Psyllid ID: psy4479

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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
MSIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGIE
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccEEEEEEccccccccccccccEEEEEEccccEEEEEcccccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccEEcccccccEEEEccccccccEEcccHHHHHHHHEEccccccccEcccccEEEEEEccccEEEEEcccccHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MSIFRRHLSLASSLFrkydldyskvpkidekdiqerfvrgsgpggqavaktnncvvlthiptgivikchqsrslsENRKTARELLVAQWDvqvngedsLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGIE
Flexible Loop (DISEMBL)
msifrrhlslasslfrkydldyskvpkidekdiqerfvrgsgpggqavakTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAqwdvqvngedslnaqirridekrratqeqkkrKLDALKkawkeregie
Low Complexity Region (SEG)
MSIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGIE
Disordered region (IsUnstruct)
*******LSLASSLFRKYDLDYSKVPKIDEKDIQERFVR****GGQAVAKTNNCVVLTHIPTGIVIKCHQS*********ARELLVAQWDVQVN*****************************************
Disordered Region (DISOPRED)
***FRRH*SLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQ***********RELLVAQWDV********************************************
Disordered Region (DISEMBL)
MSIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEK**************************
Disordered Region (DISPRO)
*SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKE*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGxxxxxxxxxxxxxxxxxxxxxKKRKLDALKKAWKEREGIE
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	135	2.2.26 [Sep-21-2011]
Q9H3J6	166	Probable peptide chain re	yes	N/A	0.577	0.469	0.576	3e-22
A5WUX7	156	Probable peptide chain re	yes	N/A	0.8	0.692	0.429	1e-21
Q80VP5	184	Probable peptide chain re	yes	N/A	0.577	0.423	0.551	2e-21
A0RQM7	369	Peptide chain release fac	yes	N/A	0.592	0.216	0.432	3e-12
A6Q582	368	Peptide chain release fac	yes	N/A	0.585	0.214	0.463	4e-12
O67695	373	Peptide chain release fac	yes	N/A	0.555	0.201	0.413	3e-11
A7I0P7	364	Peptide chain release fac	yes	N/A	0.592	0.219	0.432	5e-11
Q53915	368	Peptide chain release fac	yes	N/A	0.585	0.214	0.383	6e-11
A1SHH9	357	Peptide chain release fac	yes	N/A	0.629	0.238	0.373	7e-11
A1W9H4	367	Peptide chain release fac	yes	N/A	0.555	0.204	0.460	8e-11

>sp|Q9H3J6|CL065_HUMAN Probable peptide chain release factor C12orf65, mitochondrial OS=Homo sapiens GN=C12orf65 PE=2 SV=1

 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 45/78 (57%), Positives = 62/78 (79%)

Query: 21  DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
           DY  +  +DE +++E+FV+G GPGGQA  KT+NCVVL HIP+GIV+KCHQ+RS+ +NRK 
Sbjct: 48  DYPALLSLDENELEEQFVKGHGPGGQATNKTSNCVVLKHIPSGIVVKCHQTRSVDQNRKL 107

Query: 81  ARELLVAQWDVQVNGEDS 98
           AR++L  + DV  NGE+S
Sbjct: 108 ARKILQEKVDVFYNGENS 125

May act as a codon-independent translation release factor that has lost all stop codon specificity and directs the termination of translation in mitochondrion.
Homo sapiens (taxid: 9606)

>sp|A5WUX7|CL065_DANRE Probable peptide chain release factor C12orf65 homolog, mitochondrial OS=Danio rerio GN=si:ch211-275j6.5 PE=3 SV=1

 Score =  101 bits (252), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 49/114 (42%), Positives = 82/114 (71%), Gaps = 6/114 (5%)

Query: 9   SLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKC 68
           S+  +  +KY ++   +P + E++++E+FVRGSGPGGQA  KT+NCVVL HIP+GIV+KC
Sbjct: 26  SVLPAAGKKYQIE---LPVVHEEELEEQFVRGSGPGGQATNKTSNCVVLRHIPSGIVVKC 82

Query: 69  HQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLD 122
           H++RS+  NRK ARE+L  + +V   GE+S   ++ ++ ++    ++ K+RK++
Sbjct: 83  HETRSVDLNRKRAREILREKLEVAYKGEES---ELLKMKKESMQKKQDKRRKVN 133

May act as a codon-independent translation release factor that has lost all stop codon specificity and directs the termination of translation in mitochondrion.

Danio rerio (taxid: 7955)

>sp|Q80VP5|CL065_MOUSE Probable peptide chain release factor C12orf65 homolog, mitochondrial OS=Mus musculus PE=1 SV=1

 Score =  100 bits (250), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 43/78 (55%), Positives = 62/78 (79%)

Query: 21  DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
           DY  +  ++E +++E+FV+G GPGGQA  KT+NCVVL H+P+GIV+KCHQ+RS+ +NRK 
Sbjct: 51  DYPALLPLNESELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKI 110

Query: 81  ARELLVAQWDVQVNGEDS 98
           AR++L  + DV  NGE+S
Sbjct: 111 ARKVLQEKVDVFYNGENS 128

May act as a codon-independent translation release factor that has lost all stop codon specificity and directs the termination of translation in mitochondrion.

Mus musculus (taxid: 10090)

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

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 52/81 (64%), Gaps = 1/81 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S +S +    ++D     +I+EKD++  + R SG GGQ V KT + V +THIPTGI
Sbjct: 211 RRHTSFSSVMVSP-EVDDDIAIEIEEKDLRLDYYRASGAGGQHVNKTESAVRITHIPTGI 269

Query: 65  VIKCHQSRSLSENRKTARELL 85
           V++C   RS  +N+ TA ++L
Sbjct: 270 VVQCQNDRSQHKNKATAMKML 290

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

 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/82 (46%), Positives = 53/82 (64%), Gaps = 3/82 (3%)

Query: 5   RRHLSLASSLFR-KYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTG 63
           RRH S AS +   + D D + V  I++KDI+    R SG GGQ V KT++ + +THIPTG
Sbjct: 211 RRHTSFASVMVSPEVDDDINIV--IEDKDIRVDTYRASGAGGQHVNKTDSAIRITHIPTG 268

Query: 64  IVIKCHQSRSLSENRKTARELL 85
           IV++C   RS  +NR TA ++L
Sbjct: 269 IVVQCQNDRSQHKNRATAMKML 290

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|O67695|RF2_AQUAE Peptide chain release factor 2 OS=Aquifex aeolicus (strain VF5) GN=prfB PE=3 SV=1

 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/92 (41%), Positives = 51/92 (55%), Gaps = 17/92 (18%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDE--------KDIQERFVRGSGPGGQAVAKTNNCVV 56
           RRH S A+          S +P+IDE        +D++    R SG GGQ V KT+  V 
Sbjct: 210 RRHTSFAAV---------SVMPQIDEDIKIEIKPEDLKIETFRASGAGGQYVNKTDTAVR 260

Query: 57  LTHIPTGIVIKCHQSRSLSENRKTARELLVAQ 88
           +THIPTGI + C Q RS  +N++ A ELL A+
Sbjct: 261 ITHIPTGITVSCQQERSQYQNKRKALELLKAK 292

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

Aquifex aeolicus (strain VF5) (taxid: 224324)

>sp|A7I0P7|RF2_CAMHC Peptide chain release factor 2 OS=Campylobacter hominis (strain ATCC BAA-381 / LMG 19568 / NCTC 13146 / CH001A) GN=prfB PE=3 SV=1

 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 49/81 (60%), Gaps = 1/81 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S AS +    +LD      IDEKD++  + R SG GGQ V KT + V +THIPT I
Sbjct: 211 RRHTSFASVVVSP-ELDDDIQINIDEKDLRIDYYRSSGAGGQHVNKTESAVRITHIPTNI 269

Query: 65  VIKCHQSRSLSENRKTARELL 85
           V++C   R   +N+ +A ++L
Sbjct: 270 VVQCQNDRDQHKNKASAMKVL 290

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

Campylobacter hominis (strain ATCC BAA-381 / LMG 19568 / NCTC 13146 / CH001A) (taxid: 360107)

>sp|Q53915|RF2_STRCO Peptide chain release factor 2 OS=Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=prfB PE=3 SV=2

 Score = 66.2 bits (160), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/99 (38%), Positives = 56/99 (56%), Gaps = 20/99 (20%)

Query: 27  KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLV 86
           +IDE +++    R SGPGGQ V  T++ V LTHIPTGIV+ C   RS  +N+ TA  +L 
Sbjct: 232 EIDESELRVDVYRSSGPGGQGVNTTDSAVRLTHIPTGIVVSCQNERSQIQNKATAMNVLQ 291

Query: 87  AQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALK 125
           A                 ++ E+RR   ++++ K+DALK
Sbjct: 292 A-----------------KLLERRR---QEEQAKMDALK 310

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

Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145) (taxid: 100226)

>sp|A1SHH9|RF1_NOCSJ Peptide chain release factor 1 OS=Nocardioides sp. (strain BAA-499 / JS614) GN=prfA PE=3 SV=1

 Score = 65.9 bits (159), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 34/91 (37%), Positives = 51/91 (56%), Gaps = 6/91 (6%)

Query: 27  KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA----- 81
           +IDE D++    R SGPGGQ+V  T++ V +TH+PTGIV+ C   +S  +NR+ A     
Sbjct: 215 QIDENDLRIDVFRSSGPGGQSVNTTDSAVRITHLPTGIVVSCQNEKSQLQNREQAMRILR 274

Query: 82  -RELLVAQWDVQVNGEDSLNAQIRRIDEKRR 111
            R L  AQ        ++  +Q+R +D   R
Sbjct: 275 SRLLAAAQEKADAEAGEARRSQVRTVDRSER 305

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

Nocardioides sp. (strain BAA-499 / JS614) (taxid: 196162)

>sp|A1W9H4|RF2_ACISJ Peptide chain release factor 2 OS=Acidovorax sp. (strain JS42) GN=prfB PE=3 SV=1

 Score = 65.9 bits (159), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 35/76 (46%), Positives = 45/76 (59%), Gaps = 1/76 (1%)

Query: 6   RHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIV 65
           RH S AS LF   ++D S    I+  D++    R SG GGQ + KT++ V LTHIPTGIV
Sbjct: 215 RHTSFAS-LFVYPEIDDSIEININPSDVRTDTYRASGAGGQHINKTDSAVRLTHIPTGIV 273

Query: 66  IKCHQSRSLSENRKTA 81
           ++C   RS   NR  A
Sbjct: 274 VQCQDGRSQHSNRDVA 289

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

Acidovorax sp. (strain JS42) (taxid: 232721)

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	135
307197489	165	Uncharacterized protein C12orf65-like pr	0.881	0.721	0.591	6e-34
332373588	138	unknown [Dendroctonus ponderosae]	0.985	0.963	0.492	2e-32
332030644	163	Uncharacterized protein C12orf65-like pr	0.881	0.730	0.55	3e-32
189241033	132	PREDICTED: similar to AGAP012195-PA [Tri	0.933	0.954	0.515	3e-32
270013378	179	hypothetical protein TcasGA2_TC011973 [T	0.933	0.703	0.515	3e-32
307170845	138	Uncharacterized protein C12orf65-like pr	0.874	0.855	0.542	3e-32
322801028	220	hypothetical protein SINV_15156 [Solenop	0.874	0.536	0.533	5e-32
157131147	142	hypothetical protein AaeL_AAEL012009 [Ae	0.918	0.873	0.592	7e-32
312370878	225	hypothetical protein AND_22936 [Anophele	0.874	0.524	0.571	1e-31
357624655	143	hypothetical protein KGM_09231 [Danaus p	0.874	0.825	0.584	2e-31

>gi|307197489|gb|EFN78723.1| Uncharacterized protein C12orf65-like protein [Harpegnathos saltator]

 Score =  148 bits (374), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 71/120 (59%), Positives = 97/120 (80%), Gaps = 1/120 (0%)

Query: 15  FRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSL 74
           +++Y LDYS +PK++E D++E+FVRGSGPGGQA  KTNN VVL H PTGIV+KCH++RSL
Sbjct: 46  YKRY-LDYSNLPKLEEADLKEQFVRGSGPGGQATNKTNNAVVLKHKPTGIVVKCHETRSL 104

Query: 75  SENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGI 134
            +N+K ARELLV + D  +N E S+ AQIR I +K+RA +E K++KL  +KKA++EREG+
Sbjct: 105 WDNQKRARELLVTKLDNLLNKEHSIEAQIRAIQQKQRACKECKRKKLAEMKKAFQEREGL 164

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332373588|gb|AEE61935.1| unknown [Dendroctonus ponderosae]

 Score =  143 bits (361), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 68/138 (49%), Positives = 103/138 (74%), Gaps = 5/138 (3%)

Query: 3   IFRR-HLSLASSLFR----KYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVL 57
           +F+R  L + S  FR    K  +DYS+VP ++E+D++E+ V+GSGPGGQ V+KT++C+VL
Sbjct: 1   MFQRLRLVVCSVNFRLLSSKKHIDYSQVPALNEQDLEEKQVKGSGPGGQKVSKTSSCIVL 60

Query: 58  THIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQK 117
            HIPTGIV+KC ++RS+ +N+K AR  L+ + D  +NGE+S+ AQI+R++ K+R   EQK
Sbjct: 61  KHIPTGIVVKCQETRSVLQNKKIARLHLITKLDNTINGENSVEAQIKRLENKKRGCNEQK 120

Query: 118 KRKLDALKKAWKEREGIE 135
           + KL+ LK+ WKE + IE
Sbjct: 121 REKLNQLKQKWKELQNIE 138

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332030644|gb|EGI70332.1| Uncharacterized protein C12orf65-like protein [Acromyrmex echinatior]

 Score =  143 bits (360), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 66/120 (55%), Positives = 96/120 (80%), Gaps = 1/120 (0%)

Query: 15  FRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSL 74
           F++Y LDYS VPK+DE D++E+F+RGSGPGGQA  KTNN V+L H PTG+V+KCH++RS 
Sbjct: 44  FKRY-LDYSNVPKLDEIDLEEQFIRGSGPGGQATNKTNNAVLLKHKPTGLVVKCHETRSQ 102

Query: 75  SENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGI 134
            +N+K ARE+LV + D  +N E S+ AQI  +++K +A +E K++KL+ +KKA++EREG+
Sbjct: 103 WDNKKRAREILVTKLDNLLNKERSIEAQIHALEKKEQARKEYKRKKLNEMKKAFREREGL 162

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189241033|ref|XP_971712.2| PREDICTED: similar to AGAP012195-PA [Tribolium castaneum]

 Score =  143 bits (360), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 65/126 (51%), Positives = 95/126 (75%)

Query: 10  LASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCH 69
           L  S+ R   +DYS+VP++ E +++E+ VRGSGPGGQA  KT+NCVVL H+PTG+V+KCH
Sbjct: 7   LIFSIVRFKHIDYSRVPQLVESELEEQHVRGSGPGGQATNKTSNCVVLKHVPTGLVVKCH 66

Query: 70  QSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWK 129
           ++RSL +NRK AR+ LV + D  +NG+ S+ AQ+R I++K    +E+K+ +L+ LK  WK
Sbjct: 67  ETRSLDQNRKKARQYLVTKLDNLLNGDQSVEAQMREIEKKNTLNKERKRERLNKLKAEWK 126

Query: 130 EREGIE 135
           +RE IE
Sbjct: 127 KRENIE 132

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270013378|gb|EFA09826.1| hypothetical protein TcasGA2_TC011973 [Tribolium castaneum]

 Score =  143 bits (360), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 65/126 (51%), Positives = 95/126 (75%)

Query: 10  LASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCH 69
           L  S+ R   +DYS+VP++ E +++E+ VRGSGPGGQA  KT+NCVVL H+PTG+V+KCH
Sbjct: 54  LIFSIVRFKHIDYSRVPQLVESELEEQHVRGSGPGGQATNKTSNCVVLKHVPTGLVVKCH 113

Query: 70  QSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWK 129
           ++RSL +NRK AR+ LV + D  +NG+ S+ AQ+R I++K    +E+K+ +L+ LK  WK
Sbjct: 114 ETRSLDQNRKKARQYLVTKLDNLLNGDQSVEAQMREIEKKNTLNKERKRERLNKLKAEWK 173

Query: 130 EREGIE 135
           +RE IE
Sbjct: 174 KRENIE 179

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307170845|gb|EFN62956.1| Uncharacterized protein C12orf65-like protein [Camponotus floridanus]

 Score =  142 bits (359), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 64/118 (54%), Positives = 94/118 (79%)

Query: 17  KYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSE 76
           K  LDYSKVPK+DE D++E+F+RGSGPGGQA  KTNN V L H PTG+V+KCH++RSL +
Sbjct: 20  KRHLDYSKVPKLDEADLEEKFIRGSGPGGQATNKTNNAVSLKHKPTGLVVKCHETRSLWD 79

Query: 77  NRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGI 134
           N+K ARE+++ + D  +N E S+ AQIR +++K+++ +E K+++L  +KKA+ EREG+
Sbjct: 80  NKKRAREIMITKLDNLLNKEYSIEAQIRGLEKKQQSQKENKRKRLTEMKKAFHEREGL 137

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322801028|gb|EFZ21809.1| hypothetical protein SINV_15156 [Solenopsis invicta]

 Score =  142 bits (357), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 63/118 (53%), Positives = 93/118 (78%)

Query: 17  KYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSE 76
           K+ LDYS VPK++E D++E+F+RGSGPGGQA  KTNN V+L H PTG ++KCH++RS  +
Sbjct: 102 KHYLDYSNVPKLNEADLEEQFIRGSGPGGQATNKTNNAVLLKHKPTGFIVKCHETRSQWD 161

Query: 77  NRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGI 134
           N+K ARE+L+ + D  +N E S+ AQIR ++EK++  +E K++K D +KKA++EREG+
Sbjct: 162 NKKRAREILITKLDNLLNKERSIEAQIRALEEKQQTRKEYKRKKRDEMKKAFREREGL 219

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157131147|ref|XP_001662139.1| hypothetical protein AaeL_AAEL012009 [Aedes aegypti] gi|157137107|ref|XP_001663890.1| hypothetical protein AaeL_AAEL013711 [Aedes aegypti] gi|108869799|gb|EAT34024.1| AAEL013711-PA [Aedes aegypti] gi|108871632|gb|EAT35857.1| AAEL012009-PA [Aedes aegypti]

 Score =  141 bits (356), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 74/125 (59%), Positives = 92/125 (73%), Gaps = 1/125 (0%)

Query: 9   SLASSLFR-KYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIK 67
           S  S L R K  +D SKVP + + D++E FVRGSGPGGQAVAKTNN VVLTH PTGIVI+
Sbjct: 13  SFRSPLIRWKTTIDTSKVPALRDDDLEETFVRGSGPGGQAVAKTNNKVVLTHKPTGIVIQ 72

Query: 68  CHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKA 127
           CH SRSL +NR+ AR LLVA+ D   NG+ S+ AQ RRID+K+ +   +++ K   +KKA
Sbjct: 73  CHSSRSLFKNREEARRLLVAKLDELENGDQSVEAQQRRIDQKKHSEAARRRSKRQEMKKA 132

Query: 128 WKERE 132
           WKERE
Sbjct: 133 WKERE 137

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312370878|gb|EFR19185.1| hypothetical protein AND_22936 [Anopheles darlingi]

 Score =  140 bits (354), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 68/119 (57%), Positives = 92/119 (77%), Gaps = 1/119 (0%)

Query: 14  LFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRS 73
           +F K  +D S+VP + E D++E FVRGSGPGGQ+VAKTNN VVLTH PTG+V++CH SRS
Sbjct: 101 MFSK-SIDNSRVPVLQEDDLEESFVRGSGPGGQSVAKTNNKVVLTHKPTGLVVQCHTSRS 159

Query: 74  LSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKERE 132
           L ENR+ AR+LLV + D  +NGE S+ AQ +R+D++++    ++K +L A KKAWKERE
Sbjct: 160 LFENRRIARQLLVTKLDQLINGEQSVEAQRQRLDQRKQTEAARRKMRLQAKKKAWKERE 218

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357624655|gb|EHJ75351.1| hypothetical protein KGM_09231 [Danaus plexippus]

 Score =  140 bits (352), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 69/118 (58%), Positives = 92/118 (77%)

Query: 17  KYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSE 76
           K+ +D+SKVPKI+E D+ E+FVRGSGPGG AV K +NCVVLTHIPTGIVIKCH SRS  E
Sbjct: 25  KHTIDFSKVPKINECDLTEQFVRGSGPGGSAVNKNSNCVVLTHIPTGIVIKCHTSRSQDE 84

Query: 77  NRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGI 134
           NRK AR++L+A+ D  +NG++S+ +Q + I+E R    E KK+K   +K+ WK+REG+
Sbjct: 85  NRKMARDMLIAKLDDIINGKNSVESQKKMIEENRFKKVEYKKKKRAEIKEKWKKREGL 142

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	135
FB|FBgn0050100	146	CG30100 [Drosophila melanogast	0.933	0.863	0.496	1e-29
UNIPROTKB|F1MLX1	173	C17H12orf65 "Uncharacterized p	0.755	0.589	0.537	4.6e-25
UNIPROTKB|F1M2Z8	183	RGD1563482 "Protein RGD1563482	0.829	0.612	0.458	1.6e-24
UNIPROTKB|E2QXR1	239	C12orf65 "Uncharacterized prot	0.814	0.460	0.495	2e-24
UNIPROTKB|F1RFL3	187	C12orf65 "Uncharacterized prot	0.755	0.545	0.537	3.3e-24
UNIPROTKB|Q9H3J6	166	C12orf65 "Probable peptide cha	0.770	0.626	0.509	5.3e-24
MGI|MGI:1919900	184	2810006K23Rik "RIKEN cDNA 2810	0.792	0.581	0.473	2.3e-23
UNIPROTKB|F1NSN8	141	F1NSN8 "Uncharacterized protei	0.8	0.765	0.463	2.1e-22
UNIPROTKB|F5H4X5	138	C12orf65 "Probable peptide cha	0.674	0.659	0.510	7e-22
CGD|CAL0005347	171	orf19.5488 [Candida albicans (	0.918	0.725	0.381	2e-15

FB|FBgn0050100 CG30100 [Drosophila melanogaster (taxid:7227)]

 Score = 329 (120.9 bits), Expect = 1.0e-29, P = 1.0e-29
 Identities = 64/129 (49%), Positives = 94/129 (72%)

Query:     6 RHLSLASSLFR-KYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
             R L+L  +  R K +LDYS+ P + E DI+E F+RGSGPGGQAV KT+NCV L H+PT I
Sbjct:     7 RFLALPPTAVRCKSNLDYSRFPVLQESDIEETFMRGSGPGGQAVNKTSNCVFLRHLPTNI 66

Query:    65 VIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKR-KLDA 123
              +KCH  R  S+NR  AR+LL+ + DV +NGE S+ AQ++   E+R++T+ ++++ KL  
Sbjct:    67 TVKCHTHRLASKNRVEARKLLLEKLDVHLNGEHSIAAQVKA-QEQRKSTERRRRQEKLQE 125

Query:   124 LKKAWKERE 132
             +KK+W++RE
Sbjct:   126 MKKSWQDRE 134

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

GO:0006415 "translational termination" evidence=IEA

UNIPROTKB|F1MLX1 C17H12orf65 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 285 (105.4 bits), Expect = 4.6e-25, P = 4.6e-25
 Identities = 57/106 (53%), Positives = 80/106 (75%)

Query:    28 IDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVA 87
             +DE++++E+FV+G GPGGQA  KT+NCVVL H+P+GIV+KCHQ+RS+ +NRK AR +L  
Sbjct:    56 LDERELEEQFVKGHGPGGQATNKTSNCVVLRHVPSGIVVKCHQTRSVDQNRKLARRILQE 115

Query:    88 QWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDAL--KKAWKER 131
             + DV  NGE+SL  + +R  EKR+  QE+KKR  + L  KK  KE+
Sbjct:   116 KVDVFYNGENSLVCREKREAEKRK--QERKKRAKETLEKKKLLKEQ 159

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

UNIPROTKB|F1M2Z8 RGD1563482 "Protein RGD1563482" [Rattus norvegicus (taxid:10116)]

 Score = 280 (103.6 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 55/120 (45%), Positives = 85/120 (70%)

Query:    21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
             DY  +  ++E +++E+FV+G GPGGQA  KT+NCVVL H+P+GIV+KCHQ+RS+ +NRK 
Sbjct:    50 DYPALLPLNESELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKM 109

Query:    81 ARELLVAQWDVQVNGEDS------LNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGI 134
             AR++L  + DV  NGE+S      L  + R+ ++K+RA +  +K+KL  LK+ W+  + I
Sbjct:   110 ARKILQEKVDVFYNGENSPIHKEKLEGERRKREKKKRAKETLEKKKL--LKELWEASQNI 167

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

UNIPROTKB|E2QXR1 C12orf65 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 57/115 (49%), Positives = 84/115 (73%)

Query:    21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
             D   +P +DE +++E+FV+G GPGGQA  KT+NCVVL HIP+GIV+KCHQ+RS+ +NRK 
Sbjct:   121 DRPALPLLDESELEEQFVKGHGPGGQATNKTSNCVVLKHIPSGIVVKCHQTRSVDQNRKL 180

Query:    81 ARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDAL--KKAWKE-RE 132
             AR++L  + D+  NGE+S+  + ++  EK++  QE+K+R  + L  KK  KE RE
Sbjct:   181 ARQILQEKVDIFYNGENSIVYKEKQEAEKKK--QERKRRAKETLEKKKLLKELRE 233

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

UNIPROTKB|F1RFL3 C12orf65 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 277 (102.6 bits), Expect = 3.3e-24, P = 3.3e-24
 Identities = 57/106 (53%), Positives = 79/106 (74%)

Query:    28 IDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVA 87
             +DE++++E+FV+G GPGGQA  KT+NCVVL HIP+GIV+KCHQ+RS+ +NRK AR +L  
Sbjct:    58 LDERELEEQFVKGHGPGGQATNKTSNCVVLRHIPSGIVVKCHQTRSVDQNRKLARRILQE 117

Query:    88 QWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDAL--KKAWKER 131
             + DV  NGE+S   + +R  EKR+  QE+KKR  + L  KK  KE+
Sbjct:   118 KVDVFYNGENSPVYKEKREAEKRK--QERKKRAKETLEKKKLLKEQ 161

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

UNIPROTKB|Q9H3J6 C12orf65 "Probable peptide chain release factor C12orf65, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 275 (101.9 bits), Expect = 5.3e-24, P = 5.3e-24
 Identities = 54/106 (50%), Positives = 78/106 (73%)

Query:    21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
             DY  +  +DE +++E+FV+G GPGGQA  KT+NCVVL HIP+GIV+KCHQ+RS+ +NRK 
Sbjct:    48 DYPALLSLDENELEEQFVKGHGPGGQATNKTSNCVVLKHIPSGIVVKCHQTRSVDQNRKL 107

Query:    81 ARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKK 126
             AR++L  + DV  NGE+S   + +R   K++  QE+KKR  + L+K
Sbjct:   108 ARKILQEKVDVFYNGENSPVHKEKREAAKKK--QERKKRAKETLEK 151

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

GO:0005739 "mitochondrion" evidence=NAS

MGI|MGI:1919900 2810006K23Rik "RIKEN cDNA 2810006K23 gene" [Mus musculus (taxid:10090)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 54/114 (47%), Positives = 82/114 (71%)

Query:    21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
             DY  +  ++E +++E+FV+G GPGGQA  KT+NCVVL H+P+GIV+KCHQ+RS+ +NRK 
Sbjct:    51 DYPALLPLNESELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKI 110

Query:    81 ARELLVAQWDVQVNGEDS------LNAQIRRIDEKRRATQE-QKKRKLDALKKA 127
             AR++L  + DV  NGE+S      L A+ R+ + K+RA +  +KK+ L  L++A
Sbjct:   111 ARKVLQEKVDVFYNGENSPVHKEKLEAERRKRERKKRAKETLEKKKLLKELREA 164

GO:0003674 "molecular_function" evidence=ND

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

GO:0005575 "cellular_component" evidence=ND

GO:0005739 "mitochondrion" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0006415 "translational termination" evidence=IEA

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|F1NSN8 F1NSN8 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 51/110 (46%), Positives = 79/110 (71%)

Query:    27 KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLV 86
             ++ E +++E+FVRG GPGGQA  KT+NCVVL H+P+GIV+KCHQ+RS+ +NRK ARE+L 
Sbjct:    31 ELTEAELKEQFVRGDGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVEKNRKIAREILQ 90

Query:    87 AQWDVQVNGEDS-LNAQIRRIDEKRRATQEQKKRKLDALKKAWKEREGIE 135
              + D+   GEDS +  +I+  ++K++  + + K  L+  KK +KE   +E
Sbjct:    91 EKVDLFYKGEDSDVFKEIKASEKKKQEKKRRAKENLER-KKHFKEMLQLE 139

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

UNIPROTKB|F5H4X5 C12orf65 "Probable peptide chain release factor C12orf65, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 255 (94.8 bits), Expect = 7.0e-22, P = 7.0e-22
 Identities = 49/96 (51%), Positives = 71/96 (73%)

Query:    21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
             DY  +  +DE +++E+FV+G GPGGQA  KT+NCVVL HIP+GIV+KCHQ+RS+ +NRK 
Sbjct:    48 DYPALLSLDENELEEQFVKGHGPGGQATNKTSNCVVLKHIPSGIVVKCHQTRSVDQNRKL 107

Query:    81 ARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQ 116
             AR++L  + DV  NGE   N+ + +  EKR A +++
Sbjct:   108 ARKILQEKVDVFYNGE---NSPVHK--EKREAAKKK 138

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

CGD|CAL0005347 orf19.5488 [Candida albicans (taxid:5476)]

 Score = 194 (73.4 bits), Expect = 2.0e-15, P = 2.0e-15
 Identities = 53/139 (38%), Positives = 76/139 (54%)

Query:     8 LSLASSLFRKYDLDY-----SKVPK-----IDEKDIQERFVRGS-GPGGQAVAKTNNCVV 56
             ++L  SLF    L Y     +K+P      I E+DI+E+F+ G  GPGGQ + KTN+ V 
Sbjct:     5 INLFRSLFTSNSLKYGIPKKNKLPPRPKHLIKEEDIEEKFLHGGRGPGGQKINKTNSKVQ 64

Query:    57 LTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQ 116
             LTHIPTG+V+ C  +RS  +NR  ARE L  + D   N   S NA +  ++  ++  Q +
Sbjct:    65 LTHIPTGMVVSCQATRSQEQNRAIAREKLALKLDDFYNPGTSRNAVL--MERAQKVKQSK 122

Query:   117 KKRKLDALKKAWKEREGIE 135
              K+     KK   E E I+
Sbjct:   123 SKKSNRKYKKV--EDENIQ 139

GO:0005739 "mitochondrion" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A5WUX7	CL065_DANRE	No assigned EC number	0.4298	0.8	0.6923	yes	N/A
Q9H3J6	CL065_HUMAN	No assigned EC number	0.5769	0.5777	0.4698	yes	N/A
Q80VP5	CL065_MOUSE	No assigned EC number	0.5512	0.5777	0.4239	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	135
pfam00472	114	pfam00472, RF-1, RF-1 domain	8e-24
COG1186	239	COG1186, PrfB, Protein chain release factor B [Tra	4e-16
TIGR00019	360	TIGR00019, prfA, peptide chain release factor 1	1e-13
TIGR00020	364	TIGR00020, prfB, peptide chain release factor 2	1e-13
PRK00578	367	PRK00578, prfB, peptide chain release factor 2; Va	3e-13
PRK00591	359	PRK00591, prfA, peptide chain release factor 1; Va	2e-12
COG0216	363	COG0216, PrfA, Protein chain release factor A [Tra	2e-12
PRK07342	339	PRK07342, PRK07342, peptide chain release factor 2	3e-12
PRK08787	313	PRK08787, PRK08787, peptide chain release factor 2	8e-12
PRK08179	200	PRK08179, prfH, peptide chain release factor-like	1e-11
TIGR03072	200	TIGR03072, release_prfH, putative peptide chain re	4e-11
PRK05589	325	PRK05589, PRK05589, peptide chain release factor 2	6e-11
PRK09256	138	PRK09256, PRK09256, hypothetical protein; Provisio	2e-08
PRK06746	326	PRK06746, PRK06746, peptide chain release factor 2	6e-07

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

 Score = 88.4 bits (220), Expect = 8e-24
 Identities = 37/113 (32%), Positives = 56/113 (49%), Gaps = 14/113 (12%)

Query: 19  DLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENR 78
            LD     +I E D++    R SGPGGQ V KT + V LTH+PTGIV+KC + RS  +NR
Sbjct: 1   PLDEEVEIEIPESDLRIDTFRSSGPGGQNVNKTESAVRLTHLPTGIVVKCQEERSQHKNR 60

Query: 79  KTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKER 131
           + A E L               A++   + +++  + +  R     +   KE+
Sbjct: 61  EKALERLK--------------AKLYEAELQKKREKTKPTRASQVRRGDRKEK 99

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

 Score = 71.5 bits (176), Expect = 4e-16
 Identities = 43/125 (34%), Positives = 61/125 (48%), Gaps = 18/125 (14%)

Query: 2   SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIP 61
           S  RRH S AS      +LD S   +I + D++    R SG GGQ V KT++ V LTH+P
Sbjct: 82  SNGRRHTSFASV-EVFPELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLP 140

Query: 62  TGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKL 121
           TGIV+ C   RS   N+  AR++L                   ++    +  + Q+K + 
Sbjct: 141 TGIVVLCQNERSQHLNKALARKML-----------------KGKLYILAQEKRSQEKNRE 183

Query: 122 DALKK 126
            ALKK
Sbjct: 184 RALKK 188

Length = 239

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

 Score = 65.9 bits (161), Expect = 1e-13
 Identities = 27/81 (33%), Positives = 47/81 (58%), Gaps = 1/81 (1%)

Query: 26  PKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELL 85
             I+  D++    R SG GGQ V  T++ V +TH+PTGIV++C   RS  +N+  A ++L
Sbjct: 216 VDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVL 275

Query: 86  VAQ-WDVQVNGEDSLNAQIRR 105
            A+ ++ +   + +  A  R+
Sbjct: 276 RARLYEAEQEKQQAAQASTRK 296

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|232785 TIGR00020, prfB, peptide chain release factor 2

 Score = 65.6 bits (160), Expect = 1e-13
 Identities = 35/84 (41%), Positives = 53/84 (63%), Gaps = 1/84 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S AS +F   ++D     +I  +D++    R SG GGQ V KT++ V +THIPTGI
Sbjct: 210 RRHTSFAS-VFVMPEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGI 268

Query: 65  VIKCHQSRSLSENRKTARELLVAQ 88
           V++C   RS  +N+ +A ++L A+
Sbjct: 269 VVQCQNDRSQHKNKDSAMKVLKAK 292

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

 Score = 64.5 bits (158), Expect = 3e-13
 Identities = 35/83 (42%), Positives = 53/83 (63%), Gaps = 1/83 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S AS +    ++D +   +I+ KD++    R SG GGQ V KT++ V +THIPTGI
Sbjct: 210 RRHTSFAS-VEVYPEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGI 268

Query: 65  VIKCHQSRSLSENRKTARELLVA 87
           V++C   RS  +N+ +A ++L A
Sbjct: 269 VVQCQNERSQHQNKASAMKMLKA 291

Length = 367

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

 Score = 62.4 bits (153), Expect = 2e-12
 Identities = 29/81 (35%), Positives = 48/81 (59%), Gaps = 1/81 (1%)

Query: 26  PKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELL 85
            +I+ KD++    R SG GGQ V  T++ V +TH+PTGIV++C   RS  +N+  A ++L
Sbjct: 216 VEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVL 275

Query: 86  VAQ-WDVQVNGEDSLNAQIRR 105
            A+ +D +     +  A  R+
Sbjct: 276 RARLYDAERQKAQAEEAATRK 296

Length = 359

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

 Score = 62.2 bits (152), Expect = 2e-12
 Identities = 29/81 (35%), Positives = 48/81 (59%), Gaps = 1/81 (1%)

Query: 26  PKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELL 85
            +I+ KD++    R SG GGQ V  T++ V +TH+PTGIV++C   RS  +N+  A ++L
Sbjct: 218 IEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVL 277

Query: 86  VAQ-WDVQVNGEDSLNAQIRR 105
            A+ +D +     +  A  R+
Sbjct: 278 RARLYDAERQKAQAEEASERK 298

Length = 363

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

 Score = 61.8 bits (150), Expect = 3e-12
 Identities = 36/84 (42%), Positives = 49/84 (58%), Gaps = 1/84 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S AS        D  +V  ++E D++    R SG GGQ V  T++ V +THIPTGI
Sbjct: 174 RRHTSFASIWVYPVIDDNIEV-DVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGI 232

Query: 65  VIKCHQSRSLSENRKTARELLVAQ 88
           V++C Q RS  +NR  A  +L A+
Sbjct: 233 VVQCQQERSQHKNRAKAWSMLRAR 256

Length = 339

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

 Score = 60.4 bits (146), Expect = 8e-12
 Identities = 33/84 (39%), Positives = 48/84 (57%), Gaps = 1/84 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S  +S+F   ++D +    I+  D++    R SG GGQ V KT + V +THIPT  
Sbjct: 151 RRHTSF-TSVFVSPEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNT 209

Query: 65  VIKCHQSRSLSENRKTARELLVAQ 88
           V+ C   RS  +NR  A ++L A+
Sbjct: 210 VVACQTGRSQHQNRDNAMKMLAAK 233

Length = 313

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

 Score = 58.9 bits (143), Expect = 1e-11
 Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 3/78 (3%)

Query: 22  YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA 81
           +S   +    +I+   +R SGPGGQ V KT++ V  TH+ +GI +K    RS   N++ A
Sbjct: 98  FSADEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLA 157

Query: 82  RELL---VAQWDVQVNGE 96
           R L+   + Q   + +  
Sbjct: 158 RLLIAWKLEQQQQEQSAA 175

Length = 200

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

 Score = 57.5 bits (139), Expect = 4e-11
 Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 3/74 (4%)

Query: 22  YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA 81
           +S   +  E +I+   +R SGPGGQ V KT + V  TH+ +GI +K    RS   N++ A
Sbjct: 97  FSASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLA 156

Query: 82  RELL---VAQWDVQ 92
             LL   +A    +
Sbjct: 157 TLLLAVRLADLQQE 170

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|235520 PRK05589, PRK05589, peptide chain release factor 2; Provisional

 Score = 57.9 bits (140), Expect = 6e-11
 Identities = 26/61 (42%), Positives = 39/61 (63%)

Query: 28  IDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVA 87
           I  +D++    R  G GGQ V KT + V +THIPTGIV++C   RS   N++TA ++L +
Sbjct: 193 IRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKMLKS 252

Query: 88  Q 88
           +
Sbjct: 253 K 253

Length = 325

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

 Score = 49.0 bits (118), Expect = 2e-08
 Identities = 37/123 (30%), Positives = 56/123 (45%), Gaps = 32/123 (26%)

Query: 28  IDEKDIQERFVRGSGPGGQAVAKTNNCVVL------THIP---------------TG--- 63
           I E +++ RF+R SGPGGQ V K +  V L      + +P               T    
Sbjct: 10  IPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGV 69

Query: 64  IVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDA 123
           IVIK  + RS   NR+ A E LVA         ++L    +R     + T+  K+R+L++
Sbjct: 70  IVIKAQEFRSQERNREDALERLVALI------REALKPPKKRR--ATKPTRGSKERRLES 121

Query: 124 LKK 126
            K+
Sbjct: 122 KKQ 124

Length = 138

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

 Score = 46.7 bits (110), Expect = 6e-07
 Identities = 35/111 (31%), Positives = 54/111 (48%), Gaps = 6/111 (5%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S  S        D  ++ ++  +D++    R SG GGQ V  T++ V +TH PT  
Sbjct: 172 RRHTSFVSCEVVPEFNDEVEI-EVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNT 230

Query: 65  VIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQE 115
           V+ C   RS  +NR+ A ++L A+       +  L  Q   +DE R   +E
Sbjct: 231 VVTCQSERSQIKNREHAMKMLKAKL-----YQKKLEEQQAELDEIRGEQKE 276

Length = 326

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	135
COG0216	363	PrfA Protein chain release factor A [Translation,	100.0
PRK09256	138	hypothetical protein; Provisional	99.97
KOG2726|consensus	386		99.97
PRK08787	313	peptide chain release factor 2; Provisional	99.97
PRK05589	325	peptide chain release factor 2; Provisional	99.97
TIGR00019	360	prfA peptide chain release factor 1. This model de	99.97
PRK06746	326	peptide chain release factor 2; Provisional	99.97
PRK07342	339	peptide chain release factor 2; Provisional	99.97
TIGR00020	364	prfB peptide chain release factor 2. In many but n	99.97
PRK00578	367	prfB peptide chain release factor 2; Validated	99.97
TIGR03072	200	release_prfH putative peptide chain release factor	99.97
PRK08179	200	prfH peptide chain release factor-like protein; Re	99.97
PRK00591	359	prfA peptide chain release factor 1; Validated	99.97
PF00472	113	RF-1: RF-1 domain; InterPro: IPR000352 Peptide cha	99.97
COG1186	239	PrfB Protein chain release factor B [Translation,	99.96
KOG3429|consensus	172		99.89

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

Probab=100.00  E-value=6.7e-35  Score=246.47  Aligned_cols=89  Identities=34%  Similarity=0.484  Sum_probs=85.5

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      |+|||||+|.|+ |+.+....+.|+++||+|+++||||+||||||+|+|+|+|||+||||+|.||++|||++||+.||..
T Consensus       198 RIHTStaTVaVl-PE~ee~~ei~I~~~DlrIDt~RsSGaGGQhVNtTdSAVRiTHlPTGIvV~cQderSQ~kNk~kAmkv  276 (363)
T COG0216         198 RIHTSAATVAVL-PEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKV  276 (363)
T ss_pred             ceeecceeEEec-cCCCcccccccChHHceeeeeecCCCCCCCcCccchhheeeecCCceEEEecchhhhhhhHHHHHHH
Confidence            899999999999 6887777899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhc
Q psy4479          85 LVAQWDVQVN   94 (135)
Q Consensus        85 L~~~L~~~~~   94 (135)
                      |+++|.+...
T Consensus       277 L~ARl~~~~~  286 (363)
T COG0216         277 LRARLYDAER  286 (363)
T ss_pred             HHHHHHHHHH
Confidence            9999998763

>PRK09256 hypothetical protein; Provisional

Probab=99.97  E-value=7.6e-32  Score=203.76  Aligned_cols=101  Identities=34%  Similarity=0.508  Sum_probs=91.3

Q ss_pred             CCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEE------eC-----------------Ce-eEEEecCcCCHHH
Q psy4479          21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTH------IP-----------------TG-IVIKCHQSRSLSE   76 (135)
Q Consensus        21 ~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h------~p-----------------tg-i~v~~~~~RSq~~   76 (135)
                      .....+.||++||+++|+|||||||||||||+|+|+|+|      +|                 +| |+|.|+++|||.+
T Consensus         3 ~~~~~~~i~~~~l~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~~RSQ~~   82 (138)
T PRK09256          3 RITRRLVIPENELEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQEFRSQER   82 (138)
T ss_pred             ccCccCccCHHHeEEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccCCCcEEEEECCcCCHHH
Confidence            356678999999999999999999999999999999997      66                 34 9999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcC-------CCCHHHHHHHHHHHHHH-HHHHhhhch
Q psy4479          77 NRKTARELLVAQWDVQVNG-------EDSLNAQIRRIDEKRRA-TQEQKKRKL  121 (135)
Q Consensus        77 Nk~~A~~rL~~~L~~~~~~-------~ps~~~~~kRl~~kk~~-~~k~~r~k~  121 (135)
                      |+++|+++|.++|..++.+       +|+++++++||+.|+++ ++|+.|++.
T Consensus        83 Nr~~al~kL~~~i~~~~~~p~~r~~tk~~~~~~~rRl~~Kk~~S~~K~~R~~~  135 (138)
T PRK09256         83 NREDALERLVALIREALKPPKKRRATKPTRGSKERRLESKKQRGEVKALRGKV  135 (138)
T ss_pred             HHHHHHHHHHHHHHHHhhccccccCCcccHHHHHHHHHHHHHHhHHHHhhCCC
Confidence            9999999999999998865       47899999999999998 888888653

>KOG2726|consensus

Probab=99.97  E-value=3.3e-32  Score=232.82  Aligned_cols=98  Identities=43%  Similarity=0.520  Sum_probs=88.7

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      |+|||||+|.|+|..........||++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+.+
T Consensus       222 r~htstasV~ViP~~~~~~~~~~~~~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRSq~~Nr~~A~~~  301 (386)
T KOG2726|consen  222 RRHTSTASVAVIPQPGRDEVDVEIDEKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERSQHKNRALALKR  301 (386)
T ss_pred             ccccccceEEEeccCCCCccceecCchheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHhHHhhHHHHHHH
Confidence            79999999999953333556778999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCHHHH
Q psy4479          85 LVAQWDVQVNGEDSLNAQ  102 (135)
Q Consensus        85 L~~~L~~~~~~~ps~~~~  102 (135)
                      |+++|.+.....++...+
T Consensus       302 L~akL~~~~~~~~~~~~~  319 (386)
T KOG2726|consen  302 LRAKLAVIYREEKSEEEK  319 (386)
T ss_pred             HHHHHHHHHHhhhhHHhh
Confidence            999999999876664443

>PRK08787 peptide chain release factor 2; Provisional

Probab=99.97  E-value=4.9e-32  Score=227.31  Aligned_cols=89  Identities=36%  Similarity=0.511  Sum_probs=84.2

Q ss_pred             eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479           4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE   83 (135)
Q Consensus         4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~   83 (135)
                      -|+|||+|+|+|+ |.++....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|++
T Consensus       150 ~rrhTsfasV~V~-P~~~~~~~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ~~Nk~~A~~  228 (313)
T PRK08787        150 NRRHTSFTSVFVS-PEVDDNIEIDINPADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMK  228 (313)
T ss_pred             CCEEeeeEEEEEe-cCcCcccccccChhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccHHHHHHHHHH
Confidence            3799999999999 577666678999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy4479          84 LLVAQWDVQV   93 (135)
Q Consensus        84 rL~~~L~~~~   93 (135)
                      +|.++|.+..
T Consensus       229 ~L~~~L~~~~  238 (313)
T PRK08787        229 MLAAKLYELE  238 (313)
T ss_pred             HHHHHHHHHH
Confidence            9999999875

>PRK05589 peptide chain release factor 2; Provisional

Probab=99.97  E-value=7.3e-32  Score=227.35  Aligned_cols=88  Identities=35%  Similarity=0.495  Sum_probs=82.9

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      |+|||||+|+|+ |..+....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus       171 rr~ts~a~V~Vl-P~~~~~~~~~i~~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ~~Nk~~A~~~  249 (325)
T PRK05589        171 KRQTSFASVEVL-PELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKM  249 (325)
T ss_pred             CeEeeeEEEEEe-cCcCccccccCCchheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCHHHHHHHHHHH
Confidence            799999999999 5665556789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy4479          85 LVAQWDVQV   93 (135)
Q Consensus        85 L~~~L~~~~   93 (135)
                      |+++|.+..
T Consensus       250 L~~kL~~~~  258 (325)
T PRK05589        250 LKSKLVELK  258 (325)
T ss_pred             HHHHHHHHH
Confidence            999999864

>TIGR00019 prfA peptide chain release factor 1

Probab=99.97  E-value=2e-31  Score=227.17  Aligned_cols=90  Identities=34%  Similarity=0.456  Sum_probs=83.8

Q ss_pred             ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479           2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA   81 (135)
Q Consensus         2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A   81 (135)
                      |-.|+|||||+|+|+ |.++. ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|
T Consensus       194 s~~R~hTsfa~V~v~-P~~~~-~~~~i~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~~Nk~~A  271 (360)
T TIGR00019       194 SQGRIHTSAATVAVM-PELEE-VEVDINPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKA  271 (360)
T ss_pred             CCCCeecceeEEEEE-cCCCc-cccccCcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHHHHHHHH
Confidence            457999999999999 55544 4588999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy4479          82 RELLVAQWDVQV   93 (135)
Q Consensus        82 ~~rL~~~L~~~~   93 (135)
                      +++|.++|....
T Consensus       272 ~~~L~~~L~~~~  283 (360)
T TIGR00019       272 MKVLRARLYEAE  283 (360)
T ss_pred             HHHHHHHHHHHH
Confidence            999999999876

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.

>PRK06746 peptide chain release factor 2; Provisional

Probab=99.97  E-value=9.8e-32  Score=226.62  Aligned_cols=89  Identities=31%  Similarity=0.427  Sum_probs=84.3

Q ss_pred             eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479           4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE   83 (135)
Q Consensus         4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~   83 (135)
                      -|+|||||+|+|+ |.++....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|+.
T Consensus       171 ~rrhTsfa~V~v~-P~~~~~~~i~i~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ~~Nk~~A~~  249 (326)
T PRK06746        171 GRRHTSFVSCEVV-PEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMK  249 (326)
T ss_pred             CCeEeeEEEEEEe-cCcCCccccccChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCHHHHHHHHHH
Confidence            4899999999999 577666788999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy4479          84 LLVAQWDVQV   93 (135)
Q Consensus        84 rL~~~L~~~~   93 (135)
                      +|.++|.+..
T Consensus       250 ~L~akL~~~~  259 (326)
T PRK06746        250 MLKAKLYQKK  259 (326)
T ss_pred             HHHHHHHHHH
Confidence            9999999875

>PRK07342 peptide chain release factor 2; Provisional

Probab=99.97  E-value=1.5e-31  Score=226.47  Aligned_cols=88  Identities=40%  Similarity=0.543  Sum_probs=83.2

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      |+|||||+|+|+ |.++....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus       174 rrhTs~a~V~Vl-P~~~~~~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ~~Nk~~A~~~  252 (339)
T PRK07342        174 RRHTSFASIWVY-PVIDDNIEVDVNESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSM  252 (339)
T ss_pred             CeEeEEEEEEEE-cCCCcccccccCcccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccHHHHHHHHHHH
Confidence            799999999999 5666556789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy4479          85 LVAQWDVQV   93 (135)
Q Consensus        85 L~~~L~~~~   93 (135)
                      |+++|.+..
T Consensus       253 L~~~L~~~~  261 (339)
T PRK07342        253 LRARLYEEE  261 (339)
T ss_pred             HHHHHHHHH
Confidence            999999875

>TIGR00020 prfB peptide chain release factor 2

Probab=99.97  E-value=4.1e-31  Score=225.60  Aligned_cols=88  Identities=39%  Similarity=0.548  Sum_probs=83.4

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      |+|||||+|+|+ |..+....+.|++.||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus       210 rrhts~a~V~vl-P~~~~~~~~~i~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ~~Nk~~A~~~  288 (364)
T TIGR00020       210 RRHTSFASVFVM-PEVDDDIDIEIKPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKV  288 (364)
T ss_pred             CeEeeeEEEEEe-cCCCcccceecccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCHHHHHHHHHHH
Confidence            899999999999 5665557789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy4479          85 LVAQWDVQV   93 (135)
Q Consensus        85 L~~~L~~~~   93 (135)
                      |+++|.+..
T Consensus       289 L~~kL~~~~  297 (364)
T TIGR00020       289 LKAKLYELE  297 (364)
T ss_pred             HHHHHHHHH
Confidence            999999875

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=99.97  E-value=6.5e-31  Score=224.54  Aligned_cols=88  Identities=40%  Similarity=0.552  Sum_probs=83.4

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      |+|||||+|+|+ |..+....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus       210 r~hts~~~V~vl-P~~~~~~~~~i~~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~  288 (367)
T PRK00578        210 RRHTSFASVEVY-PEVDDTIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKM  288 (367)
T ss_pred             ceecceeeEEec-CCCCCccccccChhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCHHHHHHHHHHH
Confidence            799999999999 5666656789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy4479          85 LVAQWDVQV   93 (135)
Q Consensus        85 L~~~L~~~~   93 (135)
                      |.++|.+..
T Consensus       289 L~~kL~~~~  297 (367)
T PRK00578        289 LKAKLYELE  297 (367)
T ss_pred             HHHHHHHHH
Confidence            999999876

>TIGR03072 release_prfH putative peptide chain release factor H

Probab=99.97  E-value=6.4e-31  Score=209.15  Aligned_cols=83  Identities=31%  Similarity=0.390  Sum_probs=77.3

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      ++||||++|+|+|      ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++
T Consensus        86 ~R~ts~~~V~v~~------~~~~i~~~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~  159 (200)
T TIGR03072        86 RRKNWFIGVQRFS------ASEEATEDEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLL  159 (200)
T ss_pred             CeeEEEEEEEEec------CccccChhheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHHHHHHHHHH
Confidence            3678999999994      2357999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy4479          85 LVAQWDVQV   93 (135)
Q Consensus        85 L~~~L~~~~   93 (135)
                      |.++|.+..
T Consensus       160 L~~~l~~~~  168 (200)
T TIGR03072       160 LAVRLADLQ  168 (200)
T ss_pred             HHHHHHHHH
Confidence            999999875

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.

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

Probab=99.97  E-value=7.1e-31  Score=208.89  Aligned_cols=82  Identities=30%  Similarity=0.373  Sum_probs=77.2

Q ss_pred             EeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHHH
Q psy4479           6 RHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELL   85 (135)
Q Consensus         6 ~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL   85 (135)
                      +||||++|+|+++      .+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+++|
T Consensus        88 R~~s~~~V~v~~~------~~~i~~~dl~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L  161 (200)
T PRK08179         88 RKNWFVGIGRFSA------DEEEQSDEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLI  161 (200)
T ss_pred             ceEEEEEEEEeCC------cCccCHHHeEEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHHHHHHHHHHH
Confidence            7889999999942      3489999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhh
Q psy4479          86 VAQWDVQV   93 (135)
Q Consensus        86 ~~~L~~~~   93 (135)
                      .++|.+..
T Consensus       162 ~~~L~~~~  169 (200)
T PRK08179        162 AWKLEQQQ  169 (200)
T ss_pred             HHHHHHHH
Confidence            99999875

>PRK00591 prfA peptide chain release factor 1; Validated

Probab=99.97  E-value=1.1e-30  Score=222.55  Aligned_cols=89  Identities=34%  Similarity=0.441  Sum_probs=83.1

Q ss_pred             eeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHH
Q psy4479           3 IFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAR   82 (135)
Q Consensus         3 ~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~   82 (135)
                      -.|+|||||+|+|+ |.++. ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.|+++|||++||+.|+
T Consensus       195 ~~R~~tsfa~V~v~-P~~~~-~~~~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~~Nk~~Al  272 (359)
T PRK00591        195 QGRIHTSAATVAVL-PEAEE-VEVEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAM  272 (359)
T ss_pred             CCceecceEEEEEE-cCCCc-cccccCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHHHHHHHHH
Confidence            36999999999999 45544 47899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy4479          83 ELLVAQWDVQV   93 (135)
Q Consensus        83 ~rL~~~L~~~~   93 (135)
                      ++|..+|....
T Consensus       273 ~~L~~~L~~~~  283 (359)
T PRK00591        273 KVLRARLYDAE  283 (359)
T ss_pred             HHHHHHHHHHH
Confidence            99999999876

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

Probab=99.97  E-value=8.5e-31  Score=191.21  Aligned_cols=73  Identities=51%  Similarity=0.708  Sum_probs=69.4

Q ss_pred             CCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHHHHHHHHHhh
Q psy4479          21 DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQV   93 (135)
Q Consensus        21 ~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~   93 (135)
                      +....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+|+++|||+.|+++|+++|.++|..+.
T Consensus         2 ~~~~~~~i~~~dl~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~   74 (113)
T PF00472_consen    2 EKEKEIDIPEKDLEISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAY   74 (113)
T ss_dssp             ETSSSSCC-GGGEEEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcccccccCHHHeEEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHH
Confidence            4567789999999999999999999999999999999999999999999999999999999999999999987

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 ....

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

Probab=99.96  E-value=6.4e-30  Score=207.79  Aligned_cols=93  Identities=40%  Similarity=0.508  Sum_probs=86.5

Q ss_pred             ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479           2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA   81 (135)
Q Consensus         2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A   81 (135)
                      |+=|.|||+++|.|+ |.+++...+.|+++||+++|+|||||||||||||+|+|+|+|+||||++.||.+|||+.|++.|
T Consensus        82 ~~~~R~tsf~~v~v~-p~~~~~i~i~I~~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a  160 (239)
T COG1186          82 SNGRRHTSFASVEVF-PELDISIEIEIPDDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALA  160 (239)
T ss_pred             cCcccccceeeeeec-CCCCcccceecCccceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHH
Confidence            455899999999999 6777888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcC
Q psy4479          82 RELLVAQWDVQVNG   95 (135)
Q Consensus        82 ~~rL~~~L~~~~~~   95 (135)
                      +..|...|......
T Consensus       161 ~~~l~~kL~~~~~~  174 (239)
T COG1186         161 RKMLKGKLYILAQE  174 (239)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998766543

>KOG3429|consensus

Probab=99.89  E-value=4.6e-23  Score=159.83  Aligned_cols=75  Identities=29%  Similarity=0.332  Sum_probs=67.7

Q ss_pred             CCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEE-------eC------------------CeeEEEecCcCCHHH
Q psy4479          22 YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTH-------IP------------------TGIVIKCHQSRSLSE   76 (135)
Q Consensus        22 ~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h-------~p------------------tgi~v~~~~~RSq~~   76 (135)
                      ......||.+.|++.|+||||||||||||++|+|.|+|       ||                  ..|+|.++.+|||+.
T Consensus        31 ~~~~g~ipld~~~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~  110 (172)
T KOG3429|consen   31 IHFKGKIPLDQLEISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHK  110 (172)
T ss_pred             cccCCCCchhheEEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhc
Confidence            44566899999999999999999999999999999998       33                  149999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCC
Q psy4479          77 NRKTARELLVAQWDVQVNGE   96 (135)
Q Consensus        77 Nk~~A~~rL~~~L~~~~~~~   96 (135)
                      |.++||++|..+|.++...+
T Consensus       111 NiaDcleKlr~~I~~~~~~~  130 (172)
T KOG3429|consen  111 NIADCLEKLRDIIRAAEQTP  130 (172)
T ss_pred             cHHHHHHHHHHHHHHHhcCC
Confidence            99999999999999988763

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	135
2rsm_A	115	Solution Structure And Sirna-Mediated Knockdown Ana		1e-20
2fvo_A	333	Docking Of The Modified Rf1 X-ray Structure Into Th		7e-11
1rq0_A	342	Crystal Structure Of Peptide Releasing Factor 1 Len		7e-11
1mi6_A	365	Docking Of The Modified Rf2 X-Ray Structure Into Th		2e-09
1gqe_A	365	Polypeptide Chain Release Factor 2 (Rf2) From Esche		2e-09
1ml5_Z	365	Structure Of The E. Coli Ribosomal Termination Comp		3e-09
2b64_Y	354	30s Ribosomal Subunit, Trnas, Mrna And Release Fact		4e-09
2b3t_B	360	Molecular Basis For Bacterial Class 1 Release Facto		7e-09
2b9m_Y	365	30s Ribosomal Subunit, Trnas, Mrna And Release Fact		7e-08
2ihr_1	365	Rf2 Of Thermus Thermophilus Length = 365		7e-08
3f1e_X	378	Crystal Structure Of A Translation Termination Comp		8e-08
2x9r_Y	351	Structure Of The 70s Ribosome Bound To Release Fact		8e-08
2wh1_Y	351	Insights Into Translational Termination From The St		8e-08
1zbt_A	371	Crystal Structure Of Peptide Chain Release Factor 1		5e-05

>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 = 95.1 bits (235), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 41/78 (52%), Positives = 59/78 (75%)
Query: 21  DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
           DY  +  ++E +++E+FV+G GPGGQA  KT+NCVVL H+P+GIV+KCHQ+RS+ +NRK 
Sbjct: 36  DYPALLPLNESELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKI 95
Query: 81  ARELLVAQWDVQVNGEDS 98
           AR++L  + DV  N   S
Sbjct: 96  ARKVLQEKVDVFYNSGPS 113

>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 = 62.4 bits (150), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 44/70 (62%), Gaps = 7/70 (10%)
Query: 25  VPKIDEKDIQER-------FVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSEN 77
           +P+I+EKDI+ R         R SG GGQ V KT + V +TH+PTGIV+ C   RS  +N
Sbjct: 183 LPEIEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQN 242
Query: 78  RKTARELLVA 87
           ++TA  +L A
Sbjct: 243 KQTALRILRA 252

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

Iteration: 1
 Score = 62.4 bits (150), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 44/70 (62%), Gaps = 7/70 (10%)
Query: 25  VPKIDEKDIQER-------FVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSEN 77
           +P+I+EKDI+ R         R SG GGQ V KT + V +TH+PTGIV+ C   RS  +N
Sbjct: 183 LPEIEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQN 242
Query: 78  RKTARELLVA 87
           ++TA  +L A
Sbjct: 243 KQTALRILRA 252

>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 = 57.8 bits (138), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/84 (39%), Positives = 48/84 (57%), Gaps = 1/84 (1%)
Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S  SS F   ++D     +I+  D++    R SG GGQ V +T + V +THIPTGI
Sbjct: 212 RRHTSF-SSAFVYPEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGI 270
Query: 65  VIKCHQSRSLSENRKTARELLVAQ 88
           V +C   RS  +N+  A + + A+
Sbjct: 271 VTQCQNDRSQHKNKDQAMKQMKAK 294

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

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S  SS F   ++D     +I+  D++    R SG GGQ V +T + V +THIPTGI
Sbjct: 212 RRHTSF-SSAFVYPEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGI 270
Query: 65  VIKCHQSRSLSENRKTA 81
           V +C   RS  +N+  A
Sbjct: 271 VTQCQNDRSQHKNKDQA 287

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 44/77 (57%), Gaps = 1/77 (1%)
Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S  SS F   ++D     +I+  D++    R SG GGQ V +T + V +THIPTGI
Sbjct: 212 RRHTSF-SSAFVYPEVDDDIDIEINPADLRIDVYRTSGAGGQHVNRTESAVRITHIPTGI 270
Query: 65  VIKCHQSRSLSENRKTA 81
           V +C   RS  +N+  A
Sbjct: 271 VTQCQNDRSQHKNKDQA 287

>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 = 56.6 bits (135), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 28/68 (41%), Positives = 42/68 (61%), Gaps = 7/68 (10%)
Query: 25  VPKIDEKD-------IQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSEN 77
           +PK +E+D       I+   +R SGPGGQ V  T++ V + H+PTGI++ C  SRS  +N
Sbjct: 202 LPKAEEEDFALNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKN 261
Query: 78  RKTARELL 85
           R+ A  +L
Sbjct: 262 REKALMIL 269

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 43/69 (62%)
Query: 19  DLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENR 78
           +L  +++P ++  D++    R SG GGQ V  T++ + +TH+PTGIV++C   RS  +N+
Sbjct: 208 ELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNK 267
Query: 79  KTARELLVA 87
             A  +L A
Sbjct: 268 AKALSVLGA 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 = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 35/51 (68%)
Query: 38  VRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQ 88
           +R SGPGGQ V  T++ V + H+PTGI + C  +RS  +N++ A ++L A+
Sbjct: 232 MRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKAR 282

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 35/51 (68%)
Query: 38  VRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQ 88
           +R SGPGGQ V  T++ V + H+PTGI + C  +RS  +N++ A ++L A+
Sbjct: 232 MRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKAR 282

>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 = 22/51 (43%), Positives = 35/51 (68%)
Query: 38  VRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQ 88
           +R SGPGGQ V  T++ V + H+PTGI + C  +RS  +N++ A ++L A+
Sbjct: 245 MRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKAR 295

>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 = 22/51 (43%), Positives = 35/51 (68%)
Query: 38  VRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQ 88
           +R SGPGGQ V  T++ V + H+PTGI + C  +RS  +N++ A ++L A+
Sbjct: 227 MRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKAR 277

>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 = 22/51 (43%), Positives = 35/51 (68%)
Query: 38  VRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVAQ 88
           +R SGPGGQ V  T++ V + H+PTGI + C  +RS  +N++ A ++L A+
Sbjct: 227 MRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKAR 277

>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 = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 33/60 (55%)
Query: 28  IDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVA 87
           ID KD++      SG GGQ V K    V + H+PT I ++  + R+  +NR  A +++ A
Sbjct: 230 IDPKDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEXQEERTQQKNRDKAXKIIRA 289

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	135
2rsm_A	115	Probable peptide chain release factor C12ORF65 HO	8e-26
1gqe_A	365	Release factor 2, RF2; protein synthesis, ribosome	1e-14
2ihr_1	365	Peptide chain release factor 2; mixed alpha-beta,	9e-14
2b3t_B	360	RF-1, peptide chain release factor 1; translation	1e-13
1zbt_A	371	RF-1, peptide chain release factor 1; peptide chai	2e-13
3d5a_X	354	RF1, peptide chain release factor 1; ribosome, rib	4e-13
1rq0_A	342	RF-1, peptide chain release factor 1; X-RAY, cryst	5e-13
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	5e-11
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	5e-10
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	2e-08

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

 Score = 92.8 bits (231), Expect = 8e-26
 Identities = 41/78 (52%), Positives = 59/78 (75%)

Query: 21  DYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKT 80
           DY  +  ++E +++E+FV+G GPGGQA  KT+NCVVL H+P+GIV+KCHQ+RS+ +NRK 
Sbjct: 36  DYPALLPLNESELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKI 95

Query: 81  ARELLVAQWDVQVNGEDS 98
           AR++L  + DV  N   S
Sbjct: 96  ARKVLQEKVDVFYNSGPS 113

>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 = 68.1 bits (167), Expect = 1e-14
 Identities = 32/84 (38%), Positives = 48/84 (57%), Gaps = 1/84 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S +S  F   ++D     +I+  D++    R SG GGQ V +T + V +THIPTGI
Sbjct: 212 RRHTSFSS-AFVYPEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGI 270

Query: 65  VIKCHQSRSLSENRKTARELLVAQ 88
           V +C   RS  +N+  A + + A+
Sbjct: 271 VTQCQNDRSQHKNKDQAMKQMKAK 294

>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 = 65.3 bits (160), Expect = 9e-14
 Identities = 28/83 (33%), Positives = 48/83 (57%), Gaps = 1/83 (1%)

Query: 5   RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGI 64
           RRH S A  +    ++D      +  ++++   +R SGPGGQ V  T++ V + H+PTGI
Sbjct: 200 RRHTSFAG-VEVIPEVDEEVEVVLKPEELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGI 258

Query: 65  VIKCHQSRSLSENRKTARELLVA 87
            + C  +RS  +N++ A ++L A
Sbjct: 259 TVTCQTTRSQIKNKELALKILKA 281

>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 = 64.9 bits (159), Expect = 1e-13
 Identities = 27/82 (32%), Positives = 45/82 (54%), Gaps = 1/82 (1%)

Query: 25  VPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL 84
           +P ++  D++    R SG GGQ V  T++ + +TH+PTGIV++C   RS  +N+  A  +
Sbjct: 214 LPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSV 273

Query: 85  LVAQ-WDVQVNGEDSLNAQIRR 105
           L A+    ++       A  RR
Sbjct: 274 LGARIHAAEMAKRQQAEASTRR 295

>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 = 64.1 bits (157), Expect = 2e-13
 Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 1/80 (1%)

Query: 27  KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLV 86
           +ID KD++      SG GGQ V K    V + H+PT I ++  + R+  +NR  A +++ 
Sbjct: 229 EIDPKDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEMQEERTQQKNRDKAMKIIR 288

Query: 87  AQ-WDVQVNGEDSLNAQIRR 105
           A+  D             R+
Sbjct: 289 ARVADHFAQIAQDEQDAERK 308

>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 = 63.7 bits (156), Expect = 4e-13
 Identities = 26/80 (32%), Positives = 46/80 (57%), Gaps = 1/80 (1%)

Query: 27  KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLV 86
            ++  +I+   +R SGPGGQ V  T++ V + H+PTGI++ C  SRS  +NR+ A  +L 
Sbjct: 211 ALNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALMILR 270

Query: 87  AQ-WDVQVNGEDSLNAQIRR 105
           ++  +++   E     + R 
Sbjct: 271 SRLLEMKRAEEAERLRKTRL 290

>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 = 63.4 bits (155), Expect = 5e-13
 Identities = 30/80 (37%), Positives = 49/80 (61%), Gaps = 1/80 (1%)

Query: 27  KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLV 86
           +I  +D++    R SG GGQ V KT + V +TH+PTGIV+ C   RS  +N++TA  +L 
Sbjct: 192 EIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILR 251

Query: 87  AQ-WDVQVNGEDSLNAQIRR 105
           A+ + +Q   ++   +Q R+
Sbjct: 252 ARLYQLQKEQKEREISQKRK 271

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

 Score = 54.9 bits (132), Expect = 5e-11
 Identities = 20/92 (21%), Positives = 31/92 (33%), Gaps = 24/92 (26%)

Query: 20 LDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTG---------------- 63
          L  S    + + +I+   +R  G GGQ V K ++ + L                      
Sbjct: 2  LVISNNVHLPDAEIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALND 61

Query: 64 --------IVIKCHQSRSLSENRKTARELLVA 87
                  IV+K  Q R+  +NR  A   L  
Sbjct: 62 SRITSDGVIVLKAQQYRTQEQNRADALLRLSE 93

>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 = 52.8 bits (127), Expect = 5e-10
 Identities = 31/136 (22%), Positives = 46/136 (33%), Gaps = 44/136 (32%)

Query: 20  LDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLT--------------------- 58
           +  S+   I + +++   +R  G GGQ V KT+  + L                      
Sbjct: 2   IVISRHVAIPDGELEITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASH 61

Query: 59  ---HIPTGIVIKCHQSRSLSENRKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQE 115
                   IVIK  + RS   NR+ A   LVA                      +  T E
Sbjct: 62  HLISSDGVIVIKAQEYRSQELNREAALARLVA--------------------MIKELTTE 101

Query: 116 QKKRKLDALKKAWKER 131
           +K R+     +A KER
Sbjct: 102 KKARRPTRPTRASKER 117

>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 = 48.2 bits (114), Expect = 2e-08
 Identities = 15/85 (17%), Positives = 23/85 (27%), Gaps = 25/85 (29%)

Query: 28  IDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTG------------------------ 63
           I    +   + R SGPGGQ V K N+   +                              
Sbjct: 17  IPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAG 76

Query: 64  -IVIKCHQSRSLSENRKTARELLVA 87
            +V+    SR    N     + +  
Sbjct: 77  ELVLTSESSRYQFRNLAECLQKIRD 101

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	135
2rsm_A	115	Probable peptide chain release factor C12ORF65 HO	100.0
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	100.0
1gqe_A	365	Release factor 2, RF2; protein synthesis, ribosome	100.0
2b3t_B	360	RF-1, peptide chain release factor 1; translation	99.98
3d5a_X	354	RF1, peptide chain release factor 1; ribosome, rib	99.98
2ihr_1	365	Peptide chain release factor 2; mixed alpha-beta,	99.98
1rq0_A	342	RF-1, peptide chain release factor 1; X-RAY, cryst	99.98
1zbt_A	371	RF-1, peptide chain release factor 1; peptide chai	99.97
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	99.96
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	99.96

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

Probab=100.00  E-value=2.7e-36  Score=220.92  Aligned_cols=91  Identities=45%  Similarity=0.785  Sum_probs=87.9

Q ss_pred             eecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHHHH
Q psy4479           7 HLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLV   86 (135)
Q Consensus         7 ~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~rL~   86 (135)
                      -||+|+|.|+ |+.+.+..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|+++|+
T Consensus        23 gts~~~v~v~-p~~d~~~~l~I~~~dl~~~~~RssGpGGQ~VNKt~SaVrl~H~PTGivV~~q~~RSQ~~Nr~~A~~~L~  101 (115)
T 2rsm_A           23 GMAASTVQVA-GRKDYPALLPLNESELEEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKIARKVLQ  101 (115)
T ss_dssp             CCCCCCCCCC-SCCCCCCSCCCCGGGCEEEECSCCCSCSSSCCCSCCCEEEECTTTCCEEEECCSSCHHHHHHHHHHHHH
T ss_pred             ccceEEEEec-cccCCCccCCcCHHHeEEEEeeCCCCCccccCccceeEEEecCCCCcEEEEcCCCCHHHHHHHHHHHHH
Confidence            3899999999 789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCC
Q psy4479          87 AQWDVQVNGEDS   98 (135)
Q Consensus        87 ~~L~~~~~~~ps   98 (135)
                      ++|+++++++++
T Consensus       102 ~kL~e~~~~~~s  113 (115)
T 2rsm_A          102 EKVDVFYNSGPS  113 (115)
T ss_dssp             HHHHHHHHSCCS
T ss_pred             HHHHHHhccccC
Confidence            999999998776

>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=100.00  E-value=1.4e-34  Score=218.04  Aligned_cols=104  Identities=27%  Similarity=0.360  Sum_probs=93.2

Q ss_pred             CCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEE------EeCC------------------eeEEEecCcCCHH
Q psy4479          20 LDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLT------HIPT------------------GIVIKCHQSRSLS   75 (135)
Q Consensus        20 l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~------h~pt------------------gi~v~~~~~RSq~   75 (135)
                      +.++..+.||++||+|+|+|||||||||||||+|+|+|+      |+|+                  +|+|.||++|||+
T Consensus         2 ~~i~~~i~I~~~el~~~~~RssGpGGQnVNKv~SaV~L~~~~~~s~lp~~~k~rL~~~~~~rit~~G~ivv~~q~~RSQ~   81 (140)
T 4dh9_Y            2 IVISRHVAIPDGELEITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHLISSDGVIVIKAQEYRSQE   81 (140)
T ss_dssp             CCCCSSSCCCTTCSEEEEECCCSSSSHHHHTTCCCEEEEECCSSSSSCSHHHHHHHSCCCTTSCSSCCCCEEECCCSSHH
T ss_pred             ccccCCCccChHHeEEEEEECCCCCCCccccccceEEEEEecccccCCHHHHHHHHHHhccccccCCcEEEEEcCCcCHH
Confidence            446778899999999999999999999999999999999      5897                  5999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhcC-------CCCHHHHHHHHHHHHHH-HHHHhhhchHH
Q psy4479          76 ENRKTARELLVAQWDVQVNG-------EDSLNAQIRRIDEKRRA-TQEQKKRKLDA  123 (135)
Q Consensus        76 ~Nk~~A~~rL~~~L~~~~~~-------~ps~~~~~kRl~~kk~~-~~k~~r~k~~~  123 (135)
                      +|+++|+++|.++|.+++.+       +|+++++++||+.|+++ ++|+.|+++.+
T Consensus        82 ~Nr~~A~~rL~~~l~~a~~~pk~R~~tkpt~~s~~rRl~~Kk~rs~~K~~R~k~~~  137 (140)
T 4dh9_Y           82 LNREAALARLVAMIKELTTEKKARRPTRPTRASKERRLASKAQKSSVKAMRGKVRS  137 (140)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCCCCCCCCCCSSTTTHHHHHHHHHHHHHTSCCC----
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCCcCCCCcHHHHHHHHHHHHHHhHHhhccCCCCC
Confidence            99999999999999999976       47999999999999998 88999987653

>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=4.5e-33  Score=236.44  Aligned_cols=89  Identities=35%  Similarity=0.491  Sum_probs=84.1

Q ss_pred             eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479           4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE   83 (135)
Q Consensus         4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~   83 (135)
                      =|+|||||+|+|+ |.++....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+||++|||++||+.|++
T Consensus       211 gRrhTS~asV~V~-Pe~~~~v~i~i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~HiPtgivv~~q~~RSQ~~Nr~~A~~  289 (365)
T 1gqe_A          211 GRRHTSFSSAFVY-PEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMK  289 (365)
T ss_dssp             CCEEEEEEEEEEE-ECCBTTBCCCCCGGGEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHH
T ss_pred             CCCCcceeEEEEe-cCCCcccccccCHHHceEeeecCCCCCCCcccCccceEEEEECCCeEEEEECCCCCHHHHHHHHHH
Confidence            3899999999999 577666678999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy4479          84 LLVAQWDVQV   93 (135)
Q Consensus        84 rL~~~L~~~~   93 (135)
                      +|+++|.+..
T Consensus       290 ~L~~~L~~~~  299 (365)
T 1gqe_A          290 QMKAKLYEVE  299 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998765

>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=99.98  E-value=8.4e-33  Score=234.41  Aligned_cols=95  Identities=31%  Similarity=0.468  Sum_probs=86.8

Q ss_pred             ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479           2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA   81 (135)
Q Consensus         2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A   81 (135)
                      |-.|+|||||+|+|+ |.++....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+||++|||++||+.|
T Consensus       192 s~gR~hTS~asV~V~-Pe~~~~e~i~i~~~dl~i~~~RssG~GGQ~VNkt~saVrl~hlPtGivv~~q~~RSQ~~Nr~~A  270 (360)
T 2b3t_B          192 SQGRIHTSACTVAVM-PELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKA  270 (360)
T ss_dssp             SSCCCEEEEEEEECC-BCCCTTTCCCCCSSSEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHH
T ss_pred             ccCcCCccceEEEEe-cCcccccccccChhheEEeeecCCCCCCCccccccceEEEEECCCeEEEEECCCCCHHHHHHHH
Confidence            346999999999999 5666543378999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCC
Q psy4479          82 RELLVAQWDVQVNGED   97 (135)
Q Consensus        82 ~~rL~~~L~~~~~~~p   97 (135)
                      +++|.++|..+...+.
T Consensus       271 ~~~L~~~L~~~~~~~~  286 (360)
T 2b3t_B          271 LSVLGARIHAAEMAKR  286 (360)
T ss_dssp             HHHHHHHHTTTTTTSC
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999886643

>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=99.98  E-value=1.3e-32  Score=232.75  Aligned_cols=90  Identities=31%  Similarity=0.423  Sum_probs=84.0

Q ss_pred             ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479           2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA   81 (135)
Q Consensus         2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A   81 (135)
                      |-.|+|||||+|+|+ |.++. ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+||++|||++||+.|
T Consensus       188 s~gR~hTS~asV~V~-P~~~~-~~i~i~~~dl~i~~~RssG~GGQ~VNkt~SaVrl~HlPtgivv~~q~~RSQ~~Nr~~A  265 (354)
T 3d5a_X          188 TQGRIHTSTATVAVL-PKAEE-EDFALNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKA  265 (354)
T ss_dssp             SSCCCEEEEEEEEEE-ECCCC-CCCCCCGGGEEEEEECCCSCCHHHHHHCCCEEEEEETTTTEEEEECCSSCHHHHHHHH
T ss_pred             CCCcCccCceEEEEe-ccCcc-cccccCccceEEEeecCCCCCCcccccccceEEEEEcCCeEEEEECCCCCHHHHHHHH
Confidence            346999999999999 56655 4689999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy4479          82 RELLVAQWDVQV   93 (135)
Q Consensus        82 ~~rL~~~L~~~~   93 (135)
                      +++|+++|.++.
T Consensus       266 ~~~L~~~L~~~~  277 (354)
T 3d5a_X          266 LMILRSRLLEMK  277 (354)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999876

>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=99.98  E-value=1.3e-32  Score=233.54  Aligned_cols=89  Identities=31%  Similarity=0.473  Sum_probs=84.2

Q ss_pred             eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479           4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE   83 (135)
Q Consensus         4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~   83 (135)
                      =|+|||||+|+|+ |.++....+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+||++|||++||+.|++
T Consensus       199 gRrhTS~asV~V~-P~~~~~~~i~i~~~dl~i~~~RssG~GGQ~VNkt~saVrl~h~Ptgivv~~q~~RSQ~~Nr~~A~~  277 (365)
T 2ihr_1          199 GRRHTSFAGVEVI-PEVDEEVEVVLKPEELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALK  277 (365)
T ss_dssp             CCEEEEEEEEEEE-EECCSSSSCCCCGGGEEEEEECCCCSSCCSGGGSCSEEEEEETTTTEEEEECSSSCHHHHHHHHHH
T ss_pred             CCccceeEEEEEe-cCCCcccccccCccceEEEEeecCCCCCceecccceEEEEEEcCCeEEEEECCCCCHHHHHHHHHH
Confidence            3899999999999 577766778999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy4479          84 LLVAQWDVQV   93 (135)
Q Consensus        84 rL~~~L~~~~   93 (135)
                      +|+++|.+..
T Consensus       278 ~L~~~L~~~~  287 (365)
T 2ihr_1          278 ILKARLYELE  287 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998864

>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=99.98  E-value=8.1e-33  Score=233.17  Aligned_cols=90  Identities=37%  Similarity=0.450  Sum_probs=79.8

Q ss_pred             ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479           2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA   81 (135)
Q Consensus         2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A   81 (135)
                      |-.|+|||||+|+|+ |.++. ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+||++|||++||+.|
T Consensus       169 s~gR~hTS~asV~V~-Pe~~~-~~i~i~~~dl~i~~~RssGpGGQ~VNKt~SaVrl~hlPtGivv~~q~~RSQ~~Nr~~A  246 (342)
T 1rq0_A          169 SGGRIHTSTATVAVL-PEIEE-KDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTA  246 (342)
T ss_dssp             CSCCCEEEEEEEEEE-ECCCG-GGSCCCGGGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHH
T ss_pred             cCCCCcccceEEEEe-ccccc-cccccChhHeEEEeecCCCCCCcccccccceEEEEECCCeEEEEECCCCCHHHHHHHH
Confidence            346999999999999 56655 4588999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy4479          82 RELLVAQWDVQV   93 (135)
Q Consensus        82 ~~rL~~~L~~~~   93 (135)
                      +++|.++|..+.
T Consensus       247 ~~~L~~~L~~~~  258 (342)
T 1rq0_A          247 LRILRARLYQLQ  258 (342)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999876

>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=99.97  E-value=8.6e-33  Score=235.04  Aligned_cols=90  Identities=30%  Similarity=0.398  Sum_probs=74.9

Q ss_pred             ceeeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHH
Q psy4479           2 SIFRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTA   81 (135)
Q Consensus         2 ~~~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A   81 (135)
                      |-.|+|||||+|+|+ |.++. ..+.|+++||+++|+|||||||||||||+|+|+|+|+||||+|+||++|||++||+.|
T Consensus       206 s~gR~hTS~asV~V~-Pe~~e-v~i~I~~~dl~i~~~RssGpGGQ~VNkt~SaVrlthlPtGivV~~q~eRSQ~~Nr~~A  283 (371)
T 1zbt_A          206 SQGRVHTSTATVLVM-PEVEE-VEYEIDPKDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEMQEERTQQKNRDKA  283 (371)
T ss_dssp             SSCCCEEEEEEEEEE-ECCCG-GGSCCCGGGEEEEEECC---------CCCCEEEEEETTTTEEEEECSSSSHHHHHHHH
T ss_pred             CCCcccccceEEEEe-ccccc-cccccCcCcEEEEEecCCCCCCCcccccceeEEEEECCCeEEEEECCcCCHHHHHHHH
Confidence            346999999999999 56655 4588999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy4479          82 RELLVAQWDVQV   93 (135)
Q Consensus        82 ~~rL~~~L~~~~   93 (135)
                      +++|.++|.++.
T Consensus       284 ~~~L~~~L~~~~  295 (371)
T 1zbt_A          284 MKIIRARVADHF  295 (371)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999875

>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=4.8e-30  Score=186.12  Aligned_cols=75  Identities=29%  Similarity=0.385  Sum_probs=70.8

Q ss_pred             CCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEE------eC-----------------Ce-eEEEecCcCCHHHH
Q psy4479          22 YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTH------IP-----------------TG-IVIKCHQSRSLSEN   77 (135)
Q Consensus        22 ~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h------~p-----------------tg-i~v~~~~~RSq~~N   77 (135)
                      ++..+.||++||+++|+|||||||||||||+|+|+|+|      +|                 +| |+|+||++|||.+|
T Consensus         4 i~~~i~I~~~dl~~~~~RssGpGGQnVNKv~SaV~L~~d~~~s~lP~~~k~rl~~~~~~ri~~~G~ivv~~q~~RSQ~~N   83 (108)
T 2jva_A            4 ISNNVHLPDAEIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITSDGVIVLKAQQYRTQEQN   83 (108)
T ss_dssp             CSSSCEECGGGEEEEECCCTTCSSSSSCCCCCCEEEEEETTTSCCCHHHHHHHHTCSCTTBCTTCEEEEEECCSSSHHHH
T ss_pred             cccccccChHHEEEEEEECCCCCCCCcCCCcceEEEEEEcccccCCHHHHHHHHHHhccccccCCcEEEEECCcCCHHHH
Confidence            55678999999999999999999999999999999999      88                 88 99999999999999


Q ss_pred             HHHHHHHHHHHHHHhhcCC
Q psy4479          78 RKTARELLVAQWDVQVNGE   96 (135)
Q Consensus        78 k~~A~~rL~~~L~~~~~~~   96 (135)
                      +++|+++|.++|.+++.++
T Consensus        84 r~~Al~rL~~~l~~a~~~~  102 (108)
T 2jva_A           84 RADALLRLSELIVNAAKLE  102 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHHccCc
Confidence            9999999999999998764

>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=99.96  E-value=5e-29  Score=181.77  Aligned_cols=75  Identities=21%  Similarity=0.269  Sum_probs=69.7

Q ss_pred             CCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEE-EeCCe------------------------eEEEecCcCCHHH
Q psy4479          22 YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLT-HIPTG------------------------IVIKCHQSRSLSE   76 (135)
Q Consensus        22 ~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~-h~ptg------------------------i~v~~~~~RSq~~   76 (135)
                      ....+.||++||+++|+|||||||||||||+|+|+|+ |+|++                        |+|+||++|||++
T Consensus        11 ~~~~i~I~~~dl~~~~~RssGpGGQnVNKv~SaV~Lrf~i~t~~~Lp~~~k~rl~~~~~~ri~~~G~ivv~~q~~RSQ~~   90 (112)
T 1j26_A           11 KQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQFR   90 (112)
T ss_dssp             CSSCCCCCTTTSEEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEEEECCCSSHHH
T ss_pred             cceEEecChHHeEEEEEECCCCCCCCccCCcceEEEEEeccccccCCHHHHHHHHHhhccccccCCeEEEEECCccCHHH
Confidence            3446689999999999999999999999999999998 99997                        9999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCC
Q psy4479          77 NRKTARELLVAQWDVQVNGE   96 (135)
Q Consensus        77 Nk~~A~~rL~~~L~~~~~~~   96 (135)
                      |+++|+++|.++|.+++.++
T Consensus        91 Nr~~Al~rL~~~l~~a~~~p  110 (112)
T 1j26_A           91 NLAECLQKIRDMIAEASGPS  110 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHHHHHhhcCC
Confidence            99999999999999987653

---

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	135
d1j26a_	112	d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [	1e-13
d2b3tb1	344	e.38.1.1 (B:7-354) Peptide chain release factor 1,	7e-10
d1rq0a_	333	e.38.1.1 (A:) Peptide chain release factor 1, RF1	2e-08
d1gqea_	362	e.38.1.1 (A:) Polypeptide chain release factor 2 (	3e-07

>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 = 60.4 bits (146), Expect = 1e-13
 Identities = 15/86 (17%), Positives = 23/86 (26%), Gaps = 25/86 (29%)

Query: 27  KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHI-------------------------P 61
            I    +   + R SGPGGQ V K N+   +                             
Sbjct: 16  YIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKA 75

Query: 62  TGIVIKCHQSRSLSENRKTARELLVA 87
             +V+    SR    N     + +  
Sbjct: 76  GELVLTSESSRYQFRNLAECLQKIRD 101

>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 = 53.2 bits (127), Expect = 7e-10
 Identities = 30/114 (26%), Positives = 52/114 (45%), Gaps = 14/114 (12%)

Query: 18  YDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSEN 77
            +L  +++P ++  D++    R SG GGQ V  T++ + +TH+PTGIV++C   RS  +N
Sbjct: 197 PELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKN 256

Query: 78  RKTARELLVAQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKER 131
           +  A                 L A+I   +  +R   E   R+         +R
Sbjct: 257 KAKAL--------------SVLGARIHAAEMAKRQQAEASTRRNLLGSGDRSDR 296

>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 = 49.0 bits (116), Expect = 2e-08
 Identities = 30/81 (37%), Positives = 48/81 (59%), Gaps = 1/81 (1%)

Query: 28  IDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLVA 87
           I  +D++    R SG GGQ V KT + V +TH+PTGIV+ C   RS  +N++TA  +L A
Sbjct: 193 IRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILRA 252

Query: 88  Q-WDVQVNGEDSLNAQIRRID 107
           + + +Q   ++   +Q R+  
Sbjct: 253 RLYQLQKEQKEREISQKRKSQ 273

>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 = 45.8 bits (108), Expect = 3e-07
 Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 15/105 (14%)

Query: 27  KIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARELLV 86
           +I+  D++    R SG GGQ V +T + V +THIPTGIV +C   RS  +N+  A + + 
Sbjct: 230 EINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMK 289

Query: 87  AQWDVQVNGEDSLNAQIRRIDEKRRATQEQKKRKLDALKKAWKER 131
           A+                 + +K    Q  +  K D     W  +
Sbjct: 290 AK------------LYEVEMQKKNAEKQAMEDNKSDI---GWGSQ 319

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	135
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	100.0
d2b3tb1	344	Peptide chain release factor 1, RF1 {Escherichia c	100.0
d1rq0a_	333	Peptide chain release factor 1, RF1 {Thermotoga ma	100.0
d1j26a_	112	Ict1 protein {Mouse (Mus musculus) [TaxId: 10090]}	99.93
d2ctma1	81	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	81.12

>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=8.4e-35  Score=244.27  Aligned_cols=89  Identities=35%  Similarity=0.491  Sum_probs=84.7

Q ss_pred             eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479           4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE   83 (135)
Q Consensus         4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~   83 (135)
                      -|+|||||+|.|+ |.++....+.|++.||+|+++|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|+.
T Consensus       208 gr~hTS~a~V~v~-P~~~~~~~~~i~~~dl~i~~~rs~g~GGQ~vN~t~savri~H~ptgi~v~~q~ersq~~Nk~~A~~  286 (362)
T d1gqea_         208 GRRHTSFSSAFVY-PEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMK  286 (362)
T ss_dssp             CCEEEEEEEEEEE-ECCBTTBCCCCCGGGEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHH
T ss_pred             ceEEEEEEEEEEe-ecCCCccceecChHHeEEEEeecCCCCccchhhhhceeEEEecCchhHHHhhhcchhhHHHHHHHH
Confidence            4899999999999 688777888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy4479          84 LLVAQWDVQV   93 (135)
Q Consensus        84 rL~~~L~~~~   93 (135)
                      .|+++|.+..
T Consensus       287 ~L~~~l~~~~  296 (362)
T d1gqea_         287 QMKAKLYEVE  296 (362)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998654

>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=7.2e-34  Score=237.19  Aligned_cols=90  Identities=31%  Similarity=0.508  Sum_probs=86.1

Q ss_pred             eEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHHH
Q psy4479           5 RRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTAREL   84 (135)
Q Consensus         5 r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~r   84 (135)
                      |+|||||+|.|+ |.++....+.|+++||+|+++|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|+..
T Consensus       185 r~hts~~~v~v~-p~~~~~~~~~i~~~dl~i~~~rssg~GGQ~vnkt~sAVRi~H~ptGi~v~~q~eRSq~~Nk~~A~~~  263 (344)
T d2b3tb1         185 RIHTSACTVAVM-PELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSV  263 (344)
T ss_dssp             CCEEEEEEEECC-BCCCTTTCCCCCSSSEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHH
T ss_pred             ccccceeeEeee-cccccccccccCcccceEEEecCCCccccchhhhhceeEEEEcCCceEEEccCCCcchHHHHHHHHH
Confidence            899999999999 6888888889999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcC
Q psy4479          85 LVAQWDVQVNG   95 (135)
Q Consensus        85 L~~~L~~~~~~   95 (135)
                      |+.+|.+....
T Consensus       264 L~~kl~~~~~~  274 (344)
T d2b3tb1         264 LGARIHAAEMA  274 (344)
T ss_dssp             HHHHHTTTTTT
T ss_pred             HHHHHHHHHHH
Confidence            99999987654

>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=1.2e-33  Score=235.25  Aligned_cols=88  Identities=36%  Similarity=0.478  Sum_probs=77.5

Q ss_pred             eeEeecceeeeeeecCCCCCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEeCCeeEEEecCcCCHHHHHHHHHH
Q psy4479           4 FRRHLSLASSLFRKYDLDYSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHIPTGIVIKCHQSRSLSENRKTARE   83 (135)
Q Consensus         4 ~r~~ts~~~v~v~~~~l~~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~ptgi~v~~~~~RSq~~Nk~~A~~   83 (135)
                      -|+|||||+|+|+| ..+. ..+.|+++||+|+|+|||||||||||||+|+|+|+|+||||+|.||++|||++||+.|+.
T Consensus       171 ~r~hTs~~~V~v~p-~~~~-~~v~i~~~dl~i~~~RssG~GGQ~VNkt~sAVRitH~PTGi~v~~q~eRSQ~~Nk~~A~~  248 (333)
T d1rq0a_         171 GRIHTSTATVAVLP-EIEE-KDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALR  248 (333)
T ss_dssp             CCCEEEEEEEEEEE-CCCG-GGSCCCGGGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHH
T ss_pred             CceEEEEEEEEEec-cccc-ccccccccceeEEeecCCccccchhhhhhheeEEEEcCCccEEEcccccccHHHHHHHHH
Confidence            48999999999994 5433 367899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy4479          84 LLVAQWDVQV   93 (135)
Q Consensus        84 rL~~~L~~~~   93 (135)
                      .|+++|.+..
T Consensus       249 ~L~~kl~~~~  258 (333)
T d1rq0a_         249 ILRARLYQLQ  258 (333)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998765

>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=99.93  E-value=6.3e-26  Score=163.58  Aligned_cols=74  Identities=20%  Similarity=0.201  Sum_probs=66.5

Q ss_pred             CCCCCCcCCCCeEEEEeeccCCCCcccCccCceEEEEEe-------C------------------CeeEEEecCcCCHHH
Q psy4479          22 YSKVPKIDEKDIQERFVRGSGPGGQAVAKTNNCVVLTHI-------P------------------TGIVIKCHQSRSLSE   76 (135)
Q Consensus        22 ~~~~~~i~~~dl~~~~~RsSGPGGQ~VNKt~s~V~l~h~-------p------------------tgi~v~~~~~RSq~~   76 (135)
                      ......||.++|+|+|+|||||||||||||+|+|+|+|.       |                  ..|+|.|+++|||.+
T Consensus        11 ~~~~~~Ip~~~i~~~f~RSsGPGGQ~VNKv~TkV~Lr~~v~~s~~l~~~~~~~l~~~~~~~i~~~g~l~I~s~~~RsQ~~   90 (112)
T d1j26a_          11 KQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQFR   90 (112)
T ss_dssp             CSSCCCCCTTTSEEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEEEECCCSSHHH
T ss_pred             hhhcCccCHHHeEEEEEEcCCCCCCccceeccEEEEEEeccccccCCHHHHHHHHHHhhhcccCCCeEEEEEcccCCHHH
Confidence            334558999999999999999999999999999999973       2                  259999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcC
Q psy4479          77 NRKTARELLVAQWDVQVNG   95 (135)
Q Consensus        77 Nk~~A~~rL~~~L~~~~~~   95 (135)
                      |+++|+++|.++|.++..|
T Consensus        91 Nr~~a~~kL~~li~~A~kP  109 (112)
T d1j26a_          91 NLAECLQKIRDMIAEASGP  109 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHhCC
Confidence            9999999999999998754

>d2ctma1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.12  E-value=0.38  Score=29.88  Aligned_cols=49  Identities=20%  Similarity=0.243  Sum_probs=34.3

Q ss_pred             CCCCcccCc--cCceEEEEEeCCe----eEEEecCcCCHHHHHHHHHHHHHHHHHHhh
Q psy4479          42 GPGGQAVAK--TNNCVVLTHIPTG----IVIKCHQSRSLSENRKTARELLVAQWDVQV   93 (135)
Q Consensus        42 GPGGQ~VNK--t~s~V~l~h~ptg----i~v~~~~~RSq~~Nk~~A~~rL~~~L~~~~   93 (135)
                      |+||.+++.  ..|.|.|.+.+.+    -.|....   ...|-+.|.+.|..++.+++
T Consensus        26 G~~G~~i~~I~~~tg~~I~~p~~~~~~~~~v~I~G---~~~~V~~A~~~I~~i~~e~~   80 (81)
T d2ctma1          26 GARGKAIRKIMDEFKVDIRFPQSGAPDPNCVTVTG---LPENVEEAIDHILNLEEEYL   80 (81)
T ss_dssp             CSSSCHHHHHHHHHTCEEECCCTTCSCTTEEEEES---CHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCccHHHHHHHhCCEEEeCCccCCCCCEEEEeC---CHHHHHHHHHHHHHHHHHHh
Confidence            999999984  6677787774432    1333333   35678899999999888765