Citrus Sinensis ID: 035907

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-----
Protein Sequence
MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKNLGSLLSS
Secondary Structure (PSIPRED)
ccccccccEEEEEEcccccccEEEEEEEccccccccccccEEEEEEEEccccccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEcccEEEEEEEccccccEEEEEEEccccccccccccEEEEEEcccccccccEEEEEEcccccccHHHcccHHHHHHHHHHHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mvtflkpnKAVILLQGRNASRKAVIMKSfddgtrerpnghCLVARIKNYqhlmptcytlDVDLKEVvttnslqskdkkVTACEETKKHLEEKFKtgknlgsllss
Flexible Loop (DISEMBL)
mvtflkpnkavillqgrnasrkaVIMKsfddgtrerpnGHCLVARIKNYQHLMPTCYTLDVDLKEVvttnslqskdkkvtaCEETKKhleekfktgknlgsllss
Low Complexity Region (SEG)
MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKNLGSLLSS
Disordered region (IsUnstruct)
********KAVILLQGRNASRKAVIMKSF*******PNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTT************************************
Disordered Region (DISOPRED)
**T**KPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNS***********EETKKHLEE**************
Disordered Region (DISEMBL)
MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKNLGSLLSS
Disordered Region (DISPRO)
*VTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKT**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSxxxxxxxxxxxxxxxxxxxxxFKTGKNLGSLLSS
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	105	2.2.26 [Sep-21-2011]
Q05462	135	60S ribosomal protein L27	N/A	no	0.933	0.725	0.619	1e-35
P51419	135	60S ribosomal protein L27	yes	no	0.933	0.725	0.595	1e-33
Q8LCL3	135	60S ribosomal protein L27	yes	no	0.933	0.725	0.587	3e-32
Q9SKX8	135	60S ribosomal protein L27	no	no	0.933	0.725	0.523	3e-28
P41101	138	60S ribosomal protein L27	N/A	no	0.923	0.702	0.523	7e-27
Q02984	134	60S ribosomal protein L27	N/A	no	0.923	0.723	0.460	9e-21
P61359	136	60S ribosomal protein L27	N/A	no	0.933	0.720	0.393	6e-17
Q9XSU7	136	60S ribosomal protein L27	yes	no	0.933	0.720	0.393	8e-17
Q7ZV82	136	60S ribosomal protein L27	yes	no	0.933	0.720	0.393	1e-16
P61354	136	60S ribosomal protein L27	yes	no	0.933	0.720	0.385	2e-16

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

 Score =  148 bits (373), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 78/126 (61%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVILLQGR A +KAVI+K+FDDGTRE+P GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVILLQGRYAGKKAVIVKTFDDGTREKPYGHCLVAGIKKFPSKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLK+ V  + LQSKDKKVTA +ETKK LEE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVVPDVLQSKDKKVTALKETKKSLEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Pisum sativum (taxid: 3888)

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

 Score =  141 bits (356), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 75/126 (59%), Positives = 83/126 (65%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLK NKAVILLQGR A +KAVI+KSFDDG R+RP GHCLVA +K             
Sbjct: 1   MVKFLKQNKAVILLQGRYAGKKAVIIKSFDDGNRDRPYGHCLVAGLKKYPSKVIRKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLKEV T ++LQSKDKKV A +E K  LEE+
Sbjct: 61  KTAKKSRVKCFIKLVNYQHLMPTRYTLDVDLKEVATLDALQSKDKKVAALKEAKAKLEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Arabidopsis thaliana (taxid: 3702)

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

 Score =  137 bits (344), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/126 (58%), Positives = 83/126 (65%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLK NKAVILLQGR A +KAVI+KSFDDGT +R  GHCLVA +K             
Sbjct: 1   MVKFLKQNKAVILLQGRYAGKKAVIIKSFDDGTSDRRYGHCLVAGLKKYPSKVIRKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLKEV T ++L+SKDKKVTA +E K  LEE+
Sbjct: 61  KTAKKSRVKCFIKLVNYQHLMPTRYTLDVDLKEVATLDALKSKDKKVTALKEAKAKLEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Arabidopsis thaliana (taxid: 3702)

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

 Score =  123 bits (308), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 66/126 (52%), Positives = 79/126 (62%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV  +KP KAVILLQGR   +KAVI+KSFDDGT E+  GHCLVA +K             
Sbjct: 1   MVKCMKPGKAVILLQGRYTGKKAVIVKSFDDGTVEKKYGHCLVAGLKKYPSKVIRKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQH+MPT YTLD+DLK VV+ +++ SKDKKVTA +E K   EE+
Sbjct: 61  KTAKKSRVKCFFKVINYQHVMPTRYTLDLDLKNVVSADAISSKDKKVTALKEAKAKFEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Arabidopsis thaliana (taxid: 3702)

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

 Score =  119 bits (297), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 68/130 (52%), Positives = 81/130 (62%), Gaps = 33/130 (25%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA---------------- 44
           M  FLKPNKAVILLQG+ A RKAVI+++FD+GTR+RP GHCLVA                
Sbjct: 1   MEKFLKPNKAVILLQGKYAGRKAVIVRAFDEGTRDRPYGHCLVAGISRYPKKVIRKDSAK 60

Query: 45  ------RIK------NYQHLMPTCYTLDVDL----KEVVTTNSLQSKDKKVTACEETKKH 88
                 R+K      NY H+MPT YTLD DL    K+VV  + LQ++DKKVTA   TK  
Sbjct: 61  KAGKKSRVKAFIKLVNYNHIMPTRYTLDEDLKDVVKDVVNADVLQARDKKVTA-RRTKAR 119

Query: 89  LEEKFKTGKN 98
           L E+FKTGKN
Sbjct: 120 LAERFKTGKN 129

Solanum tuberosum (taxid: 4113)

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

 Score = 98.6 bits (244), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 58/126 (46%), Positives = 70/126 (55%), Gaps = 29/126 (23%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLK  K V++L GR A +KAVI+++FDDGT  RP GH LV  ++             
Sbjct: 1   MVKFLKSGKVVVVLSGRFAGKKAVIVRNFDDGTSSRPYGHALVVGLQKEPRKVTKRQSQK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NY HLMPT YTLDVD K  V   + ++  KKV A +E KK LEEK
Sbjct: 61  KQAKKSTLKTFIKTVNYNHLMPTRYTLDVDFKG-VAAEAQENPTKKVEARKECKKLLEEK 119

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 120 FKTGKN 125

Pyrobotrys stellata (taxid: 3064)

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

 Score = 86.3 bits (212), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 50/127 (39%), Positives = 65/127 (51%), Gaps = 29/127 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA---------------- 44
           M  F+KP K V++L GR A RKAVI+K+ DDGT +RP  H LVA                
Sbjct: 1   MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTADRPYSHALVAGIDRYPRKVTAPMGKK 60

Query: 45  ------------RIKNYQHLMPTCYTLDVDL-KEVVTTNSLQSKDKKVTACEETKKHLEE 91
                       ++ NY HLMPT Y++D+ L K VV  +  +    K  A  E K   EE
Sbjct: 61  KIAKRSKIKAFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKSKARREAKVKFEE 120

Query: 92  KFKTGKN 98
           ++KTGKN
Sbjct: 121 RYKTGKN 127

Hippocampus comes (taxid: 109280)

>sp|Q9XSU7|RL27_CANFA 60S ribosomal protein L27 OS=Canis familiaris GN=RPL27 PE=2 SV=3

 Score = 85.5 bits (210), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 50/127 (39%), Positives = 65/127 (51%), Gaps = 29/127 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA---------------- 44
           M  F+KP K V++L GR + RKAVI+K+ DDGT +RP  H LVA                
Sbjct: 1   MGKFMKPGKVVLVLAGRYSGRKAVIVKNIDDGTSDRPYSHALVAGIDRYPRKVTAAMGKK 60

Query: 45  ------------RIKNYQHLMPTCYTLDVDL-KEVVTTNSLQSKDKKVTACEETKKHLEE 91
                       ++ NY HLMPT Y++D+ L K VV  +  +    K  A  E K   EE
Sbjct: 61  KIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVKFEE 120

Query: 92  KFKTGKN 98
           K+KTGKN
Sbjct: 121 KYKTGKN 127

Canis familiaris (taxid: 9615)

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

 Score = 85.1 bits (209), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/127 (39%), Positives = 65/127 (51%), Gaps = 29/127 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA---------------- 44
           M  F+KP K V++L GR A RKAVI+K+ DDGT +RP  H LVA                
Sbjct: 1   MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTADRPYSHALVAGIDRYPRKVTATMGKK 60

Query: 45  ------------RIKNYQHLMPTCYTLDVDL-KEVVTTNSLQSKDKKVTACEETKKHLEE 91
                       ++ NY HLMPT Y++D+ L K VV  +  +    K  A  E K   EE
Sbjct: 61  KIAKRSKIKAFVKVFNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVKFEE 120

Query: 92  KFKTGKN 98
           ++KTGKN
Sbjct: 121 RYKTGKN 127

Danio rerio (taxid: 7955)

>sp|P61354|RL27_RAT 60S ribosomal protein L27 OS=Rattus norvegicus GN=Rpl27 PE=2 SV=2

 Score = 84.7 bits (208), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 49/127 (38%), Positives = 65/127 (51%), Gaps = 29/127 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA---------------- 44
           M  F+KP K V++L GR + RKAVI+K+ DDGT +RP  H LVA                
Sbjct: 1   MGKFMKPGKVVLVLAGRYSGRKAVIVKNIDDGTSDRPYSHALVAGIDRYPRKVTAAMGKK 60

Query: 45  ------------RIKNYQHLMPTCYTLDVDL-KEVVTTNSLQSKDKKVTACEETKKHLEE 91
                       ++ NY HLMPT Y++D+ L K VV  +  +    K  A  E K   EE
Sbjct: 61  KIAKRSKIKSFVKVYNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVKFEE 120

Query: 92  KFKTGKN 98
           ++KTGKN
Sbjct: 121 RYKTGKN 127

Rattus norvegicus (taxid: 10116)

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	105
357445373	135	60S ribosomal protein L27 [Medicago trun	0.933	0.725	0.626	1e-34
449460012	135	PREDICTED: 60S ribosomal protein L27-lik	0.933	0.725	0.611	2e-34
357449233	209	60S ribosomal protein L27 [Medicago trun	0.933	0.468	0.619	2e-34
449460010	135	PREDICTED: 60S ribosomal protein L27-lik	0.933	0.725	0.611	2e-34
388519707	135	unknown [Medicago truncatula]	0.933	0.725	0.619	4e-34
217075660	135	unknown [Medicago truncatula]	0.933	0.725	0.619	4e-34
498902	135	ribosomal protein L27 homolog [Pisum sat	0.933	0.725	0.619	4e-34
464630	135	RecName: Full=60S ribosomal protein L27	0.933	0.725	0.619	4e-34
498904	135	ribosomal protein L27 homolog [Pisum sat	0.933	0.725	0.611	8e-34
356556157	135	PREDICTED: 60S ribosomal protein L27-lik	0.933	0.725	0.603	1e-33

>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 =  149 bits (377), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 79/126 (62%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVI+LQGR A +KAVI+K+FDDGTRER  GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRERAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLKEVVTT+ LQSKDKKVTA +E KK  EE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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 (377), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 77/126 (61%), Positives = 87/126 (69%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVI+LQGR A RKAVI+++FDDGTR+R  GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGRKAVIIRAFDDGTRDRAYGHCLVAGIKKYPAKVIRKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NY+HLMPT YTLDVDLK+VVT +SLQSKDKKVTA +ETKK  EE+
Sbjct: 61  KTAKKSRVKAFIKLVNYRHLMPTRYTLDVDLKDVVTVDSLQSKDKKVTAAKETKKRFEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  149 bits (376), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 78/126 (61%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVI+LQGR A +KAVI+K+FDDGTR+R  GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRDRAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLKEVVTT+ LQSKDKKVTA +E KK  EE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

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 (376), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 77/126 (61%), Positives = 87/126 (69%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVI+LQGR A RKAVI+++FDDGTR+R  GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGRKAVIVRAFDDGTRDRAYGHCLVAGIKKYPAKVIRKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NY+HLMPT YTLDVDLK+VVT +SLQSKDKKVTA +ETKK  EE+
Sbjct: 61  KTAKKSRVKAFVKLVNYRHLMPTRYTLDVDLKDVVTIDSLQSKDKKVTAAKETKKRFEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  148 bits (374), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 78/126 (61%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVI+LQGR A +KAVI+K+FDDGTR+R  GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRDRAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLKEVVTT+ LQSKDKKVTA +E KK  EE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  148 bits (373), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 78/126 (61%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVI+LQGR A +KAVI+K+FDDGTR+R  GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRDRAYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLKEVVTT+ LQSKDKKVTA +E KK  EE+
Sbjct: 61  KTAKKSRVEAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|498902|gb|AAA86950.1| ribosomal protein L27 homolog [Pisum sativum]

 Score =  148 bits (373), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 78/126 (61%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVILLQGR A +KAVI+K+FDDGTRE+P GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVILLQGRYAGKKAVIVKTFDDGTREKPYGHCLVAGIKKYPSKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLK+ V  + LQSKDKKVTA +ETKK LEE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVVPDVLQSKDKKVTALKETKKSLEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|464630|sp|Q05462.1|RL27_PEA RecName: Full=60S ribosomal protein L27 gi|20768|emb|CAA50035.1| ribosomal protein L27 [Pisum sativum]

 Score =  148 bits (373), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 78/126 (61%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVILLQGR A +KAVI+K+FDDGTRE+P GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVILLQGRYAGKKAVIVKTFDDGTREKPYGHCLVAGIKKFPSKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLK+ V  + LQSKDKKVTA +ETKK LEE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVVPDVLQSKDKKVTALKETKKSLEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|498904|gb|AAA86951.1| ribosomal protein L27 homolog [Pisum sativum]

 Score =  147 bits (371), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 77/126 (61%), Positives = 86/126 (68%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVILLQGR A +KAVI+K+FDDGTRE+P GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVILLQGRYAGKKAVIVKTFDDGTREKPYGHCLVAGIKKYSSKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLK+ V  + LQSKDKKVTA +ETKK +EE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVVPDVLQSKDKKVTALKETKKSVEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  147 bits (370), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 76/126 (60%), Positives = 87/126 (69%), Gaps = 28/126 (22%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           MV FLKPNKAVI+LQGR A +KAVI+++FD+GTRERP GHCLVA IK             
Sbjct: 1   MVKFLKPNKAVIVLQGRYAGKKAVIVRTFDEGTRERPYGHCLVAGIKKYPAKVIKKDSAK 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          NYQHLMPT YTLDVDLK+ VT + LQ+KDKKVTA +ETKK LEE+
Sbjct: 61  KTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKDAVTPDVLQAKDKKVTALKETKKRLEER 120

Query: 93  FKTGKN 98
           FKTGKN
Sbjct: 121 FKTGKN 126

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	105
ZFIN|ZDB-GENE-030131-4343	136	rpl27 "ribosomal protein L27"	0.466	0.360	0.571	9.3e-20
RGD|1563835	135	RGD1563835 "similar to ribosom	0.466	0.362	0.530	1.7e-18
SGD|S000001052	136	RPL27A "Ribosomal 60S subunit	0.466	0.360	0.448	3.4e-18
SGD|S000002879	136	RPL27B "Ribosomal 60S subunit	0.466	0.360	0.448	3.4e-18
TAIR|locus:2090434	135	AT3G22230 [Arabidopsis thalian	0.809	0.629	0.534	1.6e-17
POMBASE|SPBC685.07c	136	rpl2701 "60S ribosomal protein	0.466	0.360	0.408	1.8e-17
TAIR|locus:2129575	135	AT4G15000 [Arabidopsis thalian	0.809	0.629	0.534	2e-17
POMBASE|SPCC74.05	136	rpl2702 "60S ribosomal protein	0.466	0.360	0.408	6e-17
UNIPROTKB|G4ML54	135	MGG_06693 "60S ribosomal prote	0.514	0.4	0.418	6.6e-16
FB|FBgn0039359	135	RpL27 "Ribosomal protein L27"	0.466	0.362	0.551	8.4e-16

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

 Score = 139 (54.0 bits), Expect = 9.3e-20, Sum P(2) = 9.3e-20
 Identities = 28/49 (57%), Positives = 34/49 (69%)

Query:     1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNY 49
             M  F+KP K V++L GR A RKAVI+K+ DDGT +RP  H LVA I  Y
Sbjct:     1 MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTADRPYSHALVAGIDRY 49

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

RGD|1563835 RGD1563835 "similar to ribosomal protein L27" [Rattus norvegicus (taxid:10116)]

 Score = 126 (49.4 bits), Expect = 1.7e-18, Sum P(2) = 1.7e-18
 Identities = 26/49 (53%), Positives = 33/49 (67%)

Query:     1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNY 49
             M  F+KP K V++L GR +  KAVI+K+ DDGT +RP  H LVA I  Y
Sbjct:     1 MGKFMKPGKVVLVLAGRYSGYKAVIVKNIDDGTSDRPYSHVLVAGIDCY 49

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

SGD|S000001052 RPL27A "Ribosomal 60S subunit protein L27A" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 118 (46.6 bits), Expect = 3.4e-18, Sum P(2) = 3.4e-18
 Identities = 22/49 (44%), Positives = 32/49 (65%)

Query:     1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNY 49
             M  FLK  K  ++++GR A +K VI+K  D+G++  P GH LVA I+ Y
Sbjct:     1 MAKFLKAGKVAVVVRGRYAGKKVVIVKPHDEGSKSHPFGHALVAGIERY 49

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0002181 "cytoplasmic translation" evidence=TAS

SGD|S000002879 RPL27B "Ribosomal 60S subunit protein L27B" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 118 (46.6 bits), Expect = 3.4e-18, Sum P(2) = 3.4e-18
 Identities = 22/49 (44%), Positives = 32/49 (65%)

Query:     1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNY 49
             M  FLK  K  ++++GR A +K VI+K  D+G++  P GH LVA I+ Y
Sbjct:     1 MAKFLKAGKVAVVVRGRYAGKKVVIVKPHDEGSKSHPFGHALVAGIERY 49

GO:0005622 "intracellular" evidence=IEA

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

GO:0005840 "ribosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0002181 "cytoplasmic translation" evidence=TAS

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

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

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 46/86 (53%), Positives = 57/86 (66%)

Query:    13 LLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSL 72
             L+ G       VI K     T ++    C + ++ NYQHLMPT YTLDVDLKEV T ++L
Sbjct:    42 LVAGLKKYPSKVIRKDSAKKTAKKSRVKCFI-KLVNYQHLMPTRYTLDVDLKEVATLDAL 100

Query:    73 QSKDKKVTACEETKKHLEEKFKTGKN 98
             +SKDKKVTA +E K  LEE+FKTGKN
Sbjct:   101 KSKDKKVTALKEAKAKLEERFKTGKN 126

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

POMBASE|SPBC685.07c rpl2701 "60S ribosomal protein L27" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 115 (45.5 bits), Expect = 1.8e-17, Sum P(2) = 1.8e-17
 Identities = 20/49 (40%), Positives = 32/49 (65%)

Query:     1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNY 49
             MV  LKP K  ++ +GR A +K VI+++ D G++  P GH +VA ++ Y
Sbjct:     1 MVKILKPGKVALITRGRFAGKKVVILQAIDQGSKSHPFGHAVVAGVERY 49

GO:0002181 "cytoplasmic translation" evidence=NAS

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

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006412 "translation" evidence=ISO

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

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

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 46/86 (53%), Positives = 56/86 (65%)

Query:    13 LLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSL 72
             L+ G       VI K     T ++    C + ++ NYQHLMPT YTLDVDLKEV T ++L
Sbjct:    42 LVAGLKKYPSKVIRKDSAKKTAKKSRVKCFI-KLVNYQHLMPTRYTLDVDLKEVATLDAL 100

Query:    73 QSKDKKVTACEETKKHLEEKFKTGKN 98
             QSKDKKV A +E K  LEE+FKTGKN
Sbjct:   101 QSKDKKVAALKEAKAKLEERFKTGKN 126

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

POMBASE|SPCC74.05 rpl2702 "60S ribosomal protein L27 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 113 (44.8 bits), Expect = 6.0e-17, Sum P(2) = 6.0e-17
 Identities = 20/49 (40%), Positives = 32/49 (65%)

Query:     1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNY 49
             MV  LKP K  ++ +GR A +K VI+++ D G++  P GH +VA ++ Y
Sbjct:     1 MVKILKPGKVALVTRGRFAGKKVVILQNVDQGSKSHPFGHAVVAGVERY 49

GO:0002181 "cytoplasmic translation" evidence=NAS

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

GO:0005829 "cytosol" evidence=IDA

GO:0006412 "translation" evidence=ISO

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

UNIPROTKB|G4ML54 MGG_06693 "60S ribosomal protein L27-A" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 114 (45.2 bits), Expect = 6.6e-16, Sum P(2) = 6.6e-16
 Identities = 23/55 (41%), Positives = 37/55 (67%)

Query:    45 RIKNYQHLMPTCYTLDVD-LKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKN 98
             ++ NY HLMPT YTL+++ LK  VT ++ +   ++  A +  KK LEE++ +GKN
Sbjct:    72 KVVNYNHLMPTRYTLELEGLKGSVTNDTFKEVSQREDAKKNVKKVLEERYTSGKN 126

GO:0043581 "mycelium development" evidence=IEP

FB|FBgn0039359 RpL27 "Ribosomal protein L27" [Drosophila melanogaster (taxid:7227)]

 Score = 130 (50.8 bits), Expect = 8.4e-16, Sum P(2) = 8.4e-16
 Identities = 27/49 (55%), Positives = 33/49 (67%)

Query:     1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNY 49
             M   +K  K VI+L GR A RKA+I+K+ DDGT E+P GH LVA I  Y
Sbjct:     1 MRKIMKQGKIVIVLSGRYAGRKAIIVKTHDDGTPEKPFGHALVAGIDRY 49

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

GO:0006412 "translation" evidence=ISS

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

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0051297 "centrosome organization" evidence=IMP

GO:0051298 "centrosome duplication" evidence=IMP

---

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	0.5952	0.9333	0.7259	yes	no
Q8LCL3	RL272_ARATH	No assigned EC number	0.5873	0.9333	0.7259	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	105
PTZ00471	134	PTZ00471, PTZ00471, 60S ribosomal protein L27; Pro	5e-21
cd06090	83	cd06090, KOW_RPL27, KOW motif of eukaryotic Riboso	1e-18
pfam01777	85	pfam01777, Ribosomal_L27e, Ribosomal L27e protein	8e-15
COG2163	125	COG2163, RPL14A, Ribosomal protein L14E/L6E/L27E [	8e-07

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

 Score = 80.7 bits (199), Expect = 5e-21
 Identities = 41/126 (32%), Positives = 61/126 (48%), Gaps = 29/126 (23%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           M  FLKP K VI+  GR A RKAVI+++FD  ++ERP GH LVA IK             
Sbjct: 1   MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKR 60

Query: 48  ---------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                          N++H +PT Y +D+  KE+    ++    KK  + +  KK  + +
Sbjct: 61  TIARRSQVGVFLRVVNHKHFLPTRYNMDMS-KELRGRINVSDASKKARSKQLVKKLFQAR 119

Query: 93  FKTGKN 98
           +  G +
Sbjct: 120 YNAGSS 125

Length = 134

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

 Score = 73.0 bits (180), Expect = 1e-18
 Identities = 34/83 (40%), Positives = 45/83 (54%), Gaps = 28/83 (33%)

Query: 6  KPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA--------------------- 44
          KP K VI+L GR A +KAVI+K+ D+GT++RP GH LVA                     
Sbjct: 1  KPGKVVIVLSGRYAGKKAVIVKNNDEGTKDRPYGHALVAGIDRYPRKVTKKMSKKKIAKR 60

Query: 45 -RIK------NYQHLMPTCYTLD 60
           ++K      NY HLMPT Y++D
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|201966 pfam01777, Ribosomal_L27e, Ribosomal L27e protein family

 Score = 63.4 bits (155), Expect = 8e-15
 Identities = 29/52 (55%), Positives = 39/52 (75%), Gaps = 1/52 (1%)

Query: 48 NYQHLMPTCYTLDV-DLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKN 98
          NY HLMPT YT+DV DLK+VV+ ++L+   K+  A +E KK  EE++KTGKN
Sbjct: 25 NYNHLMPTRYTVDVEDLKKVVSKDALKDPSKRKEARKEVKKKFEERYKTGKN 76

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

 Score = 43.9 bits (104), Expect = 8e-07
 Identities = 23/127 (18%), Positives = 36/127 (28%), Gaps = 30/127 (23%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQ---------- 50
           M   L+  + V++  GR A +K VI+K  DD       G   V  +   +          
Sbjct: 1   MRASLEVGRVVVVTAGRFAGKKVVIVKIIDDNFVL-ITGPKKVKGVPRRRINIKHLEPTD 59

Query: 51  ------------------HLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEK 92
                                     LD   K + T    +         +  K   EE+
Sbjct: 60  KVIDLVRGASDEKVKKANEAAGVLAKLDKSAKNLETKKVREPL-TDAERFKVMKLVKEER 118

Query: 93  FKTGKNL 99
            + GK  
Sbjct: 119 LQVGKAF 125

Length = 125

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	105
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	99.89
COG2163	125	RPL14A Ribosomal protein L14E/L6E/L27E [Translatio	99.75
PRK04333	84	50S ribosomal protein L14e; Validated	99.4
PTZ00065	130	60S ribosomal protein L14; Provisional	99.19
KOG3421	136	consensus 60S ribosomal protein L14 [Translation,	97.72
PF00467	32	KOW: KOW motif; InterPro: IPR005824 Ribosomes are	96.75
smart00739	28	KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif i	96.29
PRK12281	76	rplX 50S ribosomal protein L24; Reviewed	95.22
CHL00141	83	rpl24 ribosomal protein L24; Validated	94.93
PRK01191	120	rpl24p 50S ribosomal protein L24P; Validated	94.12
PRK00004	105	rplX 50S ribosomal protein L24; Reviewed	93.91
TIGR01079	104	rplX_bact ribosomal protein L24, bacterial/organel	93.46
PF01159	108	Ribosomal_L6e: Ribosomal protein L6e ; InterPro: I	93.35
PTZ00194	143	60S ribosomal protein L26; Provisional	93.0
TIGR01080	114	rplX_A_E ribosomal protein L24p/L26e, archaeal/euk	92.51
COG0198	104	RplX Ribosomal protein L24 [Translation, ribosomal	88.96

>PTZ00471 60S ribosomal protein L27; Provisional

Probab=100.00  E-value=5.7e-55  Score=318.14  Aligned_cols=103  Identities=40%  Similarity=0.640  Sum_probs=101.7

Q ss_pred             CcccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc----------------------------CCcee
Q 035907            1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK----------------------------NYQHL   52 (105)
Q Consensus         1 m~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~----------------------------N~nHl   52 (105)
                      |+|||+||+|||||+|||||||||||+++||||+||||+|||||||+                            |||||
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            99999999999999999999999999999999999999999999998                            99999


Q ss_pred             eeeceEeecCCccccCcccccChhhHHHHHHHHHHHHHHHHhcCCceeeeeC
Q 035907           53 MPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKNLGSLLS  104 (105)
Q Consensus        53 ~pTry~vdi~~k~~v~~~~~~d~~~k~~akk~~k~~feer~k~gknkwfF~k  104 (105)
                      |||||+||++ +++++.++|+||++|++|+++++..|||+|++|||+|||++
T Consensus        81 mPTRY~vdi~-~~~v~~~~~~d~~~k~~ar~~~k~~feer~k~gKn~wFF~k  131 (134)
T PTZ00471         81 LPTRYNMDMS-KELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQR  131 (134)
T ss_pred             cccceeeecc-ccccCHHHhhChHHHHHHHHHHHHHHHHHHhcCccceeeee
Confidence            9999999999 89999999999999999999999999999999999999997

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

Probab=100.00  E-value=6.6e-48  Score=281.12  Aligned_cols=104  Identities=51%  Similarity=0.777  Sum_probs=102.4

Q ss_pred             CcccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc----------------------------CCcee
Q 035907            1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK----------------------------NYQHL   52 (105)
Q Consensus         1 m~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~----------------------------N~nHl   52 (105)
                      |+|||+||+||++|+||||||||||||++|||++|+||+|||||||+                            |||||
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            89999999999999999999999999999999999999999999999                            99999


Q ss_pred             eeeceEeecC-CccccCcccccChhhHHHHHHHHHHHHHHHHhcCCceeeeeC
Q 035907           53 MPTCYTLDVD-LKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKNLGSLLS  104 (105)
Q Consensus        53 ~pTry~vdi~-~k~~v~~~~~~d~~~k~~akk~~k~~feer~k~gknkwfF~k  104 (105)
                      |||||++|++ ++++++.|+|++|++|..++++++..|||+|++|+|+|||++
T Consensus        81 MptRy~vdv~~~k~v~~kdv~~~p~~K~~a~~~~k~kfeer~k~gkn~wff~~  133 (136)
T KOG3418|consen   81 MPTRYTVDVLALKTVINKDVFRDPVKKGTAIKEAKVKFEERYKTGKNKWFFTK  133 (136)
T ss_pred             cCcceEEeehhhhccccHHhhhChhhhhhhhhHHHHHHHHHHHhCcccccccc
Confidence            9999999999 689999999999999999999999999999999999999987

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

Probab=99.89  E-value=2.4e-26  Score=156.56  Aligned_cols=57  Identities=46%  Similarity=0.655  Sum_probs=51.6

Q ss_pred             CCceeeeeceEeecC-CccccCcccccChhhHHHHHHHHHHHHHHHHhcCCceeeeeC
Q 035907           48 NYQHLMPTCYTLDVD-LKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGKNLGSLLS  104 (105)
Q Consensus        48 N~nHl~pTry~vdi~-~k~~v~~~~~~d~~~k~~akk~~k~~feer~k~gknkwfF~k  104 (105)
                      ||||||||||+||++ ++++|++|+|+||+.|++|+++++..|||+|++|||+|||++
T Consensus        25 NynHlmPTRY~vd~~~~k~~v~~~~l~~~~~kk~a~k~~k~~feer~k~gKnkwFF~K   82 (85)
T PF01777_consen   25 NYNHLMPTRYSVDIPDDKTVVNKDALKDPSKKKKAKKEIKKKFEERYKTGKNKWFFQK   82 (85)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             eccceEeeeeeeechhhhcccCHHHHhChHHHHHHHHHHHHHHHHHhccCCCcEEeee
Confidence            999999999999995 689999999999999999999999999999999999999987

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=99.75  E-value=1.6e-18  Score=125.50  Aligned_cols=97  Identities=28%  Similarity=0.322  Sum_probs=72.0

Q ss_pred             CcccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc----CCceeeeeceEeecCC---ccc-------
Q 035907            1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK----NYQHLMPTCYTLDVDL---KEV-------   66 (105)
Q Consensus         1 m~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~----N~nHl~pTry~vdi~~---k~~-------   66 (105)
                      |.+++.||+||++++|||||+++|||+++||+ .-.+.++.+|+|+.    |++|++||...++++=   ...       
T Consensus         1 ~~~~l~~GrVvvv~~GR~aGkk~VIv~~iDd~-~v~i~gp~~v~gv~r~r~n~~~l~~t~~~~~~~rg~~~~~v~~~~~a   79 (125)
T COG2163           1 MRASLEVGRVVVVTAGRFAGKKVVIVKIIDDN-FVLITGPKKVKGVPRRRINIKHLEPTDKVIDLVRGASDEKVKKANEA   79 (125)
T ss_pred             CCccccCCeEEEEecceeCCceEEEEEEccCC-EEEEeCCccccCCccccccceeeeccceeeeecccccHHHHHHHHHh
Confidence            78899999999999999999999999999995 22333344444444    9999999999887651   111       


Q ss_pred             -------------cCcccccChhhHHHHHHHHHHHHHHHHhcCCc
Q 035907           67 -------------VTTNSLQSKDKKVTACEETKKHLEEKFKTGKN   98 (105)
Q Consensus        67 -------------v~~~~~~d~~~k~~akk~~k~~feer~k~gkn   98 (105)
                                   +..+.+..+..+-+..+..+..++|+|..|++
T Consensus        80 ~~~~~~~~~~~~~~~~k~~~~~~~~~~r~~~~k~~~~~~~~~~k~  124 (125)
T COG2163          80 AGVLAKLDKSAKNLETKKVREPLTDAERFKVMKLVKEERLQVGKA  124 (125)
T ss_pred             hhhhccccccchhhhhhhhhcccchHHHHHHHHHHHHHHhhhhcc
Confidence                         22233444556666667789999999999986

>PRK04333 50S ribosomal protein L14e; Validated

Probab=99.40  E-value=5.4e-13  Score=90.68  Aligned_cols=52  Identities=31%  Similarity=0.478  Sum_probs=48.6

Q ss_pred             cccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc---------CCceeeeeceEeecC
Q 035907            4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK---------NYQHLMPTCYTLDVD   62 (105)
Q Consensus         4 ~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~---------N~nHl~pTry~vdi~   62 (105)
                      -+++|+||++++||++|+.+||++.+|+       +++||+|+.         |.+||.+|...++++
T Consensus         3 ~v~~GrvV~~~~Grd~gk~~vIv~i~d~-------~~vlVdg~~~~~~~rk~kn~khl~lt~~ki~~~   63 (84)
T PRK04333          3 AIEVGRVCVKTAGREAGRKCVIVDIIDK-------NFVLVTGPSLTGVKRRRCNIKHLEPTDKKVDIE   63 (84)
T ss_pred             cccccEEEEEeccCCCCCEEEEEEEecC-------CEEEEECCCcCCCCCeeechHHEEEeeEEEECC
Confidence            4689999999999999999999999999       899999994         999999999999875

>PTZ00065 60S ribosomal protein L14; Provisional

Probab=99.19  E-value=3.9e-11  Score=87.62  Aligned_cols=54  Identities=17%  Similarity=0.269  Sum_probs=51.2

Q ss_pred             ccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc---------CCceeeeeceEeecCC
Q 035907            3 TFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK---------NYQHLMPTCYTLDVDL   63 (105)
Q Consensus         3 k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~---------N~nHl~pTry~vdi~~   63 (105)
                      +|+++||||++..|.|+|+-||||..+|.       +.+||.|++         |++||.||.+.++|+-
T Consensus         6 rfVEiGRVvli~~Gp~~GKL~vIVDIID~-------nRvLVDGP~~tgV~Rq~i~~k~l~LT~~~v~i~r   68 (130)
T PTZ00065          6 RFVEPGRLCLIQYGPDAGKLCFIVDIVTP-------TRVLVDGAFITGVKRQSIPLKRLKLTDEKIKINR   68 (130)
T ss_pred             cceeeceEEEEecCCCCCCEEEEEEEEcC-------CeEEEeCCCcCCcceeEEeccceEEccEEEecCC
Confidence            58999999999999999999999999999       899999992         9999999999999983

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

Probab=97.72  E-value=0.00012  Score=54.13  Aligned_cols=55  Identities=20%  Similarity=0.279  Sum_probs=51.2

Q ss_pred             cccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc--------CCceeeeeceEeecCC
Q 035907            2 VTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK--------NYQHLMPTCYTLDVDL   63 (105)
Q Consensus         2 ~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~--------N~nHl~pTry~vdi~~   63 (105)
                      ..+...|+|+++..|-|+||=++||..+|+       +.+||-|+.        |++-+.-|-|.++++.
T Consensus         4 ~r~veVGrva~v~~G~~~GkL~AIVdviDq-------nr~lvDGp~t~v~rq~~~~~~~~LT~~~~kfp~   66 (136)
T KOG3421|consen    4 KRFVEVGRVALVSFGPDAGKLVAIVDVIDQ-------NRALVDGPCTGVPRQAMNLKCLQLTDFVLKFPR   66 (136)
T ss_pred             hhhhhcceEEEEEecCCCceEEEEEEeecc-------hhhhccCcccccchhhcchhheeeeeeeEeccc
Confidence            457899999999999999999999999999       889999996        9999999999999986

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

Probab=96.75  E-value=0.0032  Score=35.15  Aligned_cols=26  Identities=12%  Similarity=0.097  Sum_probs=24.0

Q ss_pred             CcEEEEEeccccCCceEEEeeecCCC
Q 035907            7 PNKAVILLQGRNASRKAVIMKSFDDG   32 (105)
Q Consensus         7 pgkVvivL~Gr~aGkKaVivk~~d~g   32 (105)
                      ||..|.|++|+|+|+.+.|++..++.
T Consensus         1 ~Gd~V~V~~G~~~G~~G~I~~i~~~~   26 (32)
T PF00467_consen    1 VGDTVKVISGPFKGKIGKIVEIDRSK   26 (32)
T ss_dssp             TTSEEEESSSTTTTEEEEEEEEETTT
T ss_pred             CCCEEEEeEcCCCCceEEEEEEECCC
Confidence            68899999999999999999988874

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 ....

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

Probab=96.29  E-value=0.0075  Score=31.54  Aligned_cols=26  Identities=8%  Similarity=0.161  Sum_probs=23.2

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecC
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFD   30 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d   30 (105)
                      +++|..|.|+.|.|+|..++|++..+
T Consensus         2 ~~~G~~V~I~~G~~~g~~g~i~~i~~   27 (28)
T smart00739        2 FEVGDTVRVIAGPFKGKVGKVLEVDG   27 (28)
T ss_pred             CCCCCEEEEeECCCCCcEEEEEEEcC
Confidence            57999999999999999999997643

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

>PRK12281 rplX 50S ribosomal protein L24; Reviewed

Probab=95.22  E-value=0.034  Score=37.07  Aligned_cols=47  Identities=13%  Similarity=0.294  Sum_probs=38.7

Q ss_pred             cccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeeec
Q 035907            4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPTC   56 (105)
Q Consensus         4 ~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pTr   56 (105)
                      -+++|--|+|++|++.|+.+.|++...+.      +.++|-|+. --.|+=|+.
T Consensus         6 ~I~kGD~V~Vi~G~dKGK~G~V~~V~~~~------~~V~Vegvn~~kkh~kp~~   53 (76)
T PRK12281          6 KVKKGDMVKVIAGDDKGKTGKVLAVLPKK------NRVIVEGVKIAKKAIKPSQ   53 (76)
T ss_pred             cccCCCEEEEeEcCCCCcEEEEEEEEcCC------CEEEEcCcEEEEEEcCCCc
Confidence            47889999999999999999999987664      579999997 445665665

>CHL00141 rpl24 ribosomal protein L24; Validated

Probab=94.93  E-value=0.053  Score=36.63  Aligned_cols=38  Identities=16%  Similarity=0.343  Sum_probs=33.6

Q ss_pred             cccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         4 ~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      -+++|--|.|++|++.|+.+.|++...+.      +.++|-|+.
T Consensus         8 ~I~~GD~V~Vi~G~dKGK~G~V~~V~~~~------~~V~Vegvn   45 (83)
T CHL00141          8 HVKIGDTVKIISGSDKGKIGEVLKIIKKS------NKVIVKGIN   45 (83)
T ss_pred             cccCCCEEEEeEcCCCCcEEEEEEEEcCC------CEEEEcCcE
Confidence            57899999999999999999999987764      579999986

>PRK01191 rpl24p 50S ribosomal protein L24P; Validated

Probab=94.12  E-value=0.1  Score=37.90  Aligned_cols=37  Identities=11%  Similarity=0.218  Sum_probs=32.9

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ++.|-.|.|++|.+.|+.+-|++...+.      +.++|-||.
T Consensus        46 IkkGD~V~VisG~~KGk~GkV~~V~~~~------~~V~VeGvn   82 (120)
T PRK01191         46 VRKGDTVKVMRGDFKGEEGKVVEVDLKR------GRIYVEGVT   82 (120)
T ss_pred             EeCCCEEEEeecCCCCceEEEEEEEcCC------CEEEEeCcE
Confidence            6789999999999999999999997664      579999987

>PRK00004 rplX 50S ribosomal protein L24; Reviewed

Probab=93.91  E-value=0.13  Score=35.93  Aligned_cols=40  Identities=15%  Similarity=0.426  Sum_probs=34.9

Q ss_pred             cccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            2 VTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         2 ~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ..-+++|--|.|++|++.|+.+.|++.+.+.      +.++|-|+.
T Consensus         2 ~~~i~kGD~V~Vi~G~dKGk~G~V~~V~~~~------~~V~Vegvn   41 (105)
T PRK00004          2 MMKIKKGDTVIVIAGKDKGKRGKVLKVLPKK------NKVIVEGVN   41 (105)
T ss_pred             CCcccCCCEEEEeEcCCCCcEEEEEEEEcCC------CEEEEcCcE
Confidence            3457899999999999999999999998764      679999986

>TIGR01079 rplX_bact ribosomal protein L24, bacterial/organelle

Probab=93.46  E-value=0.15  Score=35.69  Aligned_cols=38  Identities=13%  Similarity=0.390  Sum_probs=33.6

Q ss_pred             cccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         4 ~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      -+++|--|.|++|++.|+.+.|++.+.+.      +.++|-|+.
T Consensus         3 ~ikkGD~V~Vi~G~dKGK~G~V~~V~~~~------~~V~VegvN   40 (104)
T TIGR01079         3 KIKKGDTVKVISGKDKGKRGKVLKVLPKT------NKVIVEGVN   40 (104)
T ss_pred             cccCCCEEEEeEcCCCCcEEEEEEEEcCC------CEEEECCcE
Confidence            47889999999999999999999998764      679999996

This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes.

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

Probab=93.35  E-value=0.027  Score=40.05  Aligned_cols=29  Identities=17%  Similarity=0.303  Sum_probs=24.3

Q ss_pred             CCceeeeeceEeecC-C--ccccCcccccChh
Q 035907           48 NYQHLMPTCYTLDVD-L--KEVVTTNSLQSKD   76 (105)
Q Consensus        48 N~nHl~pTry~vdi~-~--k~~v~~~~~~d~~   76 (105)
                      |++|+++|+.+|||+ +  .+.+|+++|+...
T Consensus        10 nQ~yVIATSTkvDis~v~ip~~~~D~YF~~~~   41 (108)
T PF01159_consen   10 NQAYVIATSTKVDISGVKIPEKIDDAYFKRKK   41 (108)
T ss_dssp             SSCCCEECSCESCHCCHHH-CCTTGSSSCHCC
T ss_pred             ccceEEEEeeEEeccccchhhccchHHHHhhh
Confidence            999999999999998 3  5779999997555

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.

>PTZ00194 60S ribosomal protein L26; Provisional

Probab=93.00  E-value=0.18  Score=37.66  Aligned_cols=45  Identities=11%  Similarity=0.282  Sum_probs=36.8

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeee
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPT   55 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pT   55 (105)
                      ++-|-.|+|++|.+.|+.+-|++.+...      +.++|-||. .-.|--|.
T Consensus        47 IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~------~~ViVEgvn~~Kk~gk~~   92 (143)
T PTZ00194         47 VRKDDEVMVVRGHHKGREGKVTAVYRKK------WVIHIEKITREKANGEPV   92 (143)
T ss_pred             eecCCEEEEecCCCCCCceEEEEEEcCC------CEEEEeCeEEEecCCCEe
Confidence            6778999999999999999999987654      679999998 44555553

>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic

Probab=92.51  E-value=0.24  Score=35.46  Aligned_cols=37  Identities=11%  Similarity=0.113  Sum_probs=32.1

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ++.|--|.|++|.+.|+.+.|++...+.      +.++|-||.
T Consensus        42 IkkGD~V~Vi~Gk~KGk~GkV~~V~~~~------~~V~Vegvn   78 (114)
T TIGR01080        42 VRKGDKVRIMRGDFKGHEGKVSKVDLKR------YRIYVEGVT   78 (114)
T ss_pred             eecCCEEEEecCCCCCCEEEEEEEEcCC------CEEEEcCeE
Confidence            6789999999999999999999987553      568999987

This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by the related TIGR01079.

>COG0198 RplX Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]

Probab=88.96  E-value=0.8  Score=32.48  Aligned_cols=38  Identities=13%  Similarity=0.327  Sum_probs=33.5

Q ss_pred             cccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            2 VTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         2 ~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ..-++-|-.|+|++|.+.|+.+.|++.+..       . ++|-|+.
T Consensus         2 ~~~IrkGD~V~Vi~GkdKGk~GkVl~v~~k-------~-V~VEGvn   39 (104)
T COG0198           2 KMKVKKGDTVKVIAGKDKGKEGKVLKVLPK-------K-VVVEGVN   39 (104)
T ss_pred             CcceecCCEEEEEecCCCCcceEEEEEecC-------e-EEEECcE
Confidence            345678899999999999999999999987       4 9999988

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	105
3izr_a	136	Localization Of The Large Subunit Ribosomal Protein		2e-29
3izs_a	136	Localization Of The Large Subunit Ribosomal Protein		2e-15
4a18_N	144	T.Thermophila 60s Ribosomal Subunit In Complex With		5e-11
3zf7_a	133	High-resolution Cryo-electron Microscopy Structure		5e-10

>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 =  124 bits (310), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 67/127 (52%), Positives = 81/127 (63%), Gaps = 29/127 (22%)
Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA---------------- 44
           MV FLKP KAVILLQGR A RKAVI++ F++GTR+RP GHCLVA                
Sbjct: 1   MVKFLKPGKAVILLQGRFAGRKAVIVRVFEEGTRDRPYGHCLVAGLAKYPKKVIRKDSAK 60
Query: 45  ------RIK------NYQHLMPTCYTLDVDLKEVVT-TNSLQSKDKKVTACEETKKHLEE 91
                 R+K      N+ HLMPT YTLDVDLKEV    ++L ++DKKV AC+  K  LE+
Sbjct: 61  KTAKKSRVKCFLKLVNFTHLMPTRYTLDVDLKEVAAGPDALATRDKKVAACKSAKARLED 120
Query: 92  KFKTGKN 98
           +FKTGKN
Sbjct: 121 RFKTGKN 127

>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 = 77.4 bits (189), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 64/127 (50%), Gaps = 29/127 (22%)
Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           M  FLK  K  ++++GR A +K VI+K  D+G++  P GH LVA I+             
Sbjct: 1   MAKFLKAGKVAVVVRGRYAGKKVVIVKPHDEGSKSHPFGHALVAGIERYPLKVTKKHGAK 60
Query: 48  ---------------NYQHLMPTCYTLDVD-LKEVVTTNSLQSKDKKVTACEETKKHLEE 91
                          NY HL+PT YTLDV+  K VV+T + +   ++  A +  KK  EE
Sbjct: 61  KVAKRTKIKPFIKVVNYNHLLPTRYTLDVEAFKSVVSTETFEQPSQREEAKKVVKKAFEE 120
Query: 92  KFKTGKN 98
           + + GKN
Sbjct: 121 RHQAGKN 127

>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 = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 43/125 (34%), Positives = 63/125 (50%), Gaps = 31/125 (24%)
Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           M  FLK  + VILLQGR A +KAVI+KS +DGT++R  GH LVA ++             
Sbjct: 1   MAKFLKYGRVVILLQGRFAGKKAVIVKSSEDGTKDRKFGHVLVAGVERSPKKVTKRMGSK 60
Query: 48  ---------------NYQHLMPTCYTLD--VDLKEVVTTNSLQSKDKKVTACEETKKHLE 90
                          N  H+MPT Y++    D KE+V  + +++ + K    +  KK   
Sbjct: 61  KIQKRTSVKPFIKYVNLNHIMPTRYSVKELCDFKELVKEDKIKN-NAKSEVRDTLKKVFV 119
Query: 91  EKFKT 95
           EK++T
Sbjct: 120 EKYRT 124

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

Iteration: 1
 Score = 59.3 bits (142), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 36/123 (29%), Positives = 58/123 (47%), Gaps = 29/123 (23%)
Query: 4   FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK---------------- 47
           FLKP K VI+  GR A +KAVI+++ D   +ERP GH L+A IK                
Sbjct: 3   FLKPGKVVIMTSGRYAGKKAVIVQNTDTRNKERPYGHSLLAGIKKYPRKVVRGMSKRSIT 62
Query: 48  ------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKT 95
                       N++H +PT Y +D+  +E+    ++    KK  + +  K+  + ++  
Sbjct: 63  RRSQVGVFLRVVNHKHFLPTRYNMDLS-RELRGRINVSDASKKAKSKQLVKRLFQARYNA 121
Query: 96  GKN 98
           G N
Sbjct: 122 GNN 124

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	105
3iz5_A	216	60S ribosomal protein L1 (L1P); eukaryotic ribosom	3e-26
3izc_a	136	60S ribosomal protein RPL27 (L27E); eukaryotic rib	3e-26
4a18_N	144	RPL27, ribosomal protein L22; ribosome, eukaryotic	2e-22

>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 Length = 144

 Score = 84.1 bits (207), Expect = 2e-22
 Identities = 43/125 (34%), Positives = 62/125 (49%), Gaps = 31/125 (24%)

Query: 1   MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
           M  FLK  + VILLQGR A +KAVI+KS +DGT++R  GH LVA ++             
Sbjct: 1   MAKFLKYGRVVILLQGRFAGKKAVIVKSSEDGTKDRKFGHVLVAGVERSPKKVTKRMGSK 60

Query: 48  ---------------NYQHLMPTCYTLD--VDLKEVVTTNSLQSKDKKVTACEETKKHLE 90
                          N  H+MPT Y++    D KE+V  + +++  K     +  KK   
Sbjct: 61  KIQKRTSVKPFIKYVNLNHIMPTRYSVKELCDFKELVKEDKIKNNAKS-EVRDTLKKVFV 119

Query: 91  EKFKT 95
           EK++T
Sbjct: 120 EKYRT 124

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	105
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	99.87
2joy_A	96	50S ribosomal protein L14E; protein solution struc	99.81
3iz5_N	134	60S ribosomal protein L14 (L14E); eukaryotic ribos	99.78
3izc_N	138	60S ribosomal protein RPL14 (L14E); eukaryotic rib	99.71
3j21_5	83	50S ribosomal protein L14E; archaea, archaeal, KIN	99.65
4a18_F	126	RPL14; ribosome, eukaryotic initiation factor 6, E	99.64
3izc_G	176	60S ribosomal protein RPL6 (L6E); eukaryotic ribos	99.6
3iz5_G	219	60S ribosomal protein L6 (L6E); eukaryotic ribosom	99.59
2zjr_R	115	50S ribosomal protein L24; ribosome, large ribosom	94.57
3v2d_Y	110	50S ribosomal protein L24; ribosome associated inh	94.17
3r8s_U	102	50S ribosomal protein L24; protein biosynthesis, R	94.12
3j21_U	121	50S ribosomal protein L24P; archaea, archaeal, KIN	93.69
1vq8_T	120	50S ribosomal protein L24P; ribosome 50S, protein-	93.66
2zkr_t	145	60S ribosomal protein L26; protein-RNA complex, 60	93.44
2ftc_N	96	Mitochondrial ribosomal protein L24; mitochondrial	92.18
3u5e_Y	127	L33, YL33, 60S ribosomal protein L26-A; translatio	91.96
3iz5_Y	150	60S ribosomal protein L26 (L24P); eukaryotic ribos	91.91
2do3_A	69	Transcription elongation factor SPT5; KOW motif, s	91.66
4a17_S	135	RPL26, 60S ribosomal protein L21; eukaryotic ribos	91.65
3bbo_W	191	Ribosomal protein L24; large ribosomal subunit, sp	88.26

>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=1.1e-49  Score=292.28  Aligned_cols=104  Identities=40%  Similarity=0.593  Sum_probs=100.7

Q ss_pred             CcccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc----------------------------CCcee
Q 035907            1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK----------------------------NYQHL   52 (105)
Q Consensus         1 m~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~----------------------------N~nHl   52 (105)
                      |++|++||+|||||+|||||||||||+++|+||+||||+||||+||+                            |||||
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            99999999999999999999999999999999999999999999976                            99999


Q ss_pred             eeeceEe--ecCCccccCcccccChhhHHHHHHHHHHHHHHHH--------hcCCceeeeeCC
Q 035907           53 MPTCYTL--DVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKF--------KTGKNLGSLLSS  105 (105)
Q Consensus        53 ~pTry~v--di~~k~~v~~~~~~d~~~k~~akk~~k~~feer~--------k~gknkwfF~k~  105 (105)
                      |||||+|  ||+|+++|++|.|+| ++|++|+++++..|||+|        ++|+|+|||++.
T Consensus        81 ~pTry~v~~di~lK~~v~~d~~~~-~~k~~a~~~~k~~feery~~~~~~~kk~gknkwfF~kL  142 (144)
T 4a18_N           81 MPTRYSVKELCDFKELVKEDKIKN-NAKSEVRDTLKKVFVEKYRTINPEEKSASHTKFFFSKL  142 (144)
T ss_dssp             EEEEEECSTTCCHHHHSCHHHHHT-TCHHHHHHHHHHHHHHHHHTCCTTCHHHHHHHHHHCCC
T ss_pred             EEeeEEeeccCchhhccCHHHhhh-hHhHHHHHHHHHHHHHHhhhccccccccCCceEeeeec
Confidence            9999999  999999999999999 999999999999999999        999999999973

>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=99.87  E-value=1.9e-22  Score=153.37  Aligned_cols=67  Identities=21%  Similarity=0.331  Sum_probs=60.5

Q ss_pred             CcccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc----------CCceeeeeceEeecC-Cc-cccC
Q 035907            1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK----------NYQHLMPTCYTLDVD-LK-EVVT   68 (105)
Q Consensus         1 m~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~----------N~nHl~pTry~vdi~-~k-~~v~   68 (105)
                      |.++|+||+|||+|+|||||+|||+||++|+       +++||+|+.          |++|+|||||+|||+ ++ ..+|
T Consensus        41 lr~si~pGtVlIiL~Gr~~GKrvV~LKql~s-------gllLVtGP~~vn~vplrrvn~~~vi~TstkvDis~vki~~~~  113 (191)
T 4a18_E           41 LRNDIAPGTVLILLAGRFRGKRVVFLKQLKS-------GLLLVTGPYKVNGVPLKRVNQAYTLSTSTKVDLTGVNTAKFE  113 (191)
T ss_dssp             CCTTCCTTEEEEECSSTTTTBEEEEEEECTT-------SCEEEECCTTTSSCCSEEECGGGEEEEEEECCCTTCCGGGCC
T ss_pred             hhccccCCCEEEEeccccCCCEEEEEEecCC-------CeEEEecCccccCCceEEEeeeeEEeeeeEeecccccccccC
Confidence            5679999999999999999999999999999       789999976          999999999999998 64 4488


Q ss_pred             cccccC
Q 035907           69 TNSLQS   74 (105)
Q Consensus        69 ~~~~~d   74 (105)
                      +++|+.
T Consensus       114 d~YF~k  119 (191)
T 4a18_E          114 DDYFGR  119 (191)
T ss_dssp             GGGSCC
T ss_pred             HHHhcc
Confidence            888874

>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=99.81  E-value=1.5e-20  Score=128.75  Aligned_cols=54  Identities=33%  Similarity=0.491  Sum_probs=51.5

Q ss_pred             CcccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc----------CCceeeeeceEeecC
Q 035907            1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK----------NYQHLMPTCYTLDVD   62 (105)
Q Consensus         1 m~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~----------N~nHl~pTry~vdi~   62 (105)
                      |+ +++||+||++++||||||++|||+++|+       +|+||+|++          |++||+||+|++|++
T Consensus         1 M~-~v~~GrVv~~~~Gr~~Gk~~VIv~~iD~-------~~vLV~gp~~~~~~~rk~~n~khl~~T~~~vdi~   64 (96)
T 2joy_A            1 MP-AIEVGRICVKVKGREAGSKCVIVDIIDD-------NFVLVTGPKDITGVKRRRVNILHLEPTDKKIDIQ   64 (96)
T ss_dssp             CC-SSSTTEEEECSSSSTTCCEEEEEEECSS-------SCEEEECCTTTTCCCCEEESCSSCEEEEEECCCC
T ss_pred             CC-ccccCEEEEEeecCCCCCEEEEEEEeCC-------CEEEEECCcccCCcCCEEEchHHEEEeeEEEeCC
Confidence            77 9999999999999999999999999999       689999996          999999999999965

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

Probab=99.65  E-value=1.3e-16  Score=107.09  Aligned_cols=54  Identities=24%  Similarity=0.446  Sum_probs=49.5

Q ss_pred             CcccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc---------CCceeeeeceEeecC
Q 035907            1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK---------NYQHLMPTCYTLDVD   62 (105)
Q Consensus         1 m~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~---------N~nHl~pTry~vdi~   62 (105)
                      |. +++||+||++++|||||+++|||+++|+       +|+||+|+.         |.+||.||.+.++++
T Consensus         1 m~-~~~~Grvv~~~~Gr~~Gk~~vIv~iiD~-------~~vlV~g~~~~~v~rk~kn~khl~lt~~~i~~~   63 (83)
T 3j21_5            1 MP-AIDVGRIAVVIAGRRAGQKVVVVDIIDK-------NFVLVTGAGLNKVKRRRMNIKHIEPLPQKIDIP   63 (83)
T ss_dssp             ---CCCTTEEEECSSSSSSCCCEEEEEECSS-------SCEEEECCTTTTCCCEEESCSSCEEEEEECCCC
T ss_pred             CC-ccccCEEEEEeecCCCCCEEEEEEEcCC-------CEEEEECCccCccCCeEechHHEEEeeEEEECC
Confidence            56 9999999999999999999999999999       799999985         999999999998865

>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=99.64  E-value=1.7e-16  Score=114.12  Aligned_cols=55  Identities=20%  Similarity=0.355  Sum_probs=52.1

Q ss_pred             cccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc------CCceeeeeceEee-cCC
Q 035907            2 VTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------NYQHLMPTCYTLD-VDL   63 (105)
Q Consensus         2 ~k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~------N~nHl~pTry~vd-i~~   63 (105)
                      -+|+++||||+++.|+|||+.||||+.+|+       ++|||.|+.      |++||+||+|.++ |+-
T Consensus         4 ~rfvevGRVv~i~~G~~aGklavIVdIID~-------nrvLVdGp~V~Rq~~n~k~l~LT~~~v~~i~r   65 (126)
T 4a18_F            4 NKFVQVGRVVYINYGADKGKLAVIVNIINQ-------NRILIDGEHIVRQVIPIRRVHLTKFQIDNVEL   65 (126)
T ss_dssp             CCEEETTEEEEECSSTTTTEEEEEEEEETT-------TEEEEEETTEEEEEEEGGGEEEEEEECTTCCT
T ss_pred             ccceecceEEEEccCCccCCEEEEEEEecC-------CeEEEeCCCcccceeeccceEEcceeccccCC
Confidence            479999999999999999999999999999       799999986      9999999999998 984

>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S* 1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R* 3pio_R* 3pip_R* 1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V

Probab=94.57  E-value=0.034  Score=38.73  Aligned_cols=47  Identities=15%  Similarity=0.360  Sum_probs=39.4

Q ss_pred             cccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeeec
Q 035907            4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPTC   56 (105)
Q Consensus         4 ~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pTr   56 (105)
                      -++.|--|+|++|++.|+.+-|++.+.+.      +.++|-|+. -..|.-|+.
T Consensus        15 ~IkkGD~V~Vi~GkdKGk~GkV~~V~~~~------~~V~VEGvN~~kkh~kp~~   62 (115)
T 2zjr_R           15 HFKKGDTVIVLSGKHKGQTGKVLLALPRD------QKVVVEGVNVITKNVKPSM   62 (115)
T ss_dssp             SSCTTSEEECCSSSSTTCEEEEEEEETTT------TEEEESSSCBCCCCCCTTS
T ss_pred             cccCCCEEEEeEcCCCCcEEEEEEEECCC------CEEEEeCcEeEEEecCCCc
Confidence            47889999999999999999999998664      679999998 446776664

>3v2d_Y 50S ribosomal protein L24; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_S 2hgj_X 2hgq_X 2hgu_X 1vsa_S 2j03_Y 2jl6_Y 2jl8_Y 2v47_Y 2v49_Y 2wdi_Y 2wdj_Y 2wdl_Y 2wdn_Y 2wh2_Y 2wh4_Y 2wrj_Y 2wrl_Y 2wro_Y 2wrr_Y ...

Probab=94.17  E-value=0.031  Score=38.77  Aligned_cols=47  Identities=11%  Similarity=0.157  Sum_probs=38.8

Q ss_pred             cccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEecccC-Cceeeeec
Q 035907            4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKN-YQHLMPTC   56 (105)
Q Consensus         4 ~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~N-~nHl~pTr   56 (105)
                      -++.|--|+|++|++.|+.+-|++.+.+.      +.++|-|+.- ..|.-|+.
T Consensus         6 ~IkkGD~V~Vi~GkdKGk~GkV~~V~~~~------~~ViVEGvN~~kkh~kp~~   53 (110)
T 3v2d_Y            6 HVKKGDTVLVASGKYKGRVGKVKEVLPKK------YAVIVEGVNIVKKAVRVSP   53 (110)
T ss_dssp             SCCTTSEEEECSSTTTTCEEEEEEEEGGG------TEEEETTSSEEEEECCSSS
T ss_pred             ccCCCCEEEEeEcCCCCeEeEEEEEECCC------CEEEEeCEEEEEEEeCCCc
Confidence            37889899999999999999999998763      5799999983 35776665

>3r8s_U 50S ribosomal protein L24; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 2j28_U* 3fik_U 3j19_U 2wwq_U 3oat_U* 3oas_U* 3ofd_U 3ofc_U 3ofr_U* 3ofz_U* 3og0_U 3ofq_U 3r8t_U 3i1n_U 1vs8_U 1vs6_U 1vt2_U 3i1p_U 3i1r_U 3i1t_U ...

Probab=94.12  E-value=0.054  Score=37.04  Aligned_cols=46  Identities=20%  Similarity=0.431  Sum_probs=38.3

Q ss_pred             cccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeeec
Q 035907            4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPTC   56 (105)
Q Consensus         4 ~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pTr   56 (105)
                      -++.|--|+|++|++.|+...|++.+.+       +.++|-|+. --.|.-|+.
T Consensus         3 ~IkkGD~V~Vi~GkdKGk~GkV~~V~~~-------~~ViVeGvN~~kkh~kp~~   49 (102)
T 3r8s_U            3 KIRRDDEVIVLTGKDKGKRGKVKNVLSS-------GKVIVEGINLVKKHQKPVP   49 (102)
T ss_dssp             SSCSSCEEEECSSSSTTCEEEEEEEETT-------TEEEETTCSEEEEEECCCS
T ss_pred             CccCCCEEEEeEcCCCCeeeEEEEEEeC-------CEEEEeCeEEEEeccccCc
Confidence            3678888999999999999999999887       469999997 445776665

>3j21_U 50S ribosomal protein L24P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=93.69  E-value=0.074  Score=37.43  Aligned_cols=37  Identities=8%  Similarity=0.091  Sum_probs=32.6

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ++.|--|+|++|++.|+.+.|++.+.+.      +.++|-||.
T Consensus        46 IkkGD~V~Vi~GkdKGk~GkV~~V~~k~------~~V~VEgvn   82 (121)
T 3j21_U           46 VRVGDKVRIMRGDYKGHEGKVVEVDLKR------YRIYVEGAT   82 (121)
T ss_dssp             CCSSSEEEECSSSCSSEEEEEEEEETTT------TEEEETTCE
T ss_pred             cccCCEEEEeecCCCCcEeEEEEEEecC------CEEEEeCeE
Confidence            6788889999999999999999998654      679999987

>1vq8_T 50S ribosomal protein L24P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB: 1vq4_T* 1vq5_T* 1vq6_T* 1vq7_T* 1s72_T* 1vq9_T* 1vqk_T* 1vql_T* 1vqm_T* 1vqn_T* 1vqo_T* 1vqp_T* 1yhq_T* 1yi2_T* 1yij_T* 1yit_T* 1yj9_T* 1yjn_T* 1yjw_T* 2otj_T* ...

Probab=93.66  E-value=0.082  Score=37.18  Aligned_cols=37  Identities=16%  Similarity=0.190  Sum_probs=32.7

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ++.|-.|+|++|.|.|+.+-|++.+.+.      +.++|-|+.
T Consensus        43 IkkGD~V~Vi~G~dKGk~GkV~~V~~k~------~~V~VEgvn   79 (120)
T 1vq8_T           43 VNAGDTVEVLRGDFAGEEGEVINVDLDK------AVIHVEDVT   79 (120)
T ss_dssp             CCTTCEEEECSSTTTTCEEEEEEEETTT------TEEEETTCE
T ss_pred             ccCCCEEEEEecCCCCCEEEEEEEECCC------CEEEEeCeE
Confidence            6789999999999999999999998653      679999984

>2zkr_t 60S ribosomal protein L26; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=93.44  E-value=0.081  Score=38.34  Aligned_cols=37  Identities=8%  Similarity=0.330  Sum_probs=33.0

Q ss_pred             ccCcEEEEEeccccCCce-EEEeeecCCCCCCCCCceEEEeccc
Q 035907            5 LKPNKAVILLQGRNASRK-AVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkK-aVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ++.|-.|+|++|.+.|+. +.|++.+.+.      +.++|-|+.
T Consensus        49 IkkGD~V~Vi~GkdKGk~~GkV~~V~~k~------~~V~VEgvn   86 (145)
T 2zkr_t           49 IRKDDEVQVVRGHYKGQQIGKVVQVYRKK------YVIYIERVQ   86 (145)
T ss_dssp             CCTTCEEEECSSTTTTCCSEEEEEEETTT------TEEEETTCE
T ss_pred             cCCCCEEEEeecCCCCcceeEEEEEECCC------CEEEEeeeE
Confidence            788999999999999999 9999998654      679999987

>2ftc_N Mitochondrial ribosomal protein L24; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_N

Probab=92.18  E-value=0.15  Score=34.37  Aligned_cols=41  Identities=17%  Similarity=0.414  Sum_probs=33.6

Q ss_pred             EEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeee
Q 035907            9 KAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPT   55 (105)
Q Consensus         9 kVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pT   55 (105)
                      --|+|++|++.|+.+-|++.+.+.      +.++|-|+. --.|.-|+
T Consensus         2 D~V~Vi~GkdKGk~GkV~~V~~~~------~~ViVeGvN~~kkh~kp~   43 (96)
T 2ftc_N            2 DTVEILEGKDAGKQGKVVQVIRQR------NWVVVGGLNTHYRYIGKT   43 (96)
T ss_pred             CEEEEeEcCCCCcEEEEEEEECCC------CEEEEeCCEEEEEEcCCC
Confidence            358899999999999999998664      679999997 34677675

>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L 2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 4b6a_Y 1s1i_U 3izc_Y 3izs_Y 3jyw_U

Probab=91.96  E-value=0.16  Score=36.04  Aligned_cols=37  Identities=11%  Similarity=0.273  Sum_probs=32.6

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ++.|--|+|++|.|.|+.+-|++.+.+.      +.++|-||.
T Consensus        50 IkkgD~V~Vi~GkdKGk~GkV~~V~~kk------~~V~VEgVn   86 (127)
T 3u5e_Y           50 IRRDDEVLVVRGSKKGQEGKISSVYRLK------FAVQVDKVT   86 (127)
T ss_dssp             CCTTCEEEECSSTTTTCEEEEEEEEGGG------TEEEEETCE
T ss_pred             ccCCCEEEEeecCCCCccceEEEEECCC------CEEEEeCeE
Confidence            5678889999999999999999998764      579999987

>2do3_A Transcription elongation factor SPT5; KOW motif, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: b.34.5.5

Probab=91.66  E-value=0.17  Score=32.61  Aligned_cols=30  Identities=17%  Similarity=0.344  Sum_probs=27.6

Q ss_pred             cccccCcEEEEEeccccCCceEEEeeecCC
Q 035907            2 VTFLKPNKAVILLQGRNASRKAVIMKSFDD   31 (105)
Q Consensus         2 ~k~~kpgkVvivL~Gr~aGkKaVivk~~d~   31 (105)
                      -|.+++|-=|-|++|||+|.-..||+.-|+
T Consensus        15 rK~F~~GDHVkVi~G~~~getGlVV~v~~d   44 (69)
T 2do3_A           15 RKYFKMGDHVKVIAGRFEGDTGLIVRVEEN   44 (69)
T ss_dssp             CSSCCTTCEEEESSSTTTTCEEEEEEECSS
T ss_pred             eeeccCCCeEEEeccEEcCceEEEEEEeCC
Confidence            478999999999999999999999998766

>4a17_S RPL26, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_S 4a1c_S 4a1e_S

Probab=91.65  E-value=0.22  Score=35.72  Aligned_cols=37  Identities=14%  Similarity=0.335  Sum_probs=32.6

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK   47 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~   47 (105)
                      ++-|--|+|++|.|.|+.+-|++.+.+.      +.++|-||.
T Consensus        49 IkkgD~V~Vi~GkdKGk~GkV~~V~~kk------~~V~VEgVn   85 (135)
T 4a17_S           49 VRKDDEVLIVRGKFKGNKGKVTQVYRKK------WAIHVEKIS   85 (135)
T ss_dssp             CCTTCEEEECSSTTTTCEEEEEEEETTT------TEEEETTCC
T ss_pred             ccCCCEEEEeecCCCCceeeEEEEEcCC------CEEEEeCeE
Confidence            5678889999999999999999998764      579999987

>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=88.26  E-value=0.084  Score=39.95  Aligned_cols=45  Identities=13%  Similarity=0.282  Sum_probs=36.3

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeee
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPT   55 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pT   55 (105)
                      ++.|--|+|++|++.|+.+.|++.+.+.      +.++|-|+. -..|.-|+
T Consensus        69 IkKGD~V~VIaGkDKGK~GkVl~V~~k~------~rViVEGVN~vkKH~Kp~  114 (191)
T 3bbo_W           69 VKVGDTVKVISGGEKGKIGEISKIHKHN------STVIIKDLNFKTKHVKSK  114 (191)
T ss_dssp             SCCSSCEEECSSSSTTCCCSCCCCCSSS------CCCCCSSCCCCCCBCCSC
T ss_pred             eecCCEEEEeecCCCCceEEEEEEECCC------CEEEEeCCEEEEEecCCc
Confidence            7889999999999999999999988653      568999987 33455554

---

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	105
d2joya1	96	b.34.5.7 (A:1-96) Ribosomal protein L14e {Sulfolob	0.004

>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 = 32.0 bits (73), Expect = 0.004
 Identities = 22/104 (21%), Positives = 37/104 (35%), Gaps = 27/104 (25%)

Query: 4  FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA----------RIKNYQHLM 53
           ++  +  + ++GR A  K VI+   DD          LV           R  N  HL 
Sbjct: 3  AIEVGRICVKVKGREAGSKCVIVDIIDD-------NFVLVTGPKDITGVKRRRVNILHLE 55

Query: 54 PTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKTGK 97
          PT   +D+            + D++V   +  + +L E  K   
Sbjct: 56 PTDKKIDI---------QKGASDEEVKK-KLEESNLTEYMKEKI 89

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	105
d2joya1	96	Ribosomal protein L14e {Sulfolobus solfataricus [T	99.67
d2gycs1	99	Ribosomal proteins L24 (L24p) {Escherichia coli [T	95.55
d2zjrr1	110	Ribosomal proteins L24 (L24p) {Deinococcus radiodu	95.44
d1vqot1	119	Ribosomal proteins L24 (L24p) {Archaeon Haloarcula	93.63
d2j01y1	101	Ribosomal proteins L24 (L24p) {Thermus thermophilu	93.32
d2do3a1	62	Transcription elongation factor SPT5 {Human (Homo	93.05
d1x6oa1	68	Eukaryotic initiation translation factor 5a (eIF5a	85.36

>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=99.67  E-value=2.3e-17  Score=112.05  Aligned_cols=53  Identities=32%  Similarity=0.485  Sum_probs=50.0

Q ss_pred             ccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc----------CCceeeeeceEeecC
Q 035907            3 TFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK----------NYQHLMPTCYTLDVD   62 (105)
Q Consensus         3 k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~----------N~nHl~pTry~vdi~   62 (105)
                      .++++|||||+++||||||+||||+.+|+       +++||+|+.          |++|++||.+++||+
T Consensus         2 ~~VevGrV~ii~~G~~~GK~~vIvdiid~-------~rvLVdGP~~~tgV~r~~in~k~l~lT~~~i~i~   64 (96)
T d2joya1           2 PAIEVGRICVKVKGREAGSKCVIVDIIDD-------NFVLVTGPKDITGVKRRRVNILHLEPTDKKIDIQ   64 (96)
T ss_dssp             CSSSTTEEEECSSSSTTCCEEEEEEECSS-------SCEEEECCTTTTCCCCEEESCSSCEEEEEECCCC
T ss_pred             CceeccEEEEEeecCCCCCEEEEEEEecC-------CeEEEecccccCCcccEEEchHHEEeccEEEEcc
Confidence            36899999999999999999999999999       789999984          999999999999986

>d2gycs1 b.34.5.1 (S:3-101) Ribosomal proteins L24 (L24p) {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Escherichia coli [TaxId: 562]

Probab=95.55  E-value=0.0055  Score=40.23  Aligned_cols=45  Identities=20%  Similarity=0.465  Sum_probs=37.8

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeeec
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPTC   56 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pTr   56 (105)
                      |+.|--|+|++|+..|+.+.|++.+++       +.++|-|+. -..|.-|+.
T Consensus         2 ikkGD~V~VisGkdKGK~G~V~~V~~~-------~~viVeGvN~~kkh~Kp~~   47 (99)
T d2gycs1           2 IRRDDEVIVLTGKDKGKRGKVKNVLSS-------GKVIVEGINLVKKHQKPVP   47 (99)
T ss_dssp             CCTTSEEECSSSTTTTCEEEEEEECTT-------SEEEETTCCEECTTCCEEC
T ss_pred             ccCCCEEEEeeCCCCCCceEEEEEECC-------CeEEEeCeEEEEEEeCCCC
Confidence            577889999999999999999999876       569999988 566776653

>d2zjrr1 b.34.5.1 (R:4-113) Ribosomal proteins L24 (L24p) {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Deinococcus radiodurans [TaxId: 1299]

Probab=95.44  E-value=0.0066  Score=40.54  Aligned_cols=47  Identities=15%  Similarity=0.347  Sum_probs=39.9

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeeece
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPTCY   57 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pTry   57 (105)
                      ++.|--|+|++|++.|+.+.|++.+.+.      +.++|-|+. -..|.-|+.-
T Consensus        13 ikkGD~V~VisGkdKGk~G~Vl~V~~~~------~~ViVeGvN~~kkh~Kp~~~   60 (110)
T d2zjrr1          13 FKKGDTVIVLSGKHKGQTGKVLLALPRD------QKVVVEGVNVITKNVKPSMT   60 (110)
T ss_dssp             SCTTSEEECCSSSSTTCEEEEEEEETTT------TEEEESSSCBCCCCCCTTSS
T ss_pred             eeCCCEEEEeecCCCCcceEEEEEECCC------CEEEEeCcEEEEEEeccccc
Confidence            6789999999999999999999999764      679999997 5577777654

>d1vqot1 b.34.5.1 (T:1-119) Ribosomal proteins L24 (L24p) {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=93.63  E-value=0.038  Score=37.18  Aligned_cols=52  Identities=15%  Similarity=0.115  Sum_probs=40.7

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeeeceEeecC
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPTCYTLDVD   62 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pTry~vdi~   62 (105)
                      ++.|-.|.|++|.+.|+.+-|++...+.      +.++|-||. .-.|--|..+.++++
T Consensus        42 IkkGD~V~Vi~Gk~KGk~GkV~~V~~k~------~~V~Vegin~~k~~~k~~~~pIh~S   94 (119)
T d1vqot1          42 VNAGDTVEVLRGDFAGEEGEVINVDLDK------AVIHVEDVTLEKTDGEEVPRPLDTS   94 (119)
T ss_dssp             CCTTCEEEECSSTTTTCEEEEEEEETTT------TEEEETTCEEECTTSCEEECCBCGG
T ss_pred             eeCCCEEEEeecCCCCCcceEEEEECCC------CEEEEeCcEEEecCCceeeccCchH
Confidence            6789999999999999999999987654      679999998 444555655554444

>d2j01y1 b.34.5.1 (Y:2-102) Ribosomal proteins L24 (L24p) {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: Ribosomal proteins L24p and L21e
domain: Ribosomal proteins L24 (L24p)
species: Thermus thermophilus [TaxId: 274]

Probab=93.32  E-value=0.0044  Score=40.83  Aligned_cols=47  Identities=11%  Similarity=0.147  Sum_probs=38.8

Q ss_pred             ccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-CCceeeeece
Q 035907            5 LKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-NYQHLMPTCY   57 (105)
Q Consensus         5 ~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-N~nHl~pTry   57 (105)
                      ++.|--|.|++|++.|+.+.|++.+.+.      +.++|.|+. -..|.=|+.-
T Consensus         6 IkkGD~V~VisGkdKGk~G~Vl~V~~~~------~~ViVeGvN~~kkh~k~~~~   53 (101)
T d2j01y1           6 VKKGDTVLVASGKYKGRVGKVKEVLPKK------YAVIVEGVNIVKKAVRVSPK   53 (101)
T ss_dssp             SCCSSCEECCSSTTSSCCBSCCCCCCTT------CBCCTTSCCCCCCCCCSCCC
T ss_pred             EECCCEEEEeeCCCCCCeEEEEEEECCC------CEEEEEcceEEEEeecCCCC
Confidence            6778889999999999999999998875      679999998 4457666643

>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=93.05  E-value=0.043  Score=33.29  Aligned_cols=30  Identities=17%  Similarity=0.344  Sum_probs=27.2

Q ss_pred             cccccCcEEEEEeccccCCceEEEeeecCC
Q 035907            2 VTFLKPNKAVILLQGRNASRKAVIMKSFDD   31 (105)
Q Consensus         2 ~k~~kpgkVvivL~Gr~aGkKaVivk~~d~   31 (105)
                      -|.+++|-=|-|++|||+|.-..||+.-++
T Consensus         8 rK~F~~GDhVkVi~G~~~g~tGlVV~v~~~   37 (62)
T d2do3a1           8 RKYFKMGDHVKVIAGRFEGDTGLIVRVEEN   37 (62)
T ss_dssp             CSSCCTTCEEEESSSTTTTCEEEEEEECSS
T ss_pred             eeccCCCCeEEEeccEEcCccEEEEEEeCC
Confidence            478999999999999999999999998654

>d1x6oa1 b.34.5.2 (A:19-86) Eukaryotic initiation translation factor 5a (eIF5a) {Leishmania infantum [TaxId: 5671]}

class: All beta proteins
fold: SH3-like barrel
superfamily: Translation proteins SH3-like domain
family: eIF5a N-terminal domain-like
domain: Eukaryotic initiation translation factor 5a (eIF5a)
species: Leishmania infantum [TaxId: 5671]

Probab=85.36  E-value=0.75  Score=27.87  Aligned_cols=56  Identities=13%  Similarity=0.161  Sum_probs=38.3

Q ss_pred             ccccCcEEEEEeccccCCceEEEeeecCCCCCCCCCceEEEeccc-----CCceeeeeceEeecCC
Q 035907            3 TFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK-----NYQHLMPTCYTLDVDL   63 (105)
Q Consensus         3 k~~kpgkVvivL~Gr~aGkKaVivk~~d~gt~~~~y~~~lVaGi~-----N~nHl~pTry~vdi~~   63 (105)
                      ..|+.|..|++     .|+-+-|+...-+-+..+--..+-+.|++     -+.++.|+.-++|+||
T Consensus         8 ~~lkkG~yv~i-----~g~PCkI~~istSk~GKHGhaK~~i~~idIFtgkK~~~v~P~~~~v~vP~   68 (68)
T d1x6oa1           8 GALKKGGYVCI-----NGRPCKVIDLSVSKTGKHGHAKVSIVATDIFTGNRLEDQAPSTHNVEVPF   68 (68)
T ss_dssp             GGCCTTCEEEE-----TTEEEEEEEEEECCC----CCEEEEEEEETTTCCEEEEEEETTSEEEEEC
T ss_pred             ceeeECCEEEE-----CCEeeEEEEEeecCCCcccccEEEEEEEEcccCCEEEEEccCCceeecCC
Confidence            46788888875     56677777755554433333445667766     8999999999999885