Psyllid ID: psy6030

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------12
Protein Sequence
MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATKKPTADNKGFACVTKRATKKTLSGHVDIGSARMDARLYIFEMGLMSA
Secondary Structure (PSIPRED)
cccccEEEEEEEcccEEEEEEccccccEEccccccccccccccccccccEEEEEEEcccccEEEEEEEccccccccccccEEEEEcHHHHHHHHHHHHcccccccHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccHHHEEEEEEccccEEEEEcccccEEccccccccccccccEcccEcccEEEEEEcccccEEEEEEEEccccccccccccEEcccHHHHHHHHHHHHccccHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MVSSHLIWNIVKNNNAYLMKADNIKKWfskepgnlpnlasfkysglihsktihiqptadnkgfacvtkratkkptadnkgfacvTKRATkktlsghvdigsaRMDARLYIFEMGLMSA
Flexible Loop (DISEMBL)
MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIhiqptadnkGFACVTKRatkkptadnkgfacvtkratkktlsghvdigsarmDARLYIFEMGLMSA
Low Complexity Region (SEG)
MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATKKPTADNKGFACVTKRATKKTLSGHVDIGSARMDARLYIFEMGLMSA
Disordered region (IsUnstruct)
****HLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRAT****ADNKGFACVTKRATKKTLSGHVDIGSARMDARLYIFEMG****
Disordered Region (DISOPRED)
**SSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFAC*****************************GHVDIGSARMDARLYIFEMGLM**
Disordered Region (DISEMBL)
MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATKKPTADNKGFACVTKRATKKTLSGHVDIGSARMDARLYIFEMGLMSA
Disordered Region (DISPRO)
**SSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATKKPTADNKGFACVTKRATKKTLSGHVDIGSARMDARLYIFEMGLM**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATKKPTADNKGFACVTKRATKKTLSGHVDIGSARMDARLYIFEMGLMSA
Positional Conservation
no confident homologs detected

---

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	118	2.2.26 [Sep-21-2011]
Q9VZS5	144	60S ribosomal protein L28	yes	N/A	0.567	0.465	0.522	4e-16
Q962T2	139	60S ribosomal protein L28	N/A	N/A	0.644	0.546	0.512	2e-15
P41105	137	60S ribosomal protein L28	yes	N/A	0.601	0.518	0.44	1e-11
P46779	137	60S ribosomal protein L28	yes	N/A	0.601	0.518	0.44	1e-11
Q3T0L7	137	60S ribosomal protein L28	yes	N/A	0.601	0.518	0.44	1e-11
P17702	137	60S ribosomal protein L28	yes	N/A	0.601	0.518	0.413	2e-09
Q9M0E2	143	60S ribosomal protein L28	yes	N/A	0.754	0.622	0.406	6e-09
O82204	143	60S ribosomal protein L28	no	N/A	0.728	0.601	0.462	1e-08
Q9GS21	132	60S ribosomal protein L28	yes	N/A	0.720	0.643	0.368	1e-05
Q21930	126	60S ribosomal protein L28	yes	N/A	0.601	0.563	0.369	2e-05

>sp|Q9VZS5|RL28_DROME 60S ribosomal protein L28 OS=Drosophila melanogaster GN=RpL28 PE=2 SV=1

 Score = 83.2 bits (204), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 35/67 (52%), Positives = 51/67 (76%)

Query: 3  SSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKG 62
          SSHL W I++NNNA+L+K  ++KK FS EP NL +++S++YSG++H KT+ + P AD KG
Sbjct: 4  SSHLNWLIIRNNNAFLLKKRDVKKPFSTEPNNLASVSSYRYSGIVHKKTLGVVPAADKKG 63

Query: 63 FACVTKR 69
          F  V K+
Sbjct: 64 FTAVLKK 70

Drosophila melanogaster (taxid: 7227)

>sp|Q962T2|RL28_SPOFR 60S ribosomal protein L28 OS=Spodoptera frugiperda GN=RpL28 PE=2 SV=1

 Score = 81.3 bits (199), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 40/78 (51%), Positives = 53/78 (67%), Gaps = 2/78 (2%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +SSHL W I++NNNA+L+K  NIKK FSKEP N+ NL S++Y+GLI  K + +    D K
Sbjct: 1  MSSHLNWMIIRNNNAFLVKKRNIKKPFSKEPNNVTNLNSYRYNGLIQKKAVGVVENPDRK 60

Query: 62 GFACVTK--RATKKPTAD 77
          GF  V K  +AT KP  +
Sbjct: 61 GFTVVYKKAKATNKPAKN 78

Spodoptera frugiperda (taxid: 7108)

>sp|P41105|RL28_MOUSE 60S ribosomal protein L28 OS=Mus musculus GN=Rpl28 PE=1 SV=2

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 51/75 (68%), Gaps = 4/75 (5%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct: 1  MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query: 62 GFACVTKRAT--KKP 74
          G   V KR +  +KP
Sbjct: 59 GVVVVMKRRSGQRKP 73

Mus musculus (taxid: 10090)

>sp|P46779|RL28_HUMAN 60S ribosomal protein L28 OS=Homo sapiens GN=RPL28 PE=1 SV=3

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 51/75 (68%), Gaps = 4/75 (5%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct: 1  MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query: 62 GFACVTKRAT--KKP 74
          G   V KR +  +KP
Sbjct: 59 GVVVVIKRRSGQRKP 73

Homo sapiens (taxid: 9606)

>sp|Q3T0L7|RL28_BOVIN 60S ribosomal protein L28 OS=Bos taurus GN=RPL28 PE=2 SV=3

 Score = 68.2 bits (165), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 51/75 (68%), Gaps = 4/75 (5%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct: 1  MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query: 62 GFACVTKRAT--KKP 74
          G   V KR +  +KP
Sbjct: 59 GVVVVMKRRSGQRKP 73

Bos taurus (taxid: 9913)

>sp|P17702|RL28_RAT 60S ribosomal protein L28 OS=Rattus norvegicus GN=Rpl28 PE=1 SV=4

 Score = 61.2 bits (147), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 31/75 (41%), Positives = 49/75 (65%), Gaps = 4/75 (5%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++   D K
Sbjct: 1  MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEAWPDGK 58

Query: 62 GFACVTKRAT--KKP 74
          G   V KR +  +KP
Sbjct: 59 GVVVVMKRRSGQRKP 73

Rattus norvegicus (taxid: 10116)

>sp|Q9M0E2|RL282_ARATH 60S ribosomal protein L28-2 OS=Arabidopsis thaliana GN=RPL28C PE=2 SV=1

 Score = 59.3 bits (142), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 39/96 (40%), Positives = 48/96 (50%), Gaps = 7/96 (7%)

Query: 2  VSSHLIWNIVKNNNAYLMKA---DNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTA 58
          V   LIW IVK NN +L+K     N K  FSKE  NL N+ S+K+SGL + KT+ IQ   
Sbjct: 4  VPGQLIWEIVKRNNCFLVKQFGRGNAKVQFSKESNNLVNINSYKHSGLANKKTVTIQAAG 63

Query: 59 DNKGFACVTKRATKKPTADNKGFACVTKRATKKTLS 94
           ++G        T K    NK    V K   KK  S
Sbjct: 64 KDQGVVL----GTTKTKRQNKPKLSVNKSILKKEFS 95

Arabidopsis thaliana (taxid: 3702)

>sp|O82204|RL281_ARATH 60S ribosomal protein L28-1 OS=Arabidopsis thaliana GN=RPL28A PE=1 SV=1

 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/93 (46%), Positives = 51/93 (54%), Gaps = 7/93 (7%)

Query: 2  VSSHLIWNIVKNNNAYLMKA---DNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTA 58
          V   LIW IVKNNN +L+K     N K  FSKE  NL N+ S+K+SGL + KT+ IQ  A
Sbjct: 4  VPGQLIWEIVKNNNCFLVKQFGRGNSKVQFSKETNNLTNVHSYKHSGLANKKTVTIQ--A 61

Query: 59 DNKGFACVTKRATKKPTADNKGFACVTKRATKK 91
           +K  A V   AT K    NK    V K   KK
Sbjct: 62 ADKDQAVVL--ATTKTKKQNKPKLSVNKSILKK 92

Arabidopsis thaliana (taxid: 3702)

>sp|Q9GS21|RL28_DICDI 60S ribosomal protein L28 OS=Dictyostelium discoideum GN=rpl28 PE=2 SV=1

 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/95 (36%), Positives = 47/95 (49%), Gaps = 10/95 (10%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S  L+W+I+K NNA+L  +  +    S EPGNL N  S KYSGL    TI +   A   
Sbjct: 1  MSQDLVWSIIKKNNAFLKSSHGLT--LSAEPGNLRNKNSLKYSGLARRTTIDV---AAVN 55

Query: 62 GFACVTKRATKK---PTADNK--GFACVTKRATKK 91
          G   V+ +  KK   P    K   F+ V  R T +
Sbjct: 56 GKVVVSSKIVKKAAFPAQSKKTTTFSTVNTRKTAR 90

Dictyostelium discoideum (taxid: 44689)

>sp|Q21930|RL28_CAEEL 60S ribosomal protein L28 OS=Caenorhabditis elegans GN=rpl-28 PE=1 SV=3

 Score = 47.8 bits (112), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 27/73 (36%), Positives = 38/73 (52%), Gaps = 2/73 (2%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S  L+W +++NN+A+L     I K FS E  NL  + S KYSGL +   I +   A  K
Sbjct: 1  MSDALVWQVIRNNSAFLRTQRGIGKRFSTEKFNLKKVNSPKYSGLANKHAIDVSAAA--K 58

Query: 62 GFACVTKRATKKP 74
          G    TK    +P
Sbjct: 59 GVVVSTKNEKGRP 71

Caenorhabditis elegans (taxid: 6239)

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	118
110671516	141	putative ribosomal protein L28 [Diaphori	0.618	0.517	1.0	2e-36
91078314	137	PREDICTED: similar to ribosomal protein	0.720	0.620	0.505	2e-17
70909833	137	ribosomal protein L28e [Meladema coriace	0.610	0.525	0.569	2e-16
121543829	139	ribosomal protein L28-like protein [Maco	0.652	0.553	0.518	1e-15
340728565	138	PREDICTED: 60S ribosomal protein L28-lik	0.779	0.666	0.467	1e-15
195402986	144	GJ15527 [Drosophila virilis] gi|19414187	0.567	0.465	0.552	1e-15
264667459	144	ribosomal protein L28 [Chrysomela tremul	0.720	0.590	0.483	1e-15
383866123	138	PREDICTED: 60S ribosomal protein L28-lik	0.762	0.652	0.478	2e-15
357616700	139	ribosomal protein L28 [Danaus plexippus]	0.644	0.546	0.551	3e-15
195125314	144	GI12761 [Drosophila mojavensis] gi|19391	0.567	0.465	0.537	3e-15

>gi|110671516|gb|ABG82009.1| putative ribosomal protein L28 [Diaphorina citri]

 Score =  156 bits (394), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 73/73 (100%), Positives = 73/73 (100%)

Query: 1  MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADN 60
          MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADN
Sbjct: 1  MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADN 60

Query: 61 KGFACVTKRATKK 73
          KGFACVTKRATKK
Sbjct: 61 KGFACVTKRATKK 73

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91078314|ref|XP_972745.1| PREDICTED: similar to ribosomal protein L28e [Tribolium castaneum] gi|270003956|gb|EFA00404.1| hypothetical protein TcasGA2_TC003255 [Tribolium castaneum]

 Score = 92.8 bits (229), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 45/89 (50%), Positives = 61/89 (68%), Gaps = 4/89 (4%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S+HL+W+I++NNNA+L K  NI K FS EP NL NL+S++Y+GLIH KT+ I    D K
Sbjct: 1  MSAHLVWSIIRNNNAFLRKKRNIGKPFSTEPNNLTNLSSYRYNGLIHKKTVGIVDAPDKK 60

Query: 62 GFACVTKRATKKPTADNKGFACVTKRATK 90
          GF  V K+A+K+    NK   C+ KR  K
Sbjct: 61 GFTVVYKKASKQ----NKPRQCIVKRTMK 85

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|70909833|emb|CAJ17403.1| ribosomal protein L28e [Meladema coriacea]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 41/72 (56%), Positives = 53/72 (73%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S+HL W I++NNNA+L+K  NI K FS EP NLPNL+SF+Y+GLIH KT+ I    D K
Sbjct: 1  MSAHLSWMIIRNNNAFLLKKRNINKPFSTEPSNLPNLSSFRYNGLIHKKTVGIIEPKDKK 60

Query: 62 GFACVTKRATKK 73
          GF  V K+A K+
Sbjct: 61 GFTVVYKKANKQ 72

Source: Meladema coriacea

Species: Meladema coriacea

Genus: Meladema

Family: Dytiscidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|121543829|gb|ABM55579.1| ribosomal protein L28-like protein [Maconellicoccus hirsutus]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 41/79 (51%), Positives = 54/79 (68%), Gaps = 2/79 (2%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +S+ L W I +NNNAYL+K  +IKK FS EPGNL N+ASF+Y+GL+  KT+ ++   D K
Sbjct: 1  MSADLYWMITRNNNAYLLKKRDIKKPFSTEPGNLKNVASFRYNGLVQPKTVDVRAAKDGK 60

Query: 62 GFACVTKRATK--KPTADN 78
          GF   TKRA +  KP   N
Sbjct: 61 GFVVTTKRAKQQNKPGKSN 79

Source: Maconellicoccus hirsutus

Species: Maconellicoccus hirsutus

Genus: Maconellicoccus

Family: Pseudococcidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728565|ref|XP_003402591.1| PREDICTED: 60S ribosomal protein L28-like isoform 1 [Bombus terrestris] gi|340728567|ref|XP_003402592.1| PREDICTED: 60S ribosomal protein L28-like isoform 2 [Bombus terrestris] gi|340728569|ref|XP_003402593.1| PREDICTED: 60S ribosomal protein L28-like isoform 3 [Bombus terrestris] gi|350408755|ref|XP_003488502.1| PREDICTED: 60S ribosomal protein L28-like [Bombus impatiens]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 43/92 (46%), Positives = 58/92 (63%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +SSHL W I++NNNA+L+K  NI K FS EP NL NL+S++YSGLIH K++ +  TAD K
Sbjct: 1  MSSHLNWMIIRNNNAFLLKKRNINKPFSTEPNNLNNLSSYRYSGLIHRKSVGVVDTADKK 60

Query: 62 GFACVTKRATKKPTADNKGFACVTKRATKKTL 93
          GF  V K+A            C  K   +++L
Sbjct: 61 GFTVVYKKAKAMNKPAKATVRCTMKAGARRSL 92

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195402986|ref|XP_002060078.1| GJ15527 [Drosophila virilis] gi|194141876|gb|EDW58289.1| GJ15527 [Drosophila virilis]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/67 (55%), Positives = 51/67 (76%)

Query: 3  SSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKG 62
          SSHL W I++NNNA+L+K  ++KK FS EP NL N++SF+YSG++H KT+ + P AD KG
Sbjct: 4  SSHLNWLIIRNNNAFLLKKRDVKKPFSTEPSNLANVSSFRYSGIVHKKTLGVVPAADKKG 63

Query: 63 FACVTKR 69
          F  V K+
Sbjct: 64 FTAVLKK 70

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|264667459|gb|ACY71315.1| ribosomal protein L28 [Chrysomela tremula]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 43/89 (48%), Positives = 59/89 (66%), Gaps = 4/89 (4%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +SSHL+W I++NNNA+L+K  NI K FS EP NL NL+S++Y+GLIH K++ I    D K
Sbjct: 1  MSSHLVWGIIRNNNAFLLKKRNISKPFSTEPNNLTNLSSYRYNGLIHKKSVGIVDAPDKK 60

Query: 62 GFACVTKRATKKPTADNKGFACVTKRATK 90
          GF  V K+++K+    NK      KR  K
Sbjct: 61 GFTVVYKKSSKQ----NKPRQTTVKRTMK 85

Source: Chrysomela tremula

Species: Chrysomela tremula

Genus: Chrysomela

Family: Chrysomelidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383866123|ref|XP_003708521.1| PREDICTED: 60S ribosomal protein L28-like [Megachile rotundata]

 Score = 86.7 bits (213), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 45/94 (47%), Positives = 60/94 (63%), Gaps = 4/94 (4%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +SSHL W I++NNNA+L+K  NI K FS EP NL NL+S++YSGLIH K++ +  T D K
Sbjct: 1  MSSHLNWMIIRNNNAFLLKKRNISKPFSTEPNNLTNLSSYRYSGLIHRKSVGVIDTPDKK 60

Query: 62 GFACVTK--RATKKPTADNKGFACVTKRATKKTL 93
          GF  V K  R+ KKP        C  K   +++L
Sbjct: 61 GFTVVYKKPRSIKKPAKST--VRCTMKAGARRSL 92

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357616700|gb|EHJ70349.1| ribosomal protein L28 [Danaus plexippus]

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 43/78 (55%), Positives = 55/78 (70%), Gaps = 2/78 (2%)

Query: 2  VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
          +SSHL W I++NNNA+L+K  NIKK FSKEP N+ NL SFKY+GLIH K + +    D K
Sbjct: 1  MSSHLNWMIIRNNNAFLVKKRNIKKPFSKEPNNVTNLNSFKYNGLIHKKAVGVVENPDRK 60

Query: 62 GFACVTK--RATKKPTAD 77
          GF+ V K  +AT KP  +
Sbjct: 61 GFSVVYKKAKATNKPAKN 78

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195125314|ref|XP_002007124.1| GI12761 [Drosophila mojavensis] gi|193918733|gb|EDW17600.1| GI12761 [Drosophila mojavensis]

 Score = 85.9 bits (211), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/67 (53%), Positives = 51/67 (76%)

Query: 3  SSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKG 62
          SSHL W I++NNNA+L+K  ++KK FS EP NL N++S++YSG++H KT+ + P AD KG
Sbjct: 4  SSHLNWLIIRNNNAFLLKKRDVKKPFSTEPNNLANVSSYRYSGIVHKKTVGVVPAADKKG 63

Query: 63 FACVTKR 69
          F  V K+
Sbjct: 64 FTTVLKK 70

Source: Drosophila mojavensis

Species: Drosophila mojavensis

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	118
FB|FBgn0035422	144	RpL28 "Ribosomal protein L28"	0.754	0.618	0.430	8.6e-17
ZFIN|ZDB-GENE-040930-10	138	rpl28 "ribosomal protein L28"	0.889	0.760	0.366	3.4e-13
UNIPROTKB|H0YKD8	170	RPL28 "60S ribosomal protein L	0.966	0.670	0.355	4.4e-13
UNIPROTKB|Q3T0L7	137	RPL28 "60S ribosomal protein L	0.881	0.759	0.369	1.2e-12
UNIPROTKB|E2R0A6	137	RPL28 "Uncharacterized protein	0.881	0.759	0.369	1.2e-12
UNIPROTKB|P46779	137	RPL28 "60S ribosomal protein L	0.881	0.759	0.369	1.2e-12
MGI|MGI:101839	137	Rpl28 "ribosomal protein L28"	0.881	0.759	0.369	1.2e-12
UNIPROTKB|Q642E2	137	Rpl28 "Ribosomal protein L28"	0.881	0.759	0.369	1.2e-12
RGD|2318912	137	LOC100362069 "ribosomal protei	0.754	0.649	0.410	2.4e-12
RGD|1565183	137	RGD1565183 "similar to ribosom	0.754	0.649	0.421	3.1e-12

FB|FBgn0035422 RpL28 "Ribosomal protein L28" [Drosophila melanogaster (taxid:7227)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 40/93 (43%), Positives = 61/93 (65%)

Query:     3 SSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKG 62
             SSHL W I++NNNA+L+K  ++KK FS EP NL +++S++YSG++H KT+ + P AD KG
Sbjct:     4 SSHLNWLIIRNNNAFLLKKRDVKKPFSTEPNNLASVSSYRYSGIVHKKTLGVVPAADKKG 63

Query:    63 FACVTKRA--TKKPTADNK--GFACVTKRATKK 91
             F  V K+    ++P  +     F    +R+ KK
Sbjct:    64 FTAVLKKGKYAQRPAKNTVRVDFKAGPRRSLKK 96

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

GO:0006412 "translation" evidence=ISS

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

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0051298 "centrosome duplication" evidence=IMP

GO:0022008 "neurogenesis" evidence=IMP

ZFIN|ZDB-GENE-040930-10 rpl28 "ribosomal protein L28" [Danio rerio (taxid:7955)]

 Score = 173 (66.0 bits), Expect = 3.4e-13, P = 3.4e-13
 Identities = 41/112 (36%), Positives = 66/112 (58%)

Query:     1 MVSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADN 60
             M S HL W +++N++++L+K +  K+ +S EP NL    +F+++GLIH KTI I+P AD 
Sbjct:     1 MASPHLQWMVIRNSSSFLIKRN--KQTYSTEPNNLKARNAFRFNGLIHRKTIGIEPAADG 58

Query:    61 KGFACVTKRAT--KKPTADNKGFACVTK--RATKKTLSGHVDIGSARMDARL 108
             KG   V K+ +  +KP A + G   + K  RAT  ++   +     R D R+
Sbjct:    59 KGVVVVLKKRSGQRKP-ATSYGKITINKNSRATLASVRNIIRKNKYRRDLRM 109

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

GO:0006412 "translation" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0009790 "embryo development" evidence=IMP

UNIPROTKB|H0YKD8 RPL28 "60S ribosomal protein L28" [Homo sapiens (taxid:9606)]

 Score = 172 (65.6 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 43/121 (35%), Positives = 68/121 (56%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTK--RATKKTLSGHVDIGSARMDARLYIFEMGLMS 117
             G   V KR +  +KP A +     + K  RAT  ++   +     R D R+    +G   
Sbjct:    59 GVVVVIKRRSGQRKP-ATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMLAGRVGRQQ 117

Query:   118 A 118
             A
Sbjct:   118 A 118

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|Q3T0L7 RPL28 "60S ribosomal protein L28" [Bos taurus (taxid:9913)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 41/111 (36%), Positives = 65/111 (58%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTK--RATKKTLSGHVDIGSARMDARL 108
             G   V KR +  +KP A +     + K  RAT  ++   +     R D R+
Sbjct:    59 GVVVVMKRRSGQRKP-ATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRM 108

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|E2R0A6 RPL28 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 41/111 (36%), Positives = 65/111 (58%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTK--RATKKTLSGHVDIGSARMDARL 108
             G   V KR +  +KP A +     + K  RAT  ++   +     R D R+
Sbjct:    59 GVVVVLKRRSGQRKP-ATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRM 108

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

UNIPROTKB|P46779 RPL28 "60S ribosomal protein L28" [Homo sapiens (taxid:9606)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 41/111 (36%), Positives = 65/111 (58%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTK--RATKKTLSGHVDIGSARMDARL 108
             G   V KR +  +KP A +     + K  RAT  ++   +     R D R+
Sbjct:    59 GVVVVIKRRSGQRKP-ATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRM 108

GO:0006412 "translation" evidence=NAS;TAS

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

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

GO:0003723 "RNA binding" evidence=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

GO:0005515 "protein binding" evidence=IPI

GO:0005737 "cytoplasm" evidence=IDA

MGI|MGI:101839 Rpl28 "ribosomal protein L28" [Mus musculus (taxid:10090)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 41/111 (36%), Positives = 65/111 (58%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTK--RATKKTLSGHVDIGSARMDARL 108
             G   V KR +  +KP A +     + K  RAT  ++   +     R D R+
Sbjct:    59 GVVVVMKRRSGQRKP-ATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRM 108

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

UNIPROTKB|Q642E2 Rpl28 "Ribosomal protein L28" [Rattus norvegicus (taxid:10116)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 41/111 (36%), Positives = 65/111 (58%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTK--RATKKTLSGHVDIGSARMDARL 108
             G   V KR +  +KP A +     + K  RAT  ++   +     R D R+
Sbjct:    59 GVVVVMKRRSGQRKP-ATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRM 108

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

RGD|2318912 LOC100362069 "ribosomal protein L28-like" [Rattus norvegicus (taxid:10116)]

 Score = 165 (63.1 bits), Expect = 2.4e-12, P = 2.4e-12
 Identities = 39/95 (41%), Positives = 60/95 (63%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF+Y+GLIH KT+ ++P AD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPNNLKAGNSFRYNGLIHRKTVGVEPAADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTKRATKKTLS 94
             G   V KR +  +KP A +     + K A + TLS
Sbjct:    59 GVVVVMKRRSGQRKP-ATSYVRTTINKNA-RATLS 91

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

RGD|1565183 RGD1565183 "similar to ribosomal protein L28" [Rattus norvegicus (taxid:10116)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 40/95 (42%), Positives = 60/95 (63%)

Query:     2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNK 61
             +S+HL W +V+N +++L+K +  K+ +S EP NL    SF Y+GLIH KT+ ++PTAD K
Sbjct:     1 MSAHLQWMVVRNCSSFLIKRN--KQTYSTEPKNLKARNSFGYNGLIHRKTVGVEPTADGK 58

Query:    62 GFACVTKRAT--KKPTADNKGFACVTKRATKKTLS 94
             G   V KR +  +KP A +     + K A + TLS
Sbjct:    59 GVVVVMKRRSGQRKP-AISYVRTTINKNA-RATLS 91

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" 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)
Q9VZS5	RL28_DROME	No assigned EC number	0.5223	0.5677	0.4652	yes	N/A
Q9M0E2	RL282_ARATH	No assigned EC number	0.4062	0.7542	0.6223	yes	N/A
Q9GS21	RL28_DICDI	No assigned EC number	0.3684	0.7203	0.6439	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	118
pfam01778	114	pfam01778, Ribosomal_L28e, Ribosomal L28e protein	2e-19

>gnl|CDD|201967 pfam01778, Ribosomal_L28e, Ribosomal L28e protein family

 Score = 76.8 bits (190), Expect = 2e-19
 Identities = 31/67 (46%), Positives = 42/67 (62%), Gaps = 3/67 (4%)

Query: 6  LIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFAC 65
          LIW I++ NN +L+K +   K FS+EP NL  L S KYSGL +SK + + PTA   G   
Sbjct: 1  LIWEIIRKNNCFLVKRN--GKTFSREPYNLTGLCSRKYSGLANSKYVTVVPTA-KGGVVL 57

Query: 66 VTKRATK 72
          VTK+  +
Sbjct: 58 VTKKPKR 64

Length = 114

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	118
KOG3412|consensus	133		100.0
PTZ00197	146	60S ribosomal protein L28; Provisional	100.0
PF01778	117	Ribosomal_L28e: Ribosomal L28e protein family; Int	100.0
PLN00040	233	Protein MAK16 homolog; Provisional	99.96
KOG3064|consensus	303		98.99
COG5129	303	MAK16 Nuclear protein with HMG-like acidic region	98.61

>KOG3412|consensus

Probab=100.00  E-value=1.2e-44  Score=262.67  Aligned_cols=109  Identities=41%  Similarity=0.664  Sum_probs=104.9

Q ss_pred             CCcceeeeeeecCceeeeeeC-CCCcccccCCCCCCCcccccccccccceeeEEEeCCCCCcEEEEEecCCC--CCCCCC
Q psy6030           2 VSSHLIWNIVKNNNAYLMKAD-NIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATK--KPTADN   78 (118)
Q Consensus         2 mS~dL~W~ivrnnnsFlvK~~-~~~~~FS~EP~NL~n~~S~kysGlan~Kav~V~~~~~~~gv~v~~Kk~k~--kPa~~~   78 (118)
                      ||+||+|||||||||||+|+. +++++||+||+||.++||||||||+|+|+|||+|+++++||++++|+.+.  +|+   
T Consensus         3 ~S~~L~W~VIRnNn~FL~k~r~~~k~~FstEpnNL~~vnS~rySGL~nkKtvgV~~aA~~kgvvv~~kk~K~aqkPA---   79 (133)
T KOG3412|consen    3 TSGHLIWQVIRNNNAFLVKQRGNVKKQFSTEPNNLKNVNSYRYSGLANKKTVGVIPAADKKGVVVVTKKTKGAQKPA---   79 (133)
T ss_pred             cccceeeeeeecCCceeeeeccccccccccCCcccccccccccccccccceeeeeecCCCceEEEEEeccccccCch---
Confidence            899999999999999999976 56899999999999999999999999999999999999999999999998  999   


Q ss_pred             Ccee----ecchhHHHHHHHhhhhcCCCChhhHHHHHHh
Q psy6030          79 KGFA----CVTKRATKKTLSGHVDIGSARMDARLYIFEM  113 (118)
Q Consensus        79 k~~~----~k~~R~~~~~i~~~v~~~~yRpDL~~~A~~~  113 (118)
                      ++++    ++++|+++++|++++..++|||||+++|++|
T Consensus        80 k~~~k~~~~k~~r~s~k~la~~i~~nkYR~Dl~~aaiaR  118 (133)
T KOG3412|consen   80 KSVVKSTLKKEPRRSLKSLANQIGDNKYRPDLRKAALAR  118 (133)
T ss_pred             hhhhHHHHhcccHHHHHHHHHHhhhcccchHHHHHHHHH
Confidence            9987    7899999999999999999999999999999

>PTZ00197 60S ribosomal protein L28; Provisional

Probab=100.00  E-value=1.4e-43  Score=262.77  Aligned_cols=102  Identities=24%  Similarity=0.330  Sum_probs=95.5

Q ss_pred             CCcceeeeeeecCceeeeeeCCCCcccccCCCCCCCcccccccccccceeeEEEeCCCCCcEEEEEecCCC--CCCCCCC
Q psy6030           2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATK--KPTADNK   79 (118)
Q Consensus         2 mS~dL~W~ivrnnnsFlvK~~~~~~~FS~EP~NL~n~~S~kysGlan~Kav~V~~~~~~~gv~v~~Kk~k~--kPa~~~k   79 (118)
                      -|+||||||||+|||||+|++  |++||+||+||+|+||+|||||+|+|+|||+ + |++||+|++|+.+.  +|+   +
T Consensus         3 ~S~dL~W~iVRnnnsFLvKr~--g~~FSrEP~NL~n~nS~KysGL~n~KaVgV~-~-~~kgVvv~tKk~k~~~kPa---k   75 (146)
T PTZ00197          3 HSTDLQWLLVRQNSKFLQKRN--GIRLSSDPFNNNANWTKRHCGFLNTKAAVVK-T-KGDRILVTTKDGSSNNKPK---Q   75 (146)
T ss_pred             CchheeeeeeeccceeEEccC--CCcccCCCCccccccccccccccccceEEEE-e-cCCEEEEEEecCCCCCCCc---h
Confidence            389999999999999999998  8899999999999999999999999999999 5 88999999999887  999   8


Q ss_pred             cee----ecchhHHHHHHHhhhhcCCCChhhHHHHHHhc
Q psy6030          80 GFA----CVTKRATKKTLSGHVDIGSARMDARLYIFEMG  114 (118)
Q Consensus        80 ~~~----~k~~R~~~~~i~~~v~~~~yRpDL~~~A~~~~  114 (118)
                      ++.    ++|+|++  .|++++.+  |||||+++|++||
T Consensus        76 ~~~~~tlkkg~Rr~--~V~~~v~~--YR~DL~~aAlrRA  110 (146)
T PTZ00197         76 MYKKTVMAAGVRAS--VVSRAVAA--VRPDLASVAFRRA  110 (146)
T ss_pred             heeEEeeccCccHH--HHHHHHHh--hCHHHHHHHHHHH
Confidence            876    7899999  59999875  9999999999997

>PF01778 Ribosomal_L28e: Ribosomal L28e protein family; InterPro: IPR002672 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=9e-40  Score=233.80  Aligned_cols=105  Identities=40%  Similarity=0.665  Sum_probs=83.7

Q ss_pred             eeeeeeecCceeeeeeCCCCcccccCCCCCCCcccccccccccceeeEEEeCCCCCcEEEEEecCCC--CCCCCCCcee-
Q psy6030           6 LIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATK--KPTADNKGFA-   82 (118)
Q Consensus         6 L~W~ivrnnnsFlvK~~~~~~~FS~EP~NL~n~~S~kysGlan~Kav~V~~~~~~~gv~v~~Kk~k~--kPa~~~k~~~-   82 (118)
                      |||||||+|||||+|+++++.+||+||+||+|+||++||||||+|+|||+|++ +++|+|++|+.+.  +|+   +++. 
T Consensus         1 L~W~iir~~~~Fl~K~~~~~~~fs~ep~NL~~~~s~kysgLan~k~v~V~~~~-~g~v~l~~K~~~~~~~P~---k~~~~   76 (117)
T PF01778_consen    1 LQWEIIRNNNCFLVKRNGIGKTFSREPGNLTNLNSFKYSGLANSKAVGVRPAP-NGGVVLVTKKPKRANKPA---KSWEK   76 (117)
T ss_dssp             HHHHHHTTT-TTEEEET--TEEEE--TT-SSSB-STTT-TTTSS--EECCCEG-GGECCCEEE-----TTTT-----EEE
T ss_pred             CEEEEecCcceEEEEeCCCCCcccCCCCcccccccccccccccceeEEEEECC-CCcEEEEEccccccCCCc---ceeEE
Confidence            79999999999999998778999999999999999999999999999999985 5689999999977  999   8877 


Q ss_pred             ---ecchhHHHHHHHhhhhcCCCChhhHHHHHHhcc
Q psy6030          83 ---CVTKRATKKTLSGHVDIGSARMDARLYIFEMGL  115 (118)
Q Consensus        83 ---~k~~R~~~~~i~~~v~~~~yRpDL~~~A~~~~~  115 (118)
                         ++|+|+++++|++.+.. +|||||+++|++|+-
T Consensus        77 ~~l~k~~r~a~~~I~~~~~~-~yr~dL~~~a~~R~s  111 (117)
T PF01778_consen   77 VTLSKNSRKALKSIKKQLAK-KYRPDLRKAALRRAS  111 (117)
T ss_dssp             EEESSCHHHHHHHHHHHTSS-THHHHHCCHHHHHHH
T ss_pred             EecCccHHHHHHHHHHHHHh-cCCHHHHHHHHHHHH
Confidence               67999999999999997 799999999999974

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 [, ]. Ribosomal protein L28e forms part of the 60S ribosomal subunit []. This family is found in eukaryotes. In rat there are 9 or 10 copies of the L28 gene. The L28 protein contains a possible internal duplication of 9 residues [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1D_O 4A1B_O 4A18_O 4A19_O 3IZR_b.

>PLN00040 Protein MAK16 homolog; Provisional

Probab=99.96  E-value=4.4e-30  Score=202.87  Aligned_cols=91  Identities=19%  Similarity=0.318  Sum_probs=85.7

Q ss_pred             CCCcceeeeeeecCce-eeeeeCCCCcccccCCCCCCCcccccccccccceeeEEEeCCCCCcEEEEEecCCC--CCCCC
Q psy6030           1 MVSSHLIWNIVKNNNA-YLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATK--KPTAD   77 (118)
Q Consensus         1 mmS~dL~W~ivrnnns-FlvK~~~~~~~FS~EP~NL~n~~S~kysGlan~Kav~V~~~~~~~gv~v~~Kk~k~--kPa~~   77 (118)
                      |||+||+|+|||++|| |++|+.  +.+||+||+||+|+||++||||||++++||.++  +++|+|++|+.+.  +|+  
T Consensus         1 m~SddLiW~IIr~~~csF~vK~~--~~~Fcrnp~NltglcsrkycgLANsKyatV~~~--~G~v~L~~Kt~erah~Pa--   74 (233)
T PLN00040          1 MQHDEVIWQVINHNHCSFKAKID--TGNFCRNKYNVTGLCNRSSCPLANSRYATIREE--DGRFYLYMKTIERAHMPN--   74 (233)
T ss_pred             CCccchhhhhhcCcceeEEEccC--CCcccCCCCcccccccccccccccceeeEEEEc--CCEEEEEEecccccCCcc--
Confidence            8999999999999999 788877  889999999999999999999999999999996  5779999999998  999  


Q ss_pred             CCcee----ecchhHHHHHHHhhhh
Q psy6030          78 NKGFA----CVTKRATKKTLSGHVD   98 (118)
Q Consensus        78 ~k~~~----~k~~R~~~~~i~~~v~   98 (118)
                       +++.    ++|+|+++++|.+.+.
T Consensus        75 -k~w~kv~Lskn~rkalk~I~~~L~   98 (233)
T PLN00040         75 -KLWEKVKLSRNYEKALEQIDKHLA   98 (233)
T ss_pred             -cceEEEecCCCHHHHHHHHHHHHh
Confidence             9887    7899999999999887

>KOG3064|consensus

Probab=98.99  E-value=2.2e-10  Score=92.67  Aligned_cols=91  Identities=15%  Similarity=0.238  Sum_probs=80.4

Q ss_pred             CCCcceeeeeeecCcee-eeeeCCCCcccccCCCCCCCcccccccccccceeeEEEeCCCCCcEEEEEecCCC--CCCCC
Q psy6030           1 MVSSHLIWNIVKNNNAY-LMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATK--KPTAD   77 (118)
Q Consensus         1 mmS~dL~W~ivrnnnsF-lvK~~~~~~~FS~EP~NL~n~~S~kysGlan~Kav~V~~~~~~~gv~v~~Kk~k~--kPa~~   77 (118)
                      |||+|.+|++|.+++|- .+|..  +.+|++..+|||+++....|.|||++...|...  ++-+.|.+|....  -|.  
T Consensus         1 Mq~DeviW~vin~~~CS~k~kte--~~~fCRNeyNvTGLCnR~SCPLANSrYATVre~--~g~~yLymKt~ERaH~P~--   74 (303)
T KOG3064|consen    1 MQSDEVIWQVINKSFCSYKIKTE--TQTFCRNEYNVTGLCNRSSCPLANSRYATVREE--NGVLYLYMKTIERAHMPR--   74 (303)
T ss_pred             CcchHHHHHHhchhhcceeeecc--ccchhccccccceeeccccCcCccccceeEeec--CCEEEEEEechhhhcCcH--
Confidence            99999999999888875 46655  789999999999999999999999999999974  5668899999987  999  


Q ss_pred             CCcee----ecchhHHHHHHHhhhh
Q psy6030          78 NKGFA----CVTKRATKKTLSGHVD   98 (118)
Q Consensus        78 ~k~~~----~k~~R~~~~~i~~~v~   98 (118)
                       +.+.    +++.-+++..|...+-
T Consensus        75 -klwErikLSkNyekALeQIde~Ll   98 (303)
T KOG3064|consen   75 -KLWERIKLSKNYEKALEQIDEQLL   98 (303)
T ss_pred             -HHHHHHhcchhHHHHHHHHHHHHh
Confidence             9987    7899999999987664

>COG5129 MAK16 Nuclear protein with HMG-like acidic region [General function prediction only]

Probab=98.61  E-value=2.3e-08  Score=80.22  Aligned_cols=90  Identities=17%  Similarity=0.263  Sum_probs=79.8

Q ss_pred             CCcceeeeeeecCceee-eeeCCCCcccccCCCCCCCcccccccccccceeeEEEeCCCCCcEEEEEecCCC--CCCCCC
Q psy6030           2 VSSHLIWNIVKNNNAYL-MKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATK--KPTADN   78 (118)
Q Consensus         2 mS~dL~W~ivrnnnsFl-vK~~~~~~~FS~EP~NL~n~~S~kysGlan~Kav~V~~~~~~~gv~v~~Kk~k~--kPa~~~   78 (118)
                      ||++.+|+++-.++|-. +|..  ++.|++..+|+|+++....|.|+|++...|..  +|+.+.|.+|.+..  -|+   
T Consensus         1 msDE~~Wqv~g~~fCS~rik~e--~qnfCRNeyNVTGLC~RqSCPLANSrYATVr~--dngkLyLymKtpERaH~P~---   73 (303)
T COG5129           1 MSDESLWQVSGENFCSFRIKTE--EQNFCRNEYNVTGLCDRQSCPLANSRYATVRA--DNGKLYLYMKTPERAHVPR---   73 (303)
T ss_pred             CchhHHHHHccccccceeeecc--hhhhhhcccccceeeccccCcCccCcceEEEe--cCCEEEEEecChhhccCcH---
Confidence            89999999999998865 5555  88999999999999999999999999999986  57789999999987  999   


Q ss_pred             Ccee----ecchhHHHHHHHhhhh
Q psy6030          79 KGFA----CVTKRATKKTLSGHVD   98 (118)
Q Consensus        79 k~~~----~k~~R~~~~~i~~~v~   98 (118)
                      +.+.    +++.-+++++|...+-
T Consensus        74 klwerIkLSkNY~kAL~QIde~Ll   97 (303)
T COG5129          74 KLWERIKLSKNYEKALKQIDESLL   97 (303)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHh
Confidence            9887    7889999999987653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	118
3izr_b	147	Localization Of The Large Subunit Ribosomal Protein		2e-10

>pdb|3IZR|BB Chain b, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 147

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/83 (42%), Positives = 47/83 (56%), Gaps = 3/83 (3%)
Query: 2  VSSHLIWNIVKNNNAYLMKA---DNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTA 58
          V   LIW IVK NN +L+K     N K  F+KEP NL N+ S+K+SGL + KT+ IQP+ 
Sbjct: 4  VPEPLIWEIVKKNNCFLVKQFGNSNAKVQFTKEPNNLYNVHSYKHSGLANKKTVTIQPSG 63
Query: 59 DNKGFACVTKRATKKPTADNKGF 81
                 ++   TKK  A  K +
Sbjct: 64 VKDAAVVLSTTKTKKQNAPAKLY 86

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	118
3iz5_B	261	60S ribosomal protein L2 (L2P); eukaryotic ribosom	5e-18
4a18_O	134	RPL28, ribosomal protein L22; ribosome, eukaryotic	1e-16

>4a18_O RPL28, ribosomal protein L22; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_O 4a1b_O 4a1d_O Length = 134

 Score = 69.4 bits (169), Expect = 1e-16
 Identities = 21/110 (19%), Positives = 40/110 (36%), Gaps = 9/110 (8%)

Query: 4   SHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGF 63
           S L+W IVKNNNA+L+K + +   F+ +P ++    +    G  H   + ++     +  
Sbjct: 2   SQLVWEIVKNNNAFLVKNNGVA--FTTDPFSVTGRNTQVGLGFTHRHGVALKG-GAKQAI 58

Query: 64  ACVTKRATKKPTADNKGFACVTK------RATKKTLSGHVDIGSARMDAR 107
           A   ++               T       +   K + G       +  A 
Sbjct: 59  ATSLRKNQSHKVKKTGTIEAETLTVKGGVQRVAKVIRGRFQSKGLKQFAL 108

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	118
3iz5_b	147	60S ribosomal protein L28 (L28E); eukaryotic ribos	100.0
4a18_O	134	RPL28, ribosomal protein L22; ribosome, eukaryotic	100.0

>4a18_O RPL28, ribosomal protein L22; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_O 4a1b_O 4a1d_O

Probab=100.00  E-value=1.8e-40  Score=242.67  Aligned_cols=103  Identities=19%  Similarity=0.283  Sum_probs=90.1

Q ss_pred             CCcceeeeeeecCceeeeeeCCCCcccccCCCCCCCcccccccccccceeeEEEeCCCCCcEEEEEecCCC--CCC----
Q psy6030           2 VSSHLIWNIVKNNNAYLMKADNIKKWFSKEPGNLPNLASFKYSGLIHSKTIHIQPTADNKGFACVTKRATK--KPT----   75 (118)
Q Consensus         2 mS~dL~W~ivrnnnsFlvK~~~~~~~FS~EP~NL~n~~S~kysGlan~Kav~V~~~~~~~gv~v~~Kk~k~--kPa----   75 (118)
                      || ||||||||+|||||+|++  |++||+||+||+|+|||+||||||.|+|||+|++|| |  |++|+.+.  +|+    
T Consensus         1 MS-dL~W~ivrnnnsFLvKr~--g~~FS~eP~NL~n~~S~kysGLan~KavgV~~~~~g-g--v~~Kk~k~~~kPa~~~~   74 (134)
T 4a18_O            1 MS-QLVWEIVKNNNAFLVKNN--GVAFTTDPFSVTGRNTQVGLGFTHRHGVALKGGAKQ-A--IATSLRKNQSHKVKKTG   74 (134)
T ss_dssp             CH-HHHHHHHTTTCTTEEEET--TEEEECCTTCSSSBCSTTTCTTTSSCCEEEEEEGGG-E--EEEEEECCCCCCSSCCS
T ss_pred             Cc-ceeehhhcCcceEEEeeC--CccccCCCCCccceeccccccccccceeEEEEcCCC-c--EEEecCcccCCCCcccc
Confidence            78 999999999999999998  899999999999999999999999999999997554 5  67777776  998    


Q ss_pred             CCCCce-e-ecchhHHHHHHHhhhhcCCCChhhHHHHHHhc
Q psy6030          76 ADNKGF-A-CVTKRATKKTLSGHVDIGSARMDARLYIFEMG  114 (118)
Q Consensus        76 ~~~k~~-~-~k~~R~~~~~i~~~v~~~~yRpDL~~~A~~~~  114 (118)
                      ...... . ++|+|+++++|+++++++    ||+++|++|+
T Consensus        75 k~~~~~~~~~k~~Rk~~k~I~~~~~~~----DL~~aAl~Ra  111 (134)
T 4a18_O           75 TIEAETLTVKGGVQRVAKVIRGRFQSK----GLKQFALKKL  111 (134)
T ss_dssp             CSSEEEEEESSTHHHHHHHHHHHCCSH----HHHHHHHHHH
T ss_pred             ceeEEEeccccchHHHHHHHHHHHhhc----hHHHHHHHHH
Confidence            322222 3 679999999999999863    9999999997

---

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

No hit with probability above 80.00