Citrus Sinensis ID: 024580

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Local Sequence Feature Prediction

Residue Number Marker
--------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-------260-----
Protein Sequence
MKLARFAFRSINANLSQESYRFSITRSLSTNPFSGNGNESSQGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRLQNAGNMRGGPGGRGGVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDRREPGDFDTK
Secondary Structure (PSIPRED)
cccHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccHccccccccccccccccHcHccccccccccccccccccccHcccEEcccccHHHHHHHHHHcccEcccccccccHHHHHHHHHHHHHHHHHHHccccccccccEEEccccHHHHHHcccEEEccccccccccc
Coil and Loop (DISEMBL)
MKLARFAFRSINANLSQESYRFSITRslstnpfsgngnessqgnnepadeferrifgggygnssdsgsffRKLDRLqnagnmrggpggrggvsldledmgesvnttlsdgMQGKLREAArhfeydseevdkddyafrpdvsfktgmtyepkdldltkpgvrktrrVEFEVTTKkvledadfrnVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARafglmpfttmgtksfafgktmenldedyeyrtydrrepgdfdtk
Flexible Loop (DISEMBL)
MKLARFAFRsinanlsqesYRFSITRSLStnpfsgngnessqgnnepADEFERRIFGGGYGNSSDSGSFFRKLDRLQNagnmrggpggRGGVSLDLEDMGESVNttlsdgmqgKLREAARHFeydseevdkddyafrpdvsfktgmtyepkdldltkpgvrktrrvefevttkkvledadfrnvkFLTQFITEAgiiikrsmsgisaKAQRKVAREIKTarafglmpfttmgtksfafgktmenldedyeyrtydrrepgdfdtk
Low Complexity Region (SEG)
MKLARFAFRSINANLSQESYRFSITRSLSTNPFsgngnessqgnnePADEFERRIfgggygnssdsgsffRKLDRLQNAGNMrggpggrggVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDRREPGDFDTK
Disordered region (IsUnstruct)
**************************************************************************************************************************************AFR*DVSFKTGMTY******L***GVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEY**************
Disordered Region (DISOPRED)
******AFRSINANLSQESY************************************************FFR********************************NTTLSDGMQGKLREAARHF***********************************************VTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEY**************
Disordered Region (DISEMBL)
MKLARFAFRSINANLSQESYRFSITRSLSTNPFS**************DEFERRIFGGGYGNSSDSGSFFRKLDRLQNAGNMRGGPGGRGGVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMS***********REIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDRREPGDFDTK
Disordered Region (DISPRO)
*K***FAF*S****LSQESY*************************************************FR******N*******************DMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPG*RKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDRR********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKLARFAFRSINANLSQESYRFSITRSLSTNPFSGNGNESSQGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRLQNAGNMRGGPGGRGGVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDRREPGDFDTK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	265	2.2.26 [Sep-21-2011]
Q19V75	71	30S ribosomal protein S18	N/A	no	0.196	0.732	0.5	3e-08
C1CXK0	92	30S ribosomal protein S18	yes	no	0.203	0.586	0.444	5e-08
Q9RY50	92	30S ribosomal protein S18	yes	no	0.203	0.586	0.444	5e-08
Q1GC35	78	30S ribosomal protein S18	yes	no	0.184	0.628	0.551	7e-08
Q5SLQ0	88	30S ribosomal protein S18	yes	no	0.188	0.568	0.52	7e-08
P62659	88	30S ribosomal protein S18	yes	no	0.188	0.568	0.52	7e-08
Q1J217	91	30S ribosomal protein S18	yes	no	0.203	0.593	0.444	1e-07
A8Z621	180	30S ribosomal protein S18	yes	no	0.384	0.566	0.314	3e-07
P80382	88	30S ribosomal protein S18	yes	no	0.188	0.568	0.5	3e-07
Q04CW7	78	30S ribosomal protein S18	yes	no	0.184	0.628	0.530	3e-07

>sp|Q19V75|RR18_CHLAT 30S ribosomal protein S18, chloroplastic OS=Chlorokybus atmophyticus GN=rps18 PE=3 SV=2

 Score = 58.9 bits (141), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/52 (50%), Positives = 36/52 (69%)

Query: 177 EDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPF 228
           E  D++N+  L+QFITE G I+ R ++GISAK QR + + IK AR   L+PF
Sbjct: 15  ETIDYKNIDLLSQFITEQGKILPRRVNGISAKQQRAITKAIKQARFLALLPF 66

Chlorokybus atmophyticus (taxid: 3144)

>sp|C1CXK0|RS18_DEIDV 30S ribosomal protein S18 OS=Deinococcus deserti (strain VCD115 / DSM 17065 / LMG 22923) GN=rpsR PE=3 SV=1

 Score = 58.5 bits (140), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 39/54 (72%)

Query: 176 LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           LE  D+++VK L +F+++ G I+ R  +G+SAK QR++A+ IK AR   L+P+T
Sbjct: 33  LEITDYKDVKMLRRFVSDTGKILPRRRTGLSAKHQRRIAQTIKVARQLALLPYT 86

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Deinococcus deserti (strain VCD115 / DSM 17065 / LMG 22923) (taxid: 546414)

>sp|Q9RY50|RS18_DEIRA 30S ribosomal protein S18 OS=Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) GN=rpsR PE=3 SV=1

 Score = 58.5 bits (140), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 39/54 (72%)

Query: 176 LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           LE  D+++VK L +F+++ G I+ R  +G+SAK QR++A+ IK AR   L+P+T
Sbjct: 33  LEITDYKDVKMLRRFVSDTGKILPRRRTGLSAKHQRRIAQTIKVARQLALLPYT 86

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) (taxid: 243230)

>sp|Q1GC35|RS18_LACDA 30S ribosomal protein S18 OS=Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081) GN=rpsR PE=3 SV=1

 Score = 58.2 bits (139), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 27/49 (55%), Positives = 35/49 (71%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPF 228
           D+++V  L  FI+E G I+ RS++G SAK QRKVA  IK AR  GL+PF
Sbjct: 26  DYKDVDLLKHFISERGKILPRSVTGTSAKNQRKVANAIKRARIMGLLPF 74

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081) (taxid: 390333)

>sp|Q5SLQ0|RS18_THET8 30S ribosomal protein S18 OS=Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) GN=rpsR PE=1 SV=3

 Score = 58.2 bits (139), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+SAK QR +A+ IK AR  GL+PFT
Sbjct: 33  DYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFT 82

Located on the back of the platform of the 30S subunit where it stabilizes the close packing of several RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome, where it probably interacts with the Shine-Dalgarno helix.

Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (taxid: 300852)

>sp|P62659|RS18_THET2 30S ribosomal protein S18 OS=Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) GN=rpsR PE=1 SV=2

 Score = 58.2 bits (139), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+SAK QR +A+ IK AR  GL+PFT
Sbjct: 33  DYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFT 82

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (taxid: 262724)

>sp|Q1J217|RS18_DEIGD 30S ribosomal protein S18 OS=Deinococcus geothermalis (strain DSM 11300) GN=rpsR PE=3 SV=1

 Score = 57.4 bits (137), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/54 (44%), Positives = 39/54 (72%)

Query: 176 LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           LE  D+++VK L +FI++ G I+ R  +G+SAK QR++++ IK AR   L+P+T
Sbjct: 32  LEITDYKDVKMLRRFISDTGKILPRRRTGLSAKHQRRISQTIKIARQLALLPYT 85

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Deinococcus geothermalis (strain DSM 11300) (taxid: 319795)

>sp|A8Z621|RS18_SULMW 30S ribosomal protein S18 OS=Sulcia muelleri (strain GWSS) GN=rpsR PE=3 SV=1

 Score = 56.2 bits (134), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/105 (31%), Positives = 55/105 (52%), Gaps = 3/105 (2%)

Query: 130 DKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQ 189
           DK+ Y+   D +    + YEP+   LT   +      ++    K  ++  DF+N  FL +
Sbjct: 79  DKESYS---DKNILVKIFYEPEIRYLTPLEIETKPENKYCFFKKNNIKYIDFKNPSFLMK 135

Query: 190 FITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTK 234
           F+ E G I+ R ++G S K Q+K+ R IK  +  GL+P+ T G +
Sbjct: 136 FLNERGEILPRRITGTSKKFQKKLKRAIKKCKHIGLLPYLTDGLR 180

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Sulcia muelleri (strain GWSS) (taxid: 444179)

>sp|P80382|RS18_THETH 30S ribosomal protein S18 OS=Thermus thermophilus GN=rpsR PE=1 SV=3

 Score = 56.2 bits (134), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/50 (50%), Positives = 36/50 (72%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+S K QR +A+ IK AR  GL+PFT
Sbjct: 33  DYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKRARILGLLPFT 82

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Thermus thermophilus (taxid: 274)

>sp|Q04CW7|RS18_LACDB 30S ribosomal protein S18 OS=Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC BAA-365) GN=rpsR PE=3 SV=1

 Score = 55.8 bits (133), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 26/49 (53%), Positives = 34/49 (69%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPF 228
           D+++V  L  FI+E G I+ R ++G SAK QRKVA  IK AR  GL+PF
Sbjct: 26  DYKDVDLLKHFISERGKILPRRVTGTSAKNQRKVANAIKRARIMGLLPF 74

Binds as a heterodimer with protein S6 to the central domain of the 16S rRNA, where it helps stabilize the platform of the 30S subunit.

Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC BAA-365) (taxid: 321956)

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	265
297745890	322	unnamed protein product [Vitis vinifera]	0.977	0.804	0.617	2e-78
359478834	273	PREDICTED: uncharacterized protein LOC10	0.977	0.948	0.617	2e-78
255573810	258	structural constituent of ribosome, puta	0.852	0.875	0.610	4e-69
255575892	271	structural constituent of ribosome, puta	0.867	0.848	0.596	2e-67
356511323	277	PREDICTED: uncharacterized protein LOC10	0.935	0.895	0.552	1e-65
449450820	273	PREDICTED: uncharacterized protein LOC10	0.958	0.930	0.557	5e-65
118486185	266	unknown [Populus trichocarpa]	0.849	0.845	0.588	7e-60
224117578	264	predicted protein [Populus trichocarpa]	0.849	0.852	0.588	8e-60
388509904	171	unknown [Lotus japonicus]	0.592	0.918	0.698	2e-54
294462182	340	unknown [Picea sitchensis]	0.803	0.626	0.519	4e-53

>gi|297745890|emb|CBI15946.3| unnamed protein product [Vitis vinifera]

 Score =  298 bits (762), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 165/267 (61%), Positives = 203/267 (76%), Gaps = 8/267 (2%)

Query: 1   MKLARFAFRSINANLSQESYRFSITRSLSTNPFSGNGNESSQGNN--EPADEFERRIFGG 58
           MK+ R A +S N  LS       + RSLST+P S N N+ +Q  N  E AD+FE RIF G
Sbjct: 50  MKMFRVAIQSFN-RLSCRIQWPQMIRSLSTSPISNNENDDNQKKNSFESADDFEHRIFAG 108

Query: 59  GYGNSSDSGSFFRKLDRLQNAGNM-RGGPGGRGGV-SLDLEDMGESVNTTLSDGMQGKLR 116
             G++ +S SF++KLDRL+ A ++ R G    GG  S  L+ + ES NT LSDGM GKL+
Sbjct: 109 TSGSNPNSDSFYQKLDRLEKAHDIYRLGSKPNGGSGSQFLDGLDESFNT-LSDGMDGKLK 167

Query: 117 EAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKT-RRVEFEVTTKKV 175
           + A +FE++ +E+D++DYAFRPDV+FK GMTYEPKDLDLTKPG+RK+ +R EFEVTT++V
Sbjct: 168 KEATYFEFNPDEIDQEDYAFRPDVAFKPGMTYEPKDLDLTKPGIRKSYKRPEFEVTTEEV 227

Query: 176 LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKS 235
           L  ADFRNV+FL  FITEAGIIIKRS +GISAKAQRKVAREIKTARAFGLMPFTTMGTK+
Sbjct: 228 LRKADFRNVRFLAHFITEAGIIIKRSKTGISAKAQRKVAREIKTARAFGLMPFTTMGTKA 287

Query: 236 FAFGKTMENLDEDYE-YRTYDRREPGD 261
           F FGKTME+LDED+E YR+ D  E  D
Sbjct: 288 FVFGKTMEDLDEDFEYYRSVDPEETQD 314

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359478834|ref|XP_002279055.2| PREDICTED: uncharacterized protein LOC100263805 [Vitis vinifera]

 Score =  298 bits (762), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 165/267 (61%), Positives = 203/267 (76%), Gaps = 8/267 (2%)

Query: 1   MKLARFAFRSINANLSQESYRFSITRSLSTNPFSGNGNESSQGNN--EPADEFERRIFGG 58
           MK+ R A +S N  LS       + RSLST+P S N N+ +Q  N  E AD+FE RIF G
Sbjct: 1   MKMFRVAIQSFN-RLSCRIQWPQMIRSLSTSPISNNENDDNQKKNSFESADDFEHRIFAG 59

Query: 59  GYGNSSDSGSFFRKLDRLQNAGNM-RGGPGGRGGV-SLDLEDMGESVNTTLSDGMQGKLR 116
             G++ +S SF++KLDRL+ A ++ R G    GG  S  L+ + ES NT LSDGM GKL+
Sbjct: 60  TSGSNPNSDSFYQKLDRLEKAHDIYRLGSKPNGGSGSQFLDGLDESFNT-LSDGMDGKLK 118

Query: 117 EAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKT-RRVEFEVTTKKV 175
           + A +FE++ +E+D++DYAFRPDV+FK GMTYEPKDLDLTKPG+RK+ +R EFEVTT++V
Sbjct: 119 KEATYFEFNPDEIDQEDYAFRPDVAFKPGMTYEPKDLDLTKPGIRKSYKRPEFEVTTEEV 178

Query: 176 LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKS 235
           L  ADFRNV+FL  FITEAGIIIKRS +GISAKAQRKVAREIKTARAFGLMPFTTMGTK+
Sbjct: 179 LRKADFRNVRFLAHFITEAGIIIKRSKTGISAKAQRKVAREIKTARAFGLMPFTTMGTKA 238

Query: 236 FAFGKTMENLDEDYE-YRTYDRREPGD 261
           F FGKTME+LDED+E YR+ D  E  D
Sbjct: 239 FVFGKTMEDLDEDFEYYRSVDPEETQD 265

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255573810|ref|XP_002527824.1| structural constituent of ribosome, putative [Ricinus communis] gi|223532748|gb|EEF34527.1| structural constituent of ribosome, putative [Ricinus communis]

 Score =  267 bits (682), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 149/244 (61%), Positives = 187/244 (76%), Gaps = 18/244 (7%)

Query: 23  SITRSLSTN---PFSGN---GNESSQGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRL 76
           SI RS +T+   P S +   G + S    E  DEFE+RIFGG    S +S  FF+KLDR+
Sbjct: 11  SIGRSHTTHFAKPLSTSAPPGKKDSSNTLESNDEFEQRIFGG---ISENSLPFFQKLDRI 67

Query: 77  QNAGNMRGGPGGR--GGVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDY 134
           + A   R  PG R   G+S +L+ + E+   TLSDGM GKL++AAR+FE+D EE+ K+DY
Sbjct: 68  EKA---RDRPGSRMNEGISSNLDGLYEN---TLSDGMDGKLKKAARYFEFDPEEITKEDY 121

Query: 135 AFRPDVSFKTGMTYEPKDLDLTKPGVRKT-RRVEFEVTTKKVLEDADFRNVKFLTQFITE 193
           AFRPD++F+ GMTY+ KDLDL KPGVRK  +R EF+VTT++VLE ADFRNV+FL+ FITE
Sbjct: 122 AFRPDMTFRHGMTYDTKDLDLRKPGVRKPPKRYEFQVTTEEVLEKADFRNVRFLSNFITE 181

Query: 194 AGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRT 253
           AGI+ KRS + ISAKAQRKVAREIKTARAFGLMPFTTMGTKSF FGK+M++LDEDYEY +
Sbjct: 182 AGIMHKRSKTKISAKAQRKVAREIKTARAFGLMPFTTMGTKSFVFGKSMQDLDEDYEYES 241

Query: 254 YDRR 257
           +DR+
Sbjct: 242 FDRQ 245

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255575892|ref|XP_002528843.1| structural constituent of ribosome, putative [Ricinus communis] gi|223531694|gb|EEF33517.1| structural constituent of ribosome, putative [Ricinus communis]

 Score =  261 bits (667), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 148/248 (59%), Positives = 186/248 (75%), Gaps = 18/248 (7%)

Query: 23  SITRSLSTN---PFS---GNGNESSQGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRL 76
           SI RS +T+   P S    +G + S    E  +EFE+RIFGG    S +S  FF+KLDR+
Sbjct: 24  SIGRSHTTHFAKPLSTSASHGKKDSSNTLESNNEFEQRIFGG---ISENSLPFFQKLDRI 80

Query: 77  QNAGNMRGGPGGR--GGVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDY 134
           + A   R  PG R   G+S +L+ + E+   TLSDGM GKL++AAR+FE+D EE+ K+DY
Sbjct: 81  EKA---RNRPGSRMNEGISSNLDGLYEN---TLSDGMDGKLKKAARYFEFDPEEITKEDY 134

Query: 135 AFRPDVSFKTGMTYEPKDLDLTKPGVRKT-RRVEFEVTTKKVLEDADFRNVKFLTQFITE 193
           AFRPD++F+ GMTY+ KDLDL KPGVRK  +R EF+VTT++VLE AD RNV+FL+ FITE
Sbjct: 135 AFRPDMTFRRGMTYDTKDLDLRKPGVRKPPKRYEFQVTTEEVLEKADSRNVRFLSNFITE 194

Query: 194 AGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRT 253
           AGI+ KRS + ISAKAQRKVA EIKTARAFGLMPFTTMGTKSF FGK+M++LDEDYEY +
Sbjct: 195 AGIMHKRSKTKISAKAQRKVAGEIKTARAFGLMPFTTMGTKSFVFGKSMQDLDEDYEYES 254

Query: 254 YDRREPGD 261
           +DRR   D
Sbjct: 255 FDRRTIDD 262

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511323|ref|XP_003524376.1| PREDICTED: uncharacterized protein LOC100820548 [Glycine max]

 Score =  256 bits (653), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 141/255 (55%), Positives = 178/255 (69%), Gaps = 7/255 (2%)

Query: 1   MKLARFAFRSINANLSQESYRFSITRSLSTNPFSGNGNESSQGNNEPADEFERRIFGGGY 60
           MK+   A RSI+ANL  + ++  + RSLST  F+ N   + Q NN  + E E   FGG  
Sbjct: 12  MKIVSVAVRSISANLPNQFHQSHLLRSLSTWKFTDNATGNRQFNNSESPE-ESEQFGGNR 70

Query: 61  GNSSDSGSFFRKLDRLQNAGNMRGGPGGRGGVSLD-LEDMGESVNTTLSDGMQGKLREAA 119
           G  +   S F K ++    G  R  PG   G S + + D+ E+ +T L+DGM GKL  AA
Sbjct: 71  GKYAQLDSIFEKFNQ---QGMARQRPGSVNGASSERMHDLEETYDT-LTDGMDGKLMNAA 126

Query: 120 RHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKT-RRVEFEVTTKKVLED 178
            +FE+D +E++K+DYAFR D +F  G  Y+ KDLDLTKPGV K  +R EF  TTK+VL  
Sbjct: 127 TYFEFDEDEIEKEDYAFRYDANFPLGSKYDVKDLDLTKPGVHKPPKREEFTTTTKEVLSK 186

Query: 179 ADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAF 238
           ADFRNV+FL +FITEAGI+IKRS +GISAKAQRKVAREIKTARAFGLMPFTTMGTKSF F
Sbjct: 187 ADFRNVRFLAKFITEAGILIKRSQTGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFVF 246

Query: 239 GKTMENLDEDYEYRT 253
           G+TM+NLDED+ Y++
Sbjct: 247 GRTMQNLDEDFAYQS 261

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450820|ref|XP_004143160.1| PREDICTED: uncharacterized protein LOC101213524 [Cucumis sativus] gi|449496565|ref|XP_004160167.1| PREDICTED: uncharacterized LOC101213524 [Cucumis sativus]

 Score =  253 bits (647), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 145/260 (55%), Positives = 181/260 (69%), Gaps = 6/260 (2%)

Query: 1   MKLARFAFRSINANLSQESYRFSITRSLSTNPFSGNG----NESSQGNNEPADEFERRIF 56
           M+  + A R++   LS+   + S+ R+LSTN   G+G    N+    + E AD+FERRIF
Sbjct: 1   MRTFQVALRTLGGGLSRGLKQPSVLRNLSTNAARGSGFDDDNKGKFDSFETADDFERRIF 60

Query: 57  GGGYGNSSDSGSFFRKLDRLQNAGNMRGGPGGRGGVSLDLEDMGESVNTTLSDGMQGKLR 116
           GGG    S + +FF+K DRL       G     G     L D  ++ +T LSDGM GKL+
Sbjct: 61  GGGSMVDSGNDAFFQKFDRLGKPRERIGSKLSGGNNFHALYDREDNFDT-LSDGMDGKLK 119

Query: 117 EAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDLTKPGVRKT-RRVEFEVTTKKV 175
           +A+ +F++D EE++KDDY FR D+SF  G TY  KDLDLTKPG RK  +RVEF+VTT++ 
Sbjct: 120 KASTYFKFDPEEIEKDDYTFRADMSFSPGSTYNIKDLDLTKPGFRKPPKRVEFQVTTEEA 179

Query: 176 LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKS 235
           L  ADFRNV+FL  FITEAGII KRS + ISAKAQRKVAREIKTARAFGLMPFTTMGTKS
Sbjct: 180 LRKADFRNVRFLANFITEAGIINKRSNTRISAKAQRKVAREIKTARAFGLMPFTTMGTKS 239

Query: 236 FAFGKTMENLDEDYEYRTYD 255
           F FGK+MENLD D+EY  +D
Sbjct: 240 FNFGKSMENLDTDFEYEVFD 259

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118486185|gb|ABK94935.1| unknown [Populus trichocarpa]

 Score =  236 bits (602), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 140/238 (58%), Positives = 169/238 (71%), Gaps = 13/238 (5%)

Query: 24  ITRSLSTNPFSGN--GNESSQGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRLQNAGN 81
           + +SLSTN  S N  G+  S  + E AD FE+RIFGG  G +S S SFF+KLDRL  A  
Sbjct: 27  LIKSLSTNAPSDNWIGDNQSSNSFESADGFEQRIFGGIDGGNSHSESFFQKLDRLAKA-- 84

Query: 82  MRGGPGGR---GGVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRP 138
            R GPG R      S  + D+  S NT L DGM  KL+EAA + + D +++D+    +RP
Sbjct: 85  -RNGPGSRLNERNSSEMVNDLDSSFNT-LKDGMDEKLQEAAGYIDVDIDDIDE----YRP 138

Query: 139 DVSFKTGMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIII 198
           D  F+ G TY+ KDLDLTKP VR+ RR EF VTT +VL  ADFRNV+FL  FIT+AGIII
Sbjct: 139 DAHFEDGDTYDIKDLDLTKPFVRRERRDEFCVTTAEVLSKADFRNVRFLANFITDAGIII 198

Query: 199 KRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDR 256
           KR  +GISAKAQRKVAREIKTARAFGLMPFTTMGTKSF FG TM++ DED++YR+YD 
Sbjct: 199 KRRQTGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFVFGTTMQSQDEDFQYRSYDH 256

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117578|ref|XP_002331671.1| predicted protein [Populus trichocarpa] gi|222874090|gb|EEF11221.1| predicted protein [Populus trichocarpa]

 Score =  236 bits (602), Expect = 8e-60,   Method: Compositional matrix adjust.
 Identities = 140/238 (58%), Positives = 169/238 (71%), Gaps = 13/238 (5%)

Query: 24  ITRSLSTNPFSGN--GNESSQGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRLQNAGN 81
           + +SLSTN  S N  G+  S  + E AD FE+RIFGG  G +S S SFF+KLDRL  A  
Sbjct: 25  LIKSLSTNAPSDNWIGDNQSSNSFESADGFEQRIFGGIDGGNSHSESFFQKLDRLAKA-- 82

Query: 82  MRGGPGGR---GGVSLDLEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRP 138
            R GPG R      S  + D+  S NT L DGM  KL+EAA + + D +++D+    +RP
Sbjct: 83  -RNGPGSRLNERNSSEMVNDLDSSFNT-LKDGMDEKLQEAAGYIDVDIDDIDE----YRP 136

Query: 139 DVSFKTGMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIII 198
           D  F+ G TY+ KDLDLTKP VR+ RR EF VTT +VL  ADFRNV+FL  FIT+AGIII
Sbjct: 137 DAHFEDGDTYDIKDLDLTKPFVRRERRDEFCVTTAEVLSKADFRNVRFLANFITDAGIII 196

Query: 199 KRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDR 256
           KR  +GISAKAQRKVAREIKTARAFGLMPFTTMGTKSF FG TM++ DED++YR+YD 
Sbjct: 197 KRRQTGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFVFGTTMQSQDEDFQYRSYDH 254

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388509904|gb|AFK43018.1| unknown [Lotus japonicus]

 Score =  218 bits (556), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 111/159 (69%), Positives = 133/159 (83%), Gaps = 2/159 (1%)

Query: 96  LEDMGESVNTTLSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPKDLDL 155
           ++D+ +S +T LSDG+ GKL+EAA +FE+D EE+DK+DY+FR D +F  G TY  KDLDL
Sbjct: 2   IDDLEQSFDT-LSDGLDGKLKEAANYFEFDPEEIDKEDYSFRYDTTFHPGSTYNAKDLDL 60

Query: 156 TKPGVRKTR-RVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVA 214
           TKPGV+K   R EF+VTTK+VL  ADFRNV+FL  FITEAGI+ KRSM+ ISAKAQRKVA
Sbjct: 61  TKPGVQKPPIRPEFKVTTKEVLSQADFRNVRFLANFITEAGILKKRSMTKISAKAQRKVA 120

Query: 215 REIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRT 253
           REIKTARAFGLMPFTTMGTKSFAFGKTMENLD  + Y++
Sbjct: 121 REIKTARAFGLMPFTTMGTKSFAFGKTMENLDAGFAYKS 159

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294462182|gb|ADE76643.1| unknown [Picea sitchensis]

 Score =  214 bits (544), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 121/233 (51%), Positives = 152/233 (65%), Gaps = 20/233 (8%)

Query: 42  QGNNEPADEFERRIFGGGYGNSSDSGSFFRKLDRLQNAGNMRGGPGGRGGVSLDLEDMGE 101
           Q + E AD+FERR+FG    N+S + SFF+KLDR+  A        G+ G     ED  E
Sbjct: 91  QSSFESADDFERRMFGDFSANNSHTDSFFQKLDRIDKAR-------GKAGSGFGKEDWNE 143

Query: 102 SVNT----------TLSDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPK 151
            +            TL+DGM  KL++AA  ++Y     + +DY+FRPD +F  G TY  K
Sbjct: 144 KLGWEDDQAGHGADTLADGMDDKLKKAALEYDYGVLRPE-EDYSFRPDATFLPGSTYTVK 202

Query: 152 DLDLTKPGVRKT-RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQ 210
           DLDLTKP VR+  +R+EF+ TT +VL  ADFRNV+FL  FITEAGI+  R   GI AKAQ
Sbjct: 203 DLDLTKPAVRRPFKRLEFQTTTGEVLRKADFRNVRFLQNFITEAGILYPRKKFGIRAKAQ 262

Query: 211 RKVAREIKTARAFGLMPFTTMGTKSFAFGKTMENLDEDYEYRTYDRREPGDFD 263
           RK+AREIKTARAFGLMPFT+MG K+F FG TME+ DEDYE+  YD R P D +
Sbjct: 263 RKIAREIKTARAFGLMPFTSMGKKAFVFGTTMEDFDEDYEFDQYDDR-PDDLE 314

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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	265
TAIR|locus:2007397	261	AT1G07210 [Arabidopsis thalian	0.566	0.574	0.573	1.8e-44
UNIPROTKB|Q9KUZ0	75	rpsR "30S ribosomal protein S1	0.249	0.88	0.424	2.5e-08
TIGR_CMR|VC_0368	75	VC_0368 "ribosomal protein S18	0.249	0.88	0.424	2.5e-08
TIGR_CMR|NSE_0061	73	NSE_0061 "ribosomal protein S1	0.237	0.863	0.365	4.2e-08
TIGR_CMR|SO_3928	75	SO_3928 "ribosomal protein S18	0.267	0.946	0.380	1.2e-07
UNIPROTKB|P0A7T7	75	rpsR "30S ribosomal subunit pr	0.260	0.92	0.376	2.1e-07
TIGR_CMR|CHY_0037	76	CHY_0037 "ribosomal protein S1	0.260	0.907	0.394	3.6e-07
TIGR_CMR|APH_0152	96	APH_0152 "ribosomal protein S1	0.301	0.833	0.333	7.9e-07
TIGR_CMR|BA_5721	77	BA_5721 "ribosomal protein S18	0.264	0.909	0.388	7.9e-07
TIGR_CMR|CBU_0865	73	CBU_0865 "ribosomal protein S1	0.245	0.890	0.353	1.3e-06

TAIR|locus:2007397 AT1G07210 [Arabidopsis thaliana (taxid:3702)]

 Score = 424 (154.3 bits), Expect = 1.8e-44, Sum P(2) = 1.8e-44
 Identities = 90/157 (57%), Positives = 113/157 (71%)

Query:   108 SDGMQGKLREAARHFEYDSEEVDKDDYAFRPDVSFKTGMTYEPK-DLDLTKPGVRKTRRV 166
             SDG+ GKL+EAA  +  D  +  K+ Y+FRPD +   GM   P+    +  P    ++  
Sbjct:   107 SDGVDGKLKEAALAYNMDEGDGFKE-YSFRPDFNNSWGMNNFPRMQKQMQNPRQNNSKS- 164

Query:   167 EFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLM 226
               EVTT++VL++ADFRNV+FL  FITEAGIIIKR  +GISAKAQRK+AREIKTARAFGLM
Sbjct:   165 --EVTTEEVLKNADFRNVRFLANFITEAGIIIKRKQTGISAKAQRKIAREIKTARAFGLM 222

Query:   227 PFTTMGTKSFAFGKTMENLDEDYEYRTYDRREPGDFD 263
             PFTTMGTK+F FGKTMEN D+D+EY   D  +  +FD
Sbjct:   223 PFTTMGTKAFQFGKTMENRDQDFEYEVLD--DDDEFD 257

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

UNIPROTKB|Q9KUZ0 rpsR "30S ribosomal protein S18" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 129 (50.5 bits), Expect = 2.5e-08, P = 2.5e-08
 Identities = 28/66 (42%), Positives = 44/66 (66%)

Query:   164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAF 223
             RR +F   T + +++ D+++V  L  +ITEAG I+   ++G SAK QR++AR IK AR  
Sbjct:     6 RRRKFCRFTAEGVQEIDYKDVATLKNYITEAGKIVPSRITGTSAKYQRQLARAIKRARYL 65

Query:   224 GLMPFT 229
              L+P+T
Sbjct:    66 ALLPYT 71

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_0368 VC_0368 "ribosomal protein S18" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 129 (50.5 bits), Expect = 2.5e-08, P = 2.5e-08
 Identities = 28/66 (42%), Positives = 44/66 (66%)

Query:   164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAF 223
             RR +F   T + +++ D+++V  L  +ITEAG I+   ++G SAK QR++AR IK AR  
Sbjct:     6 RRRKFCRFTAEGVQEIDYKDVATLKNYITEAGKIVPSRITGTSAKYQRQLARAIKRARYL 65

Query:   224 GLMPFT 229
              L+P+T
Sbjct:    66 ALLPYT 71

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|NSE_0061 NSE_0061 "ribosomal protein S18" [Neorickettsia sennetsu str. Miyayama (taxid:222891)]

 Score = 127 (49.8 bits), Expect = 4.2e-08, P = 4.2e-08
 Identities = 23/63 (36%), Positives = 41/63 (65%)

Query:   166 VEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGL 225
             VE +V     +ED D++NV  + +F+T  G ++ R  +G+SAK QRK+A+E++  +   L
Sbjct:     6 VESQVELDLKIEDFDYKNVALIKRFMTPVGRVLSRRATGLSAKKQRKMAKEVRKMKFLAL 65

Query:   226 MPF 228
             +P+
Sbjct:    66 VPY 68

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

GO:0006412 "translation" evidence=ISS

GO:0015935 "small ribosomal subunit" evidence=ISS

TIGR_CMR|SO_3928 SO_3928 "ribosomal protein S18" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 123 (48.4 bits), Expect = 1.2e-07, P = 1.2e-07
 Identities = 27/71 (38%), Positives = 45/71 (63%)

Query:   161 RKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTA 220
             R  RR +F   T + + + D++++  L  +ITE+G I+   ++G SAK QR++AR IK A
Sbjct:     3 RYFRRRKFCRFTAEGVAEIDYKDIVTLKNYITESGKIVPSRITGTSAKYQRQLARAIKRA 62

Query:   221 RAFGLMPFTTM 231
             R   L+P+T +
Sbjct:    63 RYLSLLPYTDL 73

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|P0A7T7 rpsR "30S ribosomal subunit protein S18" [Escherichia coli K-12 (taxid:83333)]

 Score = 121 (47.7 bits), Expect = 2.1e-07, P = 2.1e-07
 Identities = 26/69 (37%), Positives = 44/69 (63%)

Query:   161 RKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTA 220
             R  RR +F   T + +++ D++++  L  +ITE+G I+   ++G  AK QR++AR IK A
Sbjct:     3 RYFRRRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRA 62

Query:   221 RAFGLMPFT 229
             R   L+P+T
Sbjct:    63 RYLSLLPYT 71

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

TIGR_CMR|CHY_0037 CHY_0037 "ribosomal protein S18" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 119 (46.9 bits), Expect = 3.6e-07, P = 3.6e-07
 Identities = 28/71 (39%), Positives = 43/71 (60%)

Query:   159 GVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIK 218
             G R+ +RV       K++ D D+++V  L ++ITE G I+ R +SG  A+ QR++   IK
Sbjct:     6 GSRRKKRV-CAFCVDKIV-DVDYKDVNRLKKYITERGKILPRRISGNCARHQRRLTTAIK 63

Query:   219 TARAFGLMPFT 229
              AR   L+PFT
Sbjct:    64 RARIMALLPFT 74

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|APH_0152 APH_0152 "ribosomal protein S18" [Anaplasma phagocytophilum HZ (taxid:212042)]

 Score = 116 (45.9 bits), Expect = 7.9e-07, P = 7.9e-07
 Identities = 28/84 (33%), Positives = 47/84 (55%)

Query:   145 GMTYEPKDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSG 204
             G +Y P  + L +P  RK+R            ED D++N   L++F++E G I+   ++ 
Sbjct:    16 GSSYSPL-VYLKRPYFRKSRSCPLAQCPD---EDIDYKNKVLLSKFVSEYGRILPSRITS 71

Query:   205 ISAKAQRKVAREIKTARAFGLMPF 228
             +SA+ Q+ +AR IK AR   L+P+
Sbjct:    72 VSARKQKLLARAIKRARYLALLPY 95

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

GO:0006412 "translation" evidence=ISS

GO:0015935 "small ribosomal subunit" evidence=ISS

TIGR_CMR|BA_5721 BA_5721 "ribosomal protein S18" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 116 (45.9 bits), Expect = 7.9e-07, P = 7.9e-07
 Identities = 28/72 (38%), Positives = 42/72 (58%)

Query:   157 KPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVARE 216
             K G  K R+V F   T   +   D+++V  L +F++E G I+ R ++G SAK QRK+   
Sbjct:     5 KGGRAKRRKVCF--FTSNGITRIDYKDVDLLKRFVSERGKILPRRVTGTSAKYQRKLTVA 62

Query:   217 IKTARAFGLMPF 228
             IK AR   L+P+
Sbjct:    63 IKRARQMALLPY 74

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CBU_0865 CBU_0865 "ribosomal protein S18" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 114 (45.2 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 23/65 (35%), Positives = 40/65 (61%)

Query:   164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAF 223
             RR +F     K L++ D+++V  L  +I E+G ++   ++G  AK QR+++R IK AR  
Sbjct:     4 RRKKFCAFDAKNLQEIDYKDVNTLKDYIMESGRVVPSRITGTCAKHQRQISRAIKLARYL 63

Query:   224 GLMPF 228
              L+P+
Sbjct:    64 ALLPY 68

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

---

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!

---

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	265
pfam01084	54	pfam01084, Ribosomal_S18, Ribosomal protein S18	1e-15
PRK00391	79	PRK00391, rpsR, 30S ribosomal protein S18; Reviewe	4e-13
CHL00077	86	CHL00077, rps18, ribosomal protein S18	3e-11
COG0238	75	COG0238, RpsR, Ribosomal protein S18 [Translation,	7e-10
TIGR00165	70	TIGR00165, S18, ribosomal protein S18	2e-09
PRK13401	82	PRK13401, PRK13401, 30S ribosomal protein S18; Pro	3e-08
PRK13400	147	PRK13400, PRK13400, 30S ribosomal protein S18; Pro	7e-05

>gnl|CDD|201589 pfam01084, Ribosomal_S18, Ribosomal protein S18

 Score = 69.0 bits (170), Expect = 1e-15
 Identities = 22/50 (44%), Positives = 35/50 (70%)

Query: 177 EDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLM 226
           E  D+++V+ L +FI+E G I+ R ++G+ AK QRK+A+ IK AR   L+
Sbjct: 5   EYIDYKDVELLRRFISERGKILPRRITGLCAKQQRKLAKAIKRARILALL 54

Length = 54

>gnl|CDD|178997 PRK00391, rpsR, 30S ribosomal protein S18; Reviewed

 Score = 62.9 bits (154), Expect = 4e-13
 Identities = 22/51 (43%), Positives = 35/51 (68%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTT 230
           D+++V+ L +FI+E G I+ R ++G SAK QR++A  IK AR   L+P+  
Sbjct: 28  DYKDVELLKKFISERGKILPRRITGTSAKHQRQLATAIKRARFLALLPYVD 78

Length = 79

>gnl|CDD|177016 CHL00077, rps18, ribosomal protein S18

 Score = 57.7 bits (140), Expect = 3e-11
 Identities = 19/49 (38%), Positives = 33/49 (67%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPF 228
           D++N+  L++FI+E G I+ R ++ ++ K QR + + IK AR   L+PF
Sbjct: 29  DYKNMSLLSRFISEQGKILSRRVTRLTLKQQRLITKAIKQARILSLLPF 77

Length = 86

>gnl|CDD|223316 COG0238, RpsR, Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]

 Score = 53.8 bits (130), Expect = 7e-10
 Identities = 26/68 (38%), Positives = 41/68 (60%), Gaps = 1/68 (1%)

Query: 159 GVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIK 218
                RR     T + + E+ D+++V+ L +FI+E G I+ R ++G SAK QR++AR IK
Sbjct: 9   APFFRRRKVCRFTAEGI-EEIDYKDVELLKRFISERGKILPRRITGTSAKHQRRLARAIK 67

Query: 219 TARAFGLM 226
            AR   L+
Sbjct: 68  RARYLALL 75

Length = 75

>gnl|CDD|232851 TIGR00165, S18, ribosomal protein S18

 Score = 52.8 bits (127), Expect = 2e-09
 Identities = 21/50 (42%), Positives = 34/50 (68%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D++++  L +FI+E G I+ R ++G SAK QR++A  IK AR   L+P+ 
Sbjct: 19  DYKDLDLLKKFISERGKILPRRITGTSAKYQRRLAVAIKRARYLALLPYV 68

This ribosomal small subunit protein is found in all eubacteria so far, as well as in chloroplasts. YER050C from Saccharomyces cerevisiae and a related protein from Caenorhabditis elegans appear to be homologous and may represent mitochondrial forms. The trusted cutoff is set high enough that these two candidate S18 proteins are not categorized automatically [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 70

>gnl|CDD|184031 PRK13401, PRK13401, 30S ribosomal protein S18; Provisional

 Score = 49.8 bits (119), Expect = 3e-08
 Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 7/74 (9%)

Query: 164 RRVEFEVTTKKV-------LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVARE 216
           +      T  K        +E  D+++   L  FI++ G I  R ++G++ + QR+VA  
Sbjct: 4   KPARKGPTKAKKNLLDSLGIESVDYKDTALLRTFISDRGKIRSRRVTGLTVQQQRQVATA 63

Query: 217 IKTARAFGLMPFTT 230
           IK AR   L+P+  
Sbjct: 64  IKNAREMALLPYPG 77

Length = 82

>gnl|CDD|184030 PRK13400, PRK13400, 30S ribosomal protein S18; Provisional

 Score = 41.5 bits (97), Expect = 7e-05
 Identities = 19/49 (38%), Positives = 29/49 (59%)

Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPF 228
           D+++   L ++I++ G I  R  +G  A+ QR +A  IK AR   LMPF
Sbjct: 36  DYKDSAKLARYISDRGKIEPRRRTGTCARHQRALANAIKRARFIALMPF 84

Length = 147

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	265
TIGR00165	70	S18 ribosomal protein S18. This ribosomal small su	99.95
PRK00391	79	rpsR 30S ribosomal protein S18; Reviewed	99.95
PRK13401	82	30S ribosomal protein S18; Provisional	99.94
COG0238	75	RpsR Ribosomal protein S18 [Translation, ribosomal	99.92
PRK13400	147	30S ribosomal protein S18; Provisional	99.92
CHL00077	86	rps18 ribosomal protein S18	99.92
PF01084	54	Ribosomal_S18: Ribosomal protein S18; InterPro: IP	99.86
KOG3162	159	consensus Mitochondrial/chloroplast ribosomal prot	99.75
KOG4021	239	consensus Mitochondrial ribosomal protein S18b [Tr	99.13

>TIGR00165 S18 ribosomal protein S18

Probab=99.95  E-value=2.3e-28  Score=185.50  Aligned_cols=66  Identities=36%  Similarity=0.633  Sum_probs=62.6

Q ss_pred             CCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCccc
Q 024580          165 RVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTT  230 (265)
Q Consensus       165 r~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~  230 (265)
                      |++.|++|..++..|||||+++|++|||+.|+|+||++||+|+|+||+|++|||+||.||||||+.
T Consensus         4 r~k~c~~~~~~~~~iDYKnv~lL~~Fis~~GkIlpRriTgl~~k~Qr~l~~aIKrAR~~~LlP~~~   69 (70)
T TIGR00165         4 RKKYCRFTAEGIQFIDYKDLDLLKKFISERGKILPRRITGTSAKYQRRLARAIKRARYLALLPYVK   69 (70)
T ss_pred             CCCCCCccCCCCCcCCccCHHHHHHhcCCCCeEcCCccCCcCHHHHHHHHHHHHHHHHHhcCCccC
Confidence            456799998888899999999999999999999999999999999999999999999999999985

This ribosomal small subunit protein is found in all eubacteria so far, as well as in chloroplasts. YER050C from Saccharomyces cerevisiae and a related protein from Caenorhabditis elegans appear to be homologous and may represent mitochondrial forms. The trusted cutoff is set high enough that these two candidate S18 proteins are not categorized automatically.

>PRK00391 rpsR 30S ribosomal protein S18; Reviewed

Probab=99.95  E-value=7.6e-28  Score=186.34  Aligned_cols=67  Identities=37%  Similarity=0.620  Sum_probs=64.0

Q ss_pred             CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCccc
Q 024580          164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTT  230 (265)
Q Consensus       164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~  230 (265)
                      ++++.|++|..++..|||||+++|++|||++|+|+||++||+|+|+||+|++|||+||.||||||+.
T Consensus        12 ~r~k~c~~c~~~~~~iDYKnv~lL~~Fis~~GkIlprriTG~~~k~Qr~l~~aIkrAR~~~LlPf~~   78 (79)
T PRK00391         12 RRKKVCRFCAEKIEYIDYKDVELLKKFISERGKILPRRITGTSAKHQRQLATAIKRARFLALLPYVD   78 (79)
T ss_pred             CCCCCCcccCCCCCcCCccCHHHHHHhcCCCceEcCcccCCcCHHHHHHHHHHHHHHHHhhCCCccC
Confidence            5567899999998889999999999999999999999999999999999999999999999999985

>PRK13401 30S ribosomal protein S18; Provisional

Probab=99.94  E-value=9e-28  Score=187.28  Aligned_cols=68  Identities=28%  Similarity=0.553  Sum_probs=64.9

Q ss_pred             CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      ++++.|++|..++++|||||+++|++|||++|||+||++||||+|+||+|++||||||.||||||+..
T Consensus        11 ~r~k~c~~~~~~~~~iDYKnv~lL~~Fis~~GkIlpRR~TGl~~k~QR~l~~AIKrAR~laLlPf~~~   78 (82)
T PRK13401         11 TKAKKNLLDSLGIESVDYKDTALLRTFISDRGKIRSRRVTGLTVQQQRQVATAIKNAREMALLPYPGR   78 (82)
T ss_pred             CCCCCCCcccCCCCcCCccCHHHHHHhcCCCccCcCcccCCcCHHHHHHHHHHHHHHHHHhcCccccC
Confidence            45678999999999999999999999999999999999999999999999999999999999999975

>COG0238 RpsR Ribosomal protein S18 [Translation, ribosomal structure and biogenesis]

Probab=99.92  E-value=4.2e-26  Score=175.33  Aligned_cols=64  Identities=41%  Similarity=0.638  Sum_probs=61.2

Q ss_pred             CCCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcC
Q 024580          163 TRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLM  226 (265)
Q Consensus       163 ~rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLL  226 (265)
                      +++++.|+||..++++|||||+++|++||||.|||+||++||+|+|+||+|++||||||.||||
T Consensus        12 ~rrrk~c~~~~~~~~~iDYKd~~~L~rfise~GKI~prRiTG~sak~QR~la~AIKRAR~laLl   75 (75)
T COG0238          12 FRRRKVCRFTAEGIEEIDYKDVELLKRFISERGKILPRRITGTSAKHQRRLARAIKRARYLALL   75 (75)
T ss_pred             cccccccccccccCCccCccCHHHHHHHhcccCcccccccccccHHHHHHHHHHHHHHHHHhcC
Confidence            3567899999998999999999999999999999999999999999999999999999999997

>PRK13400 30S ribosomal protein S18; Provisional

Probab=99.92  E-value=2.6e-25  Score=188.52  Aligned_cols=68  Identities=28%  Similarity=0.448  Sum_probs=64.3

Q ss_pred             CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      +|++.|++|..++..|||||+++|++|||++|||+|||+||+|+||||+|++||||||.||||||+..
T Consensus        20 ~RrK~C~~c~~~~~~IDYKNv~lL~~FISe~GKIlPRRiTGlcaK~QRkLakAIKRAR~laLLPfv~~   87 (147)
T PRK13400         20 PKRKICSFCAEKVSRIDYKDSAKLARYISDRGKIEPRRRTGTCARHQRALANAIKRARFIALMPFVSE   87 (147)
T ss_pred             CCCCCCCccCCCCCccCCcCHHHHHHhcCcCccCcCcccCCcCHHHHHHHHHHHHHHHHHhccccccc
Confidence            45678999988888899999999999999999999999999999999999999999999999999975

>CHL00077 rps18 ribosomal protein S18

Probab=99.92  E-value=2.3e-25  Score=175.15  Aligned_cols=66  Identities=30%  Similarity=0.541  Sum_probs=61.7

Q ss_pred             CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      .|++.|++|...  .|||||++||++|||++|+|+||++||+|+|+||+|++|||+||.||||||++.
T Consensus        15 ~rrk~~~~~~~~--~iDYKnv~lL~~Fis~~GkIlpRriTGl~~K~QR~l~~aIKrAR~~gLlP~~~~   80 (86)
T CHL00077         15 FRRRLPPIQSGD--RIDYKNMSLLSRFISEQGKILSRRVTRLTLKQQRLITKAIKQARILSLLPFLNN   80 (86)
T ss_pred             cccCCCCCCCCC--cCCccCHHHHHHhcCCCCeEcCcccCCcCHHHHHHHHHHHHHHHHHhcCCcccc
Confidence            457789998763  699999999999999999999999999999999999999999999999999985

>PF01084 Ribosomal_S18: Ribosomal protein S18; InterPro: IPR001648 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.86  E-value=3.9e-22  Score=144.48  Aligned_cols=51  Identities=47%  Similarity=0.795  Sum_probs=49.3

Q ss_pred             CCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcC
Q 024580          176 LEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLM  226 (265)
Q Consensus       176 i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLL  226 (265)
                      ...+||||+.+|++||+++|+|+||++||||+|+||+|++|||+||.||||
T Consensus         4 ~~~idykn~~lL~~Fi~~~GkIl~rr~Tgl~~k~Qr~l~~aIkrAR~~gLl   54 (54)
T PF01084_consen    4 NEYIDYKNVELLSQFISPTGKILPRRITGLCAKQQRKLAKAIKRARQLGLL   54 (54)
T ss_dssp             SSSSSSSSHHHHGCGBTTSSSBSTHHHHTSTHHHHHHHHHHHHHHHHTTSS
T ss_pred             CCcCCcCCHHHHHHHcCcccceehhhhccccHHHHHHHHHHHHHHHHhhCC
Confidence            457999999999999999999999999999999999999999999999997

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 [, ]. Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas proteins probably have a greater role in eukaryotic ribosomes. Most of the proteins lie close to, or on the surface of, the 30S subunit, arranged peripherally around the rRNA []. The small subunit ribosomal proteins can be categorised as primary binding proteins, which bind directly and independently to 16S rRNA; secondary binding proteins, which display no specific affinity for 16S rRNA, but its assembly is contingent upon the presence of one or more primary binding proteins; and tertiary binding proteins, which require the presence of one or more secondary binding proteins and sometimes other tertiary binding proteins. The small ribosomal subunit protein S18 is known to be involved in binding the aminoacyl-tRNA complex in Escherichia coli [], and appears to be situated at the tRNA A-site. Experimental evidence has revealed that S18 is well exposed on the surface of the E. coli ribosome, and is a secondary rRNA binding protein []. S18 belongs to a family of ribosomal proteins [] that includes: eubacterial S18; metazoan mitochondrial S18, algal and plant chloroplast S18; and cyanelle S18.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2UXD_R 3I8G_U 3UZ7_U 1N33_R 2XSY_R 3V24_R 3OGY_R 2XUY_R 2XFZ_R 3UXT_R ....

>KOG3162 consensus Mitochondrial/chloroplast ribosomal protein S18 [Translation, ribosomal structure and biogenesis]

Probab=99.75  E-value=8.9e-19  Score=150.93  Aligned_cols=72  Identities=39%  Similarity=0.572  Sum_probs=60.0

Q ss_pred             ccCcccccCCC-ccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCccccCCcccccCc
Q 024580          167 EFEVTTKKVLE-DADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTMGTKSFAFGK  240 (265)
Q Consensus       167 k~c~~~~~~i~-~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~~~~~~v~~~  240 (265)
                      +.|+.|..+|+ .++||||.||+|||++.|.|+||++||||+|+||+|++||++||.+||||++.  +.++-..+
T Consensus        67 ~~c~~c~~~Vd~~~~yknv~iLsqFv~~~G~il~RkiTGLc~k~Qrki~~aI~~A~~~GlmP~~~--~~~~~~~~  139 (159)
T KOG3162|consen   67 PQCILCTKGVDIKLSYKNVLLLSQFVSEDGGILPRKITGLCAKNQRKIERAIKRARAAGLMPVTN--TGPIWSRD  139 (159)
T ss_pred             ccCcccccCCCcccccCccchhhhhcccccceecchhhhhhHHHHHHHHHHHHHHHHhccccccc--cCcccccc
Confidence            34666666553 34699999999999999999999999999999999999999999999999655  45555543

>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]

Probab=99.13  E-value=4e-11  Score=107.72  Aligned_cols=65  Identities=20%  Similarity=0.320  Sum_probs=61.5

Q ss_pred             ccCcccccCCCccCCCCHHHHHHhcCc-CCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          167 EFEVTTKKVLEDADFRNVKFLTQFITE-AGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       167 k~c~~~~~~i~~iDYKNv~LLsqFIs~-~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      ..||+|.+....+||+|+.||.|||++ +|+|+.-..||||.|++.+|..||.+||..|+|-|.+.
T Consensus       109 npCPICRDeyL~~DyRN~~LlEQF~~~htg~~i~y~ktGlC~kqh~rL~~a~qkArdhG~lty~Vp  174 (239)
T KOG4021|consen  109 NPCPICRDEYLYFDYRNPGLLEQFLADHTGQPIDYLKTGLCRKQHTRLRAALQKARDHGTLTYGVP  174 (239)
T ss_pred             CCCCccccceEEEeccCHHHHHHHhccCCCCchhhhhcchHHHHHHHHHHHHHHhhhcCeEEecCC
Confidence            369999999888999999999999999 99999999999999999999999999999999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	265
2j00_R	88	Structure Of The Thermus Thermophilus 70s Ribosome		5e-09
3fic_R	70	T. Thermophilus 70s Ribosome In Complex With Mrna,		8e-09
1i94_R	87	Crystal Structures Of The Small Ribosomal Subunit W		1e-08
1fka_R	88	Structure Of Functionally Activated Small Ribosomal		1e-08
1pns_R	73	Crystal Structure Of A Streptomycin Dependent Ribos		2e-08
1p6g_R	74	Real Space Refined Coordinates Of The 30s Subunit F		3e-07
1vs5_R	75	Crystal Structure Of The Bacterial Ribosome From Es		3e-07
2gy9_R	69	Structure Of The 30s Subunit Of A Pre-Translocation		8e-07
3e1a_K	75	Structure Of The 30s Subunit And The Trnas Of E. Co		9e-07
3fih_R	55	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		2e-06
3bbn_R	103	Homology Model For The Spinach Chloroplast 30s Subu		2e-05

>pdb|2J00|R Chain R, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 1 Of 4). This File Contains The 30s Subunit, Mrna, A-, P- And E-Site Trnas And Paromomycin For Molecule I. Length = 88

Iteration: 1
 Score = 58.2 bits (139), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%)
Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+SAK QR +A+ IK AR  GL+PFT
Sbjct: 33  DYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFT 82

>pdb|3FIC|R Chain R, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 30s Subunit And The Ligands Length = 70

Iteration: 1
 Score = 57.4 bits (137), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 26/50 (52%), Positives = 37/50 (74%)
Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+SAK QR +A+ IK AR  GL+PFT
Sbjct: 15  DYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFT 64

>pdb|1I94|R Chain R, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 Length = 87

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/50 (50%), Positives = 36/50 (72%)
Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+S K QR +A+ IK AR  GL+PFT
Sbjct: 32  DYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKRARILGLLPFT 81

>pdb|1FKA|R Chain R, Structure Of Functionally Activated Small Ribosomal Subunit At 3.3 A Resolution Length = 88

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/50 (50%), Positives = 36/50 (72%)
Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+S K QR +A+ IK AR  GL+PFT
Sbjct: 33  DYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKRARILGLLPFT 82

>pdb|1PNS|R Chain R, Crystal Structure Of A Streptomycin Dependent Ribosome From E. Coli, 30s Subunit Of 70s Ribosome. This File, 1pns, Contains The 30s Subunit, Two Trnas, And One Mrna Molecule. The 50s Ribosomal Subunit Is In File 1pnu. Length = 73

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/50 (50%), Positives = 36/50 (72%)
Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           D+RNV+ L +F++E G I+ R  +G+S K QR +A+ IK AR  GL+PFT
Sbjct: 18  DYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKRARILGLLPFT 67

>pdb|1P6G|R Chain R, Real Space Refined Coordinates Of The 30s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 74

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 43/66 (65%)
Query: 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAF 223
           RR +F   T + +++ D++++  L  +ITE+G I+   ++G  AK QR++AR IK AR  
Sbjct: 5   RRRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYL 64
Query: 224 GLMPFT 229
            L+P+T
Sbjct: 65  SLLPYT 70

>pdb|1VS5|R Chain R, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 75

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 43/66 (65%)
Query: 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAF 223
           RR +F   T + +++ D++++  L  +ITE+G I+   ++G  AK QR++AR IK AR  
Sbjct: 6   RRRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYL 65
Query: 224 GLMPFT 229
            L+P+T
Sbjct: 66  SLLPYT 71

>pdb|2GY9|R Chain R, Structure Of The 30s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 69

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 24/65 (36%), Positives = 42/65 (64%)
Query: 165 RVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFG 224
           R +F   T + +++ D++++  L  +ITE+G I+   ++G  AK QR++AR IK AR   
Sbjct: 1   RRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLS 60
Query: 225 LMPFT 229
           L+P+T
Sbjct: 61  LLPYT 65

>pdb|3E1A|K Chain K, Structure Of The 30s Subunit And The Trnas Of E. Coli Ribosome In Pre- Accommodation State Length = 75

Iteration: 1
 Score = 50.4 bits (119), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 42/66 (63%), Gaps = 1/66 (1%)
Query: 164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAF 223
           RR     TT+ V+E  D++++  L  +ITE+G I+   ++G  AK QR++AR IK AR  
Sbjct: 7   RRKFCRFTTEGVVE-IDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYL 65
Query: 224 GLMPFT 229
            L+P+T
Sbjct: 66  SLLPYT 71

>pdb|3FIH|R Chain R, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 30s Subunit, Trnas And The Ternary Complex. Length = 55

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 35/52 (67%)
Query: 178 DADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           + D++++  L  +ITE+G I+   ++G  AK QR++AR IK AR   L+P+T
Sbjct: 1   EIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLPYT 52

>pdb|3BBN|R Chain R, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 103

Iteration: 1
 Score = 46.2 bits (108), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 32/49 (65%)
Query: 180 DFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPF 228
           D+RN+  +++FI+E G I+ R ++ ++ K QR +   IK AR   L+PF
Sbjct: 29  DYRNMSLISRFISEQGKILSRRVNRLTLKQQRLITSAIKQARILSLLPF 77

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	265
3r8n_R	55	30S ribosomal protein S18; protein biosynthesis, R	6e-15
2vqe_R	88	30S ribosomal protein S18; tRNA-binding, rRNA-bind	1e-14
3i1m_R	75	30S ribosomal protein S18; ribosome structure, pro	2e-14
3bbn_R	103	Ribosomal protein S18; small ribosomal subunit, sp	2e-14

>2vqe_R 30S ribosomal protein S18; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.4.8.1 PDB: 1fka_R 1fjg_R 1gix_U* 1hnw_R* 1hnx_R* 1hnz_R* 1hr0_R 1ibk_R* 1ibl_R* 1ibm_R 1j5e_R 1jgo_U* 1jgp_U* 1jgq_U* 1ml5_U* 1n32_R* 1n33_R* 1n34_R 1n36_R 1xmo_R* ... Length = 88

 Score = 66.6 bits (163), Expect = 1e-14
 Identities = 30/84 (35%), Positives = 45/84 (53%)

Query: 151 KDLDLTKPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQ 210
           K+    K   R+  R      T    +  D+RNV+ L +F++E G I+ R  +G+S K Q
Sbjct: 4   KNAKPKKEAQRRPSRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSGKEQ 63

Query: 211 RKVAREIKTARAFGLMPFTTMGTK 234
           R +A+ IK AR  GL+PFT    +
Sbjct: 64  RILAKTIKRARILGLLPFTEKLVR 87

>3i1m_R 30S ribosomal protein S18; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_R* 1vs5_R 3i1o_R 3i1q_R 3i1s_R 3i1z_R 3i21_R 3izv_V* 3izw_V* 3kc4_R 3or9_R 3ora_R 3sfs_R* 3uoq_R* 2qal_R* 1p6g_R 1p87_R 2aw7_R 2avy_R 2i2u_R ... Length = 75

 Score = 65.7 bits (161), Expect = 2e-14
 Identities = 26/71 (36%), Positives = 44/71 (61%)

Query: 161 RKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTA 220
           R  RR +F   T + +++ D++++  L  +ITE+G I+   ++G  AK QR++AR IK A
Sbjct: 3   RYFRRRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRA 62

Query: 221 RAFGLMPFTTM 231
           R   L+P+T  
Sbjct: 63  RYLSLLPYTDR 73

>3bbn_R Ribosomal protein S18; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 103

 Score = 66.3 bits (162), Expect = 2e-14
 Identities = 21/74 (28%), Positives = 40/74 (54%)

Query: 157 KPGVRKTRRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVARE 216
           +P ++  R     +   +  +  D+RN+  +++FI+E G I+ R ++ ++ K QR +   
Sbjct: 6   RPFIKSKRSFRRRLPPIQSGDRIDYRNMSLISRFISEQGKILSRRVNRLTLKQQRLITSA 65

Query: 217 IKTARAFGLMPFTT 230
           IK AR   L+PF  
Sbjct: 66  IKQARILSLLPFLN 79

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	265
3i1m_R	75	30S ribosomal protein S18; ribosome structure, pro	99.95
2vqe_R	88	30S ribosomal protein S18; tRNA-binding, rRNA-bind	99.95
3r8n_R	55	30S ribosomal protein S18; protein biosynthesis, R	99.92
3bbn_R	103	Ribosomal protein S18; small ribosomal subunit, sp	99.91

>3i1m_R 30S ribosomal protein S18; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_R* 1vs5_R 3i1o_R 3i1q_R 3i1s_R 3i1z_R 3i21_R 3izv_V* 3izw_V* 3kc4_R 3or9_R 3ora_R 3sfs_R* 3uoq_R* 4gaq_R* 4gas_R* 2qal_R* 1p6g_R 1p87_R 2aw7_R ...

Probab=99.95  E-value=3.5e-29  Score=190.93  Aligned_cols=68  Identities=37%  Similarity=0.620  Sum_probs=53.1

Q ss_pred             CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      +++++|++|.+++.+|||||+++|++|||++|+|+||++||||+|+||+|++|||+||.||||||++.
T Consensus         6 ~r~k~C~fc~~~~~~iDYknv~lL~~Fis~~GkIlprr~TGlc~k~QR~l~~AIKrAR~~gLlP~~~~   73 (75)
T 3i1m_R            6 RRRKFCRFTAEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLPYTDR   73 (75)
T ss_dssp             --------------CCSTTCHHHHGGGBCTTCCBCCHHHHCCCHHHHHHHHHHHHHHHTTTSSCSSSC
T ss_pred             CCCCCCCcccCCCCcCCcCCHHHHHHHcCcCCCCcCccccccCHHHHHHHHHHHHHHHHhccCCcCCC
Confidence            45678999999999999999999999999999999999999999999999999999999999999975

>2vqe_R 30S ribosomal protein S18; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.4.8.1 PDB: 1fka_R 1fjg_R 1gix_U* 1hnw_R* 1hnx_R* 1hnz_R* 1hr0_R 1ibk_R* 1ibl_R* 1ibm_R 1j5e_R 1jgo_U* 1jgp_U* 1jgq_U* 1ml5_U* 1n32_R* 1n33_R* 1n34_R 1n36_R 1xmo_R* ...

Probab=99.95  E-value=1.9e-28  Score=191.72  Aligned_cols=68  Identities=40%  Similarity=0.612  Sum_probs=65.0

Q ss_pred             CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      ++++.|++|..++.+|||||+++|++|||++|+|+||++||||+|+||+|++|||+||.||||||++.
T Consensus        17 ~r~k~C~~c~~~~~~iDYKnv~lL~~Fise~GkIlprriTGlc~k~QR~l~~AIKrAR~lgLLP~~~~   84 (88)
T 2vqe_R           17 SRKAKVKATLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSGKEQRILAKTIKRARILGLLPFTEK   84 (88)
T ss_dssp             CCSCCTTTSCCCEETTCTTCHHHHGGGBCSSSCBCCHHHHCCCHHHHHHHHHHHHHHHHTTSSCSCCC
T ss_pred             CCCCCCCccCCCCCcCCcCCHHHHHHHcccCCCCCchhhcCCCHHHHHHHHHHHHHHHHHhcCCccHh
Confidence            56788999999988999999999999999999999999999999999999999999999999999975

>3bbn_R Ribosomal protein S18; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=99.91  E-value=1.2e-25  Score=180.52  Aligned_cols=66  Identities=30%  Similarity=0.556  Sum_probs=53.9

Q ss_pred             CCCccCcccccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          164 RRVEFEVTTKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       164 rr~k~c~~~~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      .+...||+|..  +.||||||.+|++|||++|+|+||++||||+|+||+|++|||+||.||||||++.
T Consensus        15 ~rr~~cpi~~~--~~IDYKnv~lL~~FIse~GKIlpRRiTGlcaK~QR~l~~AIKrAR~laLLPy~~~   80 (103)
T 3bbn_R           15 FRRRLPPIQSG--DRIDYRNMSLISRFISEQGKILSRRVNRLTLKQQRLITSAIKQARILSLLPFLNN   80 (103)
T ss_dssp             ----------C--CSSCCSCHHHHTTTSCSSSSCCCSSSTTCCTTTTTTTHHHHHHHTTTTSSCTTCC
T ss_pred             ccCCCCCcCCC--CcCCcCCHHHHHHHhccCCCCcCccccCCCHHHHHHHHHHHHHHHHHhCCCcccC
Confidence            34667888863  4799999999999999999999999999999999999999999999999999986

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	265
d2qalr1	55	a.4.8.1 (R:19-73) Ribosomal protein S18 {Escherich	8e-19
d2uubr1	70	a.4.8.1 (R:19-88) Ribosomal protein S18 {Thermus t	5e-18

>d2qalr1 a.4.8.1 (R:19-73) Ribosomal protein S18 {Escherichia coli [TaxId: 562]} Length = 55

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein S18
family: Ribosomal protein S18
domain: Ribosomal protein S18
species: Escherichia coli [TaxId: 562]

 Score = 75.7 bits (187), Expect = 8e-19
 Identities = 21/52 (40%), Positives = 35/52 (67%)

Query: 178 DADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFT 229
           + D++++  L  +ITE+G I+   ++G  AK QR++AR IK AR   L+P+T
Sbjct: 1   EIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLPYT 52

>d2uubr1 a.4.8.1 (R:19-88) Ribosomal protein S18 {Thermus thermophilus [TaxId: 274]} Length = 70

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein S18
family: Ribosomal protein S18
domain: Ribosomal protein S18
species: Thermus thermophilus [TaxId: 274]

 Score = 73.9 bits (182), Expect = 5e-18
 Identities = 27/59 (45%), Positives = 39/59 (66%)

Query: 172 TKKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTT 230
           T    +  D+RNV+ L +F++E G I+ R  +G+SAK QR +A+ IK AR  GL+PFT 
Sbjct: 7   TLGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFTE 65

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	265
d2qalr1	55	Ribosomal protein S18 {Escherichia coli [TaxId: 56	99.92
d2uubr1	70	Ribosomal protein S18 {Thermus thermophilus [TaxId	99.91

>d2qalr1 a.4.8.1 (R:19-73) Ribosomal protein S18 {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein S18
family: Ribosomal protein S18
domain: Ribosomal protein S18
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=4.9e-26  Score=162.79  Aligned_cols=54  Identities=39%  Similarity=0.706  Sum_probs=52.2

Q ss_pred             ccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          178 DADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       178 ~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      .|||||+++|++|||+.|+|+||++||+|+|+||+|++|||+||.||||||++.
T Consensus         1 ~iDYKn~~lL~~Fis~~GkI~~rr~Tgl~~k~Qr~l~~aIkrAR~~gLlP~~~~   54 (55)
T d2qalr1           1 EIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLPYTDR   54 (55)
T ss_dssp             CCCSSCHHHHGGGBCTTSSBCCSTTTCCCHHHHHHHHHHHHHHHHTTSSCSSSC
T ss_pred             CCCcccHHHHHHHcCCCCeEeCCccCCCCHHHHHHHHHHHHHHHHhccCCcccC
Confidence            379999999999999999999999999999999999999999999999999974

>d2uubr1 a.4.8.1 (R:19-88) Ribosomal protein S18 {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein S18
family: Ribosomal protein S18
domain: Ribosomal protein S18
species: Thermus thermophilus [TaxId: 274]

Probab=99.91  E-value=1.1e-25  Score=168.01  Aligned_cols=59  Identities=44%  Similarity=0.722  Sum_probs=55.8

Q ss_pred             ccCCCccCCCCHHHHHHhcCcCCccccccccCCCHHHHHHHHHHHHHHHHcCcCCcccc
Q 024580          173 KKVLEDADFRNVKFLTQFITEAGIIIKRSMSGISAKAQRKVAREIKTARAFGLMPFTTM  231 (265)
Q Consensus       173 ~~~i~~iDYKNv~LLsqFIs~~GkIlpRriTGLcaK~QRkLakAIKRAR~mGLLPfv~~  231 (265)
                      ...++.|||||+.+|++||+++|+|+||++||+|+++||+|++|||+||.||||||++.
T Consensus         8 ~~~~~~iDYKn~~lL~~Fis~~GkIlprr~TGl~~k~Qr~l~~aIkrAR~~gLlPy~~~   66 (70)
T d2uubr1           8 LGEFDLRDYRNVEVLKRFLSETGKILPRRRTGLSAKEQRILAKTIKRARILGLLPFTEK   66 (70)
T ss_dssp             SCSCCTTCTTCHHHHGGGBCSSSCBCCHHHHCCCHHHHHHHHHHHHHHHHTTSSCSCCC
T ss_pred             ccccCccCccCHHHHHHhcCCCCeEecCccCCCCHHHHHHHHHHHHHHHHHhcccccHh
Confidence            34567899999999999999999999999999999999999999999999999999985