Citrus Sinensis ID: 020866

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320
Protein Sequence
MTEEKEEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRLESSNTAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTDTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSIRALVSGTNAKNG
Secondary Structure (PSIPRED)
ccHHHHHHHccccccccccccccccccccccccccccccEEEEEcccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccEEEEEccccccccHHHHHHHHHHHHHccccccccEEEEEEEccEEEcccHHHHHHHHHHHHHHHHHHHHcccccccEEEEEEEEccccccccccccccccccccccccHHHHHHHHHHHHHHcccccEEEcccccEEEEEEEEEcccccccccEEEEEEccccccccccccHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHcccHHHHHHHEcccccccccccHHHHcccccEEEEccccccccHHHHHHHHHHHHccccccccccHHcccccHcccHHcccccccccccccccccccccccccccEcccccccccEEEEEEEcccEEEEEEccccccccHHHHHHHHHHHHcccccccccHHHcccccHHHccccHHHHHHHHHHHHHHHHHcccccccccEEEEEEEcccccccccccccccccccccHHHccHHHHHHHHHHHHHHHHHHcEEccccccEEEEEEEccccccccccEEEEEEEccHHHHcccccEEEEEcccccccccc
Coil and Loop (DISEMBL)
mteekeeeelkpweqhsrvisiprfdynspssllqrshsgflLTCTIKREKSATKEAISILHKRlessntagdskrrkvctddmggkcadgaeinsieedsagglqknechssvktdtntetdfdMSLVKLTRNGLllltfprehspntiNIVSNIFQslgsgslkspvwchrifpiqatCVLKEKELQATVSKLVLQFVNDeqnklsrpvkfavgynrrgfeekqnkipkdtkdsdvsalldrnkCFTIVAAAVKEVVsdsavdlkspelSVLVEllpisglpseLLVVGVsilpqklvttkprlSIRALVSGTNAKNG
Flexible Loop (DISEMBL)
mteekeeeelkpweqhsrvisiPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILhkrlessntagdskrrkvctDDMGGKCADGAEINSIeedsagglqknechssvktdtntetdfdmsLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFvndeqnklsrpvkfavgynrrgfeekqnkipkdtkdsdvsaLLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILpqklvttkprlsiralvsgtnakng
Low Complexity Region (SEG)
MTeekeeeeLKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRLESSNTAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTDTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSIRALVSGTNAKNG
Disordered region (IsUnstruct)
*************************************HSGFLLTCTIK***************************************************************************FDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNR********************ALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSIRAL*********
Disordered Region (DISOPRED)
***********************************RSHSGFLLTCTIKREKSATKEAISILHKRLESSNT*******************************************************MSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVND******R**KFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSI************
Disordered Region (DISEMBL)
**************QHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRLES***************DMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTDTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSIRALVSGTNAKNG
Disordered Region (DISPRO)
********ELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRLES******************************************************TDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEK*********DSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSIRALVS*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTEEKEEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRLESSNTAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTDTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSIRALVSGTNAKNG
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	320
255561747	336	conserved hypothetical protein [Ricinus	0.937	0.892	0.627	1e-105
225424542	337	PREDICTED: uncharacterized protein LOC10	0.993	0.943	0.6	1e-104
356575470	320	PREDICTED: uncharacterized protein LOC10	0.943	0.943	0.583	4e-96
42561854	348	uncharacterized protein [Arabidopsis tha	0.975	0.896	0.564	1e-90
24030215	373	unknown protein [Arabidopsis thaliana]	0.975	0.836	0.564	2e-90
388515009	369	unknown [Lotus japonicus]	0.95	0.823	0.554	3e-90
297849234	348	hypothetical protein ARALYDRAFT_471019 [	0.965	0.887	0.556	8e-88
449487893	345	PREDICTED: uncharacterized protein LOC10	0.937	0.869	0.562	3e-87
283132369	336	hypothetical protein [Lotus japonicus]	0.884	0.842	0.546	2e-83
357136974	359	PREDICTED: uncharacterized protein LOC10	0.959	0.855	0.504	4e-80

>gi|255561747|ref|XP_002521883.1| conserved hypothetical protein [Ricinus communis] gi|223538921|gb|EEF40519.1| conserved hypothetical protein [Ricinus communis]

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 199/317 (62%), Positives = 237/317 (74%), Gaps = 17/317 (5%)

Query: 10  LKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRL---- 65
           +KPWEQH+ +ISIPRFDYN+PS+LL  SHSGFL+TC+IKREKSATKE +SIL K +    
Sbjct: 29  MKPWEQHAAIISIPRFDYNAPSALLHNSHSGFLITCSIKREKSATKEVMSILEKYIGSYT 88

Query: 66  -ESSNTAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTDTNTETDF 124
            +SSN +   KRRK     MGG CA G E   + ED            S +T T  ET F
Sbjct: 89  KDSSNGSQGIKRRKTL---MGGTCAQGMESKDVSEDPD--------QVSEETHTVEETGF 137

Query: 125 DMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLK 184
            +SLVKLTR+GLLLL F  E+SP+   IVSNIFQ + SGSLKSP+WCHRIFPIQATC L 
Sbjct: 138 TLSLVKLTRSGLLLLNFVGENSPDATEIVSNIFQRIESGSLKSPLWCHRIFPIQATCCLD 197

Query: 185 EKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDT-KDSDVSALLD 243
           EKEL+  VSKLVL+F+ND+ NK  RP+K+AVGYNRRG EE Q K  KDT KDS + +LLD
Sbjct: 198 EKELRTVVSKLVLRFINDKANKFERPIKYAVGYNRRGIEETQAKNVKDTSKDSALCSLLD 257

Query: 244 RNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTK 303
           RNKCF +VA+AVK+V+SDSAVDLKSPELS+LVELLP+SG+P+  LV  VS+LPQ LV+ K
Sbjct: 258 RNKCFDVVASAVKDVISDSAVDLKSPELSILVELLPLSGVPNGSLVAAVSVLPQNLVSVK 317

Query: 304 PRLSIRALVSGTNAKNG 320
           PRL I+ LVS  NAK G
Sbjct: 318 PRLCIKPLVSDANAKKG 334

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225424542|ref|XP_002285300.1| PREDICTED: uncharacterized protein LOC100267955 [Vitis vinifera] gi|296081413|emb|CBI16846.3| unnamed protein product [Vitis vinifera]

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/335 (60%), Positives = 246/335 (73%), Gaps = 17/335 (5%)

Query: 1   MTEEKEEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISI 60
           M+EE+ EE +KPWEQHS VISIPRFDYN+PSSLL  SHSGFL+TCTIKREKSATKEA+ I
Sbjct: 1   MSEEEREEGMKPWEQHSAVISIPRFDYNAPSSLLDHSHSGFLVTCTIKREKSATKEAMPI 60

Query: 61  LHKRL-----------ESSNTAGDSKRRKVCTDDMGGKCADGAE----INSIEEDSAGGL 105
           L K +           ESS+    +KRRK+CT+++  +C +  E     N+  ED  G L
Sbjct: 61  LEKYVGSFSSCSSESLESSDANATTKRRKICTEEIDEECVNSVENKTASNNCGED-GGEL 119

Query: 106 QKNECHSSVKTDTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSL 165
            K+   SS   D   E    +SLVKLTR+GLLL  FPR +S +T+++VS I +SL SGS+
Sbjct: 120 SKDAGVSSANRDAIVENGHVLSLVKLTRSGLLLFVFPRNNSVDTVDVVSQIIRSLQSGSV 179

Query: 166 KSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEK 225
           K P+WCHRIFPIQATC L EKEL   V+KLV+QFVN+EQNK +RP+KFAVGYNRRG EE 
Sbjct: 180 KPPLWCHRIFPIQATCRLDEKELHEVVTKLVVQFVNNEQNKFARPIKFAVGYNRRGIEET 239

Query: 226 QNKIPKDT-KDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLP 284
           + KIPK T +D +  ALLDR KCF++VA AVK  VSDS VDLKSPELSVLVELLP+S +P
Sbjct: 240 EMKIPKSTPRDCNSHALLDRKKCFSVVATAVKGAVSDSVVDLKSPELSVLVELLPLSRVP 299

Query: 285 SELLVVGVSILPQKLVTTKPRLSIRALVSGTNAKN 319
           +  +VV VS+LPQ L+TTKPRL I+AL+S T   N
Sbjct: 300 NGSMVVAVSVLPQNLITTKPRLCIKALLSDTKVGN 334

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575470|ref|XP_003555863.1| PREDICTED: uncharacterized protein LOC100797260 [Glycine max]

 Score =  357 bits (916), Expect = 4e-96,   Method: Compositional matrix adjust.
 Identities = 186/319 (58%), Positives = 227/319 (71%), Gaps = 17/319 (5%)

Query: 6   EEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRL 65
           EE+ + PWEQHS VI +PRFDYN+PSSLL+ SHSGFL+TCTIKREKSATKEAISILHK L
Sbjct: 3   EEKGMSPWEQHSAVIKLPRFDYNAPSSLLRNSHSGFLITCTIKREKSATKEAISILHKFL 62

Query: 66  ESSNTAG---------DSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKT 116
            S +             SKRRK+CT D   +C D       E  +A      +  S VK 
Sbjct: 63  GSGHYHTLNNPNEEDTTSKRRKICTQDAAEECFD-------ESPTANSGADGKLSSPVKA 115

Query: 117 DTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFP 176
           +   +   ++SLVKLTRNGLLLLTFP    P+T+ IVSNI Q+L SG++  PVWCHRIFP
Sbjct: 116 EAEKDGIANLSLVKLTRNGLLLLTFPINTHPDTVTIVSNIIQALESGTVSLPVWCHRIFP 175

Query: 177 IQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDS 236
           IQATC L EKELQ  VS LV +F+ D+Q+KL RP+KFAVG+NRRG EE      +++ DS
Sbjct: 176 IQATCNLNEKELQEVVSMLVKKFLADKQDKLERPLKFAVGFNRRGIEE-TTLAKENSNDS 234

Query: 237 DVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILP 296
              +LLDRNKCF +VA+AV  VV DS VDL+SPELSVLVELLP+SG+P   ++V VS+LP
Sbjct: 235 KAFSLLDRNKCFGVVASAVNHVVEDSVVDLRSPELSVLVELLPLSGVPDASIIVAVSVLP 294

Query: 297 QKLVTTKPRLSIRALVSGT 315
           + LV+TKPRL I+AL S T
Sbjct: 295 RNLVSTKPRLCIKALNSNT 313

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42561854|ref|NP_172400.2| uncharacterized protein [Arabidopsis thaliana] gi|14334964|gb|AAK59659.1| unknown protein [Arabidopsis thaliana] gi|332190304|gb|AEE28425.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 183/324 (56%), Positives = 224/324 (69%), Gaps = 12/324 (3%)

Query: 5   KEEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKR 64
           +E E L PWEQHS +ISIPRFDY +PSSLL  SHSGFL+TC IKREKSATKE +SIL K 
Sbjct: 27  EEAETLTPWEQHSSIISIPRFDYKAPSSLLHHSHSGFLVTCNIKREKSATKEVMSILGKY 86

Query: 65  LESSN-------TAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTD 117
           + S +        +  SK++KVC  +       G +   +E D+     +N     +K  
Sbjct: 87  IGSMHEEKPEVLNSTASKKQKVCAQETE---EGGEKTVPLENDALQETGENPNVEDLKL- 142

Query: 118 TNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPI 177
            N E +  MSLVKLT++GLLL TFP E+SPNT NIVS +FQS+ SG+LK+P+WCHRIFP+
Sbjct: 143 ANEEHNSLMSLVKLTKSGLLLFTFPVENSPNTTNIVSRVFQSMESGALKAPIWCHRIFPV 202

Query: 178 QATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSD 237
           QATC L EKEL+ TVSKLV +FVND+ N LS+PVKFA GY RRG EE + KI KD  D  
Sbjct: 203 QATCGLTEKELRETVSKLVQRFVNDKDNTLSKPVKFAAGYQRRGAEETKGKIRKDASDVL 262

Query: 238 VSA-LLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILP 296
           V   LLDR KCF  VAA VK++V DS VDLKSPEL VLVELLP+S + S   V  VS+LP
Sbjct: 263 VQCPLLDRIKCFETVAAGVKDIVPDSVVDLKSPELCVLVELLPLSRISSGSFVAAVSVLP 322

Query: 297 QKLVTTKPRLSIRALVSGTNAKNG 320
            +LV+TKP+L I+ LV  +  K G
Sbjct: 323 HRLVSTKPKLCIKPLVPESKHKKG 346

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24030215|gb|AAN41286.1| unknown protein [Arabidopsis thaliana]

 Score =  338 bits (867), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 183/324 (56%), Positives = 224/324 (69%), Gaps = 12/324 (3%)

Query: 5   KEEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKR 64
           +E E L PWEQHS +ISIPRFDY +PSSLL  SHSGFL+TC IKREKSATKE +SIL K 
Sbjct: 52  EEAETLTPWEQHSSIISIPRFDYKAPSSLLHHSHSGFLVTCNIKREKSATKEVMSILGKY 111

Query: 65  LESSN-------TAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTD 117
           + S +        +  SK++KVC  +       G +   +E D+     +N     +K  
Sbjct: 112 IGSMHEEKPEVLNSTASKKQKVCAQETE---EGGEKTVPLENDALQETGENPNVEDLKL- 167

Query: 118 TNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPI 177
            N E +  MSLVKLT++GLLL TFP E+SPNT NIVS +FQS+ SG+LK+P+WCHRIFP+
Sbjct: 168 ANEEHNSLMSLVKLTKSGLLLFTFPVENSPNTTNIVSRVFQSMESGALKAPIWCHRIFPV 227

Query: 178 QATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSD 237
           QATC L EKEL+ TVSKLV +FVND+ N LS+PVKFA GY RRG EE + KI KD  D  
Sbjct: 228 QATCGLTEKELRETVSKLVQRFVNDKDNTLSKPVKFAAGYQRRGAEETKGKIRKDASDVL 287

Query: 238 VSA-LLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILP 296
           V   LLDR KCF  VAA VK++V DS VDLKSPEL VLVELLP+S + S   V  VS+LP
Sbjct: 288 VQCPLLDRIKCFETVAAGVKDIVPDSVVDLKSPELCVLVELLPLSRISSGSFVAAVSVLP 347

Query: 297 QKLVTTKPRLSIRALVSGTNAKNG 320
            +LV+TKP+L I+ LV  +  K G
Sbjct: 348 HRLVSTKPKLCIKPLVPESKHKKG 371

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388515009|gb|AFK45566.1| unknown [Lotus japonicus]

 Score =  337 bits (865), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 179/323 (55%), Positives = 224/323 (69%), Gaps = 19/323 (5%)

Query: 6   EEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRL 65
           E+  + PWEQHS VI + R+DYN+P+SLL  SHSGFL+TCTIKREKSATKEA+SIL K +
Sbjct: 46  EKAMMTPWEQHSGVIKLSRYDYNTPASLLLHSHSGFLITCTIKREKSATKEALSILEKFV 105

Query: 66  ESSNTAG-----------DSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSV 114
            + N  G             KR +V T D+GG+C D  E  S+ ++S  G    +  S  
Sbjct: 106 GAFNAGGFECSKNPGEYSSFKRMRVDTQDIGGECLDVKETESVTDNSGDG----KVLSPA 161

Query: 115 KTDTNTETDF-DMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHR 173
           K +   +    D+SLVKLTRNGLLL  +P    P+T+NIVSNI QSL SGS   PVWCHR
Sbjct: 162 KAEAEDKDGVTDLSLVKLTRNGLLLFIYPNNMFPDTVNIVSNIIQSLESGSTSLPVWCHR 221

Query: 174 IFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDT 233
           IFPIQATC L EKE Q  VS LV +F+  +Q KL RP+KFAVGYNRRG E+   K  K+ 
Sbjct: 222 IFPIQATCRLNEKEFQEVVSMLVKKFLASKQGKLERPLKFAVGYNRRGIED--TKFAKEN 279

Query: 234 KD-SDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGV 292
            + S+  +LLDRNKCF++VA+AV +VV DS VDL+SPELS+LVELLP+S +P+  LVV V
Sbjct: 280 SNGSNAFSLLDRNKCFSVVASAVNDVVEDSVVDLRSPELSILVELLPLSRVPNGSLVVAV 339

Query: 293 SILPQKLVTTKPRLSIRALVSGT 315
           S LP+ LV+TKPRL ++AL S T
Sbjct: 340 SALPRNLVSTKPRLCVKALTSNT 362

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297849234|ref|XP_002892498.1| hypothetical protein ARALYDRAFT_471019 [Arabidopsis lyrata subsp. lyrata] gi|297338340|gb|EFH68757.1| hypothetical protein ARALYDRAFT_471019 [Arabidopsis lyrata subsp. lyrata]

 Score =  330 bits (845), Expect = 8e-88,   Method: Compositional matrix adjust.
 Identities = 181/325 (55%), Positives = 226/325 (69%), Gaps = 16/325 (4%)

Query: 6   EEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRL 65
           E E L PWEQHS +ISIPRFDY +PSSLL  SHSGFL+TCTIKREKSATKE +SIL K +
Sbjct: 28  EAETLPPWEQHSSIISIPRFDYKAPSSLLHHSHSGFLVTCTIKREKSATKEVMSILAKFI 87

Query: 66  ESSNT-------AGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVK--T 116
            S +        +  SK++K+   ++      G E     ED A  LQ+     +V+   
Sbjct: 88  GSMHEEKPQVLRSTASKKQKLSEQEI----EVGEEKTVPPEDDA--LQETGGDPNVEDLK 141

Query: 117 DTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFP 176
             N E +  MSLVKLT++GLLL TFP E+SP+T NIVS +FQS+ SG+LK+P+WCHRIFP
Sbjct: 142 LANEEHNSLMSLVKLTKSGLLLFTFPIENSPDTTNIVSRVFQSMESGALKAPIWCHRIFP 201

Query: 177 IQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDS 236
           +QATC L EKEL+ TVSKLV +FV+++ N LS+PVKFA GY RRG EE + KI K+  + 
Sbjct: 202 VQATCGLTEKELRETVSKLVQRFVDNKDNTLSKPVKFAAGYQRRGVEETKGKIQKEASEV 261

Query: 237 -DVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL 295
            D   LLDR KCF  VAA VK++V DS VDLKSPEL VLVELLP+S +PS   V  VS+L
Sbjct: 262 LDQCPLLDRIKCFETVAAGVKDIVPDSVVDLKSPELCVLVELLPLSRIPSGSFVAAVSVL 321

Query: 296 PQKLVTTKPRLSIRALVSGTNAKNG 320
           P +LV+TKP+L I+ LV  +  K G
Sbjct: 322 PHRLVSTKPKLCIKPLVPESKHKKG 346

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449487893|ref|XP_004157853.1| PREDICTED: uncharacterized protein LOC101227649 [Cucumis sativus]

 Score =  327 bits (839), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 188/334 (56%), Positives = 228/334 (68%), Gaps = 34/334 (10%)

Query: 4   EKEEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHK 63
           E E + + PWEQHS VISIPRFDYN+PS+LL R  +GFL+TCTIKREKSATKEAISIL K
Sbjct: 28  ETERKMMTPWEQHSAVISIPRFDYNAPSALLHRCQTGFLITCTIKREKSATKEAISILQK 87

Query: 64  RLESSNTAGD-----------SKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHS 112
            ++  N++             SKRRKV  D              ++  S GG    + H+
Sbjct: 88  YVQYFNSSMSETLVVSDENETSKRRKVSED--------------VDHRSVGGESSTDEHA 133

Query: 113 ------SVKTDTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLK 166
                 S K++   E    +SLVKLTR+GLLL TF ++ SP+T+ IV +I QSL + +LK
Sbjct: 134 KETSLISTKSEAKVEKCSPISLVKLTRSGLLLFTFTKDISPDTVYIVKDIMQSLEARTLK 193

Query: 167 SPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQ 226
           S  WCHRIFPIQATC L E +LQ  VSKLVL F+ND+ N LS PVKFA+GYNRRG EE +
Sbjct: 194 SLAWCHRIFPIQATCSLNENDLQGVVSKLVLHFMNDKGNILSHPVKFAIGYNRRGIEETE 253

Query: 227 NKIPKDTKDSD-VSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPS 285
            K  K  +DS  V+ +L R+KCF+IVAAAVK VVSD+ VDLKSPEL VLVELLP+SGLPS
Sbjct: 254 MK--KTFEDSSGVNVILGRDKCFSIVAAAVKGVVSDAIVDLKSPELCVLVELLPVSGLPS 311

Query: 286 ELLVVGVSILPQKLVTTKPRLSIRALVSGTNAKN 319
              VVGVS+L   LVTTKPRL I+AL S T AK+
Sbjct: 312 GSSVVGVSVLSNNLVTTKPRLCIKALTSDTKAKS 345

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|283132369|dbj|BAI63590.1| hypothetical protein [Lotus japonicus]

 Score =  315 bits (806), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 170/311 (54%), Positives = 209/311 (67%), Gaps = 28/311 (9%)

Query: 6   EEEELKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRL 65
           E+  + PWEQHS VI + R+DYN+P+SLL  SHSGFL+TCTIKREKSATKEA+SIL K  
Sbjct: 46  EKAMMTPWEQHSGVIKLSRYDYNAPASLLLHSHSGFLITCTIKREKSATKEALSILEKNC 105

Query: 66  ESSNTAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTDTNTETDFD 125
                 G  K+       M GK    A+  + ++D                        D
Sbjct: 106 R----PGFIKQAWSWALMMAGKVLSPAKAEAEDKDGVT---------------------D 140

Query: 126 MSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKE 185
           +SLVKLTRNGLLL  +P    P+T+NIVSNI QSL SGS   PVWCHRIFPIQATC L E
Sbjct: 141 LSLVKLTRNGLLLFIYPNNMFPDTVNIVSNIIQSLESGSTSLPVWCHRIFPIQATCRLNE 200

Query: 186 KELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKD-SDVSALLDR 244
           KELQ  VS LV +F+  +Q KL RP+KFAVGYNRRG E+   K  K+  + S+  +LLDR
Sbjct: 201 KELQEVVSMLVKKFLASKQGKLERPLKFAVGYNRRGIED--TKFAKENSNGSNAFSLLDR 258

Query: 245 NKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKP 304
           NKCF++VA+AV +VV DS VDL+SPELS+LVELLP+S +P+  LVV VS LP+ LV+TKP
Sbjct: 259 NKCFSVVASAVNDVVEDSVVDLRSPELSILVELLPLSRVPNGSLVVAVSALPRNLVSTKP 318

Query: 305 RLSIRALVSGT 315
           RL ++AL S T
Sbjct: 319 RLCVKALTSNT 329

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357136974|ref|XP_003570077.1| PREDICTED: uncharacterized protein LOC100839515 isoform 1 [Brachypodium distachyon]

 Score =  304 bits (778), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 163/323 (50%), Positives = 217/323 (67%), Gaps = 16/323 (4%)

Query: 10  LKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRLESSN 69
           L+PWEQH+ VI++PR+DY +  SLL RSHSGFL+TC IKREKSATKEAISIL + +  ++
Sbjct: 37  LQPWEQHAAVINLPRYDYRASRSLLLRSHSGFLITCPIKREKSATKEAISILGEYINPAS 96

Query: 70  TAGD-----------SKRRKVCTDDMGGKCADGAEINSIEE--DSAGGLQKNECHSSVKT 116
           +              SK+RK C++  G + ++ A  N  ++  +S G ++        KT
Sbjct: 97  SHSSENLEPCVIEVASKKRKTCSEASGIENSEDAVTNGKDDASESTGCIEVETSSLHSKT 156

Query: 117 DTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFP 176
               +   ++SLVKL R+GLL  +F      + + +++ +F SL SG LKSP WCHRIFP
Sbjct: 157 SEIIDRTSNLSLVKLARSGLLFFSF-TSGGLHVVQMLTEVFHSLRSGKLKSPQWCHRIFP 215

Query: 177 IQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDS 236
           IQ TCVL E EL ATVSKL L F+ +++++   P+KFAVGYNRRG +E   K  K+  DS
Sbjct: 216 IQETCVLSETELHATVSKLFLDFLRNKEDQY-EPIKFAVGYNRRGIDETVTKTQKNDNDS 274

Query: 237 DVS-ALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL 295
            +  A++DR KCF +VAAA+K V  D+ VDLKSPE++VLVELLPISG+P    V GVS+L
Sbjct: 275 SIQQAVMDREKCFKVVAAAIKSVAEDAIVDLKSPEVAVLVELLPISGVPIGSSVAGVSVL 334

Query: 296 PQKLVTTKPRLSIRALVSGTNAK 318
           P +LV TKPRL IRALVS T AK
Sbjct: 335 PAELVATKPRLCIRALVSDTKAK 357

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	320
TAIR|locus:2203033	348	AT1G09290 "AT1G09290" [Arabido	0.959	0.882	0.567	4.4e-84

TAIR|locus:2203033 AT1G09290 "AT1G09290" [Arabidopsis thaliana (taxid:3702)]

 Score = 842 (301.5 bits), Expect = 4.4e-84, P = 4.4e-84
 Identities = 181/319 (56%), Positives = 221/319 (69%)

Query:    10 LKPWEQHSRVISIPRFDYNSPSSLLQRSHSGFLLTCTIKREKSATKEAISILHKRLESSN 69
             L PWEQHS +ISIPRFDY +PSSLL  SHSGFL+TC IKREKSATKE +SIL K + S +
Sbjct:    32 LTPWEQHSSIISIPRFDYKAPSSLLHHSHSGFLVTCNIKREKSATKEVMSILGKYIGSMH 91

Query:    70 -------TAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKNECHSSVKTDTNTET 122
                     +  SK++KVC  +       G +   +E D+     +N     +K   N E 
Sbjct:    92 EEKPEVLNSTASKKQKVCAQETE---EGGEKTVPLENDALQETGENPNVEDLKL-ANEEH 147

Query:   123 DFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCV 182
             +  MSLVKLT++GLLL TFP E+SPNT NIVS +FQS+ SG+LK+P+WCHRIFP+QATC 
Sbjct:   148 NSLMSLVKLTKSGLLLFTFPVENSPNTTNIVSRVFQSMESGALKAPIWCHRIFPVQATCG 207

Query:   183 LKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSA-L 241
             L EKEL+ TVSKLV +FVND+ N LS+PVKFA GY RRG EE + KI KD  D  V   L
Sbjct:   208 LTEKELRETVSKLVQRFVNDKDNTLSKPVKFAAGYQRRGAEETKGKIRKDASDVLVQCPL 267

Query:   242 LDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVT 301
             LDR KCF  VAA VK++V DS VDLKSPEL VLVELLP+S + S   V  VS+LP +LV+
Sbjct:   268 LDRIKCFETVAAGVKDIVPDSVVDLKSPELCVLVELLPLSRISSGSFVAAVSVLPHRLVS 327

Query:   302 TKPRLSIRALVSGTNAKNG 320
             TKP+L I+ LV  +  K G
Sbjct:   328 TKPKLCIKPLVPESKHKKG 346


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        0.314   0.130   0.366    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      320       313   0.00081  116 3  11 23  0.44    34
                                                     33  0.45    37


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:  1
  No. of states in DFA:  598 (64 KB)
  Total size of DFA:  195 KB (2111 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:  27.13u 0.14s 27.27t   Elapsed:  00:00:01
  Total cpu time:  27.13u 0.14s 27.27t   Elapsed:  00:00:01
  Start:  Fri May 10 13:06:47 2013   End:  Fri May 10 13:06:48 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

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

Fail to connect to STRING server

---

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	320
cd11717	158	cd11717, THUMP_THUMPD1_like, THUMP domain-containi	5e-13
COG1818	175	COG1818, COG1818, Predicted RNA-binding protein, c	0.003

>gnl|CDD|212586 cd11717, THUMP_THUMPD1_like, THUMP domain-containing protein 1-like

 Score = 65.7 bits (161), Expect = 5e-13
 Identities = 35/168 (20%), Positives = 64/168 (38%), Gaps = 34/168 (20%)

Query: 129 VKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKEL 188
           V+     ++ +       P  + +V  IF+   S   K   +  R+ PI  TC    +E+
Sbjct: 25  VETGVKNVVFIKTRPPVDP--VELVEKIFEDAASTKKKRTRFIQRLIPIDVTCKASLEEI 82

Query: 189 QATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCF 248
           +    +L+ +     +     P  FAV    R      NK+ +D                
Sbjct: 83  EKLAKELLKKHFPTAE----PPKTFAVECKSRNN----NKLSRD---------------- 118

Query: 249 TIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILP 296
            ++ A  + V     VDLK+P+  +LVE++          V G+S++ 
Sbjct: 119 EVIKAVAELVPEIHKVDLKNPDKVILVEVIK--------NVCGISVVK 158

This family contains THUMP domain-only proteins including THUMP domain-containing protein 1 and Saccharomyces cerevisiae Tan1. Tan1 is non essential and has been shown to be required for the formation of the modified nucleoside N(4)-acetylcytidine (ac(4)C) in tRNA. To date, there is no functional information available about THUMPD1. The THUMP domain is named after thiouridine synthases, methylases and PSUSs. The domain consists of about 110 amino acid residues. It is predicted to be an RNA-binding domain and probably functions by delivering a variety of RNA modification enzymes to their targets. Length = 158

>gnl|CDD|224731 COG1818, COG1818, Predicted RNA-binding protein, contains THUMP domain [General function prediction only]

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 31/127 (24%), Positives = 47/127 (37%), Gaps = 29/127 (22%)

Query: 165 LKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEE 224
           LK      R+ P++        E++   ++L        + K+     FAV   RRG   
Sbjct: 55  LKEVPEVERVIPVEIEVETDLDEIEEAAAELA-------EEKIKEGKTFAVRTKRRG--- 104

Query: 225 KQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELL----PI 280
                       D ++         +V  AVK+      VDL+ P+  V VE+L     I
Sbjct: 105 ----------KHDFTSR----DVEVVVGEAVKKATGAE-VDLEDPDKVVWVEVLGDRAGI 149

Query: 281 SGLPSEL 287
           S LP E 
Sbjct: 150 SVLPGEK 156

Length = 175

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	320
KOG3943	291	consensus THUMP domain-containing proteins [Genera	100.0
PF02926	144	THUMP: THUMP domain; InterPro: IPR004114 The THUMP	99.58
COG1818	175	Predicted RNA-binding protein, contains THUMP doma	99.49
PRK01565	394	thiamine biosynthesis protein ThiI; Provisional	98.47
PRK01269	482	tRNA s(4)U8 sulfurtransferase; Provisional	98.22
PRK08384	381	thiamine biosynthesis protein ThiI; Provisional	98.18
COG0301	383	ThiI Thiamine biosynthesis ATP pyrophosphatase [Co	97.91
TIGR00342	371	thiazole biosynthesis/tRNA modification protein Th	97.8
TIGR01177	329	conserved hypothetical protein TIGR01177. This fam	93.34
COG0116	381	Predicted N6-adenine-specific DNA methylase [DNA r	90.11
PRK11783	702	rlmL 23S rRNA m(2)G2445 methyltransferase; Provisi	87.74

>KOG3943 consensus THUMP domain-containing proteins [General function prediction only]

Probab=100.00  E-value=8.5e-47  Score=340.65  Aligned_cols=239  Identities=20%  Similarity=0.311  Sum_probs=187.0

Q ss_pred             CCCCCCCceEEEEcCCChhhHHHHHHHHHHHHhhhcc--CCCCCcccccccccCCCCCCCCCCcccChhhhhhhHHhhh-
Q 020866           32 SLLQRSHSGFLLTCTIKREKSATKEAISILHKRLESS--NTAGDSKRRKVCTDDMGGKCADGAEINSIEEDSAGGLQKN-  108 (320)
Q Consensus        32 ~~l~~g~~G~lvTC~~~rEk~A~~E~~~lL~e~~d~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~~~~i~kEl~-  108 (320)
                      ..|+||.+|||+||+ ++||||++|||.||+|.....  +++....+++.   +.|.|+.+.+    .|.+ +-..|+. 
T Consensus        37 ~~lepG~~Gi~~tC~-~HErQA~QEaysl~~ElygD~~~G~~~~~~~E~a---p~gsE~~~~~----aeaE-lkdEe~gd  107 (291)
T KOG3943|consen   37 RQLEPGLQGILITCN-MHERQAVQEAYSLLNELYGDDMYGPEKFTDKEQA---PSGSEGEDDD----AEAE-LKDEEVGD  107 (291)
T ss_pred             cccCCCcceEEEEcc-chHHHHHHHHHHHHHHHhcCcccCchhccCcccC---CCCCcCCCCh----HHHh-hhhhhhHH
Confidence            379999999999999 599999999999999986554  33321111100   1111111111    1111 0001111 


Q ss_pred             hcccCCCCCCCCCCccccceeecCCcceEEEEccCCCCCCHHHHHHHHHHHHcC--CCCCCCceEEeeeeeeeeeecCHH
Q 020866          109 ECHSSVKTDTNTETDFDMSLVKLTRNGLLLLTFPREHSPNTINIVSNIFQSLGS--GSLKSPVWCHRIFPIQATCVLKEK  186 (320)
Q Consensus       109 elk~~~kr~~~~~~~~~f~~v~~~~~gv~fi~f~~~~~~dP~~lv~~I~~d~~~--~~~~~tR~i~RliPI~~tc~a~~~  186 (320)
                      +|++..     .++...|++|+++|+|+.||+  +..++-|.++|+.|++++.+  ++.++|||+|||+||+.||.|.++
T Consensus       108 dLk~~~-----~~~~~P~~Fv~~~~~Cv~f~~--t~KniVpe~~v~~i~~dm~elk~k~kRtR~~Qr~~Pi~~tc~a~le  180 (291)
T KOG3943|consen  108 DLKAST-----EMRLRPFQFVESGANCVVFIR--TLKNIVPEKLVHHILQDMYELKTKKKRTRVIQRMLPISGTCKAFLE  180 (291)
T ss_pred             HHhhhh-----hhhcCchhhhhccCceEEeec--ccCccCchHHHHHHHHHHHhhhccchhhhhhhhhccccchHHhhHH
Confidence            233222     111222999999999999999  88899999999999999965  557899999999999999999999


Q ss_pred             HHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcCCCceeeC
Q 020866          187 ELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDL  266 (320)
Q Consensus       187 ~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~~~hkVdL  266 (320)
                      .|.+++..+|.+||+..  ...+..||+|+|++||++                 ++.|++||++|+.+|.-.++..+|||
T Consensus       181 ~m~k~a~~VI~p~fkap--~tgK~~tf~VE~k~RNn~-----------------~v~r~~vi~~V~~~Vc~l~se~~VdL  241 (291)
T KOG3943|consen  181 DMKKYAETVIEPWFKAP--NTGKKGTFQVEYKSRNNS-----------------HVNREEVIREVAGIVCTLNSENKVDL  241 (291)
T ss_pred             HHHHHHHHhhcccccCC--CCCcCceEEEEEEecccc-----------------chhHHHHHHHHHHHHHhcCccceeec
Confidence            99999999999999863  335888999999999987                 99999999999999998888999999


Q ss_pred             CCCCeEEEEEEeeCCCCCCCceEEEEEeeCCCccccccceeeeeccCCC
Q 020866          267 KSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPRLSIRALVSGT  315 (320)
Q Consensus       267 knPd~vIlVEV~k~~~~~~~~~vcgiSVv~~y~~~~K~~l~~~~l~~~~  315 (320)
                      +|||++|+|||++  .      +.|||||++|+-++||||  ++++.-+
T Consensus       242 ~n~D~t~~Ve~~k--s------~I~~~Vv~dy~~~RKYnl--q~~~~s~  280 (291)
T KOG3943|consen  242 TNPDYTVVVEIIK--A------VICLSVVKDYMLFRKYNL--QEVVKSP  280 (291)
T ss_pred             cCCCeEEEEEeee--c------eeeeeehHHHHHHHHhhH--HHhhccc
Confidence            9999999999999  7      899999999999999997  6665433

>PF02926 THUMP: THUMP domain; InterPro: IPR004114 The THUMP domain is shared by 4-thiouridine, pseudouridine synthases and RNA methylases[] and is probably an RNA-binding domain that adopts an alpha/beta fold similar to that found in the C-terminal domain of translation initiation factor 3 and ribosomal protein S8

Probab=99.58  E-value=1e-14  Score=123.03  Aligned_cols=123  Identities=24%  Similarity=0.284  Sum_probs=97.6

Q ss_pred             ceEEEEccCCCCCCHHHHHHHHHHHHcCCCCCCCceEEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEE
Q 020866          135 GLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFA  214 (320)
Q Consensus       135 gv~fi~f~~~~~~dP~~lv~~I~~d~~~~~~~~tR~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfa  214 (320)
                      +.+++......+....+.+...+..+        ++++|++|++..|.+++++|.+.+..++..++..      ...||+
T Consensus        22 ~~i~i~~~~~~~~~~~~~~~~~~~~~--------~~~~ri~p~~~~~~~~~~~i~~~~~~~~~~~~~~------~~~tF~   87 (144)
T PF02926_consen   22 GRILIDVGGEDPEGDSEEIYRALEKL--------RGISRIIPICRFCEADLEEIKEKAKELLWEKFIK------EDKTFA   87 (144)
T ss_dssp             CEEEEETTEEEEEEHHHHHHHHHHHS--------SSESEEEEEEEEEESSHHHHHHHHHCSHGGGHSH------TTSEEE
T ss_pred             CEEEEEeCCccccCCHHHHHHHHhcc--------cceeEEEEEEEEcCCCHHHHHHHHHHHHHHHhCC------CCCEEE
Confidence            44555522222333555555555543        5999999999999999999999999999999863      233999


Q ss_pred             EEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcCCCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEe
Q 020866          215 VGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSI  294 (320)
Q Consensus       215 I~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSV  294 (320)
                      |.+++|++.                ..++++++.+.|+++|.+..+ ++|||+|||++|.||+++  +      .|+|||
T Consensus        88 V~~~r~~~~----------------~~~~s~ei~~~vg~~i~~~~~-~~Vdl~~Pd~~i~Vev~~--~------~~~i~i  142 (144)
T PF02926_consen   88 VRCRRRGKH----------------FPFTSMEIEREVGDAIKEKGG-PKVDLKNPDVVIHVEVRK--D------KCYISI  142 (144)
T ss_dssp             EEEEEESSS----------------SSSCHHHHHHHHHHHHHHHHH-TEE-SSSSSEEEEEEEET--T------EEEEEE
T ss_pred             EEEEEcCCc----------------cccCHHHHHHHHHHHHHHHhC-CCccCcCcCEEEEEEEEC--C------EEEEEE
Confidence            999999953                269999999999999986533 899999999999999999  8      999999


Q ss_pred             eC
Q 020866          295 LP  296 (320)
Q Consensus       295 v~  296 (320)
                      ++
T Consensus       143 ~~  144 (144)
T PF02926_consen  143 DT  144 (144)
T ss_dssp             ES
T ss_pred             eC
Confidence            75

The THUMP domain probably functions by delivering a variety of RNA modification enzymes to their targets []. This domain is found in the thiamine biosynthesis proteins (ThiI) (see IPR003720 from INTERPRO).; PDB: 3TLJ_A 3TM5_B 3TM4_A 2DIR_A 3TMA_A 1VBK_B 3K0B_A 2C5S_A 3LDU_A 3V8V_B ....

>COG1818 Predicted RNA-binding protein, contains THUMP domain [General function prediction only]

Probab=99.49  E-value=5.2e-13  Score=118.29  Aligned_cols=107  Identities=26%  Similarity=0.375  Sum_probs=90.7

Q ss_pred             CCCceEEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChh
Q 020866          166 KSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRN  245 (320)
Q Consensus       166 ~~tR~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~  245 (320)
                      ...-++.|++|+...|.+++++|.+.+..++..+.       .+..||||..++|+.-                 .++..
T Consensus        56 ~~~~~~~rv~pv~~~~~~dldeI~~~~~~l~~~~i-------~~~~tFaVr~~rRG~~-----------------~f~s~  111 (175)
T COG1818          56 KEVPEVERVIPVEIEVETDLDEIEEAAAELAEEKI-------KEGKTFAVRTKRRGKH-----------------DFTSR  111 (175)
T ss_pred             cCCCceeeEEEEEeeccCCHHHHHHHHHHHHhccc-------CCCCeEEEEEeecCCC-----------------Ccccc
Confidence            34578999999999999999999999999999865       3778999999999932                 56666


Q ss_pred             HHHHHHHHhhhhcCCCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEeeCCCccccccc
Q 020866          246 KCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVTTKPR  305 (320)
Q Consensus       246 ~vI~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv~~y~~~~K~~  305 (320)
                      ++--.+...|.. ..+..|||++||++|-|||++  .      .+||||+++-...+|+.
T Consensus       112 ~~~v~vg~~v~~-~tg~~VdL~~Pd~vv~Vevl~--~------~a~Isv~~~~~e~~k~~  162 (175)
T COG1818         112 DVEVVVGEAVKK-ATGAEVDLEDPDKVVWVEVLG--D------RAGISVLPGEKEEKKIK  162 (175)
T ss_pred             ceeehhHHHHHH-HhCCcccCCCCCEEEEEEEec--C------cceEEEeCchhhhhhcc
Confidence            666666666654 258999999999999999999  8      89999999987777754

>PRK01565 thiamine biosynthesis protein ThiI; Provisional

Probab=98.47  E-value=1.3e-06  Score=86.89  Aligned_cols=110  Identities=14%  Similarity=0.185  Sum_probs=82.2

Q ss_pred             cceEEEEccCCCCCCHHHHHHHHHHHHcCCCCCCCceEEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceE
Q 020866          134 NGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKF  213 (320)
Q Consensus       134 ~gv~fi~f~~~~~~dP~~lv~~I~~d~~~~~~~~tR~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tf  213 (320)
                      .|-+||..   ...++.++.+. +..        .==|..+.|+.. |..++++|.+.+..++..+..       +..||
T Consensus        46 ~~r~~v~~---~~~~~~~~~~~-l~~--------vfGI~~~s~~~~-~~~~~e~I~~~~~~~~~~~~~-------~~~tF  105 (394)
T PRK01565         46 RDRMYIEL---NGEDYEEVIER-LKK--------VFGIQSFSPVYK-VEKDLEAIKEAALELLKEVYK-------EGKTF  105 (394)
T ss_pred             CCEEEEEe---CCcCHHHHHHH-Hhh--------CCCcceEEEEEE-ECCCHHHHHHHHHHHHHhhcc-------CCCcE
Confidence            46777773   22355554432 222        223566778874 789999999999999887642       45699


Q ss_pred             EEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcCCCceeeCCCCCeEEEEEEee
Q 020866          214 AVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLP  279 (320)
Q Consensus       214 aI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k  279 (320)
                      +|..++++..                =.++..++-..|++.|.+..++.+|||+|||++|.|||.+
T Consensus       106 ~Vr~rR~~k~----------------f~~tS~ei~r~vG~~I~~~~~~~~VdL~nPd~~i~vei~~  155 (394)
T PRK01565        106 KVEARRSDKS----------------FPLDSMELNRELGAYILENFPNLKVDVKNPDVTLRVEVRK  155 (394)
T ss_pred             EEEEEECCCC----------------CCCChHHHHHHHHHHHHhhCCCCcccccCCCeEEEEEEEc
Confidence            9999998731                1589999999999999865445899999999999999986

>PRK01269 tRNA s(4)U8 sulfurtransferase; Provisional

Probab=98.22  E-value=1e-05  Score=82.40  Aligned_cols=85  Identities=18%  Similarity=0.250  Sum_probs=73.0

Q ss_pred             eEEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHH
Q 020866          170 WCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFT  249 (320)
Q Consensus       170 ~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~  249 (320)
                      =++++.|+..++..++++|.+.+..++..++.        ..||+|..++++..                 .++..++-.
T Consensus        72 Gi~~~~~v~~~~~~~~e~I~~~a~~~~~~~~~--------~~tF~VrarR~~k~-----------------~~~S~ei~r  126 (482)
T PRK01269         72 GIHHFLEVEEYPFTDLHDIFEKALALYREQLE--------GKTFCVRVKRRGKH-----------------DFTSIDVER  126 (482)
T ss_pred             CceEEEEEEEECCCCHHHHHHHHHHHHHHhcC--------CCeEEEEEEeCCCC-----------------CCChHHHHH
Confidence            46788999998889999999999999888762        34999999998754                 789999999


Q ss_pred             HHHHhhhhcCCCceeeCCCCCeEEEEEEee
Q 020866          250 IVAAAVKEVVSDSAVDLKSPELSVLVELLP  279 (320)
Q Consensus       250 ~VA~~V~~~~~~hkVdLknPd~vIlVEV~k  279 (320)
                      .|++.+.+...+.+|||+|||++|.|||.+
T Consensus       127 ~vG~~I~~~~~~~~VdL~nPD~~i~VeI~~  156 (482)
T PRK01269        127 YVGGGLNQHIESAGVDLKNPDVTVHLEIRD  156 (482)
T ss_pred             HHHHHHHHhCCCCceeCCCCCEEEEEEEEC
Confidence            999999644346799999999999999987

>PRK08384 thiamine biosynthesis protein ThiI; Provisional

Probab=98.18  E-value=2.1e-05  Score=78.05  Aligned_cols=88  Identities=22%  Similarity=0.170  Sum_probs=69.6

Q ss_pred             EEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHH
Q 020866          171 CHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTI  250 (320)
Q Consensus       171 i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~  250 (320)
                      |..+.|+.. |..++++|.+.+..++..+.....   ....||+|..++.+.+                -.++..|+-..
T Consensus        72 I~~~s~~~~-~~~~~~~i~~~~~~~~~~~~~~~~---~~~~tF~V~~rR~~k~----------------f~~tS~ei~~~  131 (381)
T PRK08384         72 IVSLSPAME-IDAELEKINRTALKLFRRKKRELE---LEKPRFRVTARRITKE----------------FPLKSPEIQAK  131 (381)
T ss_pred             ceeEEEEEE-eCCCHHHHHHHHHHHHHHhhhccc---ccCCeEEEEEEeCCCC----------------CCCChHHHHHH
Confidence            455666654 557899999999999998864210   1346999999998731                17999999999


Q ss_pred             HHHhhhhcCCCceeeCCCCCeEEEEEEee
Q 020866          251 VAAAVKEVVSDSAVDLKSPELSVLVELLP  279 (320)
Q Consensus       251 VA~~V~~~~~~hkVdLknPd~vIlVEV~k  279 (320)
                      |++.|... ++.+|||+|||++|.|||-+
T Consensus       132 vG~~i~~~-~~~~Vdl~~Pd~~i~vEir~  159 (381)
T PRK08384        132 VGEYILEN-EESEVDLHNYDIEVGVELME  159 (381)
T ss_pred             HHHHHHhc-CCCCccCcCCCEEEEEEEEe
Confidence            99999754 46899999999999999976

>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]

Probab=97.91  E-value=9.5e-05  Score=73.16  Aligned_cols=101  Identities=20%  Similarity=0.199  Sum_probs=75.2

Q ss_pred             EEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHH
Q 020866          171 CHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTI  250 (320)
Q Consensus       171 i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~  250 (320)
                      |+-+.|+.. |..+++++..++..++.....       +..||+|..++++.+                =.++..+|-..
T Consensus        70 I~s~sp~~~-v~~~~~~i~~~~~~~~~~~~~-------~g~tF~V~arR~~k~----------------f~~~S~ev~~~  125 (383)
T COG0301          70 IVSFSPAME-VEASLEEIIKAALLALRRKYK-------EGKTFKVRARRAGKE----------------FPFTSLEVNRY  125 (383)
T ss_pred             cceeceeEE-ecCCcHHHHHHHHHHHHHhhh-------cCCeEEEEEEeCCCC----------------CCCCHHHHHHH
Confidence            445556654 677777887777777776653       455999999999862                17999999999


Q ss_pred             HHHhhhhcCCCceeeCCCCCeEEEEEEee------------CCCCCCCceEEEEEee
Q 020866          251 VAAAVKEVVSDSAVDLKSPELSVLVELLP------------ISGLPSELLVVGVSIL  295 (320)
Q Consensus       251 VA~~V~~~~~~hkVdLknPd~vIlVEV~k------------~~~~~~~~~vcgiSVv  295 (320)
                      |++.|-......+|||+|||++|.|||-.            ..|+|.|++-=+|+.|
T Consensus       126 vG~~i~~~~~~~~Vdl~~Pdv~i~iEIr~~~ayi~~~~~~G~GGLPvGt~Gk~l~Ll  182 (383)
T COG0301         126 VGEAILENIESAGVDLKNPDVEIHIEIREDKAYIYTERIKGPGGLPVGTQGKVLLLL  182 (383)
T ss_pred             HHHHHHhhcccceeecCCCCeEEEEEEecCeEEEEEeeeccCCCCccccCCcEEEEE
Confidence            99999765467899999999999999984            1456666444444444

>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI

Probab=97.80  E-value=0.00016  Score=71.41  Aligned_cols=81  Identities=25%  Similarity=0.331  Sum_probs=64.0

Q ss_pred             eeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHH
Q 020866          173 RIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVA  252 (320)
Q Consensus       173 RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA  252 (320)
                      .+-|+. .|..++++|. .+..++..+..       ...||+|+.++++.+                -+++..++-..|+
T Consensus        71 ~~s~~~-~~~~~~~~i~-~~~~~~~~~~~-------~~~tF~Vr~kR~~k~----------------f~~~S~ei~r~~G  125 (371)
T TIGR00342        71 SFSPAF-KCDLPFDEIH-ILLKALKQLRK-------EGKTFKVRTKRRGKD----------------FPLNSVEVNKYVG  125 (371)
T ss_pred             EEEEEE-EECCCHHHHH-HHHHHHHHhhc-------cCCcEEEEEEECCCC----------------CCCChHHHHHHHH
Confidence            344444 4678899999 88888887653       345999999998731                2577999999999


Q ss_pred             HhhhhcCCCceeeCCCCCeEEEEEEee
Q 020866          253 AAVKEVVSDSAVDLKSPELSVLVELLP  279 (320)
Q Consensus       253 ~~V~~~~~~hkVdLknPd~vIlVEV~k  279 (320)
                      +.|... .+.+|||+|||++|.|||.+
T Consensus       126 ~~i~~~-~~~~VdL~nPd~~i~vei~~  151 (371)
T TIGR00342       126 GGIVEK-IGLKVDLTNPDITVHIEIRE  151 (371)
T ss_pred             HHHHHH-cCCcccccCCCEEEEEEEEC
Confidence            999754 34899999999999999987

The protein product of the thiI gene is required for the synthesis of the thiazole moiety in thiamine biosynthesis. It also acts in the generation of 4-thiouridine in tRNA, and may occur in species (such as Mycoplasma genitalium) that lack de novo thiamine biosynthesis.

>TIGR01177 conserved hypothetical protein TIGR01177

Probab=93.34  E-value=0.48  Score=45.84  Aligned_cols=81  Identities=19%  Similarity=0.137  Sum_probs=56.2

Q ss_pred             eeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcC
Q 020866          180 TCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVV  259 (320)
Q Consensus       180 tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~  259 (320)
                      .|..+.+++.+.+..+--..+        ...+|+|..+..+..                 ..++..+-+.+++.+... 
T Consensus        61 ~~~~~~~~l~~~~~~~~~~~~--------~~~sf~v~~~~~~~~-----------------~~~~~~~~~~ig~~i~~~-  114 (329)
T TIGR01177        61 YDTCAAKDLYDFVAGLEASDL--------DRKSFAVRVRDLRGY-----------------SVDKARLERKIGAILKKK-  114 (329)
T ss_pred             hcCCCHHHHHHHHhhcchhhc--------cCCeEEEEEEecCCC-----------------CCCHHHHHHHHHHHHHhc-
Confidence            344566777777665432222        125999999887743                 466666667788888642 


Q ss_pred             CCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEee
Q 020866          260 SDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL  295 (320)
Q Consensus       260 ~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv  295 (320)
                       +.+|||++||+.|.|.+.+  +      .|-+|..
T Consensus       115 -g~~v~l~~Pd~~i~v~~~~--~------~~~~g~~  141 (329)
T TIGR01177       115 -GFKVSLRRPDIVVRVVITE--D------IFYLGRV  141 (329)
T ss_pred             -CCccccCCCCeEEEEEEEC--C------eEEEEEE
Confidence             3599999999999999988  6      6666664

This family is found exclusively in the Archaea.

>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]

Probab=90.11  E-value=1.5  Score=43.82  Aligned_cols=96  Identities=21%  Similarity=0.240  Sum_probs=63.2

Q ss_pred             ceEEeeeeeeeeeecC-HHHHHHHHHHH-HHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhH
Q 020866          169 VWCHRIFPIQATCVLK-EKELQATVSKL-VLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNK  246 (320)
Q Consensus       169 R~i~RliPI~~tc~a~-~~~i~~~~~~l-l~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~  246 (320)
                      |-..|+.=+-..|++. .++|-..+..+ ...||+       +..||+|.++.-+..                 ..+..+
T Consensus        54 Rta~Ri~i~l~~fk~~~~~dly~~v~~i~w~~~~~-------~~~tf~V~~~~~~~~-----------------~~~s~~  109 (381)
T COG0116          54 RTASRILLPLGEFKAETLDDLYEAVKAINWEEYFP-------EGATFAVRFRGVGSH-----------------LFTSPD  109 (381)
T ss_pred             HHHHhhheeeeeeeeCCHHHHHHHhhcCCHHHhCC-------CCCEEEEEEEeccCC-----------------ccccHH
Confidence            5555655444555544 88887777665 777885       567999996644422                 344445


Q ss_pred             HHHHHHHhhhh-----cCCCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEeeC
Q 020866          247 CFTIVAAAVKE-----VVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILP  296 (320)
Q Consensus       247 vI~~VA~~V~~-----~~~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv~  296 (320)
                      +=..|-++|-+     ....-.||+..||+.|-|++.+  +      .|-|+|--
T Consensus       110 ~a~~vkdAIvd~~~~~~~~r~~v~~~~Pdv~i~v~l~~--~------~~~l~iDt  156 (381)
T COG0116         110 IARIVKDAIVDRFRRKYGRRPSVDLDGPDVRINVELDK--D------TATLGIDT  156 (381)
T ss_pred             HHHHHHHHHHHHHhhccCCCCCccccCCCeEEEEEEEc--C------EEEEEEeC
Confidence            55445445432     1122389999999999999999  8      78777753

>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional

Probab=87.74  E-value=13  Score=40.05  Aligned_cols=99  Identities=13%  Similarity=0.136  Sum_probs=57.9

Q ss_pred             CCceEEeeeeeeeeeecCHHHHHHHHHHH-HHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChh
Q 020866          167 SPVWCHRIFPIQATCVLKEKELQATVSKL-VLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRN  245 (320)
Q Consensus       167 ~tR~i~RliPI~~tc~a~~~~i~~~~~~l-l~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~  245 (320)
                      .+|-+.+|-....   .+.++|...+..+ ...||+       ...+|+|....++..-             ..+.+.-.
T Consensus        54 A~RVll~l~~f~a---~~~~~Ly~~v~~i~W~~~l~-------~~~tf~V~~~~~~s~l-------------~~~~~~~~  110 (702)
T PRK11783         54 ASRILLPLAEFKV---YSDLDLYLGVQAIDWTEHFS-------PDKTFAVDFSGTNDEI-------------RNTQFGAL  110 (702)
T ss_pred             hhheEEEeeeeec---CCHHHHHHHHHcCCHHHhCC-------CCCeEEEEEEEecCCc-------------cCcHHHHH
Confidence            4566666544332   2678888777664 333443       4459999988766310             00011112


Q ss_pred             HHHHHHHHhhhhcC-CCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEeeC
Q 020866          246 KCFTIVAAAVKEVV-SDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILP  296 (320)
Q Consensus       246 ~vI~~VA~~V~~~~-~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv~  296 (320)
                      .|-++|.+.+.... ..-+||+++||+.|.|.+.+  +      -|.||+=-
T Consensus       111 ~vKdAI~d~~~~~~~~rp~vd~~~pdv~i~~~~~~--~------~~~l~ld~  154 (702)
T PRK11783        111 KVKDAIVDRFRRKGGPRPSVDKEQPDIRINARLNK--G------EATISLDL  154 (702)
T ss_pred             HHHHHHHHHHHHhcCCCCCCCCCCCCEEEEEEEeC--C------EEEEEEEC
Confidence            33334444443211 12369999999999999999  8      78887753

---

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	320
2dir_A	98	Thump domain-containing protein 1; structural geno	1e-09

>2dir_A Thump domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.308.1.3 Length = 98

 Score = 53.7 bits (129), Expect = 1e-09
 Identities = 16/119 (13%), Positives = 41/119 (34%), Gaps = 30/119 (25%)

Query: 179 ATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDV 238
           ++     ++++      +  +             F + Y  R                  
Sbjct: 5   SSGKAFLEDMKKYAETFLEPWFKAPN-----KGTFQIVYKSRNNSH-------------- 45

Query: 239 SALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQ 297
              ++R +    +A  V  + S++ VDL +P+ +V+VE++          V  +S++  
Sbjct: 46  ---VNREEVIRELAGIVCTLNSENKVDLTNPQYTVVVEIIKA--------VCCLSVVKS 93

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	320
2dir_A	98	Thump domain-containing protein 1; structural geno	99.77
1vbk_A	307	Hypothetical protein PH1313; structural genomics,	98.38
2c5s_A	413	THII, probable thiamine biosynthesis protein THII;	98.23
3tma_A	354	Methyltransferase; thump domain; 2.05A {Thermus th	95.96
3k0b_A	393	Predicted N6-adenine-specific DNA methylase; methy	95.69
3ldg_A	384	Putative uncharacterized protein SMU.472; YPSC, me	94.88
3v97_A	703	Ribosomal RNA large subunit methyltransferase L; Y	94.86
3tm4_A	373	TRNA (guanine N2-)-methyltransferase TRM14; rossma	93.97
3ldu_A	385	Putative methylase; structural genomics, PSI-2, pr	93.31

>2dir_A Thump domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.308.1.3

Probab=99.77  E-value=1.6e-18  Score=138.43  Aligned_cols=94  Identities=17%  Similarity=0.289  Sum_probs=85.3

Q ss_pred             eeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhh
Q 020866          178 QATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKE  257 (320)
Q Consensus       178 ~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~  257 (320)
                      ..+|.+++++|.+.|..++.++|+.     .++.||+|.+++|+++                 .|++++|+..|+++|.+
T Consensus         4 ~~~~~~~~e~I~~~a~~~~~~~f~~-----~~~~TF~V~~kR~~k~-----------------~~~S~ei~~~vG~~i~~   61 (98)
T 2dir_A            4 GSSGKAFLEDMKKYAETFLEPWFKA-----PNKGTFQIVYKSRNNS-----------------HVNREEVIRELAGIVCT   61 (98)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHHST-----TCCCEEEEEEECSSCC-----------------SSCHHHHHHHHHHHHHH
T ss_pred             eEEEECCHHHHHHHHHHHHHHhcCc-----CCCceEEEEEEeCCCC-----------------CCCHHHHHHHHHHHHHh
Confidence            4689999999999999999999863     2457999999999976                 89999999999999987


Q ss_pred             cCCCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEeeCCCccc
Q 020866          258 VVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSILPQKLVT  301 (320)
Q Consensus       258 ~~~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv~~y~~~  301 (320)
                      ..++++|||+|||++|.|||.+  +      .|||||+++|+..
T Consensus        62 ~~~~~kVdL~nPd~~I~VEI~~--~------~~~isv~~~y~~~   97 (98)
T 2dir_A           62 LNSENKVDLTNPQYTVVVEIIK--A------VCCLSVVKSGPSS   97 (98)
T ss_dssp             HCTTCEECSSSCSEEEEEEEET--T------EEEEEEEECCCTT
T ss_pred             hCCCCeeEcCCCCEEEEEEEeC--C------EEEEEEccccccC
Confidence            6678999999999999999999  8      9999999999753

>1vbk_A Hypothetical protein PH1313; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 1.90A {Pyrococcus horikoshii} SCOP: c.26.2.6 d.308.1.1

Probab=98.38  E-value=1.9e-06  Score=81.40  Aligned_cols=111  Identities=16%  Similarity=0.154  Sum_probs=85.7

Q ss_pred             CcceEEEEccCCCCCCHHHHHHHHHHHHcCCCCCCCceEEeeeeeeeeeecCHHHHHHHHHHHHHhhccc-ccccCCCCc
Q 020866          133 RNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVND-EQNKLSRPV  211 (320)
Q Consensus       133 ~~gv~fi~f~~~~~~dP~~lv~~I~~d~~~~~~~~tR~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~-~~~~~~~~~  211 (320)
                      ..|.+||.  .   .++.++++++         +..=-|+++.|+.. |..++++|.+.+..++..++.. +    ....
T Consensus        47 ~~gri~V~--~---~~~~~~~~~L---------~~vfGI~~~s~v~~-~~~dle~I~~~~~~~~~~~~~~~~----~~~~  107 (307)
T 1vbk_A           47 RHGRIIVK--T---NSPKEAANVL---------VRVFGIVSISPAME-VEASLEKINRTALLMFRKKAKEVG----KERP  107 (307)
T ss_dssp             ETTEEEEE--C---SCHHHHHHHH---------TTSTTEEEEEEEEE-EECCHHHHHHHHHHHHHHHHHHHT----CSSC
T ss_pred             ECCEEEEE--c---CCHHHHHHHH---------hhcCCeEEEEEEEE-eCCCHHHHHHHHHHHHHHhhcccC----CCCc
Confidence            46788886  2   2777755554         22356788899987 5689999999999998875421 0    1124


Q ss_pred             eEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcCCCceeeCCCCCeEEEEEEee
Q 020866          212 KFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLP  279 (320)
Q Consensus       212 tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k  279 (320)
                      ||+|..++++.+                -.++..++-..|++.|.+.. +.+|||+|||++|.|||..
T Consensus       108 tF~Vr~kR~~k~----------------~~~~S~ei~r~vG~~i~~~~-~~~Vdl~~PD~~i~VEi~~  158 (307)
T 1vbk_A          108 KFRVTARRITKE----------------FPLDSLEIQAKVGEYILNNE-NCEVDLKNYDIEIGIEIMQ  158 (307)
T ss_dssp             EEEEEEEESSSC----------------SSSCHHHHHHHHHHHHHHHS-SCEECSSSCSEEEEEEEET
T ss_pred             eEEEEEEeCCCC----------------CCCChHHHHHHHHHHHHHHh-CCceeeeCCCEEEEEEEEc
Confidence            999999999832                27999999999999998654 6799999999999999988

>2c5s_A THII, probable thiamine biosynthesis protein THII; RNA-binding protein, RNA binding protein, tRNA modification, 4-thiouridine synthase; HET: AMP; 2.5A {Bacillus anthracis} SCOP: c.26.2.6 d.308.1.1

Probab=98.23  E-value=8.6e-06  Score=79.85  Aligned_cols=111  Identities=13%  Similarity=0.159  Sum_probs=87.2

Q ss_pred             CcceEEEEccCCCCCCHHHHHHHHHHHHcCCCCCCCceEEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCce
Q 020866          133 RNGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVK  212 (320)
Q Consensus       133 ~~gv~fi~f~~~~~~dP~~lv~~I~~d~~~~~~~~tR~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~t  212 (320)
                      ..|.+||..+   ..++.+++.++         +..=-|+++.|+.. |..++++|.+.+..++...+.       +..|
T Consensus        56 ~~gri~v~~~---~~~~~~~~~~L---------~~vfGI~~~~~v~~-~~~dle~I~~~~~~~~~~~~~-------~~~t  115 (413)
T 2c5s_A           56 THDRMYIQLN---GEDHEAVSERL---------KDVFGIHKFNLAMK-VPSELEDIKKGALAAFLQVKG-------DVKT  115 (413)
T ss_dssp             CSSCEEEECT---TCCHHHHHHHH---------TTCTTEEEEEEEEE-EESSHHHHHHHHHHHHHTCCS-------CCCE
T ss_pred             ECCEEEEEeC---CCCHHHHHHHH---------hhCCCeEEEEEEEE-ecCCHHHHHHHHHHHHHhhcc-------CCCc
Confidence            3588888732   22666655543         23356788999987 568899999999998887652       4459


Q ss_pred             EEEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcCCCceeeCCCCCeEEEEEEee
Q 020866          213 FAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLP  279 (320)
Q Consensus       213 faI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k  279 (320)
                      |+|..++++..                -.++..++-..|++.|.+..++.+|||+|||+.|-|||.+
T Consensus       116 F~V~~kR~~k~----------------f~~~S~ei~r~vG~~i~~~~~~~~Vdl~~Pdi~i~vEI~~  166 (413)
T 2c5s_A          116 FKITVHRSYKH----------------FPMRTMELLPEIGGHILENTEDITVDVHNPDVNVRVEIRS  166 (413)
T ss_dssp             EEEEEEECCTT----------------CSSCHHHHHHHHHHHHHTTSSSCEECSSSCSEEEEEEECS
T ss_pred             EEEEEEECCCC----------------CCCChHHHHHHHHHHHHHhCCCCeeccCCCCeEEEEEEEe
Confidence            99999999842                2789999999999999876567899999999999999988

>3tma_A Methyltransferase; thump domain; 2.05A {Thermus thermophilus}

Probab=95.96  E-value=0.01  Score=55.92  Aligned_cols=95  Identities=18%  Similarity=0.139  Sum_probs=68.2

Q ss_pred             CceEEeeeeeeeee--e-cC-HHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCC
Q 020866          168 PVWCHRIFPIQATC--V-LK-EKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLD  243 (320)
Q Consensus       168 tR~i~RliPI~~tc--~-a~-~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~  243 (320)
                      +|...|+.-+-..+  . .+ .++|.+.+..+--..+       .+..||+|..++.+..                 .++
T Consensus        70 lR~a~rvl~~~~~~~~~~~~~~~~L~~~~~~~~w~~~-------~~~~tF~V~~~~~~~~-----------------~f~  125 (354)
T 3tma_A           70 LRLAHHLVLFRARLLLSREDPLGALERAALALPWPEL-------EGAGSFRVEARREGEH-----------------PFT  125 (354)
T ss_dssp             CSSCSCEEEEEEEEECCSSSHHHHHHHHHHTSCCTTH-------HHHCCEEEEEEEESCC-----------------SSC
T ss_pred             cCCccEEEEEeeeccCCchhhHHHHHHHHHhCchhhc-------CCCCCEEEEEEEcCCC-----------------CCC
Confidence            56666766555555  3 35 6777777765421111       1346999999887743                 788


Q ss_pred             hhHHHHHHHHhhhhcCCCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEee
Q 020866          244 RNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL  295 (320)
Q Consensus       244 R~~vI~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv  295 (320)
                      ..+|-+.|++.+.+.. +.+||+++||+.|.|++.+  +      .|.+++-
T Consensus       126 s~~vk~~i~~~l~~~~-g~~v~~~~pd~~i~v~i~~--d------~~~l~~d  168 (354)
T 3tma_A          126 SPEVERRVGEALHRAY-GVPVDLKRPAVRVRVDVRG--E------EAFLGVQ  168 (354)
T ss_dssp             HHHHHHHHHHHHHHHH-CCCBCSSSCSEEEEEEEET--T------EEEEEEE
T ss_pred             HHHHHHHHHHHHHHhh-CCcccCCCCCEEEEEEEEC--C------EEEEEEE
Confidence            9999999999887532 4569999999999999999  7      7777764

>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170, putative RNA methylase, PSI,MCSG, structu genomics; 1.50A {Listeria monocytogenes str}

Probab=95.69  E-value=0.01  Score=57.55  Aligned_cols=95  Identities=17%  Similarity=0.127  Sum_probs=64.7

Q ss_pred             ceEEeeeeeeeeeec-CHHHHHHHHHHH-HHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhH
Q 020866          169 VWCHRIFPIQATCVL-KEKELQATVSKL-VLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNK  246 (320)
Q Consensus       169 R~i~RliPI~~tc~a-~~~~i~~~~~~l-l~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~  246 (320)
                      |-..|++-+-..+.+ +.++|-+.+..+ ...||+       ...||+|..++.++.                 .++..+
T Consensus        64 R~a~RVl~~l~~f~a~~~~~L~~~~~~i~w~~~l~-------~~~tF~V~~~~~~s~-----------------~fss~~  119 (393)
T 3k0b_A           64 RVADRVKIVVGVFKATTFDELFEKTKALPWEDYLP-------LDAQFPVAGKSVKST-----------------LYSVPD  119 (393)
T ss_dssp             SSCSCEEEEEEEEECSSHHHHHHHHHTSCGGGTCC-------TTCBCCEEEEEESSS-----------------CCCHHH
T ss_pred             cceeeEEEEEEEEecCCHHHHHHHHHhCCHHHhCC-------CCCeEEEEEEEecCC-----------------CCCHHH
Confidence            444454444444544 689998888876 556664       556999998776643                 667666


Q ss_pred             HHHHHHHhhh----hcC-CCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEee
Q 020866          247 CFTIVAAAVK----EVV-SDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL  295 (320)
Q Consensus       247 vI~~VA~~V~----~~~-~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv  295 (320)
                      +-..|-++|-    ... ..-.||+++||+.|.|++..  +      .|-+++=
T Consensus       120 ~~~~vkdAI~d~~~~~~~~rp~vd~~~Pd~~i~v~l~~--~------~~~~~ld  165 (393)
T 3k0b_A          120 CQAIVKKAIVNRVSEKYRRSGRLMETGALFKLEVSILK--D------EVTLTID  165 (393)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCTTCCSCSSBCCEEEEEET--T------EEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCCCCCCCCEEEEEEEEC--C------EEEEEEe
Confidence            6555555553    211 12369999999999999999  8      7888875

>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase, transferase; HET: SAH; 1.96A {Streptococcus mutans}

Probab=94.88  E-value=0.025  Score=54.66  Aligned_cols=95  Identities=18%  Similarity=0.134  Sum_probs=62.6

Q ss_pred             ceEEeeeeeeeeeec-CHHHHHHHHHHH-HHhhcccccccCCCCceEEE-EEcccCccccccCCCCCCCCcccccCCChh
Q 020866          169 VWCHRIFPIQATCVL-KEKELQATVSKL-VLQFVNDEQNKLSRPVKFAV-GYNRRGFEEKQNKIPKDTKDSDVSALLDRN  245 (320)
Q Consensus       169 R~i~RliPI~~tc~a-~~~~i~~~~~~l-l~~~F~~~~~~~~~~~tfaI-~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~  245 (320)
                      |-..|++-+-..+.+ +.++|-+.+..+ ...||+       +..||+| ..++.++.                 .++..
T Consensus        54 R~a~RVl~~l~~f~a~~~~~Ly~~~~~i~W~~~l~-------~~~tf~V~~~~~~~s~-----------------~~~s~  109 (384)
T 3ldg_A           54 RSADRIKIVVGEFPARTFEELFQGVYALDWENYLP-------LGCQFPVAKAKSVKSK-----------------LHNEP  109 (384)
T ss_dssp             SSCSEEEEEEEEEECSSHHHHHHHHHHSCGGGTCC-------TTCBCCBCCCEEESCS-----------------CCCHH
T ss_pred             ccceeEEEEEEEEecCCHHHHHHHHHcCCHHHhCC-------CCCeEEEEeeeecCCC-----------------CCCHH
Confidence            555555555555655 689998888876 567764       5568999 75555432                 45555


Q ss_pred             HHHHHHHHhh----hhcC---CCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEee
Q 020866          246 KCFTIVAAAV----KEVV---SDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL  295 (320)
Q Consensus       246 ~vI~~VA~~V----~~~~---~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv  295 (320)
                      ++-..|-++|    ....   |...||+++||+.|.|.+.+  +      .|-||+=
T Consensus       110 ~~~~~vkdAi~d~~~~~~~~r~~~~v~~~~pd~~i~v~~~~--~------~~~~~ld  158 (384)
T 3ldg_A          110 SIQGITKKAIVKKLQHYFHRPDSVPLPENGPEFKIEISLLK--D------QARVMID  158 (384)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCTTSCCCCCSCBCEEEEEEET--T------EEEEEEE
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCccccCCCCCCEEEEEEEEC--C------EEEEEEe
Confidence            5433343443    3211   11239999999999999999  8      8888876

>3v97_A Ribosomal RNA large subunit methyltransferase L; YCBY, RNA methyltransferase, ribosome RNA, SAH, RLML; HET: SAH OSU; 2.20A {Escherichia coli} PDB: 3v8v_A*

Probab=94.86  E-value=0.39  Score=49.86  Aligned_cols=99  Identities=17%  Similarity=0.174  Sum_probs=64.5

Q ss_pred             ceEEeeeeeeeeeec-CHHHHHHHHHHH-HHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhH
Q 020866          169 VWCHRIFPIQATCVL-KEKELQATVSKL-VLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNK  246 (320)
Q Consensus       169 R~i~RliPI~~tc~a-~~~~i~~~~~~l-l~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~  246 (320)
                      |-..|++=.-..+.+ +.++|-+.+..+ ...||+       +..||+|.++.++..             -.++.+.-..
T Consensus        53 R~a~Rvl~~l~~f~~~~~~~L~~~~~~~~w~~~~~-------~~~tf~V~~~~~~~~-------------~~~~~~~~~~  112 (703)
T 3v97_A           53 RLASRIMLPLGECKVYSDLDLYLGVQAINWTEMFN-------PGATFAVHFSGLNDT-------------IRNSQYGAMK  112 (703)
T ss_dssp             SSCSEEEEEEEEEECSSHHHHHHHHHTSCHHHHBC-------TTCCEEEEEECCCSS-------------CCSHHHHHHH
T ss_pred             CceeEEEEEEEEEecCCHHHHHHHHHcCCHHHhCC-------CCceEEEEEEEecCC-------------cCChHHHHHH
Confidence            445555544455554 689999888876 677774       566999999877632             0001111223


Q ss_pred             HHHHHHHhhhhcC-CCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEee
Q 020866          247 CFTIVAAAVKEVV-SDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL  295 (320)
Q Consensus       247 vI~~VA~~V~~~~-~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv  295 (320)
                      |-++|.+.+.... ..-.||+++||+.|.|.+.+  +      .|-+|+=
T Consensus       113 vk~ai~d~~~~~~g~rp~v~~~~pd~~i~v~l~~--~------~~~l~ld  154 (703)
T 3v97_A          113 VKDAIVDAFTRKNLPRPNVDRDAPDIRVNVWLHK--E------TASIALD  154 (703)
T ss_dssp             HHHHHHHHHHTTTCCCCCBCSSSCSEEEEEEEET--T------EEEEEEE
T ss_pred             HHHHHHHHHHHhhCCCCCCCCCCCCEEEEEEEEC--C------EEEEEEe
Confidence            4445555554321 12369999999999999999  8      8888885

>3tm4_A TRNA (guanine N2-)-methyltransferase TRM14; rossmann fold, thump domain, tRNA methyltransferase; HET: SAM; 1.95A {Pyrococcus furiosus} PDB: 3tlj_A* 3tm5_A*

Probab=93.97  E-value=0.15  Score=48.47  Aligned_cols=96  Identities=27%  Similarity=0.241  Sum_probs=64.8

Q ss_pred             CceEEeeeeeeeeeec----------CHHHHHHHHHHH-HHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCc
Q 020866          168 PVWCHRIFPIQATCVL----------KEKELQATVSKL-VLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDS  236 (320)
Q Consensus       168 tR~i~RliPI~~tc~a----------~~~~i~~~~~~l-l~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~  236 (320)
                      +|...|++-+-..+.+          +.++|-+.+..+ ...||       .+..||+|..++.+..             
T Consensus        72 ~R~a~rv~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~~~w~~~l-------~~~~tF~V~~~~~~~~-------------  131 (373)
T 3tm4_A           72 SRLLHRVIIEIASEKFNGIEKDESEEALKRIKDFVSSLPVEQFV-------KVSETFAVRSFRKGDH-------------  131 (373)
T ss_dssp             CSSCSEEEEEEEEEECTTTTTSCHHHHHHHHHHHHHTSCGGGGS-------CTTSEEEEEEEEESSC-------------
T ss_pred             hhhHhheEEEEEEeEeccccccccCCCHHHHHHHHHhCCHHHhC-------CCCCcEEEEEEECCCC-------------
Confidence            4777777776666654          366666665553 33344       3566999999887643             


Q ss_pred             ccccCCChhHHHHHHHHhhhhcC--CC-ceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEee
Q 020866          237 DVSALLDRNKCFTIVAAAVKEVV--SD-SAVDLKSPELSVLVELLPISGLPSELLVVGVSIL  295 (320)
Q Consensus       237 ~~~~~l~R~~vI~~VA~~V~~~~--~~-hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv  295 (320)
                          .++..++-..|.++|-+.-  -+ ..||+++||+.|.|.+.+  +      .|-+++=
T Consensus       132 ----~~~s~~~~~~vk~aIvd~~~~~g~~~v~~~~p~~~i~~~~~~--d------~~~~~ld  181 (373)
T 3tm4_A          132 ----NITSIDIARTVGEAIFERLSRFGTPLVNLDHPAVIFRAELIK--D------VFFLGID  181 (373)
T ss_dssp             ----SSCHHHHHHHHHHHHHHHHHTTSCCEECSSSCSEEEEEEEET--T------EEEEEEE
T ss_pred             ----cCCHHHHHHHHHHHHHHHHHHhCCCcccCCCCCeEEEEEEEC--C------EEEEEEE
Confidence                6677666666666664210  11 589999999999999998  7      6777764

>3ldu_A Putative methylase; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; HET: MSE GTP; 1.70A {Clostridium difficile}

Probab=93.31  E-value=0.21  Score=47.97  Aligned_cols=95  Identities=16%  Similarity=0.155  Sum_probs=62.8

Q ss_pred             ceEEeeeeeeeeee-cCHHHHHHHHHHH-HHhhcccccccCCCCceEEEE-EcccCccccccCCCCCCCCcccccCCChh
Q 020866          169 VWCHRIFPIQATCV-LKEKELQATVSKL-VLQFVNDEQNKLSRPVKFAVG-YNRRGFEEKQNKIPKDTKDSDVSALLDRN  245 (320)
Q Consensus       169 R~i~RliPI~~tc~-a~~~~i~~~~~~l-l~~~F~~~~~~~~~~~tfaI~-~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~  245 (320)
                      |-..|++=+-..+. .+.++|-+.+..+ ...||+       +..||+|. .+++++.                 .++..
T Consensus        57 R~a~RVl~~l~~f~~~~~~~L~~~~~~i~w~~~~~-------~~~tf~V~~~~~~~s~-----------------~~~~~  112 (385)
T 3ldu_A           57 RCAERVHLKIAEFEAKSFDELFENTKRINWSRYIP-------YGAQFPISKASSIKSK-----------------LYSTP  112 (385)
T ss_dssp             SSCSCCEEEEEEEECSSHHHHHHHHHTSCGGGTSC-------TTCBCCEEEEEEESSS-----------------CCCHH
T ss_pred             CceeEEEEEeeeEecCCHHHHHHHHHhCCHHHhCC-------CCceEEEEeecccCCC-----------------cCcHH
Confidence            44444443333454 4689998888876 566664       55699999 7666643                 56665


Q ss_pred             HHHHHHHHhh----hhcC-CCceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEee
Q 020866          246 KCFTIVAAAV----KEVV-SDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL  295 (320)
Q Consensus       246 ~vI~~VA~~V----~~~~-~~hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv  295 (320)
                      ++-..|-++|    .... ..-.||+.+||+.|.|.+.+  +      .|-+++=
T Consensus       113 ~~~~~vkdAIvd~~~~~~~~rp~v~~~~p~~~i~~~i~~--~------~~~~~lD  159 (385)
T 3ldu_A          113 DVQAIVKKAIVESLKKSYLEDGLLKEDKEKYPIFVFIHK--D------KVTISID  159 (385)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCSCCCCCSCBCCEEEEEET--T------EEEEEEE
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCCCCCCCCEEEEEEEEC--C------EEEEEEe
Confidence            5554444444    2211 12369999999999999999  8      7888875

---

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	320
d2dira1	85	d.308.1.3 (A:8-92) THUMP domain-containing protein	6e-04

>d2dira1 d.308.1.3 (A:8-92) THUMP domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: THUMP domain
superfamily: THUMP domain-like
family: Minimal THUMP
domain: THUMP domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.9 bits (83), Expect = 6e-04
 Identities = 16/110 (14%), Positives = 39/110 (35%), Gaps = 30/110 (27%)

Query: 186 KELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRN 245
           ++++      +  +             F + Y  R                     ++R 
Sbjct: 5   EDMKKYAETFLEPWFKAPNKG-----TFQIVYKSRNNSH-----------------VNRE 42

Query: 246 KCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLPISGLPSELLVVGVSIL 295
           +    +A  V  + S++ VDL +P+ +V+VE++          V  +S++
Sbjct: 43  EVIRELAGIVCTLNSENKVDLTNPQYTVVVEIIKA--------VCCLSVV 84

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	320
d2dira1	85	THUMP domain-containing protein 1 {Human (Homo sap	99.84
d1vbka2	175	Hypothetical protein PH1313, N-terminal domain {Ar	98.91
d2c5sa2	171	Thiamine biosynthesis protein ThiI, N-terminal dom	98.75

>d2dira1 d.308.1.3 (A:8-92) THUMP domain-containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: THUMP domain
superfamily: THUMP domain-like
family: Minimal THUMP
domain: THUMP domain-containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=4.9e-21  Score=147.92  Aligned_cols=85  Identities=19%  Similarity=0.331  Sum_probs=79.1

Q ss_pred             ecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcCCC
Q 020866          182 VLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSD  261 (320)
Q Consensus       182 ~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~~~  261 (320)
                      +|++++|.+.|..|+.+||+.     .++.||+|.+++|+++                 .|+|++|+..||++|.+..++
T Consensus         1 ~A~ledi~k~a~~l~~~~~~~-----~~~~TF~V~~krr~~~-----------------~l~s~ev~~~vg~~v~~~~~~   58 (85)
T d2dira1           1 KAFLEDMKKYAETFLEPWFKA-----PNKGTFQIVYKSRNNS-----------------HVNREEVIRELAGIVCTLNSE   58 (85)
T ss_dssp             CHHHHHHHHHHHHHHHHHHST-----TCCCEEEEEEECSSCC-----------------SSCHHHHHHHHHHHHHHHCTT
T ss_pred             CCCHHHHHHHHHHHHHHHhcc-----CCCceEEEEEEeCCCC-----------------CCCHHHHHHHHHHHHHhhCCC
Confidence            478999999999999999974     4688999999999976                 999999999999999877789


Q ss_pred             ceeeCCCCCeEEEEEEeeCCCCCCCceEEEEEeeC
Q 020866          262 SAVDLKSPELSVLVELLPISGLPSELLVVGVSILP  296 (320)
Q Consensus       262 hkVdLknPd~vIlVEV~k~~~~~~~~~vcgiSVv~  296 (320)
                      |+|||+|||++|+|||++  +      +||||||+
T Consensus        59 ~~VdL~~Pd~~I~Vev~~--~------~~~iSvv~   85 (85)
T d2dira1          59 NKVDLTNPQYTVVVEIIK--A------VCCLSVVK   85 (85)
T ss_dssp             CEECSSSCSEEEEEEEET--T------EEEEEEEE
T ss_pred             ceeeccCCCEEEEEEEeC--C------EEEEEEeC
Confidence            999999999999999999  9      99999984

>d1vbka2 d.308.1.1 (A:1-175) Hypothetical protein PH1313, N-terminal domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a+b)
fold: THUMP domain
superfamily: THUMP domain-like
family: THUMP domain
domain: Hypothetical protein PH1313, N-terminal domain
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=98.91  E-value=5.4e-09  Score=89.30  Aligned_cols=91  Identities=19%  Similarity=0.149  Sum_probs=75.6

Q ss_pred             ceEEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceEEEEEcccCccccccCCCCCCCCcccccCCChhHHH
Q 020866          169 VWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKFAVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCF  248 (320)
Q Consensus       169 R~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tfaI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI  248 (320)
                      --|..+.|+. .|..++++|.+++..++.+++...   ..++.||+|..++++.+                -.++++|+.
T Consensus        69 fGI~~~s~v~-~ve~~le~I~~~a~~~~~~~~~~~---~~~~~tF~V~~kR~~k~----------------f~~tS~ei~  128 (175)
T d1vbka2          69 FGIVSISPAM-EVEASLEKINRTALLMFRKKAKEV---GKERPKFRVTARRITKE----------------FPLDSLEIQ  128 (175)
T ss_dssp             TTEEEEEEEE-EEECCHHHHHHHHHHHHHHHHHHH---TCSSCEEEEEEEESSSC----------------SSSCHHHHH
T ss_pred             CCCCeEEEEE-EEcCCHHHHHHHHHHHHHHHHHhh---ccCCCcEEEEEEecCCC----------------CCCChHHHH
Confidence            3466677874 578899999999999999987531   13567999999998743                269999999


Q ss_pred             HHHHHhhhhcCCCceeeCCCCCeEEEEEEeeCCC
Q 020866          249 TIVAAAVKEVVSDSAVDLKSPELSVLVELLPISG  282 (320)
Q Consensus       249 ~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k~~~  282 (320)
                      ..|++.|... ++++|||+|||++|.|||.+  +
T Consensus       129 ~~vG~~i~~~-~~~~VdL~nPd~~i~vEI~~--~  159 (175)
T d1vbka2         129 AKVGEYILNN-ENCEVDLKNYDIEIGIEIMQ--G  159 (175)
T ss_dssp             HHHHHHHHHH-SSCEECSSSCSEEEEEEEET--T
T ss_pred             HHHHHHHhhc-CCCeeeccCCCEEEEEEEEe--C
Confidence            9999998654 68999999999999999999  7

>d2c5sa2 d.308.1.1 (A:3-173) Thiamine biosynthesis protein ThiI, N-terminal domain {Bacillus anthracis [TaxId: 1392]}

class: Alpha and beta proteins (a+b)
fold: THUMP domain
superfamily: THUMP domain-like
family: THUMP domain
domain: Thiamine biosynthesis protein ThiI, N-terminal domain
species: Bacillus anthracis [TaxId: 1392]

Probab=98.75  E-value=4.6e-08  Score=83.21  Aligned_cols=110  Identities=12%  Similarity=0.156  Sum_probs=82.0

Q ss_pred             cceEEEEccCCCCCCHHHHHHHHHHHHcCCCCCCCceEEeeeeeeeeeecCHHHHHHHHHHHHHhhcccccccCCCCceE
Q 020866          134 NGLLLLTFPREHSPNTINIVSNIFQSLGSGSLKSPVWCHRIFPIQATCVLKEKELQATVSKLVLQFVNDEQNKLSRPVKF  213 (320)
Q Consensus       134 ~gv~fi~f~~~~~~dP~~lv~~I~~d~~~~~~~~tR~i~RliPI~~tc~a~~~~i~~~~~~ll~~~F~~~~~~~~~~~tf  213 (320)
                      .|-++|..+   ..++.++.+.+ .        ..==|..+.|+.. |..++++|.+.+..++....       .+..||
T Consensus        45 ~~r~~v~~~---~~~~~~v~e~L-~--------~vfGI~~~s~~~~-~~~dle~I~~~a~~~~~~~~-------~~~~tF  104 (171)
T d2c5sa2          45 HDRMYIQLN---GEDHEAVSERL-K--------DVFGIHKFNLAMK-VPSELEDIKKGALAAFLQVK-------GDVKTF  104 (171)
T ss_dssp             SSCEEEECT---TCCHHHHHHHH-T--------TCTTEEEEEEEEE-EESSHHHHHHHHHHHHHTCC-------SCCCEE
T ss_pred             eCEEEEEec---CCCHHHHHHHH-c--------cCCCccEEEEEEE-eCCCHHHHHHHHHHHHHHhc-------cCCceE
Confidence            355666632   33666654443 1        2234667777775 56789999999988887654       256799


Q ss_pred             EEEEcccCccccccCCCCCCCCcccccCCChhHHHHHHHHhhhhcCCCceeeCCCCCeEEEEEEee
Q 020866          214 AVGYNRRGFEEKQNKIPKDTKDSDVSALLDRNKCFTIVAAAVKEVVSDSAVDLKSPELSVLVELLP  279 (320)
Q Consensus       214 aI~~~~Rn~~e~~~~~~~~~~~~~~~~~l~R~~vI~~VA~~V~~~~~~hkVdLknPd~vIlVEV~k  279 (320)
                      +|..++++..                -.++..|+-..|++.|-...++.+|||+|||++|.|||.+
T Consensus       105 ~Vr~kR~~k~----------------f~~tS~ei~~~lG~~il~~~~~~kVdL~nPd~~i~veI~~  154 (171)
T d2c5sa2         105 KITVHRSYKH----------------FPMRTMELLPEIGGHILENTEDITVDVHNPDVNVRVEIRS  154 (171)
T ss_dssp             EEEEEECCTT----------------CSSCHHHHHHHHHHHHHTTSSSCEECSSSCSEEEEEEECS
T ss_pred             EEEEEECCCC----------------CCCCCHHHHHHHHHHHHHhCCCCeeeccCCCEEEEEEEEc
Confidence            9999987632                2589999999999999765567899999999999999998