMDIGLVEYS--P----VRELFSFAL  177 (183)
Q Consensus       156 ~~v~~i~L~~~~--p----~~~l~~~~l  177 (183)
                      ++|++|+|+++.  +    |+++++|||
T Consensus       155 ~~v~~~~L~~s~~~~~g~~y~~l~~~~L  182 (184)
T 1vgj_A          155 FVVDAIELKKSTLTPKGPIYETLARFEL  182 (184)
T ss_dssp             EEECEEEEEEEEEETTEEEEEEEEEEEC
T ss_pred             EEEeEEEEEEeeecCCCCceeEEEEEeC
Confidence            899999999875  3    999999999

>2vfk_A AKAP18 delta; APO, hydrolase; HET: AMP; 1.50A {Homo sapiens} PDB: 2vfl_A* 2vfy_A

Probab=99.94  E-value=2.3e-25  Score=168.70  Aligned_cols=170  Identities=14%  Similarity=0.180  Sum_probs=126.5

Q ss_pred             eeEEEEEeCh-hhHHHHHHHHHHHHHc--cCccccccCCCCCeeEEeecCCCChhHH---HHHHHHhhccC------CCe
Q 040775            4 GYAIELYFDP-ALENQVLKAWNVLARR--QISTQLIEIESRPHITLFSSPTIEPAKL---ESIIKIHASKQ------EPL   71 (183)
Q Consensus         4 ~y~i~l~~~~-~~~~~i~~~~~~l~~~--~~~~~~~~~~~~pHiTL~~~~~~~~~~l---~~~l~~~~~~~------~pf   71 (183)
                      .|||++.+++ ++.+.+.++++.+...  +....+. +..++||||.|+++++.+.+   .+.++.++...      +||
T Consensus         4 r~Fial~~~~~~~~~~l~~~~~~l~~~~~~~~~~~v-~~~~~HiTL~flg~~~~~~~~~l~~~l~~~~~~~~~~~~~~pf   82 (205)
T 2vfk_A            4 NYFLSIPITNKKITAGIKVLQNSILRQDNRLTKAMV-GDGSFHITLLVMQLLNEDEVNIGTDALLELKPFVEEILEGKHL   82 (205)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHHHHHCGGGGGGBC-CTTCCEEEEEEECCCSHHHHHHHHHHHHHHHHHHHHHTTTSCC
T ss_pred             CEEEEEEcCCHHHHHHHHHHHHHHHhcCcchHHHhC-CcCccEEEEEEEEcCCHHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence            7999999997 8999999999999863  2222232 56889999999998887654   44565555444      999


Q ss_pred             eEEEceeeeeCCCCcEEEEeecCC---hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeeccCCh---h-----hH
Q 040775           72 PLCLSTIGSFCNDNNVLFLAPTPS---IPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQEVPK---T-----RM  140 (183)
Q Consensus        72 ~l~~~~~g~F~~~~~vl~l~v~~~---~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~~~~---~-----~~  140 (183)
                      +++++|+|+|++  +|+|+++.++   +.|.+|+++|.+.+...|... .  ..++|+|||||||....   .     .+
T Consensus        83 ~l~l~g~~~F~~--~vl~~~v~~~~~~~~L~~L~~~l~~~~~~~g~~~-~--~~~~f~PHiTlar~~~~~~~~~~~~~~~  157 (205)
T 2vfk_A           83 TLPFHGIGTFQG--QVGFVKLADGDHVSALLEIAETAKRTFQEKGILA-G--ESRTFKPHLTFMKLSKAPMLWKKGVRKI  157 (205)
T ss_dssp             EEEEEEEEEETT--TEEEEEECCSHHHHHHHHHHHHHHHHHHTTTCCB-C--CSSCCCCCEEEEEGGGCHHHHHTTCSSC
T ss_pred             EEEEechhhCCC--cEEEEeecccccHHHHHHHHHHHHHHHHHcCCCc-C--CCCCcceEEEEEecccchhhhhcccccc
Confidence            999999999994  7999999876   689999999999999887421 1  23579999999994221   1     12


Q ss_pred             -HHHHHHHHhCCcceEEEEeEEEEEeec-------CceeEEEEECCCC
Q 040775          141 -AEAFCVLRELKLPVTGYAMDIGLVEYS-------PVRELFSFALGNN  180 (183)
Q Consensus       141 -~~~~~~~~~~~~~~~~~v~~i~L~~~~-------p~~~l~~~~l~~~  180 (183)
                       .+++..+.. ....+++|++|.|+++.       .|+++++|||++.
T Consensus       158 ~~~~l~~~~~-~~~~~~~v~~i~L~~~~~~~~~~g~Y~~~~~~~L~~~  204 (205)
T 2vfk_A          158 EPGLYEQFID-HRFGEEILYQIDLCSMLKKKQSNGYYHCESSIVIGEK  204 (205)
T ss_dssp             CGGGGGGGTT-CEEEEEECCEEEEEESSSCCCTTSCCCEEEEEECSSC
T ss_pred             CHHHHHHhcC-CcCcEEEeCEEEEEEcCCCCCCCCcEEEEEEEecCCC
Confidence             122222222 22347899999999843       3999999999864

>2fsq_A ATU0111 protein; alpha-beta barrel, structural genomics, PSI, protein structu initiative, midwest center for structural genomics; HET: MSE; 1.40A {Agrobacterium tumefaciens str} SCOP: d.61.1.4

Probab=98.52  E-value=5.1e-06  Score=63.74  Aligned_cols=162  Identities=9%  Similarity=0.073  Sum_probs=93.3

Q ss_pred             eeEEEEEeChh--hHHHHHHHHHHHHHccCcccccc-CCCCCeeEEee--cC--------------CCChhHH----HHH
Q 040775            4 GYAIELYFDPA--LENQVLKAWNVLARRQISTQLIE-IESRPHITLFS--SP--------------TIEPAKL----ESI   60 (183)
Q Consensus         4 ~y~i~l~~~~~--~~~~i~~~~~~l~~~~~~~~~~~-~~~~pHiTL~~--~~--------------~~~~~~l----~~~   60 (183)
                      .|.|.--+++.  ....+.+++++|.+......... |....|+||+.  ++              +.+.+.+    .+.
T Consensus        42 GnTvI~~l~~~s~~~~~l~~iq~~L~~~~~~~~~~~lPpsS~HMTvfdgv~e~~r~~~~wP~~L~~d~~l~~~~~~~~~~  121 (243)
T 2fsq_A           42 GNTVVCHLVEGSQTESAIVSTRQRFLDMPEASQLAFTPVSSLHMTVFQGVIESRRALPYWPQTLPLDTPIDAVTDYYRDR  121 (243)
T ss_dssp             EEEEEEEBCTTSHHHHHHHHHHHHHHTSGGGGGEEECCGGGCEEEEEEEEETTCCSTTSSCTTSCTTCCHHHHHHHHHHH
T ss_pred             CCeEEEecCCCChHHHHHHHHHHHHHhccccCceeeCCchhhhhhhccccccccccCCCCCccCcccchHHHHHHHHHHH
Confidence            45566555554  35889999999997644333322 77889999975  21              1112222    223


Q ss_pred             HHHhhccCCCeeEEEceeeeeCCCCcEEEEeecCC---hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeecc---
Q 040775           61 IKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPS---IPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQE---  134 (183)
Q Consensus        61 l~~~~~~~~pf~l~~~~~g~F~~~~~vl~l~v~~~---~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~~---  134 (183)
                      ++... ...||.+++.++.     +..|-|.+...   ..|.+++++|.+.++--   . +.  ...|++||||||.   
T Consensus       122 l~~~~-~~~p~~~~v~~l~-----~~~v~L~Pade~~~~~L~~~R~~l~q~lGi~---~-p~--hd~y~fHITLgY~~~~  189 (243)
T 2fsq_A          122 LSTFP-TLPAFNMRVTGLR-----PVGMVMKGATAEDDSIVALWRDTFADFFGYR---H-PD--HDTYEFHITLSYIVSW  189 (243)
T ss_dssp             GGGCC-CCCCCCEEEEEEE-----TTEEEEEESSHHHHHHHHHHHHHHHHHHTCC---C-TT--GGGCCEEEECEEESSC
T ss_pred             Hhccc-CCCCeEEEEeccc-----cceEEEecCCHHHHHHHHHHHHHHHHHhCCC---C-CC--CcceEEEEEEEeccCC
Confidence            33333 3478888888882     23555555322   36889999998866421   1 11  2369999999992   


Q ss_pred             CChhhH---HHHHHHHHh----CCcceEEEEeEEEEEeecC---ceeEEEEECCC
Q 040775          135 VPKTRM---AEAFCVLRE----LKLPVTGYAMDIGLVEYSP---VRELFSFALGN  179 (183)
Q Consensus       135 ~~~~~~---~~~~~~~~~----~~~~~~~~v~~i~L~~~~p---~~~l~~~~l~~  179 (183)
                      +++++.   .+++..+..    ..+.+  .+....+..++.   |..+..+.+.|
T Consensus       190 l~~ee~~~~~~~l~~~~~~l~~~~p~i--~l~~~efc~F~DM~~F~~~~~l~~~~  242 (243)
T 2fsq_A          190 FEPECLPRWQAMLDEELEKLRVAAPVI--QMRPPAFCEFKDMNHFKELVVFDKRG  242 (243)
T ss_dssp             BCGGGHHHHHHHHHHHHHHHHHHCSSC--CBCCCEEEEESSTTCCEEEEECC---
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhhCCee--eecCcceEEeCChhhhHHHHhcccCC
Confidence            344433   233333333    22333  456777777763   66665555443

>2d4g_A Hypothetical protein BSU11850; beta barrel, alpha helix, structural genomics, unknown function; 2.30A {Bacillus subtilis}

Probab=95.36  E-value=0.071  Score=37.85  Aligned_cols=69  Identities=9%  Similarity=0.082  Sum_probs=44.2

Q ss_pred             EEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec--cCChhhHHH---HHHHHHhCCcceEEEEeEEE
Q 040775           88 LFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ--EVPKTRMAE---AFCVLRELKLPVTGYAMDIG  162 (183)
Q Consensus        88 l~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~--~~~~~~~~~---~~~~~~~~~~~~~~~v~~i~  162 (183)
                      +|+.+..++++.+.-.++.+.+...       .  +...|||||..  .++.+...+   ++..+.....||+.+++++.
T Consensus         3 ~Fiai~~~~~~~~~l~~~~~~~~~~-------~--~~v~pHiTL~f~g~~~~~~~~~l~~~l~~~~~~~~pf~l~l~~~g   73 (171)
T 2d4g_A            3 YGIVLFPSKKLQDLANSYRKRYDPS-------Y--SLIPPHLTLRASFECAEEKADQLVSHLRNIAKESHPLVLKMTKYS   73 (171)
T ss_dssp             EEEEBCCCHHHHHHHHHHHHHHCGG-------G--GTSCSCBCCSSCEECCGGGHHHHHHHHHHHHHTCCCEEEEEEEEE
T ss_pred             EEEEEeCCHHHHHHHHHHHHHhCcc-------c--CCCCCeEEeecCCcCChHHHHHHHHHHHHHHccCCCEEEEECCcE
Confidence            5778877777766666666655321       1  23677999996  555555544   44444444578888888887


Q ss_pred             EEe
Q 040775          163 LVE  165 (183)
Q Consensus       163 L~~  165 (183)
                      .+.
T Consensus        74 ~F~   76 (171)
T 2d4g_A           74 SFA   76 (171)
T ss_dssp             ECT
T ss_pred             EeC
Confidence            664

>1iuh_A 2'-5' RNA ligase; riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.50A {Thermus thermophilus} SCOP: d.61.1.2

Probab=94.94  E-value=0.098  Score=38.31  Aligned_cols=71  Identities=11%  Similarity=0.016  Sum_probs=44.2

Q ss_pred             EEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCcc----ceeeeec--cCChhhHHHHHHHHHh---CCcceEEEE
Q 040775           88 LFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWI----PYCPVAQ--EVPKTRMAEAFCVLRE---LKLPVTGYA  158 (183)
Q Consensus        88 l~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~----PHiTL~~--~~~~~~~~~~~~~~~~---~~~~~~~~v  158 (183)
                      +|+.+..++++.+.-.++++.+.. +  .     ...|+    |||||..  .++.+.+.++...+..   ...||+.++
T Consensus         3 lFial~~p~~~~~~l~~~~~~l~~-~--~-----~~r~v~~~~~HiTL~flgev~~~~~~~l~~~l~~~~~~~~pf~l~l   74 (198)
T 1iuh_A            3 LFYAVFLPEEVRAALVEAQTKVRP-F--R-----GWKPVPPHQLHLTLLFLGERPEEELPDYLALGHRLARLEAPFRARL   74 (198)
T ss_dssp             EEEEEECCHHHHHHHHHHHGGGTT-C--T-----TEEECCGGGCEEEEEEEEECCGGGHHHHHHHHHHHHHHSCCEEEEE
T ss_pred             EEEEEeCCHHHHHHHHHHHHHhhh-h--c-----CCcccCCCCCEEEEEeCCcCCHHHHHHHHHHHHHHhccCCCeEEEE
Confidence            577777777666555555554432 1  0     01244    7999997  5666666644444333   357899999


Q ss_pred             eEEEEEee
Q 040775          159 MDIGLVEY  166 (183)
Q Consensus       159 ~~i~L~~~  166 (183)
                      +++..+..
T Consensus        75 ~g~g~F~~   82 (198)
T 1iuh_A           75 RGTGYFPN   82 (198)
T ss_dssp             EEEEEESS
T ss_pred             cceEECCC
Confidence            99988754

>1jh6_A Cyclic phosphodiesterase; ADP-ribose 1'',2''-cyclic phosphate, RNA processing, 2',3'-C nucleotide phosphodiesterase, hydrolase; 1.80A {Arabidopsis thaliana} SCOP: d.61.1.1 PDB: 1fsi_A 1jh7_A*

Probab=93.94  E-value=0.73  Score=33.33  Aligned_cols=40  Identities=13%  Similarity=0.082  Sum_probs=27.7

Q ss_pred             CccceeeeeccC--ChhhHHHHHHHHHhCCcceEEEEeEEEE
Q 040775          124 NWIPYCPVAQEV--PKTRMAEAFCVLRELKLPVTGYAMDIGL  163 (183)
Q Consensus       124 ~f~PHiTL~~~~--~~~~~~~~~~~~~~~~~~~~~~v~~i~L  163 (183)
                      ++.|||||.-..  ..+++.+.+..+.....||+.++++++-
T Consensus        38 ~~~~HiTLlG~~~~~~~~l~~~L~~~a~~~~pf~l~l~g~g~   79 (189)
T 1jh6_A           38 RFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRVST   79 (189)
T ss_dssp             CCCCCEEEEEEEEECHHHHHHHHHHHHHTCBCEEEEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCHHHHHHHHHHHHhhCCCeEEEEcceec
Confidence            489999995332  2445555566665456789999999987

>1vgj_A Hypothetical protein PH0099; alpha+beta, LIGT-like, structural genomics, ligase; 1.94A {Pyrococcus horikoshii} PDB: 1vdx_A 2fyh_A

Probab=93.76  E-value=0.3  Score=34.88  Aligned_cols=72  Identities=10%  Similarity=0.038  Sum_probs=44.8

Q ss_pred             EEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCcc-c---eeeeec--cCChhhHHHHHHH---HHhCCcceEEEE
Q 040775           88 LFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWI-P---YCPVAQ--EVPKTRMAEAFCV---LRELKLPVTGYA  158 (183)
Q Consensus        88 l~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~-P---HiTL~~--~~~~~~~~~~~~~---~~~~~~~~~~~v  158 (183)
                      +|+.+..++++.+.-.++.+.+...+    .   ...|+ |   ||||..  .++.+.+.++...   +.....||+.++
T Consensus         3 ~Fial~~p~~~~~~l~~~~~~l~~~~----~---~~~~v~~~~lHiTL~flg~~~~~~~~~l~~~l~~~~~~~~pf~l~l   75 (184)
T 1vgj_A            3 AFIAIDVNESVRDSLVRAQDYIGSKE----A---KIKFVERENLHITLKFLGEITEEQAEEIKNILKKIAEKYKKHEVKV   75 (184)
T ss_dssp             EEEEEECCHHHHHHHHHHHHHHCSSS----E---EEEECCGGGCEEEEEEEESCCHHHHHHHHHHHHHHHTTSBCEEEEE
T ss_pred             EEEEEcCCHHHHHHHHHHHHHHhhcC----C---CcEecCccccEEEEEeecCCCHHHHHHHHHHHHHHHccCCCeEEEE
Confidence            57777777776666666666554321    0   01243 4   999987  5666656544444   433457899999


Q ss_pred             eEEEEEee
Q 040775          159 MDIGLVEY  166 (183)
Q Consensus       159 ~~i~L~~~  166 (183)
                      +++..+..
T Consensus        76 ~g~g~F~~   83 (184)
T 1vgj_A           76 KGIGVFPN   83 (184)
T ss_dssp             EEEEEEEC
T ss_pred             eeEeeCCC
Confidence            99987754

>2vfk_A AKAP18 delta; APO, hydrolase; HET: AMP; 1.50A {Homo sapiens} PDB: 2vfl_A* 2vfy_A

Probab=91.97  E-value=0.7  Score=33.60  Aligned_cols=74  Identities=14%  Similarity=-0.005  Sum_probs=41.2

Q ss_pred             EEEEeecCCh-hHHHHHHHHHHHHHhcCCCCCCCCCCCCcc----ceeeeec--cCChhhHHHHHHHHHhC---C-----
Q 040775           87 VLFLAPTPSI-PLLQFQSQLCEAFKREGIECGDEFRPENWI----PYCPVAQ--EVPKTRMAEAFCVLREL---K-----  151 (183)
Q Consensus        87 vl~l~v~~~~-~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~----PHiTL~~--~~~~~~~~~~~~~~~~~---~-----  151 (183)
                      -+|+++..++ ++.+.-.++.+.+.......     ...|+    +||||+.  .++.+.+.++...+...   .     
T Consensus         4 r~Fial~~~~~~~~~~l~~~~~~l~~~~~~~-----~~~~v~~~~~HiTL~flg~~~~~~~~~l~~~l~~~~~~~~~~~~   78 (205)
T 2vfk_A            4 NYFLSIPITNKKITAGIKVLQNSILRQDNRL-----TKAMVGDGSFHITLLVMQLLNEDEVNIGTDALLELKPFVEEILE   78 (205)
T ss_dssp             CEEEEEECCCHHHHHHHHHHHHHHHHHCGGG-----GGGBCCTTCCEEEEEEECCCSHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CEEEEEEcCCHHHHHHHHHHHHHHHhcCcch-----HHHhCCcCccEEEEEEEEcCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence            4677776553 55554444444443210000     01244    4999997  55666666655544441   1     


Q ss_pred             -cceEEEEeEEEEEe
Q 040775          152 -LPVTGYAMDIGLVE  165 (183)
Q Consensus       152 -~~~~~~v~~i~L~~  165 (183)
                       .||+.+++++..+.
T Consensus        79 ~~pf~l~l~g~~~F~   93 (205)
T 2vfk_A           79 GKHLTLPFHGIGTFQ   93 (205)
T ss_dssp             TSCCEEEEEEEEEET
T ss_pred             CCCcEEEEechhhCC
Confidence             67888888887764

>2fsq_A ATU0111 protein; alpha-beta barrel, structural genomics, PSI, protein structu initiative, midwest center for structural genomics; HET: MSE; 1.40A {Agrobacterium tumefaciens str} SCOP: d.61.1.4

Probab=89.55  E-value=0.64  Score=35.40  Aligned_cols=77  Identities=12%  Similarity=-0.029  Sum_probs=43.7

Q ss_pred             EEEEEeC-hhhHHHHHHHHHHHHHccCccccccCCCCCeeEEee-cCCCCh---hHH----HHHHHHhhccCCCeeEEEc
Q 040775            6 AIELYFD-PALENQVLKAWNVLARRQISTQLIEIESRPHITLFS-SPTIEP---AKL----ESIIKIHASKQEPLPLCLS   76 (183)
Q Consensus         6 ~i~l~~~-~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~-~~~~~~---~~l----~~~l~~~~~~~~pf~l~~~   76 (183)
                      .|.|.|- ++..++|+++++.|.+..+-....+....+||||+- +...+.   ..+    .+..+.+....+.++|.--
T Consensus       142 ~v~L~Pade~~~~~L~~~R~~l~q~lGi~~p~hd~y~fHITLgY~~~~l~~ee~~~~~~~l~~~~~~l~~~~p~i~l~~~  221 (243)
T 2fsq_A          142 GMVMKGATAEDDSIVALWRDTFADFFGYRHPDHDTYEFHITLSYIVSWFEPECLPRWQAMLDEELEKLRVAAPVIQMRPP  221 (243)
T ss_dssp             EEEEEESSHHHHHHHHHHHHHHHHHHTCCCTTGGGCCEEEECEEESSCBCGGGHHHHHHHHHHHHHHHHHHCSSCCBCCC
T ss_pred             eEEEecCCHHHHHHHHHHHHHHHHHhCCCCCCCcceEEEEEEEeccCCCCHHHHHHHHHHHHHHHHHHHhhCCeeeecCc
Confidence            4556554 666799999999999863311111235889999953 322222   223    3334444444555555544


Q ss_pred             eeeeeC
Q 040775           77 TIGSFC   82 (183)
Q Consensus        77 ~~g~F~   82 (183)
                      .+..|.
T Consensus       222 efc~F~  227 (243)
T 2fsq_A          222 AFCEFK  227 (243)
T ss_dssp             EEEEES
T ss_pred             ceEEeC
Confidence            555555

---

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	183
d1jh6a_	181	d.61.1.1 (A:) tRNA splicing product Appr>p cyclic	3e-09

>d1jh6a_ d.61.1.1 (A:) tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 181

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase
domain: tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 51.8 bits (123), Expect = 3e-09
 Identities = 17/158 (10%), Positives = 47/158 (29%), Gaps = 14/158 (8%)

Query: 5   YAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIH 64
           Y++    D   E +  K    L       +       PH+T+  S  +   + + + +  
Sbjct: 9   YSVWALPDEESEPRFKKLMEALRSEFTGPRF-----VPHVTVAVSAYLTADEAKKMFESA 63

Query: 65  ASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPEN 124
               +     +  + +       +FL    +  +++        F        +      
Sbjct: 64  CDGLKAYTATVDRVSTGTFFFQCVFLLLQTTPEVMEAGEHCKNHF--------NCSTTTP 115

Query: 125 WIPYCPVAQ-EVPKTRMAEAFCVLRELKLPVTGYAMDI 161
           ++P+  +   E+ +     A      L   + G +  +
Sbjct: 116 YMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSFRL 153

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	183
d1jh6a_	181	tRNA splicing product Appr>p cyclic nucleotide pho	99.97
d1iuha_	183	2'-5' RNA ligase LigT {Thermus thermophilus [TaxId	99.94
d2fsqa1	232	Putative phosphoesterase Atu0111 {Agrobacterium tu	98.5
d1jh6a_	181	tRNA splicing product Appr>p cyclic nucleotide pho	97.21
d1iuha_	183	2'-5' RNA ligase LigT {Thermus thermophilus [TaxId	94.75
d2fsqa1	232	Putative phosphoesterase Atu0111 {Agrobacterium tu	91.79
d2ilxa1	219	2',3'-cyclic nucleotide 3'-phosphodiesterase, cata	81.02

>d1jh6a_ d.61.1.1 (A:) tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase
domain: tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.97  E-value=3.5e-29  Score=184.70  Aligned_cols=165  Identities=11%  Similarity=0.072  Sum_probs=137.2

Q ss_pred             CCceeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhHHHHHHHHhhccCCCeeEEEceeee
Q 040775            1 MSQGYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAKLESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         1 m~~~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      |++.|+||+.|+++...+++++++.|++....     +..+|||||.+.++.+.+.+.+.++.++...+||+++++|+|+
T Consensus         5 ~~~~yslwl~P~~~~~~~l~~l~~~l~~~~~~-----~~~~pHiTL~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~   79 (181)
T d1jh6a_           5 KKDVYSVWALPDEESEPRFKKLMEALRSEFTG-----PRFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRVST   79 (181)
T ss_dssp             CCEEEEEEEEECTTTHHHHHHHHHHHHHHHTC-----CCCCCCEEEEEEEEECHHHHHHHHHHHHHTCBCEEEEEEEEEE
T ss_pred             CCCcEEEEEECCHHHHHHHHHHHHHHHHhhCC-----CCCCCeEEEeecCcCCHHHHHHHHHHHHhhCCCeEEEeccccc
Confidence            35589999999999999999999999987543     4578999999888888888999999999889999999999999


Q ss_pred             eCCCCcEEEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec-cCChhhHHHHH---HHHHhCCcceEE
Q 040775           81 FCNDNNVLFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ-EVPKTRMAEAF---CVLRELKLPVTG  156 (183)
Q Consensus        81 F~~~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~-~~~~~~~~~~~---~~~~~~~~~~~~  156 (183)
                      |.....++|+.+.++++|..||+.+.+.+...        ...+|+|||||+| +.+++....+.   ..+.....+.++
T Consensus        80 ~~~~~~~v~~~~~~~~~L~~l~~~l~~~~~~~--------~~~~f~PHiTLa~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (181)
T d1jh6a_          80 GTFFFQCVFLLLQTTPEVMEAGEHCKNHFNCS--------TTTPYMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSF  151 (181)
T ss_dssp             EEETTEEEEEEECCCHHHHHHHHHHHHHTTCC--------CCSCCCCEEEEECCCCCHHHHHHHHHHHHHHCTTCTTCEE
T ss_pred             CCCCceEEEEccCCCHHHHHHHHHHHHhcCcc--------cCCCCCCeEEEEecCCChhhHHHHHHHHHHhcccCCCccE
Confidence            98667899999999999999999998765321        2356999999999 55665554443   444444567899


Q ss_pred             EEeEEEEEeec-------CceeEEEEECC
Q 040775          157 YAMDIGLVEYS-------PVRELFSFALG  178 (183)
Q Consensus       157 ~v~~i~L~~~~-------p~~~l~~~~l~  178 (183)
                      .|++|+||++.       .|+++++|+|+
T Consensus       152 ~vd~i~L~~s~~~~~~v~~W~~l~~~~L~  180 (181)
T d1jh6a_         152 RLNRLALCKTDTEDKTLETWETVAVCNLN  180 (181)
T ss_dssp             EEEEEEEEECCTTCTTCTTCEEEEEEECB
T ss_pred             EEeEEEEEEECCCCCCCCcEEEEEEEeCC
Confidence            99999999874       39999999996

>d1iuha_ d.61.1.2 (A:) 2'-5' RNA ligase LigT {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: 2'-5' RNA ligase LigT
domain: 2'-5' RNA ligase LigT
species: Thermus thermophilus [TaxId: 274]

Probab=99.94  E-value=2.8e-26  Score=169.08  Aligned_cols=166  Identities=14%  Similarity=0.135  Sum_probs=124.0

Q ss_pred             eeEEEEEeChhhHHHHHHHHHHHHHccCccccccCCCCCeeEEeecCCCChhH---HHHHHHHhhccCCCeeEEEceeee
Q 040775            4 GYAIELYFDPALENQVLKAWNVLARRQISTQLIEIESRPHITLFSSPTIEPAK---LESIIKIHASKQEPLPLCLSTIGS   80 (183)
Q Consensus         4 ~y~i~l~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~~~~~~~~~---l~~~l~~~~~~~~pf~l~~~~~g~   80 (183)
                      .+||++.+++++.+++.++++.+..... ..+ .+..+.||||.|+++++.++   +.+++++++....||+++++++|+
T Consensus         2 RlFial~~p~~~~~~l~~~~~~l~~~~~-~r~-~~~~~lHiTL~flg~~~~~~~~~l~~~l~~~~~~~~pf~l~~~~~~~   79 (183)
T d1iuha_           2 RLFYAVFLPEEVRAALVEAQTKVRPFRG-WKP-VPPHQLHLTLLFLGERPEEELPDYLALGHRLARLEAPFRARLRGTGY   79 (183)
T ss_dssp             EEEEEEECCHHHHHHHHHHHGGGTTCTT-EEE-CCGGGCEEEEEEEEECCGGGHHHHHHHHHHHHHHSCCEEEEEEEEEE
T ss_pred             eEEEEEcCCHHHHHHHHHHHHHcccccc-ccc-CCcccCEEEEEcCCCCCHHHHHHHHHHHHHHHhcCCCeEEEeccccc
Confidence            5799999999999999999999975432 222 25577799999887777654   567788888889999999999999


Q ss_pred             eCC-CCcEEEEeecCChhHHHHHHHHHHHHHhcC----CCCCCCCCCCCccceeeeec-cCChhhHHHHHHHHHhCCcce
Q 040775           81 FCN-DNNVLFLAPTPSIPLLQFQSQLCEAFKREG----IECGDEFRPENWIPYCPVAQ-EVPKTRMAEAFCVLRELKLPV  154 (183)
Q Consensus        81 F~~-~~~vl~l~v~~~~~L~~L~~~l~~~l~~~~----~~~~~~~~~~~f~PHiTL~~-~~~~~~~~~~~~~~~~~~~~~  154 (183)
                      |++ +..++|+.+.+++++.+|+++|.+.+...+    .....  +.++|+||||||| +......       .....+.
T Consensus        80 f~~~~~~~v~~~~~~~~~~~~L~~~l~~~l~~~~~~~~~~~~~--~~r~f~PHITlar~~~~~~~~-------~~~~~~~  150 (183)
T d1iuha_          80 FPNEGTPRVWFAKAEAEGFLRLAEGLRAGVEELLGEEAVRIPG--WDKPFKPHITLARRKAPAPRV-------PPVLFGL  150 (183)
T ss_dssp             ESSSSSCSEEEEEEECHHHHHHHHHHHHHHHHHHGGGGGGSTT--TTSCCCCEEEEEEESSCCCCC-------CCCCCCE
T ss_pred             CCCCCCcEEEEEecCChHHHHHHHHHHHHHHHHhhhhccCCCc--cCCCcCCCEEEEeEcCCchhh-------hcccCCc
Confidence            986 233555555577888888888877776542    11222  2357999999999 3332221       1235678


Q ss_pred             EEEEeEEEEEeec-----C-ceeEEEEECCCC
Q 040775          155 TGYAMDIGLVEYS-----P-VRELFSFALGNN  180 (183)
Q Consensus       155 ~~~v~~i~L~~~~-----p-~~~l~~~~l~~~  180 (183)
                      +++|++|+||+|.     + |+++++|+|+|.
T Consensus       151 ~~~v~~~~L~~S~~~~~g~~Y~~l~~~~L~g~  182 (183)
T d1iuha_         151 EWPVEGFALVRSELKPKGPVYTVLEKFSLRGE  182 (183)
T ss_dssp             EEEECEEEEEEEEECSSSEEEEEEEEEECCCC
T ss_pred             eEEeeEEEEEEEeccCCCCcceEEEEEeCCCC
Confidence            9999999999974     2 999999999985

>d2fsqa1 d.61.1.4 (A:6-237) Putative phosphoesterase Atu0111 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: Atu0111-like
domain: Putative phosphoesterase Atu0111
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=98.50  E-value=1.9e-06  Score=63.96  Aligned_cols=159  Identities=10%  Similarity=0.085  Sum_probs=88.3

Q ss_pred             eeEEEEEeChh--hHHHHHHHHHHHHHc-cCccccccCCCCCeeEEeec------------CCCC----hhHHHHHHHHh
Q 040775            4 GYAIELYFDPA--LENQVLKAWNVLARR-QISTQLIEIESRPHITLFSS------------PTIE----PAKLESIIKIH   64 (183)
Q Consensus         4 ~y~i~l~~~~~--~~~~i~~~~~~l~~~-~~~~~~~~~~~~pHiTL~~~------------~~~~----~~~l~~~l~~~   64 (183)
                      .+.|.--+++.  ...+|.+++++|.+. +...+..-|....|+||+-+            .+++    .+.+...+.+.
T Consensus        35 GnTiI~~i~~~s~~~~~l~~~q~~l~~~~~~~~~~~LP~sSfHMTLfd~~n~~~r~~~~wP~~l~~d~~~~~~~~~~~~r  114 (232)
T d2fsqa1          35 GNTVVCHLVEGSQTESAIVSTRQRFLDMPEASQLAFTPVSSLHMTVFQGVIESRRALPYWPQTLPLDTPIDAVTDYYRDR  114 (232)
T ss_dssp             EEEEEEEBCTTSHHHHHHHHHHHHHHTSGGGGGEEECCGGGCEEEEEEEEETTCCSTTSSCTTSCTTCCHHHHHHHHHHH
T ss_pred             CCEEEEecCCCchHHHHHHHHHHHHHhcCcccceeeCChhhhhHHHhcccccccccCCCCCccCCcccCHHHHHHHHHHH
Confidence            45555555544  558899999999986 33333333778899999743            0111    22333333332


Q ss_pred             hc---cCCCeeEEEceeeeeCCCCcEEEEeecCC---hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec---cC
Q 040775           65 AS---KQEPLPLCLSTIGSFCNDNNVLFLAPTPS---IPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ---EV  135 (183)
Q Consensus        65 ~~---~~~pf~l~~~~~g~F~~~~~vl~l~v~~~---~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~---~~  135 (183)
                      .+   ...+|.+.+.+++     +-.|.+.+...   ..|.++++++.+.++-.   ... +  ..|++||||||   .+
T Consensus       115 l~~~~~~~~~~~~~~~~~-----~~~v~L~p~~e~d~~~L~~~R~~l~~l~gi~---~~~-h--~~Y~fHITLaY~l~~l  183 (232)
T d2fsqa1         115 LSTFPTLPAFNMRVTGLR-----PVGMVMKGATAEDDSIVALWRDTFADFFGYR---HPD-H--DTYEFHITLSYIVSWF  183 (232)
T ss_dssp             GGGCCCCCCCCEEEEEEE-----TTEEEEEESSHHHHHHHHHHHHHHHHHHTCC---CTT-G--GGCCEEEECEEESSCB
T ss_pred             HhcCCCCcceEEEEeccc-----ccEEEEecCCHHHHHHHHHHHHHHHHHhccC---CCC-C--ceeEEEEEEEeccCCC
Confidence            22   2356777776643     23444655322   35888888888865332   212 1  34999999999   33


Q ss_pred             ChhhH---HHHHHHHHhC---CcceEEEEeEEEEEeecC---ceeEEE
Q 040775          136 PKTRM---AEAFCVLREL---KLPVTGYAMDIGLVEYSP---VRELFS  174 (183)
Q Consensus       136 ~~~~~---~~~~~~~~~~---~~~~~~~v~~i~L~~~~p---~~~l~~  174 (183)
                      +..+.   .+++..+.+.   ..| ..+++.+.+..++.   |+.+..
T Consensus       184 ~~~e~~~~~~~l~~~~~~~~~~~p-~i~l~~~e~c~FedM~~F~~i~~  230 (232)
T d2fsqa1         184 EPECLPRWQAMLDEELEKLRVAAP-VIQMRPPAFCEFKDMNHFKELVV  230 (232)
T ss_dssp             CGGGHHHHHHHHHHHHHHHHHHCS-SCCBCCCEEEEESSTTCCEEEEE
T ss_pred             ChHHHHHHHHHHHHHHHHHHhhCC-eeeeCCcceEeecccccCceeec
Confidence            44443   3333333222   122 12356777776653   555543

>d1jh6a_ d.61.1.1 (A:) tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase
domain: tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.21  E-value=0.0028  Score=44.25  Aligned_cols=70  Identities=11%  Similarity=0.110  Sum_probs=49.6

Q ss_pred             cEEEEeecCC--hhHHHHHHHHHHHHHhcCCCCCCCCCCCCccceeeeec--cCChhhHHHHHHHHHhCCcceEEEEeEE
Q 040775           86 NVLFLAPTPS--IPLLQFQSQLCEAFKREGIECGDEFRPENWIPYCPVAQ--EVPKTRMAEAFCVLRELKLPVTGYAMDI  161 (183)
Q Consensus        86 ~vl~l~v~~~--~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~PHiTL~~--~~~~~~~~~~~~~~~~~~~~~~~~v~~i  161 (183)
                      -.||+-+...  ..|.++.+.+.+..   +        ...|.|||||+.  ..+.+...+.++.+.....|++.+++++
T Consensus         9 yslwl~P~~~~~~~l~~l~~~l~~~~---~--------~~~~~pHiTL~~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~   77 (181)
T d1jh6a_           9 YSVWALPDEESEPRFKKLMEALRSEF---T--------GPRFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRV   77 (181)
T ss_dssp             EEEEEEECTTTHHHHHHHHHHHHHHH---T--------CCCCCCCEEEEEEEEECHHHHHHHHHHHHHTCBCEEEEEEEE
T ss_pred             EEEEEECCHHHHHHHHHHHHHHHHhh---C--------CCCCCCeEEEeecCcCCHHHHHHHHHHHHhhCCCeEEEeccc
Confidence            4678877543  34666776666543   1        124889999998  5667777777777777777899999999


Q ss_pred             EEEee
Q 040775          162 GLVEY  166 (183)
Q Consensus       162 ~L~~~  166 (183)
                      +....
T Consensus        78 ~~~~~   82 (181)
T d1jh6a_          78 STGTF   82 (181)
T ss_dssp             EEEEE
T ss_pred             ccCCC
Confidence            87654

>d1iuha_ d.61.1.2 (A:) 2'-5' RNA ligase LigT {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: 2'-5' RNA ligase LigT
domain: 2'-5' RNA ligase LigT
species: Thermus thermophilus [TaxId: 274]

Probab=94.75  E-value=0.054  Score=37.23  Aligned_cols=71  Identities=14%  Similarity=0.040  Sum_probs=44.3

Q ss_pred             EEEeecCChhHHHHHHHHHHHHHhcCCCCCCCCCCCCccc----eeeeec--cCChhhHHHH---HHHHHhCCcceEEEE
Q 040775           88 LFLAPTPSIPLLQFQSQLCEAFKREGIECGDEFRPENWIP----YCPVAQ--EVPKTRMAEA---FCVLRELKLPVTGYA  158 (183)
Q Consensus        88 l~l~v~~~~~L~~L~~~l~~~l~~~~~~~~~~~~~~~f~P----HiTL~~--~~~~~~~~~~---~~~~~~~~~~~~~~v  158 (183)
                      +|+++..++++.+--.++.+.+...       +. ..|+|    ||||..  .++++....+   +..+.....|++.++
T Consensus         3 lFial~~p~~~~~~l~~~~~~l~~~-------~~-~r~~~~~~lHiTL~flg~~~~~~~~~l~~~l~~~~~~~~pf~l~~   74 (183)
T d1iuha_           3 LFYAVFLPEEVRAALVEAQTKVRPF-------RG-WKPVPPHQLHLTLLFLGERPEEELPDYLALGHRLARLEAPFRARL   74 (183)
T ss_dssp             EEEEEECCHHHHHHHHHHHGGGTTC-------TT-EEECCGGGCEEEEEEEEECCGGGHHHHHHHHHHHHHHSCCEEEEE
T ss_pred             EEEEEcCCHHHHHHHHHHHHHcccc-------cc-cccCCcccCEEEEEcCCCCCHHHHHHHHHHHHHHHhcCCCeEEEe
Confidence            5777777766555444444443321       11 24777    999986  5666655544   444444467899999


Q ss_pred             eEEEEEee
Q 040775          159 MDIGLVEY  166 (183)
Q Consensus       159 ~~i~L~~~  166 (183)
                      ++++.+..
T Consensus        75 ~~~~~f~~   82 (183)
T d1iuha_          75 RGTGYFPN   82 (183)
T ss_dssp             EEEEEESS
T ss_pred             cccccCCC
Confidence            99988753

>d2fsqa1 d.61.1.4 (A:6-237) Putative phosphoesterase Atu0111 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: Atu0111-like
domain: Putative phosphoesterase Atu0111
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=91.79  E-value=0.14  Score=36.90  Aligned_cols=45  Identities=13%  Similarity=-0.156  Sum_probs=30.9

Q ss_pred             eeEEEEEeC-hhhHHHHHHHHHHHHHccCccccccCCCCCeeEEee
Q 040775            4 GYAIELYFD-PALENQVLKAWNVLARRQISTQLIEIESRPHITLFS   48 (183)
Q Consensus         4 ~y~i~l~~~-~~~~~~i~~~~~~l~~~~~~~~~~~~~~~pHiTL~~   48 (183)
                      .+.|.+.|- ++.++.++++++.|.+..+-....+..-.+||||+-
T Consensus       133 ~~~v~L~p~~e~d~~~L~~~R~~l~~l~gi~~~~h~~Y~fHITLaY  178 (232)
T d2fsqa1         133 PVGMVMKGATAEDDSIVALWRDTFADFFGYRHPDHDTYEFHITLSY  178 (232)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHHHHHHHHTCCCTTGGGCCEEEECEE
T ss_pred             ccEEEEecCCHHHHHHHHHHHHHHHHHhccCCCCCceeEEEEEEEe
Confidence            567788854 666688999999999863222222244789999954

>d2ilxa1 d.61.1.3 (A:1-219) 2',3'-cyclic nucleotide 3'-phosphodiesterase, catalytic domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: LigT-like
superfamily: LigT-like
family: 2',3'-cyclic nucleotide 3'-phosphodiesterase, catalytic domain
domain: 2',3'-cyclic nucleotide 3'-phosphodiesterase, catalytic domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.02  E-value=5.7  Score=27.61  Aligned_cols=85  Identities=11%  Similarity=-0.014  Sum_probs=51.3

Q ss_pred             CCCCCeeEEeecC--CCChhH-HH--HHHHHhhccCCCeeEEEceeeeeCCCCcEEEEeecCChhHHHHHHHHHHHHHhc
Q 040775           38 IESRPHITLFSSP--TIEPAK-LE--SIIKIHASKQEPLPLCLSTIGSFCNDNNVLFLAPTPSIPLLQFQSQLCEAFKRE  112 (183)
Q Consensus        38 ~~~~pHiTL~~~~--~~~~~~-l~--~~l~~~~~~~~pf~l~~~~~g~F~~~~~vl~l~v~~~~~L~~L~~~l~~~l~~~  112 (183)
                      +...+|.|=.++.  ..+-+. ..  +.+++.  --+.|+|++.++-.-+   +++...|.-+++-..|.-.   ...+ 
T Consensus        66 ~p~~lHCTtkfc~yGka~gae~Ya~~~~V~~s--ygk~ftl~i~gl~ITp---rT~GArV~Lte~Ql~LWp~---D~d~-  136 (219)
T d2ilxa1          66 PPGVLHCTTKFCDYGKATGAEEYAQQDVVRRS--YGKAFKLSISALFVTP---KTAGAQVVLNEQELQLWPS---DLDK-  136 (219)
T ss_dssp             CTTCCEEEEEECTTTTSSSHHHHHTCHHHHHH--TTCEEEEEEEEEEECS---SCEEEEECCCHHHHHTCCT---TSSS-
T ss_pred             CCCCceeeeeeccccCcccHHHHHHHHHHHHh--cCceeEEEEEEEEEcc---CcceeEEEcCHHHhhhCCC---ccCc-
Confidence            4578999998863  443322 21  233333  2577899998887764   8999999877653333211   0011 


Q ss_pred             CCCCCCCCCCCCccceeeeec
Q 040775          113 GIECGDEFRPENWIPYCPVAQ  133 (183)
Q Consensus       113 ~~~~~~~~~~~~f~PHiTL~~  133 (183)
                        ......-|...+-|||||-
T Consensus       137 --~~~~~~lp~GsRAHvTLGc  155 (219)
T d2ilxa1         137 --PSSSESLPPGSRAHVTLGC  155 (219)
T ss_dssp             --CSSSSCCCCCSSSEEECCC
T ss_pred             --ccCCCCCCCcceeeEeccc
Confidence              1122234567899999997