Citrus Sinensis ID: 025449

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250--
MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYINGFSTTLDLSDYLLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVMSLPT
cccEEEEEccccccccHHHHHHccccccHHHHHHHHHHccccccccccEEEEEEEEcccEEEEEEEEEEcccEEEEEEEcccccccEEEcccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccEEcccccccccEEEEcccccccccccEEEEEEEcccccccccccccccccccccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEccEEEEEEEccc
cccEEEEEccHHHHHEEEEEEEccccccHHHHHHHHHHHHHccccccccEEEEEEccccEEEEEEEccccccEEEEEEEcHHHHHHccccccccHHHHHHHHHHHHHHHHHHccccHHEccEEEccccEEEEccccccccEEEEEEEccEEccccHHHHHHHccccccccccccccccccHHccHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHcEEEEEEEEEEEEEEcccc
MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINqdknkyntpkyRFVVRFTNKDITAQIISASIAGDIVLASAYAhelpryglevgltNYAAAYCTGLLLARRVLKMLEMDAEYEghveatgedysveptenrrpfRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYINGFSTTLDLSDYLLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVMSLPT
mafakaqkskayfkryqvkykrrregktdyrarirlinqdknkyntpkyRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGhveatgedysveptenrrpfraLLDVGLVktttgnrvfgALKVIFKFIQTSYDYINGFSTTLDLSDYLLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIvsnltlkftvntsivvmslpt
MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYINGFsttldlsdyllsiltvlfvfvnfllclDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVMSLPT
***********YFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEAT************RPFRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYINGFSTTLDLSDYLLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVM****
*AFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYING**********LLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVMSLPT
*********KAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYINGFSTTLDLSDYLLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVMSLPT
*AFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYINGFSTTLDLSDYLLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVMSLPT
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKVIFKFIQTSYDYINGFSTTLDLSDYLLSILTVLFVFVNFLLCLDFRVHWMVDLISLTVRRDLLDSVRIVSNLTLKFTVNTSIVVMSLPT
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 ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query252 2.2.26 [Sep-21-2011]
Q6UNT2302 60S ribosomal protein L5 N/A no 0.646 0.539 0.920 1e-85
P49227301 60S ribosomal protein L5- yes no 0.646 0.541 0.877 2e-81
Q8LBI1301 60S ribosomal protein L5- yes no 0.646 0.541 0.877 4e-81
A2WXX3304 60S ribosomal protein L5- N/A no 0.642 0.532 0.820 6e-77
Q0JGY1304 60S ribosomal protein L5- yes no 0.642 0.532 0.820 1e-76
Q8L4L4304 60S ribosomal protein L5- yes no 0.630 0.523 0.808 2e-73
Q627R7294 60S ribosomal protein L5 N/A no 0.694 0.595 0.613 5e-61
Q4KTI3293 60S ribosomal protein L5 N/A no 0.646 0.556 0.701 2e-60
P49405293 60S ribosomal protein L5 yes no 0.654 0.563 0.654 4e-60
Q26481295 60S ribosomal protein L5 N/A no 0.646 0.552 0.664 5e-58
>sp|Q6UNT2|RL5_CUCSA 60S ribosomal protein L5 OS=Cucumis sativus GN=RPL5 PE=2 SV=1 Back     alignment and function desciption
 Score =  316 bits (809), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 150/163 (92%), Positives = 160/163 (98%)

Query: 1   MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDI 60
           MAFAKAQK+KAYFKRYQVK+KRRREGKTDYRARIRLINQDKNKYNTPKYRFVVR +NKDI
Sbjct: 1   MAFAKAQKTKAYFKRYQVKFKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRTSNKDI 60

Query: 61  TAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120
           TAQIISASIAGD+VLASAY+HELP+YGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE
Sbjct: 61  TAQIISASIAGDLVLASAYSHELPQYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120

Query: 121 GHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALK 163
           G+VEATGEDYSVEP + RRPFRALLDVGL++TTTGNRVFGALK
Sbjct: 121 GNVEATGEDYSVEPADTRRPFRALLDVGLIRTTTGNRVFGALK 163
This protein binds 5S RNA.
Cucumis sativus (taxid: 3659)
>sp|P49227|RL52_ARATH 60S ribosomal protein L5-2 OS=Arabidopsis thaliana GN=RPL5B PE=2 SV=3 Back     alignment and function description
>sp|Q8LBI1|RL51_ARATH 60S ribosomal protein L5-1 OS=Arabidopsis thaliana GN=ATL5 PE=2 SV=2 Back     alignment and function description
>sp|A2WXX3|RL51_ORYSI 60S ribosomal protein L5-1 OS=Oryza sativa subsp. indica GN=RPL5A PE=2 SV=2 Back     alignment and function description
>sp|Q0JGY1|RL51_ORYSJ 60S ribosomal protein L5-1 OS=Oryza sativa subsp. japonica GN=RPL5A PE=2 SV=1 Back     alignment and function description
>sp|Q8L4L4|RL52_ORYSJ 60S ribosomal protein L5-2 OS=Oryza sativa subsp. japonica GN=RPL5B PE=3 SV=1 Back     alignment and function description
>sp|Q627R7|RL5_CAEBR 60S ribosomal protein L5 OS=Caenorhabditis briggsae GN=rpl-5 PE=3 SV=2 Back     alignment and function description
>sp|Q4KTI3|RL5_SUBDO 60S ribosomal protein L5 OS=Suberites domuncula GN=RPL5 PE=2 SV=1 Back     alignment and function description
>sp|P49405|RL5_CAEEL 60S ribosomal protein L5 OS=Caenorhabditis elegans GN=rpl-5 PE=3 SV=1 Back     alignment and function description
>sp|Q26481|RL5_STYCL 60S ribosomal protein L5 OS=Styela clava GN=RPL5 PE=3 SV=3 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query252
449435101302 PREDICTED: 60S ribosomal protein L5-like 0.646 0.539 0.920 7e-84
296084316333 unnamed protein product [Vitis vinifera] 0.646 0.489 0.926 7e-84
388507120207 unknown [Lotus japonicus] 0.817 0.995 0.677 8e-84
225434146301 PREDICTED: 60S ribosomal protein L5-like 0.646 0.541 0.926 1e-83
388492658301 unknown [Lotus japonicus] 0.646 0.541 0.926 4e-83
356520322298 PREDICTED: 60S ribosomal protein L5-like 0.646 0.546 0.914 5e-83
356560595298 PREDICTED: 60S ribosomal protein L5-like 0.646 0.546 0.907 8e-83
224127226297 predicted protein [Populus trichocarpa] 0.646 0.548 0.914 2e-82
356549759298 PREDICTED: 60S ribosomal protein L5-like 0.646 0.546 0.907 2e-82
356549761298 PREDICTED: 60S ribosomal protein L5-like 0.646 0.546 0.907 2e-82
>gi|449435101|ref|XP_004135334.1| PREDICTED: 60S ribosomal protein L5-like [Cucumis sativus] gi|449529962|ref|XP_004171966.1| PREDICTED: 60S ribosomal protein L5-like [Cucumis sativus] gi|55976189|sp|Q6UNT2.1|RL5_CUCSA RecName: Full=60S ribosomal protein L5 gi|34484312|gb|AAQ72789.1| 60S ribosomal protein L5 [Cucumis sativus] Back     alignment and taxonomy information
 Score =  316 bits (809), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 150/163 (92%), Positives = 160/163 (98%)

Query: 1   MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDI 60
           MAFAKAQK+KAYFKRYQVK+KRRREGKTDYRARIRLINQDKNKYNTPKYRFVVR +NKDI
Sbjct: 1   MAFAKAQKTKAYFKRYQVKFKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRTSNKDI 60

Query: 61  TAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120
           TAQIISASIAGD+VLASAY+HELP+YGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE
Sbjct: 61  TAQIISASIAGDLVLASAYSHELPQYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120

Query: 121 GHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALK 163
           G+VEATGEDYSVEP + RRPFRALLDVGL++TTTGNRVFGALK
Sbjct: 121 GNVEATGEDYSVEPADTRRPFRALLDVGLIRTTTGNRVFGALK 163

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|296084316|emb|CBI24704.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|388507120|gb|AFK41626.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|225434146|ref|XP_002277846.1| PREDICTED: 60S ribosomal protein L5-like isoform 2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|388492658|gb|AFK34395.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|356520322|ref|XP_003528812.1| PREDICTED: 60S ribosomal protein L5-like [Glycine max] Back     alignment and taxonomy information
>gi|356560595|ref|XP_003548576.1| PREDICTED: 60S ribosomal protein L5-like [Glycine max] Back     alignment and taxonomy information
>gi|224127226|ref|XP_002329431.1| predicted protein [Populus trichocarpa] gi|118486443|gb|ABK95061.1| unknown [Populus trichocarpa] gi|222870481|gb|EEF07612.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356549759|ref|XP_003543258.1| PREDICTED: 60S ribosomal protein L5-like [Glycine max] Back     alignment and taxonomy information
>gi|356549761|ref|XP_003543259.1| PREDICTED: 60S ribosomal protein L5-like [Glycine max] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query252
TAIR|locus:2167042301 RPL5B "ribosomal protein L5 B" 0.646 0.541 0.877 3.1e-74
TAIR|locus:2094508301 ATL5 "ribosomal protein L5" [A 0.646 0.541 0.877 4e-74
WB|WBGene00004416293 rpl-5 [Caenorhabditis elegans 0.646 0.556 0.662 2.5e-56
UNIPROTKB|Q58DW5297 RPL5 "60S ribosomal protein L5 0.646 0.548 0.658 7.8e-55
UNIPROTKB|P46777297 RPL5 "60S ribosomal protein L5 0.646 0.548 0.658 7.8e-55
UNIPROTKB|F1S530297 RPL5 "60S ribosomal protein L5 0.646 0.548 0.658 7.8e-55
UNIPROTKB|P22451297 RPL5 "60S ribosomal protein L5 0.646 0.548 0.652 9.9e-55
UNIPROTKB|F1P7B0297 RPL5 "Uncharacterized protein" 0.638 0.542 0.660 2.6e-54
UNIPROTKB|F2Z4K4296 RPL5 "60S ribosomal protein L5 0.638 0.543 0.654 3.4e-54
FB|FBgn0064225299 RpL5 "Ribosomal protein L5" [D 0.646 0.545 0.658 4.3e-54
TAIR|locus:2167042 RPL5B "ribosomal protein L5 B" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 749 (268.7 bits), Expect = 3.1e-74, P = 3.1e-74
 Identities = 143/163 (87%), Positives = 155/163 (95%)

Query:     1 MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDI 60
             M F K+ KS AYFKRYQVK++RRR+GKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDI
Sbjct:     1 MVFVKSSKSNAYFKRYQVKFRRRRDGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDI 60

Query:    61 TAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120
              AQI+SASIAGDIV ASAYAHELP+YGL VGLTNYAAAYCTGLLLARRVLKMLEMD EYE
Sbjct:    61 VAQIVSASIAGDIVKASAYAHELPQYGLTVGLTNYAAAYCTGLLLARRVLKMLEMDDEYE 120

Query:   121 GHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALK 163
             G+VEATGED+SVEPT++RRPFRALLDVGL++TTTGNRVFGALK
Sbjct:   121 GNVEATGEDFSVEPTDSRRPFRALLDVGLIRTTTGNRVFGALK 163
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:0008097 "5S rRNA binding" evidence=IEA
GO:0042254 "ribosome biogenesis" evidence=ISS
GO:0005730 "nucleolus" evidence=IDA
GO:0005773 "vacuole" evidence=IDA
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0005886 "plasma membrane" evidence=IDA
GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA
GO:0008283 "cell proliferation" evidence=IMP
GO:0009965 "leaf morphogenesis" evidence=IMP
GO:0005829 "cytosol" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=RCA
GO:0001510 "RNA methylation" evidence=RCA
GO:0006094 "gluconeogenesis" evidence=RCA
GO:0006096 "glycolysis" evidence=RCA
GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA
GO:0009651 "response to salt stress" evidence=RCA
GO:0046686 "response to cadmium ion" evidence=RCA
TAIR|locus:2094508 ATL5 "ribosomal protein L5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
WB|WBGene00004416 rpl-5 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
UNIPROTKB|Q58DW5 RPL5 "60S ribosomal protein L5" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|P46777 RPL5 "60S ribosomal protein L5" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1S530 RPL5 "60S ribosomal protein L5" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|P22451 RPL5 "60S ribosomal protein L5" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1P7B0 RPL5 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z4K4 RPL5 "60S ribosomal protein L5" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
FB|FBgn0064225 RpL5 "Ribosomal protein L5" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms

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) ?
Q8L4L4RL52_ORYSJNo assigned EC number0.80860.63090.5230yesno
P49227RL52_ARATHNo assigned EC number0.87730.64680.5415yesno
O74306RL5B_SCHPONo assigned EC number0.54350.75390.6462yesno
Q8LBI1RL51_ARATHNo assigned EC number0.87730.64680.5415yesno
P52822RL5A_SCHPONo assigned EC number0.54350.75390.6462yesno
Q0JGY1RL51_ORYSJNo assigned EC number0.82090.64280.5328yesno
Q6UNT2RL5_CUCSANo assigned EC number0.92020.64680.5397N/Ano

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

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query252
PTZ00069300 PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov 1e-99
pfam00861119 pfam00861, Ribosomal_L18p, Ribosomal L18p/L5e fami 1e-36
PRK08569193 PRK08569, rpl18p, 50S ribosomal protein L18P; Revi 3e-34
COG0256125 COG0256, RplR, Ribosomal protein L18 [Translation, 3e-27
cd00432103 cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18 3e-23
>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional Back     alignment and domain information 
 Score =  292 bits (749), Expect = 1e-99
 Identities = 119/165 (72%), Positives = 136/165 (82%), Gaps = 2/165 (1%)

Query: 1   MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDI 60
           MAF K  K+KAYFKR+QVKY+RRREGKTDY AR RLI QDKNKYN+PKYR VVR TNKDI
Sbjct: 1   MAFVKVVKNKAYFKRFQVKYRRRREGKTDYYARRRLILQDKNKYNSPKYRLVVRITNKDI 60

Query: 61  TAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120
             QI+ A+I GD VLA+AY+HELPR+G+ VGLTNYAAAY TGLLLARR+LK L +D ++E
Sbjct: 61  ICQIVYATIVGDKVLAAAYSHELPRFGIPVGLTNYAAAYATGLLLARRLLKKLGLDKQFE 120

Query: 121 GHVEATGEDYSV--EPTENRRPFRALLDVGLVKTTTGNRVFGALK 163
           G  EA GE Y V  E  E RRPF+A+LDVGL +TTTGNRVFGALK
Sbjct: 121 GVKEADGEYYHVDEEDDEERRPFKAILDVGLARTTTGNRVFGALK 165

Length = 300
>gnl|CDD|216159 pfam00861, Ribosomal_L18p, Ribosomal L18p/L5e family Back     alignment and domain information
>gnl|CDD|236294 PRK08569, rpl18p, 50S ribosomal protein L18P; Reviewed Back     alignment and domain information
>gnl|CDD|223334 COG0256, RplR, Ribosomal protein L18 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|238246 cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 252
PTZ00069300 60S ribosomal protein L5; Provisional 100.0
KOG0875264 consensus 60S ribosomal protein L5 [Translation, r 100.0
PRK08569193 rpl18p 50S ribosomal protein L18P; Reviewed 100.0
COG0256125 RplR Ribosomal protein L18 [Translation, ribosomal 100.0
PF00861119 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPr 99.94
PRK05593117 rplR 50S ribosomal protein L18; Reviewed 99.92
CHL00139109 rpl18 ribosomal protein L18; Validated 99.91
cd00432103 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is 99.91
TIGR00060114 L18_bact ribosomal protein L18, bacterial type. Th 99.88
PTZ00032211 60S ribosomal protein L18; Provisional 99.64
KOG3333188 consensus Mitochondrial/chloroplast ribosomal prot 95.46
PTZ00090233 40S ribosomal protein S11; Provisional 94.31
PF00411110 Ribosomal_S11: Ribosomal protein S11; InterPro: IP 88.3
CHL00041116 rps11 ribosomal protein S11 87.51
TIGR03632108 bact_S11 30S ribosomal protein S11. This model des 86.22
PRK05309128 30S ribosomal protein S11; Validated 86.16
>PTZ00069 60S ribosomal protein L5; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.4e-84  Score=594.98  Aligned_cols=184  Identities=67%  Similarity=1.019  Sum_probs=179.7

Q ss_pred             CceeeeecCcccccccccccchhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEec
Q 025449            1 MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYA   80 (252)
Q Consensus         1 M~fvk~~knkayfkRyqVk~RRRREGKTDY~~R~rLi~qdKnKynspKpRLVVrrTNrhIiaQII~~~~eGD~tLaSAsS   80 (252)
                      |+|||++||+||||||||||||||||||||++|++|+.||||||||||||||||+||++|||||+++.++||+|||||+|
T Consensus         1 M~fvKv~KnkaY~~ryqvkfRRRREGKTdY~~R~rLi~q~knKynspK~RlVVR~TN~~ii~Qiv~~~~~GD~vl~sA~S   80 (300)
T PTZ00069          1 MAFVKVVKNKAYFKRFQVKYRRRREGKTDYYARRRLILQDKNKYNSPKYRLVVRITNKDIICQIVYATIVGDKVLAAAYS   80 (300)
T ss_pred             CCceeeeecccccccccchhhhhhcccccHHHHHHHHHccccccCCCCceEEEEEECCcEEEEEEEeecCCCEEEEEeeh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccCCCcHHHHHHHHHHHHHHHHhhhccccccCCceeecCccccc-ccCC-CCCcceEEEeecccccccCcce
Q 025449           81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSV-EPTE-NRRPFRALLDVGLVKTTTGNRV  158 (252)
Q Consensus        81 ~EL~kyG~k~gltN~aAAYltGlLlArRAL~k~~~d~~y~Gi~eV~g~~~~v-e~~d-~~~~f~~~LDiGL~rtt~G~rV  158 (252)
                      +||++|||++|++|++||||||+|+|+|+|++||||+.|+|++|++|++|+| |+.| +|+||+|+|||||+|||+||||
T Consensus        81 ~eL~kyG~k~gl~N~~AAY~TGlL~arR~L~kl~ld~~y~G~~e~~g~~y~v~e~~~~~~rpf~a~LDiGL~rtt~G~RV  160 (300)
T PTZ00069         81 HELPRFGIPVGLTNYAAAYATGLLLARRLLKKLGLDKQFEGVKEADGEYYHVDEEDDEERRPFKAILDVGLARTTTGNRV  160 (300)
T ss_pred             hhHhhcCcCCCCccHHHHHHHHHHHHHHHHHhhcccccccCcccccCcccccccccccCCCCceEEEeeccccCCCCcee
Confidence            9999999999999999999999999999999999999999999999999999 7766 5999999999999999999999


Q ss_pred             eeeeccccc---ccccCCCccCCCCCCcC
Q 025449          159 FGALKVIFK---FIQTSYDYINGFSTTLD  184 (252)
Q Consensus       159 FaalKGavD---~IPhs~~~fpg~d~~~~  184 (252)
                      |||||||+|   +||||+++|||||.|++
T Consensus       161 FaalKGa~DgGl~IPhs~~rfpg~d~e~~  189 (300)
T PTZ00069        161 FGALKGAVDGGLHIPHSPNRFPGYSKEKD  189 (300)
T ss_pred             eeehhcccccCcccCCCCCcCCCCCcccc
Confidence            999999999   99999999999985544

>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed Back     alignment and domain information
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF00861 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPro: IPR005484 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PRK05593 rplR 50S ribosomal protein L18; Reviewed Back     alignment and domain information
>CHL00139 rpl18 ribosomal protein L18; Validated Back     alignment and domain information
>cd00432 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit Back     alignment and domain information
>TIGR00060 L18_bact ribosomal protein L18, bacterial type Back     alignment and domain information
>PTZ00032 60S ribosomal protein L18; Provisional Back     alignment and domain information
>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PTZ00090 40S ribosomal protein S11; Provisional Back     alignment and domain information
>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>CHL00041 rps11 ribosomal protein S11 Back     alignment and domain information
>TIGR03632 bact_S11 30S ribosomal protein S11 Back     alignment and domain information
>PRK05309 30S ribosomal protein S11; Validated Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query252
3izr_Q304 Localization Of The Large Subunit Ribosomal Protein 3e-74
2zkr_n297 Structure Of A Mammalian Ribosomal 60s Subunit With 2e-53
3u5e_D297 The Structure Of The Eukaryotic Ribosome At 3.0 A R 4e-51
3izs_Q297 Localization Of The Large Subunit Ribosomal Protein 5e-51
3zf7_u308 High-resolution Cryo-electron Microscopy Structure 2e-49
4a17_M301 T.Thermophila 60s Ribosomal Subunit In Complex With 1e-48
3jyw_E237 Structure Of The 60s Proteins For Eukaryotic Riboso 7e-48
1s1i_E222 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 9e-48
1s72_N187 Refined Crystal Structure Of The Haloarcula Marismo 2e-15
1ffk_K186 Crystal Structure Of The Large Ribosomal Subunit Fr 2e-15
4gmn_B49 Structural Basis Of Rpl5 Recognition By Syo1 Length 4e-07
3j21_O203 Promiscuous Behavior Of Proteins In Archaeal Riboso 3e-06
>pdb|3IZR|Q Chain Q, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 304 Back     alignment and structure 
Iteration: 1

 Score =  274 bits (701), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 131/162 (80%), Positives = 146/162 (90%), Gaps = 3/162 (1%)
Query: 2   AFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDIT 61
            F K QK+ AYFKR+QVK+KRRR+GKTDYRARIRL NQDKNKYNTPKYRFV   TNKDIT
Sbjct: 6   GFVKTQKTHAYFKRFQVKFKRRRQGKTDYRARIRLTNQDKNKYNTPKYRFV---TNKDIT 62
Query: 62  AQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEG 121
           AQI+ A+IAGDIV+A+AY+HELPRYGLEVGLTNYAAAYCTGLLLARRVL +  +D EYEG
Sbjct: 63  AQIVYATIAGDIVMAAAYSHELPRYGLEVGLTNYAAAYCTGLLLARRVLTLRGLDQEYEG 122
Query: 122 HVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALK 163
           +VEATGEDY VEP + RRPFRALLDVGL++TTTGNRVFGALK
Sbjct: 123 NVEATGEDYYVEPADERRPFRALLDVGLIRTTTGNRVFGALK 164
>pdb|2ZKR|NN Chain n, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 297 Back     alignment and structure
>pdb|3U5E|D Chain D, The Structure Of The Eukaryotic Ribosome At 3.0 A Resolution. This Entry Contains Proteins Of The 60s Subunit, Ribosome A Length = 297 Back     alignment and structure
>pdb|3IZS|Q Chain Q, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 297 Back     alignment and structure
>pdb|3ZF7|UU Chain u, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 308 Back     alignment and structure
>pdb|4A17|M Chain M, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 301 Back     alignment and structure
>pdb|3JYW|E Chain E, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 237 Back     alignment and structure
>pdb|1S1I|E Chain E, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 222 Back     alignment and structure
>pdb|1S72|N Chain N, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 187 Back     alignment and structure
>pdb|1FFK|K Chain K, Crystal Structure Of The Large Ribosomal Subunit From Haloarcula Marismortui At 2.4 Angstrom Resolution Length = 186 Back     alignment and structure
>pdb|4GMN|B Chain B, Structural Basis Of Rpl5 Recognition By Syo1 Length = 49 Back     alignment and structure
>pdb|3J21|O Chain O, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 203 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query252
2zkr_n297 60S ribosomal protein L5; protein-RNA complex, 60S 1e-82
4a17_M301 RPL5, 60S ribosomal protein L5; eukaryotic ribosom 5e-82
3u5e_D297 60S ribosomal protein L5; translation, ribosome, r 3e-81
3iz5_Q304 60S ribosomal protein L5 (L18P); eukaryotic riboso 6e-80
1vq8_N187 50S ribosomal protein L18P; ribosome 50S, protein- 5e-48
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 297 Back     alignment and structure
 Score =  248 bits (634), Expect = 1e-82
 Identities = 107/164 (65%), Positives = 127/164 (77%), Gaps = 1/164 (0%)

Query: 1   MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDI 60
           M F K  K+KAYFKRYQVK++RRREGKTDY AR RL+ QDKNKYNTPKYR +VR TN+DI
Sbjct: 1   MGFVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIVRVTNRDI 60

Query: 61  TAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120
             QI  A I GD+++ + YAHELP+YG++VGLTNYAAAYCTGLLLARR+L    MD  YE
Sbjct: 61  ICQIAYARIEGDMIVCARYAHELPKYGVKVGLTNYAAAYCTGLLLARRLLNRFGMDKIYE 120

Query: 121 GHVEATGEDYSVEPTEN-RRPFRALLDVGLVKTTTGNRVFGALK 163
           G VE TG++Y+VE  +     F   LD GL +TTTGN+VFGALK
Sbjct: 121 GQVEVTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVFGALK 164
>4a17_M RPL5, 60S ribosomal protein L5; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_M 4a1c_M 4a1e_M Length = 301 Back     alignment and structure
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q 3o58_E 3o5h_E 3jyw_E 1s1i_E Length = 297 Back     alignment and structure
>1vq8_N 50S ribosomal protein L18P; 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.55.4.1 PDB: 1vq4_N* 1vq5_N* 1vq6_N* 1vq7_N* 1s72_N* 1vq9_N* 1vqk_N* 1vql_N* 1vqm_N* 1vqn_N* 1vqo_N* 1vqp_N* 1yhq_N* 1yi2_N* 1yij_N* 1yit_N* 1yj9_N* 1yjn_N* 1yjw_N* 2otj_N* ... Length = 187 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query252
3u5e_D297 60S ribosomal protein L5; translation, ribosome, r 100.0
4a17_M301 RPL5, 60S ribosomal protein L5; eukaryotic ribosom 100.0
3iz5_Q304 60S ribosomal protein L5 (L18P); eukaryotic riboso 100.0
2zkr_n297 60S ribosomal protein L5; protein-RNA complex, 60S 100.0
1vq8_N187 50S ribosomal protein L18P; ribosome 50S, protein- 100.0
3j21_O203 50S ribosomal protein L18P; archaea, archaeal, KIN 100.0
1ovy_A120 50S ribosomal protein L18; ribosome; NMR {Geobacil 99.96
3r8s_O116 50S ribosomal protein L18; protein biosynthesis, R 99.95
2zjr_L114 50S ribosomal protein L18; ribosome, large ribosom 99.93
3v2d_S112 50S ribosomal protein L18; ribosome associated inh 99.93
4gmn_B49 60S ribosomal protein L5-like protein; ARM, heat, 99.9
3bbo_Q161 Ribosomal protein L18; large ribosomal subunit, sp 99.87
3j20_M137 30S ribosomal protein S11P; archaea, archaeal, KIN 94.21
2vqe_K129 30S ribosomal protein S11, 30S ribosomal protein S 93.84
3r8n_K117 30S ribosomal protein S11; protein biosynthesis, R 91.63
3bbn_K140 Ribosomal protein S11; small ribosomal subunit, sp 91.34
2xzm_K151 RPS14E; ribosome, translation; 3.93A {Tetrahymena 87.06
3u5c_O137 RP59A, 40S ribosomal protein S14-A; translation, r 86.26
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_D 4b6a_D 3izc_Q 3izs_Q 3o58_E 3o5h_E 3jyw_E 1s1i_E Back     alignment and structure
Probab=100.00  E-value=8.2e-85  Score=595.91  Aligned_cols=184  Identities=57%  Similarity=0.903  Sum_probs=179.5

Q ss_pred             CceeeeecCcccccccccccchhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEec
Q 025449            1 MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYA   80 (252)
Q Consensus         1 M~fvk~~knkayfkRyqVk~RRRREGKTDY~~R~rLi~qdKnKynspKpRLVVrrTNrhIiaQII~~~~eGD~tLaSAsS   80 (252)
                      |||||++||+|||||||||||||||||||||+|+||++|||||||||+||||||+||+|||||||+++++||+|||||||
T Consensus         1 m~fvkvvknkaYf~ryqvkfRRRReGKTdY~~R~rLi~qdknKynt~kpRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS   80 (297)
T 3u5e_D            1 MAFQKDAKSSAYSSRFQTPFRRRREGKTDYYQRKRLVTQHKAKYNTPKYRLVVRFTNKDIICQIISSTITGDVVLAAAYS   80 (297)
T ss_dssp             -CCTTSCCCHHHHHTCCCCCSTTTTTCCCHHHHHHHHCCCGGGTTCCCCEEEEEEETTEEEEEEEECCTTCCEEEEEEEG
T ss_pred             CCceeeeeccccccccccchhhhccccccHHHHHHHHHccccccCCCCceEEEEEcCCeEEEEEeecCCCCCEEEEEEee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccCCCcHHHHHHHHHHHHHHHHhhhccccccCCceeecCcccccccCC-CCCcceEEEeecccccccCccee
Q 025449           81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTE-NRRPFRALLDVGLVKTTTGNRVF  159 (252)
Q Consensus        81 ~EL~kyG~k~gltN~aAAYltGlLlArRAL~k~~~d~~y~Gi~eV~g~~~~ve~~d-~~~~f~~~LDiGL~rtt~G~rVF  159 (252)
                      +||+++||+++++|++|||+||+|||+||+++||||++|+|++|||||+|+||++| +|+||+||||+||+|+|+|||||
T Consensus        81 ~El~k~g~k~~~~N~~AAy~vG~LiAeRAl~k~~ld~~y~G~~e~~g~~~~ve~~~~~~~~f~~~LDvGl~rtttG~RVf  160 (297)
T 3u5e_D           81 HELPRYGITHGLTNWAAAYATGLLIARRTLQKLGLDETYKGVEEVEGEYELTEAVEDGPRPFKVFLDIGLQRTTTGARVF  160 (297)
T ss_dssp             GGGGGGTCCSCTTSHHHHHHHHHHHHHHHHHHTSTTSSCCCCSSCCCCCCCCCCCSSSCCCCBCEEECTTCCCCTTCSHH
T ss_pred             cchhhcccCCCCCcHHHHHHHHHHHHHHHHHhhCCcccccCccccccceeccccccCCCCceeEEEecCCCccCccceeh
Confidence            99999999999999999999999999999999999999999999999999999987 59999999999999999999999


Q ss_pred             eeeccccc---ccccCCCccCCCCCCcC
Q 025449          160 GALKVIFK---FIQTSYDYINGFSTTLD  184 (252)
Q Consensus       160 aalKGavD---~IPhs~~~fpg~d~~~~  184 (252)
                      ||||||+|   +||||+++|||||+|++
T Consensus       161 aalKGA~DgGL~IPhs~~~fpg~d~e~k  188 (297)
T 3u5e_D          161 GALKGASDGGLYVPHSENRFPGWDFETE  188 (297)
T ss_dssp             HHHHHHHHHTCBCCCCSTTSSSEETTTT
T ss_pred             hhhhcccccCcccCCCcccccCcccccc
Confidence            99999999   99999999999987643
>4a17_M RPL5, 60S ribosomal protein L5; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_M 4a1c_M 4a1e_M Back     alignment and structure
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Back     alignment and structure
>1vq8_N 50S ribosomal protein L18P; 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.55.4.1 PDB: 1vq4_N* 1vq5_N* 1vq6_N* 1vq7_N* 1s72_N* 1vq9_N* 1vqk_N* 1vql_N* 1vqm_N* 1vqn_N* 1vqo_N* 1vqp_N* 1yhq_N* 1yi2_N* 1yij_N* 1yit_N* 1yj9_N* 1yjn_N* 1yjw_N* 2otj_N* ... Back     alignment and structure
>3j21_O 50S ribosomal protein L18P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus stearothermophilus} SCOP: c.55.4.1 Back     alignment and structure
>3r8s_O 50S ribosomal protein L18; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_O 3j19_O 2wwq_O 3oat_O* 3oas_O* 3ofd_O 3ofc_O 3ofr_O* 3ofz_O* 3og0_O 3ofq_O 3r8t_O 3i1n_O 1p85_M 1p86_M 1vs8_O 1vs6_O 2aw4_O 2awb_O 1vt2_O ... Back     alignment and structure
>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.55.4.1 PDB: 1sm1_M* 2zjp_L* 2zjq_L 1nkw_M 3cf5_L* 3dll_L* 3pio_L* 3pip_L* 1nwy_M* 1nwx_M* 1xbp_M* 1pnu_M 1pny_M 1vor_P 1vou_P 1vow_P 1voy_P 1vp0_P Back     alignment and structure
>3v2d_S 50S ribosomal protein L18; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_M 2hgj_R 2hgq_R 2hgu_R 1vsa_M 2j03_S 2jl6_S 2jl8_S 2v47_S 2v49_S 2wdi_S 2wdj_S 2wdl_S 2wdn_S 2wh2_S 2wh4_S 2wrj_S 2wrl_S 2wro_S 2wrr_S ... Back     alignment and structure
>4gmn_B 60S ribosomal protein L5-like protein; ARM, heat, solenoid, linear motif, nuclear transport, chaper ribosome assembly, RPL11, KAP104; 2.95A {Chaetomium thermophilum} Back     alignment and structure
>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>3j20_M 30S ribosomal protein S11P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>2vqe_K 30S ribosomal protein S11, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: c.55.4.1 PDB: 1gix_N* 1hnw_K* 1hnx_K* 1hnz_K* 1hr0_K 1ibk_K* 1ibl_K* 1ibm_K 1j5e_K 1jgo_N* 1jgp_N* 1jgq_N* 1ml5_N* 1n32_K* 1n33_K* 1n34_K 1n36_K 1xmo_K* 1xmq_K* 1xnq_K* ... Back     alignment and structure
>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Back     alignment and structure
>2xzm_K RPS14E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_K 3j0o_K 3j0l_K 2zkq_k 3iz6_K 3jyv_K* Back     alignment and structure
>3u5c_O RP59A, 40S ribosomal protein S14-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_K 3o30_H 3o2z_H 3u5g_O 1s1h_K 3jyv_K* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 252
d1vqon1186 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {A 1e-32
d2gycm1113 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {E 5e-05
d1ovya_97 c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacill 4e-04
>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 186 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score =  115 bits (290), Expect = 1e-32
 Identities = 49/153 (32%), Positives = 70/153 (45%), Gaps = 33/153 (21%)

Query: 11  AYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIA 70
           A   RY+V  +RRRE +TDY  R+RL+        + K R V R +NK + AQ+++    
Sbjct: 1   ATGPRYKVPMRRRREARTDYHQRLRLLK-------SGKPRLVARKSNKHVRAQLVTLGPN 53

Query: 71  GDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130
           GD  LASA++ +L  YG E    N  +AY TGLL   R  +                   
Sbjct: 54  GDDTLASAHSSDLAEYGWEAPTGNMPSAYLTGLLAGLRAQE------------------- 94

Query: 131 SVEPTENRRPFRALLDVGLVKTTTGNRVFGALK 163
                       A+LD+GL   T G++VF   +
Sbjct: 95  -------AGVEEAVLDIGLNSPTPGSKVFAIQE 120
>d2gycm1 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {Escherichia coli [TaxId: 562]} Length = 113 Back     information, alignment and structure
>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus stearothermophilus [TaxId: 1422]} Length = 97 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query252
d1vqon1186 Ribosomal protein L18 (L18p) {Archaeon Haloarcula 100.0
d1ovya_97 Ribosomal protein L18 (L18p) {Bacillus stearotherm 99.86
d2gycm1113 Ribosomal protein L18 (L18p) {Escherichia coli [Ta 99.8
d2j01s186 Ribosomal protein L18 (L18p) {Thermus thermophilus 99.65
d2zjrl1104 Ribosomal protein L18 (L18p) {Deinococcus radiodur 99.65
d2uubk1119 Ribosomal protein S11 {Thermus thermophilus [TaxId 93.64
d2qalk1117 Ribosomal protein S11 {Escherichia coli [TaxId: 56 90.14
>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=100.00  E-value=1.7e-52  Score=360.34  Aligned_cols=150  Identities=37%  Similarity=0.533  Sum_probs=140.6

Q ss_pred             ccccccccccchhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEeccccccccccc
Q 025449           11 AYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEV   90 (252)
Q Consensus        11 ayfkRyqVk~RRRREGKTDY~~R~rLi~qdKnKynspKpRLVVrrTNrhIiaQII~~~~eGD~tLaSAsS~EL~kyG~k~   90 (252)
                      |..|||||||||||||||||++|++|+.++       +||||||+||+|||||||+++++||+|||||||+|++++||+.
T Consensus         1 a~g~r~~vk~RRRRe~kT~y~~R~rl~~s~-------kpRLvVrrSNk~IyaQII~~d~~gd~vlaSAsS~el~k~g~k~   73 (186)
T d1vqon1           1 ATGPRYKVPMRRRREARTDYHQRLRLLKSG-------KPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEYGWEA   73 (186)
T ss_dssp             CCSTTCCCCCHHHHTTCCCHHHHHHHHTTC-------SCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGGGGSCCS
T ss_pred             CCCcchhhHHHHHHhhhhhHHHHHHHhcCC-------CCeEEEEEeCCceEEEEEEecCCCCEEEEEEecchhhhhcccc
Confidence            467999999999999999999999999876       7999999999999999999889999999999999999999999


Q ss_pred             CCCcHHHHHHHHHHHHHHHHhhhccccccCCceeecCcccccccCCCCCcceEEEeecccccccCcceeeeeccccc---
Q 025449           91 GLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKVIFK---  167 (252)
Q Consensus        91 gltN~aAAYltGlLlArRAL~k~~~d~~y~Gi~eV~g~~~~ve~~d~~~~f~~~LDiGL~rtt~G~rVFaalKGavD---  167 (252)
                      +++|++|||+||+|+|+||+++        |+++                  |++|+|+.+++.|+||||++|||+|   
T Consensus        74 ~~~N~~AAy~~G~liA~ra~~~--------gi~~------------------vvfD~G~~~~~yhgRV~A~akgard~GL  127 (186)
T d1vqon1          74 PTGNMPSAYLTGLLAGLRAQEA--------GVEE------------------AVLDIGLNSPTPGSKVFAIQEGAIDAGL  127 (186)
T ss_dssp             CSSSHHHHHHHHHHHHHHHHHT--------TCCB------------------CEEECTTSCCCTTCHHHHHHHHHHHTTC
T ss_pred             CccHHHHHHHhHHHHHHHHHhh--------cccc------------------eEEeeCCCCCCccchHHHHHHHHHhcCc
Confidence            9999999999999999999999        8887                  8999999999999999999999999   


Q ss_pred             ccccCCCccCCCCCC--cChhhHHHHHH
Q 025449          168 FIQTSYDYINGFSTT--LDLSDYLLSIL  193 (252)
Q Consensus       168 ~IPhs~~~fpg~d~~--~~~~~~~~~~~  193 (252)
                      +||||+++|||+|+.  .++.+|...+.
T Consensus       128 ~Iph~~~~~p~~~ri~G~hia~y~~~l~  155 (186)
T d1vqon1         128 DIPHNDDVLADWQRTRGAHIAEYDEQLE  155 (186)
T ss_dssp             BCCCCGGGSCCHHHHHTHHHHHHHHSCS
T ss_pred             cCCCCCccCCCcccccCHhHHHHHHHHH
Confidence            999999999999876  56666765543
>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d2gycm1 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2j01s1 c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2zjrl1 c.55.4.1 (L:8-111) Ribosomal protein L18 (L18p) {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d2uubk1 c.55.4.1 (K:11-129) Ribosomal protein S11 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2qalk1 c.55.4.1 (K:12-128) Ribosomal protein S11 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure