Psyllid ID: psy13055

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------
Protein Sequence
MGNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHHHHHcccccccHHHHHHHccccEEEEEEEEEccccccEEEEEEccHHHHHHHHHccccEEEEEEEcccccEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccccccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHcccHcHEEEEEccHHHHHHHHHccccEEEEEEccccccEEEEEc
Coil and Loop (DISEMBL)
mgnmldglrpsetaVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIveraihprkIYFLIGYTEELLSFWLqcpvklelqtveskkdVVFRYI
Flexible Loop (DISEMBL)
mgnmldglrpseTAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVklelqtveskkdvvfryi
Low Complexity Region (SEG)
MGNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEiiikrqhniiriGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI
Disordered region (IsUnstruct)
***************EDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVF***
Disordered Region (DISOPRED)
********RPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI
Disordered Region (DISEMBL)
MGNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI
Disordered Region (DISPRO)
*********PSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI
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	97	2.2.26 [Sep-21-2011]
Q9VCC3	165	28S ribosomal protein S24	yes	N/A	0.989	0.581	0.697	3e-36
Q3B8K3	170	28S ribosomal protein S24	N/A	N/A	0.969	0.552	0.5	4e-19
Q6NTS3	170	28S ribosomal protein S24	N/A	N/A	0.969	0.552	0.5	4e-19
Q502C1	163	28S ribosomal protein S24	yes	N/A	0.969	0.576	0.458	4e-18
Q96EL2	167	28S ribosomal protein S24	yes	N/A	0.969	0.562	0.427	6e-17
Q2M2T7	167	28S ribosomal protein S24	yes	N/A	0.969	0.562	0.437	6e-16
Q9CQV5	167	28S ribosomal protein S24	yes	N/A	0.969	0.562	0.427	8e-16
Q688C0	164	28S ribosomal protein S24	yes	N/A	0.958	0.567	0.43	5e-13
Q61T16	166	28S ribosomal protein S24	N/A	N/A	0.958	0.560	0.43	3e-12

>sp|Q9VCC3|RT24_DROME 28S ribosomal protein S24, mitochondrial OS=Drosophila melanogaster GN=mRpS24 PE=3 SV=1

 Score =  150 bits (378), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 67/96 (69%), Positives = 79/96 (82%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
             M D LRPS+TA+ED FIR+F+ GTWH L  SE+IIKRQHN IRI  ++ +AI PRK+Y
Sbjct: 70  STMKDALRPSQTAIEDVFIRKFVTGTWHALVCSEVIIKRQHNTIRIAALIRQAITPRKMY 129

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTEELLS+W+QCPV LELQTV  KKDVVF+YI
Sbjct: 130 FLIGYTEELLSYWMQCPVTLELQTVGDKKDVVFKYI 165

Drosophila melanogaster (taxid: 7227)

>sp|Q3B8K3|RT24B_XENLA 28S ribosomal protein S24-B, mitochondrial OS=Xenopus laevis GN=mrps24-b PE=2 SV=1

 Score = 93.2 bits (230), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 48/96 (50%), Positives = 66/96 (68%), Gaps = 2/96 (2%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
           GN+      +E  +ED FIRRF+ GT+H    +EI+IKR+ N++ I  I  R +  +K Y
Sbjct: 77  GNLDGEGGAAERTIEDVFIRRFIFGTFHGCLANEIVIKRRANLLIICAIFIRKMPTQKFY 136

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTE LLSF  +CPVKLE+QTVE K  V+++Y+
Sbjct: 137 FLIGYTETLLSFLYKCPVKLEVQTVEEK--VIYKYL 170

Xenopus laevis (taxid: 8355)

>sp|Q6NTS3|RT24A_XENLA 28S ribosomal protein S24-A, mitochondrial OS=Xenopus laevis GN=mrps24-a PE=2 SV=1

 Score = 93.2 bits (230), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 48/96 (50%), Positives = 66/96 (68%), Gaps = 2/96 (2%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
           GN+      +E  +ED FIRRF+ GT+H    +EI+IKR+ N++ I  I  R +  +K Y
Sbjct: 77  GNLDGEGGAAERTIEDVFIRRFIFGTFHGCLANEIVIKRRANLLIICAIFIRKMPTQKFY 136

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTE LLSF  +CPVKLE+QTVE K  V+++Y+
Sbjct: 137 FLIGYTETLLSFLYKCPVKLEVQTVEEK--VIYKYL 170

Xenopus laevis (taxid: 8355)

>sp|Q502C1|RT24_DANRE 28S ribosomal protein S24, mitochondrial OS=Danio rerio GN=mrps24 PE=2 SV=1

 Score = 90.1 bits (222), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 44/96 (45%), Positives = 67/96 (69%), Gaps = 2/96 (2%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
           GN+      +E  +ED FIRRF+ GT+H+    E++IKR+ N++ I  ++ + + P K Y
Sbjct: 70  GNLHAEGGAAERVLEDVFIRRFIFGTFHSCLADELVIKRRGNVLIICAVMIQKLLPSKFY 129

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FL+GYTEELLS + +CPVK+ELQ V+ K  VV++Y+
Sbjct: 130 FLLGYTEELLSHFYKCPVKMELQLVDEK--VVYKYL 163

Danio rerio (taxid: 7955)

>sp|Q96EL2|RT24_HUMAN 28S ribosomal protein S24, mitochondrial OS=Homo sapiens GN=MRPS24 PE=1 SV=1

 Score = 85.9 bits (211), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 41/96 (42%), Positives = 64/96 (66%), Gaps = 2/96 (2%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
           GN+      +E  VED F+R+F+ GT+      ++++KR+ N + I  +V R + P K Y
Sbjct: 74  GNLDGEDHAAERTVEDVFLRKFMWGTFPGCLADQLVLKRRGNQLEICAVVLRQLSPHKYY 133

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FL+GY+E LLS++ +CPV+L LQTV SK  VV++Y+
Sbjct: 134 FLVGYSETLLSYFYKCPVRLHLQTVPSK--VVYKYL 167

Homo sapiens (taxid: 9606)

>sp|Q2M2T7|RT24_BOVIN 28S ribosomal protein S24, mitochondrial OS=Bos taurus GN=MRPS24 PE=1 SV=1

 Score = 82.8 bits (203), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 42/96 (43%), Positives = 62/96 (64%), Gaps = 2/96 (2%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
           GN+      +E  VED F+R+F+ GT+      ++I+KR+ N + I  +V R +   K Y
Sbjct: 74  GNLDGEDHAAERTVEDVFLRKFMLGTFPGCLADQLILKRRANQVEICALVLRQLPAHKFY 133

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FL+GY+E LLS + +CPV+L LQTV SK  VV++YI
Sbjct: 134 FLVGYSETLLSHFYKCPVRLHLQTVPSK--VVYKYI 167

Bos taurus (taxid: 9913)

>sp|Q9CQV5|RT24_MOUSE 28S ribosomal protein S24, mitochondrial OS=Mus musculus GN=Mrps24 PE=2 SV=1

 Score = 82.4 bits (202), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 41/96 (42%), Positives = 62/96 (64%), Gaps = 2/96 (2%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
           GN+      +E  +ED F+R+F+ GT+      +I++KR+ N + I  +V R +   K Y
Sbjct: 74  GNLDGEDHAAERTLEDVFLRKFMMGTFPGCLADQIVLKRRANQVDICALVLRQLPAHKFY 133

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FL+GY+E LLS + +CPV+L LQTV SK  VV++YI
Sbjct: 134 FLVGYSETLLSHFYKCPVRLHLQTVPSK--VVYKYI 167

Mus musculus (taxid: 10090)

>sp|Q688C0|RT24_CAEEL 28S ribosomal protein S24, mitochondrial OS=Caenorhabditis elegans GN=F33D4.8 PE=3 SV=1

 Score = 72.8 bits (177), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 43/100 (43%), Positives = 67/100 (67%), Gaps = 7/100 (7%)

Query: 5   LDGLRPSETAV--EDEFIRRFLRGTW-HNLFLS--EIIIKRQHNIIRIGGIVE--RAIHP 57
           L+  R S+  V  +DE +RRF+RG +  NL +S  EI+IKR+ N++ + G ++  R +  
Sbjct: 65  LEEFRQSQPLVVAQDEVVRRFIRGFFPQNLVVSGNEIVIKRRGNVLIVAGFLQYSRRLDI 124

Query: 58  RKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           R+IY++ G+ EE LS  L+ PVKLE+  VES++DV + YI
Sbjct: 125 RRIYWMFGFAEEFLSILLKQPVKLEMAFVESEEDVAYNYI 164

Caenorhabditis elegans (taxid: 6239)

>sp|Q61T16|RT24_CAEBR 28S ribosomal protein S24, mitochondrial OS=Caenorhabditis briggsae GN=CBG05943 PE=3 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 43/100 (43%), Positives = 66/100 (66%), Gaps = 7/100 (7%)

Query: 5   LDGLRPSETAV--EDEFIRRFLRGTW-HNLFLS--EIIIKRQHNIIRIGGIVE--RAIHP 57
           L+  R S+  V  +DE +RRF+RG +  NL +S  EI+IKR+ N++ + G ++  R +  
Sbjct: 67  LEEFRQSQPLVVAQDEVVRRFIRGFFPQNLVVSGNEIVIKRRGNVLIVAGFLQYSRRLDI 126

Query: 58  RKIYFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           R+IY++ G+ EE LS  L+ PVKLEL  VES++ V + YI
Sbjct: 127 RRIYWMFGFAEEFLSILLKQPVKLELSFVESEETVAYNYI 166

Caenorhabditis briggsae (taxid: 6238)

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	97
307189214	115	28S ribosomal protein S24, mitochondrial	0.989	0.834	0.760	7e-38
332374984	165	unknown [Dendroctonus ponderosae]	0.989	0.581	0.729	6e-37
195453282	165	GK12989 [Drosophila willistoni] gi|19416	0.989	0.581	0.718	2e-36
91091814	161	PREDICTED: similar to mitochondrial ribo	0.989	0.596	0.75	3e-36
307206306	115	28S ribosomal protein S24, mitochondrial	0.989	0.834	0.729	1e-35
328701599	159	PREDICTED: 28S ribosomal protein S24, mi	0.979	0.597	0.736	2e-35
195037038	165	GH19088 [Drosophila grimshawi] gi|193894	0.989	0.581	0.708	3e-35
239789197	159	ACYPI005913 [Acyrthosiphon pisum]	0.979	0.597	0.726	7e-35
195400050	169	GJ14529 [Drosophila virilis] gi|19414219	0.989	0.568	0.697	8e-35
194909901	165	GG12367 [Drosophila erecta] gi|190656670	0.989	0.581	0.708	9e-35

>gi|307189214|gb|EFN73662.1| 28S ribosomal protein S24, mitochondrial [Camponotus floridanus]

 Score =  160 bits (406), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 73/96 (76%), Positives = 85/96 (88%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
            N+ DG RPSETAVED FIR+F+RGTWHNLF+SE+IIKRQHNIIRI GI+ R+I P KIY
Sbjct: 20  SNVKDGNRPSETAVEDMFIRQFMRGTWHNLFVSEVIIKRQHNIIRIAGIITRSIAPYKIY 79

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FL GYTEELLS+WLQCP+K+EL T +SKKDVVF+YI
Sbjct: 80  FLTGYTEELLSYWLQCPIKIELVTTDSKKDVVFKYI 115

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332374984|gb|AEE62633.1| unknown [Dendroctonus ponderosae]

 Score =  157 bits (398), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 70/96 (72%), Positives = 83/96 (86%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
            N+L G R SETAVED+FIR+F+ GTWH LFLSE+IIKRQHN+IRI GI+ R I PRK+Y
Sbjct: 70  SNLLGGQRQSETAVEDQFIRKFMHGTWHALFLSEVIIKRQHNLIRIAGIIHRGIMPRKMY 129

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTEE LSFWLQCP+KLELQT  ++KDV+F+YI
Sbjct: 130 FLIGYTEEFLSFWLQCPIKLELQTTANRKDVIFKYI 165

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195453282|ref|XP_002073719.1| GK12989 [Drosophila willistoni] gi|194169804|gb|EDW84705.1| GK12989 [Drosophila willistoni]

 Score =  156 bits (394), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 69/96 (71%), Positives = 81/96 (84%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
             + DGLRPS+TA+ED FIR+F+ GTWH L  SE+IIKRQHN IRI GI+ +AI PRK+Y
Sbjct: 70  STLKDGLRPSQTAIEDVFIRKFITGTWHALVCSEVIIKRQHNTIRIAGIIRQAISPRKVY 129

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FL+GYTEELLS+WLQCPV LELQTV  KKDVVF+YI
Sbjct: 130 FLVGYTEELLSYWLQCPVTLELQTVADKKDVVFKYI 165

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91091814|ref|XP_971321.1| PREDICTED: similar to mitochondrial ribosomal protein, S24, putative [Tribolium castaneum] gi|270000828|gb|EEZ97275.1| hypothetical protein TcasGA2_TC011079 [Tribolium castaneum]

 Score =  155 bits (392), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 72/96 (75%), Positives = 83/96 (86%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
            N+  GLR SETA+ED FIR+F+ GTWH LFLSEIIIKRQHNIIRI GIV R++  RK+Y
Sbjct: 66  SNLEGGLRSSETAIEDIFIRKFMTGTWHALFLSEIIIKRQHNIIRIAGIVRRSVSARKMY 125

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTEELLSFWLQCPVK+ELQTV  ++DVVF+YI
Sbjct: 126 FLIGYTEELLSFWLQCPVKVELQTVADRRDVVFKYI 161

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307206306|gb|EFN84363.1| 28S ribosomal protein S24, mitochondrial [Harpegnathos saltator]

 Score =  153 bits (387), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 70/96 (72%), Positives = 79/96 (82%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
            N+ DG RPSETAVED FIR F++GTWHNLF SE+IIKRQHNIIRI GI+ R I P KIY
Sbjct: 20  SNIKDGNRPSETAVEDLFIRYFMKGTWHNLFASEVIIKRQHNIIRIAGIITRTIAPTKIY 79

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FL GYTEE LSFWLQCP+KLEL +  S KDV+F+YI
Sbjct: 80  FLTGYTEEFLSFWLQCPIKLELVSTNSHKDVIFKYI 115

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328701599|ref|XP_001943070.2| PREDICTED: 28S ribosomal protein S24, mitochondrial-like [Acyrthosiphon pisum]

 Score =  152 bits (385), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 70/95 (73%), Positives = 81/95 (85%)

Query: 3   NMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYF 62
           NMLDGLRP+ETA++DEFIRRF+ GTWH+L  SEIIIKRQHNIIRI  I  + I   K+YF
Sbjct: 65  NMLDGLRPAETAIDDEFIRRFMTGTWHDLIASEIIIKRQHNIIRIAAITVQKISVTKVYF 124

Query: 63  LIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           LIGYTEELLS+WLQCP+KLELQTVE +  VVF+YI
Sbjct: 125 LIGYTEELLSYWLQCPIKLELQTVEDRTAVVFKYI 159

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195037038|ref|XP_001989972.1| GH19088 [Drosophila grimshawi] gi|193894168|gb|EDV93034.1| GH19088 [Drosophila grimshawi]

 Score =  152 bits (383), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 68/96 (70%), Positives = 79/96 (82%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
             + DGLRPS+TA+ED FIR+F+ GTWH L  SEIIIKRQHN IRI  I+ +AI PRK+Y
Sbjct: 70  STLKDGLRPSQTAIEDVFIRKFITGTWHALVCSEIIIKRQHNTIRIAAIIRQAISPRKMY 129

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTEELLS+W+QCPV LE QTV  KKDVVF+YI
Sbjct: 130 FLIGYTEELLSYWMQCPVTLEFQTVADKKDVVFKYI 165

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|239789197|dbj|BAH71238.1| ACYPI005913 [Acyrthosiphon pisum]

 Score =  150 bits (380), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 69/95 (72%), Positives = 81/95 (85%)

Query: 3   NMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYF 62
           NMLDGLRP+ETA++DEFIRRF+ GTWH+L  SEIIIKRQH+IIRI  I  + I   K+YF
Sbjct: 65  NMLDGLRPAETAIDDEFIRRFMTGTWHDLIASEIIIKRQHDIIRIAAITVQKISVTKVYF 124

Query: 63  LIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           LIGYTEELLS+WLQCP+KLELQTVE +  VVF+YI
Sbjct: 125 LIGYTEELLSYWLQCPIKLELQTVEDRTAVVFKYI 159

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195400050|ref|XP_002058631.1| GJ14529 [Drosophila virilis] gi|194142191|gb|EDW58599.1| GJ14529 [Drosophila virilis]

 Score =  150 bits (380), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 67/96 (69%), Positives = 78/96 (81%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
             + D LRPS+TA+ED FIR+F+ GTWH L  SEIIIKRQHN IRI  I+ +AI PRK+Y
Sbjct: 74  STLKDALRPSQTAIEDVFIRKFVTGTWHALVCSEIIIKRQHNTIRIAAIIRQAISPRKMY 133

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTEELLS+W+QCPV LE QTV  KKDVVF+YI
Sbjct: 134 FLIGYTEELLSYWMQCPVTLEFQTVADKKDVVFKYI 169

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194909901|ref|XP_001982032.1| GG12367 [Drosophila erecta] gi|190656670|gb|EDV53902.1| GG12367 [Drosophila erecta]

 Score =  150 bits (379), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 68/96 (70%), Positives = 79/96 (82%)

Query: 2   GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIY 61
             M D LRPS+TA+ED FIR+F+ GTWH L  SEIIIKRQHN IRI  ++ +AI PRK+Y
Sbjct: 70  STMKDALRPSQTAIEDVFIRKFVTGTWHALVCSEIIIKRQHNTIRIAALIRQAITPRKMY 129

Query: 62  FLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
           FLIGYTEELLS+W+QCPV LELQTV  KKDVVF+YI
Sbjct: 130 FLIGYTEELLSYWMQCPVTLELQTVGDKKDVVFKYI 165

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	97
FB|FBgn0039159	165	mRpS24 "mitochondrial ribosoma	0.969	0.569	0.606	7.3e-27
UNIPROTKB|Q3B8K3	170	mrps24-b "28S ribosomal protei	0.958	0.547	0.463	3.3e-15
UNIPROTKB|Q6NTS3	170	mrps24-a "28S ribosomal protei	0.958	0.547	0.463	3.3e-15
ZFIN|ZDB-GENE-050522-393	163	mrps24 "mitochondrial ribosoma	0.876	0.521	0.425	4.9e-14
UNIPROTKB|Q96EL2	167	MRPS24 "28S ribosomal protein	0.958	0.556	0.412	1.6e-13
UNIPROTKB|F1ST79	167	MRPS24 "Uncharacterized protei	0.958	0.556	0.422	4.4e-13
UNIPROTKB|Q2M2T7	167	MRPS24 "28S ribosomal protein	0.958	0.556	0.412	1.5e-12
UNIPROTKB|H9GW52	97	MRPS24 "Uncharacterized protei	0.958	0.958	0.412	1.5e-12
MGI|MGI:1928142	167	Mrps24 "mitochondrial ribosoma	0.958	0.556	0.402	2.4e-12
RGD|1306014	167	Mrps24 "mitochondrial ribosoma	0.958	0.556	0.402	3.1e-12

FB|FBgn0039159 mRpS24 "mitochondrial ribosomal protein S24" [Drosophila melanogaster (taxid:7227)]

 Score = 302 (111.4 bits), Expect = 7.3e-27, P = 7.3e-27
 Identities = 57/94 (60%), Positives = 68/94 (72%)

Query:     4 MLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKIYFL 63
             M D LRPS+TA+ED FIR+F+ GTWH L  SE              ++ +AI PRK+YFL
Sbjct:    72 MKDALRPSQTAIEDVFIRKFVTGTWHALVCSEVIIKRQHNTIRIAALIRQAITPRKMYFL 131

Query:    64 IGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             IGYTEELLS+W+QCPV LELQTV  KKDVVF+YI
Sbjct:   132 IGYTEELLSYWMQCPVTLELQTVGDKKDVVFKYI 165

GO:0006412 "translation" evidence=ISS

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

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

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

UNIPROTKB|Q3B8K3 mrps24-b "28S ribosomal protein S24-B, mitochondrial" [Xenopus laevis (taxid:8355)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 45/97 (46%), Positives = 58/97 (59%)

Query:     2 GNMLDGLR-PSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  +ED FIRRF+ GT+H    +E              I  R +  +K 
Sbjct:    77 GN-LDGEGGAAERTIEDVFIRRFIFGTFHGCLANEIVIKRRANLLIICAIFIRKMPTQKF 135

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFLIGYTE LLSF  +CPVKLE+QTVE K  V+++Y+
Sbjct:   136 YFLIGYTETLLSFLYKCPVKLEVQTVEEK--VIYKYL 170

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

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

GO:0006412 "translation" evidence=ISS

UNIPROTKB|Q6NTS3 mrps24-a "28S ribosomal protein S24-A, mitochondrial" [Xenopus laevis (taxid:8355)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 45/97 (46%), Positives = 58/97 (59%)

Query:     2 GNMLDGLR-PSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  +ED FIRRF+ GT+H    +E              I  R +  +K 
Sbjct:    77 GN-LDGEGGAAERTIEDVFIRRFIFGTFHGCLANEIVIKRRANLLIICAIFIRKMPTQKF 135

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFLIGYTE LLSF  +CPVKLE+QTVE K  V+++Y+
Sbjct:   136 YFLIGYTETLLSFLYKCPVKLEVQTVEEK--VIYKYL 170

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

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

GO:0006412 "translation" evidence=ISS

ZFIN|ZDB-GENE-050522-393 mrps24 "mitochondrial ribosomal protein S24" [Danio rerio (taxid:7955)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 37/87 (42%), Positives = 54/87 (62%)

Query:    11 SETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKIYFLIGYTEEL 70
             +E  +ED FIRRF+ GT+H+    E              ++ + + P K YFL+GYTEEL
Sbjct:    79 AERVLEDVFIRRFIFGTFHSCLADELVIKRRGNVLIICAVMIQKLLPSKFYFLLGYTEEL 138

Query:    71 LSFWLQCPVKLELQTVESKKDVVFRYI 97
             LS + +CPVK+ELQ V+ K  VV++Y+
Sbjct:   139 LSHFYKCPVKMELQLVDEK--VVYKYL 163

GO:0005739 "mitochondrion" evidence=IEA

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

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

GO:0006412 "translation" evidence=ISS

GO:0005840 "ribosome" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|Q96EL2 MRPS24 "28S ribosomal protein S24, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 176 (67.0 bits), Expect = 1.6e-13, P = 1.6e-13
 Identities = 40/97 (41%), Positives = 57/97 (58%)

Query:     2 GNMLDGL-RPSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  VED F+R+F+ GT+      +              +V R + P K 
Sbjct:    74 GN-LDGEDHAAERTVEDVFLRKFMWGTFPGCLADQLVLKRRGNQLEICAVVLRQLSPHKY 132

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFL+GY+E LLS++ +CPV+L LQTV SK  VV++Y+
Sbjct:   133 YFLVGYSETLLSYFYKCPVRLHLQTVPSK--VVYKYL 167

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

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

GO:0006412 "translation" evidence=ISS

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

UNIPROTKB|F1ST79 MRPS24 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 41/97 (42%), Positives = 55/97 (56%)

Query:     2 GNMLDGL-RPSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  VED F+R+F+ GT+      +              +V R + P K 
Sbjct:    74 GN-LDGEDHAAERTVEDVFLRKFMLGTFPGCLADQLVLKRRANQLEICALVLRQLPPHKF 132

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFL+GY+E LLS + +CPV L LQTV SK  VV++YI
Sbjct:   133 YFLVGYSETLLSHFYKCPVHLHLQTVPSK--VVYKYI 167

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|Q2M2T7 MRPS24 "28S ribosomal protein S24, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 40/97 (41%), Positives = 55/97 (56%)

Query:     2 GNMLDGL-RPSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  VED F+R+F+ GT+      +              +V R +   K 
Sbjct:    74 GN-LDGEDHAAERTVEDVFLRKFMLGTFPGCLADQLILKRRANQVEICALVLRQLPAHKF 132

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFL+GY+E LLS + +CPV+L LQTV SK  VV++YI
Sbjct:   133 YFLVGYSETLLSHFYKCPVRLHLQTVPSK--VVYKYI 167

GO:0006412 "translation" evidence=IDA

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

GO:0005762 "mitochondrial large ribosomal subunit" evidence=IDA

UNIPROTKB|H9GW52 MRPS24 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 40/97 (41%), Positives = 55/97 (56%)

Query:     2 GNMLDGLR-PSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  VED F+R+F+ GT+      +              +V R +   K 
Sbjct:     4 GN-LDGEEHAAERTVEDVFLRKFMLGTFPGCLADQLILKRRANQLQICALVLRQLPAHKF 62

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFL+GY+E LLS + +CPV+L LQTV SK  VV++YI
Sbjct:    63 YFLVGYSETLLSHFYKCPVRLHLQTVPSK--VVYKYI 97

GO:0005739 "mitochondrion" evidence=IEA

MGI|MGI:1928142 Mrps24 "mitochondrial ribosomal protein S24" [Mus musculus (taxid:10090)]

 Score = 165 (63.1 bits), Expect = 2.4e-12, P = 2.4e-12
 Identities = 39/97 (40%), Positives = 55/97 (56%)

Query:     2 GNMLDGL-RPSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  +ED F+R+F+ GT+      +              +V R +   K 
Sbjct:    74 GN-LDGEDHAAERTLEDVFLRKFMMGTFPGCLADQIVLKRRANQVDICALVLRQLPAHKF 132

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFL+GY+E LLS + +CPV+L LQTV SK  VV++YI
Sbjct:   133 YFLVGYSETLLSHFYKCPVRLHLQTVPSK--VVYKYI 167

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

GO:0005739 "mitochondrion" evidence=IDA

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

GO:0005840 "ribosome" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0030529 "ribonucleoprotein complex" evidence=IEA

RGD|1306014 Mrps24 "mitochondrial ribosomal protein S24" [Rattus norvegicus (taxid:10116)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 39/97 (40%), Positives = 55/97 (56%)

Query:     2 GNMLDGL-RPSETAVEDEFIRRFLRGTWHNLFLSEXXXXXXXXXXXXGGIVERAIHPRKI 60
             GN LDG    +E  +ED F+R+F+ GT+      +              +V R +   K 
Sbjct:    74 GN-LDGEDHAAERTLEDVFLRKFMLGTFPGCLADQIVLKRRANQVDICALVLRQLPAHKF 132

Query:    61 YFLIGYTEELLSFWLQCPVKLELQTVESKKDVVFRYI 97
             YFL+GY+E LLS + +CPV+L LQTV SK  VV++YI
Sbjct:   133 YFLVGYSETLLSHFYKCPVRLHLQTVPSK--VVYKYI 167

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0005840 "ribosome" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9VCC3	RT24_DROME	No assigned EC number	0.6979	0.9896	0.5818	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	97
PF14955	136	MRP-S24: Mitochondrial ribosome subunit S24	100.0
cd02412	109	30S_S3_KH K homology RNA-binding (KH) domain of th	96.2
cd02411	85	archeal_30S_S3_KH K homology RNA-binding domain (K	90.22
TIGR01009	211	rpsC_bact ribosomal protein S3, bacterial type. TI	88.05
PRK00310	232	rpsC 30S ribosomal protein S3; Reviewed	84.98

>PF14955 MRP-S24: Mitochondrial ribosome subunit S24

Probab=100.00  E-value=3.7e-60  Score=345.59  Aligned_cols=96  Identities=71%  Similarity=1.142  Sum_probs=95.4

Q ss_pred             CCCCCCCCCCchhhHHHHHHHHhhccccccchheeeeeeecceEEEEEEEecccCCceEEeeecchHHHHHhhhcCcceE
Q psy13055          2 GNMLDGLRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTEELLSFWLQCPVKL   81 (97)
Q Consensus         2 ~nL~g~~~~~e~~~eD~fIRkFi~Gtf~~~~~sEvIIKRr~N~I~Ia~~~~~~l~~~k~YFL~GYtEelLS~~lkcpVkl   81 (97)
                      |||+|++|++|+++||+||||||+||||++++||||||||||+|+||++++|+++|+|||||+||||||||+||||||||
T Consensus        41 ~nL~g~~~~~e~~~eD~fIRkFi~GTf~~~l~sEiiIKRr~N~I~Ia~~~~~~l~~~k~YFL~GYtEelLS~~lkcpVKl  120 (136)
T PF14955_consen   41 SNLEGENRASERTVEDVFIRKFIRGTFPGLLASEIIIKRRHNVIRIAGIVLRRLQPRKIYFLIGYTEELLSHWLKCPVKL  120 (136)
T ss_pred             cccccCCCCcchhhHHHHHHHhccCCCchhcchhhhhhhcccEEEEeEeeeccCCceeEEEehhhhHHHHHHHHCCCeEE
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeeccCCceeeeeC
Q psy13055         82 ELQTVESKKDVVFRYI   97 (97)
Q Consensus        82 elqtv~~k~dvv~kyI   97 (97)
                      |||||+||+|||||||
T Consensus       121 elqtv~~k~d~vykyi  136 (136)
T PF14955_consen  121 ELQTVESKKDVVYKYI  136 (136)
T ss_pred             EEEEcCCCCceeEEeC
Confidence            9999999999999998

>cd02412 30S_S3_KH K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3

Probab=96.20  E-value=0.03  Score=38.49  Aligned_cols=72  Identities=24%  Similarity=0.308  Sum_probs=53.4

Q ss_pred             CCchhhHHHHHHHHhhccccccchheeeeeeecceEEEEEEEecccCCceEEeeecch-------HHHHHhhhc-CcceE
Q psy13055         10 PSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYT-------EELLSFWLQ-CPVKL   81 (97)
Q Consensus        10 ~~e~~~eD~fIRkFi~Gtf~~~~~sEvIIKRr~N~I~Ia~~~~~~l~~~k~YFL~GYt-------EelLS~~lk-cpVkl   81 (97)
                      -++-..||.+||+|+.-.+...--|.+.|.|..|.|+|.--..   .|.   .++|..       .+.|..++. -+|.+
T Consensus        28 y~~~l~ed~~IR~yL~k~~~~agis~I~I~R~~~~i~I~I~t~---rPg---~vIG~~G~~i~~L~~~l~~~~~~~~~~I  101 (109)
T cd02412          28 YAELLHEDLKIRKFIKKKLKKAGISRIEIERKADRVEVTIHTA---RPG---IIIGKKGAGIEKLRKELQKLLGNKKVRI  101 (109)
T ss_pred             hHHHHHhHHHHHHHHHHHHhhCCccEEEEEEcCCCEEEEEEeC---CCC---cccCCchHHHHHHHHHHHHHhCCCceEE
Confidence            4567899999999999999888789999999999988755443   244   566775       245566665 56777


Q ss_pred             EEEeec
Q psy13055         82 ELQTVE   87 (97)
Q Consensus        82 elqtv~   87 (97)
                      .+.-|.
T Consensus       102 ~V~ev~  107 (109)
T cd02412         102 NIVEVK  107 (109)
T ss_pred             EEEEec
Confidence            776554

S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>cd02411 archeal_30S_S3_KH K homology RNA-binding domain (KH) of the archaeal 30S small ribosomal subunit S3 protein

Probab=90.22  E-value=0.42  Score=31.34  Aligned_cols=69  Identities=20%  Similarity=0.211  Sum_probs=45.9

Q ss_pred             hhhHHHHHHHHhhccccccchheeeeeeecceEEEEEEEecccCCceEEeeecchH-------HHHHhhhcC-cceEEEE
Q psy13055         13 TAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYTE-------ELLSFWLQC-PVKLELQ   84 (97)
Q Consensus        13 ~~~eD~fIRkFi~Gtf~~~~~sEvIIKRr~N~I~Ia~~~~~~l~~~k~YFL~GYtE-------elLS~~lkc-pVklelq   84 (97)
                      -.+.|.+||+|+.-.+...-.|.|.|+|..|.+.|---.   -.|.   .++|-.-       +.|.-++.- +|.+.+.
T Consensus         8 ~~~~~~~Ir~fl~~~~~~agIs~IeI~r~~~~i~V~I~t---~~pg---~iIGk~G~~I~~l~~~l~k~~~~~~v~I~v~   81 (85)
T cd02411           8 EGVKRTMIDEYLEKELERAGYGGMEILRTPLGTQITIYA---ERPG---MVIGRGGKNIRELTEILETKFGLENPQIDVQ   81 (85)
T ss_pred             cchHHHHHHHHHHhhhhhCcccEEEEEEcCCcEEEEEEE---CCCC---ceECCCchhHHHHHHHHHHHhCCCCceEEEE
Confidence            346899999999998888777999999999986665443   3444   3456532       234444443 4666665


Q ss_pred             eec
Q psy13055         85 TVE   87 (97)
Q Consensus        85 tv~   87 (97)
                      -|.
T Consensus        82 ev~   84 (85)
T cd02411          82 EVE   84 (85)
T ss_pred             Eec
Confidence            443

S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.

>TIGR01009 rpsC_bact ribosomal protein S3, bacterial type

Probab=88.05  E-value=0.53  Score=36.18  Aligned_cols=74  Identities=23%  Similarity=0.276  Sum_probs=51.4

Q ss_pred             CCchhhHHHHHHHHhhccccccchheeeeeeecceEEEEEEEecccCCceEEeeecch----H---HHHHhhhcCcceEE
Q psy13055         10 PSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYT----E---ELLSFWLQCPVKLE   82 (97)
Q Consensus        10 ~~e~~~eD~fIRkFi~Gtf~~~~~sEvIIKRr~N~I~Ia~~~~~~l~~~k~YFL~GYt----E---elLS~~lkcpVkle   82 (97)
                      -|+-..||.+||+|+.=.|...--+.+-|+|..|.+.|---.   -.|.   .++|-.    +   +.|..+++-++.+.
T Consensus        29 Y~~~l~eD~~IR~~i~k~~~~agis~IeI~rt~~~i~I~I~~---~~pg---~vIG~~g~~i~~l~~~l~~~~~~~~~i~  102 (211)
T TIGR01009        29 YAKLLHEDLKIRNYIKKELSNAGISDVEIERPADKIRVTIHT---ARPG---IVIGKKGSEIEKLRKDLQKLTGKEVQIN  102 (211)
T ss_pred             hHHHHHHHHHHHHHHHHHhhhCCcceEEEEEcCCceEEEEEe---CCCc---ceeCCCchHHHHHHHHHHHHhCCceEEE
Confidence            466889999999999977777666999999999887754333   2342   456653    2   34556566667777


Q ss_pred             EEeeccC
Q psy13055         83 LQTVESK   89 (97)
Q Consensus        83 lqtv~~k   89 (97)
                      +.-|.+.
T Consensus       103 v~~v~~p  109 (211)
T TIGR01009       103 IAEVKRP  109 (211)
T ss_pred             EEEecCC
Confidence            7666653

TIGRFAMs model TIGR01008 describes S3 of the eukaryotic cytosol and of the archaea.

>PRK00310 rpsC 30S ribosomal protein S3; Reviewed

Probab=84.98  E-value=0.97  Score=35.28  Aligned_cols=73  Identities=25%  Similarity=0.310  Sum_probs=50.6

Q ss_pred             CCchhhHHHHHHHHhhccccccchheeeeeeecceEEEEEEEecccCCceEEeeecch-------HHHHHhhhcCcceEE
Q psy13055         10 PSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIVERAIHPRKIYFLIGYT-------EELLSFWLQCPVKLE   82 (97)
Q Consensus        10 ~~e~~~eD~fIRkFi~Gtf~~~~~sEvIIKRr~N~I~Ia~~~~~~l~~~k~YFL~GYt-------EelLS~~lkcpVkle   82 (97)
                      -++-..||.+||+|+.=.|...--+.+-|+|..|.|.|---..   .|.   .++|-.       .+.|+.+++-++.+.
T Consensus        29 Y~~~L~eD~~IRe~i~k~~~~agis~IeI~R~~~~i~I~I~~~---rP~---~iiG~~g~~i~~l~~~L~~~~~~~~~i~  102 (232)
T PRK00310         29 YADLLHEDLKIRKFLKKKLKKAGVSRIEIERPAKRVRVTIHTA---RPG---IVIGKKGAEIEKLRKELEKLTGKPVQIN  102 (232)
T ss_pred             hHHHHHHHHHHHHHHHHhHhhCceeEEEEEEcCCeEEEEEEEC---CCc---cccCCCcHHHHHHHHHHHHHhCCceEEE
Confidence            3567899999999998777776679999999999988765443   232   345542       234555565566666


Q ss_pred             EEeecc
Q psy13055         83 LQTVES   88 (97)
Q Consensus        83 lqtv~~   88 (97)
                      +.-|.+
T Consensus       103 v~ev~~  108 (232)
T PRK00310        103 IVEVKK  108 (232)
T ss_pred             EEEecC
Confidence            665554

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	97
d2uubc1	105	Ribosomal protein S3 N-terminal domain {Thermus th	94.93
d2qalc1	105	Ribosomal protein S3 N-terminal domain {Escherichi	94.14

>d2uubc1 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Prokaryotic type KH domain (KH-domain type II)
family: Prokaryotic type KH domain (KH-domain type II)
domain: Ribosomal protein S3 N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.93  E-value=0.0065  Score=39.57  Aligned_cols=44  Identities=20%  Similarity=0.173  Sum_probs=37.7

Q ss_pred             CCCCchhhHHHHHHHHhhccccccchheeeeeeecceEEEEEEE
Q psy13055          8 LRPSETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIV   51 (97)
Q Consensus         8 ~~~~e~~~eD~fIRkFi~Gtf~~~~~sEvIIKRr~N~I~Ia~~~   51 (97)
                      ..-++...||..||+|+.-.++..-.|.|.|.|..|.++|---.
T Consensus        26 ~~y~~~l~eD~~IR~~i~k~~~~agIs~IeIeR~~~~i~I~I~t   69 (105)
T d2uubc1          26 KQYRHLLLEDQRIRGLLEKELYSAGLARVDIERAADNVAVTVHV   69 (105)
T ss_dssp             TTTTHHHHHHHHHHHHHHHSTTTTTEEEECCEESSSCEECCEEE
T ss_pred             hhhHHHHHHHHHHHHHHHhhccccCcceEEEEEccCcEEEEEEE
Confidence            34567899999999999999999778999999999998875444

>d2qalc1 d.52.3.1 (C:1-105) Ribosomal protein S3 N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Prokaryotic type KH domain (KH-domain type II)
family: Prokaryotic type KH domain (KH-domain type II)
domain: Ribosomal protein S3 N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.14  E-value=0.0057  Score=40.04  Aligned_cols=41  Identities=22%  Similarity=0.275  Sum_probs=35.4

Q ss_pred             CchhhHHHHHHHHhhccccccchheeeeeeecceEEEEEEE
Q psy13055         11 SETAVEDEFIRRFLRGTWHNLFLSEIIIKRQHNIIRIGGIV   51 (97)
Q Consensus        11 ~e~~~eD~fIRkFi~Gtf~~~~~sEvIIKRr~N~I~Ia~~~   51 (97)
                      |+...||..||+|+.=.++..-.|.|-|.|..|.+.|---.
T Consensus        29 ~~~l~eD~~IR~~i~k~~~~a~Is~IeIeR~~~~i~V~I~t   69 (105)
T d2qalc1          29 ADNLDSDFKVRQYLTKELAKASVSRIVIERPAKSIRVTIHT   69 (105)
T ss_dssp             HHHHHHHHHHHHHHHHTTSTTCEEEEECCCCSSCBCCEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccceEEEEecCCcEEEEEEe
Confidence            45789999999999999999888999999999987765443