Citrus Sinensis ID: 039578

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-----
Protein Sequence
MVKFLKPNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEERFKTGKNCWFFTKLGF
Secondary Structure (PSIPRED)
ccccccccEEEEEEccEEcccEEEEEEEcEEEEEEEccccccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHHHcccccEEEEEcccc
Secondary Structure Prediction (SSPRO)
ccEEEccccEEEEEEccccccEEEEEEEccEEEEEEcccccccEEEEEEcccccccHHHcccHHHHHHHHHHHHHHHHHHHHcccccEEEEEccc
Coil and Loop (DISEMBL)
mvkflkpnkVVILLQGRYAGRKVVISRVEAFVKLVNyqhlmptrytLNIDLKEVltadslqskdkkVTACKETKKRLEERFktgkncwfftklgf
Flexible Loop (DISEMBL)
mvkflkpnkvvillqgryagrkvVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVltadslqskdkkvtacketkkrleerfktgkncwfftklgf
Low Complexity Region (SEG)
MVKFLKPNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEERFKTGKNCWFFTKLGF
Disordered region (IsUnstruct)
***FLKPNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTAD********************ERFKTGKNCWFFTKL**
Disordered Region (DISOPRED)
**K***PNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDK*VT*CKETKKRLEERFKTGKNCWFFTKLGF
Disordered Region (DISEMBL)
MVKFLKPNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEERFKTGKNCWFFTKLGF
Disordered Region (DISPRO)
*VKFLKPNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEERFKTGKNCWFFTKLGF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MVKFLKPNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSxxxxxxxxxxxxxxxxxxxxxFKTGKNCWFFTKLGF
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	95	2.2.26 [Sep-21-2011]
Q05462	135	60S ribosomal protein L27	N/A	no	1.0	0.703	0.585	4e-34
Q8LCL3	135	60S ribosomal protein L27	yes	no	1.0	0.703	0.562	3e-32
P51419	135	60S ribosomal protein L27	yes	no	1.0	0.703	0.562	4e-32
Q9SKX8	135	60S ribosomal protein L27	no	no	1.0	0.703	0.496	2e-28
P41101	138	60S ribosomal protein L27	N/A	no	0.989	0.681	0.517	2e-27
Q02984	134	60S ribosomal protein L27	N/A	no	0.989	0.701	0.444	6e-21
O14388	136	60S ribosomal protein L27	yes	no	1.0	0.698	0.382	3e-19
P61359	136	60S ribosomal protein L27	N/A	no	1.0	0.698	0.404	1e-18
Q7ZV82	136	60S ribosomal protein L27	yes	no	1.0	0.698	0.404	1e-18
Q90YU1	136	60S ribosomal protein L27	N/A	no	1.0	0.698	0.397	2e-18

>sp|Q05462|RL27_PEA 60S ribosomal protein L27 OS=Pisum sativum GN=RPL27 PE=2 SV=1

 Score =  142 bits (359), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 79/135 (58%), Positives = 85/135 (62%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VILLQGRYAG+K VI                                   
Sbjct: 1   MVKFLKPNKAVILLQGRYAGKKAVIVKTFDDGTREKPYGHCLVAGIKKFPSKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNYQHLMPTRYTL++DLK+ +  D LQSKDKKVTA KETKK LEER
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVVPDVLQSKDKKVTALKETKKSLEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Pisum sativum (taxid: 3888)

>sp|Q8LCL3|RL272_ARATH 60S ribosomal protein L27-2 OS=Arabidopsis thaliana GN=RPL27B PE=2 SV=2

 Score =  136 bits (343), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 76/135 (56%), Positives = 84/135 (62%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLK NK VILLQGRYAG+K VI                                   
Sbjct: 1   MVKFLKQNKAVILLQGRYAGKKAVIIKSFDDGTSDRRYGHCLVAGLKKYPSKVIRKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+ F+KLVNYQHLMPTRYTL++DLKEV T D+L+SKDKKVTA KE K +LEER
Sbjct: 61  KTAKKSRVKCFIKLVNYQHLMPTRYTLDVDLKEVATLDALKSKDKKVTALKEAKAKLEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Arabidopsis thaliana (taxid: 3702)

>sp|P51419|RL273_ARATH 60S ribosomal protein L27-3 OS=Arabidopsis thaliana GN=RPL27C PE=2 SV=2

 Score =  136 bits (343), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 76/135 (56%), Positives = 83/135 (61%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLK NK VILLQGRYAG+K VI                                   
Sbjct: 1   MVKFLKQNKAVILLQGRYAGKKAVIIKSFDDGNRDRPYGHCLVAGLKKYPSKVIRKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+ F+KLVNYQHLMPTRYTL++DLKEV T D+LQSKDKKV A KE K +LEER
Sbjct: 61  KTAKKSRVKCFIKLVNYQHLMPTRYTLDVDLKEVATLDALQSKDKKVAALKEAKAKLEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SKX8|RL271_ARATH 60S ribosomal protein L27-1 OS=Arabidopsis thaliana GN=RPL27A PE=2 SV=1

 Score =  124 bits (310), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 67/135 (49%), Positives = 80/135 (59%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVK +KP K VILLQGRY G+K VI                                   
Sbjct: 1   MVKCMKPGKAVILLQGRYTGKKAVIVKSFDDGTVEKKYGHCLVAGLKKYPSKVIRKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+ F K++NYQH+MPTRYTL++DLK V++AD++ SKDKKVTA KE K + EER
Sbjct: 61  KTAKKSRVKCFFKVINYQHVMPTRYTLDLDLKNVVSADAISSKDKKVTALKEAKAKFEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Arabidopsis thaliana (taxid: 3702)

>sp|P41101|RL27_SOLTU 60S ribosomal protein L27 OS=Solanum tuberosum GN=RPL27 PE=2 SV=1

 Score =  121 bits (303), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 72/139 (51%), Positives = 82/139 (58%), Gaps = 45/139 (32%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M KFLKPNK VILLQG+YAGRK VI                                   
Sbjct: 1   MEKFLKPNKAVILLQGKYAGRKAVIVRAFDEGTRDRPYGHCLVAGISRYPKKVIRKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDL----KEVLTADSLQSKDKKVTACKETKKR 76
                SRV+AF+KLVNY H+MPTRYTL+ DL    K+V+ AD LQ++DKKVTA + TK R
Sbjct: 61  KAGKKSRVKAFIKLVNYNHIMPTRYTLDEDLKDVVKDVVNADVLQARDKKVTA-RRTKAR 119

Query: 77  LEERFKTGKNCWFFTKLGF 95
           L ERFKTGKN WFFTKL F
Sbjct: 120 LAERFKTGKNRWFFTKLRF 138

Solanum tuberosum (taxid: 4113)

>sp|Q02984|RL27_PYRST 60S ribosomal protein L27 OS=Pyrobotrys stellata GN=RPL27 PE=2 SV=1

 Score = 99.4 bits (246), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 60/135 (44%), Positives = 74/135 (54%), Gaps = 41/135 (30%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVISR--------------------------------- 27
           MVKFLK  KVV++L GR+AG+K VI R                                 
Sbjct: 1   MVKFLKSGKVVVVLSGRFAGKKAVIVRNFDDGTSSRPYGHALVVGLQKEPRKVTKRQSQK 60

Query: 28  -------VEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                  ++ F+K VNY HLMPTRYTL++D K V  A++ ++  KKV A KE KK LEE+
Sbjct: 61  KQAKKSTLKTFIKTVNYNHLMPTRYTLDVDFKGV-AAEAQENPTKKVEARKECKKLLEEK 119

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 120 FKTGKNRWFFTKLRF 134

Pyrobotrys stellata (taxid: 3064)

>sp|O14388|RL27A_SCHPO 60S ribosomal protein L27-A OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpl27a PE=2 SV=2

 Score = 93.6 bits (231), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 52/136 (38%), Positives = 72/136 (52%), Gaps = 41/136 (30%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVK LKP KV ++ +GR+AG+KVVI                                   
Sbjct: 1   MVKILKPGKVALITRGRFAGKKVVILQAIDQGSKSHPFGHAVVAGVERYPLKVTKSMGAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNID-LKEVLTADSLQSKDKKVTACKETKKRLEE 79
                SRV+ F+K+VNY HLMPTRY L +D LK ++TAD+ +   ++  A K  KK  EE
Sbjct: 61  RIARRSRVKPFIKVVNYNHLMPTRYALELDNLKGLITADTFKEPTQRSAARKTVKKTFEE 120

Query: 80  RFKTGKNCWFFTKLGF 95
           ++++GK+ WFFT L F
Sbjct: 121 KYQSGKSAWFFTPLRF 136

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

>sp|P61359|RL27_HIPCM 60S ribosomal protein L27 OS=Hippocampus comes GN=rpl27 PE=2 SV=2

 Score = 92.0 bits (227), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 55/136 (40%), Positives = 70/136 (51%), Gaps = 41/136 (30%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M KF+KP KVV++L GRYAGRK VI                                   
Sbjct: 1   MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTADRPYSHALVAGIDRYPRKVTAPMGKK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKRLEE 79
                S+++AFVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K + EE
Sbjct: 61  KIAKRSKIKAFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKSKARREAKVKFEE 120

Query: 80  RFKTGKNCWFFTKLGF 95
           R+KTGKN WFF KL F
Sbjct: 121 RYKTGKNKWFFQKLRF 136

Hippocampus comes (taxid: 109280)

>sp|Q7ZV82|RL27_DANRE 60S ribosomal protein L27 OS=Danio rerio GN=rpl27 PE=2 SV=3

 Score = 91.3 bits (225), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 55/136 (40%), Positives = 70/136 (51%), Gaps = 41/136 (30%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M KF+KP KVV++L GRYAGRK VI                                   
Sbjct: 1   MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTADRPYSHALVAGIDRYPRKVTATMGKK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKRLEE 79
                S+++AFVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K + EE
Sbjct: 61  KIAKRSKIKAFVKVFNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVKFEE 120

Query: 80  RFKTGKNCWFFTKLGF 95
           R+KTGKN WFF KL F
Sbjct: 121 RYKTGKNKWFFQKLRF 136

Danio rerio (taxid: 7955)

>sp|Q90YU1|RL27_ICTPU 60S ribosomal protein L27 OS=Ictalurus punctatus GN=rpl27 PE=2 SV=3

 Score = 90.9 bits (224), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 54/136 (39%), Positives = 70/136 (51%), Gaps = 41/136 (30%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M KF+KP KVV++L GRYAGRK VI                                   
Sbjct: 1   MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTADRPYSHALVSGIDRYPRKVTATMGKK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKRLEE 79
                S+++AFVK+ NY HLMPTRY+++I L K ++  D  +    K  A +E K + EE
Sbjct: 61  KVAKRSKIKAFVKVFNYNHLMPTRYSVDIPLDKTIVNKDVFRDPALKRKARREAKVKFEE 120

Query: 80  RFKTGKNCWFFTKLGF 95
           R+KTGKN WFF KL F
Sbjct: 121 RYKTGKNKWFFQKLRF 136

Ictalurus punctatus (taxid: 7998)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	95
388512233	135	unknown [Lotus japonicus] gi|388515363|g	1.0	0.703	0.607	5e-35
449460010	135	PREDICTED: 60S ribosomal protein L27-lik	1.0	0.703	0.6	3e-34
449460012	135	PREDICTED: 60S ribosomal protein L27-lik	1.0	0.703	0.592	3e-34
217075660	135	unknown [Medicago truncatula]	1.0	0.703	0.6	7e-34
357445373	135	60S ribosomal protein L27 [Medicago trun	1.0	0.703	0.592	2e-33
388519707	135	unknown [Medicago truncatula]	1.0	0.703	0.592	3e-33
356556157	135	PREDICTED: 60S ribosomal protein L27-lik	1.0	0.703	0.585	5e-33
357449233	209	60S ribosomal protein L27 [Medicago trun	0.978	0.444	0.593	5e-33
224139584	135	predicted protein [Populus trichocarpa]	1.0	0.703	0.570	6e-33
351721371	135	uncharacterized protein LOC100527246 [Gl	1.0	0.703	0.585	1e-32

>gi|388512233|gb|AFK44178.1| unknown [Lotus japonicus] gi|388515363|gb|AFK45743.1| unknown [Lotus japonicus]

 Score =  151 bits (382), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 82/135 (60%), Positives = 88/135 (65%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAGRK VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGRKAVIVRTFDEGTRDRAYGHCLVAGIKKYPSKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNYQHLMPTRYTL++DLK+V+  DSLQSKDKKV A KETKKRLEER
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDVVVPDSLQSKDKKVAALKETKKRLEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKLGF
Sbjct: 121 FKTGKNRWFFTKLGF 135

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460010|ref|XP_004147739.1| PREDICTED: 60S ribosomal protein L27-like [Cucumis sativus] gi|449519547|ref|XP_004166796.1| PREDICTED: 60S ribosomal protein L27-like [Cucumis sativus]

 Score =  149 bits (375), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 81/135 (60%), Positives = 88/135 (65%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAGRK VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGRKAVIVRAFDDGTRDRAYGHCLVAGIKKYPAKVIRKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNY+HLMPTRYTL++DLK+V+T DSLQSKDKKVTA KETKKR EER
Sbjct: 61  KTAKKSRVKAFVKLVNYRHLMPTRYTLDVDLKDVVTIDSLQSKDKKVTAAKETKKRFEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460012|ref|XP_004147740.1| PREDICTED: 60S ribosomal protein L27-like [Cucumis sativus] gi|449519545|ref|XP_004166795.1| PREDICTED: 60S ribosomal protein L27-like [Cucumis sativus]

 Score =  149 bits (375), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 80/135 (59%), Positives = 88/135 (65%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAGRK VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGRKAVIIRAFDDGTRDRAYGHCLVAGIKKYPAKVIRKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AF+KLVNY+HLMPTRYTL++DLK+V+T DSLQSKDKKVTA KETKKR EER
Sbjct: 61  KTAKKSRVKAFIKLVNYRHLMPTRYTLDVDLKDVVTVDSLQSKDKKVTAAKETKKRFEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217075660|gb|ACJ86190.1| unknown [Medicago truncatula]

 Score =  147 bits (371), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 81/135 (60%), Positives = 86/135 (63%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAG+K VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRDRAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRVEAFVKLVNYQHLMPTRYTL++DLKEV+T D LQSKDKKVTA KE KKR EER
Sbjct: 61  KTAKKSRVEAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445373|ref|XP_003592964.1| 60S ribosomal protein L27 [Medicago truncatula] gi|357445451|ref|XP_003593003.1| 60S ribosomal protein L27 [Medicago truncatula] gi|217071440|gb|ACJ84080.1| unknown [Medicago truncatula] gi|355482012|gb|AES63215.1| 60S ribosomal protein L27 [Medicago truncatula] gi|355482051|gb|AES63254.1| 60S ribosomal protein L27 [Medicago truncatula] gi|388490800|gb|AFK33466.1| unknown [Medicago truncatula]

 Score =  145 bits (367), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 80/135 (59%), Positives = 86/135 (63%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAG+K VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRERAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNYQHLMPTRYTL++DLKEV+T D LQSKDKKVTA KE KKR EER
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388519707|gb|AFK47915.1| unknown [Medicago truncatula]

 Score =  145 bits (367), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 80/135 (59%), Positives = 86/135 (63%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAG+K VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRDRAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNYQHLMPTRYTL++DLKEV+T D LQSKDKKVTA KE KKR EER
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356556157|ref|XP_003546393.1| PREDICTED: 60S ribosomal protein L27-like [Glycine max]

 Score =  144 bits (364), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 79/135 (58%), Positives = 87/135 (64%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAG+K VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVRTFDEGTRERPYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNYQHLMPTRYTL++DLK+ +T D LQ+KDKKVTA KETKKRLEER
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVTPDVLQAKDKKVTALKETKKRLEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357449233|ref|XP_003594893.1| 60S ribosomal protein L27 [Medicago truncatula] gi|355483941|gb|AES65144.1| 60S ribosomal protein L27 [Medicago truncatula]

 Score =  144 bits (364), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 79/133 (59%), Positives = 85/133 (63%), Gaps = 40/133 (30%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAG+K VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRDRAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNYQHLMPTRYTL++DLKEV+T D LQSKDKKVTA KE KKR EER
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 81  FKTGKNCWFFTKL 93
           FKTGKN WFFTKL
Sbjct: 121 FKTGKNRWFFTKL 133

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139584|ref|XP_002323180.1| predicted protein [Populus trichocarpa] gi|118483861|gb|ABK93821.1| unknown [Populus trichocarpa] gi|222867810|gb|EEF04941.1| predicted protein [Populus trichocarpa]

 Score =  144 bits (364), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 77/135 (57%), Positives = 86/135 (63%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAGRK VI                                   
Sbjct: 1   MVKFLKPNKAVIILQGRYAGRKAVIVKHFDDGTRDRPYGHCLVAGIKKYPSKVIKKDSTK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+ F+KLVNYQHLMPTRYTL++DLK+ +TADSL +KDKKVTACK+TK R EER
Sbjct: 61  KTAKKSRVKCFIKLVNYQHLMPTRYTLDVDLKDAVTADSLTTKDKKVTACKDTKARFEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721371|ref|NP_001236951.1| uncharacterized protein LOC100527246 [Glycine max] gi|255631870|gb|ACU16302.1| unknown [Glycine max]

 Score =  144 bits (362), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 79/135 (58%), Positives = 86/135 (63%), Gaps = 40/135 (29%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKPNK VI+LQGRYAGRK VI                                   
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGRKAVIVRTFDEGTRERPYGHCLVAGIKKYPSKVIKKDSAK 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                SRV+AFVKLVNYQHLMPTRYTL++DLK+ +T D L +KDKKVTA KETKKRLEER
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVTPDVLATKDKKVTALKETKKRLEER 120

Query: 81  FKTGKNCWFFTKLGF 95
           FKTGKN WFFTKL F
Sbjct: 121 FKTGKNRWFFTKLRF 135

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	95
TAIR|locus:2090434	135	AT3G22230 [Arabidopsis thalian	0.905	0.637	0.662	4e-26
TAIR|locus:2129575	135	AT4G15000 [Arabidopsis thalian	0.905	0.637	0.662	5.2e-26
TAIR|locus:2045467	135	AT2G32220 [Arabidopsis thalian	0.905	0.637	0.595	6.8e-24
ZFIN|ZDB-GENE-030131-4343	136	rpl27 "ribosomal protein L27"	0.8	0.558	0.493	1.4e-22
UNIPROTKB|P61355	136	RPL27 "60S ribosomal protein L	0.8	0.558	0.481	4.7e-22
UNIPROTKB|P61356	136	RPL27 "60S ribosomal protein L	0.8	0.558	0.481	4.7e-22
UNIPROTKB|F2Z4N3	136	RPL27 "60S ribosomal protein L	0.8	0.558	0.481	4.7e-22
UNIPROTKB|P61353	136	RPL27 "60S ribosomal protein L	0.8	0.558	0.481	4.7e-22
UNIPROTKB|A1XQU5	136	RPL27 "60S ribosomal protein L	0.8	0.558	0.481	4.7e-22
UNIPROTKB|I3LIX1	135	RPL27 "60S ribosomal protein L	0.8	0.562	0.481	4.7e-22

TAIR|locus:2090434 AT3G22230 [Arabidopsis thaliana (taxid:3702)]

 Score = 295 (108.9 bits), Expect = 4.0e-26, P = 4.0e-26
 Identities = 59/89 (66%), Positives = 70/89 (78%)

Query:     7 PNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKK 66
             P+KV+     +   +K   SRV+ F+KLVNYQHLMPTRYTL++DLKEV T D+L+SKDKK
Sbjct:    50 PSKVIRKDSAKKTAKK---SRVKCFIKLVNYQHLMPTRYTLDVDLKEVATLDALKSKDKK 106

Query:    67 VTACKETKKRLEERFKTGKNCWFFTKLGF 95
             VTA KE K +LEERFKTGKN WFFTKL F
Sbjct:   107 VTALKEAKAKLEERFKTGKNRWFFTKLRF 135

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

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0022626 "cytosolic ribosome" evidence=IDA

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

GO:0005829 "cytosol" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=RCA

TAIR|locus:2129575 AT4G15000 [Arabidopsis thaliana (taxid:3702)]

 Score = 294 (108.6 bits), Expect = 5.2e-26, P = 5.2e-26
 Identities = 59/89 (66%), Positives = 69/89 (77%)

Query:     7 PNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKK 66
             P+KV+     +   +K   SRV+ F+KLVNYQHLMPTRYTL++DLKEV T D+LQSKDKK
Sbjct:    50 PSKVIRKDSAKKTAKK---SRVKCFIKLVNYQHLMPTRYTLDVDLKEVATLDALQSKDKK 106

Query:    67 VTACKETKKRLEERFKTGKNCWFFTKLGF 95
             V A KE K +LEERFKTGKN WFFTKL F
Sbjct:   107 VAALKEAKAKLEERFKTGKNRWFFTKLRF 135

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

GO:0005622 "intracellular" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0022626 "cytosolic ribosome" evidence=IDA

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

GO:0005829 "cytosol" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

TAIR|locus:2045467 AT2G32220 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 6.8e-24, P = 6.8e-24
 Identities = 53/89 (59%), Positives = 68/89 (76%)

Query:     7 PNKVVILLQGRYAGRKVVISRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKK 66
             P+KV+     +   +K   SRV+ F K++NYQH+MPTRYTL++DLK V++AD++ SKDKK
Sbjct:    50 PSKVIRKDSAKKTAKK---SRVKCFFKVINYQHVMPTRYTLDLDLKNVVSADAISSKDKK 106

Query:    67 VTACKETKKRLEERFKTGKNCWFFTKLGF 95
             VTA KE K + EERFKTGKN WFFTKL F
Sbjct:   107 VTALKEAKAKFEERFKTGKNRWFFTKLRF 135

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

GO:0005622 "intracellular" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0016020 "membrane" evidence=IDA

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

GO:0001510 "RNA methylation" evidence=RCA

ZFIN|ZDB-GENE-030131-4343 rpl27 "ribosomal protein L27" [Danio rerio (taxid:7955)]

 Score = 185 (70.2 bits), Expect = 1.4e-22, Sum P(2) = 1.4e-22
 Identities = 39/79 (49%), Positives = 53/79 (67%)

Query:    20 GRKVVI--SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKR 76
             G+K +   S+++AFVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K +
Sbjct:    58 GKKKIAKRSKIKAFVKVFNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVK 117

Query:    77 LEERFKTGKNCWFFTKLGF 95
              EER+KTGKN WFF KL F
Sbjct:   118 FEERYKTGKNKWFFQKLRF 136

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|P61355 RPL27 "60S ribosomal protein L27" [Gallus gallus (taxid:9031)]

 Score = 182 (69.1 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 38/79 (48%), Positives = 53/79 (67%)

Query:    20 GRKVVI--SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKR 76
             G+K +   S++++FVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K +
Sbjct:    58 GKKKIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVK 117

Query:    77 LEERFKTGKNCWFFTKLGF 95
              EER+KTGKN WFF KL F
Sbjct:   118 FEERYKTGKNKWFFQKLRF 136

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

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P61356 RPL27 "60S ribosomal protein L27" [Bos taurus (taxid:9913)]

 Score = 182 (69.1 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 38/79 (48%), Positives = 53/79 (67%)

Query:    20 GRKVVI--SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKR 76
             G+K +   S++++FVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K +
Sbjct:    58 GKKKIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVK 117

Query:    77 LEERFKTGKNCWFFTKLGF 95
              EER+KTGKN WFF KL F
Sbjct:   118 FEERYKTGKNKWFFQKLRF 136

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

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|F2Z4N3 RPL27 "60S ribosomal protein L27" [Canis lupus familiaris (taxid:9615)]

 Score = 182 (69.1 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 38/79 (48%), Positives = 53/79 (67%)

Query:    20 GRKVVI--SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKR 76
             G+K +   S++++FVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K +
Sbjct:    58 GKKKIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVK 117

Query:    77 LEERFKTGKNCWFFTKLGF 95
              EER+KTGKN WFF KL F
Sbjct:   118 FEERYKTGKNKWFFQKLRF 136

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P61353 RPL27 "60S ribosomal protein L27" [Homo sapiens (taxid:9606)]

 Score = 182 (69.1 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 38/79 (48%), Positives = 53/79 (67%)

Query:    20 GRKVVI--SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKR 76
             G+K +   S++++FVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K +
Sbjct:    58 GKKKIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVK 117

Query:    77 LEERFKTGKNCWFFTKLGF 95
              EER+KTGKN WFF KL F
Sbjct:   118 FEERYKTGKNKWFFQKLRF 136

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

GO:0005840 "ribosome" evidence=TAS

GO:0006412 "translation" evidence=NAS;TAS

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

GO:0030529 "ribonucleoprotein complex" evidence=IDA

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

GO:0005829 "cytosol" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006414 "translational elongation" evidence=TAS

GO:0006415 "translational termination" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0019058 "viral infectious cycle" evidence=TAS

GO:0019083 "viral transcription" evidence=TAS

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

UNIPROTKB|A1XQU5 RPL27 "60S ribosomal protein L27" [Sus scrofa (taxid:9823)]

 Score = 182 (69.1 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 38/79 (48%), Positives = 53/79 (67%)

Query:    20 GRKVVI--SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKR 76
             G+K +   S++++FVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K +
Sbjct:    58 GKKKIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVK 117

Query:    77 LEERFKTGKNCWFFTKLGF 95
              EER+KTGKN WFF KL F
Sbjct:   118 FEERYKTGKNKWFFQKLRF 136

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

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|I3LIX1 RPL27 "60S ribosomal protein L27" [Sus scrofa (taxid:9823)]

 Score = 182 (69.1 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 38/79 (48%), Positives = 53/79 (67%)

Query:    20 GRKVVI--SRVEAFVKLVNYQHLMPTRYTLNIDL-KEVLTADSLQSKDKKVTACKETKKR 76
             G+K +   S++++FVK+ NY HLMPTRY+++I L K V+  D  +    K  A +E K +
Sbjct:    57 GKKKIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVK 116

Query:    77 LEERFKTGKNCWFFTKLGF 95
              EER+KTGKN WFF KL F
Sbjct:   117 FEERYKTGKNKWFFQKLRF 135

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

GO:0006412 "translation" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P51419	RL273_ARATH	No assigned EC number	0.5629	1.0	0.7037	yes	no
Q8LCL3	RL272_ARATH	No assigned EC number	0.5629	1.0	0.7037	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:
	estExt_fgenesh4_pg.C_LG_XVI0119	RecName- Full=60S ribosomal protein L27; (135 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	eugene3.00190574	SubName- Full=Putative uncharacterized protein; (132 aa)				•		•			0.573
	estExt_Genewise1_v1.C_LG_XIII3119	SubName- Full=Putative uncharacterized protein; (131 aa)				•		•			0.572
	eugene3.00011799	RecName- Full=60S ribosomal protein L6; (232 aa)				•	•	•			0.568
	estExt_fgenesh4_kg.C_LG_XVII0009	SubName- Full=Putative uncharacterized protein; (144 aa)				•		•			0.563
	eugene3.00041113	hypothetical protein (144 aa)				•		•			0.560
	estExt_fgenesh4_pg.C_LG_IX0938	RecName- Full=60S ribosomal protein L6; (232 aa)				•	•	•			0.546
	estExt_fgenesh4_pm.C_LG_XVII0043	SubName- Full=Putative uncharacterized protein; (206 aa)				•	•	•			0.544
	eugene3.00002480	SubName- Full=Putative uncharacterized protein; (206 aa)				•	•	•			0.544
	estExt_fgenesh4_pm.C_LG_IX0111	SubName- Full=Putative uncharacterized protein; (113 aa)				•	•	•			0.510
	gw1.I.3503.1	annotation not avaliable (201 aa)				•	•	•			0.506

---

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	95
pfam01777	85	pfam01777, Ribosomal_L27e, Ribosomal L27e protein	3e-25
PTZ00471	134	PTZ00471, PTZ00471, 60S ribosomal protein L27; Pro	3e-19
cd06090	83	cd06090, KOW_RPL27, KOW motif of eukaryotic Riboso	3e-13
COG2163	125	COG2163, RPL14A, Ribosomal protein L14E/L6E/L27E [	0.001

>gnl|CDD|201966 pfam01777, Ribosomal_L27e, Ribosomal L27e protein family

 Score = 89.2 bits (222), Expect = 3e-25
 Identities = 43/71 (60%), Positives = 55/71 (77%), Gaps = 1/71 (1%)

Query: 26 SRVEAFVKLVNYQHLMPTRYTL-NIDLKEVLTADSLQSKDKKVTACKETKKRLEERFKTG 84
          S+V+ FVK+VNY HLMPTRYT+   DLK+V++ D+L+   K+  A KE KK+ EER+KTG
Sbjct: 15 SKVKPFVKVVNYNHLMPTRYTVDVEDLKKVVSKDALKDPSKRKEARKEVKKKFEERYKTG 74

Query: 85 KNCWFFTKLGF 95
          KN WFFTKL F
Sbjct: 75 KNRWFFTKLRF 85

The N-terminal region of the eukaryotic ribosomal L27 has the KOW motif. C-terminal region is represented by this family. Length = 85

>gnl|CDD|240428 PTZ00471, PTZ00471, 60S ribosomal protein L27; Provisional

 Score = 76.0 bits (187), Expect = 3e-19
 Identities = 42/135 (31%), Positives = 62/135 (45%), Gaps = 41/135 (30%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M KFLKP KVVI+  GRYAGRK VI                                   
Sbjct: 1   MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKR 60

Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEER 80
                S+V  F+++VN++H +PTRY +++  KE+    ++    KK  + +  KK  + R
Sbjct: 61  TIARRSQVGVFLRVVNHKHFLPTRYNMDMS-KELRGRINVSDASKKARSKQLVKKLFQAR 119

Query: 81  FKTGKNCWFFTKLGF 95
           +  G + WFF +L F
Sbjct: 120 YNAGSSRWFFQRLRF 134

Length = 134

>gnl|CDD|240514 cd06090, KOW_RPL27, KOW motif of eukaryotic Ribosomal Protein L27

 Score = 59.1 bits (144), Expect = 3e-13
 Identities = 30/83 (36%), Positives = 38/83 (45%), Gaps = 40/83 (48%)

Query: 6  KPNKVVILLQGRYAGRKVVI---------------------------------------- 25
          KP KVVI+L GRYAG+K VI                                        
Sbjct: 1  KPGKVVIVLSGRYAGKKAVIVKNNDEGTKDRPYGHALVAGIDRYPRKVTKKMSKKKIAKR 60

Query: 26 SRVEAFVKLVNYQHLMPTRYTLN 48
          S+V+ FVK+VNY HLMPTRY+++
Sbjct: 61 SKVKPFVKVVNYNHLMPTRYSVD 83

RPL27e has a KOW motif at its N terminal. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. . Length = 83

>gnl|CDD|225074 COG2163, RPL14A, Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]

 Score = 35.5 bits (82), Expect = 0.001
 Identities = 24/125 (19%), Positives = 36/125 (28%), Gaps = 40/125 (32%)

Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M   L+  +VV++  GR+AG+KVVI                                   
Sbjct: 1   MRASLEVGRVVVVTAGRFAGKKVVIVKIIDDNFVLITGPKKVKGVPRRRINIKHLEPTDK 60

Query: 26  ----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEERF 81
                R  +  K+            L+   K  L    ++         K  K   EER 
Sbjct: 61  VIDLVRGASDEKVKKANEAAGVLAKLDKSAK-NLETKKVREPLTDAERFKVMKLVKEERL 119

Query: 82  KTGKN 86
           + GK 
Sbjct: 120 QVGKA 124

Length = 125

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	95
PTZ00471	134	60S ribosomal protein L27; Provisional	100.0
KOG3418	136	consensus 60S ribosomal protein L27 [Translation,	100.0
PF01777	85	Ribosomal_L27e: Ribosomal L27e protein family; Int	99.98
COG2163	125	RPL14A Ribosomal protein L14E/L6E/L27E [Translatio	99.49
PRK04333	84	50S ribosomal protein L14e; Validated	98.76
PTZ00065	130	60S ribosomal protein L14; Provisional	98.55
PF00467	32	KOW: KOW motif; InterPro: IPR005824 Ribosomes are	95.64
PF01159	108	Ribosomal_L6e: Ribosomal protein L6e ; InterPro: I	95.52
smart00739	28	KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i	95.41
KOG3421	136	consensus 60S ribosomal protein L14 [Translation,	91.68
CHL00141	83	rpl24 ribosomal protein L24; Validated	87.88
PRK01191	120	rpl24p 50S ribosomal protein L24P; Validated	86.97
PRK12281	76	rplX 50S ribosomal protein L24; Reviewed	84.19
PRK00004	105	rplX 50S ribosomal protein L24; Reviewed	80.53

>PTZ00471 60S ribosomal protein L27; Provisional

Probab=100.00  E-value=1.8e-49  Score=285.07  Aligned_cols=94  Identities=45%  Similarity=0.812  Sum_probs=92.9

Q ss_pred             CcccccCCEEEEEecccccCceEEE----------------------------------------eeeccceEEeeccce
Q 039578            1 MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------------SRVEAFVKLVNYQHL   40 (95)
Q Consensus         1 m~k~~kpg~VvivL~GryaGkKaVi----------------------------------------~kik~F~k~~N~~Hl   40 (95)
                      |||||+||+|||||+||||||||||                                        |+|+||+|++|||||
T Consensus         1 M~K~~kpgkVVivL~GR~AGkKaVivk~~ddgt~drpy~halVaGIdryP~kVtk~M~kkki~KRskiK~FvK~vNynHl   80 (134)
T PTZ00471          1 MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKRTIARRSQVGVFLRVVNHKHF   80 (134)
T ss_pred             CCccccCCEEEEEEccccCCcEEEEEeecCCCCccCcCceEEEEeecccchhhhhhccHHHHHHHhccccceEEEeecee
Confidence            9999999999999999999999999                                        889999999999999


Q ss_pred             eeeceeeecccccccccccccChhHHHHHHHHHHHHHHHHhcCCCceEEeeecCC
Q 039578           41 MPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRLEERFKTGKNCWFFTKLGF   95 (95)
Q Consensus        41 ~pTry~vdi~~k~~v~~~~~k~~~~k~~a~k~~k~~feeryk~gKnkwfF~KLrF   95 (95)
                      |||||++|++ ++++|+|.++||++|++|+++++..|||+|++|||+|||+||||
T Consensus        81 mPTRY~vdi~-~~~v~~~~~~d~~~k~~ar~~~k~~feer~k~gKn~wFF~kLrF  134 (134)
T PTZ00471         81 LPTRYNMDMS-KELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQRLRF  134 (134)
T ss_pred             cccceeeecc-ccccCHHHhhChHHHHHHHHHHHHHHHHHHhcCccceeeeeccC
Confidence            9999999999 89999999999999999999999999999999999999999998

>KOG3418 consensus 60S ribosomal protein L27 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.8e-43  Score=254.21  Aligned_cols=95  Identities=61%  Similarity=1.006  Sum_probs=93.6

Q ss_pred             CcccccCCEEEEEecccccCceEEE----------------------------------------eeeccceEEeeccce
Q 039578            1 MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------------SRVEAFVKLVNYQHL   40 (95)
Q Consensus         1 m~k~~kpg~VvivL~GryaGkKaVi----------------------------------------~kik~F~k~~N~~Hl   40 (95)
                      |+|||+||+||++|+||||||||||                                        |+++||+|++|||||
T Consensus         1 m~kflkPgkvv~v~sG~yAg~KaVivk~~Ddg~~d~p~~h~LvAgi~ryP~kvt~~~gkkk~~krsk~k~flKv~ny~hl   80 (136)
T KOG3418|consen    1 MAKFLKPGKVVLVLSGRYAGKKAVIVKNIDDGTEDKPYGHALVAGVDRYPRKVTKSMGKKKLAKRSKVKPFLKVINYNHL   80 (136)
T ss_pred             CcccccCCcEEEeecccccCccEEEEeecccCCccCCCceeeeeehhhccccccccccchhhhhcccceeEEEEeecccc
Confidence            8999999999999999999999999                                        889999999999999


Q ss_pred             eeeceeeecc-cccccccccccChhHHHHHHHHHHHHHHHHhcCCCceEEeeecCC
Q 039578           41 MPTRYTLNID-LKEVLTADSLQSKDKKVTACKETKKRLEERFKTGKNCWFFTKLGF   95 (95)
Q Consensus        41 ~pTry~vdi~-~k~~v~~~~~k~~~~k~~a~k~~k~~feeryk~gKnkwfF~KLrF   95 (95)
                      |||||++|++ +++++++|+++||++|..|+++++..|||+|++|+|+|||++|||
T Consensus        81 MptRy~vdv~~~k~v~~kdv~~~p~~K~~a~~~~k~kfeer~k~gkn~wff~~lrf  136 (136)
T KOG3418|consen   81 MPTRYTVDVLALKTVINKDVFRDPVKKGTAIKEAKVKFEERYKTGKNKWFFTKLRF  136 (136)
T ss_pred             cCcceEEeehhhhccccHHhhhChhhhhhhhhHHHHHHHHHHHhCccccccccccC
Confidence            9999999999 689999999999999999999999999999999999999999998

>PF01777 Ribosomal_L27e: Ribosomal L27e protein family; InterPro: IPR001141 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.98  E-value=9.3e-36  Score=199.77  Aligned_cols=70  Identities=56%  Similarity=0.945  Sum_probs=61.4

Q ss_pred             eeeccceEEeeccceeeeceeeecc-cccccccccccChhHHHHHHHHHHHHHHHHhcCCCceEEeeecCC
Q 039578           26 SRVEAFVKLVNYQHLMPTRYTLNID-LKEVLTADSLQSKDKKVTACKETKKRLEERFKTGKNCWFFTKLGF   95 (95)
Q Consensus        26 ~kik~F~k~~N~~Hl~pTry~vdi~-~k~~v~~~~~k~~~~k~~a~k~~k~~feeryk~gKnkwfF~KLrF   95 (95)
                      |+|+||+|+|||||||||||+||++ ++++|++|+++||++|++|+++++..|||+|++|||+|||+||||
T Consensus        15 skiK~FvK~iNynHlmPTRY~vd~~~~k~~v~~~~l~~~~~kk~a~k~~k~~feer~k~gKnkwFF~KLrF   85 (85)
T PF01777_consen   15 SKIKPFVKVINYNHLMPTRYSVDIPDDKTVVNKDALKDPSKKKKAKKEIKKKFEERYKTGKNKWFFQKLRF   85 (85)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHH-----
T ss_pred             hcceeeEEEeeccceEeeeeeeechhhhcccCHHHHhChHHHHHHHHHHHHHHHHHhccCCCcEEeeeccC
Confidence            8899999999999999999999995 689999999999999999999999999999999999999999998

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, L27 is found in fungi, plants, algae and vertebrates [, ]. The family has a specific signature at the C terminus.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZS_a 4A1B_N 4A19_N 4A18_N 4A1D_N 3IZR_a.

>COG2163 RPL14A Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]

Probab=99.49  E-value=1.9e-14  Score=102.69  Aligned_cols=86  Identities=30%  Similarity=0.413  Sum_probs=65.7

Q ss_pred             CcccccCCEEEEEecccccCceEEEee---------------eccceEEeeccceeeeceeeeccc---ccc--------
Q 039578            1 MVKFLKPNKVVILLQGRYAGRKVVISR---------------VEAFVKLVNYQHLMPTRYTLNIDL---KEV--------   54 (95)
Q Consensus         1 m~k~~kpg~VvivL~GryaGkKaVi~k---------------ik~F~k~~N~~Hl~pTry~vdi~~---k~~--------   54 (95)
                      |.+++.||+||++++|||||++|||.+               -.+=.+++|++|++||...++++=   ...        
T Consensus         1 ~~~~l~~GrVvvv~~GR~aGkk~VIv~~iDd~~v~i~gp~~v~gv~r~r~n~~~l~~t~~~~~~~rg~~~~~v~~~~~a~   80 (125)
T COG2163           1 MRASLEVGRVVVVTAGRFAGKKVVIVKIIDDNFVLITGPKKVKGVPRRRINIKHLEPTDKVIDLVRGASDEKVKKANEAA   80 (125)
T ss_pred             CCccccCCeEEEEecceeCCceEEEEEEccCCEEEEeCCccccCCccccccceeeeccceeeeecccccHHHHHHHHHhh
Confidence            788999999999999999999999911               122288999999999999887651   111        


Q ss_pred             ------------cccccccChhHHHHHHHHHHHHHHHHhcCCCc
Q 039578           55 ------------LTADSLQSKDKKVTACKETKKRLEERFKTGKN   86 (95)
Q Consensus        55 ------------v~~~~~k~~~~k~~a~k~~k~~feeryk~gKn   86 (95)
                                  +..+.+.++..+.+..+..+..++|+|..|++
T Consensus        81 ~~~~~~~~~~~~~~~k~~~~~~~~~~r~~~~k~~~~~~~~~~k~  124 (125)
T COG2163          81 GVLAKLDKSAKNLETKKVREPLTDAERFKVMKLVKEERLQVGKA  124 (125)
T ss_pred             hhhccccccchhhhhhhhhcccchHHHHHHHHHHHHHHhhhhcc
Confidence                        22334455566677777889999999998875

>PRK04333 50S ribosomal protein L14e; Validated

Probab=98.76  E-value=1.1e-08  Score=68.62  Aligned_cols=48  Identities=31%  Similarity=0.448  Sum_probs=40.3

Q ss_pred             cccCCEEEEEecccccCceEEEeee---------cc-----ceEEeeccceeeeceeeeccc
Q 039578            4 FLKPNKVVILLQGRYAGRKVVISRV---------EA-----FVKLVNYQHLMPTRYTLNIDL   51 (95)
Q Consensus         4 ~~kpg~VvivL~GryaGkKaVi~ki---------k~-----F~k~~N~~Hl~pTry~vdi~~   51 (95)
                      -+++|+||++++||++|+.|||..+         .|     =.++.|.+|+.+|...++++-
T Consensus         3 ~v~~GrvV~~~~Grd~gk~~vIv~i~d~~~vlVdg~~~~~~~rk~kn~khl~lt~~ki~~~~   64 (84)
T PRK04333          3 AIEVGRVCVKTAGREAGRKCVIVDIIDKNFVLVTGPSLTGVKRRRCNIKHLEPTDKKVDIEK   64 (84)
T ss_pred             cccccEEEEEeccCCCCCEEEEEEEecCCEEEEECCCcCCCCCeeechHHEEEeeEEEECCC
Confidence            4689999999999999999999332         22     379999999999999988653

>PTZ00065 60S ribosomal protein L14; Provisional

Probab=98.55  E-value=1.1e-07  Score=68.53  Aligned_cols=49  Identities=22%  Similarity=0.375  Sum_probs=42.0

Q ss_pred             ccccCCEEEEEecccccCceEEE------ee---ecc-----ceEEeeccceeeeceeeeccc
Q 039578            3 KFLKPNKVVILLQGRYAGRKVVI------SR---VEA-----FVKLVNYQHLMPTRYTLNIDL   51 (95)
Q Consensus         3 k~~kpg~VvivL~GryaGkKaVi------~k---ik~-----F~k~~N~~Hl~pTry~vdi~~   51 (95)
                      .|+.+||||++..|.|+||-|+|      .+   =+|     -..++|++|+.+|.+.++|+-
T Consensus         6 rfVEiGRVvli~~Gp~~GKL~vIVDIID~nRvLVDGP~~tgV~Rq~i~~k~l~LT~~~v~i~r   68 (130)
T PTZ00065          6 RFVEPGRLCLIQYGPDAGKLCFIVDIVTPTRVLVDGAFITGVKRQSIPLKRLKLTDEKIKINR   68 (130)
T ss_pred             cceeeceEEEEecCCCCCCEEEEEEEEcCCeEEEeCCCcCCcceeEEeccceEEccEEEecCC
Confidence            57899999999999999999999      11   133     478899999999999999984

>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.64  E-value=0.012  Score=32.26  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=20.1

Q ss_pred             CCEEEEEecccccCceEEEeee
Q 039578            7 PNKVVILLQGRYAGRKVVISRV   28 (95)
Q Consensus         7 pg~VvivL~GryaGkKaVi~ki   28 (95)
                      ||..|.+++|+|+|+.+.|..+
T Consensus         1 ~Gd~V~V~~G~~~G~~G~I~~i   22 (32)
T PF00467_consen    1 VGDTVKVISGPFKGKIGKIVEI   22 (32)
T ss_dssp             TTSEEEESSSTTTTEEEEEEEE
T ss_pred             CCCEEEEeEcCCCCceEEEEEE
Confidence            6899999999999999999665

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 [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....

>PF01159 Ribosomal_L6e: Ribosomal protein L6e ; InterPro: IPR000915 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.52  E-value=0.0055  Score=42.91  Aligned_cols=35  Identities=17%  Similarity=0.246  Sum_probs=26.9

Q ss_pred             cceEEeeccceeeeceeeecc-c--ccccccccccChh
Q 039578           30 AFVKLVNYQHLMPTRYTLNID-L--KEVLTADSLQSKD   64 (95)
Q Consensus        30 ~F~k~~N~~Hl~pTry~vdi~-~--k~~v~~~~~k~~~   64 (95)
                      .-++++|.+|+++|+.+|||+ +  .+-+|+++|+-+.
T Consensus         4 VPLRRVnQ~yVIATSTkvDis~v~ip~~~~D~YF~~~~   41 (108)
T PF01159_consen    4 VPLRRVNQAYVIATSTKVDISGVKIPEKIDDAYFKRKK   41 (108)
T ss_dssp             --SEEESSCCCEECSCESCHCCHHH-CCTTGSSSCHCC
T ss_pred             CcceecccceEEEEeeEEeccccchhhccchHHHHhhh
Confidence            458999999999999999997 4  3557888886443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeabacterial ribosomal proteins can be grouped on the basis of sequence similarities. One of these families includes mammalian ribosomal protein L6 (L6 was previously known as TAX-responsive enhancer element binding protein 107); Caenorhabditis elegans ribosomal protein L6 (R151.3); Saccharomyces cerevisiae (Baker's yeast) ribosomal protein YL16A/YL16B; and Mesembryanthemum crystallinum (Common ice plant) ribosomal protein YL16-like. These proteins have 175 (yeast) to 287 (mammalian) amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A18_E 4A1D_E 4A19_E 4A1B_E 3IZR_G 3O58_F 3O5H_F 3IZS_G.

>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif

Probab=95.41  E-value=0.023  Score=29.16  Aligned_cols=25  Identities=16%  Similarity=0.377  Sum_probs=22.4

Q ss_pred             ccCCEEEEEecccccCceEEEeeec
Q 039578            5 LKPNKVVILLQGRYAGRKVVISRVE   29 (95)
Q Consensus         5 ~kpg~VvivL~GryaGkKaVi~kik   29 (95)
                      +++|..|.++.|.|+|..++|.++.
T Consensus         2 ~~~G~~V~I~~G~~~g~~g~i~~i~   26 (28)
T smart00739        2 FEVGDTVRVIAGPFKGKVGKVLEVD   26 (28)
T ss_pred             CCCCCEEEEeECCCCCcEEEEEEEc
Confidence            5799999999999999999997764

Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.

>KOG3421 consensus 60S ribosomal protein L14 [Translation, ribosomal structure and biogenesis]

Probab=91.68  E-value=0.21  Score=36.56  Aligned_cols=48  Identities=25%  Similarity=0.376  Sum_probs=41.3

Q ss_pred             cccccCCEEEEEecccccCceEEE---------------eeeccceEEeeccceeeeceeeeccc
Q 039578            2 VKFLKPNKVVILLQGRYAGRKVVI---------------SRVEAFVKLVNYQHLMPTRYTLNIDL   51 (95)
Q Consensus         2 ~k~~kpg~VvivL~GryaGkKaVi---------------~kik~F~k~~N~~Hl~pTry~vdi~~   51 (95)
                      +.+...|+|+++..|-|+||=+.|               +.|-  ...+|++-+.-|-|.++++.
T Consensus         4 ~r~veVGrva~v~~G~~~GkL~AIVdviDqnr~lvDGp~t~v~--rq~~~~~~~~LT~~~~kfp~   66 (136)
T KOG3421|consen    4 KRFVEVGRVALVSFGPDAGKLVAIVDVIDQNRALVDGPCTGVP--RQAMNLKCLQLTDFVLKFPR   66 (136)
T ss_pred             hhhhhcceEEEEEecCCCceEEEEEEeecchhhhccCcccccc--hhhcchhheeeeeeeEeccc
Confidence            357889999999999999999999               3333  67889999999999999986

>CHL00141 rpl24 ribosomal protein L24; Validated

Probab=87.88  E-value=0.62  Score=30.93  Aligned_cols=25  Identities=16%  Similarity=0.299  Sum_probs=22.4

Q ss_pred             cccCCEEEEEecccccCceEEEeee
Q 039578            4 FLKPNKVVILLQGRYAGRKVVISRV   28 (95)
Q Consensus         4 ~~kpg~VvivL~GryaGkKaVi~ki   28 (95)
                      -+++|--|.|++|++.|+...|++|
T Consensus         8 ~I~~GD~V~Vi~G~dKGK~G~V~~V   32 (83)
T CHL00141          8 HVKIGDTVKIISGSDKGKIGEVLKI   32 (83)
T ss_pred             cccCCCEEEEeEcCCCCcEEEEEEE
Confidence            5789999999999999999999665

>PRK01191 rpl24p 50S ribosomal protein L24P; Validated

Probab=86.97  E-value=1.7  Score=31.07  Aligned_cols=45  Identities=13%  Similarity=0.298  Sum_probs=32.6

Q ss_pred             ccCCEEEEEecccccCceEEEeee-----ccceEEeeccceeeeceeeeccc
Q 039578            5 LKPNKVVILLQGRYAGRKVVISRV-----EAFVKLVNYQHLMPTRYTLNIDL   51 (95)
Q Consensus         5 ~kpg~VvivL~GryaGkKaVi~ki-----k~F~k~~N~~Hl~pTry~vdi~~   51 (95)
                      ++.|-.|.|++|.+.|+.+.|.+|     +.++.-+|...  |.-...+.|+
T Consensus        46 IkkGD~V~VisG~~KGk~GkV~~V~~~~~~V~VeGvn~~k--~~G~~~e~pI   95 (120)
T PRK01191         46 VRKGDTVKVMRGDFKGEEGKVVEVDLKRGRIYVEGVTVKK--ADGTEVPRPI   95 (120)
T ss_pred             EeCCCEEEEeecCCCCceEEEEEEEcCCCEEEEeCcEEEC--CCCeEEEccc
Confidence            678999999999999999999665     34455555443  4445566665

>PRK12281 rplX 50S ribosomal protein L24; Reviewed

Probab=84.19  E-value=1.2  Score=29.06  Aligned_cols=41  Identities=20%  Similarity=0.314  Sum_probs=30.7

Q ss_pred             cccCCEEEEEecccccCceEEEeee-----ccceEEeec--cceeeec
Q 039578            4 FLKPNKVVILLQGRYAGRKVVISRV-----EAFVKLVNY--QHLMPTR   44 (95)
Q Consensus         4 ~~kpg~VvivL~GryaGkKaVi~ki-----k~F~k~~N~--~Hl~pTr   44 (95)
                      -+++|--|+|++|++.|+...|..|     +.++.-+|.  .|.=|+.
T Consensus         6 ~I~kGD~V~Vi~G~dKGK~G~V~~V~~~~~~V~Vegvn~~kkh~kp~~   53 (76)
T PRK12281          6 KVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVKIAKKAIKPSQ   53 (76)
T ss_pred             cccCCCEEEEeEcCCCCcEEEEEEEEcCCCEEEEcCcEEEEEEcCCCc
Confidence            4788999999999999999999665     344666665  3554554

>PRK00004 rplX 50S ribosomal protein L24; Reviewed

Probab=80.53  E-value=2.2  Score=29.25  Aligned_cols=36  Identities=25%  Similarity=0.373  Sum_probs=27.8

Q ss_pred             cccccCCEEEEEecccccCceEEEeeec-----cceEEeec
Q 039578            2 VKFLKPNKVVILLQGRYAGRKVVISRVE-----AFVKLVNY   37 (95)
Q Consensus         2 ~k~~kpg~VvivL~GryaGkKaVi~kik-----~F~k~~N~   37 (95)
                      ..-+++|--|.|++|++.|+...|+.|-     .++.-+|.
T Consensus         2 ~~~i~kGD~V~Vi~G~dKGk~G~V~~V~~~~~~V~Vegvn~   42 (105)
T PRK00004          2 MMKIKKGDTVIVIAGKDKGKRGKVLKVLPKKNKVIVEGVNI   42 (105)
T ss_pred             CCcccCCCEEEEeEcCCCCcEEEEEEEEcCCCEEEEcCcEE
Confidence            3457899999999999999999996552     34555555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	95
3izr_a	136	Localization Of The Large Subunit Ribosomal Protein		7e-30
3izs_a	136	Localization Of The Large Subunit Ribosomal Protein		6e-18
3zf7_a	133	High-resolution Cryo-electron Microscopy Structure		6e-12
4a18_N	144	T.Thermophila 60s Ribosomal Subunit In Complex With		3e-08

>pdb|3IZR|AA Chain a, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 136

Iteration: 1
 Score =  125 bits (313), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 70/136 (51%), Positives = 80/136 (58%), Gaps = 41/136 (30%)
Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           MVKFLKP K VILLQGR+AGRK VI                                   
Sbjct: 1   MVKFLKPGKAVILLQGRFAGRKAVIVRVFEEGTRDRPYGHCLVAGLAKYPKKVIRKDSAK 60
Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTA-DSLQSKDKKVTACKETKKRLEE 79
                SRV+ F+KLVN+ HLMPTRYTL++DLKEV    D+L ++DKKV ACK  K RLE+
Sbjct: 61  KTAKKSRVKCFLKLVNFTHLMPTRYTLDVDLKEVAAGPDALATRDKKVAACKSAKARLED 120
Query: 80  RFKTGKNCWFFTKLGF 95
           RFKTGKN WFFTKL F
Sbjct: 121 RFKTGKNRWFFTKLRF 136

>pdb|3IZS|AA Chain a, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 136

Iteration: 1
 Score = 85.5 bits (210), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 71/136 (52%), Gaps = 41/136 (30%)
Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M KFLK  KV ++++GRYAG+KVVI                                   
Sbjct: 1   MAKFLKAGKVAVVVRGRYAGKKVVIVKPHDEGSKSHPFGHALVAGIERYPLKVTKKHGAK 60
Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLNID-LKEVLTADSLQSKDKKVTACKETKKRLEE 79
                ++++ F+K+VNY HL+PTRYTL+++  K V++ ++ +   ++  A K  KK  EE
Sbjct: 61  KVAKRTKIKPFIKVVNYNHLLPTRYTLDVEAFKSVVSTETFEQPSQREEAKKVVKKAFEE 120
Query: 80  RFKTGKNCWFFTKLGF 95
           R + GKN WFF+KL F
Sbjct: 121 RHQAGKNQWFFSKLRF 136

>pdb|3ZF7|AA Chain a, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 133

Iteration: 1
 Score = 65.9 bits (159), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 45/135 (33%), Positives = 60/135 (44%), Gaps = 43/135 (31%)
Query: 2   VKFLKPNKVVILLQGRYAGRKVVI------------------------------------ 25
           +KFLKP KVVI+  GRYAG+K VI                                    
Sbjct: 1   MKFLKPGKVVIMTSGRYAGKKAVIVQNTDTRNKERPYGHSLLAGIKKYPRKVVRGMSKRS 60
Query: 26  ----SRVEAFVKLVNYQHLMPTRYTLNIDLKEVLTADSLQSKDKKVTACKETKKRL-EER 80
               S+V  F+++VN++H +PTRY  N+DL   L      S   K    K+  KRL + R
Sbjct: 61  ITRRSQVGVFLRVVNHKHFLPTRY--NMDLSRELRGRINVSDASKKAKSKQLVKRLFQAR 118
Query: 81  FKTGKNCWFFTKLGF 95
           +  G N WFF +L F
Sbjct: 119 YNAGNNRWFFQRLRF 133

>pdb|4A18|N Chain N, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1 Length = 144

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 44/146 (30%), Positives = 66/146 (45%), Gaps = 53/146 (36%)
Query: 1   MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------- 25
           M KFLK  +VVILLQGR+AG+K VI                                   
Sbjct: 1   MAKFLKYGRVVILLQGRFAGKKAVIVKSSEDGTKDRKFGHVLVAGVERSPKKVTKRMGSK 60
Query: 26  -----SRVEAFVKLVNYQHLMPTRYTLN--IDLKEVLTADSLQSKDKKVTACKET-KKRL 77
                + V+ F+K VN  H+MPTRY++    D KE++  D +++  K  +  ++T KK  
Sbjct: 61  KIQKRTSVKPFIKYVNLNHIMPTRYSVKELCDFKELVKEDKIKNNAK--SEVRDTLKKVF 118
Query: 78  EERFKT--------GKNCWFFTKLGF 95
            E+++T            +FF+KL F
Sbjct: 119 VEKYRTINPEEKSASHTKFFFSKLRF 144

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	95
3iz5_a	136	60S ribosomal protein L27 (L27E); eukaryotic ribos	100.0
3izc_a	136	60S ribosomal protein RPL27 (L27E); eukaryotic rib	100.0
4a18_N	144	RPL27, ribosomal protein L22; ribosome, eukaryotic	100.0
4a18_E	191	RPL6; ribosome, eukaryotic initiation factor 6, EI	99.75
2joy_A	96	50S ribosomal protein L14E; protein solution struc	99.56
3iz5_N	134	60S ribosomal protein L14 (L14E); eukaryotic ribos	99.49
3izc_N	138	60S ribosomal protein RPL14 (L14E); eukaryotic rib	99.4
3izc_G	176	60S ribosomal protein RPL6 (L6E); eukaryotic ribos	99.22
3j21_5	83	50S ribosomal protein L14E; archaea, archaeal, KIN	99.21
4a18_F	126	RPL14; ribosome, eukaryotic initiation factor 6, E	99.19
3iz5_G	219	60S ribosomal protein L6 (L6E); eukaryotic ribosom	99.17

>4a18_N RPL27, ribosomal protein L22; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_N 4a1b_N 4a1d_N

Probab=100.00  E-value=6.6e-45  Score=262.98  Aligned_cols=94  Identities=45%  Similarity=0.780  Sum_probs=91.6

Q ss_pred             CcccccCCEEEEEecccccCceEEE----------------------------------------eeeccceEEeeccce
Q 039578            1 MVKFLKPNKVVILLQGRYAGRKVVI----------------------------------------SRVEAFVKLVNYQHL   40 (95)
Q Consensus         1 m~k~~kpg~VvivL~GryaGkKaVi----------------------------------------~kik~F~k~~N~~Hl   40 (95)
                      ||+|++||+|||+|+||||||||||                                        ++|+||+|++||||+
T Consensus         1 M~kf~kpGrVvivl~Gr~aGkkaVIvk~iD~gt~d~~y~~aLVaGIdryP~kvt~~m~kkki~kRskiK~FvK~vN~~Hl   80 (144)
T 4a18_N            1 MAKFLKYGRVVILLQGRFAGKKAVIVKSSEDGTKDRKFGHVLVAGVERSPKKVTKRMGSKKIQKRTSVKPFIKYVNLNHI   80 (144)
T ss_dssp             -CCCCCTTEEEEECSSTTTTCEEEEEEEESSCCSSCCSCEEEEEEEEECCCCCCSSCCHHHHHHTTCCEEEEEEEEGGGE
T ss_pred             CCccccCCeEEEEecCCcCCCEEEEEEecCCCccCCccceEEEEecccCCchhccccchheeccccccceeEEEEeeeeE
Confidence            9999999999999999999999999                                        779999999999999


Q ss_pred             eeeceee--ecccccccccccccChhHHHHHHHHHHHHHHHHh--------cCCCceEEeeecCC
Q 039578           41 MPTRYTL--NIDLKEVLTADSLQSKDKKVTACKETKKRLEERF--------KTGKNCWFFTKLGF   95 (95)
Q Consensus        41 ~pTry~v--di~~k~~v~~~~~k~~~~k~~a~k~~k~~feery--------k~gKnkwfF~KLrF   95 (95)
                      |||||++  ||||+++|++|+|+| ++|++|+++++..|||+|        ++|+|+|||+||||
T Consensus        81 ~pTry~v~~di~lK~~v~~d~~~~-~~k~~a~~~~k~~feery~~~~~~~kk~gknkwfF~kLrF  144 (144)
T 4a18_N           81 MPTRYSVKELCDFKELVKEDKIKN-NAKSEVRDTLKKVFVEKYRTINPEEKSASHTKFFFSKLRF  144 (144)
T ss_dssp             EEEEEECSTTCCHHHHSCHHHHHT-TCHHHHHHHHHHHHHHHHHTCCTTCHHHHHHHHHHCCCCC
T ss_pred             EEeeEEeeccCchhhccCHHHhhh-hHhHHHHHHHHHHHHHHhhhccccccccCCceEeeeecCC
Confidence            9999999  999999999999999 999999999999999999        99999999999998

>4a18_E RPL6; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_E 4a1b_E 4a1d_E

Probab=99.75  E-value=7.4e-19  Score=131.65  Aligned_cols=61  Identities=25%  Similarity=0.414  Sum_probs=52.2

Q ss_pred             CcccccCCEEEEEecccccCceEEEee---------------eccceEEeeccceeeeceeeecc-cc-ccccccccc
Q 039578            1 MVKFLKPNKVVILLQGRYAGRKVVISR---------------VEAFVKLVNYQHLMPTRYTLNID-LK-EVLTADSLQ   61 (95)
Q Consensus         1 m~k~~kpg~VvivL~GryaGkKaVi~k---------------ik~F~k~~N~~Hl~pTry~vdi~-~k-~~v~~~~~k   61 (95)
                      |.++|+||+|||+|+|||||+||||.+               -++|++++|++|+|||||+|||+ ++ ..+|+++|+
T Consensus        41 lr~si~pGtVlIiL~Gr~~GKrvV~LKql~sgllLVtGP~~vn~vplrrvn~~~vi~TstkvDis~vki~~~~d~YF~  118 (191)
T 4a18_E           41 LRNDIAPGTVLILLAGRFRGKRVVFLKQLKSGLLLVTGPYKVNGVPLKRVNQAYTLSTSTKVDLTGVNTAKFEDDYFG  118 (191)
T ss_dssp             CCTTCCTTEEEEECSSTTTTBEEEEEEECTTSCEEEECCTTTSSCCSEEECGGGEEEEEEECCCTTCCGGGCCGGGSC
T ss_pred             hhccccCCCEEEEeccccCCCEEEEEEecCCCeEEEecCccccCCceEEEeeeeEEeeeeEeecccccccccCHHHhc
Confidence            578999999999999999999999922               26789999999999999999998 64 347777665

>2joy_A 50S ribosomal protein L14E; protein solution structure, structural genomics, PSI-2, protein structure initiative; NMR {Sulfolobus solfataricus} SCOP: b.34.5.7 PDB: 2kds_A

Probab=99.56  E-value=1.7e-15  Score=101.91  Aligned_cols=49  Identities=31%  Similarity=0.464  Sum_probs=42.6

Q ss_pred             CcccccCCEEEEEecccccCceEEEeee---------ccc------eEEeeccceeeeceeeecc
Q 039578            1 MVKFLKPNKVVILLQGRYAGRKVVISRV---------EAF------VKLVNYQHLMPTRYTLNID   50 (95)
Q Consensus         1 m~k~~kpg~VvivL~GryaGkKaVi~ki---------k~F------~k~~N~~Hl~pTry~vdi~   50 (95)
                      |+ +++||+||++++|||+||+|||.++         .|.      .|++|++|++||+|++|++
T Consensus         1 M~-~v~~GrVv~~~~Gr~~Gk~~VIv~~iD~~~vLV~gp~~~~~~~rk~~n~khl~~T~~~vdi~   64 (96)
T 2joy_A            1 MP-AIEVGRICVKVKGREAGSKCVIVDIIDDNFVLVTGPKDITGVKRRRVNILHLEPTDKKIDIQ   64 (96)
T ss_dssp             CC-SSSTTEEEECSSSSTTCCEEEEEEECSSSCEEEECCTTTTCCCCEEESCSSCEEEEEECCCC
T ss_pred             CC-ccccCEEEEEeecCCCCCEEEEEEEeCCCEEEEECCcccCCcCCEEEchHHEEEeeEEEeCC
Confidence            78 9999999999999999999999332         222      6999999999999999965

>3j21_5 50S ribosomal protein L14E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.21  E-value=5.9e-12  Score=83.02  Aligned_cols=47  Identities=28%  Similarity=0.557  Sum_probs=40.3

Q ss_pred             CcccccCCEEEEEecccccCceEEEe----------------eeccceEEeeccceeeeceeeecc
Q 039578            1 MVKFLKPNKVVILLQGRYAGRKVVIS----------------RVEAFVKLVNYQHLMPTRYTLNID   50 (95)
Q Consensus         1 m~k~~kpg~VvivL~GryaGkKaVi~----------------kik~F~k~~N~~Hl~pTry~vdi~   50 (95)
                      |. +++||+||++++|||||++|||.                +++  .++.|.+|+.||.+.++++
T Consensus         1 m~-~~~~Grvv~~~~Gr~~Gk~~vIv~iiD~~~vlV~g~~~~~v~--rk~kn~khl~lt~~~i~~~   63 (83)
T 3j21_5            1 MP-AIDVGRIAVVIAGRRAGQKVVVVDIIDKNFVLVTGAGLNKVK--RRRMNIKHIEPLPQKIDIP   63 (83)
T ss_dssp             ---CCCTTEEEECSSSSSSCCCEEEEEECSSSCEEEECCTTTTCC--CEEESCSSCEEEEEECCCC
T ss_pred             CC-ccccCEEEEEeecCCCCCEEEEEEEcCCCEEEEECCccCccC--CeEechHHEEEeeEEEECC
Confidence            56 89999999999999999999992                242  7999999999999998865

>4a18_F RPL14; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_F 4a1b_F 4a1d_F 4adx_7

Probab=99.19  E-value=1.6e-11  Score=86.91  Aligned_cols=50  Identities=20%  Similarity=0.429  Sum_probs=42.5

Q ss_pred             cccccCCEEEEEecccccCceEEEeee---------cc--ceEEeeccceeeeceeee-ccc
Q 039578            2 VKFLKPNKVVILLQGRYAGRKVVISRV---------EA--FVKLVNYQHLMPTRYTLN-IDL   51 (95)
Q Consensus         2 ~k~~kpg~VvivL~GryaGkKaVi~ki---------k~--F~k~~N~~Hl~pTry~vd-i~~   51 (95)
                      .+|+++|+||+++.|+|||+.|||..|         +|  -...+|++||+||+|.++ |+-
T Consensus         4 ~rfvevGRVv~i~~G~~aGklavIVdIID~nrvLVdGp~V~Rq~~n~k~l~LT~~~v~~i~r   65 (126)
T 4a18_F            4 NKFVQVGRVVYINYGADKGKLAVIVNIINQNRILIDGEHIVRQVIPIRRVHLTKFQIDNVEL   65 (126)
T ss_dssp             CCEEETTEEEEECSSTTTTEEEEEEEEETTTEEEEEETTEEEEEEEGGGEEEEEEECTTCCT
T ss_pred             ccceecceEEEEccCCccCCEEEEEEEecCCeEEEeCCCcccceeeccceEEcceeccccCC
Confidence            368999999999999999999999221         22  267899999999999998 974

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	95
d2joya1	96	b.34.5.7 (A:1-96) Ribosomal protein L14e {Sulfolob	0.003

>d2joya1 b.34.5.7 (A:1-96) Ribosomal protein L14e {Sulfolobus solfataricus [TaxId: 2287]} Length = 96

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal protein L14e
domain: Ribosomal protein L14e
species: Sulfolobus solfataricus [TaxId: 2287]

 Score = 31.6 bits (72), Expect = 0.003
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 22/86 (25%)

Query: 3  KFLKPNKVVILLQGRYAGRKVVISRV---------------EAFVKLVNYQHLMPTRYTL 47
            ++  ++ + ++GR AG K VI  +                   + VN  HL PT   +
Sbjct: 2  PAIEVGRICVKVKGREAGSKCVIVDIIDDNFVLVTGPKDITGVKRRRVNILHLEPTDKKI 61

Query: 48 NI-------DLKEVLTADSLQSKDKK 66
          +I       ++K+ L   +L    K+
Sbjct: 62 DIQKGASDEEVKKKLEESNLTEYMKE 87

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	95
d2joya1	96	Ribosomal protein L14e {Sulfolobus solfataricus [T	99.35
d2do3a1	62	Transcription elongation factor SPT5 {Human (Homo	83.45

>d2joya1 b.34.5.7 (A:1-96) Ribosomal protein L14e {Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal protein L14e
domain: Ribosomal protein L14e
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.35  E-value=1.9e-13  Score=91.00  Aligned_cols=48  Identities=29%  Similarity=0.420  Sum_probs=42.1

Q ss_pred             cccCCEEEEEecccccCceEEEee---------eccc------eEEeeccceeeeceeeeccc
Q 039578            4 FLKPNKVVILLQGRYAGRKVVISR---------VEAF------VKLVNYQHLMPTRYTLNIDL   51 (95)
Q Consensus         4 ~~kpg~VvivL~GryaGkKaVi~k---------ik~F------~k~~N~~Hl~pTry~vdi~~   51 (95)
                      ++++||||++++||||||+|||..         -+|+      .+++|++|++||++++||+-
T Consensus         3 ~VevGrV~ii~~G~~~GK~~vIvdiid~~rvLVdGP~~~tgV~r~~in~k~l~lT~~~i~i~~   65 (96)
T d2joya1           3 AIEVGRICVKVKGREAGSKCVIVDIIDDNFVLVTGPKDITGVKRRRVNILHLEPTDKKIDIQK   65 (96)
T ss_dssp             SSSTTEEEECSSSSTTCCEEEEEEECSSSCEEEECCTTTTCCCCEEESCSSCEEEEEECCCCS
T ss_pred             ceeccEEEEEeecCCCCCEEEEEEEecCCeEEEecccccCCcccEEEchHHEEeccEEEEccC
Confidence            689999999999999999999911         2444      99999999999999999874

>d2do3a1 b.34.5.5 (A:462-523) Transcription elongation factor SPT5 {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: SPT5 KOW domain-like
domain: Transcription elongation factor SPT5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.45  E-value=0.47  Score=28.07  Aligned_cols=28  Identities=36%  Similarity=0.592  Sum_probs=25.3

Q ss_pred             cccccCCEEEEEecccccCceEEEeeec
Q 039578            2 VKFLKPNKVVILLQGRYAGRKVVISRVE   29 (95)
Q Consensus         2 ~k~~kpg~VvivL~GryaGkKaVi~kik   29 (95)
                      -|.+++|-=|-|++|||+|.-..|.++.
T Consensus         8 rK~F~~GDhVkVi~G~~~g~tGlVV~v~   35 (62)
T d2do3a1           8 RKYFKMGDHVKVIAGRFEGDTGLIVRVE   35 (62)
T ss_dssp             CSSCCTTCEEEESSSTTTTCEEEEEEEC
T ss_pred             eeccCCCCeEEEeccEEcCccEEEEEEe
Confidence            4789999999999999999999997775