Psyllid ID: psy5233

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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-------18
Protein Sequence
TYAEICYRNSPDFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL
Secondary Structure (PSIPRED)
cEEEEEEEccccHHHHHHHHHHHccccccccEEEHHHHHHHHHHHHHHHcccHHcccccccccccccEEEEcccccccccccccccccHHHHHHHHHHHHHccccccccEEcccccccEEEEEcccccccccHHHHHHHHHHHHHcccccccEEEEEccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHEEEEEccHHHHHHcccccccccHHHHHHHHHHHHHcccccccEEEEEcccEEEEEEEcccccccccHHHHHHHHHHHHHcccccccEEEEEcccEEEEcccccccHHHcccc
Coil and Loop (DISEMBL)
tyaeicyrnspdfnECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLsvpyeqldqigtnrsAHKTFRIKMKLAKKlkqnrpipqwirmrTGNTISVLYHCKSRHSAHKTFRIKMKLAKKlkqnrpipqwirmrtgntirynakrrHWRRTKLKL
Flexible Loop (DISEMBL)
tyaeicyrnspdfnECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEqldqigtnrsahKTFRIKMKLakklkqnrpipqwirmrTGNTISVLYHCKSRHSAHKTFRIKMKLakklkqnrpipqwirmrtgntirynakrrhwrrtklkl
Low Complexity Region (SEG)
TYAEICYRNSPDFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL
Disordered region (IsUnstruct)
***EICYRNSPDFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRR*********
Disordered Region (DISOPRED)
TYAEICYRNSPDFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQ**************************************GNTISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL**
Disordered Region (DISEMBL)
TYAEICYRNSPDFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKR**********
Disordered Region (DISPRO)
TYAEICYRNSPDFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKR**********
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
TYAEICYRNSPDFNECIKNTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL
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	178	2.2.26 [Sep-21-2011]
Q962S4	51	60S ribosomal protein L39	N/A	N/A	0.280	0.980	0.94	2e-19
Q6F482	51	60S ribosomal protein L39	N/A	N/A	0.280	0.980	0.94	2e-19
P62893	51	60S ribosomal protein L39	no	N/A	0.280	0.980	0.84	1e-16
P62892	51	60S ribosomal protein L39	yes	N/A	0.280	0.980	0.84	1e-16
P62891	51	60S ribosomal protein L39	yes	N/A	0.280	0.980	0.84	1e-16
Q3T051	51	60S ribosomal protein L39	yes	N/A	0.280	0.980	0.84	1e-16
P51425	51	60S ribosomal protein L39	N/A	N/A	0.264	0.921	0.872	2e-16
P51426	51	60S ribosomal protein L39	yes	N/A	0.264	0.921	0.872	2e-16
Q6KAJ8	51	60S ribosomal protein L39	yes	N/A	0.264	0.921	0.872	2e-16
Q90YS9	51	60S ribosomal protein L39	N/A	N/A	0.280	0.980	0.82	3e-16

>sp|Q962S4|RL39_SPOFR 60S ribosomal protein L39 OS=Spodoptera frugiperda GN=RpL39 PE=3 SV=1

 Score = 95.5 bits (236), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 47/50 (94%), Positives = 48/50 (96%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           SAHKTF IK KLAKKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKLKL
Sbjct: 2   SAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 51

Spodoptera frugiperda (taxid: 7108)

>sp|Q6F482|RL39_PLUXY 60S ribosomal protein L39 OS=Plutella xylostella GN=RpL39 PE=3 SV=1

 Score = 95.5 bits (236), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 47/50 (94%), Positives = 48/50 (96%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           SAHKTF IK KLAKKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKLKL
Sbjct: 2   SAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 51

Plutella xylostella (taxid: 51655)

>sp|P62893|RL39_RAT 60S ribosomal protein L39 OS=Rattus norvegicus GN=Rpl39 PE=1 SV=2

 Score = 85.9 bits (211), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct: 2   SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

Rattus norvegicus (taxid: 10116)

>sp|P62892|RL39_MOUSE 60S ribosomal protein L39 OS=Mus musculus GN=Rpl39 PE=2 SV=2

 Score = 85.9 bits (211), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct: 2   SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

Mus musculus (taxid: 10090)

>sp|P62891|RL39_HUMAN 60S ribosomal protein L39 OS=Homo sapiens GN=RPL39 PE=2 SV=2

 Score = 85.9 bits (211), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct: 2   SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

Homo sapiens (taxid: 9606)

>sp|Q3T051|RL39_BOVIN 60S ribosomal protein L39 OS=Bos taurus GN=RPL39 PE=3 SV=3

 Score = 85.9 bits (211), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct: 2   SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

Bos taurus (taxid: 9913)

>sp|P51425|RL39_MAIZE 60S ribosomal protein L39 OS=Zea mays GN=RPL39 PE=3 SV=1

 Score = 85.5 bits (210), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/47 (87%), Positives = 44/47 (93%)

Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
           +HKTFRIK KLAKK++QNRPIP WIRMRT NTIRYNAKRRHWRRTKL
Sbjct: 3   SHKTFRIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKL 49

Zea mays (taxid: 4577)

>sp|P51426|RL392_ORYSJ 60S ribosomal protein L39-2 OS=Oryza sativa subsp. japonica GN=RPL39B PE=3 SV=2

 Score = 85.5 bits (210), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/47 (87%), Positives = 44/47 (93%)

Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
           +HKTFRIK KLAKK++QNRPIP WIRMRT NTIRYNAKRRHWRRTKL
Sbjct: 3   SHKTFRIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKL 49

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6KAJ8|RL391_ORYSJ 60S ribosomal protein L39-1 OS=Oryza sativa subsp. japonica GN=RPL39A PE=3 SV=2

 Score = 85.5 bits (210), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/47 (87%), Positives = 44/47 (93%)

Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
           +HKTFRIK KLAKK++QNRPIP WIRMRT NTIRYNAKRRHWRRTKL
Sbjct: 3   SHKTFRIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKL 49

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q90YS9|RL39_ICTPU 60S ribosomal protein L39 OS=Ictalurus punctatus GN=rpl39 PE=3 SV=1

 Score = 84.7 bits (208), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 41/50 (82%), Positives = 45/50 (90%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           ++HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct: 2   ASHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

Ictalurus punctatus (taxid: 7998)

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	178
357625019	102	ribosomal protein L39 [Danaus plexippus]	0.348	0.607	0.822	5e-20
383849756	93	PREDICTED: 60S ribosomal protein L39-lik	0.342	0.655	0.819	3e-19
350423620	55	PREDICTED: 60S ribosomal protein L39-lik	0.280	0.909	0.94	6e-18
307206146	51	60S ribosomal protein L39 [Harpegnathos	0.286	1.0	0.921	8e-18
112984118	51	ribosomal protein L39 [Bombyx mori] gi|2	0.280	0.980	0.94	8e-18
166952331	51	ribosomal protein rpl39 [Lineus viridis]	0.280	0.980	0.9	1e-17
225708742	51	60S ribosomal protein L39 [Caligus roger	0.275	0.960	0.959	1e-17
290462417	51	60S ribosomal protein L39 [Lepeophtheiru	0.275	0.960	0.959	1e-17
188572558	51	putative 60S ribosomal protein RPL39 [Ph	0.280	0.980	0.88	1e-17
121512012	51	ribosomal protein L39 [Xenopsylla cheopi	0.280	0.980	0.92	2e-17

>gi|357625019|gb|EHJ75575.1| ribosomal protein L39 [Danaus plexippus]

 Score =  102 bits (255), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 51/62 (82%), Positives = 54/62 (87%)

Query: 117 TISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
            +SVL   K+  SAHKTF IK KLAKKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKL
Sbjct: 41  VLSVLTAGKTTMSAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKL 100

Query: 177 KL 178
           KL
Sbjct: 101 KL 102

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383849756|ref|XP_003700503.1| PREDICTED: 60S ribosomal protein L39-like [Megachile rotundata]

 Score =  100 bits (248), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 50/61 (81%), Positives = 53/61 (86%)

Query: 118 ISVLYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
           +SV+   K   SAHKTF IK KLAKKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKLK
Sbjct: 33  LSVVKGAKCILSAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLK 92

Query: 178 L 178
           L
Sbjct: 93  L 93

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350423620|ref|XP_003493538.1| PREDICTED: 60S ribosomal protein L39-like [Bombus impatiens]

 Score = 95.9 bits (237), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 47/50 (94%), Positives = 48/50 (96%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           SAHKTF IK KLAKKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKLKL
Sbjct: 6   SAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 55

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307206146|gb|EFN84226.1| 60S ribosomal protein L39 [Harpegnathos saltator]

 Score = 95.5 bits (236), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 47/51 (92%), Positives = 48/51 (94%)

Query: 128 HSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
            SAHKTF IK KLAKKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKLKL
Sbjct: 1   QSAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 51

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|112984118|ref|NP_001037251.1| ribosomal protein L39 [Bombyx mori] gi|209571492|ref|NP_001129377.1| ribosomal protein L39 [Apis mellifera] gi|209571494|ref|NP_001129378.1| ribosomal protein L39 [Tribolium castaneum] gi|209862827|ref|NP_001129486.1| ribosomal protein L39 [Nasonia vitripennis] gi|54036254|sp|Q6F482.1|RL39_PLUXY RecName: Full=60S ribosomal protein L39 gi|54036316|sp|Q962S4.1|RL39_SPOFR RecName: Full=60S ribosomal protein L39 gi|15213798|gb|AAK92174.1|AF400202_1 ribosomal protein L39 [Spodoptera frugiperda] gi|49532834|dbj|BAD26652.1| Ribosomal protein L39 [Plutella xylostella] gi|54609275|gb|AAV34853.1| ribosomal protein L39 [Bombyx mori] gi|70909903|emb|CAJ17438.1| ribosomal protein L39e [Biphyllus lunatus] gi|70909905|emb|CAJ17439.1| ribosomal protein L39e [Cicindela litorea] gi|264667447|gb|ACY71309.1| ribosomal protein L39 [Chrysomela tremula] gi|268306482|gb|ACY95362.1| ribosomal protein L39 [Manduca sexta] gi|315115461|gb|ADT80703.1| ribosomal protein L39 [Euphydryas aurinia] gi|332019965|gb|EGI60425.1| 60S ribosomal protein L39 [Acromyrmex echinatior] gi|342356449|gb|AEL28883.1| ribosomal protein L39 [Heliconius melpomene cythera] gi|389608661|dbj|BAM17940.1| ribosomal protein L39 [Papilio xuthus] gi|389611453|dbj|BAM19338.1| ribosomal protein L39 [Papilio polytes]

 Score = 95.5 bits (236), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 47/50 (94%), Positives = 48/50 (96%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           SAHKTF IK KLAKKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKLKL
Sbjct: 2   SAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 51

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|166952331|gb|ABZ04248.1| ribosomal protein rpl39 [Lineus viridis]

 Score = 94.7 bits (234), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 45/50 (90%), Positives = 48/50 (96%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           +AHKTFRIK KLAKK+KQNRPIPQW RM+TGNTIRYNAKRRHWRRTKLKL
Sbjct: 2   AAHKTFRIKQKLAKKMKQNRPIPQWFRMKTGNTIRYNAKRRHWRRTKLKL 51

Source: Lineus viridis

Species: Lineus viridis

Genus: Lineus

Family: Lineidae

Order: Heteronemertea

Class: Anopla

Phylum: Nemertea

Superkingdom: Eukaryota

>gi|225708742|gb|ACO10217.1| 60S ribosomal protein L39 [Caligus rogercresseyi]

 Score = 94.7 bits (234), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 47/49 (95%), Positives = 47/49 (95%)

Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           AHKTFRIK KLAKKLKQNRPIPQWIRMRT NTIRYNAKRRHWRRTKLKL
Sbjct: 3   AHKTFRIKTKLAKKLKQNRPIPQWIRMRTNNTIRYNAKRRHWRRTKLKL 51

Source: Caligus rogercresseyi

Species: Caligus rogercresseyi

Genus: Caligus

Family: Caligidae

Order: Siphonostomatoida

Class: Maxillopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|290462417|gb|ADD24256.1| 60S ribosomal protein L39 [Lepeophtheirus salmonis]

 Score = 94.7 bits (234), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 47/49 (95%), Positives = 47/49 (95%)

Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           AHKTFRIK KLAKKLKQNRPIPQWIRMRT NTIRYNAKRRHWRRTKLKL
Sbjct: 3   AHKTFRIKTKLAKKLKQNRPIPQWIRMRTDNTIRYNAKRRHWRRTKLKL 51

Source: Lepeophtheirus salmonis

Species: Lepeophtheirus salmonis

Genus: Lepeophtheirus

Family: Caligidae

Order: Siphonostomatoida

Class: Maxillopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|188572558|gb|ACD65185.1| putative 60S ribosomal protein RPL39 [Phoronis muelleri]

 Score = 94.7 bits (234), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 44/50 (88%), Positives = 48/50 (96%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
            AHKTFRIK KLA+K+KQNRPIPQW+RM+TGNTIRYNAKRRHWRRTKLKL
Sbjct: 2   GAHKTFRIKTKLARKMKQNRPIPQWVRMKTGNTIRYNAKRRHWRRTKLKL 51

Source: Phoronis muelleri

Species: Phoronis muelleri

Genus: Phoronis

Phylum: Brachiopoda

Superkingdom: Eukaryota

>gi|121512012|gb|ABM55457.1| ribosomal protein L39 [Xenopsylla cheopis]

 Score = 94.4 bits (233), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 46/50 (92%), Positives = 48/50 (96%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           SAHKTF IK KL+KKLKQNRPIPQW+RMRTGNTIRYNAKRRHWRRTKLKL
Sbjct: 2   SAHKTFIIKRKLSKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 51

Source: Xenopsylla cheopis

Species: Xenopsylla cheopis

Genus: Xenopsylla

Family: Pulicidae

Order: Siphonaptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	178
FB|FBgn0023170	51	RpL39 "Ribosomal protein L39"	0.280	0.980	0.86	1.7e-20
UNIPROTKB|Q3T051	51	RPL39 "60S ribosomal protein L	0.280	0.980	0.84	1.1e-18
UNIPROTKB|J9NZS7	51	RPL39 "Uncharacterized protein	0.280	0.980	0.84	1.1e-18
UNIPROTKB|P62891	51	RPL39 "60S ribosomal protein L	0.280	0.980	0.84	1.1e-18
UNIPROTKB|K7GN10	60	LOC100736568 "Uncharacterized	0.280	0.833	0.84	1.1e-18
UNIPROTKB|K7GP63	51	LOC100736568 "Uncharacterized	0.280	0.980	0.84	1.1e-18
MGI|MGI:1914498	51	Rpl39 "ribosomal protein L39"	0.280	0.980	0.84	1.1e-18
RGD|3593	51	Rpl39 "ribosomal protein L39"	0.280	0.980	0.84	1.1e-18
UNIPROTKB|F1NLU2	50	RPL39 "60S ribosomal protein L	0.280	1.0	0.82	2.2e-18
UNIPROTKB|Q98TF5	51	RPL39 "60S ribosomal protein L	0.280	0.980	0.82	2.2e-18

FB|FBgn0023170 RpL39 "Ribosomal protein L39" [Drosophila melanogaster (taxid:7227)]

 Score = 242 (90.2 bits), Expect = 1.7e-20, P = 1.7e-20
 Identities = 43/50 (86%), Positives = 48/50 (96%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             +AHK+FRIK KLAKKLKQNR +PQW+R+RTGNTIRYNAKRRHWRRTKLKL
Sbjct:     2 AAHKSFRIKQKLAKKLKQNRSVPQWVRLRTGNTIRYNAKRRHWRRTKLKL 51

GO:0006412 "translation" evidence=ISS

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISS

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

GO:0005840 "ribosome" evidence=NAS

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

UNIPROTKB|Q3T051 RPL39 "60S ribosomal protein L39" [Bos taurus (taxid:9913)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     2 SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|J9NZS7 RPL39 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     2 SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

UNIPROTKB|P62891 RPL39 "60S ribosomal protein L39" [Homo sapiens (taxid:9606)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     2 SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

GO:0003723 "RNA binding" evidence=TAS

GO:0003735 "structural constituent of ribosome" evidence=NAS;TAS

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA;TAS

GO:0006412 "translation" evidence=NAS;TAS

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006414 "translational elongation" evidence=TAS

GO:0006415 "translational termination" evidence=TAS

GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0019058 "viral infectious cycle" evidence=TAS

GO:0019083 "viral transcription" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

UNIPROTKB|K7GN10 LOC100736568 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:    11 SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 60

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

UNIPROTKB|K7GP63 LOC100736568 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     2 SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

MGI|MGI:1914498 Rpl39 "ribosomal protein L39" [Mus musculus (taxid:10090)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     2 SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

GO:0003674 "molecular_function" evidence=ND

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

RGD|3593 Rpl39 "ribosomal protein L39" [Rattus norvegicus (taxid:10116)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 42/50 (84%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     2 SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISO

UNIPROTKB|F1NLU2 RPL39 "60S ribosomal protein L39" [Gallus gallus (taxid:9031)]

 Score = 222 (83.2 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 41/50 (82%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTF+IK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     1 SSHKTFKIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 50

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|Q98TF5 RPL39 "60S ribosomal protein L39" [Gallus gallus (taxid:9031)]

 Score = 222 (83.2 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 41/50 (82%), Positives = 45/50 (90%)

Query:   129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
             S+HKTF+IK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct:     2 SSHKTFKIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

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

GO:0006412 "translation" evidence=IEA

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)
Q3T051	RL39_BOVIN	No assigned EC number	0.84	0.2808	0.9803	yes	N/A
Q758D8	RL39_ASHGO	No assigned EC number	0.68	0.2696	0.9411	yes	N/A
Q8L8W6	RL392_ARATH	No assigned EC number	0.7659	0.2640	0.9215	yes	N/A
O16130	RL39_DROME	No assigned EC number	0.86	0.2808	0.9803	yes	N/A
Q5SMI4	RL393_ORYSJ	No assigned EC number	0.8510	0.2640	0.9215	yes	N/A
Q98TF5	RL39_CHICK	No assigned EC number	0.82	0.2808	0.9803	yes	N/A
C5A7H4	RL39_THEGJ	No assigned EC number	0.5365	0.2191	0.7647	yes	N/A
P62891	RL39_HUMAN	No assigned EC number	0.84	0.2808	0.9803	yes	N/A
P62892	RL39_MOUSE	No assigned EC number	0.84	0.2808	0.9803	yes	N/A
P59473	RL39_PYRHO	No assigned EC number	0.5609	0.2191	0.7647	yes	N/A
P59472	RL39_AERPE	No assigned EC number	0.5714	0.2359	0.8235	yes	N/A
Q9UYI8	RL39_PYRAB	No assigned EC number	0.5365	0.2191	0.7647	yes	N/A
Q6BHV8	RL39_DEBHA	No assigned EC number	0.7551	0.2640	0.9215	yes	N/A
Q5JGT6	RL39_PYRKO	No assigned EC number	0.5106	0.2528	0.8823	yes	N/A
Q6KAJ8	RL391_ORYSJ	No assigned EC number	0.8723	0.2640	0.9215	yes	N/A
A2BN55	RL39_HYPBU	No assigned EC number	0.5853	0.2191	0.7647	yes	N/A
Q8TUY3	RL39_METKA	No assigned EC number	0.5365	0.2191	0.7647	yes	N/A
Q962S4	RL39_SPOFR	No assigned EC number	0.94	0.2808	0.9803	N/A	N/A
P04650	RL39_YEAST	No assigned EC number	0.72	0.2808	0.9803	yes	N/A
P05767	RL39_SCHPO	No assigned EC number	0.7346	0.2752	0.9607	yes	N/A
P52814	RL39_CAEEL	No assigned EC number	0.78	0.2696	0.9411	yes	N/A
Q6F482	RL39_PLUXY	No assigned EC number	0.94	0.2808	0.9803	N/A	N/A
Q6CW22	RL39_KLULA	No assigned EC number	0.7	0.2696	0.9411	yes	N/A
P51426	RL392_ORYSJ	No assigned EC number	0.8723	0.2640	0.9215	yes	N/A
P51424	RL391_ARATH	No assigned EC number	0.7872	0.2640	0.9215	yes	N/A
Q8U3S6	RL39_PYRFU	No assigned EC number	0.5365	0.2191	0.7647	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	178
pfam00832	43	pfam00832, Ribosomal_L39, Ribosomal L39 protein	6e-19
COG2167	51	COG2167, RPL39, Ribosomal protein L39E [Translatio	1e-18
PRK01242	50	PRK01242, rpl39e, 50S ribosomal protein L39e; Vali	7e-13
pfam06585	246	pfam06585, JHBP, Haemolymph juvenile hormone bindi	2e-07
pfam06585	246	pfam06585, JHBP, Haemolymph juvenile hormone bindi	1e-04
smart00700	224	smart00700, JHBP, Juvenile hormone binding protein	2e-04

>gnl|CDD|201464 pfam00832, Ribosomal_L39, Ribosomal L39 protein

 Score = 75.4 bits (186), Expect = 6e-19
 Identities = 29/43 (67%), Positives = 37/43 (86%)

Query: 136 IKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
            K++LAK LKQNRP+P W+R++TG  +RYN KRRHWRRTKLK+
Sbjct: 1   KKLRLAKALKQNRPVPAWVRLKTGRKVRYNPKRRHWRRTKLKV 43

Length = 43

>gnl|CDD|225078 COG2167, RPL39, Ribosomal protein L39E [Translation, ribosomal structure and biogenesis]

 Score = 74.8 bits (184), Expect = 1e-18
 Identities = 28/49 (57%), Positives = 36/49 (73%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
             +K    K++LAK LKQNR +P W+R++T   +RYN KRRHWRRTKLK
Sbjct: 2   GRNKPLGKKLRLAKALKQNRRVPVWVRVKTNRRVRYNPKRRHWRRTKLK 50

Length = 51

>gnl|CDD|179261 PRK01242, rpl39e, 50S ribosomal protein L39e; Validated

 Score = 59.6 bits (145), Expect = 7e-13
 Identities = 24/47 (51%), Positives = 34/47 (72%)

Query: 131 HKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
           +K    K++LAK LKQNR +P W+ ++T   +R + KRRHWRR+KLK
Sbjct: 3   NKPLGKKLRLAKALKQNRRVPAWVIVKTNRRVRRHPKRRHWRRSKLK 49

Length = 50

>gnl|CDD|219095 pfam06585, JHBP, Haemolymph juvenile hormone binding protein (JHBP)

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 19/47 (40%), Positives = 26/47 (55%)

Query: 31  GTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQL 77
           G     FIN+ WK + + L P  EE   K+   +LNK+F  VPY+ L
Sbjct: 199 GDAMNKFINENWKELLNELKPAIEEALEKIFVDILNKIFKKVPYDDL 245

This family consists of several insect-specific haemolymph juvenile hormone binding proteins (JHBP). Juvenile hormone regulates embryogenesis, maintains the status quo of larval development and stimulates reproductive maturation in the adult insect. JH is transported from the sites of its synthesis to target tissues by a haemolymph carrier called juvenile hormone-binding protein (JHBP). JHBP protects the JH molecules from hydrolysis by non-specific esterases present in the insect haemolymph. The crystal structure of the JHBP from Galleria mellonella shows an unusual fold consisting of a long alpha-helix wrapped in a much curved antiparallel beta-sheet. The folding pattern for this structure closely resembles that found in some tandem-repeat mammalian lipid-binding and bactericidal permeability-increasing proteins, with a similar organisation of the major cavity and a disulfide bond linking the long helix and the beta-sheet. It would appear that JHBP forms two cavities, only one of which, the one near the N- and C-termini, binds the hormone; binding induces a conformational change, of unknown significance. This family now includes DUF233, pfam03027. Length = 246

>gnl|CDD|219095 pfam06585, JHBP, Haemolymph juvenile hormone binding protein (JHBP)

 Score = 40.8 bits (96), Expect = 1e-04
 Identities = 11/30 (36%), Positives = 19/30 (63%)

Query: 2  YAEICYRNSPDFNECIKNTLQSLIPKFKDG 31
          + E C R+ P+ N+C+K ++Q+L P    G
Sbjct: 26 FLEKCSRSDPNDNKCLKESIQALRPYLAKG 55

This family consists of several insect-specific haemolymph juvenile hormone binding proteins (JHBP). Juvenile hormone regulates embryogenesis, maintains the status quo of larval development and stimulates reproductive maturation in the adult insect. JH is transported from the sites of its synthesis to target tissues by a haemolymph carrier called juvenile hormone-binding protein (JHBP). JHBP protects the JH molecules from hydrolysis by non-specific esterases present in the insect haemolymph. The crystal structure of the JHBP from Galleria mellonella shows an unusual fold consisting of a long alpha-helix wrapped in a much curved antiparallel beta-sheet. The folding pattern for this structure closely resembles that found in some tandem-repeat mammalian lipid-binding and bactericidal permeability-increasing proteins, with a similar organisation of the major cavity and a disulfide bond linking the long helix and the beta-sheet. It would appear that JHBP forms two cavities, only one of which, the one near the N- and C-termini, binds the hormone; binding induces a conformational change, of unknown significance. This family now includes DUF233, pfam03027. Length = 246

>gnl|CDD|214779 smart00700, JHBP, Juvenile hormone binding protein domains in insects

 Score = 40.0 bits (94), Expect = 2e-04
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 37  FINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQL 77
           F+N+ WK + + LLP   E    +   ++NKVF  VP ++ 
Sbjct: 182 FLNENWKALINELLPAIVEKLESIFLDLVNKVFAKVPIDEF 222

The juvenile hormone exerts pleiotropic functions during insect life cycles and its binding proteins regulate these functions. Length = 224

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	178
PRK01242	50	rpl39e 50S ribosomal protein L39e; Validated	99.95
COG2167	51	RPL39 Ribosomal protein L39E [Translation, ribosom	99.93
PF00832	43	Ribosomal_L39: Ribosomal L39 protein; InterPro: IP	99.92
KOG0002|consensus	48		99.91
PRK01242	50	rpl39e 50S ribosomal protein L39e; Validated	99.75
smart00700	225	JHBP Juvenile hormone binding protein domains in i	99.71
COG2167	51	RPL39 Ribosomal protein L39E [Translation, ribosom	99.68
KOG0002|consensus	48		99.56
PF06585	248	JHBP: Haemolymph juvenile hormone binding protein	99.56
PF00832	43	Ribosomal_L39: Ribosomal L39 protein; InterPro: IP	99.56
PF05596	64	Taeniidae_ag: Taeniidae antigen; InterPro: IPR0088	88.88

>PRK01242 rpl39e 50S ribosomal protein L39e; Validated

Probab=99.95  E-value=3.2e-29  Score=168.24  Aligned_cols=50  Identities=48%  Similarity=0.886  Sum_probs=48.7

Q ss_pred             CCcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCCC
Q psy5233         129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL  178 (178)
Q Consensus       129 ~~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~~  178 (178)
                      +|||||++|++||||+|||+|||+||+||||++|+|||||||||||+|++
T Consensus         1 ~s~Kt~~~K~rLaK~~kQNrpvP~Wv~~KT~~kvr~n~kRRhWRRtkL~~   50 (50)
T PRK01242          1 MRNKPLGKKLRLAKALKQNRRVPAWVIVKTNRRVRRHPKRRHWRRSKLKV   50 (50)
T ss_pred             CCcchHHHHHHHHHHHhccCCCCeEEEEEcCCceecCCccccccccccCC
Confidence            68999999999999999999999999999999999999999999999985

>COG2167 RPL39 Ribosomal protein L39E [Translation, ribosomal structure and biogenesis]

Probab=99.93  E-value=3.7e-27  Score=157.96  Aligned_cols=51  Identities=55%  Similarity=1.002  Sum_probs=50.1

Q ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCCC
Q psy5233         128 HSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL  178 (178)
Q Consensus       128 ~~~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~~  178 (178)
                      |+++|+++.|+|||||.|||++||+||+|||+++|+|||+||||||+||++
T Consensus         1 M~~~K~~~~K~RLaKA~KqNrrvP~Wv~~kT~~~v~~npkRRhWRR~kLki   51 (51)
T COG2167           1 MGRNKPLGKKLRLAKALKQNRRVPVWVRVKTNRRVRYNPKRRHWRRTKLKI   51 (51)
T ss_pred             CCccchHHHHHHHHHHHHcCCCCCeEEEEecCCccccChhhhhhhhhccCC
Confidence            899999999999999999999999999999999999999999999999986

>PF00832 Ribosomal_L39: Ribosomal L39 protein; InterPro: IPR000077 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.92  E-value=2.5e-26  Score=149.93  Aligned_cols=43  Identities=77%  Similarity=1.356  Sum_probs=32.3

Q ss_pred             HHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCCC
Q psy5233         136 IKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL  178 (178)
Q Consensus       136 ~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~~  178 (178)
                      +|++||||++||+|||+||+||||++|+|||||||||||+|+|
T Consensus         1 ~K~rLaKa~kqNrpvP~Wv~~kT~~kiryn~kRRhWRRtkLkv   43 (43)
T PF00832_consen    1 IKLRLAKAQKQNRPVPQWVRMKTGNKIRYNPKRRHWRRTKLKV   43 (43)
T ss_dssp             HHHHHHHHHHHTS---HHGHHCTTSS-SSGTT---TTTS-S--
T ss_pred             CcHHHHHHHhccCCCCcEEEEeCCCceeeCCCcccccccccCC
Confidence            5899999999999999999999999999999999999999986

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 [, ]. A number of eukaryotic and archaebacterial large subunit ribosomal proteins can be grouped on the basis of sequence similarities. These proteins are very basic. About 50 residues long, they are the smallest proteins of eukaryotic-type ribosomes.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3CCJ_2 3CME_2 3OW2_1 1YI2_2 1KD1_3 3CXC_1 3G6E_2 1VQ4_2 3CCU_2 3CC7_2 ....

>KOG0002|consensus

Probab=99.91  E-value=5.4e-26  Score=150.07  Aligned_cols=48  Identities=94%  Similarity=1.454  Sum_probs=46.7

Q ss_pred             cchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCCC
Q psy5233         131 HKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL  178 (178)
Q Consensus       131 ~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~~  178 (178)
                      +|++.+|.+|||+++||+||||||+|+||++|+||.||||||||||++
T Consensus         1 ~ks~~ik~kl~k~~kqnr~iP~WiRm~~gn~iryN~kRRHWRrtKL~l   48 (48)
T KOG0002|consen    1 HKSFRIKQKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLGL   48 (48)
T ss_pred             CchhHHHHHHHHHHHccCCccHHHhhccCCccchhHHHHHHHHhhcCC
Confidence            589999999999999999999999999999999999999999999986

>PRK01242 rpl39e 50S ribosomal protein L39e; Validated

Probab=99.75  E-value=5.6e-19  Score=118.78  Aligned_cols=47  Identities=36%  Similarity=0.597  Sum_probs=43.6

Q ss_pred             cccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcch
Q psy5233          85 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKT  133 (178)
Q Consensus        85 ~~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k~  133 (178)
                      +|||||++|++||||++||||||+||+||||++|+  ||+++|+=+...
T Consensus         1 ~s~Kt~~~K~rLaK~~kQNrpvP~Wv~~KT~~kvr--~n~kRRhWRRtk   47 (50)
T PRK01242          1 MRNKPLGKKLRLAKALKQNRRVPAWVIVKTNRRVR--RHPKRRHWRRSK   47 (50)
T ss_pred             CCcchHHHHHHHHHHHhccCCCCeEEEEEcCCcee--cCCccccccccc
Confidence            58999999999999999999999999999999999  999999866543

>smart00700 JHBP Juvenile hormone binding protein domains in insects

Probab=99.71  E-value=1.4e-17  Score=138.17  Aligned_cols=66  Identities=27%  Similarity=0.389  Sum_probs=64.0

Q ss_pred             cceeEEecccCCCCc-hhhHHHHHHhhcHHHHHHHHhHHHHHHHHHHHHHHHHHhhccCcchhhccc
Q psy5233          15 ECIKNTLQSLIPKFK-DGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQI   80 (178)
Q Consensus        15 ~~v~~~l~NLFNGnk-Lgd~~N~fLNeNW~ev~~El~P~ie~~~~~if~~i~NkiF~kvP~delfp~   80 (178)
                      ++++++|+||||||+ |++++|+|+||||++|++|++|.++++++.+|.+++|++|.++|++++|+.
T Consensus       159 ~~~~~~~~NLfngn~~L~~~~n~~lNen~~~i~~e~~p~i~~~~~~~~~~~~n~~~~~vp~~~~f~~  225 (225)
T smart00700      159 GDVKSHLDNLFNGNKDLNDAINKFLNENWKALINELLPAIVEKLESIFLDLVNKVFAKVPIDEFFVD  225 (225)
T ss_pred             ceEEEEeeccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHhhcC
Confidence            479999999999999 999999999999999999999999999999999999999999999999974

The juvenile hormone exerts pleiotropic functions during insect life cycles and its binding proteins regulate these functions.

>COG2167 RPL39 Ribosomal protein L39E [Translation, ribosomal structure and biogenesis]

Probab=99.68  E-value=1.9e-17  Score=111.23  Aligned_cols=48  Identities=38%  Similarity=0.659  Sum_probs=44.7

Q ss_pred             ccccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcch
Q psy5233          84 RSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKT  133 (178)
Q Consensus        84 ~~~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k~  133 (178)
                      |+++|+++.|+|||||.||||+||+||+++|+++|+  ||+++|+=+.+.
T Consensus         1 M~~~K~~~~K~RLaKA~KqNrrvP~Wv~~kT~~~v~--~npkRRhWRR~k   48 (51)
T COG2167           1 MGRNKPLGKKLRLAKALKQNRRVPVWVRVKTNRRVR--YNPKRRHWRRTK   48 (51)
T ss_pred             CCccchHHHHHHHHHHHHcCCCCCeEEEEecCCccc--cChhhhhhhhhc
Confidence            899999999999999999999999999999999999  999998865543

>KOG0002|consensus

Probab=99.56  E-value=3.1e-16  Score=103.80  Aligned_cols=46  Identities=74%  Similarity=1.144  Sum_probs=41.9

Q ss_pred             cchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcchH
Q psy5233          87 HKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTF  134 (178)
Q Consensus        87 ~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k~~  134 (178)
                      ||++.+|.+|||+++||||||||++|+||++|+  ||.++|+=+...+
T Consensus         1 ~ks~~ik~kl~k~~kqnr~iP~WiRm~~gn~ir--yN~kRRHWRrtKL   46 (48)
T KOG0002|consen    1 HKSFRIKQKLAKKLKQNRPIPQWIRMRTGNTIR--YNAKRRHWRRTKL   46 (48)
T ss_pred             CchhHHHHHHHHHHHccCCccHHHhhccCCccc--hhHHHHHHHHhhc
Confidence            689999999999999999999999999999999  9999988665443

>PF06585 JHBP: Haemolymph juvenile hormone binding protein (JHBP); InterPro: IPR010562 This family consists of several insect specific haemolymph juvenile hormone binding proteins (JHBP)

Probab=99.56  E-value=2.5e-15  Score=125.06  Aligned_cols=64  Identities=28%  Similarity=0.441  Sum_probs=62.0

Q ss_pred             cceeEEecccCCCCc-hhhHHHHHHhhcHHHHHHHHhHHHHHHHHHHHHHHHHHhhccCcchhhc
Q psy5233          15 ECIKNTLQSLIPKFK-DGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLD   78 (178)
Q Consensus        15 ~~v~~~l~NLFNGnk-Lgd~~N~fLNeNW~ev~~El~P~ie~~~~~if~~i~NkiF~kvP~delf   78 (178)
                      ++++++++|||+||+ |++.+|+|+||||+++++|++|.+++.+++++.+++|++|+++|+++||
T Consensus       184 ~~~~~~~~nl~~g~~~l~~~~n~~in~~~~~~~~~~~p~i~~~~~~~i~~~~N~~l~~~p~~~lf  248 (248)
T PF06585_consen  184 GNVKFDLENLFNGNKELSDFINKFINENWPELLNEVKPDIEEILSKIITDIINKILSKVPYDELF  248 (248)
T ss_dssp             CEEEEEESHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-CCHCB
T ss_pred             ceEEEEeeccCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHhC
Confidence            889999999999999 9999999999999999999999999999999999999999999999997

Juvenile hormone (JH) has a profound effect on insects. It regulates embryogenesis, maintains the status quo of larva development and stimulates reproductive maturation in the adult forms. JH is transported from the sites of its synthesis to target tissues by a haemolymph carrier called juvenile hormone-binding protein (JHBP). JHBP protects the JH molecules from hydrolysis by non-specific esterases present in the insect haemolymph []. The crystal structure of the JHBP from Galleria mellonella (Wax moth) shows an unusual fold consisting of a long alpha-helix wrapped in a much curved antiparallel beta-sheet. The folding pattern for this structure closely resembles that found in some tandem-repeat mammalian lipid-binding and bactericidal permeability-increasing proteins, with a similar organisation of the major cavity and a disulphide bond linking the long helix and the beta-sheet. It would appear that JHBP forms two cavities, only one of which, the one near the N- and C-termini, binds the hormone; binding induces a conformational change, of unknown significance [, ].; PDB: 3A1Z_D 3AOS_B 3AOT_A 2RQF_A 2RCK_A 3E8W_A 3E8T_A.

>PF00832 Ribosomal_L39: Ribosomal L39 protein; InterPro: IPR000077 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.56  E-value=6.8e-16  Score=100.94  Aligned_cols=42  Identities=55%  Similarity=0.973  Sum_probs=30.5

Q ss_pred             HHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcchHH
Q psy5233          92 IKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKTFR  135 (178)
Q Consensus        92 ~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k~~~  135 (178)
                      +|++||||++||||||+||+||||++|+  ||+++|+=+...++
T Consensus         1 ~K~rLaKa~kqNrpvP~Wv~~kT~~kir--yn~kRRhWRRtkLk   42 (43)
T PF00832_consen    1 IKLRLAKAQKQNRPVPQWVRMKTGNKIR--YNPKRRHWRRTKLK   42 (43)
T ss_dssp             HHHHHHHHHHHTS---HHGHHCTTSS-S--SGTT---TTTS-S-
T ss_pred             CcHHHHHHHhccCCCCcEEEEeCCCcee--eCCCcccccccccC
Confidence            5899999999999999999999999999  99999987766543

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 [, ]. A number of eukaryotic and archaebacterial large subunit ribosomal proteins can be grouped on the basis of sequence similarities. These proteins are very basic. About 50 residues long, they are the smallest proteins of eukaryotic-type ribosomes.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3CCJ_2 3CME_2 3OW2_1 1YI2_2 1KD1_3 3CXC_1 3G6E_2 1VQ4_2 3CCU_2 3CC7_2 ....

>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species

Probab=88.88  E-value=0.73  Score=32.61  Aligned_cols=45  Identities=11%  Similarity=0.180  Sum_probs=40.2

Q ss_pred             ecccCCCCchhhHHHHHHhhcHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy5233          21 LQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLN   66 (178)
Q Consensus        21 l~NLFNGnkLgd~~N~fLNeNW~ev~~El~P~ie~~~~~if~~i~N   66 (178)
                      +.++|..|+||..+-++.+| |.+++.+++-=|..++++.+..+.|
T Consensus        19 v~~FF~~DPlGqkIa~l~kd-w~~~~~~~r~KiR~~L~ey~k~L~~   63 (64)
T PF05596_consen   19 VRNFFYEDPLGQKIAQLAKD-WNEICQEVRKKIRAALAEYCKGLKN   63 (64)
T ss_pred             HHHHhccCchHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            46789999999999999875 9999999999999999999887765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	178
2zkr_3	51	Structure Of A Mammalian Ribosomal 60s Subunit With		1e-17
3izr_o	51	Localization Of The Large Subunit Ribosomal Protein		3e-17
2ww9_O	51	Cryo-Em Structure Of The Active Yeast Ssh1 Complex		1e-11
3jyw_1	48	Structure Of The 60s Proteins For Eukaryotic Riboso		3e-11
4a18_B	52	T.Thermophila 60s Ribosomal Subunit In Complex With		2e-10
3zf7_q	51	High-resolution Cryo-electron Microscopy Structure		2e-08
3j21_f	51	Promiscuous Behavior Of Proteins In Archaeal Riboso		2e-05

>pdb|2ZKR|3 Chain 3, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 51

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 42/50 (84%), Positives = 45/50 (90%)
Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           S+HKTFRIK  LAKK KQNRPIPQWIRM+TGN IRYN+KRRHWRRTKL L
Sbjct: 2   SSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

>pdb|3IZR|OO Chain o, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 51

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 41/47 (87%), Positives = 43/47 (91%)
Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
           +HKTFRIK KLAKK +QNRPIP WIRMRT NTIRYNAKRRHWRRTKL
Sbjct: 3   SHKTFRIKQKLAKKQRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKL 49

>pdb|2WW9|O Chain O, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound To The Yeast 80s Ribosome Length = 51

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 36/50 (72%), Positives = 44/50 (88%)
Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           +A K+FRIK K+AK  KQNRP+PQWIR+RT NTIRYNAKRR+WRRTK+ +
Sbjct: 2   AAQKSFRIKQKMAKAKKQNRPLPQWIRLRTNNTIRYNAKRRNWRRTKMNI 51

>pdb|3JYW|1 Chain 1, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 48

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 36/47 (76%), Positives = 42/47 (89%)
Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
           A K+FRIK K+AK  KQNRP+PQWIR+RT NTIRYNAKRR+WRRTK+
Sbjct: 1   AQKSFRIKQKMAKAKKQNRPLPQWIRLRTNNTIRYNAKRRNWRRTKM 47

>pdb|4A18|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1 Length = 52

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/50 (54%), Positives = 38/50 (76%)
Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
            A+KT  +K +  +K+KQNRP+P W R ++   IRYN+KRR+WRRTKLK+
Sbjct: 2   GANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKLKI 51

>pdb|3ZF7|QQ Chain q, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 51

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/31 (77%), Positives = 28/31 (90%)
Query: 146 QNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
           QNRP+P WIR+RTGN I++N KRRHWRRTKL
Sbjct: 19  QNRPVPYWIRLRTGNRIKWNEKRRHWRRTKL 49

>pdb|3J21|FF Chain f, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 51

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/41 (53%), Positives = 31/41 (75%)
Query: 137 KMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
           K++LAK LKQNR +P W+ ++T   +  + KRR+WRRTKLK
Sbjct: 10  KLRLAKALKQNRRVPVWVIVKTNRRVLTHPKRRYWRRTKLK 50

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	178
4a18_B	52	RPL39, ribosomal protein L37; ribosome, eukaryotic	4e-25
3u5e_L	199	60S ribosomal protein L13-A, 60S ribosomal protein	5e-25
3iz5_O	144	60S ribosomal protein L27A (L15P); eukaryotic ribo	2e-24
1vq8_2	50	50S ribosomal protein L39E; ribosome 50S, protein-	6e-11
1ffk_Y	49	Ribosomal protein L39E; ribosome assembly, RNA-RNA	3e-08
3e8t_A	220	Takeout 1, takeout-like protein 1; transport prote	3e-06

>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B 4a1d_B Length = 52

 Score = 91.0 bits (226), Expect = 4e-25
 Identities = 27/50 (54%), Positives = 38/50 (76%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
            A+KT  +K +  +K+KQNRP+P W R ++   IRYN+KRR+WRRTKLK+
Sbjct: 2   GANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKLKI 51

>3u5e_L 60S ribosomal protein L13-A, 60S ribosomal protein L11-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_L Length = 199

 Score = 90.7 bits (225), Expect = 5e-25
 Identities = 8/50 (16%), Positives = 14/50 (28%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
           +  K   I     +K  Q R    + +     + R     R  +     L
Sbjct: 2   AISKNLPILKNHFRKHWQERVKVHFDQAGKKVSRRNARATRAAKIAPRPL 51

>1vq8_2 50S ribosomal protein L39E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: a.137.1.1 PDB: 1vq4_2* 1vq5_2* 1vq6_2* 1vq7_2* 1s72_2* 1vq9_2* 1vqk_2* 1vql_2* 1vqm_2* 1vqn_2* 1vqo_2* 1vqp_2* 1yhq_2* 1yi2_2* 1yij_2* 1yit_2* 1yj9_2* 1yjn_2* 1yjw_2* 2otj_2* ... Length = 50

 Score = 54.5 bits (130), Expect = 6e-11
 Identities = 17/40 (42%), Positives = 24/40 (60%)

Query: 137 KMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
           K +LAK   QN  +P W+ ++T   ++ N KRRHWRR   
Sbjct: 9   KKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDT 48

>1ffk_Y Ribosomal protein L39E; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: a.137.1.1 Length = 49

 Score = 47.2 bits (111), Expect = 3e-08
 Identities = 15/38 (39%), Positives = 23/38 (60%)

Query: 137 KMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRT 174
           K + AK   QN  +P ++ ++T   ++ N KRRHWRR 
Sbjct: 8   KKRKAKLDNQNSRVPAYVMLKTDREVQRNHKRRHWRRN 45

>3e8t_A Takeout 1, takeout-like protein 1; transport protein; HET: UQ8; 1.30A {Epiphyas postvittana} PDB: 3e8w_A* Length = 220

 Score = 44.6 bits (105), Expect = 3e-06
 Identities = 13/47 (27%), Positives = 18/47 (38%)

Query: 31  GTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQL 77
               LTF+NQ WK V +       E  AK     +      VP  ++
Sbjct: 171 SDTMLTFLNQNWKQVSEEFGKPVMEAAAKKIFKNIKHFLAKVPIAEI 217

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	178
3u5e_l	51	L46, YL40, 60S ribosomal protein L39; translation,	99.96
3iz5_o	51	60S ribosomal protein L39 (L39E); eukaryotic ribos	99.96
4a18_B	52	RPL39, ribosomal protein L37; ribosome, eukaryotic	99.96
3j21_f	51	50S ribosomal protein L39E; archaea, archaeal, KIN	99.95
1ffk_Y	49	Ribosomal protein L39E; ribosome assembly, RNA-RNA	99.95
1vq8_2	50	50S ribosomal protein L39E; ribosome 50S, protein-	99.95
3u5e_l	51	L46, YL40, 60S ribosomal protein L39; translation,	99.79
3iz5_o	51	60S ribosomal protein L39 (L39E); eukaryotic ribos	99.79
4a18_B	52	RPL39, ribosomal protein L37; ribosome, eukaryotic	99.78
3e8t_A	220	Takeout 1, takeout-like protein 1; transport prote	99.78
3j21_f	51	50S ribosomal protein L39E; archaea, archaeal, KIN	99.77
1ffk_Y	49	Ribosomal protein L39E; ribosome assembly, RNA-RNA	99.75
1vq8_2	50	50S ribosomal protein L39E; ribosome 50S, protein-	99.73
2rck_A	225	JuvenIle hormone binding protein; hemolymph, JHBP-	98.69
2rqf_A	227	HJHBP, hemolymph juvenIle hormone binding protein;	96.27

>3u5e_l L46, YL40, 60S ribosomal protein L39; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_O 2ww9_O 3izc_o 3izs_o 2wwb_O 3o5h_e 3o58_e 3u5i_l 4b6a_l 3jyw_1

Probab=99.96  E-value=1.8e-30  Score=174.07  Aligned_cols=51  Identities=71%  Similarity=1.188  Sum_probs=49.4

Q ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCCC
Q psy5233         128 HSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL  178 (178)
Q Consensus       128 ~~~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~~  178 (178)
                      |+||||+++|++||||++||+|||+||+||||++|+|||||||||||+|++
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir~n~KRRhWRRtkL~~   51 (51)
T 3u5e_l            1 MAAQKSFRIKQKMAKAKKQNRPLPQWIRLRTNNTIRYNAKRRNWRRTKMNI   51 (51)
T ss_dssp             -CCSCCHHHHHHHHHHHHTCSCCCGGGGGSTTCCCCSCTTCCCTTTCCCCC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccccCCccccccccccCC
Confidence            899999999999999999999999999999999999999999999999986

>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B 4a1d_B

Probab=99.96  E-value=2.2e-30  Score=174.27  Aligned_cols=51  Identities=53%  Similarity=1.043  Sum_probs=49.4

Q ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCCC
Q psy5233         128 HSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL  178 (178)
Q Consensus       128 ~~~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~~  178 (178)
                      |+||||+++|++||||++||+|||+||+||||++|+|||||||||||+|++
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir~n~KRRhWRRtkL~~   51 (52)
T 4a18_B            1 MGANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKLKI   51 (52)
T ss_dssp             -CCCCCHHHHHHHHHHHHTTSCCCTTGGGCSSCCCSSCTTCCCTTTSCCCC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccccCCccccccccccCc
Confidence            899999999999999999999999999999999999999999999999986

>3j21_f 50S ribosomal protein L39E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.95  E-value=5.6e-30  Score=171.71  Aligned_cols=50  Identities=46%  Similarity=0.781  Sum_probs=49.4

Q ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCC
Q psy5233         128 HSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK  177 (178)
Q Consensus       128 ~~~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~  177 (178)
                      |+||||+++|++||||++||+|||+||+||||++|+|||||||||||+|+
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir~n~KRRhWRRtkLk   50 (51)
T 3j21_f            1 MARNKPLAKKLRLAKALKQNRRVPVWVIVKTNRRVLTHPKRRYWRRTKLK   50 (51)
T ss_dssp             CCCCCCHHHHHHHHHHHHHTSCCCHHHHHHHTSCCCSCTTCCCTTTCCCC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccccCCccccccccccC
Confidence            89999999999999999999999999999999999999999999999997

>1ffk_Y Ribosomal protein L39E; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: a.137.1.1

Probab=99.95  E-value=5e-29  Score=165.73  Aligned_cols=48  Identities=33%  Similarity=0.569  Sum_probs=47.1

Q ss_pred             CcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCC
Q psy5233         130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK  177 (178)
Q Consensus       130 ~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~  177 (178)
                      |||||++|++||||+|||+|||+||+||||++|+|||||||||||+|+
T Consensus         1 ~~Kt~~~K~rLaK~~kQNrpiP~Wv~~KT~~kiryn~KRRhWRRtkL~   48 (49)
T 1ffk_Y            1 GKKSKATKKRKAKLDNQNSRVPAYVMLKTDREVQRNHKRRHWRRNDTD   48 (49)
T ss_pred             CCchHHHHHHHHHHHhccCCCCcEEEEecCCceecCCccccccccccC
Confidence            689999999999999999999999999999999999999999999997

>1vq8_2 50S ribosomal protein L39E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: a.137.1.1 PDB: 1vq4_2* 1vq5_2* 1vq6_2* 1vq7_2* 1s72_2* 1vq9_2* 1vqk_2* 1vql_2* 1vqm_2* 1vqn_2* 1vqo_2* 1vqp_2* 1yhq_2* 1yi2_2* 1yij_2* 1yit_2* 1yj9_2* 1yjn_2* 1yjw_2* 2otj_2* ...

Probab=99.95  E-value=2.9e-29  Score=167.49  Aligned_cols=49  Identities=37%  Similarity=0.658  Sum_probs=44.4

Q ss_pred             CCcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCC
Q psy5233         129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK  177 (178)
Q Consensus       129 ~~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~  177 (178)
                      +|||||++|++||||+|||+|||+||+||||++|+|||||||||||+|+
T Consensus         1 ~s~Kt~~~K~rLaK~~kQNrpiP~Wv~~KT~~kiryn~KRRhWRRtkL~   49 (50)
T 1vq8_2            1 MGKKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDTD   49 (50)
T ss_dssp             -CCCCHHHHHHHHHHHHHSSCCCHHHHHHTTC---CCTTCCCTTTCCCC
T ss_pred             CCcchHHHHHHHHHHHhccCCCCceEEEecCCceecCCccccccccccC
Confidence            5899999999999999999999999999999999999999999999997

>3u5e_l L46, YL40, 60S ribosomal protein L39; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_O 2ww9_O 3izc_o 3izs_o 2wwb_O 3o5h_e 3o58_e 3u5i_l 4b6a_l 3jyw_1

Probab=99.79  E-value=1.7e-20  Score=125.68  Aligned_cols=48  Identities=56%  Similarity=0.892  Sum_probs=44.4

Q ss_pred             ccccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcch
Q psy5233          84 RSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKT  133 (178)
Q Consensus        84 ~~~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k~  133 (178)
                      |+||||+++|++||||++||||||+||+||||++|+  ||+++|+=+...
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir--~n~KRRhWRRtk   48 (51)
T 3u5e_l            1 MAAQKSFRIKQKMAKAKKQNRPLPQWIRLRTNNTIR--YNAKRRNWRRTK   48 (51)
T ss_dssp             -CCSCCHHHHHHHHHHHHTCSCCCGGGGGSTTCCCC--SCTTCCCTTTCC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccc--cCCccccccccc
Confidence            899999999999999999999999999999999999  999999876544

>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B 4a1d_B

Probab=99.78  E-value=3.6e-20  Score=124.53  Aligned_cols=48  Identities=35%  Similarity=0.719  Sum_probs=44.4

Q ss_pred             ccccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcch
Q psy5233          84 RSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKT  133 (178)
Q Consensus        84 ~~~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k~  133 (178)
                      |+|||||++|++||||++||||||+||+||||++|+  ||+++|+=+...
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir--~n~KRRhWRRtk   48 (52)
T 4a18_B            1 MGANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIR--YNSKRRNWRRTK   48 (52)
T ss_dssp             -CCCCCHHHHHHHHHHHHTTSCCCTTGGGCSSCCCS--SCTTCCCTTTSC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccc--cCCccccccccc
Confidence            899999999999999999999999999999999999  999999876544

>3e8t_A Takeout 1, takeout-like protein 1; transport protein; HET: UQ8; 1.30A {Epiphyas postvittana} PDB: 3e8w_A*

Probab=99.78  E-value=1.9e-19  Score=147.39  Aligned_cols=67  Identities=24%  Similarity=0.274  Sum_probs=65.0

Q ss_pred             ccceeEEecccCCCCc-hhhHHHHHHhhcHHHHHHHHhHHHHHHHHHHHHHHHHHhhccCcchhhccc
Q psy5233          14 NECIKNTLQSLIPKFK-DGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLDQI   80 (178)
Q Consensus        14 ~~~v~~~l~NLFNGnk-Lgd~~N~fLNeNW~ev~~El~P~ie~~~~~if~~i~NkiF~kvP~delfp~   80 (178)
                      +++++++|+||||||+ |++++|+|+||||++|++|++|.++++++++|.+++|++|.++|||+||++
T Consensus       153 ~~~~~~~~~nLfng~~~L~~~~n~~iN~nw~~i~~e~~p~i~~~~~~~~~~i~n~if~~~p~~~lF~~  220 (220)
T 3e8t_A          153 KDNAQFGLTNLFNGNKELSDTMLTFLNQNWKQVSEEFGKPVMEAAAKKIFKNIKHFLAKVPIAEIANV  220 (220)
T ss_dssp             EEEEEEEESSBGGGCHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHSBC
T ss_pred             CCcEEEEEEcCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHhcC
Confidence            4899999999999999 999999999999999999999999999999999999999999999999974

>3j21_f 50S ribosomal protein L39E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.77  E-value=3.6e-20  Score=124.10  Aligned_cols=47  Identities=34%  Similarity=0.523  Sum_probs=44.6

Q ss_pred             ccccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcc
Q psy5233          84 RSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHK  132 (178)
Q Consensus        84 ~~~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k  132 (178)
                      |+|||||++|++||||++||||||+||+||||++|+  ||+++|+=+..
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir--~n~KRRhWRRt   47 (51)
T 3j21_f            1 MARNKPLAKKLRLAKALKQNRRVPVWVIVKTNRRVL--THPKRRYWRRT   47 (51)
T ss_dssp             CCCCCCHHHHHHHHHHHHHTSCCCHHHHHHHTSCCC--SCTTCCCTTTC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccc--cCCcccccccc
Confidence            899999999999999999999999999999999999  99999986654

>1ffk_Y Ribosomal protein L39E; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: a.137.1.1

Probab=99.75  E-value=4.3e-19  Score=117.95  Aligned_cols=46  Identities=24%  Similarity=0.337  Sum_probs=42.7

Q ss_pred             ccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcch
Q psy5233          86 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHKT  133 (178)
Q Consensus        86 ~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k~  133 (178)
                      |||||++|++||||++||||||+||+||||++|+  ||+++|+=+...
T Consensus         1 ~~Kt~~~K~rLaK~~kQNrpiP~Wv~~KT~~kir--yn~KRRhWRRtk   46 (49)
T 1ffk_Y            1 GKKSKATKKRKAKLDNQNSRVPAYVMLKTDREVQ--RNHKRRHWRRND   46 (49)
T ss_pred             CCchHHHHHHHHHHHhccCCCCcEEEEecCCcee--cCCccccccccc
Confidence            6999999999999999999999999999999999  999998866543

>1vq8_2 50S ribosomal protein L39E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: a.137.1.1 PDB: 1vq4_2* 1vq5_2* 1vq6_2* 1vq7_2* 1s72_2* 1vq9_2* 1vqk_2* 1vql_2* 1vqm_2* 1vqn_2* 1vqo_2* 1vqp_2* 1yhq_2* 1yi2_2* 1yij_2* 1yit_2* 1yj9_2* 1yjn_2* 1yjw_2* 2otj_2* ...

Probab=99.73  E-value=4.6e-19  Score=118.21  Aligned_cols=46  Identities=28%  Similarity=0.444  Sum_probs=39.6

Q ss_pred             cccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCcc
Q psy5233          85 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAHK  132 (178)
Q Consensus        85 ~~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~k  132 (178)
                      .|||||++|++||||++||||||+||+||||++|+  ||+++|+=+..
T Consensus         1 ~s~Kt~~~K~rLaK~~kQNrpiP~Wv~~KT~~kir--yn~KRRhWRRt   46 (50)
T 1vq8_2            1 MGKKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQ--RNHKRRHWRRN   46 (50)
T ss_dssp             -CCCCHHHHHHHHHHHHHSSCCCHHHHHHTTC-----CCTTCCCTTTC
T ss_pred             CCcchHHHHHHHHHHHhccCCCCceEEEecCCcee--cCCcccccccc
Confidence            48999999999999999999999999999999999  99999986654

>2rck_A JuvenIle hormone binding protein; hemolymph, JHBP-fold; HET: NAG; 2.44A {Galleria mellonella}

Probab=98.69  E-value=1.5e-08  Score=83.90  Aligned_cols=59  Identities=3%  Similarity=-0.115  Sum_probs=49.3

Q ss_pred             cceeEEecccCCCCc--hhhHHHHHHhhcHHHHHHHHhHHHHHHHHHHHHHHHHHhhccCcchh
Q psy5233          15 ECIKNTLQSLIPKFK--DGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQ   76 (178)
Q Consensus        15 ~~v~~~l~NLFNGnk--Lgd~~N~fLNeNW~ev~~El~P~ie~~~~~if~~i~NkiF~kvP~de   76 (178)
                      .++++.++. +.+=+  +|+++|+|+||||+  ++|++|.+++.++++|.+++|++|..+|+|-
T Consensus       145 ~~~~v~~~~-ig~~~~~~~~~~n~~iN~nw~--~~~ikP~i~~~~~~~~~~i~N~if~~~~~~~  205 (225)
T 2rck_A          145 GPETVSCEI-FGEPTLSVSSTLEDALKLDSD--FKKIFTEYGKQLTEGRKQTACRIVETVYAVS  205 (225)
T ss_dssp             CCCEEEEEE-CSCCEEEECHHHHHHHHTCHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEEEE-cCcEEEEHHHHHHHHHHhCcc--hhhhhHHHHHHHHHHHHHHHHHHHHhCcHhh
Confidence            344455532 33333  79999999999999  9999999999999999999999999999884

>2rqf_A HJHBP, hemolymph juvenIle hormone binding protein; HET: JH3; NMR {Bombyx mori} PDB: 3a1z_A 3aos_A* 3aot_A*

Probab=96.27  E-value=0.00055  Score=56.53  Aligned_cols=68  Identities=9%  Similarity=-0.143  Sum_probs=48.1

Q ss_pred             CCccceeEEecccCCCCc-hhhHHHHHHhhcHHHHHHHHhHHHHHHHHHHHHHHHH---HhhccCcchhhccc
Q psy5233          12 DFNECIKNTLQSLIPKFK-DGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLN---KVFLSVPYEQLDQI   80 (178)
Q Consensus        12 d~~~~v~~~l~NLFNGnk-Lgd~~N~fLNeNW~ev~~El~P~ie~~~~~if~~i~N---kiF~kvP~delfp~   80 (178)
                      +.-++++++++++++ +. ++|.+|+++.++|+...+..++.|.+.++.+|.+++|   .+|.-.|+|.+|-.
T Consensus       154 ~~ig~~~~~l~~~l~-~~~~~d~~n~~~~~~y~~~~~~~~~~i~~ive~~~~~v~~~~~~~~~~~p~~~~~~~  225 (227)
T 2rqf_A          154 ESIGEPKITLSSDLS-SALEKDSGNNSLEPDMEPLKTLRQAAICKIAEACYISVVHNIRASAKILPASSFFEN  225 (227)
T ss_dssp             EECSSCEEEECHHHH-HHHHHHHTCSSCCTTSSSHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHSCSTTTBSC
T ss_pred             EEeccEEEEcchhhh-hhhhhchhHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHhhc
Confidence            345678888886665 33 4455554444445555566778888888888888887   99999999999853

---

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	178
d1vqo21	49	a.137.1.1 (2:1-49) Ribosomal protein L39e {Archaeo	1e-18

>d1vqo21 a.137.1.1 (2:1-49) Ribosomal protein L39e {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 49

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Ribosomal protein L39e
family: Ribosomal protein L39e
domain: Ribosomal protein L39e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 72.9 bits (179), Expect = 1e-18
 Identities = 18/48 (37%), Positives = 26/48 (54%)

Query: 130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
             K+   K +LAK   QN  +P W+ ++T   ++ N KRRHWRR    
Sbjct: 1   GKKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDTD 48

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	178
d1vqo21	49	Ribosomal protein L39e {Archaeon Haloarcula marism	99.92
d1vqo21	49	Ribosomal protein L39e {Archaeon Haloarcula marism	99.65

>d1vqo21 a.137.1.1 (2:1-49) Ribosomal protein L39e {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Ribosomal protein L39e
family: Ribosomal protein L39e
domain: Ribosomal protein L39e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.92  E-value=1e-26  Score=152.40  Aligned_cols=48  Identities=38%  Similarity=0.682  Sum_probs=43.2

Q ss_pred             CcchHHHHHHHHHHHhccCCCCceEEEecCCcccccCcCCccccccCC
Q psy5233         130 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK  177 (178)
Q Consensus       130 ~~k~~~~K~rL~k~~kqN~~iP~w~~~kt~~~v~~n~krr~Wrr~kl~  177 (178)
                      .+|+++.|+|||||+|||+|||+||+|||+++|+|||||||||||+|.
T Consensus         1 ~~K~~~~K~rLaK~~kQNr~vP~Wv~~KT~~~vr~n~KRR~WRRt~l~   48 (49)
T d1vqo21           1 GKKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDTD   48 (49)
T ss_dssp             CCCCHHHHHHHHHHHHHSSCCCHHHHHHTTC---CCTTCCCTTTCCCC
T ss_pred             CCcchhHHHHHHHHHhccCCCCcEEEEecCCeeecChhhhhhhhcccc
Confidence            368999999999999999999999999999999999999999999985

>d1vqo21 a.137.1.1 (2:1-49) Ribosomal protein L39e {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Ribosomal protein L39e
family: Ribosomal protein L39e
domain: Ribosomal protein L39e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.65  E-value=1.2e-17  Score=109.03  Aligned_cols=44  Identities=30%  Similarity=0.468  Sum_probs=38.1

Q ss_pred             ccchhHHHHHHHHHhhcCCCCCcceeeecCCceeEeeccCCCCCCc
Q psy5233          86 AHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTISVLYHCKSRHSAH  131 (178)
Q Consensus        86 ~~k~~~~K~rLak~~kqNr~vP~wv~~kt~~~v~~~~~~krr~~~~  131 (178)
                      .+|++++|+|||||++||||||+||+|||+++|+  ||+++|+=+.
T Consensus         1 ~~K~~~~K~rLaK~~kQNr~vP~Wv~~KT~~~vr--~n~KRR~WRR   44 (49)
T d1vqo21           1 GKKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQ--RNHKRRHWRR   44 (49)
T ss_dssp             CCCCHHHHHHHHHHHHHSSCCCHHHHHHTTC-----CCTTCCCTTT
T ss_pred             CCcchhHHHHHHHHHhccCCCCcEEEEecCCeee--cChhhhhhhh
Confidence            4799999999999999999999999999999999  9999988544