Citrus Sinensis ID: 025528

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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-
Protein Sequence
MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRSSVGYQPPLPAEQVKPLIEFDYDGEGSPNGPRRGRSGRGRSRGRGNGFVSAEYEDGGWDRNNRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPPQGSGRGRGRGNRGRGRGNRANGPIQAAA
Secondary Structure (PSIPRED)
ccccEEEEcccccccccccEEEEcccccHHHHHHHHHHHHHcccccEEEEEEccHHHHHHHHHHHHHHHHccccEEEEEEEEEEEEEEcccccccccccEEEEEEEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEcccccccccccEEEEccccHHHHHHHHHHHHHHcccccEEEEEEcHHHHHHHHHHHHHHHHHcccccEEEEEEEEEEEEEEcccccccccEEEEEEEcEEEEEEEccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mdryqrvekpkaetpideneiritsQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGlhqntvigstditdtwepleegllplettrHVSMITITLSKkelnrssvgyqpplpaeqvkpliefdydgegspngprrgrsgrgrsrgrgngfvsaeyedggwdrnnrgysrgrgrgrgrsfrgrgrggyngphfdarqdggynyeappqgsgrgrgrgnrgrgrgnrangpiqaaa
Flexible Loop (DISEMBL)
mdryqrvekpkaetpideneiritsqgrmRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRrivglhqntvigstditdtwepLEEGllplettrhVSMITItlskkelnrssVGYQPPLPAEQVKPLIEFDydgegspngprrgrsgrgrsrgrgngfvsaeyedggwdrnnrgysrgrgrgrgrsfrgrgrggyngphfdarqdggynyeappqgsgrgrgrgnrgrgrgnrangpiqaaa
Low Complexity Region (SEG)
MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWepleegllpleTTRHVSMITITLSKKELNRSSVGYQPPLPAEQVKPLIEFDYDGEgspngprrgrsgrgrsrgrgngFVSAEYEDGGWDrnnrgysrgrgrgrgrsfrgrgrggyngPHFDARQDGGYNYEAPPQgsgrgrgrgnrgrgrgnrangPIQAAA
Disordered region (IsUnstruct)
***************************RMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLS******************************************************************************************************************************************
Disordered Region (DISOPRED)
**RYQRV*******PI*ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRSSVGYQ**L***************************************************************************************************************************
Disordered Region (DISEMBL)
*************TPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRSSVGYQPPLPAEQVKPLIEFDYDGEGS****************RGNGFVSAEYEDGGWDRNNRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPP****************************
Disordered Region (DISPRO)
**RYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRSSVGYQPPLPAEQVK*************************************YEDGGWDRNNRGYSR********SFRGRGRGGYNGPHFDARQDGGYNYEAPP****************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRSSVGYQPPLPAEQVKPLIEFDYDGEGSPNGPRRGRSGRGRSRGRGNGFVSAEYEDGGWDRNNRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPPQGSGRGRGRGNRGRGRGNRANGPIQAAA
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	251	2.2.26 [Sep-21-2011]
Q99JH1	163	Ribonuclease P protein su	yes	no	0.505	0.779	0.338	1e-15
Q8N5L8	163	Ribonuclease P protein su	yes	no	0.470	0.723	0.35	5e-15
Q2KIR4	163	Ribonuclease P protein su	yes	no	0.470	0.723	0.333	1e-13
Q5PPN2	199	Ribonuclease P protein su	no	no	0.426	0.537	0.307	6e-12
Q91WE3	199	Ribonuclease P protein su	no	no	0.426	0.537	0.307	7e-12
Q9BUL9	199	Ribonuclease P protein su	no	no	0.434	0.547	0.319	9e-12

>sp|Q99JH1|RP25L_MOUSE Ribonuclease P protein subunit p25-like protein OS=Mus musculus GN=Rpp25l PE=2 SV=1

 Score = 83.6 bits (205), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/136 (33%), Positives = 71/136 (52%), Gaps = 9/136 (6%)

Query: 1   MDRYQRV-------EKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAM 53
           M++Y+R          P  + P D  E+R+    ++R+ +  A+  L+   +  +VF   
Sbjct: 1   MEQYRRAGSVELPASSPMPQLPPDTLEMRVRDGSKIRNLLGLALGRLEGGSTRHVVFSGS 60

Query: 54  GRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPL--EEGLLPLETTRHVSMITIT 111
           GRA  K V+  E++KRR+ GLHQ T +      D+W P   + GL PL   RHV  + + 
Sbjct: 61  GRAAGKAVSCAEIVKRRVPGLHQLTKLRFLQTEDSWVPTSPDTGLDPLTVRRHVPAVWVL 120

Query: 112 LSKKELNRSSVGYQPP 127
           LS+  L+ S  GYQPP
Sbjct: 121 LSRDPLDPSECGYQPP 136

May be a component of ribonuclease P or MRP.
Mus musculus (taxid: 10090)

>sp|Q8N5L8|RP25L_HUMAN Ribonuclease P protein subunit p25-like protein OS=Homo sapiens GN=RPP25L PE=1 SV=1

 Score = 81.6 bits (200), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 42/120 (35%), Positives = 65/120 (54%), Gaps = 2/120 (1%)

Query: 10  PKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKR 69
           P  + P D  E+R+    ++R+ +  A+  L+   +  +VF   GRA  K V+  E++KR
Sbjct: 17  PMPQLPPDTLEMRVRDGSKIRNLLGLALGRLEGGSARHVVFSGSGRAAGKAVSCAEIVKR 76

Query: 70  RIVGLHQNTVIGSTDITDTWEPL--EEGLLPLETTRHVSMITITLSKKELNRSSVGYQPP 127
           R+ GLHQ T +      D+W P   + GL PL   RHV  + + LS+  L+ +  GYQPP
Sbjct: 77  RVPGLHQLTKLRFLQTEDSWVPASPDTGLDPLTVRRHVPAVWVLLSRDPLDPNECGYQPP 136

May be a component of ribonuclease P or MRP.

Homo sapiens (taxid: 9606)

>sp|Q2KIR4|RP25L_BOVIN Ribonuclease P protein subunit p25-like protein OS=Bos taurus GN=RPP25L PE=2 SV=1

 Score = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 40/120 (33%), Positives = 65/120 (54%), Gaps = 2/120 (1%)

Query: 10  PKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKR 69
           P  + P D  E+R+ +  ++R+ +  A+  L+   +  +VF   GRA  K V+  E++KR
Sbjct: 17  PMPQLPPDTLEMRVRAGSKIRNLLGLALERLEGGSARHVVFSGSGRAAGKAVSCAEIVKR 76

Query: 70  RIVGLHQNTVIGSTDITDTWEPL--EEGLLPLETTRHVSMITITLSKKELNRSSVGYQPP 127
           R+ GL+Q T +      D+W P   + GL PL    HV  + + LS+  L+ +  GYQPP
Sbjct: 77  RVPGLYQLTKLRFLQTEDSWVPTSPDTGLDPLTVRSHVPAVWVLLSRDPLDPNEYGYQPP 136

May be a component of ribonuclease P or MRP.

Bos taurus (taxid: 9913)

>sp|Q5PPN2|RPP25_RAT Ribonuclease P protein subunit p25 OS=Rattus norvegicus GN=Rpp25 PE=2 SV=1

 Score = 71.2 bits (173), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 36/117 (30%), Positives = 59/117 (50%), Gaps = 10/117 (8%)

Query: 21  IRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVI 80
           +R+    ++R+ + +A   + +  +  IVF   GRA  KTVT  E++KRR+ GLHQ T +
Sbjct: 38  MRVKEGSKIRNLLAFATASMAQPATRAIVFSGCGRATTKTVTCAEILKRRLAGLHQVTRL 97

Query: 81  GSTDITDTWEPL----------EEGLLPLETTRHVSMITITLSKKELNRSSVGYQPP 127
               + + W+ L           +    L   ++V  + I LSK  L+   +GYQPP
Sbjct: 98  RYRSVREVWQSLPPGPTPGQTPSDPAASLSVLKNVPSLAILLSKDALDPRQLGYQPP 154

Component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5'-ends. Also a component of RNase MRP. This subunit binds to RNA.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: 5

>sp|Q91WE3|RPP25_MOUSE Ribonuclease P protein subunit p25 OS=Mus musculus GN=Rpp25 PE=2 SV=1

 Score = 70.9 bits (172), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 36/117 (30%), Positives = 59/117 (50%), Gaps = 10/117 (8%)

Query: 21  IRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVI 80
           +R+    ++R+ + +A   + +  +  IVF   GRA  KTVT  E++KRR+ GLHQ T +
Sbjct: 38  MRVKEGSKIRNLLAFATASMAQPATRAIVFSGCGRATTKTVTCAEILKRRLAGLHQVTRL 97

Query: 81  GSTDITDTWEPL----------EEGLLPLETTRHVSMITITLSKKELNRSSVGYQPP 127
               + + W+ L           +    L   ++V  + I LSK  L+   +GYQPP
Sbjct: 98  RYRSVREVWQSLPPGPTPGQTPSDPAASLSVLKNVPSLAILLSKDALDPRQLGYQPP 154

Component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5'-ends. Also a component of RNase MRP. This subunit binds to RNA.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: 5

>sp|Q9BUL9|RPP25_HUMAN Ribonuclease P protein subunit p25 OS=Homo sapiens GN=RPP25 PE=1 SV=1

 Score = 70.9 bits (172), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 38/119 (31%), Positives = 59/119 (49%), Gaps = 10/119 (8%)

Query: 21  IRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVI 80
           +R+    ++R+ + +A   + +  +  IVF   GRA  KTVT  E++KRR+ GLHQ T +
Sbjct: 38  MRVKEGSKIRNLMAFATASMAQPATRAIVFSGCGRATTKTVTCAEILKRRLAGLHQVTRL 97

Query: 81  GSTDITDTWEPLEEG----------LLPLETTRHVSMITITLSKKELNRSSVGYQPPLP 129
               + + W+ L  G             L   ++V  + I LSK  L+    GYQPP P
Sbjct: 98  RYRSVREVWQSLPPGPTQGQTPGEPAASLSVLKNVPGLAILLSKDALDPRQPGYQPPNP 156

Component of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5'-ends. Also a component of RNase MRP. This subunit binds to RNA.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: 5

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	251
302141727	514	unnamed protein product [Vitis vinifera]	0.996	0.486	0.807	1e-84
359492084	257	PREDICTED: uncharacterized protein LOC10	0.996	0.972	0.807	4e-84
388502700	250	unknown [Lotus japonicus]	0.996	1.0	0.792	3e-83
358248282	249	uncharacterized protein LOC100818986 [Gl	0.992	1.0	0.820	4e-83
449437182	264	PREDICTED: ribonuclease P protein subuni	0.888	0.844	0.729	4e-79
297842341	344	hypothetical protein ARALYDRAFT_476750 [	0.968	0.706	0.693	3e-71
18410994	350	Alba DNA/RNA-binding protein [Arabidopsi	0.880	0.631	0.742	4e-70
84468342	248	hypothetical protein [Trifolium pratense	0.585	0.592	0.863	2e-67
357464475	245	Ribonuclease P protein subunit p25 [Medi	0.585	0.6	0.850	3e-67
168005734	266	predicted protein [Physcomitrella patens	0.685	0.646	0.779	8e-67

>gi|302141727|emb|CBI18930.3| unnamed protein product [Vitis vinifera]

 Score =  318 bits (815), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 206/255 (80%), Positives = 214/255 (83%), Gaps = 5/255 (1%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRYQRVEKP+ ETPIDENEIRITSQGRMRSYITYAM+LLQE+GSNEIVFKAMGRAINKT
Sbjct: 258 MDRYQRVEKPREETPIDENEIRITSQGRMRSYITYAMSLLQEKGSNEIVFKAMGRAINKT 317

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTIVELIKRRIVGLHQNT IGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELN S
Sbjct: 318 VTIVELIKRRIVGLHQNTSIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNTS 377

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSPNGPRRGRSGRGRSRG---RGNGFVSAEYEDGGW 177
           S+GYQPPLPAEQVK   EFDY+GEGSP+G  RGR GRGR R     GNGFVSAEYEDGGW
Sbjct: 378 SIGYQPPLPAEQVKAWTEFDYEGEGSPSGRGRGRGGRGRGRTRGVSGNGFVSAEYEDGGW 437

Query: 178 DRNNRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQD-GGYNYEAPPQGSGRGRGRGNRG 236
           DRN                RGRGRGGYNGP  DA+QD GGYN E P QG GRGRGRGNRG
Sbjct: 438 DRNRGYARGRGRGRGRGF-RGRGRGGYNGPQVDAQQDMGGYNQEPPFQGRGRGRGRGNRG 496

Query: 237 RGRGNRANGPIQAAA 251
           RGRG R+NGPI A A
Sbjct: 497 RGRGARSNGPIHATA 511

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359492084|ref|XP_002284740.2| PREDICTED: uncharacterized protein LOC100254082 [Vitis vinifera] gi|147804669|emb|CAN73522.1| hypothetical protein VITISV_004987 [Vitis vinifera]

 Score =  317 bits (811), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 206/255 (80%), Positives = 214/255 (83%), Gaps = 5/255 (1%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRYQRVEKP+ ETPIDENEIRITSQGRMRSYITYAM+LLQE+GSNEIVFKAMGRAINKT
Sbjct: 1   MDRYQRVEKPREETPIDENEIRITSQGRMRSYITYAMSLLQEKGSNEIVFKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTIVELIKRRIVGLHQNT IGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELN S
Sbjct: 61  VTIVELIKRRIVGLHQNTSIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNTS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSPNGPRRGRSGRGRSRG---RGNGFVSAEYEDGGW 177
           S+GYQPPLPAEQVK   EFDY+GEGSP+G  RGR GRGR R     GNGFVSAEYEDGGW
Sbjct: 121 SIGYQPPLPAEQVKAWTEFDYEGEGSPSGRGRGRGGRGRGRTRGVSGNGFVSAEYEDGGW 180

Query: 178 DRNNRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQD-GGYNYEAPPQGSGRGRGRGNRG 236
           DRN                RGRGRGGYNGP  DA+QD GGYN E P QG GRGRGRGNRG
Sbjct: 181 DRNRGYARGRGRGRGRGF-RGRGRGGYNGPQVDAQQDMGGYNQEPPFQGRGRGRGRGNRG 239

Query: 237 RGRGNRANGPIQAAA 251
           RGRG R+NGPI A A
Sbjct: 240 RGRGARSNGPIHATA 254

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388502700|gb|AFK39416.1| unknown [Lotus japonicus]

 Score =  313 bits (803), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 199/251 (79%), Positives = 214/251 (85%), Gaps = 1/251 (0%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRYQ+VEKP+AET IDENEIRITSQGRMR+YITYAMTLLQE+GSNEIVFKAMGRAINKT
Sbjct: 1   MDRYQKVEKPRAETSIDENEIRITSQGRMRNYITYAMTLLQEKGSNEIVFKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTIVELIKRRIVGLHQNT IGSTDITDTWEPLEEGLLPLETTRHVSMITITLSK EL+ +
Sbjct: 61  VTIVELIKRRIVGLHQNTAIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKNELDTA 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSPNGPRRGRSGRGRSRGRGNGFVSAEYEDGGWDRN 180
           SVGYQPPLPA+QVK   +FDY+GE SPNG  RGR GRGR RGRGNGF++A+YEDGGWDR 
Sbjct: 121 SVGYQPPLPADQVKAATDFDYEGESSPNGRGRGRGGRGRGRGRGNGFIAADYEDGGWDRY 180

Query: 181 NRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPPQGSGRGRGRGNRGRGRG 240
               +RGRGRGRGR FRGRGR GYNG H D  QDGGYN + P          G RGRGRG
Sbjct: 181 RGN-ARGRGRGRGRGFRGRGRVGYNGGHVDMLQDGGYNQDVPQGRGRGRGRGGYRGRGRG 239

Query: 241 NRANGPIQAAA 251
            R+NGPIQAAA
Sbjct: 240 FRSNGPIQAAA 250

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248282|ref|NP_001239854.1| uncharacterized protein LOC100818986 [Glycine max] gi|255639553|gb|ACU20071.1| unknown [Glycine max]

 Score =  313 bits (802), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 206/251 (82%), Positives = 220/251 (87%), Gaps = 2/251 (0%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRYQ+VEKP+AETPIDENEIRITSQGRMR+YITYAM+LLQE+GSNEIVFKAMGRAINKT
Sbjct: 1   MDRYQKVEKPRAETPIDENEIRITSQGRMRNYITYAMSLLQEKGSNEIVFKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTIVELIKRRIVGLHQNT IGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKEL+ S
Sbjct: 61  VTIVELIKRRIVGLHQNTAIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELDTS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSPNGPRRGRSGRGRSRGRGNGFVSAEYEDGGWDRN 180
           SVGYQPPLPA+QVK   +FDY+GEGSPNG  RGR GRGR RGRGNGF+SA+YEDGGWDRN
Sbjct: 121 SVGYQPPLPADQVKAATDFDYEGEGSPNGRVRGRGGRGRGRGRGNGFISADYEDGGWDRN 180

Query: 181 NRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPPQGSGRGRGRGNRGRGRG 240
               +RGRGRGRGR FRGRGRGGYNGPH D  QDGGYN + P          G RGRGRG
Sbjct: 181 RGN-ARGRGRGRGRGFRGRGRGGYNGPHVDM-QDGGYNQDVPQGRGRGRGRGGYRGRGRG 238

Query: 241 NRANGPIQAAA 251
            R+NGPIQAAA
Sbjct: 239 FRSNGPIQAAA 249

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449437182|ref|XP_004136371.1| PREDICTED: ribonuclease P protein subunit p25-like protein-like [Cucumis sativus] gi|449511234|ref|XP_004163900.1| PREDICTED: ribonuclease P protein subunit p25-like protein-like [Cucumis sativus]

 Score =  300 bits (768), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 170/233 (72%), Positives = 183/233 (78%), Gaps = 10/233 (4%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRY RVEKP+AETPIDENEIRITSQGRMR+YITYAMTLLQE+GSNEIVFKAMGRAINKT
Sbjct: 1   MDRYHRVEKPRAETPIDENEIRITSQGRMRNYITYAMTLLQEKGSNEIVFKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTIVELIKRRIVGLHQNT IGSTDITDTWEPLEEGLLPLETTRHVSMI ITLSKKELN+S
Sbjct: 61  VTIVELIKRRIVGLHQNTSIGSTDITDTWEPLEEGLLPLETTRHVSMIVITLSKKELNKS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSPNG---------PRRGRSGRGRSRGRGNGFVSAE 171
           SVGYQPPLPAE VK  +E+DY+GEGSP+           R GR         GNGFV+ E
Sbjct: 121 SVGYQPPLPAELVKTFVEYDYEGEGSPHDQGPGRGRGRGRNGRGRSRGRGPPGNGFVANE 180

Query: 172 YEDGGWD-RNNRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPP 223
           Y+DG WD               G +FRGRGRGGYNGP FD +QDGGYN +  P
Sbjct: 181 YDDGDWDRNRGGNGRGRGRGRSGGNFRGRGRGGYNGPQFDLQQDGGYNQDMLP 233

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297842341|ref|XP_002889052.1| hypothetical protein ARALYDRAFT_476750 [Arabidopsis lyrata subsp. lyrata] gi|297334893|gb|EFH65311.1| hypothetical protein ARALYDRAFT_476750 [Arabidopsis lyrata subsp. lyrata]

 Score =  274 bits (700), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 181/261 (69%), Positives = 201/261 (77%), Gaps = 18/261 (6%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MD+YQRV KPKA+TPID NEIRITSQGR R+YITYAMTLLQE+GS E+VFKAMGRAINKT
Sbjct: 1   MDKYQRVVKPKADTPIDANEIRITSQGRARNYITYAMTLLQEKGSTEVVFKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTIVELIKRRI  LHQNT IGSTDITDTWEP EEGLLPLETTRHVSMITI LSK ELN S
Sbjct: 61  VTIVELIKRRIPDLHQNTSIGSTDITDTWEPTEEGLLPLETTRHVSMITIILSKIELNTS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDG-EGSP----NGPRRGRSGRGRSRGRGNGFVSAEYEDG 175
           SVGYQ P+P E VKP+ + DY+G EGSP     G  RGR       GRGN +V+ E+EDG
Sbjct: 121 SVGYQCPIPIEMVKPMGDIDYEGREGSPGGRGRGRGRGRGRGRGRGGRGNAYVNVEHEDG 180

Query: 176 GWDRNNRGYSRGRGRGRGRSFRGRGRGGYNGP--HFDARQDGGYNYEAPPQGSGRGRGRG 233
           GW+R ++ Y RGRGRGRGRS RGRGRGGYNGP   +DA QDGGY Y+APP      RG  
Sbjct: 181 GWER-DQSYGRGRGRGRGRSSRGRGRGGYNGPPNEYDAPQDGGYGYDAPPH---EHRGYD 236

Query: 234 NRG------RGRGNRANGPIQ 248
           +RG      +GRG   +GP Q
Sbjct: 237 DRGGYDAPPQGRGGY-DGPTQ 256

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18410994|ref|NP_565124.1| Alba DNA/RNA-binding protein [Arabidopsis thaliana] gi|15724324|gb|AAL06555.1|AF412102_1 At1g76010/T4O12_22 [Arabidopsis thaliana] gi|16226599|gb|AAL16210.1|AF428441_1 At1g76010/T4O12_22 [Arabidopsis thaliana] gi|15809882|gb|AAL06869.1| At1g76010/T4O12_22 [Arabidopsis thaliana] gi|21700865|gb|AAM70556.1| At1g76010/T4O12_22 [Arabidopsis thaliana] gi|332197663|gb|AEE35784.1| Alba DNA/RNA-binding protein [Arabidopsis thaliana]

 Score =  270 bits (690), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 170/229 (74%), Positives = 187/229 (81%), Gaps = 8/229 (3%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MD+YQRV KPKA+TPID NEIRITSQGR R+YITYAMTLLQ++GS E+VFKAMGRAINKT
Sbjct: 1   MDKYQRVVKPKADTPIDANEIRITSQGRARNYITYAMTLLQDKGSTEVVFKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTIVELIKRRI  LHQNT IGSTDITDTWEP EEGLLPLETTRHVSMITITLSK ELN S
Sbjct: 61  VTIVELIKRRIPDLHQNTSIGSTDITDTWEPTEEGLLPLETTRHVSMITITLSKIELNTS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDG-EGSP----NGPRRGRSGRGRSRGRGNGFVSAEYEDG 175
           SVGYQ P+P E VKP+ + DY+G EGSP     G  RGR       GRGN +V+ E+EDG
Sbjct: 121 SVGYQCPIPIELVKPMGDIDYEGREGSPGGRGRGRGRGRGRGRGRGGRGNAYVNVEHEDG 180

Query: 176 GWDRNNRGYSRGRGRGRGRSFRGRGRGGYNGP--HFDARQDGGYNYEAP 222
           GW+R  + Y RGRGRGRGRS RGRGRGGYNGP   +DA QDGGY Y+AP
Sbjct: 181 GWER-EQSYGRGRGRGRGRSSRGRGRGGYNGPPNEYDAPQDGGYGYDAP 228

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|84468342|dbj|BAE71254.1| hypothetical protein [Trifolium pratense]

 Score =  261 bits (667), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 127/147 (86%), Positives = 138/147 (93%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRYQRVEKPKA+ PI+ENEIRIT+QGRMR+YITYA TL QE+G++EIV KAMGRAINKT
Sbjct: 1   MDRYQRVEKPKADGPINENEIRITTQGRMRNYITYATTLFQEKGTDEIVLKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTI ELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKEL+ S
Sbjct: 61  VTITELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELDTS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSP 147
           S GYQPPLPA+QVKPL E++ DGEGSP
Sbjct: 121 STGYQPPLPADQVKPLNEYEEDGEGSP 147

Source: Trifolium pratense

Species: Trifolium pratense

Genus: Trifolium

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357464475|ref|XP_003602519.1| Ribonuclease P protein subunit p25 [Medicago truncatula] gi|355491567|gb|AES72770.1| Ribonuclease P protein subunit p25 [Medicago truncatula]

 Score =  260 bits (665), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 125/147 (85%), Positives = 138/147 (93%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRYQRVEKPKA++PI+ENEIRIT+QGRMR+YITYA TL QE+G+ EIV KAMGRAINKT
Sbjct: 1   MDRYQRVEKPKADSPINENEIRITTQGRMRNYITYATTLFQEKGTEEIVLKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTI ELIKRRIVGLHQNT+IGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKEL+ S
Sbjct: 61  VTITELIKRRIVGLHQNTIIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELDTS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSP 147
           S GYQPPLPA+QVKPL E++ +GEGSP
Sbjct: 121 STGYQPPLPADQVKPLNEYEEEGEGSP 147

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168005734|ref|XP_001755565.1| predicted protein [Physcomitrella patens subsp. patens] gi|162693272|gb|EDQ79625.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  259 bits (662), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 134/172 (77%), Positives = 151/172 (87%)

Query: 1   MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
           MDRYQRVEKP+ E PI ENEIRIT+QG+MR+YITYA TLLQ++GS+EIV KAMGRAINKT
Sbjct: 1   MDRYQRVEKPRPEIPISENEIRITTQGKMRNYITYATTLLQDKGSSEIVLKAMGRAINKT 60

Query: 61  VTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRS 120
           VTI E+IKRRI GLHQNT IGSTDITD WEP+EEGLLPLETTRHVSMITITLS KEL +S
Sbjct: 61  VTIAEIIKRRIAGLHQNTSIGSTDITDLWEPIEEGLLPLETTRHVSMITITLSTKELEKS 120

Query: 121 SVGYQPPLPAEQVKPLIEFDYDGEGSPNGPRRGRSGRGRSRGRGNGFVSAEY 172
           S+GYQPPLPA+QVKPL+EFDY+G+GSP G R    GRGR RGRGN   ++EY
Sbjct: 121 SIGYQPPLPADQVKPLVEFDYEGDGSPRGGRGRGRGRGRGRGRGNDVENSEY 172

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

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	251
TAIR|locus:2198551	315	AT1G20220 [Arabidopsis thalian	0.573	0.457	0.743	8.4e-59
TAIR|locus:2204400	350	AT1G76010 [Arabidopsis thalian	0.884	0.634	0.552	7.5e-57
TAIR|locus:2077547	405	AT3G07030 [Arabidopsis thalian	0.537	0.333	0.577	5.7e-36
UNIPROTKB|E1BQE8	164	RPP25 "Uncharacterized protein	0.521	0.798	0.302	3.3e-15
DICTYBASE|DDB_G0281409	369	drpp25 "RNase MRP protein subu	0.553	0.376	0.351	5e-15
RGD|1306576	163	Rpp25l "ribonuclease P/MRP 25	0.505	0.779	0.323	4.9e-14
MGI|MGI:1917211	163	Rpp25l "ribonuclease P/MRP 25	0.505	0.779	0.323	6.2e-14
UNIPROTKB|Q8N5L8	163	RPP25L "Ribonuclease P protein	0.470	0.723	0.316	2.1e-13
UNIPROTKB|F1SEB9	163	RPP25L "Uncharacterized protei	0.470	0.723	0.316	2.1e-13
UNIPROTKB|E2R227	163	LOC486757 "Uncharacterized pro	0.470	0.723	0.316	2.7e-13

TAIR|locus:2198551 AT1G20220 [Arabidopsis thaliana (taxid:3702)]

 Score = 539 (194.8 bits), Expect = 8.4e-59, Sum P(3) = 8.4e-59
 Identities = 107/144 (74%), Positives = 118/144 (81%)

Query:     1 MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
             MD+YQRVEKPKA+TPI ENEIRITS GR R+YITYAM LLQE  SNE++FKAMGRAINK+
Sbjct:     1 MDKYQRVEKPKADTPIAENEIRITSMGRARNYITYAMALLQENKSNEVIFKAMGRAINKS 60

Query:    61 VTIVELIKRRIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTTRHVSMITITLSKKELNRS 120
             VTIVELIKRRI GLHQ T IGSTDITDTW           TTRHVSMITITLSK++LN S
Sbjct:    61 VTIVELIKRRIPGLHQITSIGSTDITDTWEPTEEGLQTIETTRHVSMITITLSKEQLNTS 120

Query:   121 SVGYQPPLPAEQVKPLIEFDYDGE 144
             SVGYQ P+P E VKPL E DY+G+
Sbjct:   121 SVGYQCPIPIEMVKPLAEIDYEGQ 144

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009505 "plant-type cell wall" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2204400 AT1G76010 [Arabidopsis thaliana (taxid:3702)]

 Score = 585 (211.0 bits), Expect = 7.5e-57, P = 7.5e-57
 Identities = 126/228 (55%), Positives = 143/228 (62%)

Query:     1 MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
             MD+YQRV KPKA+TPID NEIRITSQGR R+YITYAMTLLQ++GS E+VFKAMGRAINKT
Sbjct:     1 MDKYQRVVKPKADTPIDANEIRITSQGRARNYITYAMTLLQDKGSTEVVFKAMGRAINKT 60

Query:    61 VTIVELIKRRIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTTRHVSMITITLSKKELNRS 120
             VTIVELIKRRI  LHQNT IGSTDITDTW           TTRHVSMITITLSK ELN S
Sbjct:    61 VTIVELIKRRIPDLHQNTSIGSTDITDTWEPTEEGLLPLETTRHVSMITITLSKIELNTS 120

Query:   121 SVGYQPPLPAEQVKPLIEFDYDGEXXX-----XXXXXXXXXXXXXXXXXXXFVSAEYEDG 175
             SVGYQ P+P E VKP+ + DY+G                            +V+ E+EDG
Sbjct:   121 SVGYQCPIPIELVKPMGDIDYEGREGSPGGRGRGRGRGRGRGRGRGGRGNAYVNVEHEDG 180

Query:   176 GWDXXXXXXXXXXXXXXXXXXXXXXXXXXXXPH-FDARQDGGYNYEAP 222
             GW+                            P+ +DA QDGGY Y+AP
Sbjct:   181 GWEREQSYGRGRGRGRGRSSRGRGRGGYNGPPNEYDAPQDGGYGYDAP 228

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2077547 AT3G07030 [Arabidopsis thaliana (taxid:3702)]

 Score = 388 (141.6 bits), Expect = 5.7e-36, P = 5.7e-36
 Identities = 78/135 (57%), Positives = 97/135 (71%)

Query:     1 MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKT 60
             MDRYQRV KPK E+PI+ENEIRITS+G +R+YI+YA +LLQE+   +IV KAMG+AI+KT
Sbjct:     1 MDRYQRVAKPKPESPINENEIRITSKGLIRNYISYATSLLQEKSVKDIVLKAMGQAISKT 60

Query:    61 VTIVELIKRRIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTTRHVSMITITLSKKELNRS 120
             V I E++K +I GLHQ+  I S  ITD W            TRHVSMI+ITLS  ELN+ 
Sbjct:    61 VAISEILKNKIPGLHQDIAISSISITDVWEPTEEGLFPVELTRHVSMISITLSLSELNKD 120

Query:   121 SVGYQPPLPAEQVKP 135
             S GYQ P  ++Q KP
Sbjct:   121 SPGYQAPAQSDQSKP 135

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

UNIPROTKB|E1BQE8 RPP25 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 43/142 (30%), Positives = 77/142 (54%)

Query:     1 MDRYQRVEKPKAETPID-EN------EIRITSQGRMRSYITYAMTLLQERGSNEIVFKAM 53
             M+ +++V   + E+P+   N      E+++    ++R+ +++AM  ++ +GS +IVF   
Sbjct:     1 MENFRKVRTSEEESPLPFPNLPPGVVEMKVKEGSKIRNLMSFAMAQMELKGSRQIVFSGC 60

Query:    54 GRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWXXXX----XXXXXXXTTRHVSMIT 109
             GRA+ KT+T VE++KR++ GLHQ T +    + + W                 ++V  I 
Sbjct:    61 GRAVTKTITCVEIMKRKLGGLHQVTKVRYKTLLEVWENQDPLPGGAAQNLTVHKNVPSIC 120

Query:   110 ITLSKKELNRSSVGYQPPLPAE 131
             I LS+  L+ +  GYQPP P E
Sbjct:   121 ILLSRDPLDPNQTGYQPPEPRE 142

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005813 "centrosome" evidence=IEA

DICTYBASE|DDB_G0281409 drpp25 "RNase MRP protein subunit" [Dictyostelium discoideum (taxid:44689)]

 Score = 195 (73.7 bits), Expect = 5.0e-15, P = 5.0e-15
 Identities = 51/145 (35%), Positives = 77/145 (53%)

Query:     1 MDRYQRVEKPKAETPIDENEIRITS-QGRMRSYITYAMTLLQERGSNEIVFKAMG-RAIN 58
             MD+Y RV +   +   + NE+RI     ++ S I Y + L   +  + I+ KA+G + I+
Sbjct:     1 MDKYYRVPRTY-DNDTEANEVRIGGVHSQVSSSIEYGLNLFN-KPHDSIIVKAIGSKMIS 58

Query:    59 KTVTIVELIKRRIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTTRHVSMITITLSKKELN 118
             K +   E+IK R+ GLHQ T IG+T+I   +            ++  + I ITLSK  L+
Sbjct:    59 KAIFTAEIIKLRVPGLHQITEIGTTEIVTQYMPKEEGLDKVEISKKSAFIKITLSKTPLD 118

Query:   119 RSSVGYQPPLPAE--QVKPLIEFDY 141
              ++ GYQPPLP    Q KP    DY
Sbjct:   119 TTNPGYQPPLPESETQKKPTRPRDY 143

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

RGD|1306576 Rpp25l "ribonuclease P/MRP 25 subunit-like" [Rattus norvegicus (taxid:10116)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 44/136 (32%), Positives = 68/136 (50%)

Query:     1 MDRYQR---VEKPKA----ETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAM 53
             M+ Y+R   VE P +    + P D  E+R+    ++R+ +  A+  L+   +  +VF   
Sbjct:     1 MEHYRRAGSVELPASSPMPQLPPDTLEMRVRDGSKIRNLLGLALARLEGGSTRHVVFSGS 60

Query:    54 GRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTT--RHVSMITIT 111
             GRA  K V+  E++KRR+ GLHQ T +      D+W            T  RHV  + + 
Sbjct:    61 GRAAGKAVSCAEIVKRRVPGLHQLTKLRFLQTEDSWVPTSPDTGLDPLTVRRHVPAVWVL 120

Query:   112 LSKKELNRSSVGYQPP 127
             LS+  L+ S  GYQPP
Sbjct:   121 LSRDPLDPSECGYQPP 136

GO:0003676 "nucleic acid binding" evidence=IEA

MGI|MGI:1917211 Rpp25l "ribonuclease P/MRP 25 subunit-like" [Mus musculus (taxid:10090)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 44/136 (32%), Positives = 69/136 (50%)

Query:     1 MDRYQR---VEKPKA----ETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAM 53
             M++Y+R   VE P +    + P D  E+R+    ++R+ +  A+  L+   +  +VF   
Sbjct:     1 MEQYRRAGSVELPASSPMPQLPPDTLEMRVRDGSKIRNLLGLALGRLEGGSTRHVVFSGS 60

Query:    54 GRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTT--RHVSMITIT 111
             GRA  K V+  E++KRR+ GLHQ T +      D+W            T  RHV  + + 
Sbjct:    61 GRAAGKAVSCAEIVKRRVPGLHQLTKLRFLQTEDSWVPTSPDTGLDPLTVRRHVPAVWVL 120

Query:   112 LSKKELNRSSVGYQPP 127
             LS+  L+ S  GYQPP
Sbjct:   121 LSRDPLDPSECGYQPP 136

GO:0003674 "molecular_function" evidence=ND

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q8N5L8 RPP25L "Ribonuclease P protein subunit p25-like protein" [Homo sapiens (taxid:9606)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 38/120 (31%), Positives = 60/120 (50%)

Query:    10 PKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKR 69
             P  + P D  E+R+    ++R+ +  A+  L+   +  +VF   GRA  K V+  E++KR
Sbjct:    17 PMPQLPPDTLEMRVRDGSKIRNLLGLALGRLEGGSARHVVFSGSGRAAGKAVSCAEIVKR 76

Query:    70 RIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTT--RHVSMITITLSKKELNRSSVGYQPP 127
             R+ GLHQ T +      D+W            T  RHV  + + LS+  L+ +  GYQPP
Sbjct:    77 RVPGLHQLTKLRFLQTEDSWVPASPDTGLDPLTVRRHVPAVWVLLSRDPLDPNECGYQPP 136

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|F1SEB9 RPP25L "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 38/120 (31%), Positives = 60/120 (50%)

Query:    10 PKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKR 69
             P  + P D  E+R+    ++R+ +  A+  L+   +  +VF   GRA  K V+  E++KR
Sbjct:    17 PMPQLPPDTLEMRVRDGSKIRNLLGLALGRLEGGSARHVVFSGSGRAAGKAVSCAEIVKR 76

Query:    70 RIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTT--RHVSMITITLSKKELNRSSVGYQPP 127
             R+ GLHQ T +      D+W            T  RHV  + + LS+  L+ +  GYQPP
Sbjct:    77 RVPGLHQLTKLRFLQTEDSWVPTSPDTGLDPLTVRRHVPAVWVLLSRDPLDPNECGYQPP 136

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|E2R227 LOC486757 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 174 (66.3 bits), Expect = 2.7e-13, P = 2.7e-13
 Identities = 38/120 (31%), Positives = 60/120 (50%)

Query:    10 PKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKR 69
             P  + P D  E+R+    ++R+ +  A+  L+   +  +VF   GRA  K V+  E++KR
Sbjct:    17 PMPQLPPDTLEMRVRDGSKIRNLLGLALGRLEGGSARHVVFSGSGRAAGKAVSCAEIVKR 76

Query:    70 RIVGLHQNTVIGSTDITDTWXXXXXXXXXXXTT--RHVSMITITLSKKELNRSSVGYQPP 127
             R+ GLHQ T +      D+W            T  RHV  + + LS+  L+ +  GYQPP
Sbjct:    77 RVPGLHQLTKLHFLQTEDSWVPISPDTGLDPLTVRRHVPAVWVLLSRDPLDPNECGYQPP 136

GO:0003676 "nucleic acid binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by 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: GSVIVG00015491001 SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotgun sequence); (257 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	251
pfam01918	67	pfam01918, Alba, Alba	2e-21
PRK04015	91	PRK04015, PRK04015, DNA/RNA-binding protein albA;	3e-09
COG1581	91	COG1581, Ssh10b, Archaeal DNA-binding protein [Tra	1e-07
PRK12678	672	PRK12678, PRK12678, transcription termination fact	2e-06
pfam12328	108	pfam12328, Rpp20, Rpp20 subunit of nuclear RNase M	3e-05
PTZ00146	293	PTZ00146, PTZ00146, fibrillarin; Provisional	3e-04
PTZ00146	293	PTZ00146, PTZ00146, fibrillarin; Provisional	4e-04
TIGR00285	87	TIGR00285, TIGR00285, DNA-binding protein Alba	4e-04
PTZ00146	293	PTZ00146, PTZ00146, fibrillarin; Provisional	7e-04
PRK10590	456	PRK10590, PRK10590, ATP-dependent RNA helicase Rhl	0.003

>gnl|CDD|216785 pfam01918, Alba, Alba

 Score = 84.2 bits (209), Expect = 2e-21
 Identities = 29/66 (43%), Positives = 46/66 (69%), Gaps = 1/66 (1%)

Query: 19 NEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRI-VGLHQN 77
          N I ++S+  + +Y+  A+ LL+  G++E+V K +GRAI+K V++ E++KRR   GLHQ 
Sbjct: 1  NVIYVSSKSPIMNYVKRALKLLENGGADEVVLKGLGRAISKAVSVAEILKRRFLKGLHQV 60

Query: 78 TVIGST 83
           VI ST
Sbjct: 61 NVITST 66

Alba is a novel chromosomal protein that coats archaeal DNA without compacting it. Length = 67

>gnl|CDD|235199 PRK04015, PRK04015, DNA/RNA-binding protein albA; Provisional

 Score = 52.7 bits (127), Expect = 3e-09
 Identities = 30/102 (29%), Positives = 50/102 (49%), Gaps = 12/102 (11%)

Query: 15  PIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGL 74
             +EN + +  +  M +Y+   +T   + G+ E+V KA GRAI+K V + E+++ R +  
Sbjct: 1   MAEENVVLVGKKPVM-NYVLAVLTQFNQ-GAKEVVIKARGRAISKAVDVAEIVRNRFL-- 56

Query: 75  HQNTVIGSTDI-TDTWEPLEEGLLPLETTRHVSMITITLSKK 115
             +  I    I T+     E+G        +VS I I L KK
Sbjct: 57  -PDVEIKEIKIGTEEVTS-EDG-----RESNVSTIEIVLEKK 91

Length = 91

>gnl|CDD|224497 COG1581, Ssh10b, Archaeal DNA-binding protein [Transcription]

 Score = 48.1 bits (115), Expect = 1e-07
 Identities = 31/98 (31%), Positives = 51/98 (52%), Gaps = 10/98 (10%)

Query: 18  ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQN 77
           EN + +  +  M +Y+   +T   E G++E++ KA GRAI+K V + E+++ R +    +
Sbjct: 4   ENVVLVGKKPVM-NYVLAVLTQFNE-GADEVIIKARGRAISKAVDVAEIVRNRFI---PD 58

Query: 78  TVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKK 115
             I    I       E+G      TR+VS I I L+KK
Sbjct: 59  VQIKDIKIGTEELEGEDG-----RTRNVSTIEIVLAKK 91

Length = 91

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 48.0 bits (115), Expect = 2e-06
 Identities = 31/104 (29%), Positives = 37/104 (35%), Gaps = 1/104 (0%)

Query: 142 DGEGSPNGPRRGRSGRGRSRGRGNGFVSAEYEDGGWDRNNRGYSRGRGRGRGRSFRGRGR 201
            G+         R  RGR   RG      +  D     + R   RGR  G  R  R R R
Sbjct: 175 RGDREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRRE-ERGRRDGGDRRGRRRRR 233

Query: 202 GGYNGPHFDARQDGGYNYEAPPQGSGRGRGRGNRGRGRGNRANG 245
              +    D R+D G       +G G  RGR  R R R  R  G
Sbjct: 234 DRRDARGDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRRGG 277

Length = 672

>gnl|CDD|221532 pfam12328, Rpp20, Rpp20 subunit of nuclear RNase MRP and P

 Score = 41.8 bits (99), Expect = 3e-05
 Identities = 16/69 (23%), Positives = 30/69 (43%), Gaps = 4/69 (5%)

Query: 45  SNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITD---TWEPLEEGLLPLET 101
             E+V K MG+AI K +++    +R       +   G+ ++ D     E  ++   P   
Sbjct: 40  LEEVVVKGMGKAIEKALSLALHFQREK-NYKVDVRTGTVEVVDEIVEDEDDDDDEEPETR 98

Query: 102 TRHVSMITI 110
            R VS + +
Sbjct: 99  KRTVSAVEV 107

The nuclear RNase P of Saccharomyces cerevisiae is made up of at least nine protein subunits; Pop1, Pop3, Pop4, Pop5, Pop6, Pop7, Pop8, Rpr2 and Rpp1. Many of these subunits seem to be present also in the RNase MRP, with the exception of Rpr2 (Rpp21) which is unique to RNase P. Human nuclear RNase P and MRP appear to contain at least 10 protein subunits, Rpp14, Rpp20, Rpp21, Rpp25, Rpp29, Rpp30, Rpp38, Rpp40, hPop1 and hPop5, although there is recent evidence that not all of these subunits are shared between P and MRP. Archaeal RNase P has at least four protein subunits homologous to eukaryotic RNase P/MRP proteins. In the yeast RNase P, Pop6 and Pop7 (the Rpp20 homologue) interact with each other and they are both interaction partners of Pop4; in the human MRP Rpp25 and Rpp20 interact with each other and Rpp25 binds to Rpp29 (Pop4). Length = 108

>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional

 Score = 40.9 bits (96), Expect = 3e-04
 Identities = 23/58 (39%), Positives = 24/58 (41%), Gaps = 6/58 (10%)

Query: 188 RGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPPQGSGRGRGRGNRGRGRGNRANG 245
              G     RG GRGG  G        GG       +G GRGRGRG  G GRG    G
Sbjct: 1   GMGGGFGGGRGGGRGGGGGGGRGGGGRGG------GRGGGRGRGRGGGGGGRGGGGGG 52

Length = 293

>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional

 Score = 40.5 bits (95), Expect = 4e-04
 Identities = 22/52 (42%), Positives = 22/52 (42%)

Query: 152 RGRSGRGRSRGRGNGFVSAEYEDGGWDRNNRGYSRGRGRGRGRSFRGRGRGG 203
               G G  RG G G        GG     RG  RGRGRG G   RG G GG
Sbjct: 1   GMGGGFGGGRGGGRGGGGGGGRGGGGRGGGRGGGRGRGRGGGGGGRGGGGGG 52

Length = 293

>gnl|CDD|129386 TIGR00285, TIGR00285, DNA-binding protein Alba

 Score = 38.3 bits (89), Expect = 4e-04
 Identities = 28/97 (28%), Positives = 46/97 (47%), Gaps = 10/97 (10%)

Query: 18  ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQN 77
           EN + I ++  M +Y+   +T L   G++E++ KA GRAI++ V + E+++ R       
Sbjct: 1   ENVVYIGNKPVM-NYVLAVLTQLNS-GADEVIIKARGRAISRAVDVAEIVRNRF------ 52

Query: 78  TVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSK 114
             I    I       EE         +VS I I L+K
Sbjct: 53  --IPDIKIKKIKIGTEEIKSEQGREVNVSTIEIVLAK 87

Alba has been shown to bind DNA and affect DNA supercoiling in a temperature dependent manner. It is regulated by acetylation (alba = acetylation lowers binding affinity) by the Sir2 protein. Alba is proposed to play a role in establishment or maintenace of chromatin architecture and thereby in transcription repression. This protein appears so far only in the Archaea, but may be universal there. There is a single member in three of the first four completed archaeal genomes, and a second copy in A. fulgidus. In Sulfolobus shibatae there is a tandem second copy that is poorly conserved and scores below the trusted cutoff; all other members of the family are conserved at greater than 50 % pairwise identity [DNA metabolism, Chromosome-associated proteins]. Length = 87

>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional

 Score = 39.7 bits (93), Expect = 7e-04
 Identities = 25/56 (44%), Positives = 25/56 (44%), Gaps = 8/56 (14%)

Query: 151 RRGRSGRGRSRGRGNGFVSAEYEDGGWDRNNRGYSRGRGRGRGRSFRGRGRGGYNG 206
                GRG  RG G G        GG     RG  RG GRGRGR   G GRGG  G
Sbjct: 4   GGFGGGRGGGRGGGGG--------GGRGGGGRGGGRGGGRGRGRGGGGGGRGGGGG 51

Length = 293

>gnl|CDD|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional

 Score = 38.3 bits (89), Expect = 0.003
 Identities = 19/69 (27%), Positives = 26/69 (37%), Gaps = 1/69 (1%)

Query: 180 NNRGYSRGRGRGRGRSFRGRGRGGYNGPHFDARQDGGYNYEAPPQGSGRGRGRGNRGRGR 239
           N R    G GRG+G   RG+ +G        A+       E P +  G  +  G + R R
Sbjct: 389 NGRQQRGGGGRGQGGG-RGQQQGQPRRGEGGAKSASAKPAEKPSRRLGDAKPAGEQQRRR 447

Query: 240 GNRANGPIQ 248
             R     Q
Sbjct: 448 RPRKPAAAQ 456

Length = 456

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	251
KOG2567	179	consensus Uncharacterized conserved protein [Funct	100.0
PRK04015	91	DNA/RNA-binding protein albA; Provisional	99.84
TIGR00285	87	DNA-binding protein Alba. This protein appears so	99.8
COG1581	91	Ssh10b Archaeal DNA-binding protein [Transcription	99.77
PF01918	70	Alba: Alba; InterPro: IPR002775 Members of this fa	99.71
PF12328	144	Rpp20: Rpp20 subunit of nuclear RNase MRP and P; P	99.4
KOG0921	1282	consensus Dosage compensation complex, subunit MLE	95.06
KOG3973	465	consensus Uncharacterized conserved glycine-rich p	89.69
PF05918	556	API5: Apoptosis inhibitory protein 5 (API5); Inter	85.58
PF04232	86	SpoVS: Stage V sporulation protein S (SpoVS); Inte	82.66

>KOG2567 consensus Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=6.7e-49  Score=333.01  Aligned_cols=143  Identities=45%  Similarity=0.693  Sum_probs=138.5

Q ss_pred             CCCceeccCCCCCCCCCCCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEE
Q 025528            1 MDRYQRVEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVI   80 (251)
Q Consensus         1 Md~Y~rV~kp~~~~p~~~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I   80 (251)
                      ||.|++|-||+++.|++.|+|||+.+++|+|||.||+.+|+++.++.|||+|||+||+|||+||||||+|+++|||+|+|
T Consensus         1 ~~~e~~~~kP~~d~pp~a~emrV~~g~kirN~i~~A~~~L~~~~~r~VVfsg~Grai~KTVscaEilKrRipgLhQ~t~l   80 (179)
T KOG2567|consen    1 MSVEQPASKPFPDLPPDANEMRVKSGSKIRNLIEFATELLQKGSHRCVVFSGSGRAIVKTVSCAEILKRRIPGLHQVTRL   80 (179)
T ss_pred             CccccccCCCcccCCCCcceEEEccCchHHHHHHHHHHHhhCCCeeEEEEecCCcceeeeeeHHHHHhhhCcchhhhcee
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecccccccccCCCcceeeeeeeEEEEEEecccCCCCCCCcCCCCCCcCCccCccccCCC
Q 025528           81 GSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKELNRSSVGYQPPLPAEQVKPLIEFDYDG  143 (251)
Q Consensus        81 ~sv~i~d~~ePleEgl~~~~~~R~VS~I~ItLSk~~LD~~~pGYQ~Pl~~~~v~~~~~~~~~~  143 (251)
                      .+++|+|+|+|++|||++++++||||+|+|+||+++||++++|||+|.+..+...+...+|+.
T Consensus        81 ~~~sv~d~W~p~~eGl~pl~vtRhVp~l~IlLS~deL~~~~~GyQ~P~~~p~p~~~~~~p~~~  143 (179)
T KOG2567|consen   81 RYTSVEDVWEPTEEGLEPLEVTRHVPMLHILLSLDELDPTSPGYQPPNPQPHPRSQPRHPYSP  143 (179)
T ss_pred             eeeehhhcccccccCccceEEeeccceEEEEEecccCCCCCCCccCCCCCCCCCCcccCCccc
Confidence            999999999999999999999999999999999999999999999999988888877776653

>PRK04015 DNA/RNA-binding protein albA; Provisional

Probab=99.84  E-value=1.9e-20  Score=146.45  Aligned_cols=88  Identities=33%  Similarity=0.558  Sum_probs=73.3

Q ss_pred             CCCCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeE--EEEEEecccccccc
Q 025528           16 IDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTV--IGSTDITDTWEPLE   93 (251)
Q Consensus        16 ~~~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~--I~sv~i~d~~ePle   93 (251)
                      ..+|+|+|+++ +++|||.+++.+|+ ++.++|+|||+|+||+|||+||||||+||...+++.+  |+|..+.+     +
T Consensus         2 ~~en~i~Ig~k-pvmnYV~~~~~~l~-~g~~eV~iKa~G~aIskAV~vaEilk~r~~~~v~v~~I~i~se~i~~-----~   74 (91)
T PRK04015          2 AEENVVLVGKK-PVMNYVLAVLTQFN-QGAKEVVIKARGRAISKAVDVAEIVRNRFLPDVEIKEIKIGTEEVTS-----E   74 (91)
T ss_pred             CCCCEEEEcCC-cHHHHHHHHHHHHh-CCCCeEEEEEeccccchhhhHHHHHHHhccCCeEEEEEEeccEEeec-----C
Confidence            46899999997 79999999999999 6899999999999999999999999999976666533  44433332     2


Q ss_pred             cCCCcceeeeeeeEEEEEEecc
Q 025528           94 EGLLPLETTRHVSMITITLSKK  115 (251)
Q Consensus        94 Egl~~~~~~R~VS~I~ItLSk~  115 (251)
                      +|     .+++||+|+|+|+++
T Consensus        75 ~g-----~~~~VS~IEI~l~k~   91 (91)
T PRK04015         75 DG-----RESNVSTIEIVLEKK   91 (91)
T ss_pred             CC-----cEEEEEEEEEEEecC
Confidence            33     678999999999974

>TIGR00285 DNA-binding protein Alba

Probab=99.80  E-value=5.3e-19  Score=137.22  Aligned_cols=87  Identities=31%  Similarity=0.475  Sum_probs=71.7

Q ss_pred             CCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCCC
Q 025528           18 ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLL   97 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl~   97 (251)
                      +|.|+|+++ +++|||.+++.+|+ ++.++|+|||+|+||+|||+|||+||+||...++   +..+++..+-.+.++|  
T Consensus         1 e~~i~vG~K-PvmnYVlavlt~fn-~g~~eV~iKarG~aIskAVdvaeiik~r~~~~v~---v~~I~i~te~~~~~~G--   73 (87)
T TIGR00285         1 ENVVYIGNK-PVMNYVLAVLTQLN-SGADEVIIKARGRAISRAVDVAEIVRNRFIPDIK---IKKIKIGTEEIKSEQG--   73 (87)
T ss_pred             CCEEEEcCC-cHHHHHHHHHHHHh-CCCCeEEEEEecchhhhHHHHHHHHHHhccCCce---EEEEEeccEEeecCCC--
Confidence            589999998 79999999999998 5899999999999999999999999999976555   4444444433333444  


Q ss_pred             cceeeeeeeEEEEEEec
Q 025528           98 PLETTRHVSMITITLSK  114 (251)
Q Consensus        98 ~~~~~R~VS~I~ItLSk  114 (251)
                         .+++||+|+|+|++
T Consensus        74 ---~~~~VStIEI~l~~   87 (87)
T TIGR00285        74 ---REVNVSTIEIVLAK   87 (87)
T ss_pred             ---ceeeEEEEEEEEeC
Confidence               56799999999975

This protein appears so far only in the Archaea, but may be universal there. There is a single member in three of the first four completed archaeal genomes, and a second copy in A. fulgidus. In Sulfolobus shibatae there is a tandem second copy that is poorly conserved and scores below the trusted cutoff; all other members of the family are conserved at greater than 50 % pairwise identity.

>COG1581 Ssh10b Archaeal DNA-binding protein [Transcription]

Probab=99.77  E-value=4.4e-18  Score=131.78  Aligned_cols=89  Identities=34%  Similarity=0.539  Sum_probs=74.6

Q ss_pred             CCCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCC
Q 025528           17 DENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGL   96 (251)
Q Consensus        17 ~~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl   96 (251)
                      ++|.|+|.+| +++|||..++++|++ +.++|+|||.|+||||||++||||+.||.-   .++|..++|.++-...++| 
T Consensus         3 ~envV~vG~K-PvmNYVlAvlt~fn~-g~~eViiKARGraIskAVDvaeivRnrf~p---~v~ik~Iki~se~~~~~~g-   76 (91)
T COG1581           3 EENVVLVGKK-PVMNYVLAVLTQFNE-GADEVIIKARGRAISKAVDVAEIVRNRFIP---DVQIKDIKIGTEELEGEDG-   76 (91)
T ss_pred             CccEEEEcCc-chHHHHHHHHHHHHc-CCCEEEEEecchhhHhhHhHHHHHHHhcCC---CceEEEEEecceeeecCCC-
Confidence            5699999998 799999999999995 799999999999999999999999999963   5667777766543333443 


Q ss_pred             CcceeeeeeeEEEEEEecc
Q 025528           97 LPLETTRHVSMITITLSKK  115 (251)
Q Consensus        97 ~~~~~~R~VS~I~ItLSk~  115 (251)
                          .+++||+|+|.|.+.
T Consensus        77 ----r~~~VS~IeI~L~k~   91 (91)
T COG1581          77 ----RTRNVSTIEIVLAKK   91 (91)
T ss_pred             ----ceeeEEEEEEEEecC
Confidence                477999999999873

>PF01918 Alba: Alba; InterPro: IPR002775 Members of this family include the archaeal protein Alba and a number of eukaryotic proteins with no known function

Probab=99.71  E-value=7.3e-17  Score=118.71  Aligned_cols=65  Identities=40%  Similarity=0.653  Sum_probs=58.1

Q ss_pred             CeEEEcCCCchhHHHHHHHHHH---hhCCCCeEEEEEcChhHHHHHHHHHHHHHHhc-CccceeEEEEE
Q 025528           19 NEIRITSQGRMRSYITYAMTLL---QERGSNEIVFKAMGRAINKTVTIVELIKRRIV-GLHQNTVIGST   83 (251)
Q Consensus        19 NeIrVt~k~kirnyV~~A~~lL---~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~-GLhQ~t~I~sv   83 (251)
                      |+|+|++++++++||.+|+.+|   +..+.++|+|+|+|+||+|||+||||||+++. +|||++.+.+.
T Consensus         1 n~I~V~~~~~~~~~v~~~~~~L~~~~~~~~~~V~l~g~G~aI~kaI~vaei~K~~~~~~~~qv~~~t~t   69 (70)
T PF01918_consen    1 NEIYVSSNSPIKSYVKRALKLLEGRENGKNDEVVLKGRGKAISKAISVAEILKRRFGEGLYQVNKITST   69 (70)
T ss_dssp             SEEEE-STS-HHHHHHHHHHHHT-TTHTTCSEEEEEEECCHHHHHHHHHHHHHHHTSTTTEEEEEEEEE
T ss_pred             CEEEECCCCCHHHHHHHHHHHHhhhhcCCCCEEEEEEEcHHHHHHHHHHHHHHHhhcCCCEEEEEEecc
Confidence            7999999999999999999999   44679999999999999999999999999995 89999887753

The DNA/RNA-binding protein Alba binds double-stranded DNA tightly but without sequence specificity. It binds rRNA and mRNA in vivo, and may play a role in maintaining the structural and functional stability of RNA, and, perhaps, ribosomes. It is distributed uniformly and abundantly on the chromosome. Alba has been shown to bind DNA and affect DNA supercoiling in a temperature dependent manner []. It is regulated by acetylation (alba = acetylation lowers binding affinity) by the Sir2 protein. Alba is proposed to play a role in establishment or maintenance of chromatin architecture and thereby in transcription repression. For further information see [].; GO: 0003676 nucleic acid binding; PDB: 3TOE_B 3IAB_A 1NFJ_A 1NFH_B 2Q3V_B 1VM0_B 1NH9_A 1Y9X_A 3U6Y_C 2H9U_A ....

>PF12328 Rpp20: Rpp20 subunit of nuclear RNase MRP and P; PDB: 3IAB_B

Probab=99.40  E-value=1.1e-12  Score=110.47  Aligned_cols=93  Identities=27%  Similarity=0.389  Sum_probs=66.7

Q ss_pred             CCeEEEcCCCchhHHHHHHHHHHhh---C----------------C------------CCeEEEEEcChhHHHHHHHHHH
Q 025528           18 ENEIRITSQGRMRSYITYAMTLLQE---R----------------G------------SNEIVFKAMGRAINKTVTIVEL   66 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~~lL~~---~----------------~------------~~~VvIka~G~AIsKAV~vAEI   66 (251)
                      ++.|+|+++++|++.|..+.+||..   .                .            ..+|+|||||+||.||++||.-
T Consensus         3 ~~~iyVss~TPfmSavKRv~K~L~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~gtGkAIeKal~la~~   82 (144)
T PF12328_consen    3 PKVIYVSSKTPFMSAVKRVRKLLDKAEKRATSSVNLAKKKKSQKKKIAQLAEGSEALKSEEVTVKGTGKAIEKALSLALW   82 (144)
T ss_dssp             TTEEE--SS--HHHHHHHHHHHHHHHHHH----------------T-------------SEEEEEEEGGGHHHHHHHHHH
T ss_pred             CcEEEEecCCchHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccCccEEEEEeccHHHHHHHHHHHH
Confidence            5789999999999999999999963   1                1            2799999999999999999999


Q ss_pred             HHHHhcCccceeEEEEEEecccccccc------------------cCCCcceeeeeeeEEEEE
Q 025528           67 IKRRIVGLHQNTVIGSTDITDTWEPLE------------------EGLLPLETTRHVSMITIT  111 (251)
Q Consensus        67 LKrRi~GLhQ~t~I~sv~i~d~~ePle------------------Egl~~~~~~R~VS~I~It  111 (251)
                      |++.. ++--.+.+.||.+.|++++.+                  +..++...+|.||+|+|.
T Consensus        83 Fq~~~-~~~V~V~TgTV~vvDdi~~~e~~~~~~~~~~~~~~~~~~~~~~~esR~R~vS~VEv~  144 (144)
T PF12328_consen   83 FQRKK-GYKVEVRTGTVEVVDDIVEDEDEDEDEEESEEREDDDDDEDEEPESRTRWVSMVEVA  144 (144)
T ss_dssp             HHHTT----EEEEEEEEEEEEE-----------------------------EEEEEEEEEEEE
T ss_pred             HhhcC-CeEEEEEeceEEEEEEEeeccccccccccccccccCccccccCccceEEeeEEEEEC
Confidence            98875 454569999999999998653                  456788999999999984

>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]

Probab=95.06  E-value=0.15  Score=54.62  Aligned_cols=8  Identities=38%  Similarity=0.717  Sum_probs=4.2

Q ss_pred             eccccccc
Q 025528           85 ITDTWEPL   92 (251)
Q Consensus        85 i~d~~ePl   92 (251)
                      +.|+|.-+
T Consensus      1081 ~VDdWIkl 1088 (1282)
T KOG0921|consen 1081 RVDDWIKL 1088 (1282)
T ss_pred             EeeceeeE
Confidence            45566544

>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]

Probab=89.69  E-value=2.3  Score=41.43  Aligned_cols=17  Identities=24%  Similarity=0.120  Sum_probs=7.8

Q ss_pred             eeeeEEEEEEecccCCC
Q 025528          103 RHVSMITITLSKKELNR  119 (251)
Q Consensus       103 R~VS~I~ItLSk~~LD~  119 (251)
                      +..|.|+=++.-...|.
T Consensus       289 ~Taski~k~~igrvPDR  305 (465)
T KOG3973|consen  289 RTASKIHKLSIGRVPDR  305 (465)
T ss_pred             hhhhhhcccccccCCCC
Confidence            34455654444332244

>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms

Probab=85.58  E-value=0.47  Score=48.24  Aligned_cols=34  Identities=21%  Similarity=0.228  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHHHhcCccceeEEEEE--Eeccccccc
Q 025528           59 KTVTIVELIKRRIVGLHQNTVIGST--DITDTWEPL   92 (251)
Q Consensus        59 KAV~vAEILKrRi~GLhQ~t~I~sv--~i~d~~ePl   92 (251)
                      .|+.+++=|-.-+..||...-+...  .|+=.|.+.
T Consensus       429 ~aLkt~~NI~~lik~L~~~pPsf~~~~~itlSWk~~  464 (556)
T PF05918_consen  429 TALKTTNNILALIKDLFHNPPSFKSTKNITLSWKEA  464 (556)
T ss_dssp             HHHHHHHHHHHHHCC----------------TTS--
T ss_pred             HHHHHHhhHHHHHHHHhhCCcccccccccceeeeec
Confidence            4665666566666677665333322  255567543

Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.

>PF04232 SpoVS: Stage V sporulation protein S (SpoVS); InterPro: IPR007347 In Bacillus subtilis this protein interferes with sporulation at an early stage and this inhibitory effect is overcome by SpoIIB and SpoVG

Probab=82.66  E-value=21  Score=27.97  Aligned_cols=51  Identities=16%  Similarity=0.350  Sum_probs=35.4

Q ss_pred             CeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcC-hhHHHHHHHHHHHHHHh
Q 025528           19 NEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMG-RAINKTVTIVELIKRRI   71 (251)
Q Consensus        19 NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G-~AIsKAV~vAEILKrRi   71 (251)
                      +.++|.+++.....-..-...|.++  ..+.|.++| .|++.||.-.-|-+.-+
T Consensus         2 e~LKVSs~S~p~~vAgAIa~~lre~--~~v~lqaiGa~AvnqAvKAIAiAR~~l   53 (86)
T PF04232_consen    2 EVLKVSSKSNPNAVAGAIAGVLREG--GKVELQAIGAGAVNQAVKAIAIARGYL   53 (86)
T ss_dssp             -EEEE-TT--HHHHHHHHHHHHHHT--SEEEEEE-SHHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEcCCCCHHHHHHHHHHHHhcC--CcEEEEEECHHHHHHHHHHHHHHHHhh
Confidence            4689999988887777777777753  699999999 78888887766666544

SpoVS seems to play a positive role in allowing progression beyond stage V of sporulation. Null mutations in the spoVS gene block sporulation at stage V, impairing the development of heat resistance and coat assembly [].; PDB: 2EH1_B 2EK0_B.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	251
2h9u_A	102	Crystal Structure Of The Archaea Specific Dna Bindi		2e-05
1h0x_A	100	Structure Of Alba: An Archaeal Chromatin Protein Mo		2e-04
2bky_A	97	Crystal Structure Of The Alba1:alba2 Heterodimer Fr		6e-04
1y9x_A	97	Solution Structure Of Archaeon Dna-Binding Protein		8e-04

>pdb|2H9U|A Chain A, Crystal Structure Of The Archaea Specific Dna Binding Protein Length = 102

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/95 (34%), Positives = 49/95 (51%), Gaps = 5/95 (5%)
Query: 20  EIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTV 79
           E+RI  +  M +Y+   +T L E+G+N++V KA GR IN+ V  VE++++R     +N  
Sbjct: 8   EVRIGRKPVM-NYVLAILTTLMEQGTNQVVVKARGRNINRAVDAVEIVRKR---FAKNIE 63
Query: 80  IGSTDITDTWXXXXXXXXXXXTTRHVSMITITLSK 114
           I    I D+             TR VS I I L K
Sbjct: 64  IKDIKI-DSQEIEVQTPEGQTRTRRVSSIEICLEK 97

>pdb|1H0X|A Chain A, Structure Of Alba: An Archaeal Chromatin Protein Modulated By Acetylation Length = 100

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 7  VEKPKAETPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVEL 66
          +EK  + TP   N + I  +  M +Y+  A+TLL + G +EIV KA GRAI+K V  VE+
Sbjct: 1  MEKMSSGTPTPSNVVLIGKKPVM-NYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEI 58
Query: 67 IKRR 70
          ++ R
Sbjct: 59 VRNR 62

>pdb|2BKY|A Chain A, Crystal Structure Of The Alba1:alba2 Heterodimer From Sulfolobus Solfataricus Length = 97

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/57 (43%), Positives = 36/57 (63%), Gaps = 2/57 (3%)
Query: 14 TPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRR 70
          TP   N + I  +  M +Y+  A+TLL + G +EIV KA GRAI+K V  VE+++ R
Sbjct: 5  TPTPSNVVLIGKKPVM-NYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVRNR 59

>pdb|1Y9X|A Chain A, Solution Structure Of Archaeon Dna-Binding Protein Ssh10b Length = 97

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 25/60 (41%), Positives = 37/60 (61%), Gaps = 2/60 (3%)
Query: 14 TPIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVG 73
          TP   N + I  +  M +Y+  A+TLL + G +EIV KA GRAI+K V  VE+++ R + 
Sbjct: 5  TPTPSNVVLIGKKPVM-NYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVRNRFLA 62

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	251
2h9u_A	102	DNA/RNA-binding protein ALBA 2; archaea, DNA bindi	99.94
1nfj_A	89	ALBA, conserved hypothetical protein AF1956; SIR2,	99.92
2bky_A	97	DNA/RNA-binding protein ALBA 1; archaeal DNA bindi	99.92
1nh9_A	87	MJA10B, DNA-binding protein ALBA; 2.00A {Methanoca	99.92
3toe_A	91	MTH10B, DNA/RNA-binding protein ALBA; SAC10B famil	99.89
2bky_X	89	DNA/RNA-binding protein ALBA 2; archaeal DNA bindi	99.85
1vm0_A	130	Unknown protein; structural genomics, protein stru	99.78
3iab_B	140	Ribonucleases P/MRP protein subunit POP7; RNAse P,	99.7
3iab_A	158	Ribonucleases P/MRP protein subunit POP6; RNAse P,	98.21
1b34_A	119	Protein (small nuclear ribonucleoprotein SM D1); s	82.99

>2h9u_A DNA/RNA-binding protein ALBA 2; archaea, DNA binding protein, structural G NPPSFA, national project on protein structural and function analyses; 2.00A {Aeropyrum pernix} PDB: 3u6y_A*

Probab=99.94  E-value=2.5e-26  Score=181.87  Aligned_cols=93  Identities=34%  Similarity=0.538  Sum_probs=85.0

Q ss_pred             CCeEEEcCCCchhHHHHHHH-HHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHh-cCcc-ceeEEEEEEeccccccccc
Q 025528           18 ENEIRITSQGRMRSYITYAM-TLLQERGSNEIVFKAMGRAINKTVTIVELIKRRI-VGLH-QNTVIGSTDITDTWEPLEE   94 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~-~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi-~GLh-Q~t~I~sv~i~d~~ePleE   94 (251)
                      +|+|+|++++ .+|||.+|+ .||+ +++++|+|||+|+||+|||+||||||+|| ++|| |.++|+|.++.|+||   +
T Consensus         6 ~n~I~V~~k~-~~nyV~~a~~~ll~-~g~~eV~ikA~G~AIskAV~vaEilk~r~~~gl~~q~i~i~s~~i~d~~e---~   80 (102)
T 2h9u_A            6 APEVRIGRKP-VMNYVLAILTTLME-QGTNQVVVKARGRNINRAVDAVEIVRKRFAKNIEIKDIKIDSQEIEVQTP---E   80 (102)
T ss_dssp             CCEEECCSSC-HHHHHHHHHHHHTS-TTCCEEEEEEETTHHHHHHHHHHHHHHHTTTTEEEEEEEEEEEEEEEECT---T
T ss_pred             CCEEEEcCCC-HHHHHHHHHHHHHh-CCCCEEEEEEechhhhHHHHHHHHHHHhccCCceEEEEEEeeEEEecccc---C
Confidence            5999999996 489999999 9998 68999999999999999999999999999 7999 999999999999854   5


Q ss_pred             CCCcceeeeeeeEEEEEEecccCC
Q 025528           95 GLLPLETTRHVSMITITLSKKELN  118 (251)
Q Consensus        95 gl~~~~~~R~VS~I~ItLSk~~LD  118 (251)
                      |+   .++|+||+|+|+|+++|..
T Consensus        81 g~---~~~r~vS~IeI~Lsk~~~~  101 (102)
T 2h9u_A           81 GQ---TRTRRVSSIEICLEKAGES  101 (102)
T ss_dssp             SC---EEEEEEEEEEEEEEECSSC
T ss_pred             Cc---cceeEeeeEEEEEEccCCC
Confidence            54   3789999999999998764

>1nfj_A ALBA, conserved hypothetical protein AF1956; SIR2, HDAC, gene regulation, transcription; 2.00A {Archaeoglobus fulgidus} SCOP: d.68.6.1 PDB: 1nfh_A 2z7c_A*

Probab=99.92  E-value=5.2e-25  Score=170.32  Aligned_cols=86  Identities=30%  Similarity=0.575  Sum_probs=78.8

Q ss_pred             CCCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHh-cCcc-ceeEEEEEEeccccccccc
Q 025528           17 DENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRI-VGLH-QNTVIGSTDITDTWEPLEE   94 (251)
Q Consensus        17 ~~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi-~GLh-Q~t~I~sv~i~d~~ePleE   94 (251)
                      ++|+|+|++++ +++||.+|+.||+ +++++|+|||+|+||+|||+||||||+|| ++|| |.++|+|.++.|     ++
T Consensus         2 ~~n~I~V~~k~-v~~yV~~~~~~l~-~g~~eV~ika~G~AIskAV~vaeilk~r~~~gl~i~~i~i~s~~i~~-----e~   74 (89)
T 1nfj_A            2 AEHVVYVGNKP-VMNYVLATLTQLN-EGADEVVIKARGRAISRAVDVAEIVRNRFMPGVKVKEIKIDTEELES-----EQ   74 (89)
T ss_dssp             -CEEEECCSSC-HHHHHHHHHHHHH-TTCSEEEEEEETTHHHHHHHHHHHHHHHTCTTCEEEEEEEEEEECCC-----BT
T ss_pred             CCCEEEEcCCC-HHHHHHHHHHHHh-CCCCEEEEEEecHHHHHHHHHHHHHHHhccCCcEEEEEEEeEEEEEc-----CC
Confidence            68999999986 9999999999999 68999999999999999999999999999 8899 999999998876     34


Q ss_pred             CCCcceeeeeeeEEEEEEec
Q 025528           95 GLLPLETTRHVSMITITLSK  114 (251)
Q Consensus        95 gl~~~~~~R~VS~I~ItLSk  114 (251)
                      |     .+|+||+|+|+|++
T Consensus        75 g-----~~r~vs~IeI~L~k   89 (89)
T 1nfj_A           75 G-----RRSNVSTIEIVLAK   89 (89)
T ss_dssp             T-----BCCEEEEEEEEEEC
T ss_pred             C-----cEEEeeEEEEEEEC
Confidence            4     68999999999986

>2bky_A DNA/RNA-binding protein ALBA 1; archaeal DNA binding protein, DNA condensation, DNA-binding, DNA binding protein; 1.70A {Sulfolobus solfataricus} SCOP: d.68.6.1 PDB: 1h0x_A* 1h0y_A* 1y9x_A

Probab=99.92  E-value=6.6e-25  Score=172.26  Aligned_cols=89  Identities=37%  Similarity=0.588  Sum_probs=79.8

Q ss_pred             CCCCCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcC--c-cceeEEEEEEecccccc
Q 025528           15 PIDENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVG--L-HQNTVIGSTDITDTWEP   91 (251)
Q Consensus        15 p~~~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~G--L-hQ~t~I~sv~i~d~~eP   91 (251)
                      +.++|+|+|++++ +++||.+|+.||+ +++++|+|||+|+||+|||+||||||+||.+  | ||.++|+|.++.|    
T Consensus         6 ~~~~n~I~V~~k~-v~~YV~~a~~ll~-~g~~eV~ikA~G~AIskAV~vaeilk~r~~~~~l~~~~i~i~s~~i~~----   79 (97)
T 2bky_A            6 PTPSNVVLIGKKP-VMNYVLAALTLLN-QGVSEIVIKARGRAISKAVDTVEIVRNRFLPDKIEIKEIRVGSQVVTS----   79 (97)
T ss_dssp             ---CCEEECCSSC-HHHHHHHHHHHHH-TTCCEEEEEEETTHHHHHHHHHHHHHHHTSTTTEEEEEEEEEEEEEEE----
T ss_pred             CCCCCEEEEcCcC-HHHHHHHHHHHHh-CCCCEEEEEEechHHHHHHHHHHHHHHhccCCceEEEEEEeeeEEEec----
Confidence            5678999999997 9999999999999 6899999999999999999999999999965  8 8999999999887    


Q ss_pred             cccCCCcceeeeeeeEEEEEEecc
Q 025528           92 LEEGLLPLETTRHVSMITITLSKK  115 (251)
Q Consensus        92 leEgl~~~~~~R~VS~I~ItLSk~  115 (251)
                       |||     .+|+||+|+|+|+++
T Consensus        80 -e~G-----~~r~vS~IeI~L~k~   97 (97)
T 2bky_A           80 -QDG-----RQSRVSTIEIAIRKK   97 (97)
T ss_dssp             -TTS-----CEEEEEEEEEEEEEC
T ss_pred             -CCC-----cEEEeeEEEEEEEcC
Confidence             344     789999999999974

>1nh9_A MJA10B, DNA-binding protein ALBA; 2.00A {Methanocaldococcus jannaschii} SCOP: d.68.6.1

Probab=99.92  E-value=1.1e-24  Score=167.78  Aligned_cols=84  Identities=31%  Similarity=0.564  Sum_probs=73.5

Q ss_pred             CCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHh-cCcc-ceeEEEEEEecccccccccC
Q 025528           18 ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRI-VGLH-QNTVIGSTDITDTWEPLEEG   95 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi-~GLh-Q~t~I~sv~i~d~~ePleEg   95 (251)
                      +|+|+|+++ ++++||.+|+.||++ + ++|+|||+|+||+|||+||||||+|| ++|| |.++|+|.++.|+     +|
T Consensus         2 ~n~I~V~~k-~v~~YV~~~~~~l~~-g-~eV~ikA~G~AIskAV~vaeilk~r~~~~l~v~~i~i~s~~i~~e-----~g   73 (87)
T 1nh9_A            2 DNVVLIGKK-PVMNYVVAVLTQLTS-N-DEVIIKARGKAINKAVDVAEMIRNRFIKDIKIKKIEIGTDKVKNP-----DG   73 (87)
T ss_dssp             CSEEEECSS-CHHHHHHHHHHHHHH-C-SEEEEEEEGGGHHHHHHHHHHHHHHTCTTCEEEEEEEEEEC-----------
T ss_pred             CCEEEEeCc-chHHHHHHHHHHhcC-C-CEEEEEEechHHHHHHHHHHHHHHhccCCeEEEEEEEeEEEEEcC-----CC
Confidence            699999999 999999999999995 6 99999999999999999999999999 7799 9999999988873     34


Q ss_pred             CCcceeeeeeeEEEEEEec
Q 025528           96 LLPLETTRHVSMITITLSK  114 (251)
Q Consensus        96 l~~~~~~R~VS~I~ItLSk  114 (251)
                           .+|+||+|+|+|++
T Consensus        74 -----~~r~vS~IeI~L~k   87 (87)
T 1nh9_A           74 -----REVNVSTIEIVLAK   87 (87)
T ss_dssp             ------CCCEEEEEEEEEC
T ss_pred             -----cEEEeeEEEEEEEC
Confidence                 67999999999986

>3toe_A MTH10B, DNA/RNA-binding protein ALBA; SAC10B family, alpha/beta mixed, homodimer, unknown function; 2.20A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=99.89  E-value=6.8e-23  Score=159.20  Aligned_cols=89  Identities=30%  Similarity=0.479  Sum_probs=81.2

Q ss_pred             CCCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCC
Q 025528           17 DENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGL   96 (251)
Q Consensus        17 ~~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl   96 (251)
                      ++|.|+|.++ +++|||.+|+.+|+ +++++|+|||+|+||+|||++|||||+||.   +.++++++++.++|.+.++| 
T Consensus         3 ~~~vv~vg~K-pv~~YV~~~i~~~n-~g~~eV~ikA~G~aIskAVdvaei~k~R~~---~~v~v~~I~I~se~~~~e~G-   76 (91)
T 3toe_A            3 EENVVYIGNK-PVMNYVLAVVTQMN-GGTSEVILKARGIAISRAVDVAEIVRNRFI---PDIQIENIDICTEEIIGNEG-   76 (91)
T ss_dssp             --CCEECCSS-CHHHHHHHHHHHHH-TTCCEEEEEEETTHHHHHHHHHHHHHHHTC---TTCEEEEEEEEEEEEECTTS-
T ss_pred             ccCEEEECCC-cHHHHHHHHHHHHh-CCCCEEEEEEehhHHHHHHHHHHHHHHhcc---CCcEEEEEEeeeEEeecCCC-
Confidence            4789999997 79999999999999 689999999999999999999999999997   46899999999999999887 


Q ss_pred             CcceeeeeeeEEEEEEecc
Q 025528           97 LPLETTRHVSMITITLSKK  115 (251)
Q Consensus        97 ~~~~~~R~VS~I~ItLSk~  115 (251)
                          .+|+||+|+|+|+++
T Consensus        77 ----~~r~VS~IeI~L~k~   91 (91)
T 3toe_A           77 ----TATNVSAIEIQLRKD   91 (91)
T ss_dssp             ----SEEEEEEEEEEEEC-
T ss_pred             ----ceeEeeEEEEEEECC
Confidence                789999999999985

>2bky_X DNA/RNA-binding protein ALBA 2; archaeal DNA binding protein, DNA condensation, DNA-binding, DNA binding protein; 1.70A {Sulfolobus solfataricus} SCOP: d.68.6.1 PDB: 2a2y_A 1udv_A

Probab=99.85  E-value=3.6e-21  Score=148.97  Aligned_cols=84  Identities=19%  Similarity=0.292  Sum_probs=70.1

Q ss_pred             CCCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCC
Q 025528           17 DENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGL   96 (251)
Q Consensus        17 ~~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl   96 (251)
                      ++|.|+|+++ +++|||.+|+.||+ +++++|+|||+|+||+|||+||||||+||.++||+.+   +++..+     +  
T Consensus         5 ~~~iv~vg~k-pv~nYV~~~~~~ln-~g~~eV~ikA~G~aIskAVdvaeilk~R~~~~~~i~~---i~i~se-----~--   72 (89)
T 2bky_X            5 LNEIVVRKTK-NVEDHVLDVIVLFN-QGIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLVN---VQTGSE-----V--   72 (89)
T ss_dssp             CEEEECCTTS-CHHHHHHHHHHHHH-TTCCEEEEEEETTHHHHHHHHHHHHHHHHGGGEEEEE---EEEEEE-----E--
T ss_pred             CCCEEEECCC-CHHHHHHHHHHHHh-CCCCEEEEEEechHHHHHHHHHHHHHHhccCceEEEE---EEeccc-----c--
Confidence            4567777766 89999999999999 6899999999999999999999999999997766543   333322     1  


Q ss_pred             CcceeeeeeeEEEEEEecc
Q 025528           97 LPLETTRHVSMITITLSKK  115 (251)
Q Consensus        97 ~~~~~~R~VS~I~ItLSk~  115 (251)
                         ..+|+||+|+|+|+++
T Consensus        73 ---~~~r~VS~IeI~L~k~   88 (89)
T 2bky_X           73 ---RDRRRISYILLRLKRV   88 (89)
T ss_dssp             ---ETTEEEEEEEEEEEEC
T ss_pred             ---CcceEeeeEEEEEEec
Confidence               4679999999999974

>1vm0_A Unknown protein; structural genomics, protein structure initiative, CESG, AT2 unknown function, nitrate; 1.80A {Arabidopsis thaliana} SCOP: d.68.6.2 PDB: 2q3v_A

Probab=99.78  E-value=7.7e-19  Score=144.17  Aligned_cols=91  Identities=25%  Similarity=0.375  Sum_probs=73.6

Q ss_pred             CCCCCeEEEcC-CCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccc
Q 025528           15 PIDENEIRITS-QGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLE   93 (251)
Q Consensus        15 p~~~NeIrVt~-k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePle   93 (251)
                      +.++|+|+|+. +.++++||.+|+.+|+  ++++|+|||||+||++||+||||||+|+...++.+.|++.++.++     
T Consensus        17 ~~~~N~I~Vs~~kkP~~nYV~~a~~~l~--g~~eV~LkA~G~AIskAV~VAEiLkrr~l~~ikkI~t~t~~i~~~-----   89 (130)
T 1vm0_A           17 SQKKNRIQVSNTKKPLFFYVNLAKRYMQ--QYNDVELSALGMAIATVVTVTEILKNNGFAVEKKIMTSIVDIKDD-----   89 (130)
T ss_dssp             --CTTEEECCCTTSCHHHHHHHHHHHHH--HHSEEEEEEEGGGHHHHHHHHHHHHHTTSEEEEEEEEEEEEEC-------
T ss_pred             CCCCCEEEEecCCCCceeHHHHHHHHHc--CCCEEEEEechHHHHHHHHHHHHHHhcCcceEEEEEeeeEEeccC-----
Confidence            45799999997 4789999999999998  589999999999999999999999999876677777788877653     


Q ss_pred             cCCCcceeeeeeeEEEEEEeccc
Q 025528           94 EGLLPLETTRHVSMITITLSKKE  116 (251)
Q Consensus        94 Egl~~~~~~R~VS~I~ItLSk~~  116 (251)
                      +    -....++|.|+|+|++.+
T Consensus        90 ~----~~r~v~~skIEI~L~k~~  108 (130)
T 1vm0_A           90 A----RGRPVQKAKIEITLVKSE  108 (130)
T ss_dssp             --------CEEEEEEEEEEEECT
T ss_pred             C----CCcccccceEEEEEEecC
Confidence            1    124456799999999864

>3iab_B Ribonucleases P/MRP protein subunit POP7; RNAse P, ribonuclease P, ribonuclease MRP, POP6, POP6P, POP7, POP7P, NME1, yeast, tRNA; 2.70A {Saccharomyces cerevisiae}

Probab=99.70  E-value=1.7e-16  Score=131.64  Aligned_cols=108  Identities=17%  Similarity=0.178  Sum_probs=86.3

Q ss_pred             eeccCCCCCCCCC----CCeEEEcCCCchhHHHHHHHHHHhh---CCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccce
Q 025528            5 QRVEKPKAETPID----ENEIRITSQGRMRSYITYAMTLLQE---RGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQN   77 (251)
Q Consensus         5 ~rV~kp~~~~p~~----~NeIrVt~k~kirnyV~~A~~lL~~---~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~   77 (251)
                      +.|.++.+..|..    +|+|+|+++++|.+.|..|.+||+.   .+.++|+|||||+||+||++||..|+++. +|.-.
T Consensus        13 k~irk~P~~k~~s~~~~~~~iYV~skTpf~S~vkRi~KlL~~~~k~~~~eV~v~GmGkAIeKal~lAl~fq~~~-~~~V~   91 (140)
T 3iab_B           13 KRVTKHPSLKTLTHKQIHTTIFVKSTTPYVSALKRINKFLDSVHKQGSSYVAVLGMGKAVEKTLALGCHFQDQK-NKKIE   91 (140)
T ss_dssp             -CCEECCCCCCCCHHHHTTEEECCSSCCHHHHHHHHHHHHHHHHHHTCSEEEEEEEGGGHHHHHHHHHHHHHTT-CCCEE
T ss_pred             CccCCCCCCcCccccccCceEEEecCCchHHHHHHHHHHHHHhhcCCCcEEEEEechHHHHHHHHHHHHHhhcC-CEEEE
Confidence            4455544444544    8999999999999999999999984   16899999999999999999999999874 56667


Q ss_pred             eEEEEEEecccccccccC------------CCcceeeeeeeEEEEEEe
Q 025528           78 TVIGSTDITDTWEPLEEG------------LLPLETTRHVSMITITLS  113 (251)
Q Consensus        78 t~I~sv~i~d~~ePleEg------------l~~~~~~R~VS~I~ItLS  113 (251)
                      +.++||.+.|+++|.++.            .++...+|+||+|||.++
T Consensus        92 V~T~TV~vvDd~~~~~~~~~~~d~~~~d~d~e~~~rkR~vS~VeirIy  139 (140)
T 3iab_B           92 VYTKTIEVLDEVITEGQADIDMESDVEDDDKETQLKKRAVSGVELRIY  139 (140)
T ss_dssp             EEEEEEEEEEECC--------------------CEEEEEEEEEEEEEE
T ss_pred             EEeceEEEEEeeeecCCcccccccccccccccchheeeeeeeEEEEEe
Confidence            999999999999998765            578899999999999986

>3iab_A Ribonucleases P/MRP protein subunit POP6; RNAse P, ribonuclease P, ribonuclease MRP, POP6, POP6P, POP7, POP7P, NME1, yeast, tRNA; 2.70A {Saccharomyces cerevisiae}

Probab=98.21  E-value=1.7e-05  Score=66.66  Aligned_cols=91  Identities=16%  Similarity=0.171  Sum_probs=71.2

Q ss_pred             EEEcCCCchhHHHHHHHHHHhh-----CCCCeEEEEEcChhHHHHHHHHHHHHHHh----cCccceeEEEEEEecccccc
Q 025528           21 IRITSQGRMRSYITYAMTLLQE-----RGSNEIVFKAMGRAINKTVTIVELIKRRI----VGLHQNTVIGSTDITDTWEP   91 (251)
Q Consensus        21 IrVt~k~kirnyV~~A~~lL~~-----~~~~~VvIka~G~AIsKAV~vAEILKrRi----~GLhQ~t~I~sv~i~d~~eP   91 (251)
                      +.|+++..|...|..-.++|+.     ...+.|.|.+.|..|.|++++.||+|..+    ..|||++++.+......   
T Consensus        47 ~kIsKNDnIK~~V~kL~~~l~~~~~s~~~~~~V~l~syg~hIQKmLSIvEI~Kk~~~~~~~~l~Q~NkL~~f~~v~~---  123 (158)
T 3iab_A           47 HGISKNDNIKKSVNKLDKQINMADRSLGLQQVVCIFSYGPHIQKMLSILEIFKKGYIKNNKKIYQWNKLTSFDIKRE---  123 (158)
T ss_dssp             EECCTTCCHHHHHHHHHHHHTCSCTTTTCEEEEEEEEEGGGHHHHHHHHHHHHHHHHTTTCCCEEEEEEEEEEEC-----
T ss_pred             EEeccCchHHHHHHHHHHHHhhhccccccCceEEEEecChHHHHHHHHHHHHHHHhhcCCccHHHHhhhhhhccCCc---
Confidence            4599999999999999888841     24689999999999999999999999988    34999999998865432   


Q ss_pred             cccCCCcceeeeeeeEEEEEEeccc
Q 025528           92 LEEGLLPLETTRHVSMITITLSKKE  116 (251)
Q Consensus        92 leEgl~~~~~~R~VS~I~ItLSk~~  116 (251)
                      .-.  +-++.+-+||-+-+.+++.+
T Consensus       124 grN--ELle~r~~vPILi~~i~~~~  146 (158)
T 3iab_A          124 GRN--ELQEERLKVPILVTMVSDSE  146 (158)
T ss_dssp             -------CCCCEEEEEEEEEEESSS
T ss_pred             ccc--HHHHhhcCCCEEEEEEeccc
Confidence            111  23556678999888888865

>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A

Probab=82.99  E-value=0.24  Score=39.24  Aligned_cols=8  Identities=13%  Similarity=0.372  Sum_probs=3.4

Q ss_pred             eeeeEEEE
Q 025528          103 RHVSMITI  110 (251)
Q Consensus       103 R~VS~I~I  110 (251)
                      +++..|.|
T Consensus        53 ~~lg~v~I   60 (119)
T 1b34_A           53 VQLETLSI   60 (119)
T ss_dssp             EEEEEEEE
T ss_pred             eEcceEEE
Confidence            34444443

---

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	251
d2bkya1	89	d.68.6.1 (A:9-97) DNA-binding protein AlbA {Archae	6e-31
d1nfja_	87	d.68.6.1 (A:) DNA-binding protein AlbA {Archaeon A	1e-29
d1nh9a_	87	d.68.6.1 (A:) DNA-binding protein AlbA {Archaeon M	4e-27
d1vm0a_	99	d.68.6.2 (A:) Hypothetical protein At2g34160 {Thal	1e-23
d2bkyx1	86	d.68.6.1 (X:4-89) DNA-binding protein AlbA {Archae	1e-22

>d2bkya1 d.68.6.1 (A:9-97) DNA-binding protein AlbA {Archaeon Sulfolobus solfataricus, Sso10b1 [TaxId: 2287]} Length = 89

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Sulfolobus solfataricus, Sso10b1 [TaxId: 2287]

 Score =  108 bits (271), Expect = 6e-31
 Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 9/97 (9%)

Query: 19  NEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNT 78
           N + I  +  M +Y+  A+TLL + G +EIV KA GRAI+K V  VE+++ R   L    
Sbjct: 2   NVVLIGKKPVM-NYVLAALTLLNQ-GVSEIVIKARGRAISKAVDTVEIVRNRF--LPDKI 57

Query: 79  VIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKK 115
            I    +       ++G         VS I I + KK
Sbjct: 58  EIKEIRVGSQVVTSQDG-----RQSRVSTIEIAIRKK 89

>d1nfja_ d.68.6.1 (A:) DNA-binding protein AlbA {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 87

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score =  104 bits (261), Expect = 1e-29
 Identities = 27/97 (27%), Positives = 48/97 (49%), Gaps = 10/97 (10%)

Query: 18  ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQN 77
           E+ + + ++  M +Y+   +T L E G++E+V KA GRAI++ V + E+++ R       
Sbjct: 1   EHVVYVGNKPVM-NYVLATLTQLNE-GADEVVIKARGRAISRAVDVAEIVRNR---FMPG 55

Query: 78  TVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSK 114
             +    I       E+G        +VS I I L+K
Sbjct: 56  VKVKEIKIDTEELESEQG-----RRSNVSTIEIVLAK 87

>d1nh9a_ d.68.6.1 (A:) DNA-binding protein AlbA {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 87

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 98.3 bits (245), Expect = 4e-27
 Identities = 27/97 (27%), Positives = 46/97 (47%), Gaps = 11/97 (11%)

Query: 18  ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQN 77
           +N + I  +  M +Y+   +T L     +E++ KA G+AINK V + E+I+ R     ++
Sbjct: 2   DNVVLIGKKPVM-NYVVAVLTQLTSN--DEVIIKARGKAINKAVDVAEMIRNR---FIKD 55

Query: 78  TVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSK 114
             I   +I        +G        +VS I I L+K
Sbjct: 56  IKIKKIEIGTDKVKNPDG-----REVNVSTIEIVLAK 87

>d1vm0a_ d.68.6.2 (A:) Hypothetical protein At2g34160 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 99

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: Hypothetical protein At2g34160
domain: Hypothetical protein At2g34160
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 89.5 bits (222), Expect = 1e-23
 Identities = 23/100 (23%), Positives = 43/100 (43%), Gaps = 12/100 (12%)

Query: 18  ENEIRITSQGR-MRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQ 76
           +N I++++  + +  Y+  A   +Q+   N++   A+G AI   VT+ E++K     + +
Sbjct: 2   KNRIQVSNTKKPLFFYVNLAKRYMQQ--YNDVELSALGMAIATVVTVTEILKNNGFAVEK 59

Query: 77  NTVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKKE 116
             +    DI D                  + I ITL K E
Sbjct: 60  KIMTSIVDIKDDAR---------GRPVQKAKIEITLVKSE 90

>d2bkyx1 d.68.6.1 (X:4-89) DNA-binding protein AlbA {Archaeon Sulfolobus solfataricus, Sso10b2 [TaxId: 2287]} Length = 86

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Sulfolobus solfataricus, Sso10b2 [TaxId: 2287]

 Score = 86.3 bits (214), Expect = 1e-22
 Identities = 20/98 (20%), Positives = 38/98 (38%), Gaps = 14/98 (14%)

Query: 18  ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQN 77
            NEI +     +  ++   + L  + G +E++ K  GR I+K V +   +K R+    Q 
Sbjct: 2   LNEIVVRKTKNVEDHVLDVIVLFNQ-GIDEVILKGTGREISKAVDVYNSLKDRLGDGVQ- 59

Query: 78  TVIGSTDITDTWEPLEEGLLPLETTRHVSMITITLSKK 115
             + +          E         R +S I + L + 
Sbjct: 60  --LVNVQTGS-----EVR-----DRRRISYILLRLKRV 85

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	251
d2bkya1	89	DNA-binding protein AlbA {Archaeon Sulfolobus solf	99.93
d1nfja_	87	DNA-binding protein AlbA {Archaeon Archaeoglobus f	99.91
d1nh9a_	87	DNA-binding protein AlbA {Archaeon Methanococcus j	99.9
d2bkyx1	86	DNA-binding protein AlbA {Archaeon Sulfolobus solf	99.86
d1vm0a_	99	Hypothetical protein At2g34160 {Thale cress (Arabi	99.78

>d2bkya1 d.68.6.1 (A:9-97) DNA-binding protein AlbA {Archaeon Sulfolobus solfataricus, Sso10b1 [TaxId: 2287]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Sulfolobus solfataricus, Sso10b1 [TaxId: 2287]

Probab=99.93  E-value=5.3e-26  Score=174.20  Aligned_cols=89  Identities=35%  Similarity=0.510  Sum_probs=83.9

Q ss_pred             CCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCCC
Q 025528           18 ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLL   97 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl~   97 (251)
                      .|+|+|+++ +++|||.+|+.+|+ ++.++|+|||+|+||+|||+|||+||+||  |||.++|.+++|.++|+|.+||  
T Consensus         1 ~n~I~IG~K-p~mnYV~a~~~~l~-~g~~~V~iKArG~aIskAVdVaEiik~R~--l~~~~~i~~i~I~se~~~~~~G--   74 (89)
T d2bkya1           1 SNVVLIGKK-PVMNYVLAALTLLN-QGVSEIVIKARGRAISKAVDTVEIVRNRF--LPDKIEIKEIRVGSQVVTSQDG--   74 (89)
T ss_dssp             CCEEECCSS-CHHHHHHHHHHHHH-TTCCEEEEEEETTHHHHHHHHHHHHHHHT--STTTEEEEEEEEEEEEEEETTS--
T ss_pred             CCEEEECCC-cHHHHHHHHHHHHh-CCCCeEEEEEehhhhHHHHHHHHHHHHhc--ccCceEEEEEEeccEEeecCCC--
Confidence            489999988 69999999999998 47999999999999999999999999998  8999999999999999999998  


Q ss_pred             cceeeeeeeEEEEEEecc
Q 025528           98 PLETTRHVSMITITLSKK  115 (251)
Q Consensus        98 ~~~~~R~VS~I~ItLSk~  115 (251)
                         .+|+||+|+|+|+++
T Consensus        75 ---~~r~VS~IeI~L~kk   89 (89)
T d2bkya1          75 ---RQSRVSTIEIAIRKK   89 (89)
T ss_dssp             ---CEEEEEEEEEEEEEC
T ss_pred             ---cEEEEEEEEEEEEcC
Confidence               689999999999985

>d1nfja_ d.68.6.1 (A:) DNA-binding protein AlbA {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=99.91  E-value=1.1e-24  Score=166.31  Aligned_cols=87  Identities=29%  Similarity=0.476  Sum_probs=81.7

Q ss_pred             CCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCCC
Q 025528           18 ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLL   97 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl~   97 (251)
                      +|+|+|+++ +++|||.+|+.+|+ ++.++|+|||+|+||+|||+|||+||+||   ||.++|+++++.++|+|.+||  
T Consensus         1 en~I~Ig~K-p~~~YV~~~~~~l~-~g~~eV~ikArG~aIs~AVdVaEi~k~r~---~~~~~i~~i~i~se~~~~e~g--   73 (87)
T d1nfja_           1 EHVVYVGNK-PVMNYVLATLTQLN-EGADEVVIKARGRAISRAVDVAEIVRNRF---MPGVKVKEIKIDTEELESEQG--   73 (87)
T ss_dssp             CEEEECCSS-CHHHHHHHHHHHHH-TTCSEEEEEEETTHHHHHHHHHHHHHHHT---CTTCEEEEEEEEEEECCCBTT--
T ss_pred             CCEEEEcCC-cHHHHHHHHHHHHh-CCCCEEEEEEehhHHHHHHHHHHHHHHhc---cCCcEEEEEEEccEEEecCCC--
Confidence            699999998 69999999999998 47999999999999999999999999995   789999999999999999988  


Q ss_pred             cceeeeeeeEEEEEEec
Q 025528           98 PLETTRHVSMITITLSK  114 (251)
Q Consensus        98 ~~~~~R~VS~I~ItLSk  114 (251)
                         .+|+||+|+|+|+|
T Consensus        74 ---~~r~VS~IeI~L~K   87 (87)
T d1nfja_          74 ---RRSNVSTIEIVLAK   87 (87)
T ss_dssp             ---BCCEEEEEEEEEEC
T ss_pred             ---ceeEEEEEEEEEeC
Confidence               57899999999986

>d1nh9a_ d.68.6.1 (A:) DNA-binding protein AlbA {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=99.90  E-value=1.2e-23  Score=160.51  Aligned_cols=86  Identities=30%  Similarity=0.446  Sum_probs=72.0

Q ss_pred             CCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCCC
Q 025528           18 ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLL   97 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl~   97 (251)
                      +|+|+|+++ ++++||.+|+.+|++.  ++|+|||+|+||+|||+|||+||+||...|   +|.+++|.++|.|.+||  
T Consensus         2 en~I~Ig~K-P~m~YV~~~~~~~~~~--~eV~lKArG~aIsrAVdVaEiik~R~~~~~---~i~~i~i~se~~~~~~g--   73 (87)
T d1nh9a_           2 DNVVLIGKK-PVMNYVVAVLTQLTSN--DEVIIKARGKAINKAVDVAEMIRNRFIKDI---KIKKIEIGTDKVKNPDG--   73 (87)
T ss_dssp             CSEEEECSS-CHHHHHHHHHHHHHHC--SEEEEEEEGGGHHHHHHHHHHHHHHTCTTC---EEEEEEEEEEC--------
T ss_pred             CCEEEEcCC-CHHHHHHHHHHHhccC--CeEEEEEcchhhhHHHHHHHHHHHhccCCe---EEEEEEecceEEecCCC--
Confidence            799999998 6999999999999964  899999999999999999999999987555   47777889999999987  


Q ss_pred             cceeeeeeeEEEEEEec
Q 025528           98 PLETTRHVSMITITLSK  114 (251)
Q Consensus        98 ~~~~~R~VS~I~ItLSk  114 (251)
                         .+|+||+|+|+|+|
T Consensus        74 ---~~r~VS~IeI~L~k   87 (87)
T d1nh9a_          74 ---REVNVSTIEIVLAK   87 (87)
T ss_dssp             ----CCCEEEEEEEEEC
T ss_pred             ---ceeEEEEEEEEEeC
Confidence               68999999999986

>d2bkyx1 d.68.6.1 (X:4-89) DNA-binding protein AlbA {Archaeon Sulfolobus solfataricus, Sso10b2 [TaxId: 2287]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: DNA-binding protein AlbA
domain: DNA-binding protein AlbA
species: Archaeon Sulfolobus solfataricus, Sso10b2 [TaxId: 2287]

Probab=99.86  E-value=7.3e-22  Score=150.05  Aligned_cols=84  Identities=23%  Similarity=0.343  Sum_probs=73.8

Q ss_pred             CCeEEEcCCCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccCCC
Q 025528           18 ENEIRITSQGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEGLL   97 (251)
Q Consensus        18 ~NeIrVt~k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEgl~   97 (251)
                      .|||+|+.+++++|||.+|+.||+ ++.++|+|||+|+||+|||++||+||+||.++||+++|+   +.++     +   
T Consensus         2 ~nei~~~~~kp~~nYV~a~i~~f~-~g~~eV~iKArG~aIskAVdVaEiir~R~~~~v~i~~I~---i~sE-----~---   69 (86)
T d2bkyx1           2 LNEIVVRKTKNVEDHVLDVIVLFN-QGIDEVILKGTGREISKAVDVYNSLKDRLGDGVQLVNVQ---TGSE-----V---   69 (86)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHH-TTCCEEEEEEETTHHHHHHHHHHHHHHHHGGGEEEEEEE---EEEE-----E---
T ss_pred             CceEEEEcCCchHHHHHHHHHHHH-CCCCEEEEEEechhhHHHHHHHHHHHHhccCCeEEEEEE---eccc-----c---
Confidence            699999999999999999999998 489999999999999999999999999999888866555   3332     2   


Q ss_pred             cceeeeeeeEEEEEEecc
Q 025528           98 PLETTRHVSMITITLSKK  115 (251)
Q Consensus        98 ~~~~~R~VS~I~ItLSk~  115 (251)
                        ...|+||+|+|+|.++
T Consensus        70 --~~~r~VS~IeI~l~k~   85 (86)
T d2bkyx1          70 --RDRRRISYILLRLKRV   85 (86)
T ss_dssp             --ETTEEEEEEEEEEEEC
T ss_pred             --CCceEEEEEEEEEEec
Confidence              4578999999999974

>d1vm0a_ d.68.6.2 (A:) Hypothetical protein At2g34160 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: AlbA-like
family: Hypothetical protein At2g34160
domain: Hypothetical protein At2g34160
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.78  E-value=3.8e-19  Score=138.17  Aligned_cols=91  Identities=25%  Similarity=0.393  Sum_probs=77.4

Q ss_pred             CCCeEEEcC-CCchhHHHHHHHHHHhhCCCCeEEEEEcChhHHHHHHHHHHHHHHhcCccceeEEEEEEecccccccccC
Q 025528           17 DENEIRITS-QGRMRSYITYAMTLLQERGSNEIVFKAMGRAINKTVTIVELIKRRIVGLHQNTVIGSTDITDTWEPLEEG   95 (251)
Q Consensus        17 ~~NeIrVt~-k~kirnyV~~A~~lL~~~~~~~VvIka~G~AIsKAV~vAEILKrRi~GLhQ~t~I~sv~i~d~~ePleEg   95 (251)
                      .+|+|+|++ +.++++||.+|+.+|++  .++|+|||+|+||++||+|||+||++...+|+.++|++.++.++.      
T Consensus         1 k~n~i~vs~~KkP~~~YV~~a~~~l~~--~~eV~l~a~G~AI~~aV~vaeil~~r~~~~i~~I~t~s~~~~~~~------   72 (99)
T d1vm0a_           1 KKNRIQVSNTKKPLFFYVNLAKRYMQQ--YNDVELSALGMAIATVVTVTEILKNNGFAVEKKIMTSIVDIKDDA------   72 (99)
T ss_dssp             CTTEEECCCTTSCHHHHHHHHHHHHHH--HSEEEEEEEGGGHHHHHHHHHHHHHTTSEEEEEEEEEEEEEC---------
T ss_pred             CCcEEEEEcCCCcHHHHHHHHHHHhcc--CCeEEEEecHHHHHHHHHHHHHHHhcCceEEEEEEeeeEEeecCC------
Confidence            479999998 66799999999999986  389999999999999999999999999889999999998887541      


Q ss_pred             CCcceeeeeeeEEEEEEeccc-CC
Q 025528           96 LLPLETTRHVSMITITLSKKE-LN  118 (251)
Q Consensus        96 l~~~~~~R~VS~I~ItLSk~~-LD  118 (251)
                         -...++||.|+|.|.+.| +|
T Consensus        73 ---~gr~~~vs~IEI~L~K~~~F~   93 (99)
T d1vm0a_          73 ---RGRPVQKAKIEITLVKSEKFD   93 (99)
T ss_dssp             ------CEEEEEEEEEEEECTTHH
T ss_pred             ---CCcccccceEEEEEeeCccHH
Confidence               135789999999999964 44