Citrus Sinensis ID: 048206

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--
Protein Sequence
DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSYE
Secondary Structure (PSIPRED)
ccHHHHHHHHccccccccccccccHHHHHHcccccEEEEEEEccccEEEEEEEEEccEEEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEHHcccccccccccccccHHHHHHHHccccEEEEEEcccEEEEEEEEEcccEEEEEEEcccccccc
Coil and Loop (DISEMBL)
DSFIQAAWTRrsrgeldkrpnrkswkqrtnmymrpflfnVFFSKKFVHAKVMHRSISKVISVAttnvddsye
Flexible Loop (DISEMBL)
dsfiqaawtrrsrgeldkrpnrkswkqrtnmYMRPFLFNVFFSKKFVHAKVMHrsiskvisvattnvddsye
Low Complexity Region (SEG)
DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSYE
Disordered region (IsUnstruct)
***************************RTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVAT********
Disordered Region (DISOPRED)
*SFI**A*********************TNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVA*********
Disordered Region (DISEMBL)
DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSYE
Disordered Region (DISPRO)
*SFIQAAWTRR***********KSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNV*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSYE
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

No hits with e-value below 0.001 by BLAST

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	72
255585804	186	structural constituent of ribosome, puta	0.958	0.370	0.855	3e-28
297834952	187	50S ribosomal protein L18 family [Arabid	0.958	0.368	0.840	9e-28
18402538	187	Ribosomal L18p/L5e family protein [Arabi	0.958	0.368	0.840	1e-27
388509934	202	unknown [Lotus japonicus]	0.944	0.336	0.823	2e-26
358249214	197	uncharacterized protein LOC100820550 [Gl	0.958	0.350	0.797	2e-26
356526443	197	PREDICTED: 50S ribosomal protein L18-lik	0.958	0.350	0.797	4e-26
357137082	185	PREDICTED: 50S ribosomal protein L18-lik	0.916	0.356	0.818	1e-25
449465411	190	PREDICTED: 50S ribosomal protein L18-lik	0.930	0.352	0.820	1e-25
224135983	128	predicted protein [Populus trichocarpa]	0.916	0.515	0.803	3e-25
226502296	189	structural constituent of ribosome [Zea	0.916	0.349	0.803	6e-25

>gi|255585804|ref|XP_002533581.1| structural constituent of ribosome, putative [Ricinus communis] gi|223526540|gb|EEF28799.1| structural constituent of ribosome, putative [Ricinus communis]

 Score =  129 bits (323), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/69 (85%), Positives = 63/69 (91%)

Query: 1   DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVI 60
           +SFIQAAWTRRSRGEL KRPNRKSWKQRT+MYMRPFL NVFFSK+F+HAKVMHR  SKVI
Sbjct: 64  NSFIQAAWTRRSRGELAKRPNRKSWKQRTDMYMRPFLLNVFFSKRFIHAKVMHRGTSKVI 123

Query: 61  SVATTNVDD 69
           SVATTN  D
Sbjct: 124 SVATTNAKD 132

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834952|ref|XP_002885358.1| 50S ribosomal protein L18 family [Arabidopsis lyrata subsp. lyrata] gi|297331198|gb|EFH61617.1| 50S ribosomal protein L18 family [Arabidopsis lyrata subsp. lyrata]

 Score =  127 bits (319), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 58/69 (84%), Positives = 62/69 (89%)

Query: 1   DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVI 60
           DSF+QAAWTRRSRGE  KRPNRKSWKQRT+MYMRPFL NVFFS+KF+HAKVMHR  SKVI
Sbjct: 56  DSFVQAAWTRRSRGEAAKRPNRKSWKQRTDMYMRPFLLNVFFSRKFIHAKVMHRPTSKVI 115

Query: 61  SVATTNVDD 69
           SVATTN  D
Sbjct: 116 SVATTNARD 124

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18402538|ref|NP_566655.1| Ribosomal L18p/L5e family protein [Arabidopsis thaliana] gi|9293979|dbj|BAB01882.1| unnamed protein product [Arabidopsis thaliana] gi|21554527|gb|AAM63600.1| unknown [Arabidopsis thaliana] gi|24030337|gb|AAN41334.1| unknown protein [Arabidopsis thaliana] gi|222423792|dbj|BAH19862.1| AT3G20230 [Arabidopsis thaliana] gi|332642829|gb|AEE76350.1| Ribosomal L18p/L5e family protein [Arabidopsis thaliana]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/69 (84%), Positives = 62/69 (89%)

Query: 1   DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVI 60
           DSF+QAAWTRRSRGE  KRPNRKSWKQRT+MYMRPFL NVFFS+KF+HAKVMHR  SKVI
Sbjct: 56  DSFVQAAWTRRSRGEAAKRPNRKSWKQRTDMYMRPFLLNVFFSRKFIHAKVMHRPTSKVI 115

Query: 61  SVATTNVDD 69
           SVATTN  D
Sbjct: 116 SVATTNARD 124

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388509934|gb|AFK43033.1| unknown [Lotus japonicus]

 Score =  122 bits (307), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 56/68 (82%), Positives = 61/68 (89%)

Query: 2   SFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVIS 61
           SF++AAWTRRSRGE  KRPNRKSWKQRT+MYMRPFL NVFFSK+F+HAKVMHR  SKVIS
Sbjct: 73  SFVRAAWTRRSRGEAAKRPNRKSWKQRTDMYMRPFLLNVFFSKRFIHAKVMHRGTSKVIS 132

Query: 62  VATTNVDD 69
           VATTN  D
Sbjct: 133 VATTNSKD 140

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358249214|ref|NP_001240012.1| uncharacterized protein LOC100820550 [Glycine max] gi|255640812|gb|ACU20689.1| unknown [Glycine max]

 Score =  122 bits (306), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/69 (79%), Positives = 61/69 (88%)

Query: 1   DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVI 60
           DSFI+AAWTRRSRGE  K+PNRKSWKQRT+MYMRPFL NVFFSK+F+HAKV+HR  SKVI
Sbjct: 67  DSFIRAAWTRRSRGEAAKKPNRKSWKQRTDMYMRPFLLNVFFSKRFIHAKVVHRGTSKVI 126

Query: 61  SVATTNVDD 69
            VATTN  D
Sbjct: 127 CVATTNAKD 135

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526443|ref|XP_003531827.1| PREDICTED: 50S ribosomal protein L18-like [Glycine max]

 Score =  122 bits (305), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 55/69 (79%), Positives = 61/69 (88%)

Query: 1   DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVI 60
           DSFI+AAWTRRSRGE  K+PNRKSWKQRT+MYMRPFL NVFFSK+F+HAKV+HR  SKVI
Sbjct: 67  DSFIRAAWTRRSRGEAAKKPNRKSWKQRTDMYMRPFLLNVFFSKRFIHAKVVHRGTSKVI 126

Query: 61  SVATTNVDD 69
            VATTN  D
Sbjct: 127 CVATTNAKD 135

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357137082|ref|XP_003570130.1| PREDICTED: 50S ribosomal protein L18-like [Brachypodium distachyon]

 Score =  120 bits (301), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/66 (81%), Positives = 60/66 (90%)

Query: 4   IQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVA 63
           ++AAWTRRSRGEL+K PNRKSWKQRT+MYMRPFL NVFFSK+FVHAKVMHR  SKVI+VA
Sbjct: 58  VRAAWTRRSRGELEKNPNRKSWKQRTDMYMRPFLLNVFFSKRFVHAKVMHRGTSKVIAVA 117

Query: 64  TTNVDD 69
           TTN  D
Sbjct: 118 TTNAKD 123

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449465411|ref|XP_004150421.1| PREDICTED: 50S ribosomal protein L18-like [Cucumis sativus]

 Score =  120 bits (300), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 55/67 (82%), Positives = 59/67 (88%)

Query: 3   FIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISV 62
           FIQ+AWTRRSR E  KRPN+KSWKQRT+MYMRPFL NVFFSKKF+HAKVMHR  SKVISV
Sbjct: 61  FIQSAWTRRSREEAAKRPNKKSWKQRTDMYMRPFLLNVFFSKKFIHAKVMHRGTSKVISV 120

Query: 63  ATTNVDD 69
           ATTN  D
Sbjct: 121 ATTNAKD 127

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135983|ref|XP_002327352.1| predicted protein [Populus trichocarpa] gi|222835722|gb|EEE74157.1| predicted protein [Populus trichocarpa]

 Score =  119 bits (297), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 53/66 (80%), Positives = 59/66 (89%)

Query: 4  IQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVA 63
          IQAAWTRRSRGEL+K+PN+KSWKQRT MYM+PFL NVFFS+KF+ AKVMHR  SKVISVA
Sbjct: 1  IQAAWTRRSRGELEKKPNKKSWKQRTEMYMKPFLLNVFFSRKFIQAKVMHRGTSKVISVA 60

Query: 64 TTNVDD 69
          TTN  D
Sbjct: 61 TTNAKD 66

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226502296|ref|NP_001150881.1| structural constituent of ribosome [Zea mays] gi|195642592|gb|ACG40764.1| structural constituent of ribosome [Zea mays] gi|413938308|gb|AFW72859.1| structural constituent of ribosome [Zea mays]

 Score =  117 bits (294), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 53/66 (80%), Positives = 59/66 (89%)

Query: 4   IQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVA 63
           + AAWTRRSRGE ++RPNRKSWKQRT+MYMRPFL NVFFSK+FVHAKVMHR  SKVI+VA
Sbjct: 62  VCAAWTRRSRGEAEQRPNRKSWKQRTDMYMRPFLLNVFFSKRFVHAKVMHRGTSKVIAVA 121

Query: 64  TTNVDD 69
           TTN  D
Sbjct: 122 TTNSKD 127

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	72
TAIR|locus:2087535	187	AT3G20230 [Arabidopsis thalian	0.958	0.368	0.840	8.2e-28
TAIR|locus:1005716736	234	AT1G08845 [Arabidopsis thalian	0.722	0.222	0.471	5.1e-07

TAIR|locus:2087535 AT3G20230 [Arabidopsis thaliana (taxid:3702)]

 Score = 311 (114.5 bits), Expect = 8.2e-28, P = 8.2e-28
 Identities = 58/69 (84%), Positives = 62/69 (89%)

Query:     1 DSFIQAAWTRRSRGELDKRPNRKSWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVI 60
             DSF+QAAWTRRSRGE  KRPNRKSWKQRT+MYMRPFL NVFFS+KF+HAKVMHR  SKVI
Sbjct:    56 DSFVQAAWTRRSRGEAAKRPNRKSWKQRTDMYMRPFLLNVFFSRKFIHAKVMHRPTSKVI 115

Query:    61 SVATTNVDD 69
             SVATTN  D
Sbjct:   116 SVATTNARD 124

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM

GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA

TAIR|locus:1005716736 AT1G08845 [Arabidopsis thaliana (taxid:3702)]

 Score = 118 (46.6 bits), Expect = 5.1e-07, P = 5.1e-07
 Identities = 25/53 (47%), Positives = 34/53 (64%)

Query:    18 KRPNRK-SWKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDD 69
             K P++  S+KQRT  YM PF  +VF SK+FV A + HR   + ++VA TN  D
Sbjct:   116 KNPDKHVSFKQRTVAYMEPFTLDVFISKRFVSASLTHRVTCRQVAVAGTNSKD 168


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.324   0.131   0.397    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0       72        72   0.00091  102 3  11 22  0.41    28
                                                     29  0.43    29


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  548 (58 KB)
  Total size of DFA:  105 KB (2071 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  7.82u 0.10s 7.92t   Elapsed:  00:00:01
  Total cpu time:  7.82u 0.10s 7.92t   Elapsed:  00:00:01
  Start:  Mon May 20 21:43:59 2013   End:  Mon May 20 21:44:00 2013

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

GO:0005576 "extracellular region" evidence=ISM

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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!

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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	Length	Definition	E-value
Query	72
cd00432	103	cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18	2e-05

>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

 Score = 38.7 bits (91), Expect = 2e-05
 Identities = 8/42 (19%), Positives = 18/42 (42%)

Query: 25 WKQRTNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTN 66
           +++           V  S K ++A+++  S  K +  A+T 
Sbjct: 1  RRRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTL 42

L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified. Length = 103

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	72
cd00432	103	Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is	99.0
CHL00139	109	rpl18 ribosomal protein L18; Validated	98.92
PF00861	119	Ribosomal_L18p: Ribosomal L18p/L5e family; InterPr	98.88
TIGR00060	114	L18_bact ribosomal protein L18, bacterial type. Th	98.79
PRK05593	117	rplR 50S ribosomal protein L18; Reviewed	98.65
PTZ00032	211	60S ribosomal protein L18; Provisional	97.81
PRK08569	193	rpl18p 50S ribosomal protein L18P; Reviewed	97.3
COG0256	125	RplR Ribosomal protein L18 [Translation, ribosomal	97.26

>cd00432 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit

Probab=99.00  E-value=4.6e-10  Score=71.86  Aligned_cols=43  Identities=19%  Similarity=-0.054  Sum_probs=39.5

Q ss_pred             hhhcccceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           29 TNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        29 t~~ymrPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      ...+++++-|.||+||++|+|||||..+++|+++|||++++++
T Consensus         5 ~~~~~~~~RL~v~~Sn~~i~aqvi~~~~~~vl~sast~e~~~~   47 (103)
T cd00432           5 RLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIK   47 (103)
T ss_pred             ecCcCCCCEEEEEEeCCEEEEEEEEeCcCeEEEEEecCchhhc
Confidence            3346689999999999999999999999999999999999986

L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.

>CHL00139 rpl18 ribosomal protein L18; Validated

Probab=98.92  E-value=1.3e-09  Score=72.75  Aligned_cols=41  Identities=24%  Similarity=0.295  Sum_probs=38.0

Q ss_pred             hhcccceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           30 NMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        30 ~~ymrPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      ....+|. |.||+||++|+|||||.++++|+|+|||++||++
T Consensus        11 g~~~rpR-L~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~   51 (109)
T CHL00139         11 GTAERPR-LSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVK   51 (109)
T ss_pred             CCCCCCE-EEEEEeCCeEEEEEEECCCCCEEEEEecCchhhh
Confidence            4577886 9999999999999999999999999999999986

>PF00861 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPro: IPR005484 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.88  E-value=1.7e-09  Score=71.78  Aligned_cols=52  Identities=21%  Similarity=0.142  Sum_probs=43.6

Q ss_pred             CcccHHHhhhhcc-cceeEEEeeeccceEEEEEeeccceEEEEEeccccccCC
Q 048206           21 NRKSWKQRTNMYM-RPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSYE   72 (72)
Q Consensus        21 ~~~sfkqrt~~ym-rPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr~   72 (72)
                      ++....|+..++. ..+-|.||+||++|+|||||..++.++++|||.++||++
T Consensus         8 ~r~~~~r~~~~~~~~~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~   60 (119)
T PF00861_consen    8 RRKLRIRRKIKGTAERPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKK   60 (119)
T ss_dssp             HHHHHHHHHHHHTTSSEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGG
T ss_pred             HHHHHHHHHHhcCCCCCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhh
Confidence            4445555555554 459999999999999999999999999999999999973

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 L18 from bacteria and L5 from eukaryotes. The ribosomal 5S RNA is the only known rRNA species to bind a ribosomal protein before its assembly into the ribosomal subunits []. In eukaryotes, the 5S rRNA molecule binds one protein species, a 34kDa protein which has been implicated in the intracellular transport of 5 S rRNA, while in bacteria it binds two or three different protein species []. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_M 4A1C_M 4A1A_M 4A17_M 3IZR_Q 3O58_E 1S1I_E 3IZS_Q 3O5H_E 1KQS_M ....

>TIGR00060 L18_bact ribosomal protein L18, bacterial type

Probab=98.79  E-value=1e-08  Score=69.37  Aligned_cols=42  Identities=31%  Similarity=0.304  Sum_probs=39.3

Q ss_pred             hhhcccceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           29 TNMYMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        29 t~~ymrPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      |.+|.+| -|.||+||++++||||+..+++|+|+|||++|+++
T Consensus        19 t~~~~rp-RL~V~rSnk~iyaQiIdd~~~~tlasaST~ek~~~   60 (114)
T TIGR00060        19 TGEANRP-RLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK   60 (114)
T ss_pred             CCCCCCc-EEEEEEeCCeEEEEEEECCCCEEEEEEecchhhhc
Confidence            6677899 99999999999999999999999999999999974

The archaeal and eukaryotic type rpL18 is not detectable under this model.

>PRK05593 rplR 50S ribosomal protein L18; Reviewed

Probab=98.65  E-value=3.6e-08  Score=66.45  Aligned_cols=36  Identities=25%  Similarity=0.259  Sum_probs=34.1

Q ss_pred             eeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           36 FLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      .-|.||+||++|+|||||..+++|+++|||++++++
T Consensus        25 pRL~V~~SnkhiyAQvidd~~~~tl~saST~e~~~k   60 (117)
T PRK05593         25 PRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVR   60 (117)
T ss_pred             CEEEEEEeCCeEEEEEEECCCCEEEEEEecCcHhHh
Confidence            469999999999999999999999999999999985

>PTZ00032 60S ribosomal protein L18; Provisional

Probab=97.81  E-value=1.9e-05  Score=59.15  Aligned_cols=38  Identities=13%  Similarity=0.072  Sum_probs=35.2

Q ss_pred             cceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           34 RPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        34 rPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      |=.-|-||.||+.++||||+-.+++++|+|||.++|++
T Consensus       104 rrPRLsV~RSnkHIYAQIIDD~~~~TLasaSTlek~l~  141 (211)
T PTZ00032        104 RRPRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLS  141 (211)
T ss_pred             CcceEEEEecCCeEEEEEEECCCCCEEEEecCCCHHHH
Confidence            34579999999999999999999999999999999985

>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed

Probab=97.30  E-value=0.00039  Score=51.08  Aligned_cols=36  Identities=17%  Similarity=0.120  Sum_probs=32.9

Q ss_pred             eeEEEeeeccceEEEEE--eeccceEEEEEeccccccC
Q 048206           36 FLFNVFFSKKFVHAKVM--HRSISKVISVATTNVDDSY   71 (72)
Q Consensus        36 f~L~vffSkk~V~A~Vi--Hr~Ts~VvavAsT~sKdlr   71 (72)
                      +-|-|++||+.|.||||  .-..++|+|+|+|.+++++
T Consensus        33 pRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~   70 (193)
T PRK08569         33 PRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKY   70 (193)
T ss_pred             CEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhc
Confidence            46889999999999999  8899999999999998864

>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]

Probab=97.26  E-value=0.00035  Score=48.46  Aligned_cols=36  Identities=14%  Similarity=0.073  Sum_probs=34.0

Q ss_pred             eeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           36 FLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      --|-||.||+.|.||||--..+.++++|||-++||+
T Consensus        30 pRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~   65 (125)
T COG0256          30 PRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELR   65 (125)
T ss_pred             cEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHH
Confidence            368999999999999999999999999999999986

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	72
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	98.53
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	98.41
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	98.38
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	98.36
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	97.97
3j21_O	203	50S ribosomal protein L18P; archaea, archaeal, KIN	97.78
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	97.66
3u5e_D	297	60S ribosomal protein L5; translation, ribosome, r	96.07
2zkr_n	297	60S ribosomal protein L5; protein-RNA complex, 60S	95.99
4a17_M	301	RPL5, 60S ribosomal protein L5; eukaryotic ribosom	95.84
3iz5_Q	304	60S ribosomal protein L5 (L18P); eukaryotic riboso	90.26

>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus stearothermophilus} SCOP: c.55.4.1

Probab=98.53  E-value=6.2e-08  Score=64.90  Aligned_cols=39  Identities=28%  Similarity=0.284  Sum_probs=35.7

Q ss_pred             cccceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           32 YMRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        32 ymrPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      ..+| -|.||+||++|+|||||...++|+++|||.+++++
T Consensus        26 ~~rp-RL~V~rSnkhIyAQiidd~~~~tl~sAsT~e~~~~   64 (120)
T 1ovy_A           26 TERP-RLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFG   64 (120)
T ss_dssp             SSCC-SEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTC
T ss_pred             CCCC-EEEEEEeCCeEEEEEEEcCCCEEEEEEecCchhhC
Confidence            4455 79999999999999999999999999999999975

>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 ...

Probab=98.41  E-value=3.6e-07  Score=60.79  Aligned_cols=37  Identities=16%  Similarity=0.138  Sum_probs=34.2

Q ss_pred             ceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           35 PFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        35 Pf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      -+-|.||.||++|+|||||-..++|+++|||.+++++
T Consensus        23 rpRL~V~rSnkhiyAQiidd~~~~tlasAsT~e~~~k   59 (112)
T 3v2d_S           23 RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK   59 (112)
T ss_dssp             CCEEEEEECSSCEEEEEEETTTTEEEEEEETTTTTCC
T ss_pred             CCEEEEEEeCCeEEEEEEecCCCeEEEEEEecchhcc
Confidence            4578999999999999999999999999999999874

>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 ...

Probab=98.38  E-value=1.6e-07  Score=62.25  Aligned_cols=39  Identities=18%  Similarity=0.119  Sum_probs=36.0

Q ss_pred             ccceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           33 MRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        33 mrPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      ...+-|.||.||++|+|||||-.+++|+++|||.+++++
T Consensus        20 ~~rpRL~V~rSnkhIyAQiidd~~g~tlasAST~e~~~~   58 (116)
T 3r8s_O           20 LGATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIA   58 (116)
T ss_dssp             TTCCEEEEEECSSCEEEEEECTTSSCEEEECCSSSHHHH
T ss_pred             CCCCEEEEEEeCCEEEEEEEEcCCCeEEEEEeeCchhhc
Confidence            466789999999999999999999999999999999874

>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=98.36  E-value=1.8e-07  Score=65.83  Aligned_cols=38  Identities=26%  Similarity=0.274  Sum_probs=35.2

Q ss_pred             ccceeEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           33 MRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        33 mrPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      -+| -|.||.||++|+|||||..+++++++|||.+|||+
T Consensus        64 ~rP-RL~V~rSnkhIyAQvIdd~~g~tLasASTlek~lk  101 (161)
T 3bbo_Q           64 ERP-RLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSIS  101 (161)
T ss_dssp             SCC-CCEEEECSSCEEEEEECCTTSCEEEEEEHHHHHHH
T ss_pred             CCC-EEEEEecCCeEEEEEEECCCCEEEEEEeCCcHHHH
Confidence            355 69999999999999999999999999999999986

>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* ...

Probab=97.97  E-value=7.4e-06  Score=58.53  Aligned_cols=36  Identities=14%  Similarity=-0.011  Sum_probs=33.7

Q ss_pred             cceeEEEeeeccceEEEEE--eeccceEEEEEeccccc
Q 048206           34 RPFLFNVFFSKKFVHAKVM--HRSISKVISVATTNVDD   69 (72)
Q Consensus        34 rPf~L~vffSkk~V~A~Vi--Hr~Ts~VvavAsT~sKd   69 (72)
                      .-+-|.||+||+.|.||||  +-..++|+|+|||.+++
T Consensus        31 ~rpRL~V~rSnkhIyAQII~~dd~~~~tlasAsT~e~~   68 (187)
T 1vq8_N           31 GKPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLA   68 (187)
T ss_dssp             CSCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGG
T ss_pred             CCCEEEEEEeCCcEEEEEEEecCCCCEEEEEEEccchh
Confidence            3477999999999999999  99999999999999987

>3j21_O 50S ribosomal protein L18P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=97.78  E-value=2.9e-05  Score=56.13  Aligned_cols=36  Identities=14%  Similarity=-0.129  Sum_probs=31.9

Q ss_pred             eeEEEeeeccceEEEEEe--eccceEEEEEeccccccC
Q 048206           36 FLFNVFFSKKFVHAKVMH--RSISKVISVATTNVDDSY   71 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViH--r~Ts~VvavAsT~sKdlr   71 (72)
                      +-|.||+||+.|.||||+  ...++|+|+|||.+++++
T Consensus        33 pRL~V~rSnkhIyAQIId~d~~g~~tLasAST~El~lk   70 (203)
T 3j21_O           33 PRLVVRKSLNHHIAQIIVYDPKGDRTLVSAHTRELIRD   70 (203)
T ss_dssp             CEEEEEECSSCEEEEEEECCTTSCEEEEEECSTTTSSS
T ss_pred             CEEEEEEeCCeEEEEEEEecCCCCeEEEEEEccchhhh
Confidence            589999999999999999  555899999999998853

>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

Probab=97.66  E-value=7.1e-06  Score=54.63  Aligned_cols=35  Identities=17%  Similarity=0.301  Sum_probs=32.5

Q ss_pred             ccceeEEEeeeccceEEEEEeeccceEEEEEeccc
Q 048206           33 MRPFLFNVFFSKKFVHAKVMHRSISKVISVATTNV   67 (72)
Q Consensus        33 mrPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~s   67 (72)
                      .+.+-|.||+||++|+|||||-..++++++|||.+
T Consensus        24 ~~rpRL~V~rSnkhIyAQiidd~~~~tl~sAST~e   58 (114)
T 2zjr_L           24 SGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA   58 (114)
T ss_dssp             TCSEEECCCTTSSCCCCCEEETTTTEECCCCCSCS
T ss_pred             CCCCEEEEEEeCCeEEEEEEEcCCCEEEEEEEchH
Confidence            55567999999999999999999999999999987

>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

Probab=96.07  E-value=0.0086  Score=45.65  Aligned_cols=35  Identities=14%  Similarity=0.179  Sum_probs=30.7

Q ss_pred             eeEEEeeeccceEEEEEee--ccceEEEEEecccccc
Q 048206           36 FLFNVFFSKKFVHAKVMHR--SISKVISVATTNVDDS   70 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViHr--~Ts~VvavAsT~sKdl   70 (72)
                      +=|-||+||+.|.||||--  ..++|+|+|+|.+++.
T Consensus        49 pRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~k   85 (297)
T 3u5e_D           49 YRLVVRFTNKDIICQIISSTITGDVVLAAAYSHELPR   85 (297)
T ss_dssp             CEEEEEEETTEEEEEEEECCTTCCEEEEEEEGGGGGG
T ss_pred             ceEEEEEcCCeEEEEEeecCCCCCEEEEEEeecchhh
Confidence            4688999999999999997  4669999999999863

>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=95.99  E-value=0.012  Score=44.89  Aligned_cols=34  Identities=3%  Similarity=-0.012  Sum_probs=31.7

Q ss_pred             eeEEEeeeccceEEEEEeec--cceEEEEEeccccc
Q 048206           36 FLFNVFFSKKFVHAKVMHRS--ISKVISVATTNVDD   69 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViHr~--Ts~VvavAsT~sKd   69 (72)
                      |=|-|++||+.|.||||--.  .+.|+|+|+|.+++
T Consensus        49 pRLvVrrSNk~I~aQII~~~~~gd~tLasAsS~El~   84 (297)
T 2zkr_n           49 YRMIVRVTNRDIICQIAYARIEGDMIVCARYAHELP   84 (297)
T ss_dssp             EEEEEEEETTEEEEEEEECCSSSCEEEEEEEGGGGG
T ss_pred             ceEEEEEecCcEEEEEEeccCCCCEEEEEeecCccc
Confidence            67999999999999999987  89999999998876

>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

Probab=95.84  E-value=0.0078  Score=45.99  Aligned_cols=34  Identities=9%  Similarity=0.089  Sum_probs=30.1

Q ss_pred             eeEEEeeeccceEEEEEee--ccceEEEEEeccccc
Q 048206           36 FLFNVFFSKKFVHAKVMHR--SISKVISVATTNVDD   69 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViHr--~Ts~VvavAsT~sKd   69 (72)
                      +=|-||.||+.|.||||.-  ..++|+|+|+|.+++
T Consensus        49 pRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~   84 (301)
T 4a17_M           49 YRLVARATNTRIIAQIVYATLKCDRVLCAADSYELK   84 (301)
T ss_dssp             EEEEEEECSSCEEEEEEEECSSCEEEEEEEETTHHH
T ss_pred             ceEEEEEcCCeEEEEEeecCCCCCEEEEEEeeccch
Confidence            5788999999999999997  345999999999875

---

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	72
d2gycm1	113	Ribosomal protein L18 (L18p) {Escherichia coli [Ta	98.55
d1ovya_	97	Ribosomal protein L18 (L18p) {Bacillus stearotherm	98.53
d2j01s1	86	Ribosomal protein L18 (L18p) {Thermus thermophilus	98.16
d2zjrl1	104	Ribosomal protein L18 (L18p) {Deinococcus radiodur	96.91
d1vqon1	186	Ribosomal protein L18 (L18p) {Archaeon Haloarcula	96.72

>d2gycm1 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {Escherichia coli [TaxId: 562]}

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: Escherichia coli [TaxId: 562]

Probab=98.55  E-value=3.1e-08  Score=64.04  Aligned_cols=37  Identities=22%  Similarity=0.139  Sum_probs=34.9

Q ss_pred             eeEEEeeeccceEEEEEeeccceEEEEEeccccccCC
Q 048206           36 FLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSYE   72 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr~   72 (72)
                      .=|.||.||++|+||||+-.+++++++|||++||+++
T Consensus        22 pRL~V~rSnkhiyaQiIdd~~~~tl~saST~~k~~~~   58 (113)
T d2gycm1          22 TRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAE   58 (113)
T ss_dssp             CCCBEEECSSCEEEEEEETTTTEEEEEEETTGGGGTS
T ss_pred             CeEEEEEeCCcEEEEEEEccCCcEEEEeeehhhhhhh
Confidence            4799999999999999999999999999999999873

>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus stearothermophilus [TaxId: 1422]}

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: Bacillus stearothermophilus [TaxId: 1422]

Probab=98.53  E-value=3.3e-08  Score=62.12  Aligned_cols=35  Identities=26%  Similarity=0.236  Sum_probs=33.6

Q ss_pred             eEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           37 LFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        37 ~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      =|.||.||++++||||+..++++++++||++||++
T Consensus         7 RL~V~kSnkhiyaQlIdd~~~~tl~s~St~~k~~~   41 (97)
T d1ovya_           7 RLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFG   41 (97)
T ss_dssp             SEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTC
T ss_pred             EEEEEEeCCeEEEEEEEcCCCeEEEEecchhhhhc
Confidence            58999999999999999999999999999999986

>d2j01s1 c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {Thermus thermophilus [TaxId: 274]}

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: Thermus thermophilus [TaxId: 274]

Probab=98.16  E-value=6.1e-07  Score=55.66  Aligned_cols=35  Identities=17%  Similarity=0.135  Sum_probs=33.3

Q ss_pred             eEEEeeeccceEEEEEeeccceEEEEEeccccccC
Q 048206           37 LFNVFFSKKFVHAKVMHRSISKVISVATTNVDDSY   71 (72)
Q Consensus        37 ~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdlr   71 (72)
                      =|-||.||+.++||||.-..+++++++||++||++
T Consensus         3 RL~V~rSnk~iyaQiIDd~~~~tl~s~St~~k~~k   37 (86)
T d2j01s1           3 RLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK   37 (86)
T ss_dssp             EEECCBCSSCBCEEEEETTTTEEEEEECSTTTCCC
T ss_pred             EEEEEEcCCeEEEEEEEcCCCeEEEEEeccchhhc
Confidence            47899999999999999999999999999999986

>d2zjrl1 c.55.4.1 (L:8-111) Ribosomal protein L18 (L18p) {Deinococcus radiodurans [TaxId: 1299]}

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: Deinococcus radiodurans [TaxId: 1299]

Probab=96.91  E-value=5.6e-05  Score=47.65  Aligned_cols=36  Identities=22%  Similarity=0.315  Sum_probs=33.2

Q ss_pred             cceeEEEeeeccceEEEEEeeccceEEEEEecccccc
Q 048206           34 RPFLFNVFFSKKFVHAKVMHRSISKVISVATTNVDDS   70 (72)
Q Consensus        34 rPf~L~vffSkk~V~A~ViHr~Ts~VvavAsT~sKdl   70 (72)
                      +| =|-||.||+.++||||.-..++++++|||.+++.
T Consensus        19 rp-RL~V~rSnkhiyaQiIDd~~~~tl~s~St~~~~~   54 (104)
T d2zjrl1          19 RL-RLSVYRSSKHIYAQIIDDSRGQTLAAASSAALKS   54 (104)
T ss_dssp             SE-EECCCTTSSCCCCCEEETTTTEECCCCCSCSCCT
T ss_pred             Cc-EEEEEEccCeeEEEEEecCCCeEEEeeccccccc
Confidence            45 7999999999999999999999999999998765

>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon Haloarcula marismortui [TaxId: 2238]}

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=96.72  E-value=0.00092  Score=45.84  Aligned_cols=35  Identities=14%  Similarity=0.003  Sum_probs=30.0

Q ss_pred             eeEEEeeeccceEEEEEee--ccceEEEEEecccccc
Q 048206           36 FLFNVFFSKKFVHAKVMHR--SISKVISVATTNVDDS   70 (72)
Q Consensus        36 f~L~vffSkk~V~A~ViHr--~Ts~VvavAsT~sKdl   70 (72)
                      +=|-||+||+.|.||||..  ...+|+|+|+|.+...
T Consensus        32 pRLvVrrSNk~IyaQII~~d~~gd~vlaSAsS~el~k   68 (186)
T d1vqon1          32 PRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAE   68 (186)
T ss_dssp             CEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGGG
T ss_pred             CeEEEEEeCCceEEEEEEecCCCCEEEEEEecchhhh
Confidence            4789999999999999964  4579999999998754