Psyllid ID: psy5946

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60---
Protein Sequence
MSIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRDLQYDDS
Secondary Structure (PSIPRED)
ccHHcHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHHHHccccHHccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEcEEEHEEHHHHHHccEEEcccccccccHHHHHHHHHHHccHcEEHHHcccHccccccc
Coil and Loop (DISEMBL)
MSIVLGLTSTLSIKLMQDDLhivkdlvlpvddpkyLENLVEERCSQVSLSarlgirdlqydds
Flexible Loop (DISEMBL)
MSIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEercsqvslsarlgirdlqydds
Low Complexity Region (SEG)
MSIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRDLQYDDS
Disordered region (IsUnstruct)
**IVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGI********
Disordered Region (DISOPRED)
*SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRDL*****
Disordered Region (DISEMBL)
MSIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRDLQYDDS
Disordered Region (DISPRO)
*SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRDLQ****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRDLQYDDS
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	63	2.2.26 [Sep-21-2011]
Q9DCU6	294	39S ribosomal protein L4,	yes	N/A	0.619	0.132	0.589	3e-06
Q9BYD3	311	39S ribosomal protein L4,	no	N/A	0.619	0.125	0.538	5e-05
Q32PI6	294	39S ribosomal protein L4,	yes	N/A	0.634	0.136	0.55	5e-05
Q503X2	302	39S ribosomal protein L4,	yes	N/A	0.634	0.132	0.55	0.0003

>sp|Q9DCU6|RM04_MOUSE 39S ribosomal protein L4, mitochondrial OS=Mus musculus GN=Mrpl4 PE=2 SV=1

 Score = 50.4 bits (119), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 23/39 (58%), Positives = 27/39 (69%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           LGL   L++KLMQDDLHIV  L LP  DP+YL  L + R
Sbjct: 172 LGLKVALTVKLMQDDLHIVDSLELPTADPQYLTELAQYR 210

Mus musculus (taxid: 10090)

>sp|Q9BYD3|RM04_HUMAN 39S ribosomal protein L4, mitochondrial OS=Homo sapiens GN=MRPL4 PE=1 SV=1

 Score = 46.6 bits (109), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 21/39 (53%), Positives = 25/39 (64%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct: 172 LGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 210

Homo sapiens (taxid: 9606)

>sp|Q32PI6|RM04_BOVIN 39S ribosomal protein L4, mitochondrial OS=Bos taurus GN=MRPL4 PE=1 SV=1

 Score = 46.6 bits (109), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 22/40 (55%), Positives = 25/40 (62%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           V GL   L++KL QDDLHIV  L LP  DP+YL  L   R
Sbjct: 171 VQGLKVALTVKLAQDDLHIVDSLELPTTDPQYLMELARYR 210

Bos taurus (taxid: 9913)

>sp|Q503X2|RM04_DANRE 39S ribosomal protein L4, mitochondrial OS=Danio rerio GN=mrpl4 PE=2 SV=1

 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/40 (55%), Positives = 27/40 (67%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           V GL   LS KL QD LHIV  L +P  DP+YL++LV+ R
Sbjct: 180 VQGLKIALSAKLAQDYLHIVDSLEIPTPDPQYLQDLVKHR 219

Danio rerio (taxid: 7955)

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	63
157108533	279	50S ribosomal protein L4 [Aedes aegypti]	0.666	0.150	0.714	8e-09
158297277	224	AGAP007937-PA [Anopheles gambiae str. PE	0.634	0.178	0.7	2e-08
312376204	490	hypothetical protein AND_13049 [Anophele	0.634	0.081	0.675	4e-08
321468499	258	hypothetical protein DAPPUDRAFT_52198 [D	0.603	0.147	0.763	7e-08
170032333	278	mitochondrial 39S ribosomal protein L4 [	0.634	0.143	0.7	1e-07
380011885	280	PREDICTED: 39S ribosomal protein L4, mit	0.666	0.15	0.666	2e-07
395512585	297	PREDICTED: 39S ribosomal protein L4, mit	0.650	0.138	0.634	3e-07
350403280	280	PREDICTED: 39S ribosomal protein L4, mit	0.634	0.142	0.675	4e-07
322796484	287	hypothetical protein SINV_11616 [Solenop	0.634	0.139	0.65	5e-07
307170893	285	39S ribosomal protein L4, mitochondrial	0.634	0.140	0.625	8e-07

>gi|157108533|ref|XP_001650271.1| 50S ribosomal protein L4 [Aedes aegypti] gi|108884031|gb|EAT48256.1| AAEL000701-PA [Aedes aegypti]

 Score = 64.3 bits (155), Expect = 8e-09,   Method: Composition-based stats.
 Identities = 30/42 (71%), Positives = 36/42 (85%)

Query: 2   SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           S VLGL STLSIKL QDDLHIV+DL +P +DP+YL +LV+ER
Sbjct: 156 SRVLGLVSTLSIKLAQDDLHIVRDLDIPTEDPQYLRDLVQER 197

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158297277|ref|XP_317543.4| AGAP007937-PA [Anopheles gambiae str. PEST] gi|157015117|gb|EAA12669.4| AGAP007937-PA [Anopheles gambiae str. PEST]

 Score = 62.8 bits (151), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 28/40 (70%), Positives = 34/40 (85%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           VLGL STLSIKL QDDLH+VK+L +P DDP+YL++LV  R
Sbjct: 103 VLGLVSTLSIKLAQDDLHVVKNLEIPTDDPQYLQDLVAAR 142

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312376204|gb|EFR23370.1| hypothetical protein AND_13049 [Anopheles darlingi]

 Score = 62.4 bits (150), Expect = 4e-08,   Method: Composition-based stats.
 Identities = 27/40 (67%), Positives = 34/40 (85%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           VLGL STLSIKL Q+DLH+V+DL +P +DP+YL +LV ER
Sbjct: 145 VLGLVSTLSIKLAQNDLHVVQDLEIPTEDPQYLRDLVSER 184

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321468499|gb|EFX79483.1| hypothetical protein DAPPUDRAFT_52198 [Daphnia pulex]

 Score = 61.2 bits (147), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 29/38 (76%), Positives = 31/38 (81%)

Query: 6   GLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           GL STLS KL QDDLHIV+ L +P DDPKYLE LVEER
Sbjct: 138 GLRSTLSAKLAQDDLHIVESLDIPTDDPKYLEALVEER 175

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170032333|ref|XP_001844036.1| mitochondrial 39S ribosomal protein L4 [Culex quinquefasciatus] gi|167872322|gb|EDS35705.1| mitochondrial 39S ribosomal protein L4 [Culex quinquefasciatus]

 Score = 60.8 bits (146), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 28/40 (70%), Positives = 33/40 (82%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           VLGL STLSIKL QDDLHIV  L +P DDP++L +LV+ER
Sbjct: 157 VLGLVSTLSIKLAQDDLHIVDSLDIPTDDPQFLRDLVQER 196

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380011885|ref|XP_003690024.1| PREDICTED: 39S ribosomal protein L4, mitochondrial-like [Apis florea]

 Score = 59.7 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 28/42 (66%), Positives = 35/42 (83%)

Query: 2   SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           S V GLTSTLSIKL QDDL+I+KDL +P ++P Y+E L+EER
Sbjct: 157 SRVNGLTSTLSIKLAQDDLYIIKDLEIPSNEPSYIEKLIEER 198

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|395512585|ref|XP_003760516.1| PREDICTED: 39S ribosomal protein L4, mitochondrial [Sarcophilus harrisii]

 Score = 59.3 bits (142), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/41 (63%), Positives = 30/41 (73%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERC 44
           VLGL   L++KLMQDDLH+V  L LP  DPKYL +LV  RC
Sbjct: 175 VLGLKVALTVKLMQDDLHVVDSLELPTSDPKYLSDLVRHRC 215

Source: Sarcophilus harrisii

Species: Sarcophilus harrisii

Genus: Sarcophilus

Family: Dasyuridae

Order: Dasyuromorphia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|350403280|ref|XP_003486754.1| PREDICTED: 39S ribosomal protein L4, mitochondrial-like [Bombus impatiens]

 Score = 58.9 bits (141), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/40 (67%), Positives = 33/40 (82%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           V GLTSTLS+KL QDDL+IVKDL +P + P Y+E L+EER
Sbjct: 158 VAGLTSTLSVKLAQDDLYIVKDLEIPSNKPSYIEQLIEER 197

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322796484|gb|EFZ18991.1| hypothetical protein SINV_11616 [Solenopsis invicta]

 Score = 58.5 bits (140), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 26/40 (65%), Positives = 31/40 (77%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           V GLTS LSIKL QDDLHI+ +L +P  +P Y+E LVEER
Sbjct: 165 VAGLTSMLSIKLAQDDLHIIDELEIPTSEPSYVEQLVEER 204

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307170893|gb|EFN63004.1| 39S ribosomal protein L4, mitochondrial [Camponotus floridanus]

 Score = 57.8 bits (138), Expect = 8e-07,   Method: Composition-based stats.
 Identities = 25/40 (62%), Positives = 32/40 (80%)

Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           V GLTSTLS+KL QDDLHIV +L +P  +P Y+E L+E+R
Sbjct: 163 VAGLTSTLSVKLAQDDLHIVNELEIPTSEPSYIEQLIEKR 202

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	63
FB|FBgn0001995	296	mRpL4 "mitochondrial ribosomal	0.634	0.135	0.575	2e-07
MGI|MGI:2137210	294	Mrpl4 "mitochondrial ribosomal	0.619	0.132	0.589	3.3e-06
RGD|1311777	294	Mrpl4 "mitochondrial ribosomal	0.619	0.132	0.589	3.3e-06
UNIPROTKB|K7EJ73	119	MRPL4 "39S ribosomal protein L	0.619	0.327	0.538	9e-06
UNIPROTKB|K7ELQ0	220	MRPL4 "39S ribosomal protein L	0.619	0.177	0.538	2.2e-05
UNIPROTKB|F1PB94	294	MRPL4 "Uncharacterized protein	0.634	0.136	0.55	2.5e-05
UNIPROTKB|Q32PI6	294	MRPL4 "39S ribosomal protein L	0.634	0.136	0.55	4.1e-05
UNIPROTKB|K7ES61	300	MRPL4 "39S ribosomal protein L	0.619	0.13	0.538	4.3e-05
ZFIN|ZDB-GENE-050522-388	302	zgmrpl4 "mitochondrial ribosom	0.634	0.132	0.55	4.4e-05
UNIPROTKB|Q9BYD3	311	MRPL4 "39S ribosomal protein L	0.619	0.125	0.538	4.6e-05

FB|FBgn0001995 mRpL4 "mitochondrial ribosomal protein L4" [Drosophila melanogaster (taxid:7227)]

 Score = 124 (48.7 bits), Expect = 2.0e-07, P = 2.0e-07
 Identities = 23/40 (57%), Positives = 33/40 (82%)

Query:     4 VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             VLGLTSTLS+KL QDDLHI+ ++ +P  D ++L++L+ ER
Sbjct:   174 VLGLTSTLSVKLAQDDLHIIDNVDIPTGDAEFLKDLIAER 213

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

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

GO:0006412 "translation" evidence=ISS

MGI|MGI:2137210 Mrpl4 "mitochondrial ribosomal protein L4" [Mus musculus (taxid:10090)]

 Score = 113 (44.8 bits), Expect = 3.3e-06, P = 3.3e-06
 Identities = 23/39 (58%), Positives = 27/39 (69%)

Query:     5 LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             LGL   L++KLMQDDLHIV  L LP  DP+YL  L + R
Sbjct:   172 LGLKVALTVKLMQDDLHIVDSLELPTADPQYLTELAQYR 210

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

RGD|1311777 Mrpl4 "mitochondrial ribosomal protein L4" [Rattus norvegicus (taxid:10116)]

 Score = 113 (44.8 bits), Expect = 3.3e-06, P = 3.3e-06
 Identities = 23/39 (58%), Positives = 27/39 (69%)

Query:     5 LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             LGL   L++KLMQDDLHIV  L LP  DP+YL  L + R
Sbjct:   172 LGLKVALTVKLMQDDLHIVDSLELPTADPQYLTELAQYR 210

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

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|K7EJ73 MRPL4 "39S ribosomal protein L4, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 103 (41.3 bits), Expect = 9.0e-06, P = 9.0e-06
 Identities = 21/39 (53%), Positives = 25/39 (64%)

Query:     5 LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct:    70 LGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 108

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|K7ELQ0 MRPL4 "39S ribosomal protein L4, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 103 (41.3 bits), Expect = 2.2e-05, P = 2.2e-05
 Identities = 21/39 (53%), Positives = 25/39 (64%)

Query:     5 LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct:   171 LGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 209

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|F1PB94 MRPL4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 105 (42.0 bits), Expect = 2.5e-05, P = 2.5e-05
 Identities = 22/40 (55%), Positives = 25/40 (62%)

Query:     4 VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             V GL   L++KL QDDLHIV  L LP  DP+YL  L   R
Sbjct:   171 VQGLKVALTVKLAQDDLHIVDSLELPTSDPQYLTELARYR 210

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

UNIPROTKB|Q32PI6 MRPL4 "39S ribosomal protein L4, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 103 (41.3 bits), Expect = 4.1e-05, P = 4.1e-05
 Identities = 22/40 (55%), Positives = 25/40 (62%)

Query:     4 VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             V GL   L++KL QDDLHIV  L LP  DP+YL  L   R
Sbjct:   171 VQGLKVALTVKLAQDDLHIVDSLELPTTDPQYLMELARYR 210

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|K7ES61 MRPL4 "39S ribosomal protein L4, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 103 (41.3 bits), Expect = 4.3e-05, P = 4.3e-05
 Identities = 21/39 (53%), Positives = 25/39 (64%)

Query:     5 LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct:   172 LGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 210

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

ZFIN|ZDB-GENE-050522-388 zgmrpl4 "mitochondrial ribosomal protein L4" [Danio rerio (taxid:7955)]

 Score = 103 (41.3 bits), Expect = 4.4e-05, P = 4.4e-05
 Identities = 22/40 (55%), Positives = 27/40 (67%)

Query:     4 VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             V GL   LS KL QD LHIV  L +P  DP+YL++LV+ R
Sbjct:   180 VQGLKIALSAKLAQDYLHIVDSLEIPTPDPQYLQDLVKHR 219

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

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|Q9BYD3 MRPL4 "39S ribosomal protein L4, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 103 (41.3 bits), Expect = 4.6e-05, P = 4.6e-05
 Identities = 21/39 (53%), Positives = 25/39 (64%)

Query:     5 LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
             LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct:   172 LGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 210

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

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q32PI6	RM04_BOVIN	No assigned EC number	0.55	0.6349	0.1360	yes	N/A
Q9DCU6	RM04_MOUSE	No assigned EC number	0.5897	0.6190	0.1326	yes	N/A
Q503X2	RM04_DANRE	No assigned EC number	0.55	0.6349	0.1324	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	63
KOG1624|consensus	290		99.49
PF00573	192	Ribosomal_L4: Ribosomal protein L4/L1 family; Inte	99.39
PRK05319	205	rplD 50S ribosomal protein L4; Provisional	99.35
PRK14547	298	rplD 50S ribosomal protein L4; Provisional	99.28
CHL00147	215	rpl4 ribosomal protein L4; Validated	99.22
PRK14907	295	rplD 50S ribosomal protein L4; Provisional	99.16
COG0088	214	RplD Ribosomal protein L4 [Translation, ribosomal	99.01
TIGR03672	251	rpl4p_arch 50S ribosomal protein L4P. One of the p	98.95
PRK04042	254	rpl4lp 50S ribosomal protein L4P; Provisional	98.94
PLN00185	405	60S ribosomal protein L4-1; Provisional	97.98
PTZ00428	381	60S ribosomal protein L4; Provisional	97.84

>KOG1624|consensus

Probab=99.49  E-value=4.9e-14  Score=102.76  Aligned_cols=55  Identities=45%  Similarity=0.521  Sum_probs=52.4

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCCceeEEEeccc
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIR   56 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~~s~LiI~g~~   56 (63)
                      ||.|||++|||+|++|++|||+|++.++++|||++.++++.++||.++|||++..
T Consensus       158 vr~lgl~~ALS~~~a~~~l~I~d~~~L~t~~pk~~~~l~~~~~~g~~vl~v~~~~  212 (290)
T KOG1624|consen  158 VRSLGLKIALSAKLAQDDLHIVDELGLPTGKPKYLLNLLAQRNWGTSVLFVDEDH  212 (290)
T ss_pred             HHHHHHHHHHHHHHhCCceEEecccCCCCCCcHHHHHHHHHHhcCCeeEEeccch
Confidence            7999999999999999999999999999999999999999999998899997544

>PF00573 Ribosomal_L4: Ribosomal protein L4/L1 family; InterPro: IPR002136 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.39  E-value=2.4e-13  Score=92.97  Aligned_cols=54  Identities=26%  Similarity=0.222  Sum_probs=51.2

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCC-CCCCChHHHHHHHHhcCC-CceeEEEecc
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLV-LPVDDPKYLENLVEERCS-QVSLSARLGI   55 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~-l~~~KTk~L~~~l~~~~~-~~s~LiI~g~   55 (63)
                      +|++||++|||+|+++|+|+|||+++ ++++|||++.+.|++++| +.++|||++.
T Consensus        90 ~r~lAl~~aLs~k~~~~~l~vvd~~~~~~~~kTk~~~~~L~~~~~~~~~~L~V~~~  145 (192)
T PF00573_consen   90 VRRLALRSALSAKAAEGNLIVVDNFSPLEEPKTKDLVKLLKKLGLKGKSVLFVVGE  145 (192)
T ss_dssp             HHHHHHHHHHHHHHHTTHHHHCTSCSSSSSSSHHHHHHHHHHTTTSSSSEEEEESS
T ss_pred             HHHHHHHHHHHHhhcccceEEeeccccccccCHHHHHHHHHHhhhcccceEEEecC
Confidence            69999999999999999999999998 999999999999999999 4579999984

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 [, ]. This family includes ribosomal L4/L1 from eukaryotes and plants and L4 from bacteria. L4 from yeast has been shown to bind rRNA []. These proteins have 246 (plant) to 427 (human) amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZR_D 1VSA_D 3D5D_F 3MS1_E 3F1F_F 3PYO_E 3MRZ_E 3F1H_F 3PYR_E 1VSP_D ....

>PRK05319 rplD 50S ribosomal protein L4; Provisional

Probab=99.35  E-value=2.9e-12  Score=88.59  Aligned_cols=53  Identities=25%  Similarity=0.162  Sum_probs=49.9

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCCceeEEEecc
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGI   55 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~~s~LiI~g~   55 (63)
                      +|++|+++|||+|+++++|+|||+++++.+|||.+.+.|+++||+ ++|||.+.
T Consensus       104 ~~~lAl~~aLs~k~~~~~l~Vvd~~~~~~~KTk~~~~~l~~lg~~-~~Lii~~~  156 (205)
T PRK05319        104 VRRLALRSALSEKAREGRLVVVDDLSLEAPKTKELAAKLKNLGLK-KVLIVTDE  156 (205)
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEeccccCCCCHHHHHHHHHHcCCC-ceEEEECC
Confidence            689999999999999999999999999999999999999999996 69999853

>PRK14547 rplD 50S ribosomal protein L4; Provisional

Probab=99.28  E-value=7.8e-12  Score=91.24  Aligned_cols=56  Identities=18%  Similarity=0.058  Sum_probs=49.7

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCC-CCCCChHHHHHHHHhcCCCceeEEEecccC
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLV-LPVDDPKYLENLVEERCSQVSLSARLGIRD   57 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~-l~~~KTk~L~~~l~~~~~~~s~LiI~g~~~   57 (63)
                      +|++||++|||.|+++++|+|||+|. ++.+|||.+.+.|+++++.++.|||++..+
T Consensus       105 ~rrlAlrsALS~k~~~~~liVVd~~~~~~~~KTK~~~~~L~~l~~~~~lLiv~~~~~  161 (298)
T PRK14547        105 MRQAALRGALSDRARDNRLIVVESLQDGDPPSTKAVAQALSVMEDQRALLVVAERSD  161 (298)
T ss_pred             HHHHHHHHHHHHHHhcCCEEEEeCccccCCcCHHHHHHHHHhcccCceEEEEecCcc
Confidence            69999999999999999999999996 899999999999999987656777765444

>CHL00147 rpl4 ribosomal protein L4; Validated

Probab=99.22  E-value=3.3e-11  Score=84.30  Aligned_cols=52  Identities=15%  Similarity=0.164  Sum_probs=46.7

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCC--CCCCChHHHHHHHHhcCCC--ceeEEEecc
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLV--LPVDDPKYLENLVEERCSQ--VSLSARLGI   55 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~--l~~~KTk~L~~~l~~~~~~--~s~LiI~g~   55 (63)
                      +|++||++|||+|  +++|+|||++.  ++++|||.+.+.|+++++.  .++|||++.
T Consensus       110 vrrlAl~sALS~k--~~~l~VVd~~~~~~~~~KTK~~~~~L~~l~~~~~~~~L~V~~~  165 (215)
T CHL00147        110 ERRLALRTLLYNK--SNNITVVENFESSITNPKTKAFINLLKKLNINLDQKILIIVPE  165 (215)
T ss_pred             HHHHHHHHHHHHh--hCCeEEEcccccccCCCCHHHHHHHHHHcCCCcCCceEEEECC
Confidence            7999999999998  55899999999  9999999999999999874  369999754

>PRK14907 rplD 50S ribosomal protein L4; Provisional

Probab=99.16  E-value=7.9e-11  Score=86.17  Aligned_cols=51  Identities=14%  Similarity=0.007  Sum_probs=46.9

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCC--ceeEEEe
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ--VSLSARL   53 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~--~s~LiI~   53 (63)
                      +|++||++|||.|+++ +|+|||+|+++++||+.+.+.|+++|+.  +++|||+
T Consensus       194 vRrLALrsALS~ka~~-~LvVVd~~~le~~KTK~l~~~L~~lgl~~~k~vLiV~  246 (295)
T PRK14907        194 VRFNAFVSALTLLANS-KAVLVDDFKLEKISTKDLIKKLTKLKINNLKHILIVS  246 (295)
T ss_pred             HHHHHHHHHHHHhccC-CEEEEecccCCCCCHHHHHHHHHHcCcccCCceEEEE
Confidence            7999999999999876 7999999999999999999999999873  3699998

>COG0088 RplD Ribosomal protein L4 [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=7.6e-10  Score=77.55  Aligned_cols=57  Identities=28%  Similarity=0.240  Sum_probs=50.2

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCC-CCChHHHHHHHHhcCCCc-eeEEEecccCC
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLP-VDDPKYLENLVEERCSQV-SLSARLGIRDL   58 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~-~~KTk~L~~~l~~~~~~~-s~LiI~g~~~~   58 (63)
                      +|++||++|||+|+++|+|+++|++.++ ++|||.+.+.|++++... .++++.+.++-
T Consensus       106 ~rrlAl~sAls~ka~~~~lv~~~~~~~~~~~kTK~~~~~lk~l~~~~~~~l~~~~~~~~  164 (214)
T COG0088         106 ERRLALRSALSAKARAGKLVVVRGHVFEDAPKTKELVEFLKKLGLDVKRLLIVKGERDG  164 (214)
T ss_pred             HHHHHHHHHHHHhccCCCEEEEecccccCCccHHHHHHHHHHhhhhhceeEEeeccccc
Confidence            6999999999999999999999999999 999999999999977663 47777666654

>TIGR03672 rpl4p_arch 50S ribosomal protein L4P

Probab=98.95  E-value=2.1e-09  Score=77.14  Aligned_cols=43  Identities=16%  Similarity=0.236  Sum_probs=41.3

Q ss_pred             hhhhhhHHHHhhhhcCC--------------cEEEEecCCCCCCChHHHHHHHHhcCC
Q psy5946           2 SIVLGLTSTLSIKLMQD--------------DLHIVKDLVLPVDDPKYLENLVEERCS   45 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~--------------~LiIvD~l~l~~~KTk~L~~~l~~~~~   45 (63)
                      +|++|+++|||+|+.++              .|+|+|+|+ +.+|||++.+.|++++.
T Consensus       108 ~rrlAl~sALs~k~~~~lv~~~~~~~~~~e~~lvVvd~~~-~~~KTK~~~~~Lk~l~~  164 (251)
T TIGR03672       108 ERRLAIRSAIAATADPELVKARGHVFEGDELPIVVVDDFE-SLKKTKEVRELLEALGV  164 (251)
T ss_pred             HHHHHHHHHHHHhcchhhhhhcccccccccccEEEEeCCC-CCCCHHHHHHHHHHcCC
Confidence            68999999999999998              899999999 99999999999999986

One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome.

>PRK04042 rpl4lp 50S ribosomal protein L4P; Provisional

Probab=98.94  E-value=2.1e-09  Score=77.19  Aligned_cols=43  Identities=19%  Similarity=0.252  Sum_probs=40.8

Q ss_pred             hhhhhhHHHHhhhhcCC---------------cEEEEecCCCCCCChHHHHHHHHhcCC
Q psy5946           2 SIVLGLTSTLSIKLMQD---------------DLHIVKDLVLPVDDPKYLENLVEERCS   45 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~---------------~LiIvD~l~l~~~KTk~L~~~l~~~~~   45 (63)
                      +|++||++|||+|+.++               .|+|+|+|+ +.+|||++.+.|++++.
T Consensus       108 ~rrlAlrsALs~k~~~~lv~~~~~~~~~~~e~~lvvvd~~~-~~~KTK~~~~~Lk~lg~  165 (254)
T PRK04042        108 ERRLAIRSAIAATANPELVKARGHVFEGVPELPLVVVDDFE-SLKKTKEVRELLEKLGL  165 (254)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhcCccccCCCccCEEEEcccc-cccCHHHHHHHHHHcCC
Confidence            68999999999999985               899999999 99999999999999986

>PLN00185 60S ribosomal protein L4-1; Provisional

Probab=97.98  E-value=2.2e-05  Score=59.84  Aligned_cols=43  Identities=12%  Similarity=0.182  Sum_probs=35.6

Q ss_pred             hhhhhhHHHHhhhhc------CC---------cEEEEecCCCCCCChHHHHHHHHhcCC
Q psy5946           2 SIVLGLTSTLSIKLM------QD---------DLHIVKDLVLPVDDPKYLENLVEERCS   45 (63)
Q Consensus         2 vR~lGLk~ALS~K~~------q~---------~LiIvD~l~l~~~KTk~L~~~l~~~~~   45 (63)
                      +|++++++|||+++.      .|         .| ||||...+.+|||++.++|+++|.
T Consensus       123 ~rRlAl~SALAa~a~~~lV~arGH~i~~v~e~pL-VV~d~~e~~~KTK~av~~Lk~lg~  180 (405)
T PLN00185        123 QKRYAVVSALAASAVPSLVMARGHKIENVPEVPL-VVSDSAESIEKTSAAIKILKQIGA  180 (405)
T ss_pred             HHHHHHHHHHHhhccchhhhcccccccccccCCE-EEEeCccCCcCHHHHHHHHHHcCC
Confidence            689999999999992      33         45 566666677999999999999986

>PTZ00428 60S ribosomal protein L4; Provisional

Probab=97.84  E-value=5.6e-05  Score=57.29  Aligned_cols=44  Identities=16%  Similarity=0.027  Sum_probs=33.9

Q ss_pred             hhhhhhHHHHhhhh---------------cCCcEEEEecCCCCCCChHHHHHHHHhcCCC
Q psy5946           2 SIVLGLTSTLSIKL---------------MQDDLHIVKDLVLPVDDPKYLENLVEERCSQ   46 (63)
Q Consensus         2 vR~lGLk~ALS~K~---------------~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~   46 (63)
                      +|++++++|||+++               .++.|+ |||+--..+|||++.++|+++|+.
T Consensus       118 ~rR~Al~SALaa~a~~~lv~argh~i~~v~e~plV-V~d~~e~~~KTK~av~~Lk~lg~~  176 (381)
T PTZ00428        118 QKRHAVASALAASGVPALVMARGHRISNVPEVPLV-VSDSVESYEKTKEAVAFLKALGAF  176 (381)
T ss_pred             HHHHHHHHHHHhhccchhhhcccccccccccCCEE-EEcCcCCCCCHHHHHHHHHHcCCc
Confidence            68999999999996               344555 555522337999999999999963

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	63
2ftc_D	175	Structural Model For The Large Subunit Of The Mamma		1e-05

>pdb|2FTC|D Chain D, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 175

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/40 (52%), Positives = 25/40 (62%)
Query: 4   VLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
            LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct: 75  ALGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 114
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	63
2ftc_D	175	Mitochondrial ribosomal protein L4 isoform A, mito	3e-08
2zjr_C	205	50S ribosomal protein L4; ribosome, large ribosoma	3e-05
1dmg_A	225	Ribosomal protein L4; alpha-beta, ribosome, RNA, S	1e-04
3v2d_F	210	50S ribosomal protein L4; ribosome associated inhi	6e-04

>2ftc_D Mitochondrial ribosomal protein L4 isoform A, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_D Length = 175

 Score = 46.1 bits (110), Expect = 3e-08
 Identities = 21/39 (53%), Positives = 25/39 (64%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           LGL   L++KL QDDLHI+  L LP  DP+YL  L   R
Sbjct: 76  LGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYR 114

>2zjr_C 50S ribosomal protein L4; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.22.1.1 PDB: 1j5a_K* 1jzy_K* 1jzz_K* 1k01_K* 1nkw_C 1sm1_C* 2zjp_C* 2zjq_C 1jzx_K 3cf5_C* 3dll_C* 3pio_C* 3pip_C* 1nwy_C* 1nwx_C* 1xbp_C* 1pnu_C 1pny_C 1vor_F 1vou_F ... Length = 205

 Score = 38.0 bits (89), Expect = 3e-05
 Identities = 6/39 (15%), Positives = 13/39 (33%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           LGL   ++ +     L  V    +     K   +  ++ 
Sbjct: 102 LGLAMAIASRQEGGKLVAVDGFDIADAKTKNFISWAKQN 140

>1dmg_A Ribosomal protein L4; alpha-beta, ribosome, RNA, S10 operon, gene regulation; HET: CIT; 1.70A {Thermotoga maritima} SCOP: c.22.1.1 Length = 225

 Score = 36.6 bits (85), Expect = 1e-04
 Identities = 12/39 (30%), Positives = 21/39 (53%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
           L L S LS+K  ++ L ++ DL L     K L+ +++  
Sbjct: 107 LALRSALSVKYRENKLLVLDDLKLERPKTKSLKEILQNL 145

>3v2d_F 50S ribosomal protein L4; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_F 2hgj_F 2hgu_F 2j03_F 2jl6_F 2jl8_F 2v47_F 2v49_F 2wdi_F 2wdj_F 2wdl_F 2wdn_F 2wh2_F 2wh4_F 2wrj_F 2wrl_F 2wro_F 2wrr_F 2x9s_F 2x9u_F ... Length = 210

 Score = 34.6 bits (80), Expect = 6e-04
 Identities = 6/39 (15%), Positives = 13/39 (33%)

Query: 5   LGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEER 43
            GL   ++ +  +  L +V+         K      +E 
Sbjct: 108 KGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEA 146

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	63
2ftc_D	175	Mitochondrial ribosomal protein L4 isoform A, mito	99.55
1dmg_A	225	Ribosomal protein L4; alpha-beta, ribosome, RNA, S	99.52
3r8s_E	201	50S ribosomal protein L4; protein biosynthesis, RN	99.48
3v2d_F	210	50S ribosomal protein L4; ribosome associated inhi	99.45
2zjr_C	205	50S ribosomal protein L4; ribosome, large ribosoma	99.41
1vq8_C	246	50S ribosomal protein L4E; ribosome 50S, protein-p	99.14
3bbo_G	293	Ribosomal protein L4; large ribosomal subunit, spi	99.11
3j21_D	255	50S ribosomal protein L4P; archaea, archaeal, KINK	99.09
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	98.89
2wwb_H	362	60S ribosomal protein L4-B; ribosome, protein EXIT	98.88
3iz5_D	405	60S ribosomal protein L4 (L4P); eukaryotic ribosom	98.8
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	98.74

>2ftc_D Mitochondrial ribosomal protein L4 isoform A, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_D

Probab=99.55  E-value=8.9e-15  Score=98.43  Aligned_cols=54  Identities=41%  Similarity=0.506  Sum_probs=51.3

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCCceeEEEecc
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGI   55 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~~s~LiI~g~   55 (63)
                      +|++||++|||+|+++++|+|||+|+++.+|||++.+.|++++|++++|||++.
T Consensus        73 ~rrlAl~sALs~k~~~~~lvVvd~~~~~~~KTK~~~~~l~~l~~~~~~LiV~~~  126 (175)
T 2ftc_D           73 VRALGLKVALTVKLAQDDLHIMDSLELPTGDPQYLTELAHYRRWGDSVLLVDLT  126 (175)
T ss_pred             HHHHHHHHHHHHhccCCCEEEEecccCCCCCHHHHHHHHHHCCCCCceEEEECC
Confidence            699999999999999999999999999999999999999999997679999865

>1dmg_A Ribosomal protein L4; alpha-beta, ribosome, RNA, S10 operon, gene regulation; HET: CIT; 1.70A {Thermotoga maritima} SCOP: c.22.1.1

Probab=99.52  E-value=2.7e-14  Score=99.21  Aligned_cols=55  Identities=24%  Similarity=0.248  Sum_probs=51.6

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCC-ceeEEEeccc
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ-VSLSARLGIR   56 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~-~s~LiI~g~~   56 (63)
                      +|++||++|||+|++++.|+|||+++++.+|||++.+.|+++||. +++|||.+.+
T Consensus       104 ~rrlAl~sALs~k~~~~~LvVvd~~~~~~~KTK~~~~~L~~l~~~~~~~LiV~~~~  159 (225)
T 1dmg_A          104 MKKLALRSALSVKYRENKLLVLDDLKLERPKTKSLKEILQNLQLSDKKTLIVLPWK  159 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEESCCCCSSCCHHHHHHHHHHTTCTTSCEEEEECCC
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEeecccCCCCHHHHHHHHHHcCCCCCCEEEEECCC
Confidence            699999999999999999999999999999999999999999985 5799998664

>3r8s_E 50S ribosomal protein L4; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_C 1p86_C 1vs8_E 1vs6_E 2aw4_E 2awb_E 1vt2_E 2i2v_E 2j28_E 2i2t_E* 2qao_E* 2qba_E* 2qbc_E* 2qbe_E 2qbg_E 2qbi_E* 2qbk_E* 2qov_E 2qox_E 2qoz_E* ...

Probab=99.48  E-value=4.6e-14  Score=96.82  Aligned_cols=55  Identities=22%  Similarity=0.187  Sum_probs=51.3

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCCceeEEEecccC
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRD   57 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~~s~LiI~g~~~   57 (63)
                      +|++||++|||+|+++++|+|||+++++.+|||++.+.|+++||. ++|||.+..|
T Consensus       100 ~rrlAl~sALs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~~~-~~LiV~~~~~  154 (201)
T 3r8s_E          100 MYRGALKSILSELVRQDRLIVVEKFSVEAPKTKLLAQKLKDMALE-DVLIITGELD  154 (201)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEECSCCCCSSSCHHHHHHHHHHHTCS-SEEEEESSCC
T ss_pred             HHHHHHHHHHHHHhhcCCEEEeccccccCcCHHHHHHHHHHcCCC-ceEEEECCCc
Confidence            699999999999999999999999999999999999999999997 6999986533

>3v2d_F 50S ribosomal protein L4; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2hgq_F 2hgj_F 2hgu_F 2j03_F 2jl6_F 2jl8_F 2v47_F 2v49_F 2wdi_F 2wdj_F 2wdl_F 2wdn_F 2wh2_F 2wh4_F 2wrj_F 2wrl_F 2wro_F 2wrr_F 2x9s_F 2x9u_F ...

Probab=99.45  E-value=1.2e-13  Score=95.21  Aligned_cols=53  Identities=15%  Similarity=0.065  Sum_probs=50.3

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCC--ceeEEEec
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ--VSLSARLG   54 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~--~s~LiI~g   54 (63)
                      +|++||++|||+|+++++|+|||+++++.+|||++.+.|+++|+.  +++|||.+
T Consensus       105 ~rrlAl~sALs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~lg~~~~~~~LiV~~  159 (210)
T 3v2d_F          105 VRKKGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEAGLDGSESVLLVTG  159 (210)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEESCCTTCSSCHHHHHHHHHHTTCCSSSCEEEECS
T ss_pred             HHHHHHHHHHHHHHhcCCEEEecccccCCccHHHHHHHHHHcCCCCCCceEEEeC
Confidence            699999999999999999999999999999999999999999983  57999987

>2zjr_C 50S ribosomal protein L4; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.22.1.1 PDB: 1j5a_K* 1jzy_K* 1jzz_K* 1k01_K* 1nkw_C 1sm1_C* 2zjp_C* 2zjq_C 1jzx_K 3cf5_C* 3dll_C* 3pio_C* 3pip_C* 1nwy_C* 1nwx_C* 1xbp_C* 1pnu_C 1pny_C 1vor_F 1vou_F ...

Probab=99.41  E-value=1.3e-13  Score=94.45  Aligned_cols=52  Identities=12%  Similarity=0.066  Sum_probs=49.6

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCC--ceeEEEe
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ--VSLSARL   53 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~--~s~LiI~   53 (63)
                      +|++||++|||+|++++.|+|||+++++.+|||++.+.|++++|.  +++|||.
T Consensus        99 ~rrlAl~sALs~k~~~~~lvVvd~~~~~~~KTK~~~~~L~~l~~~~~~~~LiV~  152 (205)
T 2zjr_C           99 VRQLGLAMAIASRQEGGKLVAVDGFDIADAKTKNFISWAKQNGLDGTEKVLLVT  152 (205)
T ss_dssp             HHHHHHHHHHHHHHHTTCCBCSCCTTSCSSCSHHHHHHHHHTTCCSSSCEEEEC
T ss_pred             HHHHHHHHHHHHHhhcCCEEEEeccccCCCCHHHHHHHHHHcCCCcCCCEEEEE
Confidence            699999999999999999999999999999999999999999985  5799997

>1vq8_C 50S ribosomal protein L4E; 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: c.22.1.1 PDB: 1k73_E* 1k8a_E* 1k9m_E* 1kc8_E* 1kd1_E* 1kqs_C* 1m1k_E* 1m90_E* 1n8r_E* 1nji_E* 1q7y_E* 1q81_E* 1q82_E* 1q86_E* 1qvf_C 1qvg_C 1s72_C* 1vq4_C* 1vq5_C* 1vq6_C* ...

Probab=99.14  E-value=4.5e-11  Score=84.21  Aligned_cols=44  Identities=14%  Similarity=0.103  Sum_probs=41.8

Q ss_pred             hhhhhhHHHHhhhhc--------------CCcEEEEecCCCCCCChHHHHHHHHhcCCC
Q psy5946           2 SIVLGLTSTLSIKLM--------------QDDLHIVKDLVLPVDDPKYLENLVEERCSQ   46 (63)
Q Consensus         2 vR~lGLk~ALS~K~~--------------q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~   46 (63)
                      +|++||++|||+|+.              ++.|+|+|+++ +.+|||++.+.|+++||.
T Consensus       106 ~rrlAl~sALsa~~~~~lv~~rGh~~~~~e~~lvVvd~~~-~~~KTK~~~~~L~~lg~~  163 (246)
T 1vq8_C          106 ERQLAVRSALAATADADLVADRGHEFDRDEVPVVVSDDFE-DLVKTQEVVSLLEALDVH  163 (246)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHTCCCCCSSCSEEECGGGG-GCCCHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHhhhhhhhhhcccccccccccEEEEeCcc-cCCCHHHHHHHHHhcCCc
Confidence            689999999999997              79999999999 999999999999999985

>3bbo_G Ribosomal protein L4; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=99.11  E-value=1.2e-11  Score=89.05  Aligned_cols=54  Identities=9%  Similarity=-0.006  Sum_probs=48.3

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecC--CCCCCChHHHHHHHHhcCCC--ceeEEEecccC
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDL--VLPVDDPKYLENLVEERCSQ--VSLSARLGIRD   57 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l--~l~~~KTk~L~~~l~~~~~~--~s~LiI~g~~~   57 (63)
                      +|++||++|||+|+  |+|+|||++  +++.+|||++.+.|+++||.  +++|||.+..+
T Consensus       156 ~rrlAlrsALSak~--g~LvVvd~~~~~~~~~KTK~~~~~Lk~lg~~~~~k~LlV~~~~d  213 (293)
T 3bbo_G          156 ERRLALSTAIASAV--GNSFVVEEFAENFEKPKTKDFIAAMQRWGLDPAEKSLFFLMDLV  213 (293)
T ss_dssp             HHHHHHHHHHHHHH--HTTCCCCCCGGGTTCCSSHHHHTTHHHHSCSSCSSSCCEECCCS
T ss_pred             HHHHHHHHHHHHHc--CCEEEEecccccccCCCHHHHHHHHHHcCCcccCceEEEEcCCC
Confidence            69999999999999  899999999  89999999999999999983  46888875443

>3j21_D 50S ribosomal protein L4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.09  E-value=7.2e-11  Score=83.59  Aligned_cols=43  Identities=21%  Similarity=0.223  Sum_probs=40.3

Q ss_pred             hhhhhhHHHHhhhhcCC---------------cEEEEecCCCCCCChHHHHHHHHhcCC
Q psy5946           2 SIVLGLTSTLSIKLMQD---------------DLHIVKDLVLPVDDPKYLENLVEERCS   45 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~---------------~LiIvD~l~l~~~KTk~L~~~l~~~~~   45 (63)
                      +|++||++|||+|+.++               .|+|+|+|+ +.+|||++.+.|+++++
T Consensus       109 ~rrlAl~sALsa~~~~~lv~~rgh~~~~~~~~~lvVvd~~~-~~~KTK~~~~~L~~lg~  166 (255)
T 3j21_D          109 EKRLALMSAIAATANYDLVRARGHIIDNVPQLPLIVVDDLQ-KVQKTRETREIFKKLGI  166 (255)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHTCCCSCTTCSSEEECGGGG-TCCCHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhhcccchhcccccccccceeEEEEeCCc-CCCChHHHHHHHHHcCC
Confidence            68999999999999988               899999998 56799999999999998

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=98.89  E-value=1.5e-09  Score=81.58  Aligned_cols=44  Identities=11%  Similarity=-0.009  Sum_probs=42.0

Q ss_pred             hhhhhhHHHHhhh---------------hcCCcEEEEecCCCCCCChHHHHHHHHhcCCC
Q psy5946           2 SIVLGLTSTLSIK---------------LMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ   46 (63)
Q Consensus         2 vR~lGLk~ALS~K---------------~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~   46 (63)
                      +|++||++|||++               +.++.|+|+|+|+ +.+||+++.++|+++||.
T Consensus       119 ~rrlAlrSALSaka~~~LV~aRGH~i~~~~e~~LVVvD~le-~~~KTK~~v~~Lk~lgl~  177 (421)
T 2zkr_c          119 QKRYAICSALACLSLPALVMSKGHRIEEVPELPLVVEDKVE-GYKKTKEAVLLLKKLKAW  177 (421)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHTTCCCCSCSCCSEEECGGGG-GCCCHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhcccchhhhhccccccccccCCEEEEeCCc-cccChHHHHHHHHhcCCC
Confidence            6899999999999               8999999999999 999999999999999975

>2wwb_H 60S ribosomal protein L4-B; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Triticum aestivum} PDB: 2wwa_H 2ww9_H 3izc_D 3izs_D 3o58_D 3o5h_D 3u5e_C 3u5i_C 1s1i_D 3jyw_D

Probab=98.88  E-value=1e-09  Score=81.02  Aligned_cols=44  Identities=11%  Similarity=0.092  Sum_probs=42.1

Q ss_pred             hhhhhhHHHHhhh---------------hcCCcEEEEecCCCCCCChHHHHHHHHhcCCC
Q psy5946           2 SIVLGLTSTLSIK---------------LMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ   46 (63)
Q Consensus         2 vR~lGLk~ALS~K---------------~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~   46 (63)
                      +|++||++|||+|               +.++.|+|+|++ .+.+|||++.+.|+++||.
T Consensus       117 ~rrlAl~SALsaka~~~lv~arGH~i~~~~e~~LvVvd~~-~~~~KTK~~~~~Lk~lg~~  175 (362)
T 2wwb_H          117 EKRYATASAIAATAVASLVLARGHRVEKIPEIPLVVSTDL-ESIQKTKEAVAALKAVGAH  175 (362)
T ss_dssp             HHHHHHHHHHHGGGCSTHHHHHTCCCCSCSSCSBCCCGGG-GTCCCHHHHHHHHHHHSCS
T ss_pred             HHHHHHHHHHHhccchhhhhhccccccccccCcEEEEecc-cccCCHHHHHHHHHhcCCC
Confidence            6899999999999               999999999999 8999999999999999985

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C

Probab=98.74  E-value=9.3e-09  Score=77.02  Aligned_cols=44  Identities=5%  Similarity=0.005  Sum_probs=39.8

Q ss_pred             hhhhhhHHHHhhhhc---------------CCcEEEEecCCCCCCChHHHHHHHHhcCCC
Q psy5946           2 SIVLGLTSTLSIKLM---------------QDDLHIVKDLVLPVDDPKYLENLVEERCSQ   46 (63)
Q Consensus         2 vR~lGLk~ALS~K~~---------------q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~   46 (63)
                      +|++||++|||+|+.               ++.|+|+|+++ ..+|||++.+.|+++|+.
T Consensus       124 ~rrlAlrSALSaka~~~lV~aRgh~i~~v~e~~LVV~D~~e-~~~KTK~~v~~Lk~lg~~  182 (410)
T 4a17_C          124 QKRHAVAAALAASALVPLVFARGHRISNVQELPYVFDDSVE-SYEKTKQAVAFLKRVGAY  182 (410)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHTTCCCTTCCSSSEEECTTGG-GCCSHHHHHHHHHHHTTH
T ss_pred             HHHHHHHHHHHHhcchhhhhhccccccccCcCCEEEEecCc-CCCCHHHHHHHHHHcCCc
Confidence            689999999999974               88899999998 558999999999999974

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	63
d1dmga_	225	Ribosomal protein L4 {Thermotoga maritima [TaxId:	99.39
d2gycc1	198	Ribosomal protein L4 {Escherichia coli [TaxId: 562	99.33
d2zjrc1	197	Ribosomal protein L4 {Deinococcus radiodurans [Tax	99.28
d2j01f1	208	Ribosomal protein L4 {Thermus thermophilus [TaxId:	99.25
d1vqoc1	246	Ribosomal protein L4 {Archaeon Haloarcula marismor	98.62
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	81.61

>d1dmga_ c.22.1.1 (A:) Ribosomal protein L4 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L4
superfamily: Ribosomal protein L4
family: Ribosomal protein L4
domain: Ribosomal protein L4
species: Thermotoga maritima [TaxId: 2336]

Probab=99.39  E-value=3.6e-13  Score=90.59  Aligned_cols=54  Identities=24%  Similarity=0.236  Sum_probs=48.9

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCC-ceeEEEecc
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ-VSLSARLGI   55 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~-~s~LiI~g~   55 (63)
                      +|++|+++|||+|+++++|+|||++.++++|||.+.+.|++++|+ ++.|||...
T Consensus       104 ~r~~Al~~aLs~k~~~~~l~VVd~~~~~~~KTK~~~~~l~~l~~~~~~~llv~~~  158 (225)
T d1dmga_         104 MKKLALRSALSVKYRENKLLVLDDLKLERPKTKSLKEILQNLQLSDKKTLIVLPW  158 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEESCCCCSSCCHHHHHHHHHHTTCTTSCEEEEECC
T ss_pred             HHHHHHHHHHHHHhccCCeEEeccccccccchHHHHHHHhhhcccccceeeeecc
Confidence            689999999999999999999999999999999999999999987 456666543

>d2gycc1 c.22.1.1 (C:1-198) Ribosomal protein L4 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L4
superfamily: Ribosomal protein L4
family: Ribosomal protein L4
domain: Ribosomal protein L4
species: Escherichia coli [TaxId: 562]

Probab=99.33  E-value=1.4e-13  Score=91.89  Aligned_cols=56  Identities=21%  Similarity=0.167  Sum_probs=51.7

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCCceeEEEecccCC
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQVSLSARLGIRDL   58 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~~s~LiI~g~~~~   58 (63)
                      +|++||++|||.|+++++|+|||++.++++|||++.+.++++++. ++|||.+..+-
T Consensus       100 ~r~~al~~aLs~k~~~~~l~vvd~~~~~~~kTk~~~~~l~~~~~~-~~Liv~~~~~e  155 (198)
T d2gycc1         100 MYRGALKSILSELVRQDRLIVVEKFSVEAPKTKLLAQKLKDMALE-DVLIITGELDE  155 (198)
T ss_dssp             THHHHHHHHHHHTTSSSSCCEECGGGGTCCSSHHHHHHHHTTTCG-GGTTTCCCCSS
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEeeccccCCcHHHHHHHHhhhccc-eeEEecCcccH
Confidence            799999999999999999999999999999999999999999998 59998875543

>d2zjrc1 c.22.1.1 (C:2-198) Ribosomal protein L4 {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L4
superfamily: Ribosomal protein L4
family: Ribosomal protein L4
domain: Ribosomal protein L4
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.28  E-value=1.1e-12  Score=87.27  Aligned_cols=52  Identities=12%  Similarity=0.057  Sum_probs=46.9

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCCc--eeEEEe
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQV--SLSARL   53 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~~--s~LiI~   53 (63)
                      +|++||++|||.|+++|+|+|||+++++++|||.+.+.++++++.+  .+|+++
T Consensus        98 ~r~lal~~aLS~K~~~~~l~vvd~~~~~~~KTK~~~~~l~~~~~~~~~~vl~~~  151 (197)
T d2zjrc1          98 VRQLGLAMAIASRQEGGKLVAVDGFDIADAKTKNFISWAKQNGLDGTEKVLLVT  151 (197)
T ss_dssp             HHHHHHHHHHHHHHHTTCCBCSCCTTSCSSCSHHHHHHHHHTTCCSSSCEEEEC
T ss_pred             HHHHHHHHHHHHHHhcCceEEecccccccCCcHHHHhHhhhhhcccccceeeec
Confidence            7999999999999999999999999999999999999999999873  344443

>d2j01f1 c.22.1.1 (F:1-208) Ribosomal protein L4 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L4
superfamily: Ribosomal protein L4
family: Ribosomal protein L4
domain: Ribosomal protein L4
species: Thermus thermophilus [TaxId: 274]

Probab=99.25  E-value=5.8e-12  Score=84.02  Aligned_cols=53  Identities=15%  Similarity=0.065  Sum_probs=47.5

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCCCCCCChHHHHHHHHhcCCC--ceeEEEec
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLVLPVDDPKYLENLVEERCSQ--VSLSARLG   54 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~l~~~KTk~L~~~l~~~~~~--~s~LiI~g   54 (63)
                      +|++||++|||.|+++++|+|||+++.+++|||++.+.++++++.  .++|++++
T Consensus       105 ~r~~Al~~aLs~k~~~~~l~Vvd~~~~~~~KTK~~~~~L~~l~l~~~~~vl~v~~  159 (208)
T d2j01f1         105 VRKKGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEAGLDGSESVLLVTG  159 (208)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEECCCCCCSSCHHHHHHHHHHHTCCSSSCEEEECS
T ss_pred             HHHHHHHHHHHHHhccCCceeeccccccccccHHHHHHHHHhccccccceeeccc
Confidence            689999999999999999999999999999999999999999976  34556654

>d1vqoc1 c.22.1.1 (C:1-246) Ribosomal protein L4 {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a/b)
fold: Ribosomal protein L4
superfamily: Ribosomal protein L4
family: Ribosomal protein L4
domain: Ribosomal protein L4
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=98.62  E-value=1.4e-09  Score=73.85  Aligned_cols=49  Identities=16%  Similarity=0.116  Sum_probs=43.3

Q ss_pred             hhhhhhHHHHhhhhcCCcE-------------EEEecCCCCCCChHHHHHHHHhcCCCceeE
Q psy5946           2 SIVLGLTSTLSIKLMQDDL-------------HIVKDLVLPVDDPKYLENLVEERCSQVSLS   50 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~L-------------iIvD~l~l~~~KTk~L~~~l~~~~~~~s~L   50 (63)
                      +|++||++|||+|+.++.+             +|+|++..+.+|||++.+.|++++|.+..+
T Consensus       106 ~r~lAl~~aLs~k~~~~~v~~~g~~~~~~~~~iV~~~~~~~~~KTK~~~~~L~~l~~~~~~~  167 (246)
T d1vqoc1         106 ERQLAVRSALAATADADLVADRGHEFDRDEVPVVVSDDFEDLVKTQEVVSLLEALDVHADID  167 (246)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHTCCCCCSSCSEEECGGGGGCCCHHHHHHHHHTTTCTHHHH
T ss_pred             HHHHHHHHHHHHhhcccceeeecccccCCCCCEEecccccccccHHHHHHHHHhcCCcccee
Confidence            6999999999999888776             689999999999999999999999974333

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=81.61  E-value=1.4  Score=27.15  Aligned_cols=58  Identities=19%  Similarity=0.202  Sum_probs=38.8

Q ss_pred             hhhhhhHHHHhhhhcCCcEEEEecCC--CCCCChHHHHHHHHhcCCCceeEEEecccCCcCCC
Q psy5946           2 SIVLGLTSTLSIKLMQDDLHIVKDLV--LPVDDPKYLENLVEERCSQVSLSARLGIRDLQYDD   62 (63)
Q Consensus         2 vR~lGLk~ALS~K~~q~~LiIvD~l~--l~~~KTk~L~~~l~~~~~~~s~LiI~g~~~~~~~~   62 (63)
                      .|++++..||.   .+-+++|+|+..  ++..-.+.+.+.+.++.=.+.+.||..+.++.|-|
T Consensus       131 ~qrv~ia~al~---~~~~llllDEPt~gLD~~~~~~i~~~l~~~~~~~~~~ii~~~~~l~~~D  190 (200)
T d1sgwa_         131 IRRVQLASTLL---VNAEIYVLDDPVVAIDEDSKHKVLKSILEILKEKGIVIISSREELSYCD  190 (200)
T ss_dssp             HHHHHHHHHTT---SCCSEEEEESTTTTSCTTTHHHHHHHHHHHHHHHSEEEEEESSCCTTSS
T ss_pred             HHHHHHHHHHh---cCCCEEEEcCcccccCHHHHHHHHHHHHHHHhCCCEEEEEEechhhhcc
Confidence            36777777776   478999999984  55544445666666642222467777778888866