Citrus Sinensis ID: 038082

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------15
Protein Sequence
MNVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLPYSLLLPFVINAAKIYGLKSGEIQE
Secondary Structure (PSIPRED)
cccccccccccccccccccccEEEEcccccccccccccccEEccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEEcHHHcEEEEEEEcccccccccccccEEEEEcccccEEEEEcccHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHEccccccEEEEEcccccccccEccccHHHHHcccccc
Coil and Loop (DISEMBL)
mnvlpnyleltddeLFRECEmdaykssgpggqhrnkresavrlkhaptgvIAQAAEDRSQHKNRASALSRLRTLLALKVRssvnldayspppqlhqilppkstirssevgpqigpnnpkfalvLPYSLLLPFVINAAKIyglksgeiqe
Flexible Loop (DISEMBL)
mnvlpnyleLTDDELFRECEMDAykssgpggqhrnKRESAVRLKHAPTGVIAqaaedrsqhkNRASALSRLRTLLALKVRSSVnldayspppqlhqilpPKSTIRSSEVGPQIGPNNPKFALVLPYSLLLPFVINAAKIYGLKSGEIQE
Low Complexity Region (SEG)
MNVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNrasalsrlrtllalKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLPYSLLLPFVINAAKIYGLKSGEIQE
Disordered region (IsUnstruct)
***********************************************************************RTLLALKVR*************************************PKFALVLPYSLLLPFVINAAKIYGL*******
Disordered Region (DISOPRED)
MNVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLAL*********************************PQIGPNNPKFALVLPYSLLLPFVINAAKIYGLKSGE***
Disordered Region (DISEMBL)
MNVLPNYLELTDDELFRECEMDAY*******************KHAPTGVIAQA***********SALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLPYSLLLPFVINAAKIYGLKSGEIQE
Disordered Region (DISPRO)
*NVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPP*******************PQIGPNNPKFALVLPYSLLLPFVINAAKIYGLKSG****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLPYSLLLPFVINAAKIYGLKSGEIQE
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	149	2.2.26 [Sep-21-2011]
A1W163	365	Peptide chain release fac	yes	no	0.516	0.210	0.493	6e-15
Q5HSX6	365	Peptide chain release fac	yes	no	0.516	0.210	0.493	6e-15
Q9PMK5	365	Peptide chain release fac	yes	no	0.516	0.210	0.493	6e-15
A8FNC2	365	Peptide chain release fac	yes	no	0.516	0.210	0.493	8e-15
A7ZE19	366	Peptide chain release fac	yes	no	0.543	0.221	0.458	9e-15
A7H5G4	365	Peptide chain release fac	yes	no	0.516	0.210	0.493	1e-14
Q30TP0	365	Peptide chain release fac	yes	no	0.395	0.161	0.559	2e-14
Q89AC4	366	Peptide chain release fac	yes	no	0.395	0.161	0.525	3e-14
P55999	363	Peptide chain release fac	yes	no	0.510	0.209	0.525	3e-14
A0RQM7	369	Peptide chain release fac	yes	no	0.677	0.273	0.394	3e-14

>sp|A1W163|RF2_CAMJJ Peptide chain release factor 2 OS=Campylobacter jejuni subsp. jejuni serotype O:23/36 (strain 81-176) GN=prfB PE=3 SV=1

 Score = 79.7 bits (195), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 40/81 (49%), Positives = 50/81 (61%), Gaps = 4/81 (4%)

Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL----SRLRTLLA 76
           +D Y++SG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN+A+A     SRL  L  
Sbjct: 240 IDYYRASGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKNKATAFKMLKSRLYELEL 299

Query: 77  LKVRSSVNLDAYSPPPQLHQI 97
           +K + S N    S     HQI
Sbjct: 300 MKQQDSANTGEKSEIGWGHQI 320

Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA.
Campylobacter jejuni subsp. jejuni serotype O:23/36 (strain 81-176) (taxid: 354242)

>sp|Q5HSX6|RF2_CAMJR Peptide chain release factor 2 OS=Campylobacter jejuni (strain RM1221) GN=prfB PE=3 SV=1

 Score = 79.3 bits (194), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 40/81 (49%), Positives = 50/81 (61%), Gaps = 4/81 (4%)

Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL----SRLRTLLA 76
           +D Y++SG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN+A+A     SRL  L  
Sbjct: 240 IDYYRASGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKNKATAFKMLKSRLYELEL 299

Query: 77  LKVRSSVNLDAYSPPPQLHQI 97
           +K + S N    S     HQI
Sbjct: 300 MKQQDSANTGEKSEIGWGHQI 320

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

Campylobacter jejuni (strain RM1221) (taxid: 195099)

>sp|Q9PMK5|RF2_CAMJE Peptide chain release factor 2 OS=Campylobacter jejuni subsp. jejuni serotype O:2 (strain NCTC 11168) GN=prfB PE=3 SV=1

 Score = 79.3 bits (194), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 40/81 (49%), Positives = 50/81 (61%), Gaps = 4/81 (4%)

Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL----SRLRTLLA 76
           +D Y++SG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN+A+A     SRL  L  
Sbjct: 240 IDYYRASGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKNKATAFKMLKSRLYELEL 299

Query: 77  LKVRSSVNLDAYSPPPQLHQI 97
           +K + S N    S     HQI
Sbjct: 300 MKQQDSANTGEKSEIGWGHQI 320

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

Campylobacter jejuni subsp. jejuni serotype O:2 (strain NCTC 11168) (taxid: 192222)

>sp|A8FNC2|RF2_CAMJ8 Peptide chain release factor 2 OS=Campylobacter jejuni subsp. jejuni serotype O:6 (strain 81116 / NCTC 11828) GN=prfB PE=3 SV=1

 Score = 79.3 bits (194), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 40/81 (49%), Positives = 50/81 (61%), Gaps = 4/81 (4%)

Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL----SRLRTLLA 76
           +D Y++SG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN+A+A     SRL  L  
Sbjct: 240 IDYYRASGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKNKATAFKMLKSRLYELEL 299

Query: 77  LKVRSSVNLDAYSPPPQLHQI 97
           +K + S N    S     HQI
Sbjct: 300 MKQQDSANAGEKSEIGWGHQI 320

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

Campylobacter jejuni subsp. jejuni serotype O:6 (strain 81116 / NCTC 11828) (taxid: 407148)

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

 Score = 79.0 bits (193), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 39/85 (45%), Positives = 54/85 (63%), Gaps = 4/85 (4%)

Query: 17  RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL----SRLR 72
           ++ ++D Y++SG GGQH NK ESA+R+ H PTG++ Q   DRSQHKNRA+A+    SRL 
Sbjct: 236 KDLKIDTYRASGAGGQHVNKTESAIRITHIPTGIVVQCQNDRSQHKNRATAMKMLKSRLY 295

Query: 73  TLLALKVRSSVNLDAYSPPPQLHQI 97
            L  +K + + N    S     HQI
Sbjct: 296 ELELMKQQEASNSVEKSEIGWGHQI 320

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

Campylobacter concisus (strain 13826) (taxid: 360104)

>sp|A7H5G4|RF2_CAMJD Peptide chain release factor 2 OS=Campylobacter jejuni subsp. doylei (strain ATCC BAA-1458 / RM4099 / 269.97) GN=prfB PE=3 SV=1

 Score = 79.0 bits (193), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/81 (49%), Positives = 50/81 (61%), Gaps = 4/81 (4%)

Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL----SRLRTLLA 76
           +D Y++SG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN+A+A     SRL  L  
Sbjct: 240 IDYYRASGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKNKATAFKMLKSRLYELEL 299

Query: 77  LKVRSSVNLDAYSPPPQLHQI 97
           +K + S N    S     HQI
Sbjct: 300 MKQQDSANSSEKSEIGWGHQI 320

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

Campylobacter jejuni subsp. doylei (strain ATCC BAA-1458 / RM4099 / 269.97) (taxid: 360109)

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

 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 33/59 (55%), Positives = 43/59 (72%)

Query: 17  RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           R+  +D Y+SSG GGQH NK ESA+R+ H  TGV+ Q   DRSQHKNRA+A+  L++ L
Sbjct: 236 RDIRVDTYRSSGAGGQHVNKTESAIRITHIATGVVVQCQNDRSQHKNRATAMKMLKSRL 294

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

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

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

 Score = 77.4 bits (189), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 31/59 (52%), Positives = 44/59 (74%)

Query: 17  RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           R+ ++D Y++SG GGQH NK ESAVR++H PTG++ Q   DRSQHKN+  A+ +L+  L
Sbjct: 238 RDLKIDVYRASGAGGQHVNKTESAVRIRHLPTGIVVQCQNDRSQHKNKDQAMKQLKAKL 296

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

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

>sp|P55999|RF2_HELPY Peptide chain release factor 2 OS=Helicobacter pylori (strain ATCC 700392 / 26695) GN=prfB PE=3 SV=1

 Score = 77.0 bits (188), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 42/80 (52%), Positives = 50/80 (62%), Gaps = 4/80 (5%)

Query: 22  DAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL----SRLRTLLAL 77
           D Y+SSG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN+ASAL    S+L  L   
Sbjct: 241 DYYRSSGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKNKASALKMLKSKLYELELE 300

Query: 78  KVRSSVNLDAYSPPPQLHQI 97
           K +SS   +  S     HQI
Sbjct: 301 KQQSSAKNEEKSEIGWGHQI 320

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

Helicobacter pylori (strain ATCC 700392 / 26695) (taxid: 85962)

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

 Score = 77.0 bits (188), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 45/114 (39%), Positives = 62/114 (54%), Gaps = 13/114 (11%)

Query: 11  TDDELFRECE-----MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRA 65
            DD++  E E     +D Y++SG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN+A
Sbjct: 225 VDDDIAIEIEEKDLRLDYYRASGAGGQHVNKTESAVRITHIPTGIVVQCQNDRSQHKNKA 284

Query: 66  SAL----SRLRTLLALKVRSSVNLDAYSPPPQLHQI----LPPKSTIRSSEVGP 111
           +A+    SRL     +K + + N    S     HQI    L P   ++ +  G 
Sbjct: 285 TAMKMLKSRLYEFELMKQQEANNAIEKSEIGWGHQIRSYVLFPYQQVKDTRSGE 338

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)

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	149
224127830	257	predicted protein [Populus trichocarpa]	0.953	0.552	0.653	2e-49
356559945	250	PREDICTED: uncharacterized protein LOC10	0.946	0.564	0.664	5e-49
297851766	256	hypothetical protein ARALYDRAFT_473511 [	0.953	0.554	0.635	3e-47
242059479	259	hypothetical protein SORBIDRAFT_03g04217	0.953	0.548	0.639	1e-46
30692851	257	Class I peptide chain release factor [Ar	0.953	0.552	0.621	2e-46
326517198	170	predicted protein [Hordeum vulgare subsp	0.926	0.811	0.650	3e-46
357126252	239	PREDICTED: uncharacterized protein LOC10	0.953	0.594	0.632	5e-46
414879327	253	TPA: hypothetical protein ZEAMMB73_57118	0.953	0.561	0.625	7e-46
12322377	255	peptide chain release factor, putative;	0.771	0.450	0.724	3e-45
125528646	246	hypothetical protein OsI_04716 [Oryza sa	0.926	0.560	0.636	6e-45

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

 Score =  199 bits (507), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 96/147 (65%), Positives = 116/147 (78%), Gaps = 5/147 (3%)

Query: 6   NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRA 65
           NYLELTDDEL R+CEMD +K+SGPGGQHRNKRESAVRLKH PTG+IAQA EDRSQH NRA
Sbjct: 89  NYLELTDDELMRQCEMDTFKASGPGGQHRNKRESAVRLKHLPTGIIAQAVEDRSQHMNRA 148

Query: 66  SALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLP 125
           SAL RLR LLA++VR+S+++D+Y+P  +L QILP KSTIR S+ GPQIGP NPKF L + 
Sbjct: 149 SALKRLRALLAIRVRNSLDIDSYTPRLELLQILPLKSTIRGSDCGPQIGPKNPKFILGMQ 208

Query: 126 YSLLLPFVIN-----AAKIYGLKSGEI 147
             L L F ++     A K+ GL +G +
Sbjct: 209 ALLDLIFAVDGSISEAGKLLGLSTGAL 235

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  198 bits (504), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 97/146 (66%), Positives = 118/146 (80%), Gaps = 5/146 (3%)

Query: 7   YLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRAS 66
           YL L+D+EL R+CEMD +K+SGPGGQHRNKRESAVRLKH PTG+IAQA+EDRSQHKNRAS
Sbjct: 78  YLNLSDEELMRQCEMDTFKASGPGGQHRNKRESAVRLKHLPTGIIAQASEDRSQHKNRAS 137

Query: 67  ALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLPY 126
           A++RLR+L+ALKVR +V+L+AYSPP +L QILPPKS+IR S+ G QIGPNNPKFA  +  
Sbjct: 138 AINRLRSLIALKVRKTVDLEAYSPPRELLQILPPKSSIRGSDCGSQIGPNNPKFASGMQA 197

Query: 127 SLLLPFVI-----NAAKIYGLKSGEI 147
            L L F +      AAK  GL +G +
Sbjct: 198 LLDLIFAVEGSVSEAAKYLGLSTGAL 223

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  192 bits (489), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 94/148 (63%), Positives = 119/148 (80%), Gaps = 6/148 (4%)

Query: 5   PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNR 64
           PNYL+ TDDEL ++C ++ ++ SGPGGQHRNKR+SAVRLKH PTG++AQA EDRSQHKNR
Sbjct: 83  PNYLKFTDDELMKQCRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNR 142

Query: 65  ASALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKF---- 120
           ASAL+RLRTLLA+KVR+ V+L+AY+PPP+L QILPPKSTIR+S  G QIGPNNPKF    
Sbjct: 143 ASALNRLRTLLAIKVRNKVDLEAYAPPPELLQILPPKSTIRTSS-GSQIGPNNPKFVPGM 201

Query: 121 -ALVLPYSLLLPFVINAAKIYGLKSGEI 147
            AL+   S     + ++AK+ GL +G +
Sbjct: 202 QALLDVISASDGSIADSAKLLGLSTGGL 229

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  191 bits (484), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 94/147 (63%), Positives = 115/147 (78%), Gaps = 5/147 (3%)

Query: 6   NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRA 65
           +YL ++D+EL  +C+M  +K+SGPGGQHRNKRESAVRLKH PTG+IAQA EDRSQHKNRA
Sbjct: 86  DYLGMSDEELMEQCDMGTFKASGPGGQHRNKRESAVRLKHLPTGIIAQAVEDRSQHKNRA 145

Query: 66  SALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLP 125
           SALSRLRTL+ALKVR  +NLD Y+PP +L QILP KST+R  +VGPQIGPNN KF+  + 
Sbjct: 146 SALSRLRTLIALKVRRPINLDDYTPPVELLQILPLKSTVRGKDVGPQIGPNNSKFSPGMQ 205

Query: 126 YSLLLPFVI-----NAAKIYGLKSGEI 147
             L L F +     +AAKI GL +G +
Sbjct: 206 ALLDLLFAVEGSISDAAKILGLSTGAL 232

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  189 bits (481), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 92/148 (62%), Positives = 119/148 (80%), Gaps = 6/148 (4%)

Query: 5   PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNR 64
           PNYL+ TD+EL ++C ++ ++ SGPGGQHRNKR+SAVRLKH PTG++AQA EDRSQHKNR
Sbjct: 84  PNYLKFTDEELMKQCRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNR 143

Query: 65  ASALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKF---- 120
           ASAL+RLRTLLA+KVR+ V+++AY+PPP+L QILPPKSTIR+S  G QIGPNNPKF    
Sbjct: 144 ASALNRLRTLLAIKVRNKVDIEAYAPPPELLQILPPKSTIRTSS-GSQIGPNNPKFVPGM 202

Query: 121 -ALVLPYSLLLPFVINAAKIYGLKSGEI 147
            AL+   S     + ++AK+ GL +G +
Sbjct: 203 QALLDVISASDGSIADSAKLLGLSTGGL 230

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326517198|dbj|BAJ99965.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  189 bits (481), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 93/143 (65%), Positives = 112/143 (78%), Gaps = 5/143 (3%)

Query: 10  LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALS 69
           +TDDEL  +C+M  +KSSGPGGQHRNKRESAVRL+H PTG++AQA EDRSQHKNR+SALS
Sbjct: 1   MTDDELMAQCDMGTFKSSGPGGQHRNKRESAVRLRHHPTGIVAQAVEDRSQHKNRSSALS 60

Query: 70  RLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLPYSLL 129
           RLRTL+ALKVR  +NLD Y+PP +L QILP KSTIRS +VG QIGPNNPKF+  +   L 
Sbjct: 61  RLRTLIALKVRRPINLDNYTPPVELLQILPLKSTIRSKDVGNQIGPNNPKFSPGMQALLD 120

Query: 130 LPFVI-----NAAKIYGLKSGEI 147
           L F +      AAK+ GL +G +
Sbjct: 121 LLFAVEGSVSEAAKVLGLSTGAL 143

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357126252|ref|XP_003564802.1| PREDICTED: uncharacterized protein LOC100830192 [Brachypodium distachyon]

 Score =  188 bits (478), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 93/147 (63%), Positives = 115/147 (78%), Gaps = 5/147 (3%)

Query: 6   NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRA 65
           +YL ++DDEL  +C+M  +KSSGPGGQHRNKRESAVRL+H PTG++AQA EDRSQHKNR+
Sbjct: 66  DYLGMSDDELMGQCDMGTFKSSGPGGQHRNKRESAVRLRHHPTGIVAQAVEDRSQHKNRS 125

Query: 66  SALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLP 125
           SALSRLRTL+ALKVR  +NL+ Y+PP +L QILP KSTIR+ +VG QIGPNNPKF+  + 
Sbjct: 126 SALSRLRTLIALKVRRPINLEDYTPPVELLQILPLKSTIRAKDVGNQIGPNNPKFSPGMQ 185

Query: 126 YSLLLPFVI-----NAAKIYGLKSGEI 147
             L L F +      AAKI GL +G +
Sbjct: 186 ALLDLLFAVEGSVSEAAKILGLSTGAL 212

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  188 bits (477), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 92/147 (62%), Positives = 115/147 (78%), Gaps = 5/147 (3%)

Query: 6   NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRA 65
           +YL ++D+EL  +C+M  +K+SGPGGQHRNKRESAVRLKH PTG+IAQA EDRSQHKNRA
Sbjct: 80  DYLGMSDEELMEQCDMGTFKASGPGGQHRNKRESAVRLKHLPTGIIAQAVEDRSQHKNRA 139

Query: 66  SALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLP 125
           SALSRLRTL+ALKVR  +NL+ Y+PP +L QILP KS++R  +VGPQIGPNN KF+  + 
Sbjct: 140 SALSRLRTLIALKVRRPINLEDYTPPVELLQILPLKSSVRGKDVGPQIGPNNSKFSPGMQ 199

Query: 126 YSLLLPFVI-----NAAKIYGLKSGEI 147
             L L F +     +AAKI GL +G +
Sbjct: 200 ALLDLLFAVEGSVSDAAKILGLSTGAL 226

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  186 bits (472), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 84/116 (72%), Positives = 104/116 (89%), Gaps = 1/116 (0%)

Query: 5   PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNR 64
           PNYL+ TD+EL ++C ++ ++ SGPGGQHRNKR+SAVRLKH PTG++AQA EDRSQHKNR
Sbjct: 84  PNYLKFTDEELMKQCRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNR 143

Query: 65  ASALSRLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKF 120
           ASAL+RLRTLLA+KVR+ V+++AY+PPP+L QILPPKSTIR+S  G QIGPNNPKF
Sbjct: 144 ASALNRLRTLLAIKVRNKVDIEAYAPPPELLQILPPKSTIRTSS-GSQIGPNNPKF 198

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125528646|gb|EAY76760.1| hypothetical protein OsI_04716 [Oryza sativa Indica Group]

 Score =  185 bits (469), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 91/143 (63%), Positives = 110/143 (76%), Gaps = 5/143 (3%)

Query: 10  LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALS 69
           ++DDEL  +CEM  +K+SGPGGQHRNKRESAVRL+H PTG+IAQA EDRSQH NRASALS
Sbjct: 77  MSDDELMGQCEMGTFKASGPGGQHRNKRESAVRLRHRPTGIIAQAVEDRSQHMNRASALS 136

Query: 70  RLRTLLALKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKFALVLPYSLL 129
           RLRTL+ALKVR  +NL+ Y+PP +L QILP KSTIR  ++GPQIGPNN KFA  +   L 
Sbjct: 137 RLRTLIALKVRKPINLEDYTPPVELLQILPLKSTIRGKDIGPQIGPNNSKFAPGMQALLD 196

Query: 130 LPFVI-----NAAKIYGLKSGEI 147
           L F +      AAK+ GL +G +
Sbjct: 197 LLFAVEGSVSEAAKLLGLSTGAV 219

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	149
TAIR|locus:2006897	257	AT1G33330 [Arabidopsis thalian	0.939	0.544	0.547	3.4e-38
UNIPROTKB|Q74EJ1	107	GSU0971 "Hydrolase, putative"	0.362	0.504	0.5	4.5e-11
TIGR_CMR|GSU_0971	107	GSU_0971 "peptidyl-tRNA hydrol	0.362	0.504	0.5	4.5e-11
TIGR_CMR|CJE_1628	365	CJE_1628 "peptide chain releas	0.369	0.150	0.542	7.8e-11
UNIPROTKB|P07012	365	prfB [Escherichia coli K-12 (t	0.382	0.156	0.508	1.3e-10
TIGR_CMR|CPS_3552	362	CPS_3552 "peptide chain releas	0.409	0.168	0.451	4.4e-10
TIGR_CMR|ECH_0705	366	ECH_0705 "peptide chain releas	0.409	0.166	0.467	5.9e-10
TIGR_CMR|GSU_3104	355	GSU_3104 "peptide chain releas	0.409	0.171	0.459	1.2e-09
TIGR_CMR|SO_3833	363	SO_3833 "peptide chain release	0.308	0.126	0.5	1.6e-09
TIGR_CMR|CBU_1965	361	CBU_1965 "peptide chain releas	0.308	0.127	0.5	2e-09

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

 Score = 409 (149.0 bits), Expect = 3.4e-38, P = 3.4e-38
 Identities = 80/146 (54%), Positives = 104/146 (71%)

Query:     5 PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNX 64
             PNYL+ TD+EL ++C ++ ++ SGPGGQHRNKR+SAVRLKH PTG++AQA EDRSQHKN 
Sbjct:    84 PNYLKFTDEELMKQCRLETFRVSGPGGQHRNKRDSAVRLKHLPTGIVAQAVEDRSQHKNR 143

Query:    65 XXXXXXXXXXXXXKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNPKF---- 120
                          KVR+ V+++AY+PPP+L QILPPKSTIR+S  G QIGPNNPKF    
Sbjct:   144 ASALNRLRTLLAIKVRNKVDIEAYAPPPELLQILPPKSTIRTSS-GSQIGPNNPKFVPGM 202

Query:   121 -ALVLPYSLLLPFVINAAKIYGLKSG 145
              AL+   S     + ++AK+ GL +G
Sbjct:   203 QALLDVISASDGSIADSAKLLGLSTG 228

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

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

GO:0009507 "chloroplast" evidence=IDA

GO:0006783 "heme biosynthetic process" evidence=RCA

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

 Score = 153 (58.9 bits), Expect = 4.5e-11, P = 4.5e-11
 Identities = 27/54 (50%), Positives = 41/54 (75%)

Query:    10 LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
             +T D    + +++ Y++SGPGGQHRN  +SAVR++H PTG++ QA+E RSQ +N
Sbjct:     1 MTVDIRDADIKVEYYRASGPGGQHRNTTDSAVRIRHLPTGIVVQASESRSQAQN 54

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 153 (58.9 bits), Expect = 4.5e-11, P = 4.5e-11
 Identities = 27/54 (50%), Positives = 41/54 (75%)

Query:    10 LTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
             +T D    + +++ Y++SGPGGQHRN  +SAVR++H PTG++ QA+E RSQ +N
Sbjct:     1 MTVDIRDADIKVEYYRASGPGGQHRNTTDSAVRIRHLPTGIVVQASESRSQAQN 54

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 157 (60.3 bits), Expect = 7.8e-11, P = 7.8e-11
 Identities = 32/59 (54%), Positives = 41/59 (69%)

Query:     9 ELTDD-ELF---RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
             EL DD E+    ++  +D Y++SG GGQH NK ESAVR+ H PTG++ Q   DRSQHKN
Sbjct:   224 ELDDDIEIEIEEKDIRIDYYRASGAGGQHVNKTESAVRITHFPTGIVVQCQNDRSQHKN 282

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

GO:0006415 "translational termination" evidence=ISS

UNIPROTKB|P07012 prfB [Escherichia coli K-12 (taxid:83333)]

 Score = 155 (59.6 bits), Expect = 1.3e-10, P = 1.3e-10
 Identities = 31/61 (50%), Positives = 41/61 (67%)

Query:     7 YLELTDD---ELF-RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHK 62
             Y E+ DD   E+   +  +D Y++SG GGQH N+ ESAVR+ H PTG++ Q   DRSQHK
Sbjct:   223 YPEVDDDIDIEINPADLRIDVYRTSGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHK 282

Query:    63 N 63
             N
Sbjct:   283 N 283

GO:0015858 "nucleoside transport" evidence=IMP

GO:0015864 "pyrimidine nucleoside transport" evidence=IMP

GO:0015862 "uridine transport" evidence=IMP

GO:0006412 "translation" evidence=IEA

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

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

GO:0005737 "cytoplasm" evidence=IEA

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

 Score = 150 (57.9 bits), Expect = 4.4e-10, P = 4.4e-10
 Identities = 28/62 (45%), Positives = 42/62 (67%)

Query:     3 VLPNYLELTDDELFR-ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQH 61
             V+P   E    E+ + + ++D +++SG GGQH NK +SA+R+ H PTGV+ +  E RSQH
Sbjct:   207 VMPEIPEADAIEINKADLKVDTFRASGAGGQHVNKTDSAIRITHIPTGVVVECQEQRSQH 266

Query:    62 KN 63
             KN
Sbjct:   267 KN 268

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

GO:0006415 "translational termination" evidence=ISS

TIGR_CMR|ECH_0705 ECH_0705 "peptide chain release factor 2, programmed frameshift" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 149 (57.5 bits), Expect = 5.9e-10, P = 5.9e-10
 Identities = 29/62 (46%), Positives = 42/62 (67%)

Query:     3 VLPNYLELTDDELF-RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQH 61
             V P   E T+ E+  ++  +D Y++SG GGQH NK ESAVR+ H P+G++ Q   +RSQH
Sbjct:   222 VSPVINEDTNIEILDKDLRIDTYRASGAGGQHVNKTESAVRITHIPSGIVVQCQNNRSQH 281

Query:    62 KN 63
             +N
Sbjct:   282 QN 283

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

GO:0006415 "translational termination" evidence=ISS

TIGR_CMR|GSU_3104 GSU_3104 "peptide chain release factor 1" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 146 (56.5 bits), Expect = 1.2e-09, P = 1.2e-09
 Identities = 28/61 (45%), Positives = 41/61 (67%)

Query:     3 VLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHK 62
             VLP   ++  D    + ++D Y++SG GGQH NK ESAVR+ H PTG++ +  ++RSQ K
Sbjct:   201 VLPEAEDIEVDINPADLKIDVYRASGAGGQHVNKTESAVRITHIPTGIVVECQDERSQIK 260

Query:    63 N 63
             N
Sbjct:   261 N 261

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

GO:0006415 "translational termination" evidence=ISS

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

 Score = 145 (56.1 bits), Expect = 1.6e-09, P = 1.6e-09
 Identities = 23/46 (50%), Positives = 35/46 (76%)

Query:    18 ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
             + ++D ++SSG GGQH NK +SA+R+ H PTG++ +  + RSQHKN
Sbjct:   223 DLKVDTFRSSGAGGQHVNKTDSAIRITHIPTGIVVECQDQRSQHKN 268

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

GO:0006415 "translational termination" evidence=ISS

TIGR_CMR|CBU_1965 CBU_1965 "peptide chain release factor 1" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 144 (55.7 bits), Expect = 2.0e-09, P = 2.0e-09
 Identities = 23/46 (50%), Positives = 35/46 (76%)

Query:    18 ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
             E  +D +++SG GGQH N+ +SA+R+ H PTGV+ +  ++RSQHKN
Sbjct:   223 ELRIDTFRASGAGGQHVNRTDSAIRITHLPTGVVVECQDERSQHKN 268

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

GO:0006415 "translational termination" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	149
pfam00472	114	pfam00472, RF-1, RF-1 domain	1e-25
PRK00578	367	PRK00578, prfB, peptide chain release factor 2; Va	4e-21
PRK00591	359	PRK00591, prfA, peptide chain release factor 1; Va	5e-21
COG0216	363	COG0216, PrfA, Protein chain release factor A [Tra	5e-20
PRK05589	325	PRK05589, PRK05589, peptide chain release factor 2	1e-19
COG1186	239	COG1186, PrfB, Protein chain release factor B [Tra	1e-18
TIGR00020	364	TIGR00020, prfB, peptide chain release factor 2	2e-18
PRK07342	339	PRK07342, PRK07342, peptide chain release factor 2	2e-18
TIGR00019	360	TIGR00019, prfA, peptide chain release factor 1	7e-18
TIGR03072	200	TIGR03072, release_prfH, putative peptide chain re	3e-14
PRK08787	313	PRK08787, PRK08787, peptide chain release factor 2	9e-14
PRK08179	200	PRK08179, prfH, peptide chain release factor-like	4e-13
PRK06746	326	PRK06746, PRK06746, peptide chain release factor 2	6e-11
PRK09256	138	PRK09256, PRK09256, hypothetical protein; Provisio	4e-08

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

 Score = 93.8 bits (234), Expect = 1e-25
 Identities = 33/59 (55%), Positives = 43/59 (72%)

Query: 18 ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLA 76
          +  +D ++SSGPGGQ+ NK ESAVRL H PTG++ +  E+RSQHKNR  AL RL+  L 
Sbjct: 14 DLRIDTFRSSGPGGQNVNKTESAVRLTHLPTGIVVKCQEERSQHKNREKALERLKAKLY 72

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

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

 Score = 86.9 bits (216), Expect = 4e-21
 Identities = 33/72 (45%), Positives = 48/72 (66%), Gaps = 5/72 (6%)

Query: 8   LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASA 67
           +E+   +L     +D Y+SSG GGQH NK +SAVR+ H PTG++ Q   +RSQH+N+ASA
Sbjct: 230 IEINPKDL----RIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASA 285

Query: 68  LSRLRT-LLALK 78
           +  L+  L  L+
Sbjct: 286 MKMLKAKLYELE 297

Length = 367

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

 Score = 86.7 bits (216), Expect = 5e-21
 Identities = 28/62 (45%), Positives = 42/62 (67%), Gaps = 1/62 (1%)

Query: 20  EMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRT-LLALK 78
            +D ++SSG GGQH N  +SAVR+ H PTG++ +  ++RSQHKN+A A+  LR  L   +
Sbjct: 224 RIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAE 283

Query: 79  VR 80
            +
Sbjct: 284 RQ 285

Length = 359

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

 Score = 83.8 bits (208), Expect = 5e-20
 Identities = 32/76 (42%), Positives = 48/76 (63%), Gaps = 3/76 (3%)

Query: 3   VLPNYLELTDDELFRECE--MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQ 60
           VLP  +E  ++      +  +D ++SSG GGQH N  +SAVR+ H PTG++ +  ++RSQ
Sbjct: 208 VLPE-VEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQ 266

Query: 61  HKNRASALSRLRTLLA 76
           HKN+A A+  LR  L 
Sbjct: 267 HKNKAKAMKVLRARLY 282

Length = 363

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

 Score = 82.5 bits (204), Expect = 1e-19
 Identities = 38/86 (44%), Positives = 56/86 (65%), Gaps = 8/86 (9%)

Query: 1   MNVLPNYLELTDDELFR----ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAE 56
           + VLP   ELTDD+       + ++D Y++ G GGQH NK ESAVR+ H PTG++ Q   
Sbjct: 179 VEVLP---ELTDDQDIEIRSEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQN 235

Query: 57  DRSQHKNRASALSRLRT-LLALKVRS 81
           +RSQH N+ +A+  L++ L+ LK R+
Sbjct: 236 ERSQHSNKETAMKMLKSKLVELKERA 261

Length = 325

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

 Score = 78.8 bits (195), Expect = 1e-18
 Identities = 33/77 (42%), Positives = 46/77 (59%), Gaps = 9/77 (11%)

Query: 1   MNVLP-----NYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAA 55
           + V P       +E+ DD+L     +D Y++SG GGQH NK +SAVRL H PTG++    
Sbjct: 93  VEVFPELDISIEIEIPDDDL----RIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQ 148

Query: 56  EDRSQHKNRASALSRLR 72
            +RSQH N+A A   L+
Sbjct: 149 NERSQHLNKALARKMLK 165

Length = 239

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

 Score = 79.4 bits (196), Expect = 2e-18
 Identities = 30/54 (55%), Positives = 39/54 (72%)

Query: 22  DAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           D Y++SG GGQH NK +SAVR+ H PTG++ Q   DRSQHKN+ SA+  L+  L
Sbjct: 240 DTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKL 293

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|235997 PRK07342, PRK07342, peptide chain release factor 2; Provisional

 Score = 79.5 bits (196), Expect = 2e-18
 Identities = 32/58 (55%), Positives = 41/58 (70%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           +  +D Y+SSG GGQH N  +SAVR+ H PTG++ Q  ++RSQHKNRA A S LR  L
Sbjct: 200 DVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARL 257

Length = 339

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

 Score = 78.2 bits (193), Expect = 7e-18
 Identities = 27/58 (46%), Positives = 40/58 (68%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           +  +D ++SSG GGQH N  +SAVR+ H PTG++ +  ++RSQHKN+  A+  LR  L
Sbjct: 222 DLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVLRARL 279

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|213768 TIGR03072, release_prfH, putative peptide chain release factor H

 Score = 66.3 bits (162), Expect = 3e-14
 Identities = 30/74 (40%), Positives = 40/74 (54%), Gaps = 6/74 (8%)

Query: 9   ELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASAL 68
           E T+DE+  E      +SSGPGGQH NK ESAVR  H  +G+  +   +RSQH N+   L
Sbjct: 102 EATEDEIRFE----TLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANK--RL 155

Query: 69  SRLRTLLALKVRSS 82
           + L   + L     
Sbjct: 156 ATLLLAVRLADLQQ 169

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|136970 PRK08787, PRK08787, peptide chain release factor 2; Provisional

 Score = 66.2 bits (161), Expect = 9e-14
 Identities = 27/50 (54%), Positives = 33/50 (66%)

Query: 22  DAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRL 71
           D Y+SSG GGQH NK ESAVR+ H PT  +      RSQH+NR +A+  L
Sbjct: 181 DVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKML 230

Length = 313

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

 Score = 63.5 bits (155), Expect = 4e-13
 Identities = 24/60 (40%), Positives = 33/60 (55%)

Query: 17  RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLA 76
            E   +  +SSGPGGQH NK +SAVR  H  +G+  +   +RSQH N+  A   +   L 
Sbjct: 107 DEIRFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLE 166

Length = 200

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

 Score = 58.6 bits (141), Expect = 6e-11
 Identities = 30/77 (38%), Positives = 45/77 (58%), Gaps = 1/77 (1%)

Query: 3   VLPNYLELTDDELFRE-CEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQH 61
           V+P + +  + E+  E  ++D Y++SG GGQH N  +SAVR+ H PT  +     +RSQ 
Sbjct: 182 VVPEFNDEVEIEVRTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQI 241

Query: 62  KNRASALSRLRTLLALK 78
           KNR  A+  L+  L  K
Sbjct: 242 KNREHAMKMLKAKLYQK 258

Length = 326

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

 Score = 48.6 bits (117), Expect = 4e-08
 Identities = 31/93 (33%), Positives = 41/93 (44%), Gaps = 28/93 (30%)

Query: 8  LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRL------------------KHA--- 46
          L + ++EL    E    ++SGPGGQ+ NK  +AV L                    A   
Sbjct: 8  LVIPENEL----EWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHR 63

Query: 47 --PTGVIA-QAAEDRSQHKNRASALSRLRTLLA 76
              GVI  +A E RSQ +NR  AL RL  L+ 
Sbjct: 64 ITKDGVIVIKAQEFRSQERNREDALERLVALIR 96

Length = 138

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	149
COG0216	363	PrfA Protein chain release factor A [Translation,	100.0
TIGR00019	360	prfA peptide chain release factor 1. This model de	100.0
KOG2726	386	consensus Mitochondrial polypeptide chain release	100.0
PRK00591	359	prfA peptide chain release factor 1; Validated	100.0
PF00472	113	RF-1: RF-1 domain; InterPro: IPR000352 Peptide cha	100.0
TIGR03072	200	release_prfH putative peptide chain release factor	99.98
PRK05589	325	peptide chain release factor 2; Provisional	99.98
PRK08787	313	peptide chain release factor 2; Provisional	99.98
PRK08179	200	prfH peptide chain release factor-like protein; Re	99.97
PRK06746	326	peptide chain release factor 2; Provisional	99.97
PRK07342	339	peptide chain release factor 2; Provisional	99.97
PRK00578	367	prfB peptide chain release factor 2; Validated	99.97
TIGR00020	364	prfB peptide chain release factor 2. In many but n	99.97
COG1186	239	PrfB Protein chain release factor B [Translation,	99.94
PRK09256	138	hypothetical protein; Provisional	99.93
KOG3429	172	consensus Predicted peptidyl-tRNA hydrolase [Trans	99.79

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

Probab=100.00  E-value=8.4e-43  Score=298.76  Aligned_cols=132  Identities=30%  Similarity=0.383  Sum_probs=112.8

Q ss_pred             cCCCCCCC-ChhhhhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHh
Q 038082            3 VLPNYLEL-TDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRS   81 (149)
Q Consensus         3 ~~~~~~~i-~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~   81 (149)
                      +||..-.+ ..+.-++|++|++|||||+||||||+|+|||||||+||||+|+||++|||++||++||+.|+++|....++
T Consensus       208 VlPE~ee~~ei~I~~~DlrIDt~RsSGaGGQhVNtTdSAVRiTHlPTGIvV~cQderSQ~kNk~kAmkvL~ARl~~~~~~  287 (363)
T COG0216         208 VLPEVEEVEEIEINPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQ  287 (363)
T ss_pred             eccCCCcccccccChHHceeeeeecCCCCCCCcCccchhheeeecCCceEEEecchhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            45554333 22333667799999999999999999999999999999999999999999999999999999988766555


Q ss_pred             hcccCCCCCCccccccCCCCCccccCCCCCCCCCCCh------------------hhhh-h-HHHhhchhhHHHHHHHhC
Q 038082           82 SVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNP------------------KFAL-V-LPYSLLLPFVINAAKIYG  141 (149)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~rksqir~~~r~~kIrtyn~------------------~f~~-g-L~~llD~L~~~~aA~~L~  141 (149)
                      +.+.         ..+..||+|+++||||++||||||                  .||. | ||+++|+|+..++|++|.
T Consensus       288 ~~~~---------~~~~~RksqVGSGDRSErIRTYNfPQnRVTDHRI~lTl~kLd~vm~gG~LDeii~aLi~~~q~~~L~  358 (363)
T COG0216         288 KAQA---------EEASERKSQVGSGDRSERIRTYNFPQNRVTDHRINLTLYKLDEVMEGGKLDEIIDALIAEDQAEQLA  358 (363)
T ss_pred             HHHH---------HHHHHHHHhcCCCchhhhhhccCCCCCcccchhcccccccHHHHhccCcHHHHHHHHHHHHHHHHHH
Confidence            5432         245689999999999999999994                  8999 5 999999999999999997


Q ss_pred             CC
Q 038082          142 LK  143 (149)
Q Consensus       142 ~s  143 (149)
                      ..
T Consensus       359 ~l  360 (363)
T COG0216         359 EL  360 (363)
T ss_pred             Hh
Confidence            54

>TIGR00019 prfA peptide chain release factor 1

Probab=100.00  E-value=1.6e-34  Score=250.19  Aligned_cols=118  Identities=30%  Similarity=0.382  Sum_probs=103.0

Q ss_pred             hhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCccc
Q 038082           15 LFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQL   94 (149)
Q Consensus        15 l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~   94 (149)
                      -++||+|+|+|||||||||||||+|||||+|+||||+|.|+++|||++||+.||++|+++|.....++...+        
T Consensus       219 ~~~dl~~~~~RssG~GGQ~VNkt~SaVrl~h~ptgi~V~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~~~~~~~--------  290 (360)
T TIGR00019       219 NPADLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKDKAMKVLRARLYEAEQEKQQAA--------  290 (360)
T ss_pred             CcccEEEEEEECCCCCCCCcCceeeeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Confidence            356779999999999999999999999999999999999999999999999999999998876555432221        


Q ss_pred             cccCCCCCccccCCCCCCCCCCCh------------------hhhhh-HHHhhchhhHHHHHHHhC
Q 038082           95 HQILPPKSTIRSSEVGPQIGPNNP------------------KFALV-LPYSLLLPFVINAAKIYG  141 (149)
Q Consensus        95 ~~~~~rksqir~~~r~~kIrtyn~------------------~f~~g-L~~llD~L~~~~aA~~L~  141 (149)
                       ....|++++++++||++|||||+                  .||+| |++++|.+..++..+.|.
T Consensus       291 -~~~~r~~~~~~~~Rs~~IRtY~~~~~rV~DhRtg~~~~~l~~vl~G~Ld~~I~~~l~~~~~~~l~  355 (360)
T TIGR00019       291 -QASTRKSQVGSGDRSERIRTYNFPQNRVTDHRINLTLYKLDEVLEGDLDELIEALIAEDQAQQLA  355 (360)
T ss_pred             -HHHHHhhhcceecccCCeEEEECCCCeeeeeccCCeEcChHHHhCCchHHHHHHHHHHHHHHHHH
Confidence             33467999999999999999994                  89999 999999999888777764

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.

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

Probab=100.00  E-value=1.8e-34  Score=250.57  Aligned_cols=111  Identities=37%  Similarity=0.512  Sum_probs=98.7

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++||+|+|+|+|||||||||||+|||+|+|+||||+|+|+++|||++||+.|+.+|+++|+...+++...+.        
T Consensus       247 ~~dl~i~~~R~~G~GGQhvNktdsaVrl~HiPTGIvv~cq~eRSq~~Nr~~A~~~L~akL~~~~~~~~~~~~--------  318 (386)
T KOG2726|consen  247 EKDLRIETFRASGPGGQHVNKTDSAVRLTHIPTGIVVECQEERSQHKNRALALKRLRAKLAVIYREEKSEEE--------  318 (386)
T ss_pred             chheeEEecccCCCCcccccccccceEEEeecCceEEEeecHHhHHhhHHHHHHHHHHHHHHHHHhhhhHHh--------
Confidence            777799999999999999999999999999999999999999999999999999999999887776655433        


Q ss_pred             ccCCCCCccccCCCCCCCCCCCh------------------hhhhh-HHHhhchhhHHH
Q 038082           96 QILPPKSTIRSSEVGPQIGPNNP------------------KFALV-LPYSLLLPFVIN  135 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn~------------------~f~~g-L~~llD~L~~~~  135 (149)
                       ...|+.++++++|+++||||||                  .|+.| |+++|..+....
T Consensus       319 -~~~r~~qv~s~~rsekiRTy~~~q~rv~D~r~~~~~~d~~~~l~G~Ld~li~~~~~~~  376 (386)
T KOG2726|consen  319 -KKKRKAQVGSLKRSEKIRTYNFKQDRVTDHRIGLESHDLESFLDGNLDELIEALLSLR  376 (386)
T ss_pred             -hhhhHHhhcccCchhceeecccCccchhhhhhcccccchHHHHhccHHHHHHHHHHHh
Confidence             3468999999999999999995                  78888 888888887333

>PRK00591 prfA peptide chain release factor 1; Validated

Probab=100.00  E-value=4.6e-34  Score=247.34  Aligned_cols=119  Identities=30%  Similarity=0.403  Sum_probs=103.5

Q ss_pred             hhhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcc
Q 038082           14 ELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQ   93 (149)
Q Consensus        14 ~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~   93 (149)
                      .-++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++...+       
T Consensus       218 i~~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptGi~v~~~~eRSQ~~Nk~~Al~~L~~~L~~~~~~~~~~~-------  290 (359)
T PRK00591        218 INPKDLRIDTFRSSGAGGQHVNTTDSAVRITHLPTGIVVECQDERSQHKNKAKAMKVLRARLYDAERQKAQAE-------  290 (359)
T ss_pred             cCcccEEEEEEECCCCCCCCccceeeeEEEEECCCcEEEEECCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            3356779999999999999999999999999999999999999999999999999999998876555554431       


Q ss_pred             ccccCCCCCccccCCCCCCCCCCCh------------------hhhhh-HHHhhchhhHHHHHHHhC
Q 038082           94 LHQILPPKSTIRSSEVGPQIGPNNP------------------KFALV-LPYSLLLPFVINAAKIYG  141 (149)
Q Consensus        94 ~~~~~~rksqir~~~r~~kIrtyn~------------------~f~~g-L~~llD~L~~~~aA~~L~  141 (149)
                        ....|++++.+++||++||||||                  .||+| |+++|+.+..++..+.|.
T Consensus       291 --~~~~r~~~~~~~~Rse~IRtY~f~~~~V~DhRtg~~~~~l~~vl~G~Ld~fI~~~l~~~~~~~l~  355 (359)
T PRK00591        291 --EAATRKSQVGSGDRSERIRTYNFPQGRVTDHRINLTLYKLDEVMEGDLDELIDALIAEDQAEKLA  355 (359)
T ss_pred             --HHHHHHhhcccccccCCeeeEECCCCeeeeeccCCEEcChHHHhCCChHHHHHHHHHHHHHHHHH
Confidence              23367899999999999999994                  89999 999999999777777664

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

Probab=100.00  E-value=3.6e-33  Score=207.00  Aligned_cols=101  Identities=37%  Similarity=0.525  Sum_probs=86.2

Q ss_pred             CCCCCCChhhhhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcc
Q 038082            5 PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVN   84 (149)
Q Consensus         5 ~~~~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~   84 (149)
                      +..+.|++++|    +|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||+.|++.|+++|+++|.....++..
T Consensus         4 ~~~~~i~~~dl----~~~~~RssGpGGQ~VNk~~s~V~l~h~ptgi~v~~~~~Rsq~~Nr~~A~~~L~~~l~~~~~~~~~   79 (113)
T PF00472_consen    4 EKEIDIPEKDL----EISFSRSSGPGGQNVNKTNSKVRLRHIPTGIVVKCQESRSQHQNREDALEKLREKLDEAYREKRR   79 (113)
T ss_dssp             SSSSCC-GGGE----EEEEEESSSSSSCHHHSSSEEEEEEETTTTEEEEEESSSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccCHHHe----EEEEEecCCCCCCcccccCCEEEEEEecccEEEEEcccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44567776666    99999999999999999999999999999999999999999999999999999999876644433


Q ss_pred             cCCCCCCccccccCCCCCccccCCCCCCCCCCCh
Q 038082           85 LDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNP  118 (149)
Q Consensus        85 ~~~~~~~~~~~~~~~rksqir~~~r~~kIrtyn~  118 (149)
                      ..         ....++++.+..+++++||+||+
T Consensus        80 ~~---------~~~~~~~~~~~~~~~~~iR~y~~  104 (113)
T PF00472_consen   80 EK---------TREIRKSQVKRLERKKKIRTYNF  104 (113)
T ss_dssp             HH---------TTTTTTTSCCCSSTTSEEEEEET
T ss_pred             HH---------HHHHHHHHHhHHhhhcceecccC
Confidence            21         23467888888899999999997

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 ....

>TIGR03072 release_prfH putative peptide chain release factor H

Probab=99.98  E-value=2.9e-33  Score=226.10  Aligned_cols=101  Identities=31%  Similarity=0.362  Sum_probs=85.5

Q ss_pred             CCCCCCCChhhhhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhc
Q 038082            4 LPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV   83 (149)
Q Consensus         4 ~~~~~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~   83 (149)
                      +|..+.|++    +||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.
T Consensus        97 ~~~~~~i~~----~dl~~~~~RssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~l~~~~~~~~  172 (200)
T TIGR03072        97 FSASEEATE----DEIRFETLRSSGPGGQHVNKTESAVRATHLASGISVKVQSERSQHANKRLATLLLAVRLADLQQEQA  172 (200)
T ss_pred             ecCccccCh----hheEEEEEECCCCCcccccccceeEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444544    4559999999999999999999999999999999999999999999999999999999876655554


Q ss_pred             ccCCCCCCccccccCCCCCccccCCCCCCCCCCCh
Q 038082           84 NLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNNP  118 (149)
Q Consensus        84 ~~~~~~~~~~~~~~~~rksqir~~~r~~kIrtyn~  118 (149)
                      +.          ....++++..+.+||++|||||.
T Consensus       173 ~~----------~~~~~r~~~~~~~Rg~~iRty~~  197 (200)
T TIGR03072       173 AA----------LRAERRTAHHQIERGNPVRVFKG  197 (200)
T ss_pred             HH----------HHHHHHhccccccccCceEeeeC
Confidence            43          33467788888899999999993

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.

>PRK05589 peptide chain release factor 2; Provisional

Probab=99.98  E-value=7.2e-33  Score=237.26  Aligned_cols=107  Identities=29%  Similarity=0.411  Sum_probs=87.8

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++|++|+|+|||||||||||||+|||||+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.          
T Consensus       195 ~~dl~~~~~rssG~GGQ~VNkt~saVrl~H~ptgi~v~~q~eRSQ~~Nk~~A~~~L~~kL~~~~~~~~~~----------  264 (325)
T PRK05589        195 SEDLKIDTYRAGGAGGQHVNKTESAVRITHIPTGIVVQCQNERSQHSNKETAMKMLKSKLVELKERAHKE----------  264 (325)
T ss_pred             chheEEEEeeCCCCCCCcccceeeEEEEEECCCCEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHHHH----------
Confidence            4566999999999999999999999999999999999999999999999999999999887554333322          


Q ss_pred             ccCCCCCccccCCCCCCCCCCCh-------------------hhhhh-HHHhhchhh
Q 038082           96 QILPPKSTIRSSEVGPQIGPNNP-------------------KFALV-LPYSLLLPF  132 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn~-------------------~f~~g-L~~llD~L~  132 (149)
                      +...++++.....||++|||||+                   .||+| |+++||.+.
T Consensus       265 ~~~~~r~~~~~~~~g~~IRtY~~~p~~rVtDhR~g~~~~~l~~vl~G~Ld~~I~a~l  321 (325)
T PRK05589        265 KIEDLTGELKDMGWGSQIRSYVFHPYNLVKDHRTGVETSNVDSVMDGDIDNFITQYL  321 (325)
T ss_pred             HHHHHhcccccccccCCceeeECCCCceeeeeccCceecChHHhhCCCHHHHHHHHH
Confidence            11123344445568889999995                   78899 998888875

>PRK08787 peptide chain release factor 2; Provisional

Probab=99.98  E-value=1.1e-32  Score=234.89  Aligned_cols=112  Identities=34%  Similarity=0.350  Sum_probs=90.4

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++||+|+|+|||||||||||||+|||+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.+..       
T Consensus       175 ~~dl~~~~~RssG~GGQ~VNkt~saVri~H~Ptgi~v~~q~eRSQ~~Nk~~A~~~L~~~L~~~~~e~~~~~~~-------  247 (313)
T PRK08787        175 PADLRTDVYRSSGAGGQHVNKTESAVRITHIPTNTVVACQTGRSQHQNRDNAMKMLAAKLYELEVQKRNAEKD-------  247 (313)
T ss_pred             hhHeEEEEEECCCCCCCCcCCEeeEEEEEECCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            4566999999999999999999999999999999999999999999999999999999886654444332110       


Q ss_pred             ccCCCCCccccCCCCCCCCCCCh------------------hhhhh-HHHhhchhhHHHHH
Q 038082           96 QILPPKSTIRSSEVGPQIGPNNP------------------KFALV-LPYSLLLPFVINAA  137 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn~------------------~f~~g-L~~llD~L~~~~aA  137 (149)
                      ....+|++++   ||+|||||||                  .||+| |+++|+.+..+..|
T Consensus       248 ~~~~~k~~i~---~g~qIRtY~f~~~~V~DhRtg~~~~~l~~vldG~ld~fI~a~l~~~~~  305 (313)
T PRK08787        248 ALEATKSDIG---WGSQIRNYVLDQSRIKDLRTGIERSDTQKVLDGDLDEFVEASLKAGLA  305 (313)
T ss_pred             HHhhhhhhCc---ccccccceeCCCCcceeeccCceEcChhHhhCCChHHHHHHHHHHHHh
Confidence            1112355554   6679999994                  89999 99999998855443

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

Probab=99.97  E-value=1.9e-32  Score=221.35  Aligned_cols=100  Identities=28%  Similarity=0.325  Sum_probs=85.3

Q ss_pred             CCCCCCCChhhhhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhc
Q 038082            4 LPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSV   83 (149)
Q Consensus         4 ~~~~~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~   83 (149)
                      +|..+.|++++|    +|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.
T Consensus        98 ~~~~~~i~~~dl----~~~~~RssGpGGQ~VNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~~L~~~~~~~~  173 (200)
T PRK08179         98 FSADEEEQSDEI----RFETLRSSGPGGQHVNKTDSAVRATHLASGISVKVQSERSQHANKRLARLLIAWKLEQQQQEQS  173 (200)
T ss_pred             eCCcCccCHHHe----EEEEEEccCCcccccccccceEEEEEcCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566665555    9999999999999999999999999999999999999999999999999999999876555554


Q ss_pred             ccCCCCCCccccccCCCCCccccCCCCCCCCCCC
Q 038082           84 NLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNN  117 (149)
Q Consensus        84 ~~~~~~~~~~~~~~~~rksqir~~~r~~kIrtyn  117 (149)
                      +.          ....++++..+.+||++||||-
T Consensus       174 ~~----------~~~~~~~~~~~~~Rg~~IRt~~  197 (200)
T PRK08179        174 AA----------LKSQRRMFHHQIERGNPRRVFT  197 (200)
T ss_pred             HH----------HHHHHHhccccccccCceEeee
Confidence            43          3345777788889999999984

>PRK06746 peptide chain release factor 2; Provisional

Probab=99.97  E-value=2.5e-32  Score=233.88  Aligned_cols=108  Identities=27%  Similarity=0.283  Sum_probs=90.9

Q ss_pred             hhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCccc
Q 038082           15 LFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQL   94 (149)
Q Consensus        15 l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~   94 (149)
                      -++||+|+|+|||||||||||||+|||+|+|+||||+|+|+++|||++||+.|+++|+++|.....++...+        
T Consensus       195 ~~~dl~~~~~rssG~GGQ~vNkt~saVrl~h~ptgi~v~~q~~RSQ~~Nk~~A~~~L~akL~~~~~~~~~~~--------  266 (326)
T PRK06746        195 RTEDLKIDTYRASGAGGQHVNTTDSAVRITHTPTNTVVTCQSERSQIKNREHAMKMLKAKLYQKKLEEQQAE--------  266 (326)
T ss_pred             ChHHeEEEEEeCCCCCCCCccceeeEEEEEEeCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Confidence            355669999999999999999999999999999999999999999999999999999998866554443321        


Q ss_pred             cccCCCCCccccCCCCCCCCCCCh-------------------hhhhh-HHHhhchhh
Q 038082           95 HQILPPKSTIRSSEVGPQIGPNNP-------------------KFALV-LPYSLLLPF  132 (149)
Q Consensus        95 ~~~~~rksqir~~~r~~kIrtyn~-------------------~f~~g-L~~llD~L~  132 (149)
                       ....|++++.. .|+++|||||+                   .||+| |+++|+.+.
T Consensus       267 -~~~~r~~~~~~-~rg~~IRtYnf~p~~rVtDhR~~~~~~~l~~vl~G~ld~~I~~~~  322 (326)
T PRK06746        267 -LDEIRGEQKEI-GWGSQIRSYVFHPYSLVKDHRTNTEVGNVQAVMDGEIDPFIDAYL  322 (326)
T ss_pred             -HHHHHhhhccC-ccCCCeEEEECCCCceeeeeecCceecChHHhhCCCHHHHHHHHH
Confidence             23457777766 47789999995                   78888 888888775

>PRK07342 peptide chain release factor 2; Provisional

Probab=99.97  E-value=5e-32  Score=233.09  Aligned_cols=109  Identities=35%  Similarity=0.413  Sum_probs=89.5

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++||+|+|+|||||||||||||+|||||+|+||||+|+|+++|||++||+.|+++|+++|.....++...+..       
T Consensus       198 ~~dl~~~~~RssG~GGQ~VNkt~saVrl~H~ptgi~v~~~~eRSQ~~Nk~~A~~~L~~~L~~~~~~~~~~~~~-------  270 (339)
T PRK07342        198 ESDVRIDTYRSSGAGGQHVNTTDSAVRITHIPTGIVVQCQQERSQHKNRAKAWSMLRARLYEEELKKREEATN-------  270 (339)
T ss_pred             cccEEEEEEECCCCCCCCccceeeeEEEEEcCCcEEEEECCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            5677999999999999999999999999999999999999999999999999999999887555444432111       


Q ss_pred             ccCCCCCccccCCCCCCCCCCCh-------------------hhhhh-HHHhhchhhHH
Q 038082           96 QILPPKSTIRSSEVGPQIGPNNP-------------------KFALV-LPYSLLLPFVI  134 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn~-------------------~f~~g-L~~llD~L~~~  134 (149)
                      ....++++++   ||++|||||+                   .||+| |+++||.+..+
T Consensus       271 ~~~~~~~~i~---~g~~IRtY~~~p~~rVtDhRtg~~~~~l~~vl~G~Ld~~I~a~l~~  326 (339)
T PRK07342        271 AAAASKTDIG---WGHQIRSYVLQPYQLVKDLRTGVESTNPQDVLDGDLNEFMEAALAH  326 (339)
T ss_pred             HHHhhhhhcc---ccCCcCCccCCCCceeeeeccCceecChHHhhCCCHHHHHHHHHHH
Confidence            1123466665   5569999994                   89999 99999988743

>PRK00578 prfB peptide chain release factor 2; Validated

Probab=99.97  E-value=6.1e-32  Score=234.67  Aligned_cols=113  Identities=31%  Similarity=0.367  Sum_probs=93.4

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.+         
T Consensus       234 ~~dl~~~~~rssGpGGQ~vNkt~saVrl~h~ptgi~v~~~~~RSQ~~Nk~~A~~~L~~kL~~~~~~~~~~~---------  304 (367)
T PRK00578        234 PKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPTGIVVQCQNERSQHQNKASAMKMLKAKLYELELEKRAAE---------  304 (367)
T ss_pred             hhhEEEEEeeCCCCCCCcccceeeEEEEEECCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence            45669999999999999999999999999999999999999999999999999999998876555554331         


Q ss_pred             ccCCCCCccccCCCCCCCCCCCh-------------------hhhhh-HHHhhchhhHHHHHH
Q 038082           96 QILPPKSTIRSSEVGPQIGPNNP-------------------KFALV-LPYSLLLPFVINAAK  138 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn~-------------------~f~~g-L~~llD~L~~~~aA~  138 (149)
                      ....|+.+ ...+||++|||||+                   .||+| |++++|.+..+.+++
T Consensus       305 ~~~~r~~~-~~~~rg~~IRtYn~~p~~rVtDhR~g~~~~~l~~vl~G~ld~~I~~l~~~~~~~  366 (367)
T PRK00578        305 KDALKGEK-KEIGWGSQIRSYVLHPYQMVKDLRTGYETGNTQAVLDGDLDGFIEAYLRWRASQ  366 (367)
T ss_pred             HHHHHhhh-ccccccCCeEEEECCCCceeeeeccCceecCHHHhhCCChHHHHHHHHHHHhcc
Confidence            11233334 45568889999995                   89999 999999998766553

>TIGR00020 prfB peptide chain release factor 2

Probab=99.97  E-value=6.3e-32  Score=234.41  Aligned_cols=109  Identities=30%  Similarity=0.356  Sum_probs=89.2

Q ss_pred             hhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCccc
Q 038082           15 LFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQL   94 (149)
Q Consensus        15 l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~   94 (149)
                      .++|++|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.+        
T Consensus       233 ~~~d~~~~~~rssG~GGQ~VNkt~saVri~H~ptgi~v~~q~~RSQ~~Nk~~A~~~L~~kL~~~~~~~~~~~--------  304 (364)
T TIGR00020       233 KPEDLRIDTYRASGAGGQHVNKTDSAVRITHIPTGIVVQCQNDRSQHKNKDSAMKVLKAKLYELEMEKEQAE--------  304 (364)
T ss_pred             ccccEEEEEeeCCCCCCccccccceEEEEEECCCcEEEEECCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Confidence            356779999999999999999999999999999999999999999999999999999998876555444321        


Q ss_pred             cccCCCCCccccCCCCCCCCCCCh-------------------hhhhh-HHHhhchhhH
Q 038082           95 HQILPPKSTIRSSEVGPQIGPNNP-------------------KFALV-LPYSLLLPFV  133 (149)
Q Consensus        95 ~~~~~rksqir~~~r~~kIrtyn~-------------------~f~~g-L~~llD~L~~  133 (149)
                       ....|+++... +||++|||||+                   .||+| |+++||.+..
T Consensus       305 -~~~~r~~~~~~-~rg~~IRtY~~~~~~rVtDhR~g~~~~~l~~vl~G~Ld~~I~a~~~  361 (364)
T TIGR00020       305 -KDAKEGEKSEI-GWGSQIRSYVLHPYSMVKDLRTGYETGNVQAVLDGDIDQFIEAYLK  361 (364)
T ss_pred             -HHHHHhhhhcc-CccCCeEEEECCCCCcccccccCCeecChHHHhCCChHHHHHHHHh
Confidence             11234333333 68889999995                   78999 9998888763

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.

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

Probab=99.94  E-value=7.6e-28  Score=198.72  Aligned_cols=63  Identities=44%  Similarity=0.670  Sum_probs=58.6

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHH
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALK   78 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~   78 (149)
                      +.|++|+|+|||||||||||||+|||+|||+||||+|.|+.+|||++|++.|+..|+..|...
T Consensus       109 ~~dl~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a~~~l~~kL~~~  171 (239)
T COG1186         109 DDDLRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALARKMLKGKLYIL  171 (239)
T ss_pred             ccceEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455599999999999999999999999999999999999999999999999999999976543

>PRK09256 hypothetical protein; Provisional

Probab=99.93  E-value=3.2e-26  Score=175.85  Aligned_cols=76  Identities=39%  Similarity=0.600  Sum_probs=70.0

Q ss_pred             CccCCCCCCCChhhhhccceEEEEeccCCCcCCCCccCceEEEEE------cC-----------------Cc-eEEEecc
Q 038082            1 MNVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH------AP-----------------TG-VIAQAAE   56 (149)
Q Consensus         1 ~~~~~~~~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h------~p-----------------tG-i~v~~~~   56 (149)
                      |+.|++.+.||.+++    +|+|+|||||||||||||+|+|+|+|      +|                 +| |+|+|++
T Consensus         1 ~~~~~~~~~i~~~~l----~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~~g~l~i~~~~   76 (138)
T PRK09256          1 MLRITRRLVIPENEL----EWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITKDGVIVIKAQE   76 (138)
T ss_pred             CcccCccCccCHHHe----EEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccCCCcEEEEECC
Confidence            677888899998888    99999999999999999999999996      77                 46 9999999


Q ss_pred             ccCHHHHHHHHHHHHHHHHHHHHH
Q 038082           57 DRSQHKNRASALSRLRTLLALKVR   80 (149)
Q Consensus        57 ~RSq~~Nr~~A~~~L~~~l~~~~~   80 (149)
                      +|||++|++.|+++|.++|.....
T Consensus        77 ~RSQ~~Nr~~al~kL~~~i~~~~~  100 (138)
T PRK09256         77 FRSQERNREDALERLVALIREALK  100 (138)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999987665

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

Probab=99.79  E-value=1.3e-19  Score=142.71  Aligned_cols=70  Identities=36%  Similarity=0.603  Sum_probs=61.4

Q ss_pred             CCChhhhhccceEEEEeccCCCcCCCCccCceEEEEE-------cC-----------------Cc-eEEEeccccCHHHH
Q 038082            9 ELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH-------AP-----------------TG-VIAQAAEDRSQHKN   63 (149)
Q Consensus         9 ~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h-------~p-----------------tG-i~v~~~~~RSq~~N   63 (149)
                      .||.+.+    ++.|.||||||||||||++|+|.|++       ||                 .| |+|.++.+|||+.|
T Consensus        36 ~ipld~~----~i~y~RSSGPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink~gelvI~Sd~TRsq~~N  111 (172)
T KOG3429|consen   36 KIPLDQL----EISYSRSSGPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINKDGELVIYSDKTRSQHKN  111 (172)
T ss_pred             CCchhhe----EEEEeecCCCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhccCccEEEecchhHHhhcc
Confidence            4666666    99999999999999999999999995       45                 35 99999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhh
Q 038082           64 RASALSRLRTLLALKVRSS   82 (149)
Q Consensus        64 r~~A~~~L~~~l~~~~~~~   82 (149)
                      .++||++|+.+|.......
T Consensus       112 iaDcleKlr~~I~~~~~~~  130 (172)
T KOG3429|consen  112 IADCLEKLRDIIRAAEQTP  130 (172)
T ss_pred             HHHHHHHHHHHHHHHhcCC
Confidence            9999999999997655433

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	149
1ml5_Z	365	Structure Of The E. Coli Ribosomal Termination Comp		1e-11
1mi6_A	365	Docking Of The Modified Rf2 X-Ray Structure Into Th		1e-11
1gqe_A	365	Polypeptide Chain Release Factor 2 (Rf2) From Esche		1e-11
2b3t_B	360	Molecular Basis For Bacterial Class 1 Release Facto		2e-09
2fvo_A	333	Docking Of The Modified Rf1 X-ray Structure Into Th		9e-08
1rq0_A	342	Crystal Structure Of Peptide Releasing Factor 1 Len		9e-08
2b64_Y	354	30s Ribosomal Subunit, Trnas, Mrna And Release Fact		9e-07
3f1e_X	378	Crystal Structure Of A Translation Termination Comp		3e-06
2x9r_Y	351	Structure Of The 70s Ribosome Bound To Release Fact		3e-06
2wh1_Y	351	Insights Into Translational Termination From The St		3e-06
2ihr_1	365	Rf2 Of Thermus Thermophilus Length = 365		3e-06
2b9m_Y	365	30s Ribosomal Subunit, Trnas, Mrna And Release Fact		3e-06
1zbt_A	371	Crystal Structure Of Peptide Chain Release Factor 1		4e-06
2rsm_A	115	Solution Structure And Sirna-Mediated Knockdown Ana		1e-04

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

Iteration: 1
 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 26/43 (60%), Positives = 33/43 (76%)
Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           +D Y++SG GGQH N+ ESAVR+ H PTG++ Q   DRSQHKN
Sbjct: 241 IDVYRTSGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKN 283

>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 = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 26/43 (60%), Positives = 33/43 (76%)
Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           +D Y++SG GGQH N+ ESAVR+ H PTG++ Q   DRSQHKN
Sbjct: 241 IDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKN 283

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

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 26/43 (60%), Positives = 33/43 (76%)
Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           +D Y++SG GGQH N+ ESAVR+ H PTG++ Q   DRSQHKN
Sbjct: 241 IDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKN 283

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 33/43 (76%)
Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           +D ++SSG GGQH N  +SA+R+ H PTG++ +  ++RSQHKN
Sbjct: 224 IDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKN 266

>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 = 52.4 bits (124), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 20/46 (43%), Positives = 34/46 (73%)
Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           + +++ +++SG GGQ+ NK ESAVR+ H PTG++     +RSQ++N
Sbjct: 197 DLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQN 242

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 26/62 (41%), Positives = 42/62 (67%), Gaps = 2/62 (3%)
Query: 3   VLPNYLELTDDELF-RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQH 61
           VLP  +E  D E+   + +++ +++SG GGQ+ NK ESAVR+ H PTG++     +RSQ+
Sbjct: 182 VLPE-IEEKDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQY 240
Query: 62  KN 63
           +N
Sbjct: 241 QN 242

>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 = 49.3 bits (116), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 30/46 (65%)
Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG++    + RSQ KN
Sbjct: 216 EIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKN 261

>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 = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 28/46 (60%)
Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG+       RSQ KN
Sbjct: 239 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKN 284

>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 = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 28/46 (60%)
Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG+       RSQ KN
Sbjct: 221 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKN 266

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 28/46 (60%)
Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG+       RSQ KN
Sbjct: 221 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKN 266

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 28/46 (60%)
Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG+       RSQ KN
Sbjct: 226 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKN 271

>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 = 47.4 bits (111), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/46 (47%), Positives = 28/46 (60%)
Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG+       RSQ KN
Sbjct: 226 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKN 271

>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 = 47.0 bits (110), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 31/101 (30%), Positives = 50/101 (49%), Gaps = 9/101 (8%)
Query: 17  RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNXXXXXXXXXXXXX 76
           ++  +D Y +SG GGQ+ NK  +AVR+ H PT +  +  E+R+Q KN             
Sbjct: 233 KDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEXQEERTQQKNRDKAXKI------ 286
Query: 77  XKVRSSVNLDAYSPPPQLHQILPPKSTIRSSEVGPQIGPNN 117
             +R+ V  D ++   Q  Q    KST+ + +   +I   N
Sbjct: 287 --IRARV-ADHFAQIAQDEQDAERKSTVGTGDRSERIRTYN 324

>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 = 42.4 bits (98), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 4/59 (6%)
Query: 5  PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKN 63
          P  L L + EL    E    K  GPGGQ  NK  + V LKH P+G++ +  + RS  +N
Sbjct: 38 PALLPLNESEL----EEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQN 92

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	149
2rsm_A	115	Probable peptide chain release factor C12ORF65 HO	2e-23
2ihr_1	365	Peptide chain release factor 2; mixed alpha-beta,	3e-22
1gqe_A	365	Release factor 2, RF2; protein synthesis, ribosome	8e-22
2b3t_B	360	RF-1, peptide chain release factor 1; translation	2e-21
1zbt_A	371	RF-1, peptide chain release factor 1; peptide chai	2e-21
3d5a_X	354	RF1, peptide chain release factor 1; ribosome, rib	3e-21
1rq0_A	342	RF-1, peptide chain release factor 1; X-RAY, cryst	8e-21
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	9e-15
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	2e-14
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	2e-11

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

 Score = 87.0 bits (216), Expect = 2e-23
 Identities = 26/71 (36%), Positives = 36/71 (50%), Gaps = 4/71 (5%)

Query: 5   PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNR 64
           P  L L + EL    E    K  GPGGQ  NK  + V LKH P+G++ +  + RS  +NR
Sbjct: 38  PALLPLNESEL----EEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNR 93

Query: 65  ASALSRLRTLL 75
             A   L+  +
Sbjct: 94  KIARKVLQEKV 104

>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 = 89.6 bits (223), Expect = 3e-22
 Identities = 27/64 (42%), Positives = 37/64 (57%), Gaps = 1/64 (1%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRT-LLA 76
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG+       RSQ KN+  AL  L+  L  
Sbjct: 226 ELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKARLYE 285

Query: 77  LKVR 80
           L+ +
Sbjct: 286 LERK 289

>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 = 88.5 bits (220), Expect = 8e-22
 Identities = 28/58 (48%), Positives = 41/58 (70%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           +  +D Y++SG GGQH N+ ESAVR+ H PTG++ Q   DRSQHKN+  A+ +++  L
Sbjct: 238 DLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKL 295

>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 = 87.2 bits (217), Expect = 2e-21
 Identities = 29/74 (39%), Positives = 47/74 (63%), Gaps = 1/74 (1%)

Query: 3   VLPNYLELTDDEL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQH 61
           V+P   +    ++   +  +D ++SSG GGQH N  +SA+R+ H PTG++ +  ++RSQH
Sbjct: 205 VMPELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQH 264

Query: 62  KNRASALSRLRTLL 75
           KN+A ALS L   +
Sbjct: 265 KNKAKALSVLGARI 278

>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 = 87.2 bits (217), Expect = 2e-21
 Identities = 23/58 (39%), Positives = 36/58 (62%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           +  +D Y +SG GGQ+ NK  +AVR+ H PT +  +  E+R+Q KNR  A+  +R  +
Sbjct: 234 DLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEMQEERTQQKNRDKAMKIIRARV 291

>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 = 86.5 bits (215), Expect = 3e-21
 Identities = 28/58 (48%), Positives = 37/58 (63%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           E  +D  ++SGPGGQ  N  +SAVR+ H PTG++    + RSQ KNR  AL  LR+ L
Sbjct: 216 EIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALMILRSRL 273

>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 = 85.3 bits (212), Expect = 8e-21
 Identities = 25/55 (45%), Positives = 39/55 (70%)

Query: 21  MDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           ++ +++SG GGQ+ NK ESAVR+ H PTG++     +RSQ++N+ +AL  LR  L
Sbjct: 200 IETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILRARL 254

>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 = 65.6 bits (160), Expect = 9e-15
 Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 24/83 (28%)

Query: 18 ECEMDAYKSSGPGGQHRNKRESAVRLK------------------------HAPTGVIAQ 53
          E E+ A ++ G GGQH NK  +A+ L+                         +   ++ +
Sbjct: 14 ELEITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHLISSDGVIVIK 73

Query: 54 AAEDRSQHKNRASALSRLRTLLA 76
          A E RSQ  NR +AL+RL  ++ 
Sbjct: 74 AQEYRSQELNREAALARLVAMIK 96

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

 Score = 63.8 bits (155), Expect = 2e-14
 Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 24/83 (28%)

Query: 18 ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTG------------------------VIAQ 53
          E E+ A ++ G GGQ+ NK  SA+ L+                             ++ +
Sbjct: 14 EIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITSDGVIVLK 73

Query: 54 AAEDRSQHKNRASALSRLRTLLA 76
          A + R+Q +NRA AL RL  L+ 
Sbjct: 74 AQQYRTQEQNRADALLRLSELIV 96

>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 = 56.7 bits (136), Expect = 2e-11
 Identities = 17/84 (20%), Positives = 30/84 (35%), Gaps = 25/84 (29%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTG-------------------------VIA 52
              +   +SSGPGGQ+ NK  S   ++                              ++ 
Sbjct: 21  RLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVL 80

Query: 53  QAAEDRSQHKNRASALSRLRTLLA 76
            +   R Q +N A  L ++R ++A
Sbjct: 81  TSESSRYQFRNLAECLQKIRDMIA 104

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	149
1zbt_A	371	RF-1, peptide chain release factor 1; peptide chai	100.0
2b3t_B	360	RF-1, peptide chain release factor 1; translation	100.0
1rq0_A	342	RF-1, peptide chain release factor 1; X-RAY, cryst	100.0
3d5a_X	354	RF1, peptide chain release factor 1; ribosome, rib	100.0
2ihr_1	365	Peptide chain release factor 2; mixed alpha-beta,	99.98
1gqe_A	365	Release factor 2, RF2; protein synthesis, ribosome	99.98
2rsm_A	115	Probable peptide chain release factor C12ORF65 HO	99.97
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	99.96
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	99.95
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	99.95

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

Probab=100.00  E-value=3.2e-37  Score=266.53  Aligned_cols=117  Identities=26%  Similarity=0.336  Sum_probs=92.7

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++...+         
T Consensus       232 ~~dl~i~~~RssGpGGQ~VNkt~SaVrlthlPtGivV~~q~eRSQ~~Nr~~A~~~L~~~L~~~~~~~~~~~---------  302 (371)
T 1zbt_A          232 PKDLRVDIYHASGAGGQNVNKVATAVRIIHLPTNIKVEMQEERTQQKNRDKAMKIIRARVADHFAQIAQDE---------  302 (371)
T ss_dssp             GGGEEEEEECC---------CCCCEEEEEETTTTEEEEECSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHH---------
T ss_pred             cCcEEEEEecCCCCCCCcccccceeEEEEECCCeEEEEECCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence            56669999999999999999999999999999999999999999999999999999998876555553331         


Q ss_pred             ccCCCCCccccCCCCCCCCCCC------------------hhhhhh-HHHhhchhhHHHHHHHhC
Q 038082           96 QILPPKSTIRSSEVGPQIGPNN------------------PKFALV-LPYSLLLPFVINAAKIYG  141 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn------------------~~f~~g-L~~llD~L~~~~aA~~L~  141 (149)
                      ....|++++++|+||++|||||                  ..||+| |++++|++...++|+.|.
T Consensus       303 ~~~~r~~~ig~g~Rse~IRtYnf~q~rVtDhRtg~~~~~l~~VldGdLd~~I~a~l~~~~~~~l~  367 (371)
T 1zbt_A          303 QDAERKSTVGTGDRSERIRTYNFPQNRVTDHRIGLTLQKLDSILSGKLDEVIDALILYDQTQKLE  367 (371)
T ss_dssp             TCC----CCSCSCTTSEEEEEETTTTEEEETTTTEEESCHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCeeeEECCCCEeeecccCCeECChHHHhCCcHHHHHHHHHHHHHHHHHH
Confidence            2346789999999999999999                  499999 999999999999999885

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

Probab=100.00  E-value=6.8e-37  Score=263.68  Aligned_cols=119  Identities=26%  Similarity=0.343  Sum_probs=97.0

Q ss_pred             hhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCccc
Q 038082           15 LFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQL   94 (149)
Q Consensus        15 l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~   94 (149)
                      .++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.+        
T Consensus       218 ~~~dl~i~~~RssG~GGQ~VNkt~saVrl~hlPtGivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~~~~~~~--------  289 (360)
T 2b3t_B          218 NPADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQA--------  289 (360)
T ss_dssp             CSSSEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHTTTTTTSCC----------
T ss_pred             ChhheEEeeecCCCCCCCccccccceEEEEECCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Confidence            366779999999999999999999999999999999999999999999999999999999976655554331        


Q ss_pred             cccCCCCCccccCCCCCCCCCCC------------------hhhhhh-HHHhhchhhHHHHHHHhCC
Q 038082           95 HQILPPKSTIRSSEVGPQIGPNN------------------PKFALV-LPYSLLLPFVINAAKIYGL  142 (149)
Q Consensus        95 ~~~~~rksqir~~~r~~kIrtyn------------------~~f~~g-L~~llD~L~~~~aA~~L~~  142 (149)
                       ....|++++++|+||++|||||                  ..||+| |+++||++...++|+.|..
T Consensus       290 -~~~~r~~~i~~g~rse~IRtYnf~~~rVtDhRt~~~~~~l~~vldG~Ld~~I~a~l~~~~~~~l~~  355 (360)
T 2b3t_B          290 -EASTRRNLLGSGDRSDRNRTYNFPQGRVTDHRINLTLYRLDEVMEGKLDMLIEPIIQEHQADQLAA  355 (360)
T ss_dssp             -----CCC-------CCEEEEEETTTTEEEEGGGTEEESCHHHHHHTCTHHHHHHHHHHHHHHHCC-
T ss_pred             -HHHHHHHhcccccccCCeeeEECCCCeeeecccCcEECCHHHHhCCCHHHHHHHHHHHHHHHHHHh
Confidence             2346799999999999999999                  489999 9999999999999999964

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

Probab=100.00  E-value=6.3e-37  Score=262.36  Aligned_cols=117  Identities=27%  Similarity=0.327  Sum_probs=91.4

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++...+         
T Consensus       195 ~~dl~i~~~RssGpGGQ~VNKt~SaVrl~hlPtGivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~~~~~~~---------  265 (342)
T 1rq0_A          195 PEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILRARLYQLQKEQKERE---------  265 (342)
T ss_dssp             GGGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHHHHHHHHHHTT---------
T ss_pred             hhHeEEEeecCCCCCCcccccccceEEEEECCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence            55669999999999999999999999999999999999999999999999999999999876665554432         


Q ss_pred             ccCCCCCccccCCCCCCCCCCC------------------hhhhhh-HHHhhchhhHHHHHHHhC
Q 038082           96 QILPPKSTIRSSEVGPQIGPNN------------------PKFALV-LPYSLLLPFVINAAKIYG  141 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn------------------~~f~~g-L~~llD~L~~~~aA~~L~  141 (149)
                      ....|++++++|+||++|||||                  ..||+| |+++||++...++|+.|.
T Consensus       266 ~~~~r~~~i~~g~Rse~IRtYnf~~~rVtDhRt~~~~~~l~~vldGdLd~~I~a~l~~~~~~~l~  330 (342)
T 1rq0_A          266 ISQKRKSQIGTGERSEKIRTYNFPQNRVTDHRINYTSYRLQEILDGDLDEIISKLIEHDIENNLE  330 (342)
T ss_dssp             TCC----------CCCEEEEEETTTTEEEETTTTEEESCHHHHHTTCCHHHHHHHHHHHHTTTHH
T ss_pred             HHHHHHhhcccccccCCeEEEECCCCeeeecccCceeCCHHHHhCCcHHHHHHHHHHHHHHHHHH
Confidence            2346789999999999999999                  499999 999999999888888774

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

Probab=100.00  E-value=3.3e-37  Score=265.17  Aligned_cols=119  Identities=29%  Similarity=0.301  Sum_probs=104.9

Q ss_pred             hhhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcc
Q 038082           14 ELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQ   93 (149)
Q Consensus        14 ~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~   93 (149)
                      ..++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++...+       
T Consensus       212 i~~~dl~i~~~RssG~GGQ~VNkt~SaVrl~HlPtgivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~~~~~~~-------  284 (354)
T 3d5a_X          212 LNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHLPTGIMVTCQDSRSQIKNREKALMILRSRLLEMKRAEEAER-------  284 (354)
T ss_dssp             CCGGGEEEEEECCCSCCHHHHHHCCCEEEEEETTTTEEEEECCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
T ss_pred             cCccceEEEeecCCCCCCcccccccceEEEEEcCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            3355669999999999999999999999999999999999999999999999999999998876555543321       


Q ss_pred             ccccCCCCCccccCCCCCCCCCCC------------------hhhhhh-HHHhhchhhHHHHHHHhC
Q 038082           94 LHQILPPKSTIRSSEVGPQIGPNN------------------PKFALV-LPYSLLLPFVINAAKIYG  141 (149)
Q Consensus        94 ~~~~~~rksqir~~~r~~kIrtyn------------------~~f~~g-L~~llD~L~~~~aA~~L~  141 (149)
                        ....|++++++|+||++|||||                  ..||+| |++++|++...++|+.|.
T Consensus       285 --~~~~r~~~i~~g~rse~IRtYnf~q~rVtDhR~~~~~~~l~~vldG~Ld~~I~a~l~~~~~~~l~  349 (354)
T 3d5a_X          285 --LRKTRLAQIGTGERSEKIRTYNFPQSRVTDHRIGFTTHDLEGVLSGHLTPILEALKRADQERQLA  349 (354)
T ss_dssp             --HHHHHHHHSCGGGGSCSSEEEETTTTEEEETTTTEEECCHHHHTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             --HHHHHHhhcccccccCCeeeEECCCCeeeecccCceeCChHHhhCCchHHHHHHHHHHHHHHHHH
Confidence              2345789999999999999999                  499999 999999999999999885

>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=8.9e-33  Score=238.41  Aligned_cols=110  Identities=29%  Similarity=0.269  Sum_probs=91.9

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++.+.+.        
T Consensus       224 ~~dl~i~~~RssG~GGQ~VNkt~saVrl~h~Ptgivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~~~~~~~~--------  295 (365)
T 2ihr_1          224 PEELRIDVMRASGPGGQGVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKARLYELERKKREEEL--------  295 (365)
T ss_dssp             GGGEEEEEECCCCSSCCSGGGSCSEEEEEETTTTEEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHT--------
T ss_pred             ccceEEEEeecCCCCCceecccceEEEEEEcCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------
Confidence            556699999999999999999999999999999999999999999999999999999988765555544322        


Q ss_pred             ccCCC--CCccccCCCCCCCCCCCh------------------hhhhh-HHHhhchhhHHHHH
Q 038082           96 QILPP--KSTIRSSEVGPQIGPNNP------------------KFALV-LPYSLLLPFVINAA  137 (149)
Q Consensus        96 ~~~~r--ksqir~~~r~~kIrtyn~------------------~f~~g-L~~llD~L~~~~aA  137 (149)
                       ...|  ++++++|+   +||||||                  .||+| |+++||++..+...
T Consensus       296 -~~~r~~~~~i~~G~---~IRtYnf~~~rVtDhRtg~~~~~l~~VldGdld~~I~a~l~~~~~  354 (365)
T 2ihr_1          296 -KALRGEVRPIEWGS---QIRSYVLDKNYVKDHRTGLMRHDPENVLDGDLMDLIWAGLEWKAG  354 (365)
T ss_dssp             -TTTTCCSCCSCCCS---CSEEEEGGGTEEEETTTCCEESCHHHHTTTCCHHHHHHHHHHHHT
T ss_pred             -HHHHhhhhccCccC---CeeeEECCCccchhcccCceeCChHHHhCCcHHHHHHHHHHHHhc
Confidence             2234  56666655   7999994                  89999 99999999866543

>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=99.98  E-value=6.9e-33  Score=239.15  Aligned_cols=106  Identities=33%  Similarity=0.428  Sum_probs=88.1

Q ss_pred             hhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCccc
Q 038082           15 LFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQL   94 (149)
Q Consensus        15 l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~   94 (149)
                      .++||+|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.|+++|+++|.....++...+.       
T Consensus       235 ~~~dl~~~~~RssG~GGQ~VNkt~saVrl~HiPtgivv~~q~~RSQ~~Nr~~A~~~L~~~L~~~~~~~~~~~~-------  307 (365)
T 1gqe_A          235 NPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVEMQKKNAEK-------  307 (365)
T ss_dssp             CGGGEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHT-------
T ss_pred             CHHHceEeeecCCCCCCCcccCccceEEEEECCCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            3556699999999999999999999999999999999999999999999999999999988765555544322       


Q ss_pred             cccCCCC--CccccCCCCCCCCCCC------------------hhhhhh-HHHhhchhh
Q 038082           95 HQILPPK--STIRSSEVGPQIGPNN------------------PKFALV-LPYSLLLPF  132 (149)
Q Consensus        95 ~~~~~rk--sqir~~~r~~kIrtyn------------------~~f~~g-L~~llD~L~  132 (149)
                        ...|+  .+++   ||++|||||                  ..||+| |+++||++.
T Consensus       308 --~~~r~~~~~i~---~G~~IRtY~f~~~rVkDhRt~~~~~~l~~vldGdld~~I~a~l  361 (365)
T 1gqe_A          308 --QAMEDNKSDIG---WGSQIRSYVLDDSRIKDLRTGVETRNTQAVLDGSLDQFIEASL  361 (365)
T ss_dssp             --TCCSTTCCCCC---SCSEEEEEEGGGTEEEETTTCCEESCHHHHHTTCCHHHHHHHH
T ss_pred             --HHHhhhhcccC---ccCCeEeEECCCCeeeccccCceECCHHHHhCCCHHHHHHHHH
Confidence              22344  4444   455999999                  489999 999999876

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

Probab=99.97  E-value=2.4e-31  Score=197.58  Aligned_cols=74  Identities=36%  Similarity=0.553  Sum_probs=66.8

Q ss_pred             CCCCCCChhhhhccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhh
Q 038082            5 PNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSS   82 (149)
Q Consensus         5 ~~~~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~   82 (149)
                      |..+.|++++|    +|+|+|||||||||||||+|+|+|+|+||||+|+|+++|||++||+.||++|+++|.+.+..+
T Consensus        38 ~~~l~I~~~dl----~~~~~RssGpGGQ~VNKt~SaVrl~H~PTGivV~~q~~RSQ~~Nr~~A~~~L~~kL~e~~~~~  111 (115)
T 2rsm_A           38 PALLPLNESEL----EEQFVKGHGPGGQATNKTSNCVVLKHVPSGIVVKCHQTRSVDQNRKIARKVLQEKVDVFYNSG  111 (115)
T ss_dssp             CCSCCCCGGGC----EEEECSCCCSCSSSCCCSCCCEEEECTTTCCEEEECCSSCHHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             CccCCcCHHHe----EEEEeeCCCCCccccCccceeEEEecCCCCcEEEEcCCCCHHHHHHHHHHHHHHHHHHHhccc
Confidence            34466776666    999999999999999999999999999999999999999999999999999999998776544

>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=2.4e-30  Score=190.54  Aligned_cols=76  Identities=39%  Similarity=0.623  Sum_probs=71.6

Q ss_pred             CccCCCCCCCChhhhhccceEEEEeccCCCcCCCCccCceEEEEE------cC-----------------Cc-eEEEecc
Q 038082            1 MNVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH------AP-----------------TG-VIAQAAE   56 (149)
Q Consensus         1 ~~~~~~~~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h------~p-----------------tG-i~v~~~~   56 (149)
                      |+.|++.+.||+++|    +|+|+|||||||||||||+|+|+|+|      +|                 +| |+|+|++
T Consensus         1 ml~i~~~i~I~~~dl----~~~~~RssGpGGQnVNKv~SaV~L~~d~~~s~lP~~~k~rl~~~~~~ri~~~G~ivv~~q~   76 (108)
T 2jva_A            1 MLVISNNVHLPDAEI----ELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITSDGVIVLKAQQ   76 (108)
T ss_dssp             CEECSSSCEECGGGE----EEEECCCTTCSSSSSCCCCCCEEEEEETTTSCCCHHHHHHHHTCSCTTBCTTCEEEEEECC
T ss_pred             CcccccccccChHHE----EEEEEECCCCCCCCcCCCcceEEEEEEcccccCCHHHHHHHHHHhccccccCCcEEEEECC
Confidence            788899999998888    99999999999999999999999999      99                 89 9999999


Q ss_pred             ccCHHHHHHHHHHHHHHHHHHHHH
Q 038082           57 DRSQHKNRASALSRLRTLLALKVR   80 (149)
Q Consensus        57 ~RSq~~Nr~~A~~~L~~~l~~~~~   80 (149)
                      +|||.+||+.|+++|+++|.....
T Consensus        77 ~RSQ~~Nr~~Al~rL~~~l~~a~~  100 (108)
T 2jva_A           77 YRTQEQNRADALLRLSELIVNAAK  100 (108)
T ss_dssp             SSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHHHcc
Confidence            999999999999999999987654

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

Probab=99.95  E-value=4e-28  Score=179.69  Aligned_cols=68  Identities=29%  Similarity=0.473  Sum_probs=62.0

Q ss_pred             CCCChhhhhccceEEEEeccCCCcCCCCccCceEEEE-EcCCc------------------------eEEEeccccCHHH
Q 038082            8 LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLK-HAPTG------------------------VIAQAAEDRSQHK   62 (149)
Q Consensus         8 ~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~-h~ptG------------------------i~v~~~~~RSq~~   62 (149)
                      +.||+++|    +|+|+|||||||||||||+|+|+|+ |+|+|                        |+|+|+++|||++
T Consensus        15 i~I~~~dl----~~~~~RssGpGGQnVNKv~SaV~Lrf~i~t~~~Lp~~~k~rl~~~~~~ri~~~G~ivv~~q~~RSQ~~   90 (112)
T 1j26_A           15 SYIPLDRL----SISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQFR   90 (112)
T ss_dssp             CCCCTTTS----EEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEEEECCCSSHHH
T ss_pred             EecChHHe----EEEEEECCCCCCCCccCCcceEEEEEeccccccCCHHHHHHHHHhhccccccCCeEEEEECCccCHHH
Confidence            44665555    9999999999999999999999998 99987                        9999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 038082           63 NRASALSRLRTLLALKV   79 (149)
Q Consensus        63 Nr~~A~~~L~~~l~~~~   79 (149)
                      ||+.|+++|+++|....
T Consensus        91 Nr~~Al~rL~~~l~~a~  107 (112)
T 1j26_A           91 NLAECLQKIRDMIAEAS  107 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            99999999999997764

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

Probab=99.95  E-value=1.5e-28  Score=188.10  Aligned_cols=77  Identities=38%  Similarity=0.600  Sum_probs=71.3

Q ss_pred             CccCCCCCCCChhhhhccceEEEEeccCCCcCCCCccCceEEEE------EcCC-----------------c-eEEEecc
Q 038082            1 MNVLPNYLELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLK------HAPT-----------------G-VIAQAAE   56 (149)
Q Consensus         1 ~~~~~~~~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~------h~pt-----------------G-i~v~~~~   56 (149)
                      |+.|++.+.||+++|    +|+|+|||||||||||||+|+|+|+      |+|+                 | |+|+|++
T Consensus         1 m~~i~~~i~I~~~el----~~~~~RssGpGGQnVNKv~SaV~L~~~~~~s~lp~~~k~rL~~~~~~rit~~G~ivv~~q~   76 (140)
T 4dh9_Y            1 MIVISRHVAIPDGEL----EITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHLISSDGVIVIKAQE   76 (140)
T ss_dssp             -CCCCSSSCCCTTCS----EEEEECCCSSSSHHHHTTCCCEEEEECCSSSSSCSHHHHHHHSCCCTTSCSSCCCCEEECC
T ss_pred             CccccCCCccChHHe----EEEEEECCCCCCCccccccceEEEEEecccccCCHHHHHHHHHHhccccccCCcEEEEEcC
Confidence            889999999998888    9999999999999999999999999      6997                 5 9999999


Q ss_pred             ccCHHHHHHHHHHHHHHHHHHHHHh
Q 038082           57 DRSQHKNRASALSRLRTLLALKVRS   81 (149)
Q Consensus        57 ~RSq~~Nr~~A~~~L~~~l~~~~~~   81 (149)
                      +|||++||+.|+++|.++|......
T Consensus        77 ~RSQ~~Nr~~A~~rL~~~l~~a~~~  101 (140)
T 4dh9_Y           77 YRSQELNREAALARLVAMIKELTTE  101 (140)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHHHHSC
T ss_pred             CcCHHHHHHHHHHHHHHHHHHhccC
Confidence            9999999999999999999877753

---

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	149
d1j26a_	112	d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [	2e-13
d1gqea_	362	e.38.1.1 (A:) Polypeptide chain release factor 2 (	7e-09
d1rq0a_	333	e.38.1.1 (A:) Peptide chain release factor 1, RF1	2e-07
d2b3tb1	344	e.38.1.1 (B:7-354) Peptide chain release factor 1,	4e-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 = 60.7 bits (147), Expect = 2e-13
 Identities = 17/84 (20%), Positives = 30/84 (35%), Gaps = 25/84 (29%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKH-------------------------APTGVIA 52
              +   +SSGPGGQ+ NK  S   ++                              ++ 
Sbjct: 21  RLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVL 80

Query: 53  QAAEDRSQHKNRASALSRLRTLLA 76
            +   R Q +N A  L ++R ++A
Sbjct: 81  TSESSRYQFRNLAECLQKIRDMIA 104

>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 = 50.8 bits (121), Expect = 7e-09
 Identities = 32/76 (42%), Positives = 47/76 (61%), Gaps = 1/76 (1%)

Query: 1   MNVLPNYLELTDDEL-FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRS 59
             V P   +  D E+   +  +D Y++SG GGQH N+ ESAVR+ H PTG++ Q   DRS
Sbjct: 217 AFVYPEVDDDIDIEINPADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRS 276

Query: 60  QHKNRASALSRLRTLL 75
           QHKN+  A+ +++  L
Sbjct: 277 QHKNKDQAMKQMKAKL 292

>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 = 46.7 bits (110), Expect = 2e-07
 Identities = 24/56 (42%), Positives = 40/56 (71%)

Query: 17  RECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLR 72
            + +++ +++SG GGQ+ NK ESAVR+ H PTG++     +RSQ++N+ +AL  LR
Sbjct: 196 EDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILR 251

>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 = 45.9 bits (108), Expect = 4e-07
 Identities = 27/58 (46%), Positives = 41/58 (70%)

Query: 18  ECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLL 75
           +  +D ++SSG GGQH N  +SA+R+ H PTG++ +  ++RSQHKN+A ALS L   +
Sbjct: 211 DLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARI 268

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	149
d2b3tb1	344	Peptide chain release factor 1, RF1 {Escherichia c	100.0
d1rq0a_	333	Peptide chain release factor 1, RF1 {Thermotoga ma	100.0
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	100.0
d1j26a_	112	Ict1 protein {Mouse (Mus musculus) [TaxId: 10090]}	99.9

>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=4e-39  Score=273.87  Aligned_cols=117  Identities=26%  Similarity=0.360  Sum_probs=95.5

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++|++|+|+|||||||||||||+|||||+|+||||+|.||++|||++||+.||++|+++|.....++.+.+         
T Consensus       209 ~~dl~i~~~rssg~GGQ~vnkt~sAVRi~H~ptGi~v~~q~eRSq~~Nk~~A~~~L~~kl~~~~~~~~~~~---------  279 (344)
T d2b3tb1         209 PADLRIDTFRSSGAGGQHVNTTDSAIRITHLPTGIVVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQA---------  279 (344)
T ss_dssp             SSSEEEEECCSSCCCTTTCCCSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHTTTTTTSCC-----------
T ss_pred             cccceEEEecCCCccccchhhhhceeEEEEcCCceEEEccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence            57779999999999999999999999999999999999999999999999999999998865444443321         


Q ss_pred             ccCCCCCccccCCCCCCCCCCC------------------hhhhhh-HHHhhchhhHHHHHHHhC
Q 038082           96 QILPPKSTIRSSEVGPQIGPNN------------------PKFALV-LPYSLLLPFVINAAKIYG  141 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn------------------~~f~~g-L~~llD~L~~~~aA~~L~  141 (149)
                      ....||+++++++||+||||||                  ..||+| |+++++.+..+.++++|+
T Consensus       280 ~~~~r~~~~~~~~r~~~iRtY~~p~~~v~DhR~~~~~~~~~~vl~G~ld~~i~~~~~~~~~~~l~  344 (344)
T d2b3tb1         280 EASTRRNLLGSGDRSDRNRTYNFPQGRVTDHRINLTLYRLDEVMEGKLDMLIEPIIQEHQADQLA  344 (344)
T ss_dssp             ----CCC-------CCEEEEEETTTTEEEEGGGTEEESCHHHHHHTCTHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHhcccccccccCceEeeecCCCccceeccCCeeCChhHhhCCChHHHHHHHHHHHHHHhcC
Confidence            2357899999999999999999                  499999 999999999999999885

>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=9.5e-39  Score=270.79  Aligned_cols=116  Identities=28%  Similarity=0.332  Sum_probs=89.5

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++|++|+|+|||||||||||||+|||||+|+||||+|+||++|||++||+.||++|+++|.....++.+.+         
T Consensus       195 ~~dl~i~~~RssG~GGQ~VNkt~sAVRitH~PTGi~v~~q~eRSQ~~Nk~~A~~~L~~kl~~~~~~~~~~~---------  265 (333)
T d1rq0a_         195 PEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIVVSCQNERSQYQNKQTALRILRARLYQLQKEQKERE---------  265 (333)
T ss_dssp             GGGEEEEEECCCC----CCSSSSEEEEEEETTTCCEEEEEESSCHHHHHHHHHHHHHHHHHHHHHHHHHTT---------
T ss_pred             ccceeEEeecCCccccchhhhhhheeEEEEcCCccEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence            66679999999999999999999999999999999999999999999999999999998876555554432         


Q ss_pred             ccCCCCCccccCCCCCCCCCCC------------------hhhhhh-HHHhhchhhHHHHHHHh
Q 038082           96 QILPPKSTIRSSEVGPQIGPNN------------------PKFALV-LPYSLLLPFVINAAKIY  140 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn------------------~~f~~g-L~~llD~L~~~~aA~~L  140 (149)
                      ....||+|+++|+||++|||||                  ..||+| |+++|+.+....+++.|
T Consensus       266 ~~~~r~~~~~~~~r~~~iRtY~~p~~rV~DhR~~~~~~~l~~vl~G~ld~~i~~~~~~~~~~~l  329 (333)
T d1rq0a_         266 ISQKRKSQIGTGERSEKIRTYNFPQNRVTDHRINYTSYRLQEILDGDLDEIISKLIEHDIENNL  329 (333)
T ss_dssp             TCC----------CCCEEEEEETTTTEEEETTTTEEESCHHHHHTTCCHHHHHHHHHHHHTTTH
T ss_pred             HHHHHhccccccccCCCceeeeCCCCcchhhccCCeecChhHHhCCChHHHHHHHHHHHHHHHH
Confidence            3457899999999999999999                  499999 99999999977777665

>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=4.6e-35  Score=250.12  Aligned_cols=107  Identities=34%  Similarity=0.442  Sum_probs=86.8

Q ss_pred             hccceEEEEeccCCCcCCCCccCceEEEEEcCCceEEEeccccCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcccc
Q 038082           16 FRECEMDAYKSSGPGGQHRNKRESAVRLKHAPTGVIAQAAEDRSQHKNRASALSRLRTLLALKVRSSVNLDAYSPPPQLH   95 (149)
Q Consensus        16 ~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h~ptGi~v~~~~~RSq~~Nr~~A~~~L~~~l~~~~~~~~~~~~~~~~~~~~   95 (149)
                      ++|++|+|+|||||||||||||+|||||||+||||+|+||++|||++||+.||++|+++|.....++.+.+..       
T Consensus       233 ~~dl~i~~~rs~g~GGQ~vN~t~savri~H~ptgi~v~~q~ersq~~Nk~~A~~~L~~~l~~~~~~~~~~~~~-------  305 (362)
T d1gqea_         233 PADLRIDVYRASGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVEMQKKNAEKQ-------  305 (362)
T ss_dssp             GGGEEEEEECCCCSSCCSTTSSCCEEEEEETTTCCEEEECSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-------
T ss_pred             hHHeEEEEeecCCCCccchhhhhceeEEEecCchhHHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            5666999999999999999999999999999999999999999999999999999999876543333322111       


Q ss_pred             ccCCCCCccccCCCCCCCCCCCh------------------hhhhh-HHHhhchhh
Q 038082           96 QILPPKSTIRSSEVGPQIGPNNP------------------KFALV-LPYSLLLPF  132 (149)
Q Consensus        96 ~~~~rksqir~~~r~~kIrtyn~------------------~f~~g-L~~llD~L~  132 (149)
                      ....++.+++   ||+|||||||                  .||+| |+++|+++.
T Consensus       306 ~~~~~~~~~~---~g~~iRtY~~~~~rv~DhR~~~~~~~~~~vl~G~ld~~i~a~l  358 (362)
T d1gqea_         306 AMEDNKSDIG---WGSQIRSYVLDDSRIKDLRTGVETRNTQAVLDGSLDQFIEASL  358 (362)
T ss_dssp             CCSTTCCCCC---SCSEEEEEEGGGTEEEETTTCCEESCHHHHHTTCCHHHHHHHH
T ss_pred             HHHhhhhcCc---CcCCccCccCCCCcccccccCCeeCChhHHhCCCHHHHHHHHH
Confidence            1223455554   6689999994                  89999 999988875

>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=99.90  E-value=1.6e-24  Score=158.49  Aligned_cols=68  Identities=29%  Similarity=0.467  Sum_probs=59.8

Q ss_pred             CCCChhhhhccceEEEEeccCCCcCCCCccCceEEEEE-------cC-----------------Cc-eEEEeccccCHHH
Q 038082            8 LELTDDELFRECEMDAYKSSGPGGQHRNKRESAVRLKH-------AP-----------------TG-VIAQAAEDRSQHK   62 (149)
Q Consensus         8 ~~i~~~~l~~d~~i~~~RssGpGGQ~vNk~~s~V~l~h-------~p-----------------tG-i~v~~~~~RSq~~   62 (149)
                      ..||.+++    +|+|+|||||||||||||+|+|+|++       +|                 .| |+|+|+++|||.+
T Consensus        15 ~~Ip~~~i----~~~f~RSsGPGGQ~VNKv~TkV~Lr~~v~~s~~l~~~~~~~l~~~~~~~i~~~g~l~I~s~~~RsQ~~   90 (112)
T d1j26a_          15 SYIPLDRL----SISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQFR   90 (112)
T ss_dssp             CCCCTTTS----EEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCSSSEEEEEECCCSSHHH
T ss_pred             CccCHHHe----EEEEEEcCCCCCCccceeccEEEEEEeccccccCCHHHHHHHHHHhhhcccCCCeEEEEEcccCCHHH
Confidence            35777666    99999999999999999999999985       23                 35 9999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 038082           63 NRASALSRLRTLLALKV   79 (149)
Q Consensus        63 Nr~~A~~~L~~~l~~~~   79 (149)
                      ||++|+++|.++|..+.
T Consensus        91 Nr~~a~~kL~~li~~A~  107 (112)
T d1j26a_          91 NLAECLQKIRDMIAEAS  107 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            99999999999996543