Citrus Sinensis ID: 031915

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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
Protein Sequence
MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVSKSGVKKRNRQATKVPVRK
Secondary Structure (PSIPRED)
ccccccccEEEEEEcccEEEEEEcccccccEEEEccccccccccccccccccccEEEEEEEcccccEEEEEEEccccccccccEEEEEEEcccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHEEEEEEccccEEEEEcccccccEEEccccccccccccccEcccEcccEEEEEEcccccEEEEEEEcccccccccccEEEEEccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccc
Coil and Loop (DISEMBL)
MATVPGQLIWEIVKKNNCFLVkqfgrgnasvefskepnnlynlnsfkhsglanrktvtiqpggkDLSVVLATAKtkkqnkpasllhksTMRKEFPRMAKAVVNQVAdnyyrpdlKKAALARLSAVNRSLkvsksgvkkrnrqatkvpvrk
Flexible Loop (DISEMBL)
MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATaktkkqnkpasllhkstmrkefpRMAKAVVNQVADNYYRPDLKKAALARLSAVnrslkvsksgvkkrnrqatkvpvrk
Low Complexity Region (SEG)
MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVSKSGVKKRNRQATKVPVRK
Disordered region (IsUnstruct)
*****GQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ*****LSVVL****************************KAVVNQVADNYYRPDLKKAALAR*****************************
Disordered Region (DISOPRED)
**TVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLL***************VVNQVADNYYRPDLKKAALARLSAV*************************
Disordered Region (DISEMBL)
MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRS**********************
Disordered Region (DISPRO)
****PGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR***********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVSKSGVKKRNRQATKVPVRK
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	150	2.2.26 [Sep-21-2011]
O82204	143	60S ribosomal protein L28	yes	no	0.953	1.0	0.755	2e-59
Q9M0E2	143	60S ribosomal protein L28	no	no	0.953	1.0	0.748	5e-59
P46779	137	60S ribosomal protein L28	yes	no	0.8	0.875	0.352	1e-14
P41105	137	60S ribosomal protein L28	yes	no	0.8	0.875	0.352	1e-14
Q3T0L7	137	60S ribosomal protein L28	yes	no	0.8	0.875	0.352	1e-14
Q962T2	139	60S ribosomal protein L28	N/A	no	0.773	0.834	0.404	8e-14
P17702	137	60S ribosomal protein L28	yes	no	0.786	0.861	0.362	3e-13
O14069	134	Probable 60S ribosomal pr	yes	no	0.793	0.888	0.333	5e-12
Q9VZS5	144	60S ribosomal protein L28	yes	no	0.813	0.847	0.373	1e-11
Q9GS21	132	60S ribosomal protein L28	yes	no	0.766	0.871	0.376	2e-10

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

 Score =  227 bits (579), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 108/143 (75%), Positives = 126/143 (88%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQLIWEIVK NNCFLVKQFGRGN+ V+FSKE NNL N++S+KHSGLAN+KTVTIQ
Sbjct: 1   MATVPGQLIWEIVKNNNCFLVKQFGRGNSKVQFSKETNNLTNVHSYKHSGLANKKTVTIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
              KD +VVLAT KTKKQNKP   ++KS ++KEFPRM+KAV NQV DNYYRPDLKKAALA
Sbjct: 61  AADKDQAVVLATTKTKKQNKPKLSVNKSILKKEFPRMSKAVANQVVDNYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQA 143
           RLSA+++ L+V+KSG K+RNRQA
Sbjct: 121 RLSAISKGLRVAKSGAKQRNRQA 143

Arabidopsis thaliana (taxid: 3702)

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

 Score =  226 bits (575), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 107/143 (74%), Positives = 124/143 (86%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQLIWEIVK+NNCFLVKQFGRGNA V+FSKE NNL N+NS+KHSGLAN+KTVTIQ
Sbjct: 1   MATVPGQLIWEIVKRNNCFLVKQFGRGNAKVQFSKESNNLVNINSYKHSGLANKKTVTIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
             GKD  VVL T KTK+QNKP   ++KS ++KEF RM+K V NQV DNYYRPDLKKAALA
Sbjct: 61  AAGKDQGVVLGTTKTKRQNKPKLSVNKSILKKEFSRMSKVVANQVVDNYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQA 143
           RLSA+++ L+V+KSG K+RNRQA
Sbjct: 121 RLSAISKGLRVAKSGPKRRNRQA 143

Arabidopsis thaliana (taxid: 3702)

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

 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 44/125 (35%), Positives = 70/125 (56%), Gaps = 5/125 (4%)

Query: 6   GQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKD 65
             L W +V+  + FL+K+  +      +S EPNNL   NSF+++GL +RKTV ++P    
Sbjct: 3   AHLQWMVVRNCSSFLIKRNKQ-----TYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADG 57

Query: 66  LSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAV 125
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+
Sbjct: 58  KGVVVVIKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAI 117

Query: 126 NRSLK 130
            RS K
Sbjct: 118 LRSQK 122

Homo sapiens (taxid: 9606)

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

 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 44/125 (35%), Positives = 70/125 (56%), Gaps = 5/125 (4%)

Query: 6   GQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKD 65
             L W +V+  + FL+K+  +      +S EPNNL   NSF+++GL +RKTV ++P    
Sbjct: 3   AHLQWMVVRNCSSFLIKRNKQ-----TYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADG 57

Query: 66  LSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAV 125
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+
Sbjct: 58  KGVVVVMKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAI 117

Query: 126 NRSLK 130
            RS K
Sbjct: 118 LRSQK 122

Mus musculus (taxid: 10090)

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

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 44/125 (35%), Positives = 70/125 (56%), Gaps = 5/125 (4%)

Query: 6   GQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKD 65
             L W +V+  + FL+K+  +      +S EPNNL   NSF+++GL +RKTV ++P    
Sbjct: 3   AHLQWMVVRNCSSFLIKRNKQ-----TYSTEPNNLKARNSFRYNGLIHRKTVGVEPAADG 57

Query: 66  LSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAV 125
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+
Sbjct: 58  KGVVVVMKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAI 117

Query: 126 NRSLK 130
            RS K
Sbjct: 118 LRSQK 122

Bos taurus (taxid: 9913)

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

 Score = 75.9 bits (185), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 53/131 (40%), Positives = 74/131 (56%), Gaps = 15/131 (11%)

Query: 4   VPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTI--QP 61
           +   L W I++ NN FLVK+    N    FSKEPNN+ NLNS++++GL  +K V +   P
Sbjct: 1   MSSHLNWMIIRNNNAFLVKK---RNIKKPFSKEPNNVTNLNSYRYNGLIQKKAVGVVENP 57

Query: 62  GGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVAD----NYYRPDLKKA 117
             K  +VV   AK    NKPA    K+ +R++F   A+  + +V      N+YR DL KA
Sbjct: 58  DRKGFTVVYKKAKA--TNKPA----KNAVRRQFKAGARRSLYKVKRLLKANHYRTDLSKA 111

Query: 118 ALARLSAVNRS 128
            L R SA+ RS
Sbjct: 112 TLRRASAILRS 122

Spodoptera frugiperda (taxid: 7108)

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

 Score = 74.3 bits (181), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 46/127 (36%), Positives = 73/127 (57%), Gaps = 9/127 (7%)

Query: 6   GQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ--PGG 63
             L W +V+  + FL+K+  +      +S EPNNL   NSF+++GL +RKTV ++  P G
Sbjct: 3   AHLQWMVVRNCSSFLIKRNKQ-----TYSTEPNNLKARNSFRYNGLIHRKTVGVEAWPDG 57

Query: 64  KDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLS 123
           K + VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R S
Sbjct: 58  KGVVVVMK--RRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRAS 115

Query: 124 AVNRSLK 130
           A+ RS K
Sbjct: 116 AILRSQK 122

Rattus norvegicus (taxid: 10116)

>sp|O14069|RL28E_SCHPO Probable 60S ribosomal protein L28e OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpl28e PE=1 SV=1

 Score = 70.1 bits (170), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 42/126 (33%), Positives = 66/126 (52%), Gaps = 7/126 (5%)

Query: 3   TVPGQLIWEIVKKNNCFLVK--QFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           +V   LIW++++ NN FLVK  +FG     ++F++EP N+   N+ + SGL N K V +Q
Sbjct: 2   SVSNDLIWQVIRDNNRFLVKRPEFG----GIQFNREPVNVSGKNAQRFSGLCNDKAVGVQ 57

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMA-KAVVNQVADNYYRPDLKKAAL 119
                  V++     K   KPA L  K  +     R   K++  ++    YR DL K ++
Sbjct: 58  ANSPRGVVLITKTNPKNAQKPAKLFRKDVIANASSRKTYKSIAGRIGRTGYRDDLVKVSV 117

Query: 120 ARLSAV 125
           AR SA+
Sbjct: 118 ARASAI 123

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

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

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/134 (37%), Positives = 75/134 (55%), Gaps = 12/134 (8%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MAT    L W I++ NN FL+K   + +    FS EPNNL +++S+++SG+ ++KT+ + 
Sbjct: 1   MAT-SSHLNWLIIRNNNAFLLK---KRDVKKPFSTEPNNLASVSSYRYSGIVHKKTLGVV 56

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEF---PRMA-KAVVNQVADNYYRPDLKK 116
           P            K K   +PA    K+T+R +F   PR + K + N +  + YR DL +
Sbjct: 57  PAADKKGFTAVLKKGKYAQRPA----KNTVRVDFKAGPRRSLKKLKNLLIGSKYRKDLTQ 112

Query: 117 AALARLSAVNRSLK 130
           AAL R SAV RS K
Sbjct: 113 AALRRASAVLRSQK 126

Drosophila melanogaster (taxid: 7227)

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

 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 47/125 (37%), Positives = 62/125 (49%), Gaps = 10/125 (8%)

Query: 7   QLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQP-GGKD 65
            L+W I+KKNN FL    G     +  S EP NL N NS K+SGLA R T+ +    GK 
Sbjct: 4   DLVWSIIKKNNAFLKSSHG-----LTLSAEPGNLRNKNSLKYSGLARRTTIDVAAVNGK- 57

Query: 66  LSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAV 125
             VV+++   KK   PA     +T      R     V  +A  Y  P+L+ AAL RL  V
Sbjct: 58  --VVVSSKIVKKAAFPAQSKKTTTFSTVNTRKTARFVKTLATQYA-PELRAAALGRLHRV 114

Query: 126 NRSLK 130
             +L+
Sbjct: 115 QSALR 119

Dictyostelium discoideum (taxid: 44689)

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	150
449446572	149	PREDICTED: 60S ribosomal protein L28-1-l	0.953	0.959	0.874	3e-68
89258491	150	putative ribosomal protein L28 [Gossypiu	1.0	1.0	0.833	3e-68
351728103	150	uncharacterized protein LOC100500189 [Gl	1.0	1.0	0.84	7e-68
356550472	150	PREDICTED: 60S ribosomal protein L28-2 [	1.0	1.0	0.833	1e-67
255546219	144	60S ribosomal protein L28, putative [Ric	0.953	0.993	0.888	1e-67
351722416	150	uncharacterized protein LOC100499921 [Gl	1.0	1.0	0.833	2e-66
449458189	148	PREDICTED: 60S ribosomal protein L28-2-l	0.966	0.979	0.841	2e-65
224073524	147	predicted protein [Populus trichocarpa]	0.973	0.993	0.835	1e-64
388494168	150	unknown [Lotus japonicus]	1.0	1.0	0.8	2e-64
255549668	144	60S ribosomal protein L28, putative [Ric	0.96	1.0	0.834	4e-64

>gi|449446572|ref|XP_004141045.1| PREDICTED: 60S ribosomal protein L28-1-like isoform 1 [Cucumis sativus] gi|449446574|ref|XP_004141046.1| PREDICTED: 60S ribosomal protein L28-1-like isoform 2 [Cucumis sativus]

 Score =  262 bits (670), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 125/143 (87%), Positives = 138/143 (96%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MA VPGQL+WEIVKKN+ FLVK+FGRGNASV+FSKEPNNLYNLNS+KHSGLANRKTVTIQ
Sbjct: 1   MANVPGQLVWEIVKKNSSFLVKEFGRGNASVQFSKEPNNLYNLNSYKHSGLANRKTVTIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           PGGKDLSV+LAT+KTKKQNKPA+ LHKS MRKEFPRMAKAV+NQVADNYYRPDLK AALA
Sbjct: 61  PGGKDLSVLLATSKTKKQNKPANSLHKSVMRKEFPRMAKAVINQVADNYYRPDLKNAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQA 143
           +LSAV+RSLKV+KSGVKKRNRQ+
Sbjct: 121 KLSAVHRSLKVAKSGVKKRNRQS 143

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|89258491|gb|ABD65459.1| putative ribosomal protein L28 [Gossypium hirsutum]

 Score =  262 bits (670), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 125/150 (83%), Positives = 138/150 (92%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQLIWE+VK+NNCFLVKQFGRG A V FSKEPNNLYN+NS+KHSGLAN+KTVTIQ
Sbjct: 1   MATVPGQLIWEVVKRNNCFLVKQFGRGTAGVRFSKEPNNLYNVNSYKHSGLANKKTVTIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           P GKD SV+LAT K+KKQNKP+SLLHKS M+KEFPRMAKAV NQV DNYYRPDL KAALA
Sbjct: 61  PAGKDQSVLLATTKSKKQNKPSSLLHKSVMKKEFPRMAKAVKNQVTDNYYRPDLTKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATKVPVRK 150
           RLSAVNRSLKV+KSGVKKRNRQA+++  RK
Sbjct: 121 RLSAVNRSLKVAKSGVKKRNRQASRIHGRK 150

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351728103|ref|NP_001238207.1| uncharacterized protein LOC100500189 [Glycine max] gi|255629617|gb|ACU15156.1| unknown [Glycine max]

 Score =  261 bits (667), Expect = 7e-68,   Method: Compositional matrix adjust.
 Identities = 126/150 (84%), Positives = 139/150 (92%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQLIWE+VKKNN FLVK+FGRG  SV+FS+EPNNLYNLN+FK+SGLAN+KTVT+Q
Sbjct: 1   MATVPGQLIWEVVKKNNSFLVKEFGRGTQSVQFSREPNNLYNLNTFKYSGLANKKTVTVQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           P GKD SV+LAT KTKKQNKPA+LLHKS M+KEF RMAKAV NQVADNYYRPDLKKAALA
Sbjct: 61  PTGKDQSVLLATTKTKKQNKPAALLHKSVMKKEFRRMAKAVQNQVADNYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATKVPVRK 150
           RLSAVNRSL+V+KSGVKKRNRQA KVP RK
Sbjct: 121 RLSAVNRSLRVAKSGVKKRNRQAVKVPSRK 150

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550472|ref|XP_003543611.1| PREDICTED: 60S ribosomal protein L28-2 [Glycine max]

 Score =  260 bits (665), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 125/150 (83%), Positives = 139/150 (92%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           M+TVPGQLIWEIVKKNN FLVK+FGRG  SV+FS+EPNNLYNLN+FK+SGLAN+KTVT+Q
Sbjct: 1   MSTVPGQLIWEIVKKNNSFLVKEFGRGTQSVQFSREPNNLYNLNTFKYSGLANQKTVTVQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           P GKD SV+LAT KTKKQNKPA+LLHKS M+KEF RMAKAV NQVADNYYRPDLK+AALA
Sbjct: 61  PAGKDQSVLLATTKTKKQNKPAALLHKSVMKKEFRRMAKAVQNQVADNYYRPDLKRAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATKVPVRK 150
           RLSAVNRSL+V+KSGVKKRNRQA KVP RK
Sbjct: 121 RLSAVNRSLRVAKSGVKKRNRQAVKVPSRK 150

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546219|ref|XP_002514169.1| 60S ribosomal protein L28, putative [Ricinus communis] gi|223546625|gb|EEF48123.1| 60S ribosomal protein L28, putative [Ricinus communis]

 Score =  260 bits (664), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 127/143 (88%), Positives = 133/143 (93%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQLIWEIVK NN FLVK+FGRGNASV+FSKE NNLYNLNS+KHSGLAN+KTV+IQ
Sbjct: 1   MATVPGQLIWEIVKTNNSFLVKEFGRGNASVQFSKESNNLYNLNSYKHSGLANKKTVSIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           PGGKDLSVVLAT KTKKQNKPAS LHKS MRKEF RMAKAV NQV DNYYRPDLKKAALA
Sbjct: 61  PGGKDLSVVLATTKTKKQNKPASSLHKSVMRKEFRRMAKAVSNQVGDNYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQA 143
           RLSAV RSLKV+KSGVKKRNRQA
Sbjct: 121 RLSAVQRSLKVAKSGVKKRNRQA 143

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351722416|ref|NP_001238011.1| uncharacterized protein LOC100499921 [Glycine max] gi|255627703|gb|ACU14196.1| unknown [Glycine max]

 Score =  256 bits (654), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 125/150 (83%), Positives = 137/150 (91%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQL+WEIVKKNN FLVKQFGRG  SVEFS+E NNLYNLNSFK+SGLAN+KTVT+Q
Sbjct: 1   MATVPGQLVWEIVKKNNSFLVKQFGRGTQSVEFSRESNNLYNLNSFKYSGLANKKTVTVQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           P GKD +V+LAT KTKKQNKPA+LLHKS M+KEF RMAKAV NQVA+NYYRPDLKKAALA
Sbjct: 61  PEGKDQAVLLATTKTKKQNKPAALLHKSVMKKEFRRMAKAVENQVAENYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATKVPVRK 150
           RLSAV+RSLKV+KSGVKKRNRQA KV  RK
Sbjct: 121 RLSAVHRSLKVAKSGVKKRNRQAVKVASRK 150

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458189|ref|XP_004146830.1| PREDICTED: 60S ribosomal protein L28-2-like isoform 1 [Cucumis sativus] gi|449458191|ref|XP_004146831.1| PREDICTED: 60S ribosomal protein L28-2-like isoform 2 [Cucumis sativus] gi|449476678|ref|XP_004154804.1| PREDICTED: 60S ribosomal protein L28-2-like isoform 1 [Cucumis sativus] gi|449476681|ref|XP_004154805.1| PREDICTED: 60S ribosomal protein L28-2-like isoform 2 [Cucumis sativus]

 Score =  253 bits (646), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 122/145 (84%), Positives = 133/145 (91%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MA VPGQLIWEIVK+NN FLVK+FGRG A V+FSKE NNLYNLNS+KHSGLAN+KTVTIQ
Sbjct: 1   MAAVPGQLIWEIVKRNNSFLVKEFGRGTAGVQFSKEANNLYNLNSYKHSGLANKKTVTIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           PGGKD S++LAT K+KKQNKP+S LHKS M+KEF RMAKAV NQVADNYYRPDLKKAALA
Sbjct: 61  PGGKDQSILLATTKSKKQNKPSSSLHKSLMKKEFRRMAKAVTNQVADNYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATK 145
           RLSAVNRSLKV+KSGVKKRNRQA K
Sbjct: 121 RLSAVNRSLKVAKSGVKKRNRQALK 145

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224073524|ref|XP_002304107.1| predicted protein [Populus trichocarpa] gi|224073532|ref|XP_002304108.1| predicted protein [Populus trichocarpa] gi|118481531|gb|ABK92708.1| unknown [Populus trichocarpa] gi|222841539|gb|EEE79086.1| predicted protein [Populus trichocarpa] gi|222841540|gb|EEE79087.1| predicted protein [Populus trichocarpa]

 Score =  250 bits (639), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 122/146 (83%), Positives = 132/146 (90%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQLIWEIVKKNNCFLVKQFGRG AS+ FSKE NNLYNLNS+KHSGLAN+KTVTIQ
Sbjct: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGTASLRFSKESNNLYNLNSYKHSGLANKKTVTIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
            G KD +VVLAT+KTKKQNKPA+L HKS M+KEF RMAKAV NQV  NYYRPDLKKAALA
Sbjct: 61  AGDKDQAVVLATSKTKKQNKPAALFHKSVMKKEFRRMAKAVENQVEGNYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATKV 146
           RLSAV+RSLKV+KSGVKKRNRQ  K+
Sbjct: 121 RLSAVHRSLKVAKSGVKKRNRQGLKI 146

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388494168|gb|AFK35150.1| unknown [Lotus japonicus]

 Score =  249 bits (636), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 120/150 (80%), Positives = 135/150 (90%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           M TVPGQL+WEIVKKNN FLVK+FGRG  SVEFS+E NNL+NLNSFKHSGLAN+KTVTIQ
Sbjct: 1   MTTVPGQLVWEIVKKNNSFLVKEFGRGTQSVEFSRESNNLFNLNSFKHSGLANKKTVTIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
           P GKD SV+LAT KTKKQNKPA+LLHKS M+KEF +MAKAV NQ+A+NYYRPDLKKAALA
Sbjct: 61  PSGKDQSVLLATTKTKKQNKPAALLHKSVMKKEFSKMAKAVENQIANNYYRPDLKKAALA 120

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATKVPVRK 150
           RLS V+RSL+V+KSGVKKRNRQA KV  R+
Sbjct: 121 RLSVVHRSLRVAKSGVKKRNRQALKVHGRQ 150

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255549668|ref|XP_002515885.1| 60S ribosomal protein L28, putative [Ricinus communis] gi|223544790|gb|EEF46305.1| 60S ribosomal protein L28, putative [Ricinus communis]

 Score =  249 bits (635), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 121/145 (83%), Positives = 134/145 (92%), Gaps = 1/145 (0%)

Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVPGQLIWE VKKNNCFLVKQFGRG+ASV+FSKEPNNLYNLNS+KHSGL+N+KTV+IQ
Sbjct: 1   MATVPGQLIWEAVKKNNCFLVKQFGRGSASVQFSKEPNNLYNLNSYKHSGLSNKKTVSIQ 60

Query: 61  PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
             GKD SV+LAT KTKKQN+P++LLHKS M+KEF RMAKAV NQV DNYYRPDLKKAALA
Sbjct: 61  -AGKDQSVILATTKTKKQNRPSALLHKSVMKKEFRRMAKAVQNQVGDNYYRPDLKKAALA 119

Query: 121 RLSAVNRSLKVSKSGVKKRNRQATK 145
           RLS V+RSLKV+KSGVKKRNRQA K
Sbjct: 120 RLSVVHRSLKVAKSGVKKRNRQAQK 144

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	150
TAIR|locus:2052010	143	AT2G19730 [Arabidopsis thalian	0.953	1.0	0.755	7.8e-55
TAIR|locus:2118289	143	AT4G29410 [Arabidopsis thalian	0.953	1.0	0.748	1.3e-54
UNIPROTKB|E2R0A6	137	RPL28 "Uncharacterized protein	0.873	0.956	0.355	1.4e-16
UNIPROTKB|P46779	137	RPL28 "60S ribosomal protein L	0.873	0.956	0.355	1.4e-16
MGI|MGI:101839	137	Rpl28 "ribosomal protein L28"	0.873	0.956	0.355	1.8e-16
UNIPROTKB|Q642E2	137	Rpl28 "Ribosomal protein L28"	0.873	0.956	0.355	1.8e-16
UNIPROTKB|Q3T0L7	137	RPL28 "60S ribosomal protein L	0.873	0.956	0.355	2.3e-16
RGD|2318912	137	LOC100362069 "ribosomal protei	0.873	0.956	0.355	4.7e-16
ASPGD|ASPL0000004497	157	AN6500 [Emericella nidulans (t	0.94	0.898	0.337	7.7e-16
RGD|621193	137	Rpl28 "ribosomal protein L28"	0.86	0.941	0.364	1.3e-15

TAIR|locus:2052010 AT2G19730 [Arabidopsis thaliana (taxid:3702)]

 Score = 566 (204.3 bits), Expect = 7.8e-55, P = 7.8e-55
 Identities = 108/143 (75%), Positives = 126/143 (88%)

Query:     1 MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
             MATVPGQLIWEIVK NNCFLVKQFGRGN+ V+FSKE NNL N++S+KHSGLAN+KTVTIQ
Sbjct:     1 MATVPGQLIWEIVKNNNCFLVKQFGRGNSKVQFSKETNNLTNVHSYKHSGLANKKTVTIQ 60

Query:    61 PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
                KD +VVLAT KTKKQNKP   ++KS ++KEFPRM+KAV NQV DNYYRPDLKKAALA
Sbjct:    61 AADKDQAVVLATTKTKKQNKPKLSVNKSILKKEFPRMSKAVANQVVDNYYRPDLKKAALA 120

Query:   121 RLSAVNRSLKVSKSGVKKRNRQA 143
             RLSA+++ L+V+KSG K+RNRQA
Sbjct:   121 RLSAISKGLRVAKSGAKQRNRQA 143

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0005618 "cell wall" evidence=IDA

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

GO:0009507 "chloroplast" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2118289 AT4G29410 [Arabidopsis thaliana (taxid:3702)]

 Score = 564 (203.6 bits), Expect = 1.3e-54, P = 1.3e-54
 Identities = 107/143 (74%), Positives = 124/143 (86%)

Query:     1 MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
             MATVPGQLIWEIVK+NNCFLVKQFGRGNA V+FSKE NNL N+NS+KHSGLAN+KTVTIQ
Sbjct:     1 MATVPGQLIWEIVKRNNCFLVKQFGRGNAKVQFSKESNNLVNINSYKHSGLANKKTVTIQ 60

Query:    61 PGGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALA 120
               GKD  VVL T KTK+QNKP   ++KS ++KEF RM+K V NQV DNYYRPDLKKAALA
Sbjct:    61 AAGKDQGVVLGTTKTKRQNKPKLSVNKSILKKEFSRMSKVVANQVVDNYYRPDLKKAALA 120

Query:   121 RLSAVNRSLKVSKSGVKKRNRQA 143
             RLSA+++ L+V+KSG K+RNRQA
Sbjct:   121 RLSAISKGLRVAKSGPKRRNRQA 143

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0009506 "plasmodesma" evidence=IDA

GO:0001510 "RNA methylation" evidence=RCA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

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

 Score = 205 (77.2 bits), Expect = 1.4e-16, P = 1.4e-16
 Identities = 49/138 (35%), Positives = 77/138 (55%)

Query:     8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLS 67
             L W +V+  + FL+K+    N    +S EPNNL   NSF+++GL +RKTV ++P      
Sbjct:     5 LQWMVVRNCSSFLIKR----NKQT-YSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGKG 59

Query:    68 VVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR 127
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+ R
Sbjct:    60 VVVVLKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAILR 119

Query:   128 SLKVSKSGVKKRNRQATK 145
             S K     VK++  + TK
Sbjct:   120 SQKPVM--VKRKRARPTK 135

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 = 205 (77.2 bits), Expect = 1.4e-16, P = 1.4e-16
 Identities = 49/138 (35%), Positives = 77/138 (55%)

Query:     8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLS 67
             L W +V+  + FL+K+    N    +S EPNNL   NSF+++GL +RKTV ++P      
Sbjct:     5 LQWMVVRNCSSFLIKR----NKQT-YSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGKG 59

Query:    68 VVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR 127
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+ R
Sbjct:    60 VVVVIKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAILR 119

Query:   128 SLKVSKSGVKKRNRQATK 145
             S K     VK++  + TK
Sbjct:   120 SQKPVM--VKRKRTRPTK 135

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 = 204 (76.9 bits), Expect = 1.8e-16, P = 1.8e-16
 Identities = 49/138 (35%), Positives = 77/138 (55%)

Query:     8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLS 67
             L W +V+  + FL+K+    N    +S EPNNL   NSF+++GL +RKTV ++P      
Sbjct:     5 LQWMVVRNCSSFLIKR----NKQT-YSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGKG 59

Query:    68 VVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR 127
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+ R
Sbjct:    60 VVVVMKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAILR 119

Query:   128 SLKVSKSGVKKRNRQATK 145
             S K     VK++  + TK
Sbjct:   120 SQKPVV--VKRKRTRPTK 135

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 = 204 (76.9 bits), Expect = 1.8e-16, P = 1.8e-16
 Identities = 49/138 (35%), Positives = 77/138 (55%)

Query:     8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLS 67
             L W +V+  + FL+K+    N    +S EPNNL   NSF+++GL +RKTV ++P      
Sbjct:     5 LQWMVVRNCSSFLIKR----NKQT-YSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGKG 59

Query:    68 VVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR 127
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+ R
Sbjct:    60 VVVVMKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAILR 119

Query:   128 SLKVSKSGVKKRNRQATK 145
             S K     VK++  + TK
Sbjct:   120 SQKPVV--VKRKRTRPTK 135

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 = 203 (76.5 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 49/138 (35%), Positives = 77/138 (55%)

Query:     8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLS 67
             L W +V+  + FL+K+    N    +S EPNNL   NSF+++GL +RKTV ++P      
Sbjct:     5 LQWMVVRNCSSFLIKR----NKQT-YSTEPNNLKARNSFRYNGLIHRKTVGVEPAADGKG 59

Query:    68 VVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR 127
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+ R
Sbjct:    60 VVVVMKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAILR 119

Query:   128 SLKVSKSGVKKRNRQATK 145
             S K     VK++  + TK
Sbjct:   120 SQKPVM--VKRKPSRPTK 135

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

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

 Score = 200 (75.5 bits), Expect = 4.7e-16, P = 4.7e-16
 Identities = 49/138 (35%), Positives = 76/138 (55%)

Query:     8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLS 67
             L W +V+  + FL+K+    N    +S EPNNL   NSF+++GL +RKTV ++P      
Sbjct:     5 LQWMVVRNCSSFLIKR----NKQT-YSTEPNNLKAGNSFRYNGLIHRKTVGVEPAADGKG 59

Query:    68 VVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR 127
             VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL  AA+ R SA+ R
Sbjct:    60 VVVVMKRRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLSMAAIRRASAILR 119

Query:   128 SLKVSKSGVKKRNRQATK 145
             S K     VK++  + TK
Sbjct:   120 SQKPVV--VKRKRTRPTK 135

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

ASPGD|ASPL0000004497 AN6500 [Emericella nidulans (taxid:162425)]

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 Identities = 50/148 (33%), Positives = 80/148 (54%)

Query:     2 ATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQP 61
             + V   L+W++ +  N +LVK+   G   V+FS++P N+ N +SFK++G +N K + +Q 
Sbjct:     6 SNVSSDLVWQLTRNQNAYLVKRNTHGG--VQFSRDPLNVLNKHSFKYAGYSNTKAIGVQ- 62

Query:    62 GGKDLSVVLATAKTKKQNKPASLLHKSTMRKEFP--RMAKAVVNQVADNYYRPDLKKAAL 119
               ++  VV  T K     +PA  L   T        ++ K V ++ A N YR DL++ A+
Sbjct:    63 ATENGGVVTITKKPGTSQQPAKSLAVVTYGPGASNRKIYKGVADRTAKNGYRADLRQEAV 122

Query:   120 ARLSAVNRSLKVSKS--GVKKRNRQATK 145
             +R+SA+ RS K  K     K R  QA K
Sbjct:   123 SRVSAIRRSQKAKKETPARKPRGAQARK 150

GO:0005829 "cytosol" evidence=IEA

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

RGD|621193 Rpl28 "ribosomal protein L28" [Rattus norvegicus (taxid:10116)]

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 51/140 (36%), Positives = 80/140 (57%)

Query:     8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ--PGGKD 65
             L W +V+  + FL+K+    N    +S EPNNL   NSF+++GL +RKTV ++  P GK 
Sbjct:     5 LQWMVVRNCSSFLIKR----NKQT-YSTEPNNLKARNSFRYNGLIHRKTVGVEAWPDGKG 59

Query:    66 LSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAV 125
             + VV+   +   Q KPA+   ++T+ K       ++ + +  N YRPDL+ AA+ R SA+
Sbjct:    60 VVVVMK--RRSGQRKPATSYVRTTINKNARATLSSIRHMIRKNKYRPDLRMAAIRRASAI 117

Query:   126 NRSLKVSKSGVKKRNRQATK 145
              RS K     VK++  + TK
Sbjct:   118 LRSQKPVV--VKRKRTRPTK 135

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

GO:0005737 "cytoplasm" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

---

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	0.3731	0.8133	0.8472	yes	no
Q9M0E2	RL282_ARATH	No assigned EC number	0.7482	0.9533	1.0	no	no
O82204	RL281_ARATH	No assigned EC number	0.7552	0.9533	1.0	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: grail3.0110001901 SubName- Full=Putative uncharacterized protein; (147 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	150
pfam01778	114	pfam01778, Ribosomal_L28e, Ribosomal L28e protein	3e-34

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

 Score =  115 bits (290), Expect = 3e-34
 Identities = 60/122 (49%), Positives = 74/122 (60%), Gaps = 8/122 (6%)

Query: 8   LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLS 67
           LIWEI++KNNCFLVK+ G       FS+EP NL  L S K+SGLAN K VT+ P  K   
Sbjct: 1   LIWEIIRKNNCFLVKRNG-----KTFSREPYNLTGLCSRKYSGLANSKYVTVVPTAKG-G 54

Query: 68  VVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR 127
           VVL T K K+ +KPA L  K T+ K + +  K +   +A  YYRPDL K A  R S + R
Sbjct: 55  VVLVTKKPKRAHKPAKLWEKVTLSKNYRKALKQIKKALA--YYRPDLIKKAKRRASKLLR 112

Query: 128 SL 129
           S 
Sbjct: 113 SQ 114

Length = 114

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	150
PTZ00197	146	60S ribosomal protein L28; Provisional	100.0
KOG3412	133	consensus 60S ribosomal protein L28 [Translation,	100.0
PF01778	117	Ribosomal_L28e: Ribosomal L28e protein family; Int	100.0
PLN00040	233	Protein MAK16 homolog; Provisional	100.0
KOG3064	303	consensus RNA-binding nuclear protein (MAK16) cont	99.77
COG5129	303	MAK16 Nuclear protein with HMG-like acidic region	99.67

>PTZ00197 60S ribosomal protein L28; Provisional

Probab=100.00  E-value=8.3e-50  Score=307.14  Aligned_cols=132  Identities=26%  Similarity=0.414  Sum_probs=122.2

Q ss_pred             CCCCCccchheeeecCceeEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCC
Q 031915            1 MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNK   80 (150)
Q Consensus         1 m~~mS~dL~W~ivr~nnsFl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~k   80 (150)
                      |+ .|+||||||||+|||||+|++|     .+||+||+||+|+|||+||||+|+|+|||+ + |++||+|++|+.+..++
T Consensus         1 ~~-~S~dL~W~iVRnnnsFLvKr~g-----~~FSrEP~NL~n~nS~KysGL~n~KaVgV~-~-~~kgVvv~tKk~k~~~k   72 (146)
T PTZ00197          1 MT-HSTDLQWLLVRQNSKFLQKRNG-----IRLSSDPFNNNANWTKRHCGFLNTKAAVVK-T-KGDRILVTTKDGSSNNK   72 (146)
T ss_pred             CC-CchheeeeeeeccceeEEccCC-----CcccCCCCccccccccccccccccceEEEE-e-cCCEEEEEEecCCCCCC
Confidence            55 5999999999999999999975     579999999999999999999999999999 5 89999999999999999


Q ss_pred             CCceeeeeeecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHHHhhc-CCCCCcccccCcccc
Q 031915           81 PASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSL-KVSKSGVKKRNRQAT  144 (150)
Q Consensus        81 Pak~~~~~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai~rsq-k~~k~~~~~~~r~~~  144 (150)
                      |++++.+++|++|+|++  .|++++.+  |||||+++||+|||||++|| +..|..+.+++|+-+
T Consensus        73 Pak~~~~~tlkkg~Rr~--~V~~~v~~--YR~DL~~aAlrRASAIlrs~~~~~~~~~~~~~~~~~  133 (146)
T PTZ00197         73 PKQMYKKTVMAAGVRAS--VVSRAVAA--VRPDLASVAFRRARKMACTASRMKKVAAARKERSSK  133 (146)
T ss_pred             CchheeEEeeccCccHH--HHHHHHHh--hCHHHHHHHHHHHHHHHHHHHHHHhhhhhccccccc
Confidence            99999999999999999  59999876  99999999999999999997 567777778888763

>KOG3412 consensus 60S ribosomal protein L28 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.1e-48  Score=293.66  Aligned_cols=132  Identities=54%  Similarity=0.803  Sum_probs=125.5

Q ss_pred             CCCCCccchheeeecCceeEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCC
Q 031915            1 MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNK   80 (150)
Q Consensus         1 m~~mS~dL~W~ivr~nnsFl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~k   80 (150)
                      |+ ||+||+|||||+|||||+|+.+..  +.+||+||+||.++|||+||||+|+|+|||+|+++++||++++|+.+.+++
T Consensus         1 ma-~S~~L~W~VIRnNn~FL~k~r~~~--k~~FstEpnNL~~vnS~rySGL~nkKtvgV~~aA~~kgvvv~~kk~K~aqk   77 (133)
T KOG3412|consen    1 MA-TSGHLIWQVIRNNNAFLVKQRGNV--KKQFSTEPNNLKNVNSYRYSGLANKKTVGVIPAADKKGVVVVTKKTKGAQK   77 (133)
T ss_pred             CC-cccceeeeeeecCCceeeeecccc--ccccccCCcccccccccccccccccceeeeeecCCCceEEEEEeccccccC
Confidence            66 799999999999999999987542  589999999999999999999999999999999899999999999999999


Q ss_pred             CCceeeeeeecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHHHhhcCCCCCc
Q 031915           81 PASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVSKSG  135 (150)
Q Consensus        81 Pak~~~~~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai~rsqk~~k~~  135 (150)
                      |++++.+++|++++|+++++|++++..++|||||+++|++|+|+|.+++++.+..
T Consensus        78 PAk~~~k~~~~k~~r~s~k~la~~i~~nkYR~Dl~~aaiaR~s~~~k~~~v~kt~  132 (133)
T KOG3412|consen   78 PAKSVVKSTLKKEPRRSLKSLANQIGDNKYRPDLRKAALARLSAISKSARVKKTG  132 (133)
T ss_pred             chhhhhHHHHhcccHHHHHHHHHHhhhcccchHHHHHHHHHhhcccccccccccC
Confidence            9999999999999999999999999999999999999999999999999987754

>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=4.3e-45  Score=271.98  Aligned_cols=117  Identities=54%  Similarity=0.782  Sum_probs=95.3

Q ss_pred             chheeeecCceeEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCCCCceeee
Q 031915            8 LIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPASLLHK   87 (150)
Q Consensus         8 L~W~ivr~nnsFl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~kPak~~~~   87 (150)
                      |||||||+|||||+|+++.+   .+||+||+||+|+||++||||||+++|||+++ ++|+|+|++|+.++.++|++++.+
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 LQWEIIRNNNCFLVKRNGIG---KTFSREPGNLTNLNSFKYSGLANSKAVGVRPA-PNGGVVLVTKKPKRANKPAKSWEK   76 (117)
T ss_dssp             HHHHHHTTT-TTEEEET--T---EEEE--TT-SSSB-STTT-TTTSS--EECCCE-GGGECCCEEE-----TTTT--EEE
T ss_pred             CEEEEecCcceEEEEeCCCC---CcccCCCCcccccccccccccccceeEEEEEC-CCCcEEEEEccccccCCCcceeEE
Confidence            79999999999999998543   79999999999999999999999999999997 478999999999999999999999


Q ss_pred             eeecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHHHhhc
Q 031915           88 STMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSL  129 (150)
Q Consensus        88 ~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai~rsq  129 (150)
                      ++|++|+|+++++|++.+.. +|||||.++|++|+|+|++||
T Consensus        77 ~~l~k~~r~a~~~I~~~~~~-~yr~dL~~~a~~R~s~i~~sq  117 (117)
T PF01778_consen   77 VTLSKNSRKALKSIKKQLAK-KYRPDLRKAALRRASAILRSQ  117 (117)
T ss_dssp             EEESSCHHHHHHHHHHHTSS-THHHHHCCHHHHHHHHHCCH-
T ss_pred             EecCccHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHhcC
Confidence            99999999999999999998 899999999999999999998

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=100.00  E-value=9.7e-34  Score=232.49  Aligned_cols=116  Identities=21%  Similarity=0.363  Sum_probs=105.5

Q ss_pred             CCCccchheeeecCce-eEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCCC
Q 031915            3 TVPGQLIWEIVKKNNC-FLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKP   81 (150)
Q Consensus         3 ~mS~dL~W~ivr~nns-Fl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~kP   81 (150)
                      ||||||+|+||+++|| |++|+.+     .+||+||+||||+||++||||||++++||.++  +|+|+|++|+.+++|+|
T Consensus         1 m~SddLiW~IIr~~~csF~vK~~~-----~~Fcrnp~NltglcsrkycgLANsKyatV~~~--~G~v~L~~Kt~erah~P   73 (233)
T PLN00040          1 MQHDEVIWQVINHNHCSFKAKIDT-----GNFCRNKYNVTGLCNRSSCPLANSRYATIREE--DGRFYLYMKTIERAHMP   73 (233)
T ss_pred             CCccchhhhhhcCcceeEEEccCC-----CcccCCCCcccccccccccccccceeeEEEEc--CCEEEEEEecccccCCc
Confidence            5899999999999999 8888764     58999999999999999999999999999996  78999999999999999


Q ss_pred             CceeeeeeecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHHHh
Q 031915           82 ASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNR  127 (150)
Q Consensus        82 ak~~~~~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai~r  127 (150)
                      +++|.+++|++|+|+++++|.+.+.  ++=.-|..-+-.|...|..
T Consensus        74 ak~w~kv~Lskn~rkalk~I~~~L~--~w~~~~ihk~KqRltkl~q  117 (233)
T PLN00040         74 NKLWEKVKLSRNYEKALEQIDKHLA--YWPKFLVHKNKQRLTKMTQ  117 (233)
T ss_pred             ccceEEEecCCCHHHHHHHHHHHHh--hCcHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999987  3666677777777777654

>KOG3064 consensus RNA-binding nuclear protein (MAK16) containing a distinct C4 Zn-finger [RNA processing and modification]

Probab=99.77  E-value=3.4e-19  Score=148.57  Aligned_cols=115  Identities=18%  Similarity=0.374  Sum_probs=101.9

Q ss_pred             CCCccchheeeecCce-eEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCCC
Q 031915            3 TVPGQLIWEIVKKNNC-FLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKP   81 (150)
Q Consensus         3 ~mS~dL~W~ivr~nns-Fl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~kP   81 (150)
                      ||||+++|++|.+++| |.+|..+     .+||++-|||||+|++..|+|||+++.+|...  +|.++|++|.+.++|-|
T Consensus         1 Mq~DeviW~vin~~~CS~k~kte~-----~~fCRNeyNvTGLCnR~SCPLANSrYATVre~--~g~~yLymKt~ERaH~P   73 (303)
T KOG3064|consen    1 MQSDEVIWQVINKSFCSYKIKTET-----QTFCRNEYNVTGLCNRSSCPLANSRYATVREE--NGVLYLYMKTIERAHMP   73 (303)
T ss_pred             CcchHHHHHHhchhhcceeeeccc-----cchhccccccceeeccccCcCccccceeEeec--CCEEEEEEechhhhcCc
Confidence            5899999999999999 9998865     58999999999999999999999999999985  89999999999999999


Q ss_pred             CceeeeeeecCChhHHHHHHHHHHHccCCCHh-HHHHHHHHHHHHHh
Q 031915           82 ASLLHKSTMRKEFPRMAKAVVNQVADNYYRPD-LKKAALARLSAVNR  127 (150)
Q Consensus        82 ak~~~~~~l~k~~R~~~k~I~~~~~~~~yR~D-L~~~Al~RaSai~r  127 (150)
                      .++|.++.|++|+-+++.+|...+-   |=|. ++.-.-.|++.|.+
T Consensus        74 ~klwErikLSkNyekALeQIde~Ll---~Wp~~~~HKcKQRltklTQ  117 (303)
T KOG3064|consen   74 RKLWERIKLSKNYEKALEQIDEQLL---YWPKYVIHKCKQRLTKLTQ  117 (303)
T ss_pred             HHHHHHHhcchhHHHHHHHHHHHHh---cchHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998876   5554 45555566666543

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

Probab=99.67  E-value=7e-17  Score=133.20  Aligned_cols=113  Identities=17%  Similarity=0.331  Sum_probs=98.4

Q ss_pred             CCccchheeeecCce-eEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCCCC
Q 031915            4 VPGQLIWEIVKKNNC-FLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPA   82 (150)
Q Consensus         4 mS~dL~W~ivr~nns-Fl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~kPa   82 (150)
                      |||+.+|+|+-.|+| |-+|..+     +.||++-||+||+|.+..|+|||+++.+|.+.  +|.++|++|.+.++|-|+
T Consensus         1 msDE~~Wqv~g~~fCS~rik~e~-----qnfCRNeyNVTGLC~RqSCPLANSrYATVr~d--ngkLyLymKtpERaH~P~   73 (303)
T COG5129           1 MSDESLWQVSGENFCSFRIKTEE-----QNFCRNEYNVTGLCDRQSCPLANSRYATVRAD--NGKLYLYMKTPERAHVPR   73 (303)
T ss_pred             CchhHHHHHccccccceeeecch-----hhhhhcccccceeeccccCcCccCcceEEEec--CCEEEEEecChhhccCcH
Confidence            799999999999999 8888755     57999999999999999999999999999984  899999999999999999


Q ss_pred             ceeeeeeecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHH
Q 031915           83 SLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAV  125 (150)
Q Consensus        83 k~~~~~~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai  125 (150)
                      ++|.++.|++|+-+++++|...+--  +-.-...-+-.|.+.|
T Consensus        74 klwerIkLSkNY~kAL~QIde~Ll~--W~~~~iHkCKQrltkL  114 (303)
T COG5129          74 KLWERIKLSKNYEKALKQIDESLLF--WDEKVIHKCKQRLTKL  114 (303)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHhc--ccHHHHHHHHHHHHHH
Confidence            9999999999999999999987652  3333444455555544

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	150
3izr_b	147	Localization Of The Large Subunit Ribosomal Protein		4e-61
4a18_O	134	T.Thermophila 60s Ribosomal Subunit In Complex With		1e-05

>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 =  229 bits (584), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 113/147 (76%), Positives = 127/147 (86%), Gaps = 1/147 (0%)
Query: 1   MATVPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQ 60
           MATVP  LIWEIVKKNNCFLVKQFG  NA V+F+KEPNNLYN++S+KHSGLAN+KTVTIQ
Sbjct: 1   MATVPEPLIWEIVKKNNCFLVKQFGNSNAKVQFTKEPNNLYNVHSYKHSGLANKKTVTIQ 60
Query: 61  PGG-KDLSVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAAL 119
           P G KD +VVL+T KTKKQN PA L HKS MRKEF +MAKAV NQV+DNYYRPDL K AL
Sbjct: 61  PSGVKDAAVVLSTTKTKKQNAPAKLYHKSVMRKEFRKMAKAVKNQVSDNYYRPDLTKPAL 120
Query: 120 ARLSAVNRSLKVSKSGVKKRNRQATKV 146
           ARLS+V RSL+VSKSG KK+NRQ TK+
Sbjct: 121 ARLSSVYRSLQVSKSGAKKKNRQPTKL 147

>pdb|4A18|O Chain O, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1 Length = 134

Iteration: 1
 Score = 45.4 bits (106), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 36/124 (29%), Positives = 63/124 (50%), Gaps = 11/124 (8%)
Query: 7   QLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKD- 65
           QL+WEIVK NN FLVK     N  V F+ +P ++   N+    G  +R  V ++ G K  
Sbjct: 3   QLVWEIVKNNNAFLVK-----NNGVAFTTDPFSVTGRNTQVGLGFTHRHGVALKGGAKQA 57
Query: 66  LSVVLATAKTKKQNKPASLLHKS-TMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSA 124
           ++  L   ++ K  K  ++  ++ T++    R+AK +  +    +    LK+ AL +L  
Sbjct: 58  IATSLRKNQSHKVKKTGTIEAETLTVKGGVQRVAKVIRGR----FQSKGLKQFALKKLVN 113
Query: 125 VNRS 128
            +R+
Sbjct: 114 FHRA 117

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	150
3iz5_B	261	60S ribosomal protein L2 (L2P); eukaryotic ribosom	9e-41
4a18_O	134	RPL28, ribosomal protein L22; ribosome, eukaryotic	3e-27

>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 = 97.9 bits (243), Expect = 3e-27
 Identities = 32/135 (23%), Positives = 59/135 (43%), Gaps = 7/135 (5%)

Query: 7   QLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDL 66
           QL+WEIVK NN FLVK  G     V F+ +P ++   N+    G  +R  V ++ G K  
Sbjct: 3   QLVWEIVKNNNAFLVKNNG-----VAFTTDPFSVTGRNTQVGLGFTHRHGVALKGGAKQ- 56

Query: 67  SVVLATAKTKKQNKPASLLHKSTMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVN 126
             +  + +  + +K                  + V   +   +    LK+ AL +L   +
Sbjct: 57  -AIATSLRKNQSHKVKKTGTIEAETLTVKGGVQRVAKVIRGRFQSKGLKQFALKKLVNFH 115

Query: 127 RSLKVSKSGVKKRNR 141
           R+   +++ +K  ++
Sbjct: 116 RANVRAQANLKAESK 130

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	150
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=9.8e-47  Score=286.59  Aligned_cols=118  Identities=31%  Similarity=0.486  Sum_probs=109.7

Q ss_pred             CCccchheeeecCceeEEeecCCCCCccccccCCCCccccccccccCcccceeeeEEeCCCCCeEEEEEeccccCCCCC-
Q 031915            4 VPGQLIWEIVKKNNCFLVKQFGRGNASVEFSKEPNNLYNLNSFKHSGLANRKTVTIQPGGKDLSVVLATAKTKKQNKPA-   82 (150)
Q Consensus         4 mS~dL~W~ivr~nnsFl~K~~~~~~~~~~FS~EP~NL~n~~S~kysGLan~Kav~V~~~~~~~gv~l~~Kk~k~~~kPa-   82 (150)
                      || ||||||||+|||||+|++|     ++||+||+||+|+|||+||||||+|+|||+++ +++|  |++|+.+.+++|+ 
T Consensus         1 MS-dL~W~ivrnnnsFLvKr~g-----~~FS~eP~NL~n~~S~kysGLan~KavgV~~~-~~gg--v~~Kk~k~~~kPa~   71 (134)
T 4a18_O            1 MS-QLVWEIVKNNNAFLVKNNG-----VAFTTDPFSVTGRNTQVGLGFTHRHGVALKGG-AKQA--IATSLRKNQSHKVK   71 (134)
T ss_dssp             CH-HHHHHHHTTTCTTEEEETT-----EEEECCTTCSSSBCSTTTCTTTSSCCEEEEEE-GGGE--EEEEEECCCCCCSS
T ss_pred             Cc-ceeehhhcCcceEEEeeCC-----ccccCCCCCccceeccccccccccceeEEEEc-CCCc--EEEecCcccCCCCc
Confidence            67 9999999999999999975     68999999999999999999999999999997 4456  8899999999999 


Q ss_pred             ---ceeeee-eecCChhHHHHHHHHHHHccCCCHhHHHHHHHHHHHHHhhcCCCCC
Q 031915           83 ---SLLHKS-TMRKEFPRMAKAVVNQVADNYYRPDLKKAALARLSAVNRSLKVSKS  134 (150)
Q Consensus        83 ---k~~~~~-~l~k~~R~~~k~I~~~~~~~~yR~DL~~~Al~RaSai~rsqk~~k~  134 (150)
                         +++.++ ++++|+|+++++|++++++  +  ||+++||+|||||++||+|+..
T Consensus        72 ~~~k~~~~~~~~~k~~Rk~~k~I~~~~~~--~--DL~~aAl~RaSailrSqk~~~~  123 (134)
T 4a18_O           72 KTGTIEAETLTVKGGVQRVAKVIRGRFQS--K--GLKQFALKKLVNFHRANVRAQA  123 (134)
T ss_dssp             CCSCSSEEEEEESSTHHHHHHHHHHHCCS--H--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccceeEEEeccccchHHHHHHHHHHHhh--c--hHHHHHHHHHHHHHHhcCcccc
Confidence               999999 9999999999999999987  3  9999999999999999998643

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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