Citrus Sinensis ID: 014729

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------42
Protein Sequence
MRRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPAPETALTAQTQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKHEETDDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNSIHA
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHcccccccccccccccccccccccEEEcccccccccccccccccccccHHHHccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccccccHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHccccccccccccccccccccccccccEEEEEEEEEccccccccccccEEEEEEEEccccccHHHHHHHHHHHcccccccccEEEEEccccccHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHcccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccHccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHcHHHHHHHHHHHccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHcHHHHccHHHHHHHHHHHHHHcHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEEEEEEEEEEccccccccccccEEEEEEEHHHccccHHHHHHHHHHHcccccccccEEEEEccccHHHHHHHHHHHHHHHHHHHHHccccccHHccccHHccccccccccHHHHHHccHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MRRTLLRNASLISRnllhnpnhnqpfipplaastrTQLRLyssdskdssndqrapdpapetaltaqtqkkdvsidvedVSNKELKMRIDKYFKGDEEALPSILEAILQRRLvgkheetddELTEElrlkplddvkdqeFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELgdmcesgelepEQAYELFKKFEDEVVAEYMKQVeteeppkydfpavpdtkkdiddppgegpilrWVTRavfapggdawhpknrkvKMSVTVKELGLSKYQFRRLRELVgkryhpgkdeltITSERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLsskgsnsiha
Flexible Loop (DISEMBL)
MRRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRLYSsdskdssndqrapdpapetaltaqtqkkdvsidvedvsnkeLKMRIDKYFKGDEEALPSILEAILQRRLVgkheetddelteelrlkplddvkDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFEDEVVAEYMKqveteeppkydfpavpdtkkdiddppgegPILRWVTRAVFApggdawhpknrkvkmsvtvkelglskyqfrrlrelvgkryhpgkdeltitserfehreenrkDCLRTLFSLIEEagkankmvddARASYVKDRLRANPAFMERLRakvlsskgsnsiha
Low Complexity Region (SEG)
MRRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPAPETALTAQTQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKHeetddelteelRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNSIHA
Disordered region (IsUnstruct)
**************************************************************************************RIDKYFKGDEEALPSILEAILQRRLV******************************FEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLP***************************AYELFKKFEDEVVAEY*******************************PILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPG***L***************DCLRTLFSLIEEA********************************************
Disordered Region (DISOPRED)
****L**NASLISRNLLH***************TRTQL*******************************************KELKMRIDKYFKGDEEALPSILEAILQRRLVG****TD**LTEELRLKPL**VKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGD************YELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDR**************************
Disordered Region (DISEMBL)
MRRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRL****************************KKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGK*********EELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKV***********
Disordered Region (DISPRO)
*RRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRLYS******************************SIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKHEETDDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAV*DTKKDIDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAK************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPAPETALTAQTQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKHEETDDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNSIHA
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	419	2.2.26 [Sep-21-2011]
Q03976	319	37S ribosomal protein S24	yes	no	0.284	0.373	0.296	3e-05

>sp|Q03976|RT24_YEAST 37S ribosomal protein S24, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RSM24 PE=1 SV=1

 Score = 50.1 bits (118), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 37/125 (29%), Positives = 60/125 (48%), Gaps = 6/125 (4%)

Query: 252 EVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDP-PGEGPILRWVTRAVFAPGGDAWHPKN 310
           E+VA++ +Q        Y+ P +   +++   P P   P+    T  V    G+  HP +
Sbjct: 143 ELVAQHREQRFYNRLAAYELPLLAQYRQEYKRPSPESHPVTYRYTSYV----GEE-HPNS 197

Query: 311 RKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS 370
           RKV +SV  KELGL +    + R L   RY    D   ++S++FEH  +N +     L  
Sbjct: 198 RKVVLSVKTKELGLEEKSLHKFRILARSRYDHTTDIFKMSSDKFEHASQNARYLHDILQR 257

Query: 371 LIEEA 375
           L+ E+
Sbjct: 258 LLAES 262

Involved in mitochondrial genome encoded proteins translation.
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	419
255567822	415	conserved hypothetical protein [Ricinus	0.978	0.987	0.737	1e-178
225456018	420	PREDICTED: uncharacterized protein LOC10	0.990	0.988	0.721	1e-171
356525060	390	PREDICTED: uncharacterized protein LOC10	0.930	1.0	0.689	1e-165
224135421	405	predicted protein [Populus trichocarpa]	0.961	0.995	0.702	1e-165
449439095	425	PREDICTED: uncharacterized protein LOC10	0.980	0.967	0.691	1e-161
449497558	425	PREDICTED: uncharacterized protein LOC10	0.988	0.974	0.684	1e-160
18401816	419	ribosomal protein S24/S35 [Arabidopsis t	0.980	0.980	0.646	1e-152
186512105	415	ribosomal protein S24/S35 [Arabidopsis t	0.980	0.990	0.633	1e-150
297830480	422	hypothetical protein ARALYDRAFT_479322 [	0.983	0.976	0.627	1e-146
3080390	420	putative protein [Arabidopsis thaliana]	0.952	0.95	0.633	1e-146

>gi|255567822|ref|XP_002524889.1| conserved hypothetical protein [Ricinus communis] gi|223535852|gb|EEF37513.1| conserved hypothetical protein [Ricinus communis]

 Score =  630 bits (1626), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 309/419 (73%), Positives = 359/419 (85%), Gaps = 9/419 (2%)

Query: 1   MRRTLLRNASLISRNLLHNPN--HNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPA 58
           MRR L RNA   +RNLL + +   ++   P LA STR + R YSS+   SS       P+
Sbjct: 2   MRRFLARNAIAYTRNLLQSSSIQASKTSNPSLAISTRCKFRFYSSEPDSSSK------PS 55

Query: 59  PETALTAQTQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKHEET 118
           PE+AL AQ +KKD S+ V DVSNKELK  ++KYFKGDEE LPSI+EAIL R+  GKHEET
Sbjct: 56  PESALLAQLKKKDDSVQVTDVSNKELKDLMEKYFKGDEEVLPSIMEAILSRKFSGKHEET 115

Query: 119 DDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDK 178
           DDEL EELR+KPLDDVKD+EFESDFEELY TDEE+DDLY+A++HV+KKMVKDEYFNMDDK
Sbjct: 116 DDELMEELRMKPLDDVKDKEFESDFEELYKTDEELDDLYNAKEHVMKKMVKDEYFNMDDK 175

Query: 179 KWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELE 238
           KWDEMI E ++HG+LKDTRECE ILEDMLSWDKLLPDD+K+KVE+KFNELGDMCE GELE
Sbjct: 176 KWDEMIKEGMEHGFLKDTRECEAILEDMLSWDKLLPDDIKEKVEKKFNELGDMCERGELE 235

Query: 239 PEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAV 298
           PE+AY+LFK+FEDE+V EY K++E E PP++D  AVPD KKD+DDPPGEGPILRW TR V
Sbjct: 236 PEEAYKLFKEFEDEMVMEYGKRLEAEGPPQFDETAVPDKKKDLDDPPGEGPILRWQTRVV 295

Query: 299 FAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHRE 358
            APGGDAWHPKNRKVKM+VTVKELGLSK+QF+R+RELVGKRYHPG+DELTI SERFEHRE
Sbjct: 296 LAPGGDAWHPKNRKVKMAVTVKELGLSKHQFKRMRELVGKRYHPGRDELTIISERFEHRE 355

Query: 359 ENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNSI 417
           ENRKDCLRTL+SL+EEAGKANK+ +DARASYVK+RLRANPAFMERLRAKV+  + SN+I
Sbjct: 356 ENRKDCLRTLYSLLEEAGKANKLAEDARASYVKERLRANPAFMERLRAKVM-RQASNTI 413

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225456018|ref|XP_002279561.1| PREDICTED: uncharacterized protein LOC100256054 [Vitis vinifera] gi|297734247|emb|CBI15494.3| unnamed protein product [Vitis vinifera]

 Score =  606 bits (1563), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 306/424 (72%), Positives = 353/424 (83%), Gaps = 9/424 (2%)

Query: 1   MRRTLLRNASLISRNLLHNPNHNQP-----FIPPLAASTRTQLRLYSSDSKDSSNDQRAP 55
           MRRTLLRN SL +R LL   +              +AS+  + R +SS++  S+ +   P
Sbjct: 1   MRRTLLRNVSLCTRTLLSPSSSKPSASPTPISSSASASSAFKFRFFSSENDSSTEN---P 57

Query: 56  DPAPETALTAQTQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKH 115
            P  ET+L AQ QKK+VSIDV DVSNKELKMRI+KYFKGDEEALPSILEAI+ R+L GKH
Sbjct: 58  KPLEETSL-AQPQKKEVSIDVPDVSNKELKMRIEKYFKGDEEALPSILEAIMARKLAGKH 116

Query: 116 EETDDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNM 175
           E+TDDEL +ELRL+PLDDVKD++FESDFEE+Y TDEEIDDLY+ARD V+K+M  DEYFNM
Sbjct: 117 EDTDDELMDELRLQPLDDVKDKDFESDFEEIYETDEEIDDLYNARDIVMKRMAHDEYFNM 176

Query: 176 DDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESG 235
           DD+KWD+MI EA + G+LKDT ECE ILEDMLSWDKLLPD++K+KVEQKFNELGDMCE G
Sbjct: 177 DDRKWDDMIKEATEKGFLKDTGECERILEDMLSWDKLLPDEIKQKVEQKFNELGDMCERG 236

Query: 236 ELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVT 295
           ELEPE+AYELFK+FED++V E  + +E E PP++D    PD K  +DDPPGEGPILRW T
Sbjct: 237 ELEPEKAYELFKEFEDKMVMECAQLMEAEGPPQFDETPEPDKKLRLDDPPGEGPILRWQT 296

Query: 296 RAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFE 355
           R VFAPGGDAWHPKNRKVKM+VTVKELGLSK+QFRRLRELVGKRYHPG+DELTITSERFE
Sbjct: 297 RVVFAPGGDAWHPKNRKVKMAVTVKELGLSKHQFRRLRELVGKRYHPGRDELTITSERFE 356

Query: 356 HREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSN 415
           HREENRKDCLRTLFSLIEEAGKANK+ +DARASYVKDRLRANP FMERLRAK +  +GSN
Sbjct: 357 HREENRKDCLRTLFSLIEEAGKANKLAEDARASYVKDRLRANPMFMERLRAKTMRLQGSN 416

Query: 416 SIHA 419
           S  A
Sbjct: 417 SAAA 420

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356525060|ref|XP_003531145.1| PREDICTED: uncharacterized protein LOC100793641 [Glycine max]

 Score =  588 bits (1515), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 289/419 (68%), Positives = 342/419 (81%), Gaps = 29/419 (6%)

Query: 1   MRRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPAPE 60
           MRRTL+RN SL +RNLLH+          LAAS+R Q RL+SS+          P P P+
Sbjct: 1   MRRTLVRNGSLYTRNLLHHS------ALALAASSRPQFRLFSSNEN--------PPPVPQ 46

Query: 61  TALTAQTQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKHEETDD 120
                          ++DV+NKELK +I+ YFKGDE+ LPSI+EAIL+R+L G HE+TDD
Sbjct: 47  ---------------IDDVNNKELKAQIETYFKGDEKVLPSIMEAILKRKLSGNHEDTDD 91

Query: 121 ELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKW 180
           EL EELR++PLDDV D++FESDFE ++ TDEEIDDLY+ARD V+K+MVKDEYFNMDDKKW
Sbjct: 92  ELMEELRMRPLDDVDDRDFESDFESIHDTDEEIDDLYNARDVVMKRMVKDEYFNMDDKKW 151

Query: 181 DEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPE 240
           D+++ + ++HG L+DT+ECEEILEDMLSWDKLLPDD+K+KVE KFNELGDMCE GELEPE
Sbjct: 152 DDIVEDGIKHGLLRDTKECEEILEDMLSWDKLLPDDIKQKVEVKFNELGDMCERGELEPE 211

Query: 241 QAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAVFA 300
           +AYE FKKFEDE+VA+Y+ ++E EE  ++D   VPD KKD+DDPPGEGPILRW TR VFA
Sbjct: 212 EAYEQFKKFEDEIVAKYLDKMEKEEASQFDDTVVPDKKKDLDDPPGEGPILRWQTRVVFA 271

Query: 301 PGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREEN 360
           PGGDAWHPKNRKVK+SVTVKELGLSKYQFRRLRELVGKRYHPG+DELTITSERFEHREEN
Sbjct: 272 PGGDAWHPKNRKVKLSVTVKELGLSKYQFRRLRELVGKRYHPGRDELTITSERFEHREEN 331

Query: 361 RKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNSIHA 419
           RKDCLRTL SLIEEAGKANK+VDDAR+SYVK+RL  NPAFMERL AK +  + SN + A
Sbjct: 332 RKDCLRTLLSLIEEAGKANKLVDDARSSYVKERLHTNPAFMERLHAKSMRLRESNQVPA 390

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135421|ref|XP_002322069.1| predicted protein [Populus trichocarpa] gi|222869065|gb|EEF06196.1| predicted protein [Populus trichocarpa]

 Score =  588 bits (1515), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 288/410 (70%), Positives = 345/410 (84%), Gaps = 7/410 (1%)

Query: 1   MRRTLLRNASLISRNLLHNPNHNQPFIP--PLAASTRTQLRLYSSDSKDSSNDQRAPDPA 58
           MRR L RN +L +R+LL +  H  P IP   LAAST  +LR YS    DSSN+   PDP 
Sbjct: 1   MRRFLPRNVTLYTRHLLQSSPHPNPTIPNPSLAASTHPRLRFYS----DSSNNT-PPDPL 55

Query: 59  PETALTAQTQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVGKHEET 118
           PE++  A+ +KKD S +V+DVSNKEL+  +DKYFKGD E LPSI+EA+LQR+L  KHEET
Sbjct: 56  PESSALAELKKKDDSDEVKDVSNKELREMMDKYFKGDGEVLPSIMEAVLQRKLSRKHEET 115

Query: 119 DDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDK 178
           DDEL EELR+KPL DV  +EF+SDF+ELY TD+E++DL  A+++V KKM++D+YFNMDDK
Sbjct: 116 DDELMEELRMKPLSDVDAEEFQSDFDELYETDKELNDLCDAKEYVAKKMMQDQYFNMDDK 175

Query: 179 KWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELE 238
           KWDEM+ EA+ HG++KDT+ECEEILEDMLSWDKLLPDD+K+KVE+KFNELGDMCE GE+E
Sbjct: 176 KWDEMVKEAMDHGFIKDTKECEEILEDMLSWDKLLPDDIKEKVEKKFNELGDMCERGEIE 235

Query: 239 PEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAV 298
            E+AYELFKKFEDE+V +Y+K++E E PP++D   VPD KK +DDPPG GPI+RW TR V
Sbjct: 236 AEEAYELFKKFEDELVMDYVKKMEAEGPPQFDEATVPDKKKHLDDPPGVGPIIRWQTRVV 295

Query: 299 FAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHRE 358
           FAPGGDAWHPKNRKVKMS+TVKELGLSK QFRRLRELVGKRYHPG+DELTITSERFEHRE
Sbjct: 296 FAPGGDAWHPKNRKVKMSITVKELGLSKPQFRRLRELVGKRYHPGRDELTITSERFEHRE 355

Query: 359 ENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKV 408
           ENRKDCLRTLF+LIEEAGKA K+ ++AR SY KDRLRANPAFM RL +K+
Sbjct: 356 ENRKDCLRTLFALIEEAGKATKLAEEARVSYCKDRLRANPAFMVRLHSKI 405

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439095|ref|XP_004137323.1| PREDICTED: uncharacterized protein LOC101215739 [Cucumis sativus]

 Score =  574 bits (1480), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 294/425 (69%), Positives = 342/425 (80%), Gaps = 14/425 (3%)

Query: 1   MRRTLLRNASLISRN--LLHNP-----NHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQR 53
           M+  LLRN  L +RN  LL +P      H   F+ P A S   + RL+SSD+   S +  
Sbjct: 1   MKWILLRNLPLRARNHLLLRSPIYTSNAHPSFFLSPPAIS---RFRLFSSDNDSPSKEDS 57

Query: 54  APDPAPETALTAQ---TQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRR 110
            P    +T   A    TQKK+  +DV+DVSNKELKMRI +YFKG+EEALPSILEAILQR+
Sbjct: 58  PPKEDSQTVPQANLVSTQKKEACLDVQDVSNKELKMRIKEYFKGNEEALPSILEAILQRK 117

Query: 111 LVGKHEETDDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKD 170
           L  KHE+TDDEL EELR+KPL+DVKD+EFESDFEEL+ TDEEIDDLY A++ V+++M KD
Sbjct: 118 LARKHEDTDDELVEELRMKPLEDVKDREFESDFEELHDTDEEIDDLYYAKNLVMERMAKD 177

Query: 171 EYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGD 230
            YFNMDDKKW++++ +AV HG L DT+ CE ILEDMLSWDKLLPDD+KKKVE +FNELGD
Sbjct: 178 PYFNMDDKKWEDIVQDAVNHGILSDTKACEAILEDMLSWDKLLPDDLKKKVEARFNELGD 237

Query: 231 MCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPI 290
           +CE GELEPE+AY  FKKFEDEVV EY K +E  E P +D   V D KKD+DDPPGEGPI
Sbjct: 238 LCEKGELEPEEAYNQFKKFEDEVVMEYGKMMEA-EAPTFDETDVQDNKKDLDDPPGEGPI 296

Query: 291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTIT 350
           LRW TR VFAPGGDAWHP+NRKVK+SVTVKELGLSK+QFRRLRELVGKRYHPGKDELTIT
Sbjct: 297 LRWQTRVVFAPGGDAWHPRNRKVKLSVTVKELGLSKFQFRRLRELVGKRYHPGKDELTIT 356

Query: 351 SERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLS 410
           SERFEHREENRKDCLRTL SLIEEAGKAN++V+DAR  YVK+RLRANP FMERLRAK +S
Sbjct: 357 SERFEHREENRKDCLRTLLSLIEEAGKANQLVEDARTLYVKERLRANPQFMERLRAKKMS 416

Query: 411 SKGSN 415
           S+ S+
Sbjct: 417 SQVSS 421

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449497558|ref|XP_004160435.1| PREDICTED: uncharacterized protein LOC101223559 [Cucumis sativus]

 Score =  570 bits (1468), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 289/422 (68%), Positives = 338/422 (80%), Gaps = 8/422 (1%)

Query: 1   MRRTLLRNASLISRN--LLHNPNHNQPFIPPLAAS--TRTQLRLYSSDSKDSSNDQRAPD 56
           M+  LLRN  L +RN  LL +P +     P  + S    ++ RL+SSD+   S +   P 
Sbjct: 1   MKWILLRNLPLRARNHLLLRSPIYTSNAHPSFSLSPPATSRFRLFSSDNDSPSKEDSPPK 60

Query: 57  PAPETALTAQ---TQKKDVSIDVEDVSNKELKMRIDKYFKGDEEALPSILEAILQRRLVG 113
              +T   A    TQKK+  +DV+DVSNKELKMRI +YFKG+EEALPSILEAILQR+L  
Sbjct: 61  EDSQTVPQANLVSTQKKEACLDVQDVSNKELKMRIKEYFKGNEEALPSILEAILQRKLAR 120

Query: 114 KHEETDDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYF 173
           KHE+TDDEL EELR+KPL+DVKD+EFESDFEEL+ TDEEIDDLY A++ V+++M KD YF
Sbjct: 121 KHEDTDDELVEELRMKPLEDVKDREFESDFEELHDTDEEIDDLYYAKNLVMERMAKDPYF 180

Query: 174 NMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCE 233
           NMDDKKW++++ +AV HG L DT+ CE ILEDMLSWDKLLPDD+KK    KFNELGD+CE
Sbjct: 181 NMDDKKWEDIVQDAVNHGILNDTKACEAILEDMLSWDKLLPDDLKKXXXAKFNELGDLCE 240

Query: 234 SGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRW 293
            GELEPE+AY  FKKFEDEVV EY K +E  E P +D   V D KKD+DDPPGEGPILRW
Sbjct: 241 KGELEPEEAYNQFKKFEDEVVMEYGKMMEA-EAPTFDETDVQDNKKDLDDPPGEGPILRW 299

Query: 294 VTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSER 353
            TR VFAPGGDAWHP+NRKVK+SVTVKELGLSK+QFRRLRELVGKRYHPGKDELTITSER
Sbjct: 300 QTRVVFAPGGDAWHPRNRKVKLSVTVKELGLSKFQFRRLRELVGKRYHPGKDELTITSER 359

Query: 354 FEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKG 413
           FEHREENRKDCLRTL SLIEEAGKAN++V+DAR  YVK+RLRANP FMERLRAK +SS+ 
Sbjct: 360 FEHREENRKDCLRTLLSLIEEAGKANQLVEDARTLYVKERLRANPQFMERLRAKKMSSQV 419

Query: 414 SN 415
           S+
Sbjct: 420 SS 421

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18401816|ref|NP_566603.1| ribosomal protein S24/S35 [Arabidopsis thaliana] gi|30684850|ref|NP_850608.1| ribosomal protein S24/S35 [Arabidopsis thaliana] gi|11692818|gb|AAG40012.1|AF324661_1 AT3g18240 [Arabidopsis thaliana] gi|11908120|gb|AAG41489.1|AF326907_1 unknown protein [Arabidopsis thaliana] gi|13194810|gb|AAK15567.1|AF349520_1 unknown protein [Arabidopsis thaliana] gi|9279658|dbj|BAB01174.1| unnamed protein product [Arabidopsis thaliana] gi|21536541|gb|AAM60873.1| unknown [Arabidopsis thaliana] gi|222422869|dbj|BAH19421.1| AT3G18240 [Arabidopsis thaliana] gi|332642549|gb|AEE76070.1| ribosomal protein S24/S35 [Arabidopsis thaliana] gi|332642550|gb|AEE76071.1| ribosomal protein S24/S35 [Arabidopsis thaliana]

 Score =  544 bits (1402), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 276/427 (64%), Positives = 340/427 (79%), Gaps = 16/427 (3%)

Query: 1   MRRTLLRNASLISRNLL------HNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRA 54
           MR  LLRNASL +R ++      H  + N PF+ P+AA    + R +SS+S ++S     
Sbjct: 1   MRGALLRNASLCARRIILSPRITHQISPNVPFLAPIAAPAAPKFRFFSSESGENST---- 56

Query: 55  PDPAPETALTAQTQKKDVSIDVEDVSNKELKMRIDKYF-KGDEEALPSILEAILQRRLVG 113
              APE++ T   +KKD+   VEDVSNKELK RI+KYF +G+E+ALP ++EA+LQRRLV 
Sbjct: 57  --TAPESSPTDSPEKKDLV--VEDVSNKELKSRIEKYFNEGNEDALPGVIEALLQRRLVD 112

Query: 114 KHEETDDELTEELRLKPL-DDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEY 172
           KH ETDDEL E++   P  DDVKD++FESDFEE ++TDEE++DLY++ ++V +KM K+E+
Sbjct: 113 KHAETDDELLEKIESLPFKDDVKDEDFESDFEEAHSTDEELEDLYNSPEYVAEKMRKNEF 172

Query: 173 FNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMC 232
           FNMDDKKWD MI E +QHG L DT+ECEEILEDML WD+LLPDD+KKKVE KFNELGDMC
Sbjct: 173 FNMDDKKWDHMIREGIQHGCLTDTKECEEILEDMLKWDQLLPDDLKKKVEAKFNELGDMC 232

Query: 233 ESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILR 292
           E GE+E E AYELFK+FEDE+V +Y  Q+E E PP++      D   D+DDPPG+GPILR
Sbjct: 233 ERGEIEAEAAYELFKEFEDEMVIQYGDQMEAEGPPQFGETDASDRNTDLDDPPGKGPILR 292

Query: 293 WVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSE 352
           W +R VFAPGGDAWHPKNRKVKMSVTVKELGLSK+Q +RLRELVGKRYH GKDELTITSE
Sbjct: 293 WQSRIVFAPGGDAWHPKNRKVKMSVTVKELGLSKHQAKRLRELVGKRYHSGKDELTITSE 352

Query: 353 RFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSK 412
           RFEHREENRKDCLRTL+ LIEEAGKANK+ +D R SYVK RLRANPAFM++L+AK++ SK
Sbjct: 353 RFEHREENRKDCLRTLYGLIEEAGKANKIAEDIRTSYVKQRLRANPAFMQKLQAKIIRSK 412

Query: 413 GSNSIHA 419
            S++I+A
Sbjct: 413 ESDAINA 419

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186512105|ref|NP_567628.2| ribosomal protein S24/S35 [Arabidopsis thaliana] gi|51968370|dbj|BAD42877.1| putative protein [Arabidopsis thaliana] gi|332659056|gb|AEE84456.1| ribosomal protein S24/S35 [Arabidopsis thaliana]

 Score =  536 bits (1380), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 268/423 (63%), Positives = 332/423 (78%), Gaps = 12/423 (2%)

Query: 1   MRRTLLRNASLISRNLLHNP--NHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPA 58
           MR  L RNASL +R ++ +   + N PF+ P+AA    + R +SS+S ++S        A
Sbjct: 1   MRGALFRNASLCARRIILSSRISPNVPFLTPIAAPAPPKFRFFSSESGENST------TA 54

Query: 59  PETALTAQTQKKDVSIDVEDVSNKELKMRIDKYF-KGDEEALPSILEAILQRRLVGKHEE 117
            E++ T  + KKD+   VEDVSNKELK RIDK F +G+E+ALP ++EA+LQRRLV KH E
Sbjct: 55  TESSPTDSSDKKDLV--VEDVSNKELKSRIDKSFNEGNEDALPGVIEALLQRRLVDKHAE 112

Query: 118 TDDELTEELRLKPL-DDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMD 176
           TDDEL E++   P  DDVKD++FESDFEE ++TDEE++DLY++ ++V +KM K E+FNMD
Sbjct: 113 TDDELMEKIESLPFKDDVKDEDFESDFEEAHSTDEELEDLYNSPEYVAEKMRKKEFFNMD 172

Query: 177 DKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGE 236
           D KWD MI E +QHG L DT++CEEILEDML WD+LLPDD+KKKVE KFNELGDMCE GE
Sbjct: 173 DNKWDHMIREGIQHGCLTDTKQCEEILEDMLKWDQLLPDDLKKKVEAKFNELGDMCERGE 232

Query: 237 LEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTR 296
           +E E AYELFK+FEDE+V +Y  Q+E E PP++      D   D+DDP G+GPILRW +R
Sbjct: 233 IEAEAAYELFKEFEDEMVIQYGDQMEAEGPPQFGETDTSDRNTDLDDPSGKGPILRWQSR 292

Query: 297 AVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEH 356
            VFAPGGDAWHPKNRKVKMSVTVKELGLS +Q +RLRELVGKRYH GKDELTIT ERFEH
Sbjct: 293 IVFAPGGDAWHPKNRKVKMSVTVKELGLSNHQAKRLRELVGKRYHSGKDELTITCERFEH 352

Query: 357 REENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNS 416
           REENRKDCLRTL+ LIEEAGKANK+ +D R SYVK RLRA+PAFM++L+AK++ SK SN+
Sbjct: 353 REENRKDCLRTLYGLIEEAGKANKIAEDIRTSYVKQRLRASPAFMQKLQAKIIRSKESNA 412

Query: 417 IHA 419
           I+A
Sbjct: 413 INA 415

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297830480|ref|XP_002883122.1| hypothetical protein ARALYDRAFT_479322 [Arabidopsis lyrata subsp. lyrata] gi|297328962|gb|EFH59381.1| hypothetical protein ARALYDRAFT_479322 [Arabidopsis lyrata subsp. lyrata]

 Score =  524 bits (1349), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 269/429 (62%), Positives = 330/429 (76%), Gaps = 17/429 (3%)

Query: 1   MRRTLLRNASLISRNLL------HNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRA 54
           MR  L RNASL +R  +      H  + N PF+ P+A+    +   +SS+S  S  +   
Sbjct: 1   MRGALFRNASLCARRFILSPRITHQISPNVPFLAPIASPAPLKFSFFSSESDSSGENST- 59

Query: 55  PDPAPETALTAQTQKKDVSID--VEDVSNKELKMRIDKYF-KGDEEALPSILEAILQRRL 111
                 TA  +   +     D  VEDVSNKELK RI+KYF +G+E+ALP ++EA+LQRRL
Sbjct: 60  ------TAPDSSPSESSDKKDLVVEDVSNKELKSRIEKYFNEGNEDALPGVIEALLQRRL 113

Query: 112 VGKHEETDDELTEELRLKPL-DDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKD 170
             KH ETDDEL E++   P  DDVKD++FESDFE+ ++TDEE++DLY++ ++V +KM K+
Sbjct: 114 ADKHAETDDELIEKIETLPFKDDVKDEDFESDFEDAHSTDEELEDLYNSPEYVAEKMRKN 173

Query: 171 EYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGD 230
           E+FNMDDKKWD MI E +QHG L DT+ECEEILEDML WD+LLPDD+KKKVE KFNELGD
Sbjct: 174 EFFNMDDKKWDHMIREGIQHGCLTDTKECEEILEDMLKWDQLLPDDLKKKVEAKFNELGD 233

Query: 231 MCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPI 290
           MCE GELE E AYELFK+FEDE+V +Y  Q+E E PP++      D K D+DDPPG+GPI
Sbjct: 234 MCERGELEAEAAYELFKEFEDEMVIQYGDQMEAEGPPQFGETDASDRKTDLDDPPGKGPI 293

Query: 291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTIT 350
           LRW +R VFAPGGDAWHPKNRKVKMSVTVKELGLSK+Q +RLRELVGKRYH GKDELTIT
Sbjct: 294 LRWQSRIVFAPGGDAWHPKNRKVKMSVTVKELGLSKHQAKRLRELVGKRYHSGKDELTIT 353

Query: 351 SERFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLS 410
           SERFEHREENRKDCLRTL+ LIEEAGKANK+ +D R SYVK RLRANPAFM++L+AK++ 
Sbjct: 354 SERFEHREENRKDCLRTLYGLIEEAGKANKIAEDIRTSYVKQRLRANPAFMQKLQAKIIR 413

Query: 411 SKGSNSIHA 419
           SK S++I+A
Sbjct: 414 SKESDAINA 422

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3080390|emb|CAA18710.1| putative protein [Arabidopsis thaliana] gi|7268943|emb|CAB81253.1| putative protein [Arabidopsis thaliana]

 Score =  523 bits (1346), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 259/409 (63%), Positives = 323/409 (78%), Gaps = 10/409 (2%)

Query: 13  SRNLLHNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPAPETALTAQTQKKDV 72
           +R+   + + N PF+ P+AA    + R +SS+S ++S        A E++ T  + KKD+
Sbjct: 20  NRSFFCSISPNVPFLTPIAAPAPPKFRFFSSESGENST------TATESSPTDSSDKKDL 73

Query: 73  SIDVEDVSNKELKMRIDKYF-KGDEEALPSILEAILQRRLVGKHEETDDELTEELRLKPL 131
              V+DVSNKELK RIDK F +G+E+ALP ++EA+LQRRLV KH ETDDEL E++   P 
Sbjct: 74  V--VKDVSNKELKSRIDKSFNEGNEDALPGVIEALLQRRLVDKHAETDDELMEKIESLPF 131

Query: 132 -DDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQH 190
            DDVKD++FESDFEE ++TDEE++DLY++ ++V +KM K E+FNMDD KWD MI E +QH
Sbjct: 132 KDDVKDEDFESDFEEAHSTDEELEDLYNSPEYVAEKMRKKEFFNMDDNKWDHMIREGIQH 191

Query: 191 GYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFE 250
           G L DT++CEEILEDML WD+LLPDD+KKKVE KFNELGDMCE GE+E E AYELFK+FE
Sbjct: 192 GCLTDTKQCEEILEDMLKWDQLLPDDLKKKVEAKFNELGDMCERGEIEAEAAYELFKEFE 251

Query: 251 DEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTRAVFAPGGDAWHPKN 310
           DE+V +Y  Q+E E PP++      D   D+DDP G+GPILRW +R VFAPGGDAWHPKN
Sbjct: 252 DEMVIQYGDQMEAEGPPQFGETDTSDRNTDLDDPSGKGPILRWQSRIVFAPGGDAWHPKN 311

Query: 311 RKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS 370
           RKVKMSVTVKELGLS +Q +RLRELVGKRYH GKDELTIT ERFEHREENRKDCLRTL+ 
Sbjct: 312 RKVKMSVTVKELGLSNHQAKRLRELVGKRYHSGKDELTITCERFEHREENRKDCLRTLYG 371

Query: 371 LIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNSIHA 419
           LIEEAGKANK+ +D R SYVK RLRA+PAFM++L+AK++ SK SN+I+A
Sbjct: 372 LIEEAGKANKIAEDIRTSYVKQRLRASPAFMQKLQAKIIRSKESNAINA 420

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	419
TAIR|locus:2089653	419	AT3G18240 "AT3G18240" [Arabido	0.980	0.980	0.632	3.4e-141
TAIR|locus:2119637	415	AT4G21460 "AT4G21460" [Arabido	0.980	0.990	0.617	4.1e-136
SGD|S000002582	319	RSM24 "Mitochondrial ribosomal	0.434	0.570	0.265	3.3e-06
TAIR|locus:2027824	191	AT1G73770 "AT1G73770" [Arabido	0.322	0.706	0.319	8.4e-06

TAIR|locus:2089653 AT3G18240 "AT3G18240" [Arabidopsis thaliana (taxid:3702)]

 Score = 1381 (491.2 bits), Expect = 3.4e-141, P = 3.4e-141
 Identities = 270/427 (63%), Positives = 332/427 (77%)

Query:     1 MRRTLLRNASLISRNLLHNPN--H----NQPFIPPLAASTRTQLRLYSSDSKDSSNDQRA 54
             MR  LLRNASL +R ++ +P   H    N PF+ P+AA    + R +SS+S ++S     
Sbjct:     1 MRGALLRNASLCARRIILSPRITHQISPNVPFLAPIAAPAAPKFRFFSSESGENSTT--- 57

Query:    55 PDPAPETALTAQTQKKDVSIDVEDVSNKELKMRIDKYF-KGDEEALPSILEAILQRRLVG 113
                APE++ T   +KKD+   VEDVSNKELK RI+KYF +G+E+ALP ++EA+LQRRLV 
Sbjct:    58 ---APESSPTDSPEKKDLV--VEDVSNKELKSRIEKYFNEGNEDALPGVIEALLQRRLVD 112

Query:   114 KHXXXXXXXXXXXRLKPL-DDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEY 172
             KH              P  DDVKD++FESDFEE ++TDEE++DLY++ ++V +KM K+E+
Sbjct:   113 KHAETDDELLEKIESLPFKDDVKDEDFESDFEEAHSTDEELEDLYNSPEYVAEKMRKNEF 172

Query:   173 FNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMC 232
             FNMDDKKWD MI E +QHG L DT+ECEEILEDML WD+LLPDD+KKKVE KFNELGDMC
Sbjct:   173 FNMDDKKWDHMIREGIQHGCLTDTKECEEILEDMLKWDQLLPDDLKKKVEAKFNELGDMC 232

Query:   233 ESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILR 292
             E GE+E E AYELFK+FEDE+V +Y  Q+E E PP++      D   D+DDPPG+GPILR
Sbjct:   233 ERGEIEAEAAYELFKEFEDEMVIQYGDQMEAEGPPQFGETDASDRNTDLDDPPGKGPILR 292

Query:   293 WVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSE 352
             W +R VFAPGGDAWHPKNRKVKMSVTVKELGLSK+Q +RLRELVGKRYH GKDELTITSE
Sbjct:   293 WQSRIVFAPGGDAWHPKNRKVKMSVTVKELGLSKHQAKRLRELVGKRYHSGKDELTITSE 352

Query:   353 RFEHREENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSK 412
             RFEHREENRKDCLRTL+ LIEEAGKANK+ +D R SYVK RLRANPAFM++L+AK++ SK
Sbjct:   353 RFEHREENRKDCLRTLYGLIEEAGKANKIAEDIRTSYVKQRLRANPAFMQKLQAKIIRSK 412

Query:   413 GSNSIHA 419
              S++I+A
Sbjct:   413 ESDAINA 419

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2119637 AT4G21460 "AT4G21460" [Arabidopsis thaliana (taxid:3702)]

 Score = 1333 (474.3 bits), Expect = 4.1e-136, P = 4.1e-136
 Identities = 261/423 (61%), Positives = 323/423 (76%)

Query:     1 MRRTLLRNASLISRNLLHNP--NHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPA 58
             MR  L RNASL +R ++ +   + N PF+ P+AA    + R +SS+S ++S        A
Sbjct:     1 MRGALFRNASLCARRIILSSRISPNVPFLTPIAAPAPPKFRFFSSESGENSTT------A 54

Query:    59 PETALTAQTQKKDVSIDVEDVSNKELKMRIDKYF-KGDEEALPSILEAILQRRLVGKHXX 117
              E++ T  + KKD+   VEDVSNKELK RIDK F +G+E+ALP ++EA+LQRRLV KH  
Sbjct:    55 TESSPTDSSDKKDLV--VEDVSNKELKSRIDKSFNEGNEDALPGVIEALLQRRLVDKHAE 112

Query:   118 XXXXXXXXXRLKPL-DDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMD 176
                         P  DDVKD++FESDFEE ++TDEE++DLY++ ++V +KM K E+FNMD
Sbjct:   113 TDDELMEKIESLPFKDDVKDEDFESDFEEAHSTDEELEDLYNSPEYVAEKMRKKEFFNMD 172

Query:   177 DKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGDMCESGE 236
             D KWD MI E +QHG L DT++CEEILEDML WD+LLPDD+KKKVE KFNELGDMCE GE
Sbjct:   173 DNKWDHMIREGIQHGCLTDTKQCEEILEDMLKWDQLLPDDLKKKVEAKFNELGDMCERGE 232

Query:   237 LEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPILRWVTR 296
             +E E AYELFK+FEDE+V +Y  Q+E E PP++      D   D+DDP G+GPILRW +R
Sbjct:   233 IEAEAAYELFKEFEDEMVIQYGDQMEAEGPPQFGETDTSDRNTDLDDPSGKGPILRWQSR 292

Query:   297 AVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEH 356
              VFAPGGDAWHPKNRKVKMSVTVKELGLS +Q +RLRELVGKRYH GKDELTIT ERFEH
Sbjct:   293 IVFAPGGDAWHPKNRKVKMSVTVKELGLSNHQAKRLRELVGKRYHSGKDELTITCERFEH 352

Query:   357 REENRKDCLRTLFSLIEEAGKANKMVDDARASYVKDRLRANPAFMERLRAKVLSSKGSNS 416
             REENRKDCLRTL+ LIEEAGKANK+ +D R SYVK RLRA+PAFM++L+AK++ SK SN+
Sbjct:   353 REENRKDCLRTLYGLIEEAGKANKIAEDIRTSYVKQRLRASPAFMQKLQAKIIRSKESNA 412

Query:   417 IHA 419
             I+A
Sbjct:   413 INA 415

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

SGD|S000002582 RSM24 "Mitochondrial ribosomal protein of the small subunit" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 135 (52.6 bits), Expect = 3.3e-06, P = 3.3e-06
 Identities = 53/200 (26%), Positives = 91/200 (45%)

Query:   180 WDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKK---KVEQKFNEL--GDMCES 234
             W+ M     ++   KD  E   +L     +  +  +D+KK   + EQ   ++  G++   
Sbjct:    70 WERMARLGSEYKPNKD--ELNALLTTS-EYSNVPVNDIKKLYHRGEQGAIDIKGGNVNRD 126

Query:   235 GELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDP-PGEGPILRW 293
               L P    EL  + + E+VA++ +Q        Y+ P +   +++   P P   P+   
Sbjct:   127 NSLRPFMFDELPSQAQ-ELVAQHREQRFYNRLAAYELPLLAQYRQEYKRPSPESHPVTYR 185

Query:   294 VTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSER 353
              T  V    G+  HP +RKV +SV  KELGL +    + R L   RY    D   ++S++
Sbjct:   186 YTSYV----GEE-HPNSRKVVLSVKTKELGLEEKSLHKFRILARSRYDHTTDIFKMSSDK 240

Query:   354 FEHREENRK---DCLRTLFS 370
             FEH  +N +   D L+ L +
Sbjct:   241 FEHASQNARYLHDILQRLLA 260

GO:0005739 "mitochondrion" evidence=IEA;IDA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005763 "mitochondrial small ribosomal subunit" evidence=IPI

GO:0032543 "mitochondrial translation" evidence=IC

GO:0003735 "structural constituent of ribosome" evidence=IPI

TAIR|locus:2027824 AT1G73770 "AT1G73770" [Arabidopsis thaliana (taxid:3702)]

 Score = 124 (48.7 bits), Expect = 8.4e-06, P = 8.4e-06
 Identities = 54/169 (31%), Positives = 81/169 (47%)

Query:     1 MRRTLLRNASLISRNLLHNPNHNQPFIPPLAASTRTQLRLYSSDSKDSSNDQRAPDPAPE 60
             MRR L R  SL++RN+LH+P           A+ R  LR+         N+ R   P  E
Sbjct:     1 MRRFLQRVPSLLARNILHSP-----------ANFR-HLRI---------NNPRVVVPLFE 39

Query:    61 TALTAQ---TQKKDVS--IDVEDV-SNKELKMRIDKYFK-GDEEALPSILEAILQRRLVG 113
              A++     + + D S     E+V S +ELK RI  +   G+E+A+P + EA++ R+L G
Sbjct:    40 RAISRFVFFSSESDSSRGFRTEEVLSKEELKKRIQSFLDDGNEDAIPDLFEALMIRKLSG 99

Query:   114 KHXXXXXXXXXXXRLKPLDDV-KDQEFESDFE-----ELYATDEEIDDL 156
             KH           R  P++D  K  + +SD E     +   +D E DDL
Sbjct:   100 KHDDSDDEVMDVVRKYPVNDAHKVDDIDSDIESDGHGDSSDSDIESDDL 148


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.314   0.133   0.380    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      419       408   0.00079  118 3  11 23  0.45    34
                                                     34  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  612 (65 KB)
  Total size of DFA:  261 KB (2139 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  45.81u 0.24s 46.05t   Elapsed:  00:00:02
  Total cpu time:  45.81u 0.24s 46.05t   Elapsed:  00:00:02
  Start:  Sat May 11 15:03:11 2013   End:  Sat May 11 15:03:13 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00017732001 SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (420 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	419
pfam10213	122	pfam10213, MRP-S28, Mitochondrial ribosomal subuni	2e-16

>gnl|CDD|220632 pfam10213, MRP-S28, Mitochondrial ribosomal subunit protein

 Score = 74.7 bits (184), Expect = 2e-16
 Identities = 28/78 (35%), Positives = 43/78 (55%)

Query: 307 HPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLR 366
           HP +RKV + V V +LGL + Q  +L+ L G RY+P  D + I+S+RF    +N++    
Sbjct: 23  HPASRKVVLEVKVADLGLDEKQRHKLKLLAGPRYNPETDIIKISSDRFPSAAQNKRYLGD 82

Query: 367 TLFSLIEEAGKANKMVDD 384
            L +L  EA       +D
Sbjct: 83  LLTALYHEAKDLTDDFED 100

This is a conserved region of approx. 125 residues of one of the proteins that makes up the small subunit of the mitochondrial ribosome. In Saccharomyces cerevisiae the protein is MRP-S24 whereas in humans it is MRP-S28. The human mitochondrial ribosome has 29 distinct proteins in the small subunit and these have homologues in, for example, Drosophila melanogaster, Caenorhabditis elegans, and in the genomes of several fungi. Length = 122

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	419
KOG3933	296	consensus Mitochondrial ribosomal protein S28 [Tra	100.0
PF10213	127	MRP-S28: Mitochondrial ribosomal subunit protein ;	100.0
PRK09256	138	hypothetical protein; Provisional	99.46
KOG3429	172	consensus Predicted peptidyl-tRNA hydrolase [Trans	98.97
PF00472	113	RF-1: RF-1 domain; InterPro: IPR000352 Peptide cha	98.13
COG1186	239	PrfB Protein chain release factor B [Translation,	97.26
TIGR03072	200	release_prfH putative peptide chain release factor	97.05
PRK08179	200	prfH peptide chain release factor-like protein; Re	96.8
PRK00591	359	prfA peptide chain release factor 1; Validated	96.49
PRK07342	339	peptide chain release factor 2; Provisional	96.47
PRK08787	313	peptide chain release factor 2; Provisional	96.46
TIGR00019	360	prfA peptide chain release factor 1. This model de	96.44
PRK06746	326	peptide chain release factor 2; Provisional	96.43
PRK05589	325	peptide chain release factor 2; Provisional	96.43
PRK00578	367	prfB peptide chain release factor 2; Validated	95.83
TIGR00020	364	prfB peptide chain release factor 2. In many but n	95.59
KOG2726	386	consensus Mitochondrial polypeptide chain release	88.28
COG0216	363	PrfA Protein chain release factor A [Translation,	80.33

>KOG3933 consensus Mitochondrial ribosomal protein S28 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.1e-37  Score=300.93  Aligned_cols=258  Identities=24%  Similarity=0.174  Sum_probs=226.4

Q ss_pred             CCccchhccchhhhhhccchhhhhhhhhhhHhhhhccccccccCCchhhHHHHHHHHhcCcccchhhHHHHhhhcccccc
Q 014729          132 DDVKDQEFESDFEELYATDEEIDDLYSARDHVVKKMVKDEYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDK  211 (419)
Q Consensus       132 ~~v~d~~fesdfe~~~~td~e~~dl~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ed~~~~d~  211 (419)
                      .+|.+.+++++|++.++++.+..++|++ ++++.+|+.-++|||++     ++..++-.|+..+..+ .++++.+..|+.
T Consensus         2 ~~~~~~~~~~~~~~~r~~~~~~e~~~~s-~~~~~~~~~rt~~~~r~-----~r~~~~~~~~~~~~~~-q~~ls~~~~~~~   74 (296)
T KOG3933|consen    2 ARVLTMSKCLNQSAGRELKTVRERPAFS-DLYMHPLKWRTLPPQRI-----ERAFNLPPRTEKMDVE-QDWLSVSPFAAT   74 (296)
T ss_pred             cccchhhhhhhhhhhhhhhhhhcccccc-ccccccccccCCCccch-----hhhccCCccccccchh-hhhhhccccccc
Confidence            5788999999999999999999999999 99999999999999999     8999999999999999 999999999999


Q ss_pred             cCCcchhhHHHHHHHHhhcccccccCchhHHHHHhhhhhhHHHHHHHHhhhhcCCCCCCC-CCC------CCCCCCCCCC
Q 014729          212 LLPDDMKKKVEQKFNELGDMCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYDF-PAV------PDTKKDIDDP  284 (419)
Q Consensus       212 ~~~Ddi~~~~~~~~~e~rd~~e~~rl~~e~ay~~~ka~E~pll~~y~r~iE~E~P~l~~~-~~~------~~r~~kPF~P  284 (419)
                      |.|+..+-.+.++ +...++|..+...-+.+++.|+.|.+   +.+...++|+.+ +..+ |.-      |.+    |.+
T Consensus        75 ~~p~~v~l~vR~~-~~~~~k~~~~~ke~n~el~~i~nf~h---lt~~~i~qh~e~-~~r~~t~~~~ll~~~~~----~~~  145 (296)
T KOG3933|consen   75 FRPSSVPLPVRMG-SAYVSKGAPIEKEGNLELKKIPNFLH---LTPPAIQQHCEA-LKRFCTYEPGLLDYPQK----KKR  145 (296)
T ss_pred             cccccccceeecc-ccccccCCCCCccccccccccCcccc---cChHHHHHHHHH-HHhhcccccccCCCchh----hCC
Confidence            9999999999999 99999999999999999999999998   444444555555 3333 111      222    222


Q ss_pred             CCCCCceEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHH
Q 014729          285 PGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDC  364 (419)
Q Consensus       285 P~~~~ILr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl  364 (419)
                      |.   +++|.++.|+.+|++.+||.+|+|+|+|.+++|+|+++|+|||+.|||+|||+.+|+++|+||||+++.||++||
T Consensus       146 ~~---p~~i~~t~~~~sg~s~~~p~~RvVvmsvk~~eL~L~ehq~~klr~Lvg~RY~~~tD~~tissDR~~~r~QN~~y~  222 (296)
T KOG3933|consen  146 HL---PISIQSTDYFASGPSIRHPNSRVVVMSVKVKELGLSEHQRKKLRRLVGKRYNKTTDLLTISSDRCEHREQNYDYA  222 (296)
T ss_pred             CC---cccceeEEEeccCCcccCCCCceEEEEEEecccCccHHHHHHHHHHhhhccCCCCCeEEEeccccchhhHhHHHH
Confidence            21   247889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhccCC-----CCCcccchhHHhh--hcCCchhHHHhhhhh
Q 014729          365 LRTLFSLIEEAGKANK-----MVDDARASYVKDR--LRANPAFMERLRAKV  408 (419)
Q Consensus       365 ~d~L~~LI~EAk~~ek-----iplDTRhtk~kkR--kk~~~~FPeeW~~~~  408 (419)
                      +++|+.||+||+++++     +++|++|...+.-  +.+...|+..|+.+.
T Consensus       223 ~~lLt~L~~ES~k~~~~~~s~~~~d~~~~~~~~~~~k~~~~~~l~~~k~~~  273 (296)
T KOG3933|consen  223 LYLLTVLYHESGKTEKWDESKVPLDTEHYLFKSSAKKQKLEELLERSKLTE  273 (296)
T ss_pred             HHHHHHHHHHhcccchhhhhccchhhHHHHHhcchhhccHHHHHHHhhccc
Confidence            9999999999987766     7899999876633  334466999999887

>PF10213 MRP-S28: Mitochondrial ribosomal subunit protein ; InterPro: IPR019349 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=1.3e-36  Score=266.46  Aligned_cols=121  Identities=34%  Similarity=0.467  Sum_probs=113.3

Q ss_pred             CCCCCCCCCceEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhh
Q 014729          281 IDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREEN  360 (419)
Q Consensus       281 PF~PP~~~~ILr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQN  360 (419)
                      ||+||+++.+|+|+|++|+|.|    ||.++||+|+|+|++|||+++|+|||++|||+|||+++|+|+|+|++|++++||
T Consensus         1 ~f~pp~~~~pl~~~~~~y~~~~----~p~~rkV~l~v~l~dL~L~~~a~~Kl~~LaG~Ryd~~~d~l~i~sdr~~~~~qN   76 (127)
T PF10213_consen    1 PFKPPSPEFPLRFRYTDYMGES----HPANRKVVLQVKLSDLGLSEKARHKLKLLAGPRYDPETDILKISSDRFPTRAQN   76 (127)
T ss_pred             CCCCCCCCCCEEEEEEeecCCC----CCccCEEEEEEEHHhcCCCHHHHHHHHHHhhcccCCCCCEEEEecccCCCHHHH
Confidence            7999999999999999999655    999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCC----CCCcccchhHHhhhc--CCchhHHHhh
Q 014729          361 RKDCLRTLFSLIEEAGKANK----MVDDARASYVKDRLR--ANPAFMERLR  405 (419)
Q Consensus       361 rkyl~d~L~~LI~EAk~~ek----iplDTRhtk~kkRkk--~~~~FPeeW~  405 (419)
                      ++||+++|++||.||++..+    +|+|+||++.+.+++  +++.||++|+
T Consensus        77 ~~~l~~~l~~L~~EA~~~~~~f~dvpld~rh~~~~~~~~~~~~~~fP~eW~  127 (127)
T PF10213_consen   77 KKYLSDLLTRLIHEAKDLTDDFEDVPLDTRHEKAKWERKKKRNPEFPKEWK  127 (127)
T ss_pred             HHHHHHHHHHHHHHHhhccCChhhCcCcchHHHHHHhcccccccCCCcccC
Confidence            99999999999999999433    899999999986643  5689999996

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a conserved region of approx. 125 residues of one of the proteins that makes up the small subunit of the mitochondrial ribosome. In Saccharomyces cerevisiae (Baker's yeast) it is mitochondrial ribosomal protein S24 whereas in humans it is S35.

>PRK09256 hypothetical protein; Provisional

Probab=99.46  E-value=4.2e-13  Score=119.92  Aligned_cols=102  Identities=25%  Similarity=0.397  Sum_probs=93.5

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |.|+|.-=-|||||++|+++++|.|+|++....|++.++.+|....+.|++. +|.|.|+|+.+++|.+|++.|++.|..
T Consensus        15 l~~~~~RSSGPGGQ~VNKt~SkV~l~~~~~~~~lp~~~~~~l~~~~~~r~~~-~g~l~i~~~~~RSQ~~Nr~~al~kL~~   93 (138)
T PRK09256         15 LEWRFIRASGPGGQNVNKVSTAVELRFDIAASSLPEFYKERLLALAGHRITK-DGVIVIKAQEFRSQERNREDALERLVA   93 (138)
T ss_pred             eEEEEEEcCCCCcccccccceeeEEEechhhccCCHHHHHHHHHHhcCcccC-CCcEEEEECCcCCHHHHHHHHHHHHHH
Confidence            6777766679999999999999999999987799999999999999999986 899999999999999999999999999


Q ss_pred             HHHHHhccCCCCCcccchhHHhh
Q 014729          371 LIEEAGKANKMVDDARASYVKDR  393 (419)
Q Consensus       371 LI~EAk~~ekiplDTRhtk~kkR  393 (419)
                      +|.+|...++.+..+|+++..++
T Consensus        94 ~i~~~~~~p~~r~~tk~~~~~~~  116 (138)
T PRK09256         94 LIREALKPPKKRRATKPTRGSKE  116 (138)
T ss_pred             HHHHHhhccccccCCcccHHHHH
Confidence            99999998888888888876643

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

Probab=98.97  E-value=3.3e-09  Score=97.87  Aligned_cols=93  Identities=22%  Similarity=0.366  Sum_probs=81.3

Q ss_pred             CCCCc-eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCC-CCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHH
Q 014729          286 GEGPI-LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELG-LSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKD  363 (419)
Q Consensus       286 ~~~~I-Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~-Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrky  363 (419)
                      +-+.+ ++|.-.+  |||||++|++|+||.|+|+|+.-. |++.-+.+|+.---.|||. .|.|+|.|++-++|..|..+
T Consensus        38 pld~~~i~y~RSS--GPGGQNVNKvNTKv~vrf~vs~a~Wipe~~R~~~~~~~~~rink-~gelvI~Sd~TRsq~~NiaD  114 (172)
T KOG3429|consen   38 PLDQLEISYSRSS--GPGGQNVNKVNTKVEVRFKVSNAEWIPEFLRNKLLTTEKNRINK-DGELVIYSDKTRSQHKNIAD  114 (172)
T ss_pred             chhheEEEEeecC--CCCCcccccccceEEEEEecchhhhccHHHHHHHHHHHHHhhcc-CccEEEecchhHHhhccHHH
Confidence            34555 6655544  999999999999999999997664 8999999999988999997 77799999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCC
Q 014729          364 CLRTLFSLIEEAGKANKM  381 (419)
Q Consensus       364 l~d~L~~LI~EAk~~eki  381 (419)
                      |++-|..+|.+|-..+.+
T Consensus       115 cleKlr~~I~~~~~~~~~  132 (172)
T KOG3429|consen  115 CLEKLRDIIRAAEQTPPV  132 (172)
T ss_pred             HHHHHHHHHHHHhcCCCC
Confidence            999999999999887764

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

Probab=98.13  E-value=4.4e-06  Score=72.19  Aligned_cols=61  Identities=23%  Similarity=0.330  Sum_probs=55.1

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |.|++.-=-|||||++|+++++|.|++.+..                         |+|+|+.+++|.+|+..|+..|..
T Consensus        14 l~~~~~RssGpGGQ~VNk~~s~V~l~h~ptg-------------------------i~v~~~~~Rsq~~Nr~~A~~~L~~   68 (113)
T PF00472_consen   14 LEISFSRSSGPGGQNVNKTNSKVRLRHIPTG-------------------------IVVKCQESRSQHQNREDALEKLRE   68 (113)
T ss_dssp             EEEEEEESSSSSSCHHHSSSEEEEEEETTTT-------------------------EEEEEESSSSHHHHHHHHHHHHHH
T ss_pred             eEEEEEecCCCCCCcccccCCEEEEEEeccc-------------------------EEEEEcccCCHHHHHHHHHHHHHH
Confidence            5666665669999999999999999998655                         999999999999999999999999


Q ss_pred             HHHHHh
Q 014729          371 LIEEAG  376 (419)
Q Consensus       371 LI~EAk  376 (419)
                      +|.++.
T Consensus        69 ~l~~~~   74 (113)
T PF00472_consen   69 KLDEAY   74 (113)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999997

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

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

Probab=97.26  E-value=0.00012  Score=71.52  Aligned_cols=98  Identities=16%  Similarity=0.117  Sum_probs=81.7

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCC-CCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKEL-GLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLF  369 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL-~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~  369 (419)
                      |++.+.==-|||||++|+.+++|.|++.+..+ .+.+..+..++.+.+.|... .+.|.|.+++++++++|+..+...+-
T Consensus       112 l~idt~RASGaGGQhVNKt~SAVrlth~ptgivv~cq~eRSq~~n~~~a~~~l-~~kL~~~~~~~Rsqe~n~~~a~~k~i  190 (239)
T COG1186         112 LRIDTYRASGAGGQHVNKTDSAVRLTHLPTGIVVLCQNERSQHLNKALARKML-KGKLYILAQEKRSQEKNRERALKKLI  190 (239)
T ss_pred             eEEEEEEcCCCCCCccccccccEEEEEcCCCCEecCHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence            34443333499999999999999999999985 79999999999999999987 88899999999999999999999999


Q ss_pred             HHHHHHhccCCCC-Ccccchh
Q 014729          370 SLIEEAGKANKMV-DDARASY  389 (419)
Q Consensus       370 ~LI~EAk~~ekip-lDTRhtk  389 (419)
                      .++..+......| -.+++++
T Consensus       191 ~wg~qirsyv~~p~~~vKd~R  211 (239)
T COG1186         191 GWGNQIRSYVLDPYQPTKDLR  211 (239)
T ss_pred             HHHHhccccCCCccccccccc
Confidence            9999988766542 3444443

>TIGR03072 release_prfH putative peptide chain release factor H

Probab=97.05  E-value=0.002  Score=61.48  Aligned_cols=62  Identities=13%  Similarity=0.209  Sum_probs=51.5

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.|+                       ..| +| |+++|+..++|.+|++-|+.+|..
T Consensus       108 l~~~~~RssGpGGQ~vNkt~saVrl~-----------------------h~p-tg-i~v~~~~~RSQ~~Nk~~A~~~L~~  162 (200)
T TIGR03072       108 IRFETLRSSGPGGQHVNKTESAVRAT-----------------------HLA-SG-ISVKVQSERSQHANKRLATLLLAV  162 (200)
T ss_pred             eEEEEEECCCCCcccccccceeEEEE-----------------------ECC-Cc-EEEEECCccCHHHHHHHHHHHHHH
Confidence            56655555599999999999999997                       122 44 699999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      +|.+-..
T Consensus       163 ~l~~~~~  169 (200)
T TIGR03072       163 RLADLQQ  169 (200)
T ss_pred             HHHHHHH
Confidence            9987653

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

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

Probab=96.80  E-value=0.0045  Score=59.12  Aligned_cols=62  Identities=13%  Similarity=0.204  Sum_probs=52.5

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.---|||||++|+.+++|.|+- +                      | +|+ +++|+..++|-+|+..|+.+|..
T Consensus       109 l~~~~~RssGpGGQ~VNkt~saVrl~h-~----------------------p-tgi-~v~~~~~RSQ~~Nk~~A~~~L~~  163 (200)
T PRK08179        109 IRFETLRSSGPGGQHVNKTDSAVRATH-L----------------------A-SGI-SVKVQSERSQHANKRLARLLIAW  163 (200)
T ss_pred             eEEEEEEccCCcccccccccceEEEEE-c----------------------C-CcE-EEEECCCCCHHHHHHHHHHHHHH
Confidence            677766666999999999999999982 1                      3 554 69999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      +|.+-..
T Consensus       164 ~L~~~~~  170 (200)
T PRK08179        164 KLEQQQQ  170 (200)
T ss_pred             HHHHHHH
Confidence            9987654

>PRK00591 prfA peptide chain release factor 1; Validated

Probab=96.49  E-value=0.01  Score=61.11  Aligned_cols=63  Identities=16%  Similarity=0.287  Sum_probs=52.6

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|-|+..                       | +| |+++|+..++|.+|++-|+.+|..
T Consensus       223 l~~~~~RssG~GGQ~VNkt~saVrl~H~-----------------------p-tG-i~v~~~~eRSQ~~Nk~~Al~~L~~  277 (359)
T PRK00591        223 LRIDTFRSSGAGGQHVNTTDSAVRITHL-----------------------P-TG-IVVECQDERSQHKNKAKAMKVLRA  277 (359)
T ss_pred             EEEEEEECCCCCCCCccceeeeEEEEEC-----------------------C-Cc-EEEEECCcCCHHHHHHHHHHHHHH
Confidence            5666554469999999999999999751                       2 46 679999999999999999999999


Q ss_pred             HHHHHhcc
Q 014729          371 LIEEAGKA  378 (419)
Q Consensus       371 LI~EAk~~  378 (419)
                      .|.+....
T Consensus       278 ~L~~~~~~  285 (359)
T PRK00591        278 RLYDAERQ  285 (359)
T ss_pred             HHHHHHHH
Confidence            99887653

>PRK07342 peptide chain release factor 2; Provisional

Probab=96.47  E-value=0.0092  Score=61.08  Aligned_cols=62  Identities=16%  Similarity=0.242  Sum_probs=52.4

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+.+++|.|+ +                      -| +| |+++|+..++|.+|++-|+.+|..
T Consensus       201 l~~~~~RssG~GGQ~VNkt~saVrl~-H----------------------~p-tg-i~v~~~~eRSQ~~Nk~~A~~~L~~  255 (339)
T PRK07342        201 VRIDTYRSSGAGGQHVNTTDSAVRIT-H----------------------IP-TG-IVVQCQQERSQHKNRAKAWSMLRA  255 (339)
T ss_pred             EEEEEEECCCCCCCCccceeeeEEEE-E----------------------cC-Cc-EEEEECCcccHHHHHHHHHHHHHH
Confidence            67666666789999999999999998 1                      12 66 799999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      .|.+...
T Consensus       256 ~L~~~~~  262 (339)
T PRK07342        256 RLYEEEL  262 (339)
T ss_pred             HHHHHHH
Confidence            9886554

>PRK08787 peptide chain release factor 2; Provisional

Probab=96.46  E-value=0.0095  Score=60.44  Aligned_cols=61  Identities=16%  Similarity=0.291  Sum_probs=50.4

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.++ ++                      | +| |+++|+..++|.+|+..|+.+|..
T Consensus       178 l~~~~~RssG~GGQ~VNkt~saVri~-H~----------------------P-tg-i~v~~q~eRSQ~~Nk~~A~~~L~~  232 (313)
T PRK08787        178 LRTDVYRSSGAGGQHVNKTESAVRIT-HI----------------------P-TN-TVVACQTGRSQHQNRDNAMKMLAA  232 (313)
T ss_pred             eEEEEEECCCCCCCCcCCEeeEEEEE-EC----------------------C-Cc-EEEEECCcccHHHHHHHHHHHHHH
Confidence            66665544699999999999999998 21                      1 34 699999999999999999999999


Q ss_pred             HHHHHh
Q 014729          371 LIEEAG  376 (419)
Q Consensus       371 LI~EAk  376 (419)
                      +|.+-.
T Consensus       233 ~L~~~~  238 (313)
T PRK08787        233 KLYELE  238 (313)
T ss_pred             HHHHHH
Confidence            987744

>TIGR00019 prfA peptide chain release factor 1

Probab=96.44  E-value=0.0097  Score=61.30  Aligned_cols=62  Identities=18%  Similarity=0.288  Sum_probs=51.8

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.|+-                       -| + .|+++|+..++|.+|+..|+.+|..
T Consensus       223 l~~~~~RssG~GGQ~VNkt~SaVrl~h-----------------------~p-t-gi~V~~~~eRSQ~~Nk~~A~~~L~~  277 (360)
T TIGR00019       223 LRIDTFRSSGAGGQHVNTTDSAVRITH-----------------------LP-T-GIVVECQDERSQHKNKDKAMKVLRA  277 (360)
T ss_pred             EEEEEEECCCCCCCCcCceeeeEEEEE-----------------------CC-C-cEEEEECCccCHHHHHHHHHHHHHH
Confidence            666665456999999999999999861                       12 3 5789999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      .|.+...
T Consensus       278 ~L~~~~~  284 (360)
T TIGR00019       278 RLYEAEQ  284 (360)
T ss_pred             HHHHHHH
Confidence            9888774

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

>PRK06746 peptide chain release factor 2; Provisional

Probab=96.43  E-value=0.011  Score=60.24  Aligned_cols=62  Identities=16%  Similarity=0.213  Sum_probs=53.0

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.|+...                         ..|+++|+..++|.+|++-|+.+|..
T Consensus       199 l~~~~~rssG~GGQ~vNkt~saVrl~h~p-------------------------tgi~v~~q~~RSQ~~Nk~~A~~~L~a  253 (326)
T PRK06746        199 LKIDTYRASGAGGQHVNTTDSAVRITHTP-------------------------TNTVVTCQSERSQIKNREHAMKMLKA  253 (326)
T ss_pred             eEEEEEeCCCCCCCCccceeeEEEEEEeC-------------------------CeEEEEECCCCCHHHHHHHHHHHHHH
Confidence            67776666689999999999999999842                         36799999999999999999999998


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      .|.+...
T Consensus       254 kL~~~~~  260 (326)
T PRK06746        254 KLYQKKL  260 (326)
T ss_pred             HHHHHHH
Confidence            8776553

>PRK05589 peptide chain release factor 2; Provisional

Probab=96.43  E-value=0.0096  Score=60.62  Aligned_cols=61  Identities=16%  Similarity=0.251  Sum_probs=51.2

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+.+++|.|+-                       -| +| |++.|+..++|.+|++.|+.+|..
T Consensus       198 l~~~~~rssG~GGQ~VNkt~saVrl~H-----------------------~p-tg-i~v~~q~eRSQ~~Nk~~A~~~L~~  252 (325)
T PRK05589        198 LKIDTYRAGGAGGQHVNKTESAVRITH-----------------------IP-TG-IVVQCQNERSQHSNKETAMKMLKS  252 (325)
T ss_pred             eEEEEeeCCCCCCCcccceeeEEEEEE-----------------------CC-CC-EEEEECCccCHHHHHHHHHHHHHH
Confidence            566655555999999999999999982                       23 67 899999999999999999999998


Q ss_pred             HHHHHh
Q 014729          371 LIEEAG  376 (419)
Q Consensus       371 LI~EAk  376 (419)
                      .|.+..
T Consensus       253 kL~~~~  258 (325)
T PRK05589        253 KLVELK  258 (325)
T ss_pred             HHHHHH
Confidence            887654

>PRK00578 prfB peptide chain release factor 2; Validated

Probab=95.83  E-value=0.029  Score=58.02  Aligned_cols=62  Identities=16%  Similarity=0.263  Sum_probs=51.3

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.|+-.                       | +| |+++|+..++|.+|+..|+.+|..
T Consensus       237 l~~~~~rssGpGGQ~vNkt~saVrl~h~-----------------------p-tg-i~v~~~~~RSQ~~Nk~~A~~~L~~  291 (367)
T PRK00578        237 LRIDTYRSSGAGGQHVNKTDSAVRITHI-----------------------P-TG-IVVQCQNERSQHQNKASAMKMLKA  291 (367)
T ss_pred             EEEEEeeCCCCCCCcccceeeEEEEEEC-----------------------C-Cc-EEEEECCCCCHHHHHHHHHHHHHH
Confidence            6666655569999999999999998721                       1 44 699999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      .|.+...
T Consensus       292 kL~~~~~  298 (367)
T PRK00578        292 KLYELEL  298 (367)
T ss_pred             HHHHHHH
Confidence            8877654

>TIGR00020 prfB peptide chain release factor 2

Probab=95.59  E-value=0.038  Score=57.09  Aligned_cols=62  Identities=16%  Similarity=0.304  Sum_probs=50.9

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.++ ++                      | +| |+++|+..++|-+|+.-|+.+|..
T Consensus       237 ~~~~~~rssG~GGQ~VNkt~saVri~-H~----------------------p-tg-i~v~~q~~RSQ~~Nk~~A~~~L~~  291 (364)
T TIGR00020       237 LRIDTYRASGAGGQHVNKTDSAVRIT-HI----------------------P-TG-IVVQCQNDRSQHKNKDSAMKVLKA  291 (364)
T ss_pred             EEEEEeeCCCCCCccccccceEEEEE-EC----------------------C-Cc-EEEEECCccCHHHHHHHHHHHHHH
Confidence            56665544799999999999999987 21                      2 45 699999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      .|.+...
T Consensus       292 kL~~~~~  298 (364)
T TIGR00020       292 KLYELEM  298 (364)
T ss_pred             HHHHHHH
Confidence            8877653

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.

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

Probab=88.28  E-value=0.75  Score=48.23  Aligned_cols=87  Identities=18%  Similarity=0.255  Sum_probs=61.6

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+..+.---|||||++|+.+++|.|.=-                       | || |++.|+.=++|.+|+.-|+.+|.+
T Consensus       250 l~i~~~R~~G~GGQhvNktdsaVrl~Hi-----------------------P-TG-Ivv~cq~eRSq~~Nr~~A~~~L~a  304 (386)
T KOG2726|consen  250 LRIETFRASGPGGQHVNKTDSAVRLTHI-----------------------P-TG-IVVECQEERSQHKNRALALKRLRA  304 (386)
T ss_pred             eeEEecccCCCCcccccccccceEEEee-----------------------c-Cc-eEEEeecHHhHHhhHHHHHHHHHH
Confidence            5555555669999999999999987532                       3 66 568999999999999999999999


Q ss_pred             HHHHHhccCCCC--CcccchhH----HhhhcCCchhHH
Q 014729          371 LIEEAGKANKMV--DDARASYV----KDRLRANPAFME  402 (419)
Q Consensus       371 LI~EAk~~ekip--lDTRhtk~----kkRkk~~~~FPe  402 (419)
                      .+.+-......+  ...|....    +..+.+.+.|++
T Consensus       305 kL~~~~~~~~~~~~~~~r~~qv~s~~rsekiRTy~~~q  342 (386)
T KOG2726|consen  305 KLAVIYREEKSEEEKKKRKAQVGSLKRSEKIRTYNFKQ  342 (386)
T ss_pred             HHHHHHHhhhhHHhhhhhHHhhcccCchhceeecccCc
Confidence            887776655522  23333222    223445666765

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

Probab=80.33  E-value=3.4  Score=43.06  Aligned_cols=64  Identities=16%  Similarity=0.283  Sum_probs=49.6

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      ||+.+.-=-|+|||++|...++|-++=                       -| || |+++|+.-++|-+|+.-++.+|.+
T Consensus       225 lrIDt~RsSGaGGQhVNtTdSAVRiTH-----------------------lP-TG-IvV~cQderSQ~kNk~kAmkvL~A  279 (363)
T COG0216         225 LRIDTFRSSGAGGQHVNTTDSAVRITH-----------------------LP-TG-IVVECQDERSQHKNKAKAMKVLRA  279 (363)
T ss_pred             ceeeeeecCCCCCCCcCccchhheeee-----------------------cC-Cc-eEEEecchhhhhhhHHHHHHHHHH
Confidence            555554456899999999999986542                       13 66 467999999999999999999998


Q ss_pred             HHHHHhccC
Q 014729          371 LIEEAGKAN  379 (419)
Q Consensus       371 LI~EAk~~e  379 (419)
                      =|.++....
T Consensus       280 Rl~~~~~~~  288 (363)
T COG0216         280 RLYDAERQK  288 (363)
T ss_pred             HHHHHHHHH
Confidence            877766533

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	419
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	1e-09
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	1e-06
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	4e-05
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	6e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04

>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 = 54.7 bits (131), Expect = 1e-09
 Identities = 17/89 (19%), Positives = 35/89 (39%), Gaps = 2/89 (2%)

Query: 291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKE-LGLSKYQFRRLRELVGKRYHPGKDELTI 349
           L         PGG   +  N K ++   +     + +   +++      + +    EL +
Sbjct: 22  LSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINK-AGELVL 80

Query: 350 TSERFEHREENRKDCLRTLFSLIEEAGKA 378
           TSE   ++  N  +CL+ +  +I EA   
Sbjct: 81  TSESSRYQFRNLAECLQKIRDMIAEASGP 109

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

 Score = 46.0 bits (109), Expect = 1e-06
 Identities = 19/102 (18%), Positives = 36/102 (35%), Gaps = 4/102 (3%)

Query: 279 KDIDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGK 338
            ++  P  E   +          GG   +  +  + +   +    L  +   RL  L   
Sbjct: 6   NNVHLPDAE---IELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDS 62

Query: 339 RYHPGKDELTITSERFEHREENRKDCLRTLFSLIEEAGKANK 380
           R       + + ++++  +E+NR D L  L  LI  A K   
Sbjct: 63  RIT-SDGVIVLKAQQYRTQEQNRADALLRLSELIVNAAKLEH 103

>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 = 42.4 bits (100), Expect = 4e-05
 Identities = 13/69 (18%), Positives = 27/69 (39%), Gaps = 1/69 (1%)

Query: 312 KVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFSL 371
            + +   ++   L +Y   RL              + I ++ +  +E NR+  L  L ++
Sbjct: 36  AIHLRFDIRASSLPEYYKERLLAASHHLIS-SDGVIVIKAQEYRSQELNREAALARLVAM 94

Query: 372 IEEAGKANK 380
           I+E     K
Sbjct: 95  IKELTTEKK 103

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 42.2 bits (98), Expect = 6e-05
 Identities = 12/42 (28%), Positives = 16/42 (38%), Gaps = 16/42 (38%)

Query: 27 IPPLAASTRTQLRLYSSDSKDSSNDQRAPDPAPETALTAQTQ 68
          +  L AS    L+LY            A D AP  A+ A  +
Sbjct: 22 LKKLQAS----LKLY------------ADDSAPALAIKATME 47

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.1 bits (103), Expect = 7e-05
 Identities = 45/272 (16%), Positives = 82/272 (30%), Gaps = 75/272 (27%)

Query: 181 DEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPD-------DMKKKVEQKFNELGDMCE 233
           D   GE  Q+ Y KD      IL      D  + +       DM K +  K  E+  +  
Sbjct: 8   DFETGE-HQYQY-KD------ILSVFE--DAFVDNFDCKDVQDMPKSILSK-EEIDHIIM 56

Query: 234 SGELEPEQAYELFKKFED---EVVAEYMKQVETEEPPKYDFPAVPDTKKDIDDPPGEGPI 290
           S +        LF        E+V ++   VE      Y F   P  K +   P      
Sbjct: 57  SKDAV-SGTLRLFWTLLSKQEEMVQKF---VEEVLRINYKFLMSP-IKTEQRQPSMM--- 108

Query: 291 LRWVTRAVFAPGGDAWHPKNRKV-KMSVTVKELGLSKYQFRRLRE-LVGKRYHP------ 342
                  ++    D  +  N+   K +V+  +       + +LR+ L+  R         
Sbjct: 109 -----TRMYIEQRDRLYNDNQVFAKYNVSRLQ------PYLKLRQALLELRPAKNVLIDG 157

Query: 343 ----GKDELTIT---SERFEHREENR------------KDCLRTLFSLIEEAGKANKMVD 383
               GK  + +    S + + + + +            +  L  L  L+ +         
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

Query: 384 DARASY------VKDRLRANPAFMERLRAKVL 409
           D  ++       ++  LR       +     L
Sbjct: 218 DHSSNIKLRIHSIQAELRR--LLKSKPYENCL 247

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 43.3 bits (101), Expect = 1e-04
 Identities = 34/228 (14%), Positives = 64/228 (28%), Gaps = 45/228 (19%)

Query: 112 VGKHEETDDELTEELRLKPLDDVKDQEFESDFEELYATDEEIDDLYSA-RDHVVKKMVKD 170
           +      +  L     L+ L    D  + S  +        I  + +  R  +  K  ++
Sbjct: 189 LKNCNSPETVLE---MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245

Query: 171 EYFNMDDKKWDEMIGEAVQHGYLKDTRECEEILEDMLSWDKLLPDDMKKKVEQKFNELGD 230
               + +   +     A           C+ IL  + +  K + D +          L  
Sbjct: 246 CLLVLLNV-QNAKAWNAFNLS-------CK-IL--LTTRFKQVTDFLSAATTTHI-SLDH 293

Query: 231 MCESGELEPEQAYELFKKFEDEVVAEYMKQVETEEPPKYD-FPAVPDTKKDIDDPPGEGP 289
              +  L P++   L  K+ D    +  ++V T  P +             I D      
Sbjct: 294 HSMT--LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAES------IRDGLA--- 342

Query: 290 ILRWVTRAVFAPGGDAW-----HPKNRKVKMSVTVKELGLSKYQFRRL 332
              W          D W           ++ S+ V E    +  F RL
Sbjct: 343 --TW----------DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	419
4dh9_Y	140	YAEJ; ribosome, YAEJ, ribosome stalling, ribosome	99.56
2jva_A	108	Peptidyl-tRNA hydrolase domain protein; GFT hydrol	99.52
1j26_A	112	Immature colon carcinoma transcript 1; peptide cha	99.45
2rsm_A	115	Probable peptide chain release factor C12ORF65 HO	97.66
2b3t_B	360	RF-1, peptide chain release factor 1; translation	97.23
1rq0_A	342	RF-1, peptide chain release factor 1; X-RAY, cryst	97.18
1zbt_A	371	RF-1, peptide chain release factor 1; peptide chai	97.12
2ihr_1	365	Peptide chain release factor 2; mixed alpha-beta,	96.79
1gqe_A	365	Release factor 2, RF2; protein synthesis, ribosome	96.69
3d5a_X	354	RF1, peptide chain release factor 1; ribosome, rib	96.64

>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=99.56  E-value=2.2e-15  Score=133.48  Aligned_cols=102  Identities=17%  Similarity=0.267  Sum_probs=93.6

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.|+|+|.++.|++.++.+|+.+.|.|++. +|.|+|+|+.+++|.+|++.|+.+|..
T Consensus        15 l~~~~~RssGpGGQnVNKv~SaV~L~~~~~~s~lp~~~k~rL~~~~~~rit~-~G~ivv~~q~~RSQ~~Nr~~A~~rL~~   93 (140)
T 4dh9_Y           15 LEITAIRAQGAGGQHVNKTSTAIHLRFDIRASSLPEYYKERLLAASHHLISS-DGVIVIKAQEYRSQELNREAALARLVA   93 (140)
T ss_dssp             SEEEEECCCSSSSHHHHTTCCCEEEEECCSSSSSCSHHHHHHHSCCCTTSCS-SCCCCEEECCCSSHHHHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCCccccccceEEEEEecccccCCHHHHHHHHHHhcccccc-CCcEEEEEcCCcCHHHHHHHHHHHHHH
Confidence            5666655569999999999999999999999899999999999999999997 799999999999999999999999999


Q ss_pred             HHHHHhccCCCCCcccchhHHhh
Q 014729          371 LIEEAGKANKMVDDARASYVKDR  393 (419)
Q Consensus       371 LI~EAk~~ekiplDTRhtk~kkR  393 (419)
                      +|.+|...++.+..||+++..++
T Consensus        94 ~l~~a~~~pk~R~~tkpt~~s~~  116 (140)
T 4dh9_Y           94 MIKELTTEKKARRPTRPTRASKE  116 (140)
T ss_dssp             HHHHHHSCCCCCCCCCCSSTTTH
T ss_pred             HHHHhccCCCCCcCCCCcHHHHH
Confidence            99999999998999999876543

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

Probab=99.52  E-value=4.8e-14  Score=120.25  Aligned_cols=88  Identities=19%  Similarity=0.314  Sum_probs=82.1

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|++.-=-|||||++|+++++|.|+|++.+..|++.++.+|+.+.|.|+++ +|+|+|+|+.+++|.+|++.|+++|..
T Consensus        15 l~~~~~RssGpGGQnVNKv~SaV~L~~d~~~s~lP~~~k~rl~~~~~~ri~~-~G~ivv~~q~~RSQ~~Nr~~Al~rL~~   93 (108)
T 2jva_A           15 IELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITS-DGVIVLKAQQYRTQEQNRADALLRLSE   93 (108)
T ss_dssp             EEEEECCCTTCSSSSSCCCCCCEEEEEETTTSCCCHHHHHHHHTCSCTTBCT-TCEEEEEECCSSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCCCcCCCcceEEEEEEcccccCCHHHHHHHHHHhcccccc-CCcEEEEECCcCCHHHHHHHHHHHHHH
Confidence            6666655669999999999999999999998899999999999999999998 999999999999999999999999999


Q ss_pred             HHHHHhccC
Q 014729          371 LIEEAGKAN  379 (419)
Q Consensus       371 LI~EAk~~e  379 (419)
                      +|.+|...+
T Consensus        94 ~l~~a~~~~  102 (108)
T 2jva_A           94 LIVNAAKLE  102 (108)
T ss_dssp             HHHHHHHSS
T ss_pred             HHHHHccCc
Confidence            999998754

>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=99.45  E-value=7.9e-13  Score=113.41  Aligned_cols=88  Identities=19%  Similarity=0.234  Sum_probs=80.4

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCC-CCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKEL-GLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLF  369 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL-~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~  369 (419)
                      |+|++.-=-|||||++|+++++|.|+|++... .|++.++.+|+.+.+.|++. +|+|+|+|+.+++|.+|++.|+++|.
T Consensus        22 l~~~~~RssGpGGQnVNKv~SaV~Lrf~i~t~~~Lp~~~k~rl~~~~~~ri~~-~G~ivv~~q~~RSQ~~Nr~~Al~rL~  100 (112)
T 1j26_A           22 LSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINK-AGELVLTSESSRYQFRNLAECLQKIR  100 (112)
T ss_dssp             SEEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCS-SSEEEEEECCCSSHHHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCCCccCCcceEEEEEeccccccCCHHHHHHHHHhhcccccc-CCeEEEEECCccCHHHHHHHHHHHHH
Confidence            56665555699999999999999999999775 89999999999999999997 99999999999999999999999999


Q ss_pred             HHHHHHhccC
Q 014729          370 SLIEEAGKAN  379 (419)
Q Consensus       370 ~LI~EAk~~e  379 (419)
                      .+|.+|...+
T Consensus       101 ~~l~~a~~~p  110 (112)
T 1j26_A          101 DMIAEASGPS  110 (112)
T ss_dssp             HHHHHHHCCS
T ss_pred             HHHHHhhcCC
Confidence            9999997654

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

Probab=97.66  E-value=0.00011  Score=63.70  Aligned_cols=63  Identities=17%  Similarity=0.190  Sum_probs=53.0

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|+|||++|+.+++|.|+.                       -| +| |+++|+.+++|.+|++.|+.+|..
T Consensus        48 l~~~~~RssGpGGQ~VNKt~SaVrl~H-----------------------~P-TG-ivV~~q~~RSQ~~Nr~~A~~~L~~  102 (115)
T 2rsm_A           48 LEEQFVKGHGPGGQATNKTSNCVVLKH-----------------------VP-SG-IVVKCHQTRSVDQNRKIARKVLQE  102 (115)
T ss_dssp             CEEEECSCCCSCSSSCCCSCCCEEEEC-----------------------TT-TC-CEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             eEEEEeeCCCCCccccCccceeEEEec-----------------------CC-CC-cEEEEcCCCCHHHHHHHHHHHHHH
Confidence            777776667999999999999999872                       23 56 568999999999999999999999


Q ss_pred             HHHHHhcc
Q 014729          371 LIEEAGKA  378 (419)
Q Consensus       371 LI~EAk~~  378 (419)
                      .|.+....
T Consensus       103 kL~e~~~~  110 (115)
T 2rsm_A          103 KVDVFYNS  110 (115)
T ss_dssp             HHHHHHHS
T ss_pred             HHHHHhcc
Confidence            88876543

>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=97.23  E-value=0.00031  Score=70.59  Aligned_cols=65  Identities=20%  Similarity=0.303  Sum_probs=55.3

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|||||++|+++++|.|++      |                 | +| |+++|+..++|.+|+..|+.+|..
T Consensus       222 l~i~~~RssG~GGQ~VNkt~saVrl~h------l-----------------P-tG-ivv~~q~~RSQ~~Nr~~A~~~L~~  276 (360)
T 2b3t_B          222 LRIDTFRSSGAGGQHVNTTDSAIRITH------L-----------------P-TG-IVVECQDERSQHKNKAKALSVLGA  276 (360)
T ss_dssp             EEEEECCSSCCCTTTCCCSSEEEEEEE------T-----------------T-TC-CEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             eEEeeecCCCCCCCccccccceEEEEE------C-----------------C-Ce-EEEEECCCCCHHHHHHHHHHHHHH
Confidence            666654445899999999999999998      1                 2 66 899999999999999999999999


Q ss_pred             HHHHHhccCC
Q 014729          371 LIEEAGKANK  380 (419)
Q Consensus       371 LI~EAk~~ek  380 (419)
                      +|.++.....
T Consensus       277 ~L~~~~~~~~  286 (360)
T 2b3t_B          277 RIHAAEMAKR  286 (360)
T ss_dssp             HHTTTTTTSC
T ss_pred             HHHHHHHHHH
Confidence            9999876444

>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=97.18  E-value=0.00045  Score=69.06  Aligned_cols=64  Identities=19%  Similarity=0.286  Sum_probs=50.4

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|||||++|+++++|.|+.      |                 | +| |+++|+..++|.+|+..|+.+|..
T Consensus       198 l~i~~~RssGpGGQ~VNKt~SaVrl~h------l-----------------P-tG-ivv~~q~~RSQ~~Nr~~A~~~L~~  252 (342)
T 1rq0_A          198 LKIETFRASGHGGQYVNKTESAVRITH------L-----------------P-TG-IVVSCQNERSQYQNKQTALRILRA  252 (342)
T ss_dssp             EEEEEECCCC----CCSSSSEEEEEEE------T-----------------T-TC-CEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             eEEEeecCCCCCCcccccccceEEEEE------C-----------------C-Ce-EEEEECCCCCHHHHHHHHHHHHHH
Confidence            676655556899999999999999993      1                 2 46 899999999999999999999999


Q ss_pred             HHHHHhccC
Q 014729          371 LIEEAGKAN  379 (419)
Q Consensus       371 LI~EAk~~e  379 (419)
                      +|.++....
T Consensus       253 ~L~~~~~~~  261 (342)
T 1rq0_A          253 RLYQLQKEQ  261 (342)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887543

>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=97.12  E-value=0.00099  Score=67.28  Aligned_cols=63  Identities=14%  Similarity=0.244  Sum_probs=45.0

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|||||++|+++++|.|++      |                 | +| |+++|+..++|.+|+..|+.+|..
T Consensus       235 l~i~~~RssGpGGQ~VNkt~SaVrlth------l-----------------P-tG-ivV~~q~eRSQ~~Nr~~A~~~L~~  289 (371)
T 1zbt_A          235 LRVDIYHASGAGGQNVNKVATAVRIIH------L-----------------P-TN-IKVEMQEERTQQKNRDKAMKIIRA  289 (371)
T ss_dssp             EEEEEECC---------CCCCEEEEEE------T-----------------T-TT-EEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             EEEEEecCCCCCCCcccccceeEEEEE------C-----------------C-Ce-EEEEECCcCCHHHHHHHHHHHHHH
Confidence            666655445899999999999999997      1                 1 34 799999999999999999999999


Q ss_pred             HHHHHhcc
Q 014729          371 LIEEAGKA  378 (419)
Q Consensus       371 LI~EAk~~  378 (419)
                      +|.++...
T Consensus       290 ~L~~~~~~  297 (371)
T 1zbt_A          290 RVADHFAQ  297 (371)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99888743

>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=96.79  E-value=0.0025  Score=64.18  Aligned_cols=62  Identities=21%  Similarity=0.314  Sum_probs=52.4

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|||||++|+++++|.|+.-                       | +| |+++|+..++|.+|+.-|+.+|..
T Consensus       227 l~i~~~RssG~GGQ~VNkt~saVrl~h~-----------------------P-tg-ivv~~q~~RSQ~~Nr~~A~~~L~~  281 (365)
T 2ihr_1          227 LRIDVMRASGPGGQGVNTTDSAVRVVHL-----------------------P-TG-ITVTCQTTRSQIKNKELALKILKA  281 (365)
T ss_dssp             EEEEEECCCCSSCCSGGGSCSEEEEEET-----------------------T-TT-EEEEECSSSCHHHHHHHHHHHHHH
T ss_pred             eEEEEeecCCCCCceecccceEEEEEEc-----------------------C-Ce-EEEEECCCCCHHHHHHHHHHHHHH
Confidence            6666555568999999999999999871                       2 44 699999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      .|.+...
T Consensus       282 ~L~~~~~  288 (365)
T 2ihr_1          282 RLYELER  288 (365)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9888654

>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=96.69  E-value=0.003  Score=63.66  Aligned_cols=62  Identities=13%  Similarity=0.254  Sum_probs=52.2

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|||||++|+++++|.|+.      |                 | +| |+++|+..++|.+|+.-|+.+|..
T Consensus       239 l~~~~~RssG~GGQ~VNkt~saVrl~H------i-----------------P-tg-ivv~~q~~RSQ~~Nr~~A~~~L~~  293 (365)
T 1gqe_A          239 LRIDVYRASGAGGQHVNRTESAVRITH------I-----------------P-TG-IVTQCQNDRSQHKNKDQAMKQMKA  293 (365)
T ss_dssp             EEEEEECCCCSSCCSTTSSCCEEEEEE------T-----------------T-TC-CEEEECSSSCHHHHHHHHHHHHHH
T ss_pred             ceEeeecCCCCCCCcccCccceEEEEE------C-----------------C-Ce-EEEEECCCCCHHHHHHHHHHHHHH
Confidence            666655445899999999999999994      1                 2 45 699999999999999999999999


Q ss_pred             HHHHHhc
Q 014729          371 LIEEAGK  377 (419)
Q Consensus       371 LI~EAk~  377 (419)
                      .|.+...
T Consensus       294 ~L~~~~~  300 (365)
T 1gqe_A          294 KLYEVEM  300 (365)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987764

>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=96.64  E-value=0.0014  Score=65.83  Aligned_cols=64  Identities=22%  Similarity=0.329  Sum_probs=53.4

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |+|.+.-=-|||||++|+++++|.|+. +                      | +| |+++|+..++|.+|+..|+.+|..
T Consensus       217 l~i~~~RssG~GGQ~VNkt~SaVrl~H-l----------------------P-tg-ivv~~q~~RSQ~~Nr~~A~~~L~~  271 (354)
T 3d5a_X          217 IRIDVMRASGPGGQGVNTTDSAVRVVH-L----------------------P-TG-IMVTCQDSRSQIKNREKALMILRS  271 (354)
T ss_dssp             EEEEEECCCSCCHHHHHHCCCEEEEEE-T----------------------T-TT-EEEEECCSSCHHHHHHHHHHHHHH
T ss_pred             eEEEeecCCCCCCcccccccceEEEEE-c----------------------C-Ce-EEEEECCCCCHHHHHHHHHHHHHH
Confidence            677655555899999999999999983 1                      2 45 679999999999999999999999


Q ss_pred             HHHHHhccC
Q 014729          371 LIEEAGKAN  379 (419)
Q Consensus       371 LI~EAk~~e  379 (419)
                      +|.++....
T Consensus       272 ~L~~~~~~~  280 (354)
T 3d5a_X          272 RLLEMKRAE  280 (354)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887543

---

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	419
d1j26a_	112	d.50.4.1 (A:) Ict1 protein {Mouse (Mus musculus) [	3e-09

>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 = 52.3 bits (125), Expect = 3e-09
 Identities = 19/77 (24%), Positives = 32/77 (41%)

Query: 301 PGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREEN 360
           PGG   +  N K ++   +      +   R+   L  K       EL +TSE   ++  N
Sbjct: 32  PGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINKAGELVLTSESSRYQFRN 91

Query: 361 RKDCLRTLFSLIEEAGK 377
             +CL+ +  +I EA  
Sbjct: 92  LAECLQKIRDMIAEASG 108

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	419
d1j26a_	112	Ict1 protein {Mouse (Mus musculus) [TaxId: 10090]}	99.51
d1rq0a_	333	Peptide chain release factor 1, RF1 {Thermotoga ma	90.47
d1gqea_	362	Polypeptide chain release factor 2 (RF2) {Escheric	90.22
d2b3tb1	344	Peptide chain release factor 1, RF1 {Escherichia c	89.65

>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=99.51  E-value=6.2e-14  Score=118.18  Aligned_cols=95  Identities=19%  Similarity=0.198  Sum_probs=83.7

Q ss_pred             CCCCCCCCCceEEEEEEEecCCCCCCCCCCCeEEEEEEcCCC-CCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHh
Q 014729          281 IDDPPGEGPILRWVTRAVFAPGGDAWHPKNRKVKMSVTVKEL-GLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREE  359 (419)
Q Consensus       281 PF~PP~~~~ILr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL-~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQ  359 (419)
                      .++|..   .|.|++.-=-|||||++|++++||.|+|+|..+ .|++.++++|+.+.+.|++. .|.|+|+|+++++|.+
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 SYIPLD---RLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKNKINK-AGELVLTSESSRYQFR   90 (112)
T ss_dssp             CCCCTT---TSEEEEECCCCSSSSCCSSCCCEEEEEEEGGGCTTSCHHHHHHHHHHTTTTBCS-SSEEEEEECCCSSHHH
T ss_pred             CccCHH---HeEEEEEEcCCCCCCccceeccEEEEEEeccccccCCHHHHHHHHHHhhhcccC-CCeEEEEEcccCCHHH
Confidence            356543   356766666799999999999999999999765 79999999999999999997 8999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHhccC
Q 014729          360 NRKDCLRTLFSLIEEAGKAN  379 (419)
Q Consensus       360 Nrkyl~d~L~~LI~EAk~~e  379 (419)
                      |++.|++.|..||.+|.+..
T Consensus        91 Nr~~a~~kL~~li~~A~kPt  110 (112)
T d1j26a_          91 NLAECLQKIRDMIAEASGPS  110 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHHHHHHhCCC
Confidence            99999999999999997643

>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=90.47  E-value=0.17  Score=47.84  Aligned_cols=61  Identities=16%  Similarity=0.250  Sum_probs=44.8

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|+|||++|+.+++|-++=-                       | || |++.|+.-++|-+|+.-|+.+|..
T Consensus       198 l~i~~~RssG~GGQ~VNkt~sAVRitH~-----------------------P-TG-i~v~~q~eRSQ~~Nk~~A~~~L~~  252 (333)
T d1rq0a_         198 LKIETFRASGHGGQYVNKTESAVRITHL-----------------------P-TG-IVVSCQNERSQYQNKQTALRILRA  252 (333)
T ss_dssp             EEEEEECCCC----CCSSSSEEEEEEET-----------------------T-TC-CEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             eeEEeecCCccccchhhhhhheeEEEEc-----------------------C-Cc-cEEEcccccccHHHHHHHHHHHHH
Confidence            7777665668999999999999987531                       4 77 567899999999999999999976


Q ss_pred             HHHHHh
Q 014729          371 LIEEAG  376 (419)
Q Consensus       371 LI~EAk  376 (419)
                      =|.+-.
T Consensus       253 kl~~~~  258 (333)
T d1rq0a_         253 RLYQLQ  258 (333)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554443

>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=90.22  E-value=0.17  Score=48.24  Aligned_cols=59  Identities=14%  Similarity=0.228  Sum_probs=49.2

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|+|||++|+.+++|-++=.                       | ||+ +.+|+.-++|.+|+.-|+.+|..
T Consensus       236 l~i~~~rs~g~GGQ~vN~t~savri~H~-----------------------p-tgi-~v~~q~ersq~~Nk~~A~~~L~~  290 (362)
T d1gqea_         236 LRIDVYRASGAGGQHVNRTESAVRITHI-----------------------P-TGI-VTQCQNDRSQHKNKDQAMKQMKA  290 (362)
T ss_dssp             EEEEEECCCCSSCCSTTSSCCEEEEEET-----------------------T-TCC-EEEECSSSCHHHHHHHHHHHHHH
T ss_pred             eEEEEeecCCCCccchhhhhceeEEEec-----------------------C-chh-HHHhhhcchhhHHHHHHHHHHHH
Confidence            7777776779999999999999987532                       4 765 57999999999999999999988


Q ss_pred             HHHH
Q 014729          371 LIEE  374 (419)
Q Consensus       371 LI~E  374 (419)
                      -|.+
T Consensus       291 ~l~~  294 (362)
T d1gqea_         291 KLYE  294 (362)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6643

>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=89.65  E-value=0.19  Score=47.55  Aligned_cols=61  Identities=18%  Similarity=0.269  Sum_probs=49.3

Q ss_pred             eEEEEEEEecCCCCCCCCCCCeEEEEEEcCCCCCCHHHHHHHHHHhCCCCCCCCCeEEEEeCCCCCHHhhHHHHHHHHHH
Q 014729          291 LRWVTRAVFAPGGDAWHPKNRKVKMSVTVKELGLSKYQFRRLRELVGKRYHPGKDELTITSERFEHREENRKDCLRTLFS  370 (419)
Q Consensus       291 Lr~~t~~Y~gaGgqe~HP~nrKVvL~V~VsdL~Lsd~qr~KLk~LAG~RYn~~tgiLkISsdrFptreQNrkyl~d~L~~  370 (419)
                      |++.+.-=-|+|||++|+.+++|-++=-                       | || |+++|+.-++|-+|+.-|+.+|..
T Consensus       212 l~i~~~rssg~GGQ~vnkt~sAVRi~H~-----------------------p-tG-i~v~~q~eRSq~~Nk~~A~~~L~~  266 (344)
T d2b3tb1         212 LRIDTFRSSGAGGQHVNTTDSAIRITHL-----------------------P-TG-IVVECQDERSQHKNKAKALSVLGA  266 (344)
T ss_dssp             EEEEECCSSCCCTTTCCCSSEEEEEEET-----------------------T-TC-CEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             ceEEEecCCCccccchhhhhceeEEEEc-----------------------C-Cc-eEEEccCCCcchHHHHHHHHHHHH
Confidence            6776655568999999999999987532                       4 77 567899999999999999999997


Q ss_pred             HHHHHh
Q 014729          371 LIEEAG  376 (419)
Q Consensus       371 LI~EAk  376 (419)
                      -|.+-.
T Consensus       267 kl~~~~  272 (344)
T d2b3tb1         267 RIHAAE  272 (344)
T ss_dssp             HHTTTT
T ss_pred             HHHHHH
Confidence            665543