Citrus Sinensis ID: 032906

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130
Protein Sequence
MMPLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSSSSSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCES
Secondary Structure (PSIPRED)
cccccEEEEEEEEcccccccccccccEEEEEEcccccccccccccEEEEEEccccccccccccccccEEEEEEccccccccccccccEEEEcccccEEEEEEccccHHcccHHHHHHHHHccHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEEEEcccccEEEEcccccEEEEEEEEEEEcccccccEEcccEEEEEccccccccHHHcEEEEEEccccccccccccccEEEEEEccccEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MMPLAAQFLLripqlgrkninfpsykhrgnyqplflscnystndncssssssrnyleltddELFRECEmdaykssgpggqhrnkresavrlkhvPTGVIALAAEDRsqhknrasalshsfgpqseeqces
Flexible Loop (DISEMBL)
MMPLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSSSSSRNYLELTDDELFRECEMDAykssgpggqhrnkresavrlkHVPTGVIALAAEDRSQHKNRASalshsfgpqseeqces
Low Complexity Region (SEG)
MMPLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLscnystndncssssssrnyLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCES
Disordered region (IsUnstruct)
*****AQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYST******************************************************GVI*******************************
Disordered Region (DISOPRED)
****AAQ*LLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSSSSSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQ*KNRASALSHSFGPQSEE****
Disordered Region (DISEMBL)
MMPLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYST***********NYLELTDDELFRECEMDAY****************VRLKHVPTGVIALAAEDR************************
Disordered Region (DISPRO)
*MPLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSSSSSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRA**LSHSFGPQSE*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMPLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSSSSSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCES
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	130	2.2.26 [Sep-21-2011]
A7ZE19	366	Peptide chain release fac	yes	no	0.4	0.142	0.538	5e-13
A0RQM7	369	Peptide chain release fac	yes	no	0.446	0.157	0.507	6e-13
Q30TP0	365	Peptide chain release fac	yes	no	0.4	0.142	0.576	7e-13
Q89AC4	366	Peptide chain release fac	yes	no	0.4	0.142	0.538	2e-12
A6SUF6	360	Peptide chain release fac	yes	no	0.392	0.141	0.568	2e-12
A6Q582	368	Peptide chain release fac	yes	no	0.4	0.141	0.519	2e-12
A5IED7	362	Peptide chain release fac	yes	no	0.4	0.143	0.557	2e-12
Q5WUB1	362	Peptide chain release fac	yes	no	0.4	0.143	0.557	2e-12
Q5ZT29	362	Peptide chain release fac	yes	no	0.4	0.143	0.557	2e-12
Q5X2V3	362	Peptide chain release fac	yes	no	0.4	0.143	0.557	2e-12

>sp|A7ZE19|RF2_CAMC1 Peptide chain release factor 2 OS=Campylobacter concisus (strain 13826) GN=prfB PE=3 SV=1

 Score = 72.8 bits (177), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 28/52 (53%), Positives = 41/52 (78%)

Query: 65  RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           ++ ++D Y++SG GGQH NK ESA+R+ H+PTG++     DRSQHKNRA+A+
Sbjct: 236 KDLKIDTYRASGAGGQHVNKTESAIRITHIPTGIVVQCQNDRSQHKNRATAM 287

Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA.
Campylobacter concisus (strain 13826) (taxid: 360104)

>sp|A0RQM7|RF2_CAMFF Peptide chain release factor 2 OS=Campylobacter fetus subsp. fetus (strain 82-40) GN=prfB PE=3 SV=1

 Score = 72.8 bits (177), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 32/63 (50%), Positives = 44/63 (69%), Gaps = 5/63 (7%)

Query: 59  TDDELFRECE-----MDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRA 113
            DD++  E E     +D Y++SG GGQH NK ESAVR+ H+PTG++     DRSQHKN+A
Sbjct: 225 VDDDIAIEIEEKDLRLDYYRASGAGGQHVNKTESAVRITHIPTGIVVQCQNDRSQHKNKA 284

Query: 114 SAL 116
           +A+
Sbjct: 285 TAM 287

Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA.

Campylobacter fetus subsp. fetus (strain 82-40) (taxid: 360106)

>sp|Q30TP0|RF2_SULDN Peptide chain release factor 2 OS=Sulfurimonas denitrificans (strain ATCC 33889 / DSM 1251) GN=prfB PE=3 SV=1

 Score = 72.8 bits (177), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 30/52 (57%), Positives = 39/52 (75%)

Query: 65  RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           R+  +D Y+SSG GGQH NK ESA+R+ H+ TGV+     DRSQHKNRA+A+
Sbjct: 236 RDIRVDTYRSSGAGGQHVNKTESAIRITHIATGVVVQCQNDRSQHKNRATAM 287

Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA.

Sulfurimonas denitrificans (strain ATCC 33889 / DSM 1251) (taxid: 326298)

>sp|Q89AC4|RF2_BUCBP Peptide chain release factor 2 OS=Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp) GN=prfB PE=3 SV=2

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 28/52 (53%), Positives = 40/52 (76%)

Query: 65  RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           R+ ++D Y++SG GGQH NK ESAVR++H+PTG++     DRSQHKN+  A+
Sbjct: 238 RDLKIDVYRASGAGGQHVNKTESAVRIRHLPTGIVVQCQNDRSQHKNKDQAM 289

Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA.

Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp) (taxid: 224915)

>sp|A6SUF6|RF1_JANMA Peptide chain release factor 1 OS=Janthinobacterium sp. (strain Marseille) GN=prfA PE=3 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 29/51 (56%), Positives = 40/51 (78%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           +  +D Y++SG GGQH NK +SAVR+ H+PTG++    +DRSQHKN+ASAL
Sbjct: 221 DLRIDTYRASGAGGQHINKTDSAVRITHIPTGIVVECQDDRSQHKNKASAL 271

Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA.

Janthinobacterium sp. (strain Marseille) (taxid: 375286)

>sp|A6Q582|RF2_NITSB Peptide chain release factor 2 OS=Nitratiruptor sp. (strain SB155-2) GN=prfB PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 27/52 (51%), Positives = 40/52 (76%)

Query: 65  RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           ++  +D Y++SG GGQH NK +SA+R+ H+PTG++     DRSQHKNRA+A+
Sbjct: 236 KDIRVDTYRASGAGGQHVNKTDSAIRITHIPTGIVVQCQNDRSQHKNRATAM 287

Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA.

Nitratiruptor sp. (strain SB155-2) (taxid: 387092)

>sp|A5IED7|RF1_LEGPC Peptide chain release factor 1 OS=Legionella pneumophila (strain Corby) GN=prfA PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 29/52 (55%), Positives = 40/52 (76%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D Y+SSG GGQH NK +SA+R+ H+PTGV+    ++RSQHKNRA A+S
Sbjct: 223 DLRIDTYRSSGAGGQHVNKTDSAIRITHIPTGVVVECQDERSQHKNRAKAMS 274

Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA.

Legionella pneumophila (strain Corby) (taxid: 400673)

>sp|Q5WUB1|RF1_LEGPL Peptide chain release factor 1 OS=Legionella pneumophila (strain Lens) GN=prfA PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 29/52 (55%), Positives = 40/52 (76%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D Y+SSG GGQH NK +SA+R+ H+PTGV+    ++RSQHKNRA A+S
Sbjct: 223 DLRIDTYRSSGAGGQHVNKTDSAIRITHIPTGVVVECQDERSQHKNRAKAMS 274

Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA.

Legionella pneumophila (strain Lens) (taxid: 297245)

>sp|Q5ZT29|RF1_LEGPH Peptide chain release factor 1 OS=Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513) GN=prfA PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 29/52 (55%), Positives = 40/52 (76%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D Y+SSG GGQH NK +SA+R+ H+PTGV+    ++RSQHKNRA A+S
Sbjct: 223 DLRIDTYRSSGAGGQHVNKTDSAIRITHIPTGVVVECQDERSQHKNRAKAMS 274

Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA.

Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513) (taxid: 272624)

>sp|Q5X2V3|RF1_LEGPA Peptide chain release factor 1 OS=Legionella pneumophila (strain Paris) GN=prfA PE=3 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 29/52 (55%), Positives = 40/52 (76%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D Y+SSG GGQH NK +SA+R+ H+PTGV+    ++RSQHKNRA A+S
Sbjct: 223 DLRIDTYRSSGAGGQHVNKTDSAIRITHIPTGVVVECQDERSQHKNRAKAMS 274

Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA.

Legionella pneumophila (strain Paris) (taxid: 297246)

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	130
224127830	257	predicted protein [Populus trichocarpa]	0.607	0.307	0.695	2e-25
356559945	250	PREDICTED: uncharacterized protein LOC10	0.784	0.408	0.586	3e-25
30692851	257	Class I peptide chain release factor [Ar	0.892	0.451	0.448	9e-23
12322377	255	peptide chain release factor, putative;	0.892	0.454	0.448	1e-22
357498517	329	Peptide chain release factor [Medicago t	0.484	0.191	0.761	3e-22
297851766	256	hypothetical protein ARALYDRAFT_473511 [	0.5	0.253	0.707	1e-21
242059479	259	hypothetical protein SORBIDRAFT_03g04217	0.492	0.247	0.734	2e-21
414879327	253	TPA: hypothetical protein ZEAMMB73_57118	0.5	0.256	0.723	2e-21
414879328	220	TPA: hypothetical protein ZEAMMB73_57118	0.546	0.322	0.676	2e-21
449447515	240	PREDICTED: peptide chain release factor	0.515	0.279	0.666	7e-21

>gi|224127830|ref|XP_002329188.1| predicted protein [Populus trichocarpa] gi|222870969|gb|EEF08100.1| predicted protein [Populus trichocarpa]

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 57/82 (69%), Positives = 67/82 (81%), Gaps = 3/82 (3%)

Query: 35  FLSCNYSTNDNCSSSSSSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHV 94
            +  NY+T+   +S  +  NYLELTDDEL R+CEMD +K+SGPGGQHRNKRESAVRLKH+
Sbjct: 73  LICFNYNTS---ASHGNGTNYLELTDDELMRQCEMDTFKASGPGGQHRNKRESAVRLKHL 129

Query: 95  PTGVIALAAEDRSQHKNRASAL 116
           PTG+IA A EDRSQH NRASAL
Sbjct: 130 PTGIIAQAVEDRSQHMNRASAL 151

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356559945|ref|XP_003548256.1| PREDICTED: uncharacterized protein LOC100793467 [Glycine max]

 Score =  119 bits (299), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 61/104 (58%), Positives = 74/104 (71%), Gaps = 2/104 (1%)

Query: 13  PQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCSSSSSSRNYLELTDDELFRECEMDAY 72
           P L    I+ P      NY  L+ S NY+T       S  + YL L+D+EL R+CEMD +
Sbjct: 38  PFLNTSPISLPPTTRITNYTHLWCS-NYTTVSTIEEGSE-KCYLNLSDEELMRQCEMDTF 95

Query: 73  KSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           K+SGPGGQHRNKRESAVRLKH+PTG+IA A+EDRSQHKNRASA+
Sbjct: 96  KASGPGGQHRNKRESAVRLKHLPTGIIAQASEDRSQHKNRASAI 139

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30692851|ref|NP_174601.2| Class I peptide chain release factor [Arabidopsis thaliana] gi|12322576|gb|AAG51290.1|AC027035_13 unknown protein [Arabidopsis thaliana] gi|26450075|dbj|BAC42157.1| putative peptide chain release factor [Arabidopsis thaliana] gi|29824307|gb|AAP04114.1| putative peptide chain release factor [Arabidopsis thaliana] gi|332193463|gb|AEE31584.1| Class I peptide chain release factor [Arabidopsis thaliana]

 Score =  111 bits (277), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 65/145 (44%), Positives = 84/145 (57%), Gaps = 29/145 (20%)

Query: 1   MMPLAAQFLLRIPQLGRKNINFPS------YKHR-----GNYQPLFLSCNYSTNDNCSSS 49
           +M +AA F  R P L R++I   S      Y HR     G    L     YS++D  +  
Sbjct: 3   IMAVAALFHARFPLLLRRSIPLLSAPTSVIYNHRTLLSDGLSTRLCSILRYSSSDGVNGG 62

Query: 50  SS------------------SRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRL 91
           SS                  S NYL+ TD+EL ++C ++ ++ SGPGGQHRNKR+SAVRL
Sbjct: 63  SSGGDFGNDNDSVSVVSDVQSPNYLKFTDEELMKQCRLETFRVSGPGGQHRNKRDSAVRL 122

Query: 92  KHVPTGVIALAAEDRSQHKNRASAL 116
           KH+PTG++A A EDRSQHKNRASAL
Sbjct: 123 KHLPTGIVAQAVEDRSQHKNRASAL 147

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12322377|gb|AAG51209.1|AC051630_6 peptide chain release factor, putative; 8726-9996 [Arabidopsis thaliana]

 Score =  111 bits (277), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 65/145 (44%), Positives = 84/145 (57%), Gaps = 29/145 (20%)

Query: 1   MMPLAAQFLLRIPQLGRKNINFPS------YKHR-----GNYQPLFLSCNYSTNDNCSSS 49
           +M +AA F  R P L R++I   S      Y HR     G    L     YS++D  +  
Sbjct: 3   IMAVAALFHARFPLLLRRSIPLLSAPTSVIYNHRTLLSDGLSTRLCSILRYSSSDGVNGG 62

Query: 50  SS------------------SRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRL 91
           SS                  S NYL+ TD+EL ++C ++ ++ SGPGGQHRNKR+SAVRL
Sbjct: 63  SSGGDFGNDNDSVSVVSDVQSPNYLKFTDEELMKQCRLETFRVSGPGGQHRNKRDSAVRL 122

Query: 92  KHVPTGVIALAAEDRSQHKNRASAL 116
           KH+PTG++A A EDRSQHKNRASAL
Sbjct: 123 KHLPTGIVAQAVEDRSQHKNRASAL 147

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357498517|ref|XP_003619547.1| Peptide chain release factor [Medicago truncatula] gi|355494562|gb|AES75765.1| Peptide chain release factor [Medicago truncatula]

 Score =  109 bits (273), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 48/63 (76%), Positives = 56/63 (88%)

Query: 54  NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRA 113
            YL+LTDD+L R+CEM  +K+SGPGGQHRNKRESAVRLKH+PTG+IA A EDRSQH NRA
Sbjct: 68  GYLDLTDDDLMRQCEMGTFKTSGPGGQHRNKRESAVRLKHLPTGIIAQAGEDRSQHMNRA 127

Query: 114 SAL 116
           SA+
Sbjct: 128 SAI 130

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297851766|ref|XP_002893764.1| hypothetical protein ARALYDRAFT_473511 [Arabidopsis lyrata subsp. lyrata] gi|297339606|gb|EFH70023.1| hypothetical protein ARALYDRAFT_473511 [Arabidopsis lyrata subsp. lyrata]

 Score =  108 bits (269), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 46/65 (70%), Positives = 57/65 (87%)

Query: 52  SRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKN 111
           S NYL+ TDDEL ++C ++ ++ SGPGGQHRNKR+SAVRLKH+PTG++A A EDRSQHKN
Sbjct: 82  SPNYLKFTDDELMKQCRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKN 141

Query: 112 RASAL 116
           RASAL
Sbjct: 142 RASAL 146

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242059479|ref|XP_002458885.1| hypothetical protein SORBIDRAFT_03g042170 [Sorghum bicolor] gi|241930860|gb|EES04005.1| hypothetical protein SORBIDRAFT_03g042170 [Sorghum bicolor]

 Score =  107 bits (267), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 47/64 (73%), Positives = 57/64 (89%)

Query: 54  NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRA 113
           +YL ++D+EL  +C+M  +K+SGPGGQHRNKRESAVRLKH+PTG+IA A EDRSQHKNRA
Sbjct: 86  DYLGMSDEELMEQCDMGTFKASGPGGQHRNKRESAVRLKHLPTGIIAQAVEDRSQHKNRA 145

Query: 114 SALS 117
           SALS
Sbjct: 146 SALS 149

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414879327|tpg|DAA56458.1| TPA: hypothetical protein ZEAMMB73_571187 [Zea mays]

 Score =  107 bits (267), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 47/65 (72%), Positives = 57/65 (87%)

Query: 54  NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRA 113
           +YL ++D+EL  +C+M  +K+SGPGGQHRNKRESAVRLKH+PTG+IA A EDRSQHKNRA
Sbjct: 80  DYLGMSDEELMEQCDMGTFKASGPGGQHRNKRESAVRLKHLPTGIIAQAVEDRSQHKNRA 139

Query: 114 SALSH 118
           SALS 
Sbjct: 140 SALSR 144

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414879328|tpg|DAA56459.1| TPA: hypothetical protein ZEAMMB73_571187 [Zea mays]

 Score =  107 bits (266), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 48/71 (67%), Positives = 59/71 (83%)

Query: 47  SSSSSSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDR 106
           + S    +YL ++D+EL  +C+M  +K+SGPGGQHRNKRESAVRLKH+PTG+IA A EDR
Sbjct: 73  AKSGGRVDYLGMSDEELMEQCDMGTFKASGPGGQHRNKRESAVRLKHLPTGIIAQAVEDR 132

Query: 107 SQHKNRASALS 117
           SQHKNRASALS
Sbjct: 133 SQHKNRASALS 143

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447515|ref|XP_004141513.1| PREDICTED: peptide chain release factor 1-like [Cucumis sativus] gi|449526225|ref|XP_004170114.1| PREDICTED: peptide chain release factor 1-like [Cucumis sativus]

 Score =  105 bits (261), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 48/72 (66%), Positives = 60/72 (83%), Gaps = 5/72 (6%)

Query: 45  NCSSSSSS-----RNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVI 99
           NCSSS+++     + YL L+D+EL ++CEM  +K+SGPGGQHRNKRESAVRLKH+PTG+I
Sbjct: 53  NCSSSNANSVCNGKQYLVLSDEELMKQCEMGTFKASGPGGQHRNKRESAVRLKHIPTGII 112

Query: 100 ALAAEDRSQHKN 111
           A A EDRSQHKN
Sbjct: 113 AQAVEDRSQHKN 124

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	130
TAIR|locus:2006897	257	AT1G33330 [Arabidopsis thalian	0.476	0.241	0.677	5.4e-23
TIGR_CMR|CPS_3552	362	CPS_3552 "peptide chain releas	0.4	0.143	0.538	1.3e-11
UNIPROTKB|Q74EJ1	107	GSU0971 "Hydrolase, putative"	0.453	0.551	0.474	1.3e-11
TIGR_CMR|GSU_0971	107	GSU_0971 "peptidyl-tRNA hydrol	0.453	0.551	0.474	1.3e-11
TIGR_CMR|SO_3833	363	SO_3833 "peptide chain release	0.4	0.143	0.519	1.7e-11
TIGR_CMR|CJE_1628	365	CJE_1628 "peptide chain releas	0.453	0.161	0.523	2.2e-11
TIGR_CMR|NSE_0406	367	NSE_0406 "peptide chain releas	0.4	0.141	0.5	2.8e-11
TIGR_CMR|APH_0420	359	APH_0420 "peptide chain releas	0.453	0.164	0.459	3.5e-11
TIGR_CMR|ECH_0597	359	ECH_0597 "peptide chain releas	0.453	0.164	0.442	9.6e-11
UNIPROTKB|P0A7I0	360	prfA "peptide chain release fa	0.469	0.169	0.476	9.6e-11

TAIR|locus:2006897 AT1G33330 [Arabidopsis thaliana (taxid:3702)]

 Score = 243 (90.6 bits), Expect = 5.4e-23, Sum P(2) = 5.4e-23
 Identities = 42/62 (67%), Positives = 55/62 (88%)

Query:    56 LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
             L+ TD+EL ++C ++ ++ SGPGGQHRNKR+SAVRLKH+PTG++A A EDRSQHKNRASA
Sbjct:    87 LKFTDEELMKQCRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNRASA 146

Query:   116 LS 117
             L+
Sbjct:   147 LN 148

GO:0003747 "translation release factor activity" evidence=IEA;ISS

GO:0006415 "translational termination" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=IDA

GO:0006783 "heme biosynthetic process" evidence=RCA

TIGR_CMR|CPS_3552 CPS_3552 "peptide chain release factor 1" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 164 (62.8 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 28/52 (53%), Positives = 40/52 (76%)

Query:    66 ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
             + ++D +++SG GGQH NK +SA+R+ H+PTGV+    E RSQHKNRA A+S
Sbjct:   223 DLKVDTFRASGAGGQHVNKTDSAIRITHIPTGVVVECQEQRSQHKNRAQAMS 274

GO:0003747 "translation release factor activity" evidence=ISS

GO:0006415 "translational termination" evidence=ISS

UNIPROTKB|Q74EJ1 GSU0971 "Hydrolase, putative" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 158 (60.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 28/59 (47%), Positives = 44/59 (74%)

Query:    58 LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
             +T D    + +++ Y++SGPGGQHRN  +SAVR++H+PTG++  A+E RSQ +NR  A+
Sbjct:     1 MTVDIRDADIKVEYYRASGPGGQHRNTTDSAVRIRHLPTGIVVQASESRSQAQNREKAM 59

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|GSU_0971 GSU_0971 "peptidyl-tRNA hydrolase domain protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 158 (60.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 28/59 (47%), Positives = 44/59 (74%)

Query:    58 LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
             +T D    + +++ Y++SGPGGQHRN  +SAVR++H+PTG++  A+E RSQ +NR  A+
Sbjct:     1 MTVDIRDADIKVEYYRASGPGGQHRNTTDSAVRIRHLPTGIVVQASESRSQAQNREKAM 59

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SO_3833 SO_3833 "peptide chain release factor 1" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 163 (62.4 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 27/52 (51%), Positives = 40/52 (76%)

Query:    66 ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
             + ++D ++SSG GGQH NK +SA+R+ H+PTG++    + RSQHKNRA A+S
Sbjct:   223 DLKVDTFRSSGAGGQHVNKTDSAIRITHIPTGIVVECQDQRSQHKNRAQAMS 274

GO:0003747 "translation release factor activity" evidence=ISS

GO:0006415 "translational termination" evidence=ISS

TIGR_CMR|CJE_1628 CJE_1628 "peptide chain release factor 2" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 162 (62.1 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 33/63 (52%), Positives = 44/63 (69%)

Query:    57 ELTDD-ELF---RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNR 112
             EL DD E+    ++  +D Y++SG GGQH NK ESAVR+ H PTG++     DRSQHKN+
Sbjct:   224 ELDDDIEIEIEEKDIRIDYYRASGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKNK 283

Query:   113 ASA 115
             A+A
Sbjct:   284 ATA 286

GO:0003747 "translation release factor activity" evidence=ISS

GO:0006415 "translational termination" evidence=ISS

TIGR_CMR|NSE_0406 NSE_0406 "peptide chain release factor 1" [Neorickettsia sennetsu str. Miyayama (taxid:222891)]

 Score = 161 (61.7 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 26/52 (50%), Positives = 40/52 (76%)

Query:    65 RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
             ++  +D Y+SSGPGGQ  N  +SAVR+ H+PTG++ +  +++SQHKNRA A+
Sbjct:   221 KDLRIDVYRSSGPGGQSVNTTDSAVRITHIPTGIVVIQQDEKSQHKNRAKAM 272

GO:0003747 "translation release factor activity" evidence=ISS

GO:0006415 "translational termination" evidence=ISS

TIGR_CMR|APH_0420 APH_0420 "peptide chain release factor 1" [Anaplasma phagocytophilum HZ (taxid:212042)]

 Score = 160 (61.4 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 28/61 (45%), Positives = 45/61 (73%)

Query:    56 LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
             ++L  DE  ++  +D Y+SSGPGGQ  N  +SAVR+ H+PTG++ +  +++SQHKN++ A
Sbjct:   213 VDLKIDE--KDLRIDVYRSSGPGGQSVNTTDSAVRITHIPTGIVVIQQDEKSQHKNKSKA 270

Query:   116 L 116
             L
Sbjct:   271 L 271

GO:0003747 "translation release factor activity" evidence=ISS

GO:0006415 "translational termination" evidence=ISS

TIGR_CMR|ECH_0597 ECH_0597 "peptide chain release factor 1" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 156 (60.0 bits), Expect = 9.6e-11, P = 9.6e-11
 Identities = 27/61 (44%), Positives = 45/61 (73%)

Query:    56 LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
             ++L  DE  ++  +D Y+SSGPGGQ  N  +SAVR+ H+P+G++ +  +++SQHKN++ A
Sbjct:   213 VDLKIDE--KDLRIDVYRSSGPGGQSVNTTDSAVRITHIPSGIVVIQQDEKSQHKNKSKA 270

Query:   116 L 116
             L
Sbjct:   271 L 271

GO:0003747 "translation release factor activity" evidence=ISS

GO:0006415 "translational termination" evidence=ISS

UNIPROTKB|P0A7I0 prfA "peptide chain release factor RF1" [Escherichia coli K-12 (taxid:83333)]

 Score = 156 (60.0 bits), Expect = 9.6e-11, P = 9.6e-11
 Identities = 31/65 (47%), Positives = 44/65 (67%)

Query:    57 ELTDDELF----RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNR 112
             EL D EL      +  +D ++SSG GGQH N  +SA+R+ H+PTG++    ++RSQHKN+
Sbjct:   208 ELPDAELPDINPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNK 267

Query:   113 ASALS 117
             A ALS
Sbjct:   268 AKALS 272

GO:0043022 "ribosome binding" evidence=IDA

GO:0016149 "translation release factor activity, codon specific" evidence=IEA;IDA

GO:0006415 "translational termination" evidence=IEA;IMP

GO:0006412 "translation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	130
pfam00472	114	pfam00472, RF-1, RF-1 domain	2e-21
PRK00578	367	PRK00578, prfB, peptide chain release factor 2; Va	1e-19
PRK00591	359	PRK00591, prfA, peptide chain release factor 1; Va	2e-19
COG0216	363	COG0216, PrfA, Protein chain release factor A [Tra	3e-18
COG1186	239	COG1186, PrfB, Protein chain release factor B [Tra	3e-18
TIGR00020	364	TIGR00020, prfB, peptide chain release factor 2	1e-17
TIGR00019	360	TIGR00019, prfA, peptide chain release factor 1	7e-17
PRK07342	339	PRK07342, PRK07342, peptide chain release factor 2	4e-16
PRK05589	325	PRK05589, PRK05589, peptide chain release factor 2	9e-16
TIGR03072	200	TIGR03072, release_prfH, putative peptide chain re	2e-14
PRK08179	200	PRK08179, prfH, peptide chain release factor-like	5e-14
PRK08787	313	PRK08787, PRK08787, peptide chain release factor 2	7e-14
PRK06746	326	PRK06746, PRK06746, peptide chain release factor 2	2e-09
PRK09256	138	PRK09256, PRK09256, hypothetical protein; Provisio	5e-07

>gnl|CDD|201249 pfam00472, RF-1, RF-1 domain

 Score = 82.2 bits (204), Expect = 2e-21
 Identities = 30/51 (58%), Positives = 39/51 (76%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           +  +D ++SSGPGGQ+ NK ESAVRL H+PTG++    E+RSQHKNR  AL
Sbjct: 14  DLRIDTFRSSGPGGQNVNKTESAVRLTHLPTGIVVKCQEERSQHKNREKAL 64

This domain is found in peptide chain release factors such as RF-1 and RF-2, and a number of smaller proteins of unknown function. This domain contains the peptidyl-tRNA hydrolase activity. The domain contains a highly conserved motif GGQ, where the glutamine is thought to coordinate the water that mediates the hydrolysis. Length = 114

>gnl|CDD|234799 PRK00578, prfB, peptide chain release factor 2; Validated

 Score = 82.2 bits (204), Expect = 1e-19
 Identities = 29/61 (47%), Positives = 43/61 (70%), Gaps = 4/61 (6%)

Query: 56  LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
           +E+   +L     +D Y+SSG GGQH NK +SAVR+ H+PTG++     +RSQH+N+ASA
Sbjct: 230 IEINPKDL----RIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASA 285

Query: 116 L 116
           +
Sbjct: 286 M 286

Length = 367

>gnl|CDD|234801 PRK00591, prfA, peptide chain release factor 1; Validated

 Score = 81.7 bits (203), Expect = 2e-19
 Identities = 25/50 (50%), Positives = 37/50 (74%)

Query: 68  EMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
            +D ++SSG GGQH N  +SAVR+ H+PTG++    ++RSQHKN+A A+ 
Sbjct: 224 RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMK 273

Length = 359

>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation, ribosomal structure and biogenesis]

 Score = 78.4 bits (194), Expect = 3e-18
 Identities = 25/50 (50%), Positives = 37/50 (74%)

Query: 68  EMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
            +D ++SSG GGQH N  +SAVR+ H+PTG++    ++RSQHKN+A A+ 
Sbjct: 226 RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMK 275

Length = 363

>gnl|CDD|224107 COG1186, PrfB, Protein chain release factor B [Translation, ribosomal structure and biogenesis]

 Score = 76.9 bits (190), Expect = 3e-18
 Identities = 31/61 (50%), Positives = 43/61 (70%), Gaps = 4/61 (6%)

Query: 56  LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
           +E+ DD+L     +D Y++SG GGQH NK +SAVRL H+PTG++ L   +RSQH N+A A
Sbjct: 105 IEIPDDDL----RIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALA 160

Query: 116 L 116
            
Sbjct: 161 R 161

Length = 239

>gnl|CDD|232785 TIGR00020, prfB, peptide chain release factor 2

 Score = 76.7 bits (189), Expect = 1e-17
 Identities = 27/47 (57%), Positives = 36/47 (76%)

Query: 70  DAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           D Y++SG GGQH NK +SAVR+ H+PTG++     DRSQHKN+ SA+
Sbjct: 240 DTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAM 286

In many but not all taxa, there is a conserved real translational frameshift at a TGA codon. RF-2 helps terminate translation at TGA codons and can therefore regulate its own production by readthrough when RF-2 is insufficient. There is a PFAM model called "RF-1" for the superfamily of RF-1, RF-2, mitochondrial, RF-H, etc [Protein synthesis, Translation factors]. Length = 364

>gnl|CDD|129130 TIGR00019, prfA, peptide chain release factor 1

 Score = 74.7 bits (184), Expect = 7e-17
 Identities = 24/52 (46%), Positives = 37/52 (71%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D ++SSG GGQH N  +SAVR+ H+PTG++    ++RSQHKN+  A+ 
Sbjct: 222 DLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMK 273

This model describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognize and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cutoff for this model. RF-1 does not have a translational frameshift [Protein synthesis, Translation factors]. Length = 360

>gnl|CDD|235997 PRK07342, PRK07342, peptide chain release factor 2; Provisional

 Score = 72.6 bits (178), Expect = 4e-16
 Identities = 28/52 (53%), Positives = 38/52 (73%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D Y+SSG GGQH N  +SAVR+ H+PTG++    ++RSQHKNRA A S
Sbjct: 200 DVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWS 251

Length = 339

>gnl|CDD|235520 PRK05589, PRK05589, peptide chain release factor 2; Provisional

 Score = 71.4 bits (175), Expect = 9e-16
 Identities = 29/65 (44%), Positives = 43/65 (66%), Gaps = 4/65 (6%)

Query: 57  ELTDDELFR----ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNR 112
           ELTDD+       + ++D Y++ G GGQH NK ESAVR+ H+PTG++     +RSQH N+
Sbjct: 184 ELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNK 243

Query: 113 ASALS 117
            +A+ 
Sbjct: 244 ETAMK 248

Length = 325

>gnl|CDD|213768 TIGR03072, release_prfH, putative peptide chain release factor H

 Score = 65.9 bits (161), Expect = 2e-14
 Identities = 31/75 (41%), Positives = 41/75 (54%), Gaps = 7/75 (9%)

Query: 57  ELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA- 115
           E T+DE+  E      +SSGPGGQH NK ESAVR  H+ +G+      +RSQH N+  A 
Sbjct: 102 EATEDEIRFE----TLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLAT 157

Query: 116 --LSHSFGPQSEEQC 128
             L+       +EQ 
Sbjct: 158 LLLAVRLADLQQEQA 172

Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon [Protein synthesis, Translation factors]. Length = 200

>gnl|CDD|181271 PRK08179, prfH, peptide chain release factor-like protein; Reviewed

 Score = 65.1 bits (159), Expect = 5e-14
 Identities = 26/67 (38%), Positives = 37/67 (55%), Gaps = 3/67 (4%)

Query: 65  RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA---LSHSFG 121
            E   +  +SSGPGGQH NK +SAVR  H+ +G+      +RSQH N+  A   ++    
Sbjct: 107 DEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLE 166

Query: 122 PQSEEQC 128
            Q +EQ 
Sbjct: 167 QQQQEQS 173

Length = 200

>gnl|CDD|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional

 Score = 66.2 bits (161), Expect = 7e-14
 Identities = 26/47 (55%), Positives = 33/47 (70%)

Query: 70  DAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           D Y+SSG GGQH NK ESAVR+ H+PT  +      RSQH+NR +A+
Sbjct: 181 DVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAM 227

Length = 313

>gnl|CDD|75726 PRK06746, PRK06746, peptide chain release factor 2; Provisional

 Score = 53.6 bits (128), Expect = 2e-09
 Identities = 23/51 (45%), Positives = 33/51 (64%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           + ++D Y++SG GGQH N  +SAVR+ H PT  +     +RSQ KNR  A+
Sbjct: 198 DLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAM 248

Length = 326

>gnl|CDD|181730 PRK09256, PRK09256, hypothetical protein; Provisional

 Score = 45.1 bits (108), Expect = 5e-07
 Identities = 27/85 (31%), Positives = 40/85 (47%), Gaps = 28/85 (32%)

Query: 56  LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLK------HVPT------------- 96
           L + ++EL    E    ++SGPGGQ+ NK  +AV L+       +P              
Sbjct: 8   LVIPENEL----EWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHR 63

Query: 97  ----GVIALAAED-RSQHKNRASAL 116
               GVI + A++ RSQ +NR  AL
Sbjct: 64  ITKDGVIVIKAQEFRSQERNREDAL 88

Length = 138

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	130
COG0216	363	PrfA Protein chain release factor A [Translation,	100.0
PRK08179	200	prfH peptide chain release factor-like protein; Re	100.0
TIGR03072	200	release_prfH putative peptide chain release factor	100.0
PRK08787	313	peptide chain release factor 2; Provisional	100.0
PRK06746	326	peptide chain release factor 2; Provisional	100.0
PRK05589	325	peptide chain release factor 2; Provisional	100.0
PRK07342	339	peptide chain release factor 2; Provisional	100.0
TIGR00019	360	prfA peptide chain release factor 1. This model de	100.0
TIGR00020	364	prfB peptide chain release factor 2. In many but n	100.0
PRK00578	367	prfB peptide chain release factor 2; Validated	100.0
PRK00591	359	prfA peptide chain release factor 1; Validated	100.0
COG1186	239	PrfB Protein chain release factor B [Translation,	100.0
KOG2726	386	consensus Mitochondrial polypeptide chain release	100.0
PF00472	113	RF-1: RF-1 domain; InterPro: IPR000352 Peptide cha	99.96
PRK09256	138	hypothetical protein; Provisional	99.93
KOG3429	172	consensus Predicted peptidyl-tRNA hydrolase [Trans	99.85
PF03462	115	PCRF: PCRF domain; InterPro: IPR005139 This domain	97.94

>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.9e-37  Score=260.68  Aligned_cols=121  Identities=26%  Similarity=0.355  Sum_probs=107.8

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC---------------------------C
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS---------------------------S   49 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~---------------------------~   49 (130)
                      .+|||+||+++|+.+||++++++.+.++.+||+.++++|+|.+       ++                           |
T Consensus       131 agDLfrMY~rYAe~kgWk~ei~s~se~~~GG~kEii~~I~G~gvys~LKfEsGvHRVQRVP~TEsqGRIHTStaTVaVlP  210 (363)
T COG0216         131 AGDLFRMYSRYAESKGWKVEILSASESELGGYKEIIASISGKGVYSRLKFESGVHRVQRVPATESQGRIHTSAATVAVLP  210 (363)
T ss_pred             HHHHHHHHHHHHHhCCCEEEEeecCcccCCCceEEEEEEeccchhhhhhhccCccceeccccccCCCceeecceeEEecc
Confidence            5899999999999999999999999999999999999999987       11                           2


Q ss_pred             CCCc-CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           50 SSSR-NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        50 s~~~-~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                      .+.. .-+.|+++||    +|+++||||+||||||+|+|+|||||+||||+|+|+++|||++||+.||..|+++|.+.++
T Consensus       211 E~ee~~ei~I~~~Dl----rIDt~RsSGaGGQhVNtTdSAVRiTHlPTGIvV~cQderSQ~kNk~kAmkvL~ARl~~~~~  286 (363)
T COG0216         211 EVEEVEEIEINPKDL----RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAER  286 (363)
T ss_pred             CCCcccccccChHHc----eeeeeecCCCCCCCcCccchhheeeecCCceEEEecchhhhhhhHHHHHHHHHHHHHHHHH
Confidence            2211 2355666666    9999999999999999999999999999999999999999999999999999999998854

>PRK08179 prfH peptide chain release factor-like protein; Reviewed

Probab=100.00  E-value=9.6e-37  Score=241.95  Aligned_cols=127  Identities=26%  Similarity=0.332  Sum_probs=108.2

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCC-ceeeeeeccCCCCC--------------CCCCc-------CceecC-
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSS--------------SSSSR-------NYLELT-   59 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~-~~S~~~~~~g~~~~--------------~s~~~-------~~~~i~-   59 (130)
                      .+++||+||.++|+++||++++++..+++.++ |+|++++++|...-              .+|++       |++.+. 
T Consensus        18 fa~~L~~my~~~a~~~g~~~~ii~~~~~~~~gg~ksa~~~i~G~~a~~~l~~~~G~~~~V~~sp~~~~~~R~~s~~~V~v   97 (200)
T PRK08179         18 AVAKALERLLKEAARQGVRVTVLETETGRYPDTLRSALVSLDGDNAEALAESWCGTIQWICPSPYRPHHGRKNWFVGIGR   97 (200)
T ss_pred             HHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCceEEEEEEEEccCHHHHhhcccCeeEEEecCCCCCCCCceEEEEEEEE
Confidence            47899999999999999999999999999866 99999999988620              33433       444321 


Q ss_pred             --c-hhh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           60 --D-DEL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        60 --~-~~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                        . .+| ++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus        98 ~~~~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~~~~  171 (200)
T PRK08179         98 FSADEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLEQQQQE  171 (200)
T ss_pred             eCCcCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence              1 122 346699999999999999999999999999999999999999999999999999999999988543

>TIGR03072 release_prfH putative peptide chain release factor H

Probab=100.00  E-value=3.6e-36  Score=238.67  Aligned_cols=127  Identities=26%  Similarity=0.317  Sum_probs=108.2

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCC-ceeeeeeccCCCCC--------------CCCCc-------CceecCc
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPL-FLSCNYSTNDNCSS--------------SSSSR-------NYLELTD   60 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~-~~S~~~~~~g~~~~--------------~s~~~-------~~~~i~~   60 (130)
                      .+++||+||.++|.++||++++++..+++.++ |+|+++.|+|...-              .+|++       |++.+..
T Consensus        17 fa~~L~~my~~~a~~~g~~~eii~~~~~~~~gg~ksa~~~i~G~~ay~~l~~~~G~h~~v~~sp~r~~~~R~ts~~~V~v   96 (200)
T TIGR03072        17 AVAKALERLTREAAARGVRVEVLEQEPGEVPGTLRSALVSLDGEAAAALADRWEGTLLWICPSPYRPHHRRKNWFIGVQR   96 (200)
T ss_pred             HHHHHHHHHHHHHHHcCCeEEEEeCCCCCCCCceEEEEEEEEccCHHHHhhcccceEEEEEcCCCCCCCCeeEEEEEEEE
Confidence            47899999999999999999999999999865 99999999988620              33333       4443311


Q ss_pred             ----hhh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           61 ----DEL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        61 ----~~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                          .+| ++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus        97 ~~~~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~l~~~~~~  170 (200)
T TIGR03072        97 FSASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVRLADLQQE  170 (200)
T ss_pred             ecCccccChhheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHH
Confidence                122 356799999999999999999999999999999999999999999999999999999999988543

Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon.

>PRK08787 peptide chain release factor 2; Provisional

Probab=100.00  E-value=2.1e-34  Score=241.16  Aligned_cols=127  Identities=24%  Similarity=0.321  Sum_probs=107.1

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL---   58 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i---   58 (130)
                      .+++||+||.++|+++||++++++..+++.++|+|+++.|+|...       .       .+|++       |++.+   
T Consensus        83 ~a~~LlrMY~r~A~~~g~~~evi~~~~g~~~Giksa~l~I~G~~ayg~lk~E~GvHRv~R~sp~~s~~rrhTsfasV~V~  162 (313)
T PRK08787         83 WAEILLRMYLRWAESRGWKTELMEVSGGEVAGIKSATVRIEGEYAYGWLKTEIGVHRLVRKSPFDSDNRRHTSFTSVFVS  162 (313)
T ss_pred             HHHHHHHHHHHHHHHcCCeEEEEecCCCCCceeeEEEEEEecccHHHHHhhccCeeEEEecCCCCCCCCEEeeeEEEEEe
Confidence            468999999999999999999999999998889999999998861       1       22222       33222   


Q ss_pred             Cc--h----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           59 TD--D----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        59 ~~--~----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                      |.  +    ++ +.|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|.++|.+.+.+
T Consensus       163 P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ~~Nk~~A~~~L~~~L~~~~~e  240 (313)
T PRK08787        163 PEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLYELEVQ  240 (313)
T ss_pred             cCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence            11  1    12 346799999999999999999999999999999999999999999999999999999999987543

>PRK06746 peptide chain release factor 2; Provisional

Probab=100.00  E-value=2.7e-34  Score=241.53  Aligned_cols=127  Identities=22%  Similarity=0.295  Sum_probs=107.4

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-------CCCCc-------Cceec---
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-------SSSSR-------NYLEL---   58 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-------~s~~~-------~~~~i---   58 (130)
                      .+++||+||.++|+++||++++++..+++.++|+|+++.++|..       ++       .+|++       |++.+   
T Consensus       104 ~a~~Ll~MY~r~a~~~g~~~evi~~~~~~~~g~ksa~l~i~G~~ay~~lk~E~GvHrv~Rvsp~~s~~rrhTsfa~V~v~  183 (326)
T PRK06746        104 WGSMLLRMYTRWAEKRGFKVETVDYLPGDEAGIKSVTLLIKGHNAYGYLKAEKGVHRLVRISPFDSSGRRHTSFVSCEVV  183 (326)
T ss_pred             HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceEEEEecCCCCCCCCeEeeEEEEEEe
Confidence            47899999999999999999999999999988999999999886       11       22222       33222   


Q ss_pred             Cc--h--hh---ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           59 TD--D--EL---FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        59 ~~--~--~l---~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                      |.  +  ++   +.|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+.+|+++|.+.+.+
T Consensus       184 P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ~~Nk~~A~~~L~akL~~~~~~  261 (326)
T PRK06746        184 PEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMKMLKAKLYQKKLE  261 (326)
T ss_pred             cCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            11  0  01   246699999999999999999999999999999999999999999999999999999999988653

>PRK05589 peptide chain release factor 2; Provisional

Probab=100.00  E-value=2.5e-34  Score=241.70  Aligned_cols=125  Identities=24%  Similarity=0.356  Sum_probs=106.1

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---C
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL---T   59 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i---~   59 (130)
                      +++||+||.++|+++||++++++..+++.++|+|+++.++|...       +       .+|++       |++.+   |
T Consensus       104 a~~L~~mY~~~a~~~g~~~~vi~~~~~~~~g~ks~~~~i~G~~ay~~lk~E~GvHrv~r~s~~~~~~rr~ts~a~V~VlP  183 (325)
T PRK05589        104 TEMLLRMYTRWAEKKGYKVEIIDLLEGDEAGIKSVTLKITGEFAYGYLKAEKGIHRLVRISPFNANGKRQTSFASVEVLP  183 (325)
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceEEEEEcCCCCCCCCeEeeeEEEEEec
Confidence            68999999999999999999999999999889999999999861       1       12222       32222   1


Q ss_pred             c--h----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           60 D--D----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        60 ~--~----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                      .  +    +| ++|++++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.
T Consensus       184 ~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ~~Nk~~A~~~L~~kL~~~~~  259 (325)
T PRK05589        184 ELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKMLKSKLVELKE  259 (325)
T ss_pred             CcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCHHHHHHHHHHHHHHHHHHHHH
Confidence            1  1    11 34669999999999999999999999999999999999999999999999999999999998754

>PRK07342 peptide chain release factor 2; Provisional

Probab=100.00  E-value=3.7e-34  Score=241.77  Aligned_cols=127  Identities=28%  Similarity=0.367  Sum_probs=108.0

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL---   58 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i---   58 (130)
                      .+++||+||.++|+++||++++++..+++.++|+|+++.++|.+.       .       .+|++       |++.+   
T Consensus       106 ~a~~Ll~mY~~~a~~~g~~~~vi~~~~~~~~g~ksa~l~i~G~~ay~~lk~E~GvHrv~rvsp~~~~~rrhTs~a~V~Vl  185 (339)
T PRK07342        106 WASMLLRMYTRWAERQGRKVEVLEVHDGEEAGIKSATILVKGHNAYGWLKTESGVHRLVRISPYDSNARRHTSFASIWVY  185 (339)
T ss_pred             HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceeEEEecCCCCCCCCeEeEEEEEEEE
Confidence            478999999999999999999999999999889999999998861       1       22322       33322   


Q ss_pred             Cc--h----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           59 TD--D----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        59 ~~--~----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                      |.  +    +| +++|+++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+.+|.+.+.+
T Consensus       186 P~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~~  263 (339)
T PRK07342        186 PVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARLYEEELK  263 (339)
T ss_pred             cCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHH
Confidence            11  1    12 356799999999999999999999999999999999999999999999999999999999987543

>TIGR00019 prfA peptide chain release factor 1

Probab=100.00  E-value=4e-34  Score=243.04  Aligned_cols=126  Identities=23%  Similarity=0.297  Sum_probs=106.4

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-----------CCCC---cCceec---
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-----------SSSS---RNYLEL---   58 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-----------~s~~---~~~~~i---   58 (130)
                      .+++||+||.++|.++||++++++..+++.++|+|+++.++|.+       +.           .+..   +|++.+   
T Consensus       129 ~a~~Ll~mY~~~a~~~g~~~~vi~~~~~~~~g~ksa~l~i~G~~ay~~lk~E~GvHrv~Rvp~~~s~~R~hTsfa~V~v~  208 (360)
T TIGR00019       129 FAGDLFRMYSRYAESKGWKVEILSANETELGGYKEVIAEIKGDGVYSRLKFESGVHRVQRVPVTESQGRIHTSAATVAVM  208 (360)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEEecCCCCCCcceEEEEEEecccHHHHHhhcCeeEEEECCCCCCCCCCeecceeEEEEE
Confidence            57899999999999999999999999999888999999999886       11           1111   122221   


Q ss_pred             Cch-----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           59 TDD-----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        59 ~~~-----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                      |..     .| ++|++++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.
T Consensus       209 P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~  284 (360)
T TIGR00019       209 PELEEVEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVLRARLYEAEQ  284 (360)
T ss_pred             cCCCccccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHH
Confidence            111     12 34679999999999999999999999999999999999999999999999999999999998854

This model describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognize and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cutoff for this model. RF-1 does not have a translational frameshift.

>TIGR00020 prfB peptide chain release factor 2

Probab=100.00  E-value=9.3e-34  Score=241.07  Aligned_cols=127  Identities=26%  Similarity=0.362  Sum_probs=108.0

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL---   58 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i---   58 (130)
                      .+++||+||.++|.++||++++++...++.++|+|+++.|+|...       +       .+|++       |++.+   
T Consensus       142 ~a~~L~~mY~~~a~~~g~~~evi~~~~~~~~g~ks~~~~i~G~~ay~~lk~E~GvHrv~rvs~~~~~~rrhts~a~V~vl  221 (364)
T TIGR00020       142 WASMLYRMYLRWAERRGFKVEIIDYSEGEEAGIKSVTILIKGPYAYGYLKSEQGVHRLVRISPFDANGRRHTSFASVFVM  221 (364)
T ss_pred             HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCceEEEEEEEeccCHHHHHhhccceEEEEecCCCCCCCCeEeeeEEEEEe
Confidence            478999999999999999999999999999889999999998861       1       12222       33322   


Q ss_pred             Cch------hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           59 TDD------EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        59 ~~~------~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                      |..      ++ +.|++++++|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus       222 P~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ~~Nk~~A~~~L~~kL~~~~~~  299 (364)
T TIGR00020       222 PEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKLYELEME  299 (364)
T ss_pred             cCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHH
Confidence            111      12 356799999999999999999999999999999999999999999999999999999999998653

In many but not all taxa, there is a conserved real translational frameshift at a TGA codon. RF-2 helps terminate translation at TGA codons and can therefore regulate its own production by readthrough when RF-2 is insufficient. There is a Pfam model called "RF-1" for the superfamily of RF-1, RF-2, mitochondrial, RF-H, etc.

>PRK00578 prfB peptide chain release factor 2; Validated

Probab=100.00  E-value=1e-33  Score=240.99  Aligned_cols=127  Identities=26%  Similarity=0.385  Sum_probs=107.4

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------Cceec---
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------NYLEL---   58 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~~~~i---   58 (130)
                      .+++||+||.++|.++||++++++..+++.++|+|+++.++|.+.       +       .++++       |++.+   
T Consensus       142 fa~~L~~mY~~~a~~~g~~~evi~~~~~~~gg~ks~~~~i~G~~a~~~lk~E~GvHrvqrvs~~~~~~r~hts~~~V~vl  221 (367)
T PRK00578        142 WASMLLRMYLRWAERHGFKVEVLDYSEGEEAGIKSATFKIKGPYAYGYLKSETGVHRLVRISPFDSAGRRHTSFASVEVY  221 (367)
T ss_pred             HHHHHHHHHHHHHHHcCCEEEEEecCCCCCCCeeEEEEEEeccCHHHHHhhccceEEEEecCCCCCCCceecceeeEEec
Confidence            578999999999999999999999999999889999999999861       1       11221       32222   


Q ss_pred             Cch------hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           59 TDD------EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        59 ~~~------~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                      |..      .+ ++|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.+
T Consensus       222 P~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~kL~~~~~~  299 (367)
T PRK00578        222 PEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKMLKAKLYELELE  299 (367)
T ss_pred             CCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            111      12 346699999999999999999999999999999999999999999999999999999999988653

>PRK00591 prfA peptide chain release factor 1; Validated

Probab=100.00  E-value=1.7e-33  Score=239.20  Aligned_cols=127  Identities=24%  Similarity=0.329  Sum_probs=107.6

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-----------CCCC---cCceec---
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-----------SSSS---RNYLEL---   58 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-----------~s~~---~~~~~i---   58 (130)
                      .+++||+||.++|+++||++++++..+++.++|+|+++.++|.+.       .           .+..   +|++.+   
T Consensus       129 ~a~~Ll~mY~~~a~~~g~~~~vi~~~~~~~~g~ksa~l~i~G~~ay~~Lk~E~GvHrv~R~p~~~s~~R~~tsfa~V~v~  208 (359)
T PRK00591        129 FAGDLFRMYSRYAERQGWKVEILSASEGELGGYKEVIAEISGDGVYSKLKFESGVHRVQRVPATESQGRIHTSAATVAVL  208 (359)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEEecCCCCCCceeEEEEEEecccHHHHHhhcCeeEEEEeeCCCCCCCceecceEEEEEE
Confidence            578999999999999999999999999998889999999999862       1           1111   232222   


Q ss_pred             Cch-----hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           59 TDD-----EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        59 ~~~-----~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                      |..     ++ ++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+.+|.+.+.+
T Consensus       209 P~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~~Nk~~Al~~L~~~L~~~~~~  285 (359)
T PRK00591        209 PEAEEVEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQ  285 (359)
T ss_pred             cCCCccccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            111     22 346799999999999999999999999999999999999999999999999999999999988653

>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=3.2e-33  Score=226.81  Aligned_cols=122  Identities=29%  Similarity=0.376  Sum_probs=105.7

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCCCc-------C--------
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSSSR-------N--------   54 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~~~-------~--------   54 (130)
                      +.-||+||.+.|+++|+++++++..+|+..+++|+++.++|..+       .       .|||+       |        
T Consensus        18 ~~~l~rmy~r~a~~~g~~~e~l~~~~g~~~g~ks~~~~~~g~~a~g~~~~e~g~hrlvr~Spf~~~~~R~tsf~~v~v~p   97 (239)
T COG1186          18 ASMLLRMYTRWAERKGFKVEVLDTSDGEEAGIKSATLKIKGENAYGYLKTETGVHRLVRISPFDSNGRRHTSFASVEVFP   97 (239)
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEeccCCcccccceEEEEEechHHHHHHHhhcceeEEEeecCCCcCcccccceeeeeecC
Confidence            45689999999999999999999999999889999999999651       1       34444       1        


Q ss_pred             ------ceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           55 ------YLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        55 ------~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                            .+.|++    .|++++|+|||||||||||||+|||+|+|+|+||++.|+.+|||++|++.|+..|+.+|.+.++
T Consensus        98 ~~~~~i~i~I~~----~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a~~~l~~kL~~~~~  173 (239)
T COG1186          98 ELDISIEIEIPD----DDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALARKMLKGKLYILAQ  173 (239)
T ss_pred             CCCcccceecCc----cceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                  233333    4559999999999999999999999999999999999999999999999999999999988765


Q ss_pred             c
Q 032906          129 E  129 (130)
Q Consensus       129 ~  129 (130)
                      +
T Consensus       174 ~  174 (239)
T COG1186         174 E  174 (239)
T ss_pred             H
Confidence            4

>KOG2726 consensus Mitochondrial polypeptide chain release factor [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=5.9e-33  Score=237.07  Aligned_cols=122  Identities=27%  Similarity=0.328  Sum_probs=105.4

Q ss_pred             chHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C--------CC-----------------
Q 032906            3 PLAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S--------SS-----------------   50 (130)
Q Consensus         3 ~~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~--------~s-----------------   50 (130)
                      .-.+||.||..+|++++|++++++..+++.+|+++++++|+|.+.       .        ++                 
T Consensus       154 ft~el~~MY~~~a~~~~w~~~~l~~~~~~~~Gi~~At~~i~G~~ayg~l~~E~GvHRv~r~p~~e~~gr~htstasV~Vi  233 (386)
T KOG2726|consen  154 FTMELVDMYQKYAERLGWKARVLEKAPGESGGIKSATLEIEGESAYGYLKFEAGVHRVQRVPSTETSGRRHTSTASVAVI  233 (386)
T ss_pred             HHHHHHHHHHHHHHhcccceeehhcCCcccccceeeeeEecccchhheeeccCcccceeecCCcccccccccccceEEEe
Confidence            346899999999999999999999999999999999999999871       1        10                 


Q ss_pred             --C--CcCceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhh
Q 032906           51 --S--SRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEE  126 (130)
Q Consensus        51 --~--~~~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~  126 (130)
                        +  -...+.++    ++||+++++|+|||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+.+|+.+|.+.
T Consensus       234 P~~~~~~~~~~~~----~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRSq~~Nr~~A~~~L~akL~~~  309 (386)
T KOG2726|consen  234 PQPGRDEVDVEID----EKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERSQHKNRALALKRLRAKLAVI  309 (386)
T ss_pred             ccCCCCccceecC----chheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHhHHhhHHHHHHHHHHHHHHH
Confidence              1  11222333    345699999999999999999999999999999999999999999999999999999999987


Q ss_pred             hh
Q 032906          127 QC  128 (130)
Q Consensus       127 q~  128 (130)
                      +.
T Consensus       310 ~~  311 (386)
T KOG2726|consen  310 YR  311 (386)
T ss_pred             HH
Confidence            54

>PF00472 RF-1: RF-1 domain; InterPro: IPR000352 Peptide chain release factors (RFs) are required for the termination of protein biosynthesis []

Probab=99.96  E-value=7e-30  Score=185.77  Aligned_cols=70  Identities=41%  Similarity=0.673  Sum_probs=64.7

Q ss_pred             CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhh
Q 032906           54 NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQ  127 (130)
Q Consensus        54 ~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q  127 (130)
                      ..+.|++++|    +++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++|++.|+++|.++|.++.
T Consensus         5 ~~~~i~~~dl----~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~   74 (113)
T PF00472_consen    5 KEIDIPEKDL----EISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAY   74 (113)
T ss_dssp             SSSCC-GGGE----EEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccCHHHe----EEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHH
Confidence            3456777777    999999999999999999999999999999999999999999999999999999999874

At present two classes of RFs can be distinguished. Class I RFs bind to ribosomes that have encountered a stop codon at their decoding site and induce release of the nascent polypeptide. Class II RFs are GTP-binding proteins that interact with class I RFs and enhance class I RF activity. In prokaryotes there are two class I RFs that act in a codon specific manner []: RF-1 (gene prfA) mediates UAA and UAG-dependent termination while RF-2 (gene prfB) mediates UAA and UGA-dependent termination. RF-1 and RF-2 are structurally and evolutionary related proteins which have been shown to be part of a larger family [].; GO: 0003747 translation release factor activity, 0006415 translational termination; PDB: 2JY9_A 1ZBT_A 1GQE_A 3F1G_X 3F1E_X 1RQ0_C 4DH9_Y 2JVA_A 1J26_A 3D5A_X ....

>PRK09256 hypothetical protein; Provisional

Probab=99.93  E-value=8.3e-26  Score=170.50  Aligned_cols=70  Identities=39%  Similarity=0.552  Sum_probs=63.3

Q ss_pred             CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEE------eC-----------------Ce-eEEEEcCcCCHH
Q 032906           54 NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH------VP-----------------TG-VIALAAEDRSQH  109 (130)
Q Consensus        54 ~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h------~P-----------------tG-i~v~~~e~RSq~  109 (130)
                      ..+.|++++|    +++|+|||||||||||||+|+|+|+|      +|                 +| |+|+|+++|||+
T Consensus         6 ~~~~i~~~~l----~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~~RSQ~   81 (138)
T PRK09256          6 RRLVIPENEL----EWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQEFRSQE   81 (138)
T ss_pred             ccCccCHHHe----EEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccCCCcEEEEECCcCCHH
Confidence            3456777777    99999999999999999999999996      77                 46 999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhh
Q 032906          110 KNRASALSHSFGPQSEEQ  127 (130)
Q Consensus       110 ~Nr~~A~~rL~~~l~e~q  127 (130)
                      +|+++|+++|.++|.++.
T Consensus        82 ~Nr~~al~kL~~~i~~~~   99 (138)
T PRK09256         82 RNREDALERLVALIREAL   99 (138)
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            999999999999999874

>KOG3429 consensus Predicted peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]

Probab=99.85  E-value=1.3e-21  Score=151.84  Aligned_cols=67  Identities=34%  Similarity=0.521  Sum_probs=60.4

Q ss_pred             cCchhhccceeeeEEecCCCCCcCCCccCceEEEEE-------eC-----------------Ce-eEEEEcCcCCHHHHH
Q 032906           58 LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH-------VP-----------------TG-VIALAAEDRSQHKNR  112 (130)
Q Consensus        58 i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h-------~P-----------------tG-i~v~~~e~RSq~~Nr  112 (130)
                      ||.+.+    +++|+||||||||||||++|+|.|++       ||                 .| |+|.++.+|||+.|.
T Consensus        37 ipld~~----~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~Ni  112 (172)
T KOG3429|consen   37 IPLDQL----EISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHKNI  112 (172)
T ss_pred             Cchhhe----EEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhccH
Confidence            554556    99999999999999999999999994       55                 35 999999999999999


Q ss_pred             HHHHHHHHHHHhhhhh
Q 032906          113 ASALSHSFGPQSEEQC  128 (130)
Q Consensus       113 ~~A~~rL~~~l~e~q~  128 (130)
                      ++||++|+++|.++++
T Consensus       113 aDcleKlr~~I~~~~~  128 (172)
T KOG3429|consen  113 ADCLEKLRDIIRAAEQ  128 (172)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999999865

>PF03462 PCRF: PCRF domain; InterPro: IPR005139 This domain is found in peptide chain release factors

Probab=97.94  E-value=9.1e-06  Score=59.14  Aligned_cols=42  Identities=7%  Similarity=-0.034  Sum_probs=37.8

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCC
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDN   45 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~   45 (130)
                      +++||+||.++|.++||++++++...++.++++++++.|+|.
T Consensus        65 a~~L~~MY~~~a~~~gw~~~~l~~~~~~~~G~k~a~~~I~G~  106 (115)
T PF03462_consen   65 AEELFRMYQRYAERRGWKVEVLDYSPGEEGGIKSATLEISGE  106 (115)
T ss_dssp             HHHHHHHHHHHHHHTT-EEEEEEEEE-SSSSEEEEEEEEEST
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEecCCCCccceeEEEEEEEcC
Confidence            578999999999999999999999999998899999999876

Peptide chain release factors are important for protein synthesis since they direct the termination of translation in response to the peptide chain termination codons UAG and UAA. These are structurally distinct but both contain the PCRF domain [].; GO: 0016149 translation release factor activity, codon specific, 0006415 translational termination, 0005737 cytoplasm; PDB: 3D5A_X 3D5C_X 3MR8_V 3MS0_V 3F1G_X 3F1E_X 1ZBT_A 2IHR_1 2X9R_Y 2X9T_Y ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	130
1ml5_Z	365	Structure Of The E. Coli Ribosomal Termination Comp		3e-12
1mi6_A	365	Docking Of The Modified Rf2 X-Ray Structure Into Th		4e-12
1gqe_A	365	Polypeptide Chain Release Factor 2 (Rf2) From Esche		8e-12
2b3t_B	360	Molecular Basis For Bacterial Class 1 Release Facto		1e-11
2fvo_A	333	Docking Of The Modified Rf1 X-ray Structure Into Th		3e-09
1rq0_A	342	Crystal Structure Of Peptide Releasing Factor 1 Len		3e-09
2b64_Y	354	30s Ribosomal Subunit, Trnas, Mrna And Release Fact		5e-09
3f1e_X	378	Crystal Structure Of A Translation Termination Comp		8e-08
2wh1_Y	351	Insights Into Translational Termination From The St		8e-08
2x9r_Y	351	Structure Of The 70s Ribosome Bound To Release Fact		8e-08
2ihr_1	365	Rf2 Of Thermus Thermophilus Length = 365		8e-08
2b9m_Y	365	30s Ribosomal Subunit, Trnas, Mrna And Release Fact		8e-08
1zbt_A	371	Crystal Structure Of Peptide Chain Release Factor 1		5e-07
2rsm_A	115	Solution Structure And Sirna-Mediated Knockdown Ana		2e-05

>pdb|1ML5|Z Chain Z, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 Length = 365

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 36/50 (72%)
Query: 69  MDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSH 118
           +D Y++SG GGQH N+ ESAVR+ H+PTG++     DRSQHKN+  A+  
Sbjct: 241 IDVYRTSGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQ 290

>pdb|1MI6|A Chain A, Docking Of The Modified Rf2 X-Ray Structure Into The Low Resolution Cryo-Em Map Of Rf2 E.Coli 70s Ribosome Length = 365

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 36/50 (72%)
Query: 69  MDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSH 118
           +D Y++SG GGQH N+ ESAVR+ H+PTG++     DRSQHKN+  A+  
Sbjct: 241 IDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQ 290

>pdb|1GQE|A Chain A, Polypeptide Chain Release Factor 2 (Rf2) From Escherichia Coli Length = 365

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 26/47 (55%), Positives = 35/47 (74%)
Query: 69  MDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
           +D Y++SG GGQH N+ ESAVR+ H+PTG++     DRSQHKN+  A
Sbjct: 241 IDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQA 287

>pdb|2B3T|B Chain B, Molecular Basis For Bacterial Class 1 Release Factor Methylation By Prmc Length = 360

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 26/49 (53%), Positives = 38/49 (77%)
Query: 69  MDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +D ++SSG GGQH N  +SA+R+ H+PTG++    ++RSQHKN+A ALS
Sbjct: 224 IDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALS 272

>pdb|2FVO|A Chain A, Docking Of The Modified Rf1 X-ray Structure Into The Low Resolution Cryo-em Map Of E.coli 70s Ribosome Bound With Rf1 Length = 333

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 39/51 (76%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           + +++ +++SG GGQ+ NK ESAVR+ H+PTG++     +RSQ++N+ +AL
Sbjct: 197 DLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTAL 247

>pdb|1RQ0|A Chain A, Crystal Structure Of Peptide Releasing Factor 1 Length = 342

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 39/51 (76%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           + +++ +++SG GGQ+ NK ESAVR+ H+PTG++     +RSQ++N+ +AL
Sbjct: 197 DLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTAL 247

>pdb|2B64|Y Chain Y, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1 From A Crystal Structure Of The Whole Ribosomal Complex. This File Contains The 30s Subunit, Trnas, Mrna And Release Factor Rf1 From A Crystal Structure Of The Whole Ribosomal Complex". The Entire Crystal Structure Contains One 70s Ribosome, Trnas, Mrna And Release Factor Rf1 And Is Described In Remark 400. Length = 354

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 25/51 (49%), Positives = 34/51 (66%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG++    + RSQ KNR  AL
Sbjct: 216 EIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKAL 266

>pdb|3F1E|X Chain X, Crystal Structure Of A Translation Termination Complex Formed With Release Factor Rf2. This File Contains The 30s Subunit, Rf2, Two Trna, And Mrna Molecules Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes As Described In Remark 400. Length = 378

Iteration: 1
 Score = 52.4 bits (124), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 32/51 (62%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG+       RSQ KN+  AL
Sbjct: 239 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELAL 289

>pdb|2WH1|Y Chain Y, Insights Into Translational Termination From The Structure Of Rf2 Bound To The Ribosome Length = 351

Iteration: 1
 Score = 52.4 bits (124), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 32/51 (62%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG+       RSQ KN+  AL
Sbjct: 221 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELAL 271

>pdb|2X9R|Y Chain Y, Structure Of The 70s Ribosome Bound To Release Factor 2 And A Substrate Analog Provides Insights Into Catalysis Of Peptide Release Length = 351

Iteration: 1
 Score = 52.4 bits (124), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 32/51 (62%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG+       RSQ KN+  AL
Sbjct: 221 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELAL 271

>pdb|2IHR|1 Chain 1, Rf2 Of Thermus Thermophilus Length = 365

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 32/51 (62%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG+       RSQ KN+  AL
Sbjct: 226 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELAL 276

>pdb|2B9M|Y Chain Y, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2 From A Crystal Structure Of The Whole Ribosomal Complex. This File Contains The 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2 From A Crystal Structure Of The Whole Ribosomal Complex". The Entire Crystal Structure Contains One 70s Ribosome, Trnas, Mrna And Release Factor Rf2 And Is Described In Remark 400 Length = 365

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 32/51 (62%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG+       RSQ KN+  AL
Sbjct: 226 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELAL 276

>pdb|1ZBT|A Chain A, Crystal Structure Of Peptide Chain Release Factor 1 (rf-1) (smu.1085) From Streptococcus Mutans At 2.34 A Resolution Length = 371

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 33/51 (64%)
Query: 65  RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
           ++  +D Y +SG GGQ+ NK  +AVR+ H+PT +     E+R+Q KNR  A
Sbjct: 233 KDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEXQEERTQQKNRDKA 283

>pdb|2RSM|A Chain A, Solution Structure And Sirna-Mediated Knockdown Analysis Of The Mitochondrial Disease-Related Protein C12orf65 (Ict2) Length = 115

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/50 (44%), Positives = 28/50 (56%)
Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
           E E    K  GPGGQ  NK  + V LKHVP+G++    + RS  +NR  A
Sbjct: 47  ELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKIA 96

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	130
2rsm_A	115	Probable peptide chain release factor C12ORF65 HO	4e-22
2ihr_1	365	Peptide chain release factor 2; mixed alpha-beta,	4e-20
1zbt_A	371	RF-1, peptide chain release factor 1; peptide chai	5e-20
3d5a_X	354	RF1, peptide chain release factor 1; ribosome, rib	7e-20
2b3t_B	360	RF-1, peptide chain release factor 1; translation	8e-20
1rq0_A	342	RF-1, peptide chain release factor 1; X-RAY, cryst	1e-19
1gqe_A	365	Release factor 2, RF2; protein synthesis, ribosome	2e-19
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	1e-11
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	2e-10
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	1e-07

>2rsm_A Probable peptide chain release factor C12ORF65 HO mitochondrial; GGQ domain, translation; NMR {Mus musculus} Length = 115

 Score = 83.2 bits (206), Expect = 4e-22
 Identities = 25/62 (40%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 56  LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
           L L + EL    E    K  GPGGQ  NK  + V LKHVP+G++    + RS  +NR  A
Sbjct: 41  LPLNESEL----EEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKIA 96

Query: 116 LS 117
             
Sbjct: 97  RK 98

>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation; 2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X 2x9r_Y* 2x9t_Y* 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y Length = 365

 Score = 83.1 bits (206), Expect = 4e-20
 Identities = 24/51 (47%), Positives = 32/51 (62%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG+       RSQ KN+  AL
Sbjct: 226 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELAL 276

>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor 1 (RF-1), structural joint center for structural genomics, JCSG; 2.34A {Streptococcus mutans} Length = 371

 Score = 82.6 bits (205), Expect = 5e-20
 Identities = 22/52 (42%), Positives = 33/52 (63%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D Y +SG GGQ+ NK  +AVR+ H+PT +     E+R+Q KNR  A+ 
Sbjct: 234 DLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEMQEERTQQKNRDKAMK 285

>3d5a_X RF1, peptide chain release factor 1; ribosome, ribonucleoprotein, ribosomal protein, RNA-binding, binding, metal-binding, zinc-finger; 3.21A {Thermus thermophilus} PDB: 2b64_Y 3d5c_X 3mr8_V 3ms0_V Length = 354

 Score = 82.2 bits (204), Expect = 7e-20
 Identities = 25/52 (48%), Positives = 34/52 (65%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           E  +D  ++SGPGGQ  N  +SAVR+ H+PTG++    + RSQ KNR  AL 
Sbjct: 216 EIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALM 267

>2b3t_B RF-1, peptide chain release factor 1; translation termination, methylation, conformational changes; HET: SAH; 3.10A {Escherichia coli} SCOP: e.38.1.1 Length = 360

 Score = 82.2 bits (204), Expect = 8e-20
 Identities = 26/52 (50%), Positives = 39/52 (75%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           +  +D ++SSG GGQH N  +SA+R+ H+PTG++    ++RSQHKN+A ALS
Sbjct: 221 DLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALS 272

>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide release factor 1, ribosome, structural genomics, BSGC structure funded by NIH; 2.65A {Thermotoga maritima} SCOP: e.38.1.1 PDB: 2fvo_A Length = 342

 Score = 81.1 bits (201), Expect = 1e-19
 Identities = 22/49 (44%), Positives = 37/49 (75%)

Query: 69  MDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALS 117
           ++ +++SG GGQ+ NK ESAVR+ H+PTG++     +RSQ++N+ +AL 
Sbjct: 200 IETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALR 248

>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular mimicry, translation; 1.81A {Escherichia coli} SCOP: e.38.1.1 PDB: 1mi6_A 1ml5_Z* Length = 365

 Score = 81.2 bits (201), Expect = 2e-19
 Identities = 26/51 (50%), Positives = 37/51 (72%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASAL 116
           +  +D Y++SG GGQH N+ ESAVR+ H+PTG++     DRSQHKN+  A+
Sbjct: 238 DLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAM 288

>4dh9_Y YAEJ; ribosome, YAEJ, ribosome stalling, ribosome rescue, rescue F alternative rescue factor, ARFB, release factor, rescue of ribosomes; 3.20A {Escherichia coli} PDB: 2jy9_A Length = 140

 Score = 57.1 bits (138), Expect = 1e-11
 Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 24/77 (31%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLK------------------------HVPTGVIAL 101
           E E+ A ++ G GGQH NK  +A+ L+                             ++  
Sbjct: 14  ELEITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHLISSDGVIVIK 73

Query: 102 AAEDRSQHKNRASALSH 118
           A E RSQ  NR +AL+ 
Sbjct: 74  AQEYRSQELNREAALAR 90

>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural genomics, PSI-2, protein STRU initiative; NMR {Pseudomonas syringae PV} Length = 108

 Score = 53.0 bits (127), Expect = 2e-10
 Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 24/75 (32%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPT-----------------------GVIALA 102
           E E+ A ++ G GGQ+ NK  SA+ L+                           GVI L 
Sbjct: 14  EIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITSDGVIVLK 73

Query: 103 AED-RSQHKNRASAL 116
           A+  R+Q +NRA AL
Sbjct: 74  AQQYRTQEQNRADAL 88

>1j26_A Immature colon carcinoma transcript 1; peptide chain release factors, RF-1, the GGQ motif, immature carcinoma transcript 1; NMR {Mus musculus} SCOP: d.50.4.1 Length = 112

 Score = 45.9 bits (108), Expect = 1e-07
 Identities = 15/76 (19%), Positives = 23/76 (30%), Gaps = 25/76 (32%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIAL------------------------ 101
              +   +SSGPGGQ+ NK  S   ++        +                        
Sbjct: 21  RLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVL 80

Query: 102 -AAEDRSQHKNRASAL 116
            +   R Q +N A  L
Sbjct: 81  TSESSRYQFRNLAECL 96

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	130
1gqe_A	365	Release factor 2, RF2; protein synthesis, ribosome	100.0
1zbt_A	371	RF-1, peptide chain release factor 1; peptide chai	100.0
1rq0_A	342	RF-1, peptide chain release factor 1; X-RAY, cryst	100.0
3d5a_X	354	RF1, peptide chain release factor 1; ribosome, rib	100.0
2b3t_B	360	RF-1, peptide chain release factor 1; translation	100.0
2ihr_1	365	Peptide chain release factor 2; mixed alpha-beta,	100.0
2rsm_A	115	Probable peptide chain release factor C12ORF65 HO	99.97
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	99.96
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	99.95
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	99.94

>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular mimicry, translation; 1.81A {Escherichia coli} SCOP: e.38.1.1 PDB: 1mi6_A 1ml5_Z*

Probab=100.00  E-value=1.7e-35  Score=250.67  Aligned_cols=121  Identities=25%  Similarity=0.361  Sum_probs=105.5

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-------CCCCc-------C--------
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-------SSSSR-------N--------   54 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-------~s~~~-------~--------   54 (130)
                      +++||+||.++|+++||++++++..+++.+||+|+++.|+|.+       ++       -+|+.       |        
T Consensus       145 a~~L~rMY~r~Ae~~g~k~evl~~~~~e~~G~Ks~~~~I~G~~ayg~Lk~EsGvHRvqRvs~~es~gRrhTS~asV~V~P  224 (365)
T 1gqe_A          145 ASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHRLVRKSPFDSGGRRHTSFSSAFVYP  224 (365)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEEEECSSSSEEEEEEEEESTTHHHHHGGGCEEEEEEEECTTSSSCCEEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHCCCeEEEEecCCCCCCceeEEEEEEECcCHHHHhhhccceEEEEEeCCCCCcCCCCcceeEEEEec
Confidence            5799999999999999999999999999999999999999986       11       11111       1        


Q ss_pred             ------ceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           55 ------YLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        55 ------~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                            .+.|++    .||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.
T Consensus       225 e~~~~v~i~i~~----~dl~~~~~RssG~GGQ~VNkt~saVrl~HiPtgivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~  300 (365)
T 1gqe_A          225 EVDDDIDIEINP----ADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVEM  300 (365)
T ss_dssp             CCBTTBCCCCCG----GGEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcccccccCH----HHceEeeecCCCCCCCcccCccceEEEEECCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                  122333    4569999999999999999999999999999999999999999999999999999999998754

>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor 1 (RF-1), structural joint center for structural genomics, JCSG; 2.34A {Streptococcus mutans}

Probab=100.00  E-value=1.1e-35  Score=252.08  Aligned_cols=121  Identities=23%  Similarity=0.279  Sum_probs=96.5

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-----------CCCCc------------
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-----------SSSSR------------   53 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-----------~s~~~------------   53 (130)
                      +++||+||.++|+++||++++++..+++.+||+|+++.|+|.+       ++           .++.+            
T Consensus       142 a~~L~rMY~r~Ae~~g~kvevl~~~~~~~gG~ksv~~~I~G~~ayg~Lk~EsGvHRvqRvp~tes~gR~hTS~asV~V~P  221 (371)
T 1zbt_A          142 AGDLLNMYQKYAENQGWKFEVMEASANGVGGLKEVVAMVSGQSVYSKLKYESGAHRVQRVPVTESQGRVHTSTATVLVMP  221 (371)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEEEECSSSCEEEEEEEEESTTHHHHHGGGCEEEEEEECCTTCSSCCCEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEecCCCCCCCceEEEEEEECccHHHHHhhccCeEEEEeecCCCCCCcccccceEEEEec
Confidence            5799999999999999999999999999989999999999986       11           11111            


Q ss_pred             ----CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           54 ----NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        54 ----~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                          -.+.|++    .|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+++.
T Consensus       222 e~~ev~i~I~~----~dl~i~~~RssGpGGQ~VNkt~SaVrlthlPtGivV~~q~eRSQ~~Nr~~A~~~L~~~L~~~~~  296 (371)
T 1zbt_A          222 EVEEVEYEIDP----KDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEMQEERTQQKNRDKAMKIIRARVADHFA  296 (371)
T ss_dssp             CCCGGGSCCCG----GGEEEEEECC---------CCCCEEEEEETTTTEEEEECSSSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccCc----CcEEEEEecCCCCCCCcccccceeEEEEECCCeEEEEECCcCCHHHHHHHHHHHHHHHHHHHHH
Confidence                1123443    4559999999999999999999999999999999999999999999999999999999998854

>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide release factor 1, ribosome, structural genomics, BSGC structure funded by NIH; 2.65A {Thermotoga maritima} SCOP: e.38.1.1 PDB: 2fvo_A

Probab=100.00  E-value=1.2e-35  Score=249.79  Aligned_cols=121  Identities=26%  Similarity=0.320  Sum_probs=101.5

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-----------CCCCc------------
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-----------SSSSR------------   53 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-----------~s~~~------------   53 (130)
                      +++||+||.++|+++||++++++..+++.+||+|+++.|+|.+       ++           .++.+            
T Consensus       105 a~~L~rMY~r~ae~~g~kvevl~~~~~~~gG~ks~~~~I~G~~ayg~Lk~E~GvHRvqRvp~~es~gR~hTS~asV~V~P  184 (342)
T 1rq0_A          105 ARDLFRMYTRYAERKGWNLEVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRVPVTESGGRIHTSTATVAVLP  184 (342)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEEEECTTSCEEEEEEEEESTTHHHHHGGGCEEEEEEECCTTSCSCCCEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEecCCCCCCccEEEEEEEECcCHHHHHhhccCeEEEEecCCcccCCCCcccceEEEEec
Confidence            6799999999999999999999999999988999999999986       11           11111            


Q ss_pred             ----CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           54 ----NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        54 ----~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                          ..+.|++    .|++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+++.
T Consensus       185 e~~~~~i~i~~----~dl~i~~~RssGpGGQ~VNKt~SaVrl~hlPtGivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~  259 (342)
T 1rq0_A          185 EIEEKDIEIRP----EDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILRARLYQLQK  259 (342)
T ss_dssp             CCCGGGSCCCG----GGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccCh----hHeEEEeecCCCCCCcccccccceEEEEECCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                1123443    4559999999999999999999999999999999999999999999999999999999998854

>3d5a_X RF1, peptide chain release factor 1; ribosome, ribonucleoprotein, ribosomal protein, RNA-binding, binding, metal-binding, zinc-finger; 3.21A {Thermus thermophilus} PDB: 2b64_Y 3d5c_X 3mr8_V 3ms0_V

Probab=100.00  E-value=9.6e-36  Score=251.33  Aligned_cols=121  Identities=26%  Similarity=0.317  Sum_probs=105.7

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-----------CCCCc------------
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-----------SSSSR------------   53 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-----------~s~~~------------   53 (130)
                      +++||+||.++|+++||++++++..+++.+||+|+++.|+|.+       ++           .++.+            
T Consensus       124 a~~L~rMY~r~ae~~g~k~ev~~~~~~~~gG~k~v~~~i~G~~ayg~Lk~E~GvHRvqRvp~~es~gR~hTS~asV~V~P  203 (354)
T 3d5a_X          124 ARDLFNMYLRFAEEMGFETEVLDSHPTDLGGFSKVVFEVRGPGAYGTFKYESGVHRVQRVPVTETQGRIHTSTATVAVLP  203 (354)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEEEECTTSSEEEEEEEEESTTHHHHHGGGCSEEEEEECCSSCSSCCCEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEeCCCCCCCccEEEEEEEECccHHHHHHhccCeeEEEecCCcCCCCcCccCceEEEEec
Confidence            5799999999999999999999999999989999999999986       11           11111            


Q ss_pred             ----CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           54 ----NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        54 ----~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                          ..+.|+++    |++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+++.
T Consensus       204 ~~~~~~i~i~~~----dl~i~~~RssG~GGQ~VNkt~SaVrl~HlPtgivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~  278 (354)
T 3d5a_X          204 KAEEEDFALNMD----EIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALMILRSRLLEMKR  278 (354)
T ss_dssp             CCCCCCCCCCGG----GEEEEEECCCSCCHHHHHHCCCEEEEEETTTTEEEEECCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcccccccCcc----ceEEEeecCCCCCCcccccccceEEEEEcCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                12334444    459999999999999999999999999999999999999999999999999999999998864

>2b3t_B RF-1, peptide chain release factor 1; translation termination, methylation, conformational changes; HET: SAH; 3.10A {Escherichia coli} SCOP: e.38.1.1

Probab=100.00  E-value=1.7e-35  Score=250.22  Aligned_cols=121  Identities=25%  Similarity=0.333  Sum_probs=105.3

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-----------CCCCc------------
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-----------SSSSR------------   53 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-----------~s~~~------------   53 (130)
                      +++||+||.++|+++||++++++..+++.+||+|+++.|+|.+.       +           .++.+            
T Consensus       128 a~~L~rMY~r~ae~~g~k~ev~~~~~~~~gG~k~~~~~i~G~~ayg~Lk~E~GvHRvqRvp~~es~gR~hTS~asV~V~P  207 (360)
T 2b3t_B          128 AGDLFRMYSRYAEARRWRVEIMSASEGEHGGYKEIIAKISGDGVYGRLKFESGGHRVQRVPATESQGRIHTSACTVAVMP  207 (360)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCEEEEEECTTSSEEEEEEEECSSSCHHHHGGGCEEEEEEECCTTCSSCCCEEEEEEEECCB
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEecCCCCCCCceEEEEEEEcccHHHHHHhccCeEEEEecCCCcccCcCCccceEEEEec
Confidence            58999999999999999999999999999999999999999861       1           11111            


Q ss_pred             --C--c-eecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           54 --N--Y-LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        54 --~--~-~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                        .  - +.|+++    |++++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+++.
T Consensus       208 e~~~~e~i~i~~~----dl~i~~~RssG~GGQ~VNkt~saVrl~hlPtGivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~  283 (360)
T 2b3t_B          208 ELPDAELPDVNPA----DLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARIHAAEM  283 (360)
T ss_dssp             CCCTTTCCCCCSS----SEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHTTTTT
T ss_pred             CcccccccccChh----heEEeeecCCCCCCCccccccceEEEEECCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence              0  1 334444    559999999999999999999999999999999999999999999999999999999998754

>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation; 2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X 2x9r_Y* 2x9t_Y* 2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y

Probab=100.00  E-value=4.1e-35  Score=248.25  Aligned_cols=121  Identities=23%  Similarity=0.222  Sum_probs=105.5

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-------CCCCc----------------
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-------SSSSR----------------   53 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-------~s~~~----------------   53 (130)
                      .++||+||.++|+++||++++++..+++.+||+|+++.|+|.+       ++       -+|+.                
T Consensus       133 a~~L~rMY~r~Ae~~g~k~evl~~~~~~~gG~ks~~~~I~G~~ayg~Lk~E~GvHRvqRvs~~es~gRrhTS~asV~V~P  212 (365)
T 2ihr_1          133 AEMLLRMYTRFAERQGFQVEVVDLTPGPEAGIDYAQILVKGENAYGLLSPEAGVHRLVRPSPFDASGRRHTSFAGVEVIP  212 (365)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEEEECSSSSEEEEEEEEESTTHHHHHGGGCEEEEEEEECTTSSSCCEEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEecCCCCCCCeEEEEEEEEccCHHHhhhhCcCEEEEEEeCCCCccCCccceeEEEEEec
Confidence            5799999999999999999999999999999999999999987       11       11111                


Q ss_pred             -----CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           54 -----NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        54 -----~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                           ..+.|++    .||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.+.+.
T Consensus       213 ~~~~~~~i~i~~----~dl~i~~~RssG~GGQ~VNkt~saVrl~h~Ptgivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~  288 (365)
T 2ihr_1          213 EVDEEVEVVLKP----EELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKARLYELER  288 (365)
T ss_dssp             ECCSSSSCCCCG----GGEEEEEECCCCSSCCSGGGSCSEEEEEETTTTEEEEECSSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcccccccCc----cceEEEEeecCCCCCceecccceEEEEEEcCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence                 1123333    4559999999999999999999999999999999999999999999999999999999998754

>2rsm_A Probable peptide chain release factor C12ORF65 HO mitochondrial; GGQ domain, translation; NMR {Mus musculus}

Probab=99.97  E-value=7e-31  Score=192.30  Aligned_cols=75  Identities=33%  Similarity=0.407  Sum_probs=69.5

Q ss_pred             CCcCceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           51 SSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        51 ~~~~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                      .+...+.|+++||    +++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|++..+.
T Consensus        36 d~~~~l~I~~~dl----~~~~~RssGpGGQ~VNKt~SaVrl~H~PTGivV~~q~~RSQ~~Nr~~A~~~L~~kL~e~~~~  110 (115)
T 2rsm_A           36 DYPALLPLNESEL----EEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKIARKVLQEKVDVFYNS  110 (115)
T ss_dssp             CCCCSCCCCGGGC----EEEECSCCCSCSSSCCCSCCCEEEECTTTCCEEEECCSSCHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CCCccCCcCHHHe----EEEEeeCCCCCccccCccceeEEEecCCCCcEEEEcCCCCHHHHHHHHHHHHHHHHHHHhcc
Confidence            3445688998888    99999999999999999999999999999999999999999999999999999999998653

>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural genomics, PSI-2, protein STRU initiative; NMR {Pseudomonas syringae PV}

Probab=99.96  E-value=4.7e-29  Score=180.65  Aligned_cols=70  Identities=36%  Similarity=0.520  Sum_probs=65.5

Q ss_pred             CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEE------eC-----------------Ce-eEEEEcCcCCHH
Q 032906           54 NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH------VP-----------------TG-VIALAAEDRSQH  109 (130)
Q Consensus        54 ~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h------~P-----------------tG-i~v~~~e~RSq~  109 (130)
                      ..+.|++++|    +++|+|||||||||||||+|+|+|+|      +|                 +| |+|+|+++|||.
T Consensus         6 ~~i~I~~~dl----~~~~~RssGpGGQnVNKv~SaV~L~~d~~~s~lP~~~k~rl~~~~~~ri~~~G~ivv~~q~~RSQ~   81 (108)
T 2jva_A            6 NNVHLPDAEI----ELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITSDGVIVLKAQQYRTQE   81 (108)
T ss_dssp             SSCEECGGGE----EEEECCCTTCSSSSSCCCCCCEEEEEETTTSCCCHHHHHHHHTCSCTTBCTTCEEEEEECCSSSHH
T ss_pred             cccccChHHE----EEEEEECCCCCCCCcCCCcceEEEEEEcccccCCHHHHHHHHHHhccccccCCcEEEEECCcCCHH
Confidence            3567887877    99999999999999999999999999      99                 88 999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhh
Q 032906          110 KNRASALSHSFGPQSEEQ  127 (130)
Q Consensus       110 ~Nr~~A~~rL~~~l~e~q  127 (130)
                      +||++|+++|.++|.++.
T Consensus        82 ~Nr~~Al~rL~~~l~~a~   99 (108)
T 2jva_A           82 QNRADALLRLSELIVNAA   99 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHc
Confidence            999999999999999874

>1j26_A Immature colon carcinoma transcript 1; peptide chain release factors, RF-1, the GGQ motif, immature carcinoma transcript 1; NMR {Mus musculus} SCOP: d.50.4.1

Probab=99.95  E-value=9.8e-29  Score=179.95  Aligned_cols=70  Identities=27%  Similarity=0.374  Sum_probs=65.2

Q ss_pred             CceecCchhhccceeeeEEecCCCCCcCCCccCceEEEE-EeCCe------------------------eEEEEcCcCCH
Q 032906           54 NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLK-HVPTG------------------------VIALAAEDRSQ  108 (130)
Q Consensus        54 ~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~-h~PtG------------------------i~v~~~e~RSq  108 (130)
                      -.+.|++++|    +++|+|||||||||||||+|+|+|+ |+|+|                        |+|+|+++|||
T Consensus        13 ~~i~I~~~dl----~~~~~RssGpGGQnVNKv~SaV~Lrf~i~t~~~Lp~~~k~rl~~~~~~ri~~~G~ivv~~q~~RSQ   88 (112)
T 1j26_A           13 ASSYIPLDRL----SISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQ   88 (112)
T ss_dssp             SCCCCCTTTS----EEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEEEECCCSSH
T ss_pred             eEEecChHHe----EEEEEECCCCCCCCccCCcceEEEEEeccccccCCHHHHHHHHHhhccccccCCeEEEEECCccCH
Confidence            3566887887    9999999999999999999999998 99987                        99999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhh
Q 032906          109 HKNRASALSHSFGPQSEEQ  127 (130)
Q Consensus       109 ~~Nr~~A~~rL~~~l~e~q  127 (130)
                      ++||++|+++|+++|.++.
T Consensus        89 ~~Nr~~Al~rL~~~l~~a~  107 (112)
T 1j26_A           89 FRNLAECLQKIRDMIAEAS  107 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999874

>4dh9_Y YAEJ; ribosome, YAEJ, ribosome stalling, ribosome rescue, rescue F alternative rescue factor, ARFB, release factor, rescue of ribosomes; 3.20A {Escherichia coli} PDB: 2jy9_A

Probab=99.94  E-value=2.8e-27  Score=177.84  Aligned_cols=71  Identities=37%  Similarity=0.553  Sum_probs=65.2

Q ss_pred             cCceecCchhhccceeeeEEecCCCCCcCCCccCceEEEE------EeCC-----------------e-eEEEEcCcCCH
Q 032906           53 RNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLK------HVPT-----------------G-VIALAAEDRSQ  108 (130)
Q Consensus        53 ~~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~------h~Pt-----------------G-i~v~~~e~RSq  108 (130)
                      ...+.|++++|    +++|+|||||||||||||+|+|+|+      |+|+                 | |+|+|+++|||
T Consensus         5 ~~~i~I~~~el----~~~~~RssGpGGQnVNKv~SaV~L~~~~~~s~lp~~~k~rL~~~~~~rit~~G~ivv~~q~~RSQ   80 (140)
T 4dh9_Y            5 SRHVAIPDGEL----EITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHLISSDGVIVIKAQEYRSQ   80 (140)
T ss_dssp             CSSSCCCTTCS----EEEEECCCSSSSHHHHTTCCCEEEEECCSSSSSCSHHHHHHHSCCCTTSCSSCCCCEEECCCSSH
T ss_pred             cCCCccChHHe----EEEEEECCCCCCCccccccceEEEEEecccccCCHHHHHHHHHHhccccccCCcEEEEEcCCcCH
Confidence            34577888887    9999999999999999999999999      6997                 5 99999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhh
Q 032906          109 HKNRASALSHSFGPQSEEQ  127 (130)
Q Consensus       109 ~~Nr~~A~~rL~~~l~e~q  127 (130)
                      ++||++|+++|.++|.++.
T Consensus        81 ~~Nr~~A~~rL~~~l~~a~   99 (140)
T 4dh9_Y           81 ELNREAALARLVAMIKELT   99 (140)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999873

---

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	130
d1j26a_	112	d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [	1e-09
d1rq0a_	333	e.38.1.1 (A:) Peptide chain release factor 1, RF1	2e-06
d2b3tb1	344	e.38.1.1 (B:7-354) Peptide chain release factor 1,	4e-06
d1gqea_	362	e.38.1.1 (A:) Polypeptide chain release factor 2 (	1e-05

>d1j26a_ d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [TaxId: 10090]} Length = 112

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: Peptidyl-tRNA hydrolase domain-like
family: Peptidyl-tRNA hydrolase domain
domain: Ict1 protein
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.0 bits (119), Expect = 1e-09
 Identities = 19/96 (19%), Positives = 31/96 (32%), Gaps = 26/96 (27%)

Query: 48  SSSSSRNYLELTDDEL-FRECEMDAYKSSGPGGQHRNKRESAVRLKH------------- 93
           SS SS  + +     +      +   +SSGPGGQ+ NK  S   ++              
Sbjct: 2   SSGSSGEHAKQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVR 61

Query: 94  ------------VPTGVIALAAEDRSQHKNRASALS 117
                           ++  +   R Q +N A  L 
Sbjct: 62  QKIALTHKNKINKAGELVLTSESSRYQFRNLAECLQ 97

>d1rq0a_ e.38.1.1 (A:) Peptide chain release factor 1, RF1 {Thermotoga maritima [TaxId: 2336]} Length = 333

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Peptide chain release factor 1, RF1
species: Thermotoga maritima [TaxId: 2336]

 Score = 43.2 bits (101), Expect = 2e-06
 Identities = 21/51 (41%), Positives = 38/51 (74%)

Query: 65  RECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
            + +++ +++SG GGQ+ NK ESAVR+ H+PTG++     +RSQ++N+ +A
Sbjct: 196 EDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTA 246

>d2b3tb1 e.38.1.1 (B:7-354) Peptide chain release factor 1, RF1 {Escherichia coli [TaxId: 562]} Length = 344

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Peptide chain release factor 1, RF1
species: Escherichia coli [TaxId: 562]

 Score = 42.0 bits (98), Expect = 4e-06
 Identities = 26/53 (49%), Positives = 39/53 (73%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSH 118
           +  +D ++SSG GGQH N  +SA+R+ H+PTG++    ++RSQHKN+A ALS 
Sbjct: 211 DLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSV 263

>d1gqea_ e.38.1.1 (A:) Polypeptide chain release factor 2 (RF2) {Escherichia coli [TaxId: 562]} Length = 362

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Polypeptide chain release factor 2 (RF2)
species: Escherichia coli [TaxId: 562]

 Score = 41.1 bits (96), Expect = 1e-05
 Identities = 26/50 (52%), Positives = 36/50 (72%)

Query: 66  ECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASA 115
           +  +D Y++SG GGQH N+ ESAVR+ H+PTG++     DRSQHKN+  A
Sbjct: 235 DLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQA 284

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	130
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	100.0
d1rq0a_	333	Peptide chain release factor 1, RF1 {Thermotoga ma	100.0
d2b3tb1	344	Peptide chain release factor 1, RF1 {Escherichia c	100.0
d1j26a_	112	Ict1 protein {Mouse (Mus musculus) [TaxId: 10090]}	99.92

>d1gqea_ e.38.1.1 (A:) Polypeptide chain release factor 2 (RF2) {Escherichia coli [TaxId: 562]}

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Polypeptide chain release factor 2 (RF2)
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5.7e-37  Score=256.43  Aligned_cols=120  Identities=24%  Similarity=0.362  Sum_probs=104.9

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC---------------------------C
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS---------------------------S   49 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~---------------------------~   49 (130)
                      .++||+||.++|+++||++++++..+++.+||+|+++.|+|..       ++                           |
T Consensus       142 A~~L~RMY~r~ae~~gwk~eiid~~~~e~gG~K~v~~~I~G~~ayg~Lk~EsGvHRvqRvp~~es~gr~hTS~a~V~v~P  221 (362)
T d1gqea_         142 ASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHRLVRKSPFDSGGRRHTSFSSAFVYP  221 (362)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEEEECSSSSEEEEEEEEESTTHHHHHGGGCEEEEEEEECTTSSSCCEEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCeEEEeccccCCccceeEEEEEEECccHHHHHHHhcCceeEEEecccCCCceEEEEEEEEEEee
Confidence            5789999999999999999999999999999999999999987       11                           1


Q ss_pred             C-CCcCceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhh
Q 032906           50 S-SSRNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQ  127 (130)
Q Consensus        50 s-~~~~~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q  127 (130)
                      . +...-+.|++.    |++|+++|||||||||||||+|+|||+|+||||+|+|+++|||++||+.|+..|+.+|.+.+
T Consensus       222 ~~~~~~~~~i~~~----dl~i~~~rs~g~GGQ~vN~t~savri~H~ptgi~v~~q~ersq~~Nk~~A~~~L~~~l~~~~  296 (362)
T d1gqea_         222 EVDDDIDIEINPA----DLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVE  296 (362)
T ss_dssp             CCBTTBCCCCCGG----GEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCccceecChH----HeEEEEeecCCCCccchhhhhceeEEEecCchhHHHhhhcchhhHHHHHHHHHHHHHHHHHH
Confidence            1 11122334444    45999999999999999999999999999999999999999999999999999999998764

>d1rq0a_ e.38.1.1 (A:) Peptide chain release factor 1, RF1 {Thermotoga maritima [TaxId: 2336]}

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Peptide chain release factor 1, RF1
species: Thermotoga maritima [TaxId: 2336]

Probab=100.00  E-value=5.6e-37  Score=254.52  Aligned_cols=125  Identities=23%  Similarity=0.285  Sum_probs=101.8

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCC-------CC-----------CC-CCc--Cceec----
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNC-------SS-----------SS-SSR--NYLEL----   58 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~-------~~-----------~s-~~~--~~~~i----   58 (130)
                      .++||+||.++|+++||++++++...++.+||+++++.++|.+       ++           .+ ..+  +++.+    
T Consensus       105 A~~L~RMY~r~Ae~kgwk~eil~~~~~e~gGiK~v~~~I~G~~ayg~Lk~E~GvHRv~Rvp~~~~~~r~hTs~~~V~v~p  184 (333)
T d1rq0a_         105 ARDLFRMYTRYAERKGWNLEVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRVPVTESGGRIHTSTATVAVLP  184 (333)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEEEEEECTTSCEEEEEEEEESTTHHHHHGGGCEEEEEEECCTTSCSCCCEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHhhccccccccccccccccccchhheeeccccchhhhcccccceeEEEecccCCCCceEEEEEEEEEec
Confidence            5799999999999999999999999999999999999999987       11           01 111  11111    


Q ss_pred             --Cchhh---ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhh
Q 032906           59 --TDDEL---FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQC  128 (130)
Q Consensus        59 --~~~~l---~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~  128 (130)
                        ++.++   ++|++|+++|||||||||||||+|+|||+|+||||+|+|+++|||++||+.|+.+|+.+|.+.+.
T Consensus       185 ~~~~~~v~i~~~dl~i~~~RssG~GGQ~VNkt~sAVRitH~PTGi~v~~q~eRSQ~~Nk~~A~~~L~~kl~~~~~  259 (333)
T d1rq0a_         185 EIEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILRARLYQLQK  259 (333)
T ss_dssp             CCCGGGSCCCGGGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccceeEEeecCCccccchhhhhhheeEEEEcCCccEEEcccccccHHHHHHHHHHHHHHHHHHHH
Confidence              11122   45669999999999999999999999999999999999999999999999999999999998854

>d2b3tb1 e.38.1.1 (B:7-354) Peptide chain release factor 1, RF1 {Escherichia coli [TaxId: 562]}

class: Multi-domain proteins (alpha and beta)
fold: Release factor
superfamily: Release factor
family: Release factor
domain: Peptide chain release factor 1, RF1
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=2.8e-36  Score=250.81  Aligned_cols=126  Identities=23%  Similarity=0.309  Sum_probs=105.6

Q ss_pred             hHHHHHhhhhhhhccCceeeeeeccCCCCCCceeeeeeccCCCC-------C-------CCC-----Cc-----CceecC
Q 032906            4 LAAQFLLRIPQLGRKNINFPSYKHRGNYQPLFLSCNYSTNDNCS-------S-------SSS-----SR-----NYLELT   59 (130)
Q Consensus         4 ~~~~f~~~~~~a~r~~~~~~~~~~~~~~~~~~~S~~~~~~g~~~-------~-------~s~-----~~-----~~~~i~   59 (130)
                      .++||+||.++|+++||++++++..+++.+|++|+++.|+|.+.       +       -++     .+     ....+|
T Consensus       118 A~~L~rMY~r~ae~~g~k~evl~~~~ge~~Gik~~~~~i~G~~ay~~lk~E~GvHRvqRip~~~~~~r~hts~~~v~v~p  197 (344)
T d2b3tb1         118 AGDLFRMYSRYAEARRWRVEIMSASEGEHGGYKEIIAKISGDGVYGRLKFESGGHRVQRVPATESQGRIHTSACTVAVMP  197 (344)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCEEEEEECTTSSEEEEEEEECSSSCHHHHGGGCEEEEEEECCTTCSSCCCEEEEEEEECCB
T ss_pred             HHHHHHHHHHHHHHcCCcceecccccccCCceeEEEEEEEcCcccceeeEeecceEEEeecccccccccccceeeEeeec
Confidence            47899999999999999999999999999999999999999871       1       011     11     111111


Q ss_pred             ---ch---hh-ccceeeeEEecCCCCCcCCCccCceEEEEEeCCeeEEEEcCcCCHHHHHHHHHHHHHHHHhhhhhc
Q 032906           60 ---DD---EL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHVPTGVIALAAEDRSQHKNRASALSHSFGPQSEEQCE  129 (130)
Q Consensus        60 ---~~---~l-~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h~PtGi~v~~~e~RSq~~Nr~~A~~rL~~~l~e~q~~  129 (130)
                         +.   +| ++|++|+++|||||||||||||+|+|||+|+||||+|.|+++|||++||+.|++.|+.+|.+.+.+
T Consensus       198 ~~~~~~~~~i~~~dl~i~~~rssg~GGQ~vnkt~sAVRi~H~ptGi~v~~q~eRSq~~Nk~~A~~~L~~kl~~~~~~  274 (344)
T d2b3tb1         198 ELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARIHAAEMA  274 (344)
T ss_dssp             CCCTTTCCCCCSSSEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHTTTTTT
T ss_pred             ccccccccccCcccceEEEecCCCccccchhhhhceeEEEEcCCceEEEccCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence               11   12 356799999999999999999999999999999999999999999999999999999999987543

>d1j26a_ d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: Peptidyl-tRNA hydrolase domain-like
family: Peptidyl-tRNA hydrolase domain
domain: Ict1 protein
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.92  E-value=5.7e-26  Score=163.52  Aligned_cols=69  Identities=28%  Similarity=0.379  Sum_probs=61.4

Q ss_pred             ceecCchhhccceeeeEEecCCCCCcCCCccCceEEEEE-------eC-----------------Ce-eEEEEcCcCCHH
Q 032906           55 YLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH-------VP-----------------TG-VIALAAEDRSQH  109 (130)
Q Consensus        55 ~~~i~~~~l~~~~~~~~~RssGPGGQ~VNKv~s~V~l~h-------~P-----------------tG-i~v~~~e~RSq~  109 (130)
                      ...||.++|    +++|+|||||||||||||+|+|+|++       +|                 .| |+|+|+++|||.
T Consensus        14 ~~~Ip~~~i----~~~f~RSsGPGGQ~VNKv~TkV~Lr~~v~~s~~l~~~~~~~l~~~~~~~i~~~g~l~I~s~~~RsQ~   89 (112)
T d1j26a_          14 SSYIPLDRL----SISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQF   89 (112)
T ss_dssp             CCCCCTTTS----EEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEEEECCCSSHH
T ss_pred             cCccCHHHe----EEEEEEcCCCCCCccceeccEEEEEEeccccccCCHHHHHHHHHHhhhcccCCCeEEEEEcccCCHH
Confidence            346777777    99999999999999999999999995       33                 24 999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhh
Q 032906          110 KNRASALSHSFGPQSEEQ  127 (130)
Q Consensus       110 ~Nr~~A~~rL~~~l~e~q  127 (130)
                      +|+++|++||.++|.++-
T Consensus        90 ~Nr~~a~~kL~~li~~A~  107 (112)
T d1j26a_          90 RNLAECLQKIRDMIAEAS  107 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            999999999999998873