Citrus Sinensis ID: 027743

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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-------22
Protein Sequence
MASSSLTSALTSQSKSPFYPQQLSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQKG
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccHHHcccccccEEEEEEEEcccccEEEccccccccccccccccccccccccccccccccccccccccEEEEEEcccccHHHHHHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccccEEEEEEEEEccccHHHHHHHHHcccccEEEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccHccccccccccccccEEEEEcccccEEEEEEEEEEccccEEcccccccccccccccccccccHHHHHcccccccccccccEEEEEEEcccccHHHHHHHHHHHHHHHHHcccEEEEEcccccEEEEEEEHEcccccccccccccEEEEEEEcccHHHHHHHHHHHcccHHHEEEEEEEEccccccc
Coil and Loop (DISEMBL)
masssltsaltsqskspfypqqlsqlpssplfsFARSLKTFRTNAKSLLLHkknsnsvsLTVKaqtldfsgsffegggfgsdddptsvppgsvgtataiedkeepqcppglrqyetmmvlrpdmseDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIrkrnkagesntylDGIYLLFTYFTKPESIEALERTMKadddvirsssfKVRKQKQKG
Flexible Loop (DISEMBL)
masssltsALTSQSKSPFYPQQLSQLPSSPLFSFARSLKTFRTNAKSLLlhkknsnsvslTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTataiedkeepqcppglRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSirkrnkagesntYLDGIYLLFTYFTKPESIEALERtmkadddvirsssfkvrkqkqkg
Low Complexity Region (SEG)
MasssltsaltsqskspfypqqlsqlpssplfsfARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLdfsgsffegggfgsdddPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQKG
Disordered region (IsUnstruct)
*************************************LKTFRT****LLL*********LTVKAQTLDFSGSFF*******************************************************LALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPE******************************
Disordered Region (DISOPRED)
*************SKSPFYPQQLSQLPSSPLFSFARSLKTFRTNAK*************LTVKAQTLDFSGSFFEGG*********************************LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSF*********
Disordered Region (DISEMBL)
***********************SQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSS***********
Disordered Region (DISPRO)
*****************F*PQQLSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRK*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSSLTSALTSQSKSPFYPQQLSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQKG
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	219	2.2.26 [Sep-21-2011]
Q8VY91	207	30S ribosomal protein S6	yes	no	0.872	0.922	0.711	1e-75
P82403	168	30S ribosomal protein S6	N/A	no	0.689	0.898	0.767	9e-58
A5GX14	135	30S ribosomal protein S6	yes	no	0.424	0.688	0.352	8e-10
Q3MBE2	108	30S ribosomal protein S6	yes	no	0.438	0.888	0.361	9e-10
Q8YMX2	108	30S ribosomal protein S6	yes	no	0.438	0.888	0.361	2e-09
Q1XDC8	109	30S ribosomal protein S6,	N/A	no	0.452	0.908	0.296	2e-09
Q2JKZ9	96	30S ribosomal protein S6	yes	no	0.420	0.958	0.323	2e-09
Q10XV0	117	30S ribosomal protein S6	yes	no	0.406	0.760	0.357	4e-09
P73636	113	30S ribosomal protein S6	N/A	no	0.410	0.796	0.363	8e-09
Q8EKV4	95	30S ribosomal protein S6	yes	no	0.420	0.968	0.316	9e-09

>sp|Q8VY91|RR6_ARATH 30S ribosomal protein S6 alpha, chloroplastic OS=Arabidopsis thaliana GN=RPS6 PE=1 SV=1

 Score =  282 bits (721), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 138/194 (71%), Positives = 157/194 (80%), Gaps = 3/194 (1%)

Query: 23  LSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSD 82
           L  + S PL SF+ SL+ F + +K +    +  +     VK+Q LDFSG+FFEGG FGSD
Sbjct: 15  LPNVSSQPLLSFSHSLRPFISKSKPMCASIQKRDGSQFVVKSQALDFSGTFFEGG-FGSD 73

Query: 83  DDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVA 142
           DDPTS  P   G +TA+EDK EPQCPPGLRQYETM VLRPDMSEDERL LTQKYEELLVA
Sbjct: 74  DDPTS--PSGSGVSTALEDKPEPQCPPGLRQYETMAVLRPDMSEDERLGLTQKYEELLVA 131

Query: 143 GGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADD 202
           GGGMYVEVFNRGVIPLAYSIRK+NKAGE+NTYLDGIYLLFTYFTKPESI  LE  + ADD
Sbjct: 132 GGGMYVEVFNRGVIPLAYSIRKKNKAGETNTYLDGIYLLFTYFTKPESIVPLETVLTADD 191

Query: 203 DVIRSSSFKVRKQK 216
           D+IRSSSFK++K+K
Sbjct: 192 DIIRSSSFKIKKRK 205

Binds together with S18 to 16S ribosomal RNA.
Arabidopsis thaliana (taxid: 3702)

>sp|P82403|RR6_SPIOL 30S ribosomal protein S6 alpha, chloroplastic (Fragment) OS=Spinacia oleracea GN=RPS6 PE=1 SV=2

 Score =  223 bits (568), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 119/155 (76%), Positives = 131/155 (84%), Gaps = 4/155 (2%)

Query: 62  VKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLR 121
           VKA  LDFSGSFFEGG  G D+DP S PP  +    A+E+K EPQCPPGLRQYETM VLR
Sbjct: 17  VKAIALDFSGSFFEGGFGGLDEDPPSTPPAGL----AVEEKPEPQCPPGLRQYETMAVLR 72

Query: 122 PDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLL 181
           PDM+EDERL LTQKYEELLVAGG MYVEVFNRGVIPLAYSI+++NKAGE+N YLDGIYLL
Sbjct: 73  PDMTEDERLTLTQKYEELLVAGGAMYVEVFNRGVIPLAYSIKRKNKAGETNNYLDGIYLL 132

Query: 182 FTYFTKPESIEALERTMKADDDVIRSSSFKVRKQK 216
           FTYFTKPESI  LE  +  DDDVIRSSSFK+RK+K
Sbjct: 133 FTYFTKPESISPLEAALVTDDDVIRSSSFKIRKRK 167

Binds together with S18 to 16S ribosomal RNA.

Spinacia oleracea (taxid: 3562)

>sp|A5GX14|RS6_SYNR3 30S ribosomal protein S6 OS=Synechococcus sp. (strain RCC307) GN=rpsF PE=3 SV=1

 Score = 63.9 bits (154), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 36/102 (35%), Positives = 55/102 (53%), Gaps = 9/102 (8%)

Query: 114 YETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNT 173
           YETM +LRPD++E+E  +   KY +L+V  GG  ++   RG   LAY+I K         
Sbjct: 7   YETMYILRPDIAEEEVESHANKYRDLVVEAGGEVIDSQMRGKRRLAYNIGK--------- 57

Query: 174 YLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQ 215
           + +GIY+   Y    + +  LE+ M+  +DVIR  + K   Q
Sbjct: 58  HREGIYIQLNYSGDGKQVGPLEKAMRLSEDVIRYLTVKYEGQ 99

Binds together with S18 to 16S ribosomal RNA.

Synechococcus sp. (strain RCC307) (taxid: 316278)

>sp|Q3MBE2|RS6_ANAVT 30S ribosomal protein S6 OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=rpsF PE=3 SV=1

 Score = 63.9 bits (154), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 57/105 (54%), Gaps = 9/105 (8%)

Query: 114 YETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNT 173
           YET+ +LRPD+++++      KY+ LL   G   +EV NRG   LAY I+K+        
Sbjct: 5   YETLYILRPDLTDEQVELAIAKYQNLLQEQGATDIEVQNRGKRRLAYEIKKQR------- 57

Query: 174 YLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQK 218
             DG Y+ F Y    ++I  LER M+  ++VIR  + K    K+K
Sbjct: 58  --DGFYVQFNYNAPGKAIAILERAMRLSEEVIRYLTVKQEVTKEK 100

Binds together with S18 to 16S ribosomal RNA.

Anabaena variabilis (strain ATCC 29413 / PCC 7937) (taxid: 240292)

>sp|Q8YMX2|RS6_NOSS1 30S ribosomal protein S6 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=rpsF PE=3 SV=1

 Score = 62.8 bits (151), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 57/105 (54%), Gaps = 9/105 (8%)

Query: 114 YETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNT 173
           YET+ +LRPD+++++      KY+ LL   G   +EV NRG   LAY I+K+        
Sbjct: 5   YETLYILRPDLTDEQVELAIAKYQNLLQEQGATDLEVQNRGKRRLAYEIKKQR------- 57

Query: 174 YLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQK 218
             DG Y+ F Y    ++I  LER M+  ++VIR  + K    K+K
Sbjct: 58  --DGFYVQFNYNAPGKAIAILERAMRLSEEVIRYLTVKQEVTKEK 100

Binds together with S18 to 16S ribosomal RNA.

Nostoc sp. (strain PCC 7120 / UTEX 2576) (taxid: 103690)

>sp|Q1XDC8|RR6_PORYE 30S ribosomal protein S6, chloroplastic OS=Porphyra yezoensis GN=rps6 PE=3 SV=1

 Score = 62.8 bits (151), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 32/108 (29%), Positives = 62/108 (57%), Gaps = 9/108 (8%)

Query: 111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
           L  YET+ +L+ D++ED+ L++   Y+ +L  GG   + + +RG   L+Y+I        
Sbjct: 9   LNCYETVYILKSDLNEDKTLSIINDYKSMLTNGGAKNIVLQHRGRRHLSYTI-------- 60

Query: 171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQK 218
            N Y DGIY+   Y    + +++ E++++ DD++IR  + K ++  +K
Sbjct: 61  -NDYHDGIYVQVNYEGNGQLVKSFEKSLRFDDNIIRYLTNKQKRNIKK 107

Binds together with S18 to 16S ribosomal RNA.

Porphyra yezoensis (taxid: 2788)

>sp|Q2JKZ9|RS6_SYNJB 30S ribosomal protein S6 OS=Synechococcus sp. (strain JA-2-3B'a(2-13)) GN=rpsF PE=3 SV=1

 Score = 62.4 bits (150), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 33/102 (32%), Positives = 57/102 (55%), Gaps = 10/102 (9%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAG-E 170
           R YETM+++RPD+S++    L    E +L   G  +VE+ NRG         KR  AG E
Sbjct: 3   RAYETMLIVRPDLSDEPLEQLLSSQEAILRENGVTHVEITNRG---------KRRFAGFE 53

Query: 171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKV 212
              + +G+Y+ F Y  +P ++ A E+ ++ ++ V+R  + +V
Sbjct: 54  MKKFKEGLYIQFNYEAEPNAVAAWEKNLRINESVLRHMTLRV 95

Binds together with S18 to 16S ribosomal RNA.

Synechococcus sp. (strain JA-2-3B'a(2-13)) (taxid: 321332)

>sp|Q10XV0|RS6_TRIEI 30S ribosomal protein S6 OS=Trichodesmium erythraeum (strain IMS101) GN=rpsF PE=3 SV=1

 Score = 61.6 bits (148), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 35/98 (35%), Positives = 52/98 (53%), Gaps = 9/98 (9%)

Query: 114 YETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNT 173
           YETM +LRPDM+E++      KY+ +L   G   +++ +RG + LAY I         N 
Sbjct: 6   YETMYILRPDMTEEKVEQAITKYKSMLEEQGAYDIKIQHRGKLRLAYEI---------NN 56

Query: 174 YLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFK 211
             +GIY+   Y   P  I  LER M+  ++VIR  + K
Sbjct: 57  QREGIYIQMNYQGPPTQIAILERAMRLSEEVIRYLTVK 94

Binds together with S18 to 16S ribosomal RNA.

Trichodesmium erythraeum (strain IMS101) (taxid: 203124)

>sp|P73636|RS6_SYNY3 30S ribosomal protein S6 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=rpsF PE=3 SV=1

 Score = 60.5 bits (145), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 36/99 (36%), Positives = 53/99 (53%), Gaps = 9/99 (9%)

Query: 114 YETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNT 173
           YE M++LRPD++E+       KY+E L       V V   G   LAY IR+ N       
Sbjct: 6   YELMVILRPDLNEERVSQEVTKYQEFLTNNAAEEVSVKVWGKRRLAYQIRRFN------- 58

Query: 174 YLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKV 212
             DGIY+LF +  + + I  +ER M+ +D+V+R  S K+
Sbjct: 59  --DGIYVLFNFNGEGQQIALIERDMRLNDNVMRFLSIKL 95

Binds together with S18 to 16S ribosomal RNA.

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

>sp|Q8EKV4|RS6_OCEIH 30S ribosomal protein S6 OS=Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HTE831) GN=rpsF PE=3 SV=1

 Score = 60.5 bits (145), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 32/101 (31%), Positives = 53/101 (52%), Gaps = 9/101 (8%)

Query: 111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
           +R+YE M ++RPD+ E+ + AL +++  +L   G    +V  +G   LAY I        
Sbjct: 1   MRKYEIMYIIRPDIEEEAQTALIERFNTILTDNGAEIDKVDEKGKRRLAYEI-------- 52

Query: 171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFK 211
            N Y DG Y++  +    E+I   +R  K +DD+IR  + K
Sbjct: 53  -NDYRDGYYVIINFRGSEEAINEFDRLAKFNDDIIRHMAIK 92

Binds together with S18 to 16S ribosomal RNA.

Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HTE831) (taxid: 221109)

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	219
297836915	211	ribosomal protein S6 family protein [Ara	0.940	0.976	0.675	1e-74
6633831	231	F1N19.8 [Arabidopsis thaliana]	0.872	0.826	0.711	5e-74
15217660	207	30S ribosomal protein S6 alpha [Arabidop	0.872	0.922	0.711	7e-74
255555639	205	structural constituent of ribosome, puta	0.863	0.921	0.676	1e-72
224053759	184	predicted protein [Populus trichocarpa]	0.835	0.994	0.746	9e-72
225426247	199	PREDICTED: 30S ribosomal protein S6 alph	0.812	0.894	0.740	6e-70
351720783	214	uncharacterized protein LOC100500072 [Gl	0.954	0.976	0.677	6e-70
388511881	209	unknown [Lotus japonicus]	0.945	0.990	0.682	4e-69
351727673	214	uncharacterized protein LOC100305490 [Gl	0.812	0.831	0.733	6e-69
449518755	222	PREDICTED: 30S ribosomal protein S6 alph	0.689	0.680	0.766	1e-62

>gi|297836915|ref|XP_002886339.1| ribosomal protein S6 family protein [Arabidopsis lyrata subsp. lyrata] gi|297332180|gb|EFH62598.1| ribosomal protein S6 family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  284 bits (727), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 148/219 (67%), Positives = 172/219 (78%), Gaps = 13/219 (5%)

Query: 1   MASSSLTSALTSQSKSPFYPQQLSQLPSSPLFSFARSLKTFRTNAKSL---LLHKKNSNS 57
           M +SSL   L++ +  P     L  + S PL SF+ SL+ F + +K +   L  ++  + 
Sbjct: 1   MVASSL--CLSNSTICP-----LPNVSSQPLLSFSHSLRPFISKSKPICASLQQQQKRDG 53

Query: 58  VSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETM 117
               VK+Q LDFSG+FFEGG FGSDDDPTS PPGS G +TA+EDK EPQCPPGLRQYETM
Sbjct: 54  SQFVVKSQALDFSGTFFEGG-FGSDDDPTS-PPGS-GVSTALEDKPEPQCPPGLRQYETM 110

Query: 118 MVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDG 177
            VLRPDMSEDERL LTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRK+NKAGE+NTYLDG
Sbjct: 111 AVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKKNKAGETNTYLDG 170

Query: 178 IYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQK 216
           IYLLFTYFTKPESI  LE  + ADDD+IRSSSFK++K+K
Sbjct: 171 IYLLFTYFTKPESITPLETVLTADDDIIRSSSFKIKKRK 209

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6633831|gb|AAF19690.1|AC009519_24 F1N19.8 [Arabidopsis thaliana]

 Score =  283 bits (723), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 138/194 (71%), Positives = 157/194 (80%), Gaps = 3/194 (1%)

Query: 23  LSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSD 82
           L  + S PL SF+ SL+ F + +K +    +  +     VK+Q LDFSG+FFEGG FGSD
Sbjct: 39  LPNVSSQPLLSFSHSLRPFISKSKPMCASIQKRDGSQFVVKSQALDFSGTFFEGG-FGSD 97

Query: 83  DDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVA 142
           DDPTS  P   G +TA+EDK EPQCPPGLRQYETM VLRPDMSEDERL LTQKYEELLVA
Sbjct: 98  DDPTS--PSGSGVSTALEDKPEPQCPPGLRQYETMAVLRPDMSEDERLGLTQKYEELLVA 155

Query: 143 GGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADD 202
           GGGMYVEVFNRGVIPLAYSIRK+NKAGE+NTYLDGIYLLFTYFTKPESI  LE  + ADD
Sbjct: 156 GGGMYVEVFNRGVIPLAYSIRKKNKAGETNTYLDGIYLLFTYFTKPESIVPLETVLTADD 215

Query: 203 DVIRSSSFKVRKQK 216
           D+IRSSSFK++K+K
Sbjct: 216 DIIRSSSFKIKKRK 229

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15217660|ref|NP_176632.1| 30S ribosomal protein S6 alpha [Arabidopsis thaliana] gi|75161441|sp|Q8VY91.1|RR6_ARATH RecName: Full=30S ribosomal protein S6 alpha, chloroplastic; Flags: Precursor gi|18252237|gb|AAL61951.1| plastid ribosomal protein S6, putative [Arabidopsis thaliana] gi|21386993|gb|AAM47900.1| plastid ribosomal protein S6, putative [Arabidopsis thaliana] gi|21553658|gb|AAM62751.1| plastid ribosomal protein S6, putative [Arabidopsis thaliana] gi|332196127|gb|AEE34248.1| 30S ribosomal protein S6 alpha [Arabidopsis thaliana]

 Score =  282 bits (721), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 138/194 (71%), Positives = 157/194 (80%), Gaps = 3/194 (1%)

Query: 23  LSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSD 82
           L  + S PL SF+ SL+ F + +K +    +  +     VK+Q LDFSG+FFEGG FGSD
Sbjct: 15  LPNVSSQPLLSFSHSLRPFISKSKPMCASIQKRDGSQFVVKSQALDFSGTFFEGG-FGSD 73

Query: 83  DDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVA 142
           DDPTS  P   G +TA+EDK EPQCPPGLRQYETM VLRPDMSEDERL LTQKYEELLVA
Sbjct: 74  DDPTS--PSGSGVSTALEDKPEPQCPPGLRQYETMAVLRPDMSEDERLGLTQKYEELLVA 131

Query: 143 GGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADD 202
           GGGMYVEVFNRGVIPLAYSIRK+NKAGE+NTYLDGIYLLFTYFTKPESI  LE  + ADD
Sbjct: 132 GGGMYVEVFNRGVIPLAYSIRKKNKAGETNTYLDGIYLLFTYFTKPESIVPLETVLTADD 191

Query: 203 DVIRSSSFKVRKQK 216
           D+IRSSSFK++K+K
Sbjct: 192 DIIRSSSFKIKKRK 205

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255555639|ref|XP_002518855.1| structural constituent of ribosome, putative [Ricinus communis] gi|223541842|gb|EEF43388.1| structural constituent of ribosome, putative [Ricinus communis]

 Score =  278 bits (711), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 140/207 (67%), Positives = 160/207 (77%), Gaps = 18/207 (8%)

Query: 11  TSQSKSPFYPQQLSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFS 70
           T  + SP  P+  S+ P  P  SFA ++K             K  +  SLT+K+Q LDFS
Sbjct: 15  TVINSSPLCPKLFSKFPCFPSLSFAHTIK-------------KRHSVRSLTIKSQALDFS 61

Query: 71  GSFFEGGGFGSDDDPTSVPPGSVGTA-TAIEDKEEPQCPPGLRQYETMMVLRPDMSEDER 129
           GSF+EG GFGS++DP    P   G+  TA+EDKE PQCPPGLRQYETM VLRPDMSEDER
Sbjct: 62  GSFYEGSGFGSEEDP----PTLTGSGMTAVEDKEPPQCPPGLRQYETMAVLRPDMSEDER 117

Query: 130 LALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPE 189
           LALTQKYEELLVAGGGMYVEVFNRGVIPLAYSI+K+NKAGE+NTYLDGIYLLFTYFTKPE
Sbjct: 118 LALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIKKKNKAGETNTYLDGIYLLFTYFTKPE 177

Query: 190 SIEALERTMKADDDVIRSSSFKVRKQK 216
           SIE LE T+  DDD+IRSSSFK+RK+K
Sbjct: 178 SIEMLEATLNTDDDIIRSSSFKIRKRK 204

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053759|ref|XP_002297965.1| predicted protein [Populus trichocarpa] gi|222845223|gb|EEE82770.1| predicted protein [Populus trichocarpa]

 Score =  275 bits (703), Expect = 9e-72,   Method: Compositional matrix adjust.
 Identities = 141/189 (74%), Positives = 162/189 (85%), Gaps = 6/189 (3%)

Query: 28  SSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSDDDPTS 87
           S PL SF+++LK F   +K  L+++ +SN  +  VKAQT+DF+GSF+EGG  GSDD+P S
Sbjct: 1   SLPLLSFSQTLKPFPNTSK--LVYRAHSNPTT-AVKAQTVDFAGSFYEGG-IGSDDEPGS 56

Query: 88  VPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMY 147
            P GS GT TA+E+KE P CPPGLRQYETM VLRPDMSEDERLALTQKYEELLVAGGGMY
Sbjct: 57  -PIGS-GTMTAVEEKETPPCPPGLRQYETMAVLRPDMSEDERLALTQKYEELLVAGGGMY 114

Query: 148 VEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRS 207
           VEVFNRGV+PLAYSI+K+NKAGESNTYLDGIYLLFTYFTKPESI  LE+T+  DDDVIRS
Sbjct: 115 VEVFNRGVVPLAYSIKKKNKAGESNTYLDGIYLLFTYFTKPESIGILEQTLNTDDDVIRS 174

Query: 208 SSFKVRKQK 216
           SSFKVRK+K
Sbjct: 175 SSFKVRKRK 183

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426247|ref|XP_002264340.1| PREDICTED: 30S ribosomal protein S6 alpha, chloroplastic [Vitis vinifera]

 Score =  269 bits (688), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 140/189 (74%), Positives = 157/189 (83%), Gaps = 11/189 (5%)

Query: 28  SSPLFSFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSDDDPTS 87
           S P+ SF     T  +  +  + H + +    L+++A TLDFSGSFFEGG FGSDDDP S
Sbjct: 21  SPPITSF-----TVFSGKQRFIYHPRRAPG--LSIRALTLDFSGSFFEGG-FGSDDDPNS 72

Query: 88  VPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMY 147
            PPG  G A A+EDK+EPQCPPGLRQYETM VLRPDMSEDERLALTQKYEELLVAGGGMY
Sbjct: 73  -PPGP-GIA-AVEDKDEPQCPPGLRQYETMAVLRPDMSEDERLALTQKYEELLVAGGGMY 129

Query: 148 VEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRS 207
           VEVFNRGVIPLAYSI+K+NKAGESNTYLDGIYLLFTYFTKPES+E LE T+ ADDDVIRS
Sbjct: 130 VEVFNRGVIPLAYSIKKKNKAGESNTYLDGIYLLFTYFTKPESMEVLEATLTADDDVIRS 189

Query: 208 SSFKVRKQK 216
           SSFK+RK+K
Sbjct: 190 SSFKIRKRK 198

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351720783|ref|NP_001236420.1| uncharacterized protein LOC100500072 [Glycine max] gi|255628961|gb|ACU14825.1| unknown [Glycine max]

 Score =  269 bits (687), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 149/220 (67%), Positives = 170/220 (77%), Gaps = 11/220 (5%)

Query: 1   MASSSLTSALTSQSKSPFYPQQLSQ----LPSSPLFSFARSLKTFRTNAKSLLLHKKNSN 56
           MASSSLTS   S S S   P   S+      SSP+ +F+R+ KT    ++    H K  N
Sbjct: 1   MASSSLTSVPLSSS-SLNIPHSSSKASASFVSSPIGAFSRTPKTLFAESR-FHFHPKR-N 57

Query: 57  SVSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYET 116
               +++AQTLDFS SFFEGG FGS+D P+S  PG  G  TA+E+KEEPQCPPGLRQYET
Sbjct: 58  DYGFSIRAQTLDFSDSFFEGG-FGSEDVPSS--PGGPG-FTAVEEKEEPQCPPGLRQYET 113

Query: 117 MMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLD 176
           MMVLRPDMSEDERLALTQKYEE+LVAGGGMYVEVFNRGVIPLAYSI+K+NKAGE+NTYLD
Sbjct: 114 MMVLRPDMSEDERLALTQKYEEVLVAGGGMYVEVFNRGVIPLAYSIKKKNKAGETNTYLD 173

Query: 177 GIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQK 216
           GIYLLFTYFTKPESI  LE TM  DD+VIRS S K+RK+K
Sbjct: 174 GIYLLFTYFTKPESITPLEETMLTDDNVIRSMSSKIRKRK 213

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388511881|gb|AFK44002.1| unknown [Lotus japonicus]

 Score =  266 bits (681), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 148/217 (68%), Positives = 169/217 (77%), Gaps = 10/217 (4%)

Query: 1   MASSSLTSA-LTSQSKSPFYPQQLSQLPSSPLFSFARSLKTFRTNAKSLLLHKKNSNSVS 59
           MAS+SL S  LTS S +   P   S  PS+   S  R+ K     +KS    KKN +SV 
Sbjct: 1   MASTSLNSIPLTSSSLN--IPHCYSIPPSTFFSSPIRAFKPLFAESKSHCYQKKN-DSV- 56

Query: 60  LTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMV 119
           L+VKAQTLDF+ SFFEGG  GS+DD  S   G     TA E+KEEPQCPPGLRQYETM V
Sbjct: 57  LSVKAQTLDFTDSFFEGG-LGSEDDLNSSGTG----LTATEEKEEPQCPPGLRQYETMAV 111

Query: 120 LRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIY 179
           LRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSI+K+NKAGE+NTYLDGIY
Sbjct: 112 LRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIKKKNKAGETNTYLDGIY 171

Query: 180 LLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQK 216
           LL+TYFTKPESI ALE T+ ADDDV+RS++FK++K+K
Sbjct: 172 LLYTYFTKPESIVALEETLLADDDVLRSTTFKIKKRK 208

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351727673|ref|NP_001236145.1| uncharacterized protein LOC100305490 [Glycine max] gi|255625673|gb|ACU13181.1| unknown [Glycine max]

 Score =  266 bits (679), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 135/184 (73%), Positives = 154/184 (83%), Gaps = 6/184 (3%)

Query: 33  SFARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGS 92
           +F+R+ KT    +KS    K+N +  S  ++AQTLDFS SFFEGG FGS+DDP+S  PG 
Sbjct: 36  AFSRTPKTLFAESKSHFYPKRNDHGFS--IRAQTLDFSDSFFEGG-FGSEDDPSS--PGG 90

Query: 93  VGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFN 152
            G  T +E+KEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEE+LVAGGGMYVEVFN
Sbjct: 91  PG-FTGVEEKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEEVLVAGGGMYVEVFN 149

Query: 153 RGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKV 212
           RGVIPLAYSI+K+NKAGE+NTYLDGIYLLFTYFTKPESI  LE TM  DD+VIRS S K+
Sbjct: 150 RGVIPLAYSIKKKNKAGETNTYLDGIYLLFTYFTKPESITPLEETMLTDDNVIRSMSSKI 209

Query: 213 RKQK 216
           RK+K
Sbjct: 210 RKRK 213

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449518755|ref|XP_004166401.1| PREDICTED: 30S ribosomal protein S6 alpha, chloroplastic-like [Cucumis sativus]

 Score =  245 bits (625), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 118/154 (76%), Positives = 139/154 (90%), Gaps = 3/154 (1%)

Query: 58  VSLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETM 117
           + L+VKAQTL+FSGSFFEGG  GS D+P + PPG+ G ATA+E+KEEPQCPPGLR+YE+M
Sbjct: 54  LGLSVKAQTLEFSGSFFEGG-LGSQDEPPA-PPGT-GFATALEEKEEPQCPPGLRKYESM 110

Query: 118 MVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDG 177
           +VLRPDMSEDERLA T+KYEELLVAGG MYVEVFN+G+IPLAYSI+K+NKAGE+NTYLDG
Sbjct: 111 VVLRPDMSEDERLAFTEKYEELLVAGGAMYVEVFNKGLIPLAYSIKKKNKAGETNTYLDG 170

Query: 178 IYLLFTYFTKPESIEALERTMKADDDVIRSSSFK 211
           I LLFTYFTKPES+  LE T++ADDDV+RS SFK
Sbjct: 171 INLLFTYFTKPESMAVLEATLQADDDVVRSMSFK 204

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	219
TAIR|locus:2019489	207	AT1G64510 [Arabidopsis thalian	0.817	0.864	0.653	2.5e-56
TIGR_CMR|CHY_0035	96	CHY_0035 "ribosomal protein S6	0.397	0.906	0.260	2.9e-07
TIGR_CMR|GSU_0665	117	GSU_0665 "ribosomal protein S6	0.438	0.820	0.285	4.8e-07
TIGR_CMR|BA_5723	96	BA_5723 "ribosomal protein S6"	0.397	0.906	0.260	4.3e-06
TIGR_CMR|CJE_1213	125	CJE_1213 "ribosomal protein S6	0.442	0.776	0.287	7e-06
TIGR_CMR|SPO_2281	117	SPO_2281 "ribosomal protein S6	0.410	0.769	0.292	2.4e-05
TIGR_CMR|DET_1046	109	DET_1046 "ribosomal protein S6	0.438	0.880	0.238	0.00089

TAIR|locus:2019489 AT1G64510 [Arabidopsis thaliana (taxid:3702)]

 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 119/182 (65%), Positives = 136/182 (74%)

Query:    35 ARSLKTFRTNAKSLLLHKKNSNSVSLTVKAQTLXXXXXXXXXXXXXXXXXPTSVPPGSVG 94
             + SL+ F + +K +    +  +     VK+Q L                 PTS P GS G
Sbjct:    27 SHSLRPFISKSKPMCASIQKRDGSQFVVKSQALDFSGTFFEGGFGSDDD-PTS-PSGS-G 83

Query:    95 TATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRG 154
              +TA+EDK EPQCPPGLRQYETM VLRPDMSEDERL LTQKYEELLVAGGGMYVEVFNRG
Sbjct:    84 VSTALEDKPEPQCPPGLRQYETMAVLRPDMSEDERLGLTQKYEELLVAGGGMYVEVFNRG 143

Query:   155 VIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRK 214
             VIPLAYSIRK+NKAGE+NTYLDGIYLLFTYFTKPESI  LE  + ADDD+IRSSSFK++K
Sbjct:   144 VIPLAYSIRKKNKAGETNTYLDGIYLLFTYFTKPESIVPLETVLTADDDIIRSSSFKIKK 203

Query:   215 QK 216
             +K
Sbjct:   204 RK 205

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

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0019843 "rRNA binding" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009579 "thylakoid" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

TIGR_CMR|CHY_0035 CHY_0035 "ribosomal protein S6" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 117 (46.2 bits), Expect = 2.9e-07, P = 2.9e-07
 Identities = 25/96 (26%), Positives = 51/96 (53%)

Query:   111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
             LRQYE M +L P++  ++  ++ ++++ ++   GG   ++   G    AY I+K      
Sbjct:     2 LRQYEVMYILHPELDAEKTESIIERFKGMIEQEGGEVTKIDRWGKRRFAYEIKKLR---- 57

Query:   171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIR 206
                  +G Y++  +  K E+ + L+R ++  DDV+R
Sbjct:    58 -----EGYYVVMNFKAKAETAQELDRLLRISDDVVR 88

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_0665 GSU_0665 "ribosomal protein S6" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 30/105 (28%), Positives = 55/105 (52%)

Query:   111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
             +R YET+++++P++ +DE   LT K  +++ +  G+   + + GV  LAY ++K  +   
Sbjct:     2 VRMYETIVIVQPELGDDELKGLTAKVTDIIGSFKGVLHRLEDWGVRKLAYPVKKSVR--- 58

Query:   171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQ 215
                   G Y    +      I  LER ++ DD V+R  S K+ K+
Sbjct:    59 ------GRYYYVRFDGDAPLIAELERRLRLDDKVLRYQSVKLEKE 97

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|BA_5723 BA_5723 "ribosomal protein S6" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 106 (42.4 bits), Expect = 4.3e-06, P = 4.3e-06
 Identities = 25/96 (26%), Positives = 46/96 (47%)

Query:   111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
             +R+YE M ++RP + E+ + AL +++  +L   G   +     G   LAY I        
Sbjct:     1 MRKYEIMYIIRPGVEEEAQKALVERFAGVLTNNGAEIINTKEWGKRRLAYEI-------- 52

Query:   171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIR 206
              N   +G Y++       E+I   +R  K ++D++R
Sbjct:    53 -NDLREGFYMILNVNANAEAINEFDRLAKINEDILR 87

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CJE_1213 CJE_1213 "ribosomal protein S6" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 104 (41.7 bits), Expect = 7.0e-06, P = 7.0e-06
 Identities = 31/108 (28%), Positives = 52/108 (48%)

Query:   111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
             ++ YE + +L+P ++E+E  A  +  +E+L         V   G   LAY I+K      
Sbjct:     1 MKHYEVLFILKPTLTEEEVNAKLEFVKEVLTKNSAEIETVVPMGTRKLAYKIKK------ 54

Query:   171 SNTYLDGIYLLFTYFTKPESIEA-LERTMKADDDVIRSSSFKVRKQKQ 217
                Y  G Y +  YF  P ++ A LER ++  ++VIR    K   +K+
Sbjct:    55 ---YERGTYFVI-YFKAPTNLIAELERVLRITEEVIRFLIVKYENKKE 98

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

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|SPO_2281 SPO_2281 "ribosomal protein S6" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 99 (39.9 bits), Expect = 2.4e-05, P = 2.4e-05
 Identities = 29/99 (29%), Positives = 45/99 (45%)

Query:   114 YETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNT 173
             YE +M+ R D+S  +   L + +  +L   GG  V+    GV  +AY I K  K      
Sbjct:     4 YEHVMIARQDLSNTQAEGLIEHFGAVLSDNGGSLVDHEYWGVKTMAYKINKNRK------ 57

Query:   174 YLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKV 212
                G Y          +++ +ER M+  DDV+R  + KV
Sbjct:    58 ---GHYAFLRTDAPASAVQEMERLMRLHDDVMRVLTIKV 93

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|DET_1046 DET_1046 "ribosomal protein S6" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 86 (35.3 bits), Expect = 0.00089, P = 0.00089
 Identities = 25/105 (23%), Positives = 48/105 (45%)

Query:   111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
             LR YE +++L  D  +++  A+ +   + +    G + EV + G   LAY I +      
Sbjct:    14 LRDYELVVILTTDTPKEKVEAILEGISKTIAEKDGSFTEVNHWGKRKLAYLIGR------ 67

Query:   171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQ 215
                Y +G Y+      KP SI  +   ++  + VIR  +  + ++
Sbjct:    68 ---YGEGYYVFIKMKAKPSSIRKINADLRISEQVIRHMAINMDEE 109


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        0.314   0.130   0.356    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      219       169   0.00082  108 3  11 23  0.44    32
                                                     31  0.47    34


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:  7
  No. of states in DFA:  549 (58 KB)
  Total size of DFA:  122 KB (2079 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:  15.98u 0.18s 16.16t   Elapsed:  00:00:01
  Total cpu time:  15.98u 0.18s 16.16t   Elapsed:  00:00:01
  Start:  Sat May 11 07:37:18 2013   End:  Sat May 11 07:37:19 2013

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

GO:0006412 "translation" evidence=ISS

GO:0015935 "small ribosomal subunit" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8VY91	RR6_ARATH	No assigned EC number	0.7113	0.8721	0.9227	yes	no
P82403	RR6_SPIOL	No assigned EC number	0.7677	0.6894	0.8988	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh2_kg.2__26__AT1G64510.1	annotation not avaliable (211 aa)
		(Arabidopsis lyrata)
Predicted Functional Partners:
	fgenesh2_kg.4__1881__AT2G38140.1	annotation not avaliable (114 aa)				•			•		0.712
	fgenesh2_kg.2__2411__AT1G79850.1	annotation not avaliable (148 aa)				•			•		0.563
	fgenesh2_kg.5__880__AT3G44890.1	annotation not avaliable (197 aa)	•			•			•		0.553
	fgenesh2_kg.4__326__AT2G24090.1	annotation not avaliable (140 aa)				•			•		0.503
	scaffold_202477.1	annotation not avaliable (145 aa)				•			•		0.484
	fgenesh2_kg.1__3067__AT1G29070.1	annotation not avaliable (159 aa)				•					0.478
	scaffold_301763.1	annotation not avaliable (197 aa)				•					0.470
	fgenesh2_kg.6__1467__AT5G14910.1	annotation not avaliable (178 aa)				•					0.468
	fgenesh2_kg.7__1761__AT4G25080.3	annotation not avaliable (312 aa)				•					0.461
	fgenesh2_kg.4__2681__AT2G44920.2	annotation not avaliable (226 aa)				•					0.461

---

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	219
pfam01250	92	pfam01250, Ribosomal_S6, Ribosomal protein S6	8e-30
PRK00453	108	PRK00453, rpsF, 30S ribosomal protein S6; Reviewed	5e-22
COG0360	112	COG0360, RpsF, Ribosomal protein S6 [Translation,	2e-19
CHL00123	97	CHL00123, rps6, ribosomal protein S6; Validated	4e-17
TIGR00166	93	TIGR00166, S6, ribosomal protein S6	5e-12

>gnl|CDD|216388 pfam01250, Ribosomal_S6, Ribosomal protein S6

 Score =  105 bits (265), Expect = 8e-30
 Identities = 40/101 (39%), Positives = 64/101 (63%), Gaps = 9/101 (8%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R+YETM +LRPD+SE+E  AL +KY++L+   GG  V+V + G   LAY I+K+ +    
Sbjct: 1   RKYETMFILRPDLSEEEVKALIEKYKKLIEENGGEVVKVEDWGKRKLAYPIKKKRE---- 56

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKV 212
                G Y+L  +  +PE+I  LER ++ ++DV+R  + K+
Sbjct: 57  -----GYYVLINFEAEPEAIAELERRLRINEDVLRFLTVKL 92

Length = 92

>gnl|CDD|179034 PRK00453, rpsF, 30S ribosomal protein S6; Reviewed

 Score = 86.4 bits (215), Expect = 5e-22
 Identities = 34/105 (32%), Positives = 58/105 (55%), Gaps = 9/105 (8%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R+YE + +LRPD+SE++  AL ++++ ++   GG   +V + G   LAY I K  K    
Sbjct: 2   RKYEIVFILRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRRRLAYPINKLRK---- 57

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQK 216
                G Y+L  +   P +I  LER  + ++DV+R  + KV + +
Sbjct: 58  -----GHYVLLNFEAPPAAIAELERLFRINEDVLRFLTVKVEEAE 97

Length = 108

>gnl|CDD|223437 COG0360, RpsF, Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]

 Score = 80.0 bits (198), Expect = 2e-19
 Identities = 37/107 (34%), Positives = 62/107 (57%), Gaps = 9/107 (8%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R+YE + ++RPD+SE++  AL +KY+ +L   GG   +V + G   LAY I+K  +    
Sbjct: 1   RKYEIVFIVRPDLSEEQVAALVEKYKGVLTNNGGEIHKVEDWGKRRLAYPIKKLRE---- 56

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQK 218
                G Y+L  +  +P +I  LER ++ ++DV+R    KV K K++
Sbjct: 57  -----GHYVLMNFEAEPAAIAELERLLRINEDVLRHLIIKVEKAKEE 98

Length = 112

>gnl|CDD|177046 CHL00123, rps6, ribosomal protein S6; Validated

 Score = 73.1 bits (180), Expect = 4e-17
 Identities = 37/102 (36%), Positives = 58/102 (56%), Gaps = 9/102 (8%)

Query: 111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
           L +YETM +L+PD++E+E L   + Y++LL   G   + V NRG   L+Y I K      
Sbjct: 5   LNKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINK------ 58

Query: 171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKV 212
              Y DGIY+   Y    + + +LE+ +K D++V+R  +FK 
Sbjct: 59  ---YEDGIYIQMNYSGNGKLVNSLEKALKLDENVLRYLTFKK 97

Length = 97

>gnl|CDD|129270 TIGR00166, S6, ribosomal protein S6

 Score = 59.7 bits (145), Expect = 5e-12
 Identities = 30/101 (29%), Positives = 51/101 (50%), Gaps = 10/101 (9%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R YE + ++RP +SE E     ++Y++++   G   V   + G   LAY I+K       
Sbjct: 1   RHYEIIFLVRPTLSE-EVKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKK------- 52

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKV 212
              L   Y+L  +  + + I+  ERT + +D+VIRS   K+
Sbjct: 53  --QLRAHYVLMNFSGEAQVIKEFERTARINDNVIRSLIIKL 91

The ribosomal protein S6 ortholog family, including yeast MRP17, shows more than two-fold length variation from 95 residues in Bacillus subtilis to 215 in Mycoplasma pneumoniae. This length variation comes primarily from poorly conserved C-terminal extensions that are particularly long in the Mycoplasmas. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6 [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 93

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	219
CHL00123	97	rps6 ribosomal protein S6; Validated	99.97
PRK00453	108	rpsF 30S ribosomal protein S6; Reviewed	99.97
TIGR00166	93	S6 ribosomal protein S6. MRP17 protein is a compon	99.96
COG0360	112	RpsF Ribosomal protein S6 [Translation, ribosomal	99.96
PF01250	92	Ribosomal_S6: Ribosomal protein S6; InterPro: IPR0	99.96
KOG4708	141	consensus Mitochondrial ribosomal protein MRP17 [T	99.8
PRK14074	257	rpsF 30S ribosomal protein S6; Provisional	99.79
PRK14074	257	rpsF 30S ribosomal protein S6; Provisional	97.83

>CHL00123 rps6 ribosomal protein S6; Validated

Probab=99.97  E-value=4.7e-31  Score=203.73  Aligned_cols=94  Identities=38%  Similarity=0.677  Sum_probs=91.8

Q ss_pred             CCCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcCh
Q 027743          109 PGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKP  188 (219)
Q Consensus       109 ~~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P  188 (219)
                      .+|+.||+|+|++|++++++++++++++.++|.++||+|.++++||.|+|||||+|+.         +|+|++++|.++|
T Consensus         3 ~~mr~YE~~~Il~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~---------~G~Yv~~~f~~~~   73 (97)
T CHL00123          3 SKLNKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYE---------DGIYIQMNYSGNG   73 (97)
T ss_pred             CcccceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCC---------EEEEEEEEEEECH
Confidence            5799999999999999999999999999999999999999999999999999999987         6999999999999


Q ss_pred             hhHHHHHHHhCCCCCeeEEEeEe
Q 027743          189 ESIEALERTMKADDDVIRSSSFK  211 (219)
Q Consensus       189 ~aIkELEr~Lrlde~VLR~liVK  211 (219)
                      +++++|++.||+||+||||+++|
T Consensus        74 ~~i~eler~lri~e~VlR~m~vk   96 (97)
T CHL00123         74 KLVNSLEKALKLDENVLRYLTFK   96 (97)
T ss_pred             HHHHHHHHHhCCCCCeEEEEEEe
Confidence            99999999999999999999997

>PRK00453 rpsF 30S ribosomal protein S6; Reviewed

Probab=99.97  E-value=4.7e-30  Score=199.90  Aligned_cols=96  Identities=34%  Similarity=0.641  Sum_probs=93.6

Q ss_pred             CCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhh
Q 027743          111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPES  190 (219)
Q Consensus       111 Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~a  190 (219)
                      |++||+|+|++|++++++++++++++.++|.++||+|+++++||+|+|||+|+|+.         +|+|++|+|+++|++
T Consensus         1 M~~YE~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~i~~~~~~G~r~LAY~I~k~~---------~G~Y~~~~f~~~~~~   71 (108)
T PRK00453          1 MRKYEIVFILRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRRRLAYPINKLR---------KGHYVLLNFEAPPAA   71 (108)
T ss_pred             CCceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEecccccccceEcCCCc---------EEEEEEEEEEeCHHH
Confidence            89999999999999999999999999999999999999999999999999999987         699999999999999


Q ss_pred             HHHHHHHhCCCCCeeEEEeEeeccc
Q 027743          191 IEALERTMKADDDVIRSSSFKVRKQ  215 (219)
Q Consensus       191 IkELEr~Lrlde~VLR~liVKv~k~  215 (219)
                      +++|++.|++|++||||+++|+++.
T Consensus        72 i~el~~~l~~~~~VlR~~~vk~~~~   96 (108)
T PRK00453         72 IAELERLFRINEDVLRFLTVKVEEA   96 (108)
T ss_pred             HHHHHHHhCCCCCeEEEEEEEeccc
Confidence            9999999999999999999998864

>TIGR00166 S6 ribosomal protein S6

Probab=99.96  E-value=2.4e-29  Score=191.26  Aligned_cols=92  Identities=30%  Similarity=0.549  Sum_probs=89.0

Q ss_pred             CcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhhH
Q 027743          112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESI  191 (219)
Q Consensus       112 r~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~aI  191 (219)
                      +.||+|+|++|+++++ ++++++++.++|.++||+|+++++||.|+|||+|+|+.         +|+|++|+|+++|+++
T Consensus         1 ~~YE~~~Il~p~~~~~-~~~~~~~~~~~i~~~gg~i~~~~~~G~r~LaY~I~k~~---------~G~Y~~~~f~~~~~~i   70 (93)
T TIGR00166         1 RHYEIIFLVRPTLSEE-VKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKQL---------RAHYVLMNFSGEAQVI   70 (93)
T ss_pred             CceeEEEEECCCCcHH-HHHHHHHHHHHHHhCCCEEEEEEeecceecceEcCCCc---------eEEEEEEEEEeCHHHH
Confidence            5799999999999998 99999999999999999999999999999999999987         6999999999999999


Q ss_pred             HHHHHHhCCCCCeeEEEeEeec
Q 027743          192 EALERTMKADDDVIRSSSFKVR  213 (219)
Q Consensus       192 kELEr~Lrlde~VLR~liVKv~  213 (219)
                      ++|++.||+|++|||||++|++
T Consensus        71 ~el~~~lr~~~~VlR~~~vk~~   92 (93)
T TIGR00166        71 KEFERTARINDNVIRSLIIKLE   92 (93)
T ss_pred             HHHHHHhcCCcCeEEEEEEEec
Confidence            9999999999999999999975

MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6.

>COG0360 RpsF Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=1.9e-29  Score=200.66  Aligned_cols=96  Identities=39%  Similarity=0.681  Sum_probs=92.7

Q ss_pred             CcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhhH
Q 027743          112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESI  191 (219)
Q Consensus       112 r~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~aI  191 (219)
                      +.||+|+|++|++++++++++++++..+|+++||+|.++++||.|+|||+|+|++         +|||++|+|+|+|+++
T Consensus         1 ~~YEi~~iv~p~~see~~~~~ve~~~~~l~~~gg~i~~~e~wG~R~LAY~IkK~~---------~g~Y~l~~f~~~~~~i   71 (112)
T COG0360           1 RKYEIVFIVRPDLSEEQVAALVEKYKGVLTNNGGEIHKVEDWGKRRLAYPIKKLR---------EGHYVLMNFEAEPAAI   71 (112)
T ss_pred             CceEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEehhhhhhhhcceecccc---------eEEEEEEEEEcCHHHH
Confidence            4699999999999999999999999999999999999999999999999999998         6999999999999999


Q ss_pred             HHHHHHhCCCCCeeEEEeEeecccc
Q 027743          192 EALERTMKADDDVIRSSSFKVRKQK  216 (219)
Q Consensus       192 kELEr~Lrlde~VLR~liVKv~k~k  216 (219)
                      +||++.+|+|++|||||++|+++.+
T Consensus        72 ~Eler~~rin~~VlR~liik~~~~~   96 (112)
T COG0360          72 AELERLLRINEDVLRHLIIKVEKAK   96 (112)
T ss_pred             HHHHHHhccchhhheeeEEEechhh
Confidence            9999999999999999999998754

>PF01250 Ribosomal_S6: Ribosomal protein S6; InterPro: IPR000529 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.96  E-value=5.3e-29  Score=187.77  Aligned_cols=92  Identities=39%  Similarity=0.690  Sum_probs=88.1

Q ss_pred             CcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhhH
Q 027743          112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESI  191 (219)
Q Consensus       112 r~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~aI  191 (219)
                      |.||+|+|++|++++++++++++++.++|.++||+|+++++||.|+|||+|+|+.         +|+|++++|+++|+++
T Consensus         1 r~YE~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~v~~~~~~G~r~LaY~i~k~~---------~G~Y~~~~f~~~~~~i   71 (92)
T PF01250_consen    1 RKYELMFILRPDLSEEEIKKLIERVKKIIEKNGGVVRSVENWGKRRLAYPIKKQK---------EGHYFLFNFDASPSAI   71 (92)
T ss_dssp             EEEEEEEEE-TTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEEESSEETTEC---------EEEEEEEEEEESTTHH
T ss_pred             CceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEEeecccccCCCCCC---------EEEEEEEEEEeCHHHH
Confidence            5799999999999999999999999999999999999999999999999999986         7999999999999999


Q ss_pred             HHHHHHhCCCCCeeEEEeEee
Q 027743          192 EALERTMKADDDVIRSSSFKV  212 (219)
Q Consensus       192 kELEr~Lrlde~VLR~liVKv  212 (219)
                      ++|++.|++|++||||+++|.
T Consensus        72 ~el~~~l~~~~~VlR~~~vK~   92 (92)
T PF01250_consen   72 KELERKLRLDEDVLRYLIVKK   92 (92)
T ss_dssp             HHHHHHHHTSTTEEEEEEEE-
T ss_pred             HHHHHHhcCCCCeEEEEEEeC
Confidence            999999999999999999984

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S6 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S6 is known to bind together with S18 to 16S ribosomal RNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups bacterial, red algal chloroplast and cyanelle S6 ribosomal proteins.; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 3BBN_F 3R3T_B 3F1E_F 2QNH_g 2OW8_g 3PYQ_F 3PYS_F 3PYU_F 3MR8_F 3PYN_F ....

>KOG4708 consensus Mitochondrial ribosomal protein MRP17 [Translation, ribosomal structure and biogenesis]

Probab=99.80  E-value=1.4e-20  Score=154.66  Aligned_cols=101  Identities=26%  Similarity=0.353  Sum_probs=91.4

Q ss_pred             CCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChh
Q 027743          110 GLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPE  189 (219)
Q Consensus       110 ~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~  189 (219)
                      -|++||+++|+++....+ ...++.+..+.+...||+|++++++|.|.|+|+|+|++     +.|++|+||+|.|+++|+
T Consensus         2 lmp~yelali~~~~~rpe-la~~l~rt~~~lid~ngVvrdveslG~r~Lpy~i~K~~-----~~h~~g~~f~m~f~ss~~   75 (141)
T KOG4708|consen    2 LMPLYELALITRSLSRPE-LAKLLARTGGHLIDRNGVVRDVESLGKRELPYKIKKLD-----QRHYRGQHFLMTFYSSPA   75 (141)
T ss_pred             cchHHHHHHHhcccCCHH-HHHHHHHHhhHHhhcCCeEeechhcchhhhcchHHHhc-----CccccceEEEEeecCCHH
Confidence            499999999999977776 66666666666677779999999999999999999998     689999999999999999


Q ss_pred             hHHHHHHHhCCCCCeeEEEeEeecccc
Q 027743          190 SIEALERTMKADDDVIRSSSFKVRKQK  216 (219)
Q Consensus       190 aIkELEr~Lrlde~VLR~liVKv~k~k  216 (219)
                      +..||.+.|+.|.+||||++||+++.|
T Consensus        76 v~~ei~~~l~~D~dviR~~IVKv~~~~  102 (141)
T KOG4708|consen   76 VQSEIKRILKRDPDVIRWLIVKVDDIK  102 (141)
T ss_pred             HHHHHHHHHhcChhhHHhhheeccccc
Confidence            999999999999999999999999864

>PRK14074 rpsF 30S ribosomal protein S6; Provisional

Probab=99.79  E-value=3e-19  Score=158.01  Aligned_cols=79  Identities=22%  Similarity=0.357  Sum_probs=73.8

Q ss_pred             CHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhhHHHHHHHhCCCCCe
Q 027743          125 SEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDV  204 (219)
Q Consensus       125 seeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~aIkELEr~Lrlde~V  204 (219)
                      .+++++++++++.++|+++|  ++++++||+|+|||||+|.+         +|+|++++|.++|++++||||.+|+||+|
T Consensus       161 ~PDQveevvEkik~iIe~~G--iikvE~WGkRkLAYpIkK~~---------eGyYvL~nFeAep~aIaELER~lRInE~V  229 (257)
T PRK14074        161 GPNQSNKTLEMLLKNIEASG--LIKYEYWGLLDFAYPINKMK---------SGHYCIMCISSTSSIMDEFVRRMKLNENI  229 (257)
T ss_pred             CHHHHHHHHHHHHHHHHhcC--eeehHhhcchhhccccCCCC---------eEEEEEEEEEcCHHHHHHHHHHhcCccce
Confidence            34588889999999999995  57999999999999999987         69999999999999999999999999999


Q ss_pred             eEEEeEeecc
Q 027743          205 IRSSSFKVRK  214 (219)
Q Consensus       205 LR~liVKv~k  214 (219)
                      ||||++|+++
T Consensus       230 IRfLtVKlDe  239 (257)
T PRK14074        230 IRHLSVQVDK  239 (257)
T ss_pred             eeEEEEeecc
Confidence            9999999886

>PRK14074 rpsF 30S ribosomal protein S6; Provisional

Probab=97.83  E-value=1.7e-05  Score=71.13  Aligned_cols=47  Identities=15%  Similarity=0.174  Sum_probs=45.8

Q ss_pred             CCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccc
Q 027743          111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIP  157 (219)
Q Consensus       111 Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~Rk  157 (219)
                      |++||.+||.+++++..+++.+++.+..+|.++||.|...+.||.+.
T Consensus         1 m~lYE~~fIa~q~ls~~q~e~l~e~~~~~l~~~~~~v~~~e~wG~~~   47 (257)
T PRK14074          1 MNLYEFTFIAQQGLLQQEVEEMVQELAVLLKNIKADVMFQQIKGILE   47 (257)
T ss_pred             CCccceeeeecccccHHHHHHHHHHHHHHHHhcCCeeehhhhhhhhh
Confidence            89999999999999999999999999999999999999999999875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	219
3bbn_F	168	Homology Model For The Spinach Chloroplast 30s Subu		1e-56
2j5a_A	110	Folding Of S6 Structures With Divergent Amino-Acid		7e-05
3r3t_A	99	Crystal Structure Of 30s Ribosomal Protein S From B		2e-04

>pdb|3BBN|F Chain F, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 168

Iteration: 1
 Score =  216 bits (549), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 100/128 (78%), Positives = 111/128 (86%)
Query: 89  PPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYV 148
           PP +     A+E+K EPQCPPGLRQYETM VLRPDM+EDERL LTQKYEELLVAGG MYV
Sbjct: 40  PPSTPPAGLAVEEKPEPQCPPGLRQYETMAVLRPDMTEDERLTLTQKYEELLVAGGAMYV 99
Query: 149 EVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSS 208
           EVFNRGVIPLAYSI+++NKAGE+N YLDGIYLLFTYFTKPESI  LE  +  DDDVIRSS
Sbjct: 100 EVFNRGVIPLAYSIKRKNKAGETNNYLDGIYLLFTYFTKPESISPLEAALVTDDDVIRSS 159
Query: 209 SFKVRKQK 216
           SFK+RK+K
Sbjct: 160 SFKIRKRK 167

>pdb|2J5A|A Chain A, Folding Of S6 Structures With Divergent Amino-Acid Composition: Pathway Flexibility Within Partly Overlapping Foldons Length = 110

Iteration: 1
 Score = 43.9 bits (102), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 31/104 (29%), Positives = 54/104 (51%), Gaps = 10/104 (9%)
Query: 111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
           LR YET+  ++P +SE+E     ++ +E +   GG  +   + G+  LAY I+K N A  
Sbjct: 7   LRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFNNAR- 65
Query: 171 SNTYLDGIYLLFTYFTK-PESIEALERTMKADDDVIRSSSFKVR 213
                   Y L  + T+ P+    L+  +K D+DVIR  + +++
Sbjct: 66  --------YFLVQFKTENPQLPNELDFQLKIDEDVIRWLNIQIK 101

>pdb|3R3T|A Chain A, Crystal Structure Of 30s Ribosomal Protein S From Bacillus Anthracis Length = 99

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/100 (25%), Positives = 44/100 (44%), Gaps = 9/100 (9%)
Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R+YE   ++RP + E+ + AL +++  +L   G   +     G   LAY I         
Sbjct: 5   RKYEIXYIIRPGVEEEAQKALVERFAGVLTNNGAEIINTKEWGKRRLAYEI--------- 55
Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFK 211
           N   +G Y +       E+I   +R  K ++D++R    K
Sbjct: 56  NDLREGFYXILNVNANAEAINEFDRLAKINEDILRHIVVK 95

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	219
3bbn_F	168	Ribosomal protein S6; small ribosomal subunit, spi	1e-52
3r3t_A	99	30S ribosomal protein S6; structural genomics, cen	2e-23
1cqm_A	101	Ribosomal protein S6; alzheimer disease, oligomeri	1e-22
2j5a_A	110	30S ribosomal protein S6; ribonucleoprotein, RIBO	1e-21
1vmb_A	140	30S ribosomal protein S6; TM0603, structural genom	5e-21
3r8n_F	100	30S ribosomal protein S6; protein biosynthesis, RN	2e-20
3i1m_F	135	30S ribosomal protein S6; ribosome structure, prot	7e-20
2kjw_A	96	TS9, 30S ribosomal protein S6; S6 permutant, solut	6e-08

>3bbn_F Ribosomal protein S6; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 168

 Score =  166 bits (422), Expect = 1e-52
 Identities = 119/158 (75%), Positives = 131/158 (82%), Gaps = 4/158 (2%)

Query: 59  SLTVKAQTLDFSGSFFEGGGFGSDDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMM 118
              VKA  LDFSGSFFEGG  G D+DP S PP  +    A+E+K EPQCPPGLRQYETM 
Sbjct: 14  GPYVKAIALDFSGSFFEGGFGGLDEDPPSTPPAGL----AVEEKPEPQCPPGLRQYETMA 69

Query: 119 VLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGI 178
           VLRPDM+EDERL LTQKYEELLVAGG MYVEVFNRGVIPLAYSI+++NKAGE+N YLDGI
Sbjct: 70  VLRPDMTEDERLTLTQKYEELLVAGGAMYVEVFNRGVIPLAYSIKRKNKAGETNNYLDGI 129

Query: 179 YLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQK 216
           YLLFTYFTKPESI  LE  +  DDDVIRSSSFK+RK+K
Sbjct: 130 YLLFTYFTKPESISPLEAALVTDDDVIRSSSFKIRKRK 167

>3r3t_A 30S ribosomal protein S6; structural genomics, center for structural genomics of infec diseases, csgid, beta-barrel, cytosol; 2.30A {Bacillus anthracis} Length = 99

 Score = 89.2 bits (222), Expect = 2e-23
 Identities = 27/107 (25%), Positives = 50/107 (46%), Gaps = 12/107 (11%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R+YE M ++RP + E+ + AL +++  +L   G   +     G   LAY I    +    
Sbjct: 5   RKYEIMYIIRPGVEEEAQKALVERFAGVLTNNGAEIINTKEWGKRRLAYEINDLRE---- 60

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQK 218
                G Y++       E+I   +R  K ++D++R     V K+++K
Sbjct: 61  -----GFYMILNVNANAEAINEFDRLAKINEDILR---HIVVKEEEK 99

>1cqm_A Ribosomal protein S6; alzheimer disease, oligomerization; 1.65A {Thermus thermophilus} SCOP: d.58.14.1 PDB: 1cqn_A 1qjh_A 1ris_A 1fka_F 1gix_I* 1hnw_F* 1hnx_F* 1hnz_F* 1hr0_F 1i94_F* 1i95_F* 1i96_F* 1i97_F* 1ibk_F* 1ibl_F* 1ibm_F 1j5e_F 1jgo_I* 1jgp_I* 1jgq_I* ... Length = 101

 Score = 87.3 bits (217), Expect = 1e-22
 Identities = 23/103 (22%), Positives = 43/103 (41%), Gaps = 9/103 (8%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R+YE  +VL P++ + +     +  +  L   G    +V   G+  LAY I K  +    
Sbjct: 2   RRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVAILGLRRLAYPIAKDPQ---- 57

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRK 214
                G +L +      + +  L R ++  D+V R    K ++
Sbjct: 58  -----GYFLWYQVEMPEDRVNDLARELRIRDNVRRVMVVKSQE 95

>2j5a_A 30S ribosomal protein S6; ribonucleoprotein, RIBO protein S6, RNA-binding, rRNA-binding, protein folding; 2.3A {Aquifex aeolicus} SCOP: d.58.14.1 Length = 110

 Score = 84.6 bits (210), Expect = 1e-21
 Identities = 30/108 (27%), Positives = 55/108 (50%), Gaps = 10/108 (9%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R YET+  ++P +SE+E     ++ +E +   GG  +   + G+  LAY I+K N     
Sbjct: 8   RYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFNN---- 63

Query: 172 NTYLDGIYLLFTYFTK-PESIEALERTMKADDDVIRSSSFKVRKQKQK 218
                  Y L  + T+ P+    L+  +K D+DVIR  + ++++ + K
Sbjct: 64  -----ARYFLVQFKTENPQLPNELDFQLKIDEDVIRWLNIQIKESEVK 106

>1vmb_A 30S ribosomal protein S6; TM0603, structural genomics, JCSG, structure initiative, PSI, joint center for structural GENO translation; 1.70A {Thermotoga maritima} SCOP: d.58.14.1 Length = 140

 Score = 84.0 bits (208), Expect = 5e-21
 Identities = 25/108 (23%), Positives = 54/108 (50%), Gaps = 10/108 (9%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVA-GGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
           R YE+M ++ P++ E+ER  L ++ ++++     G   +V   G+   AY I+K N+   
Sbjct: 19  RIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKKFNE--- 75

Query: 171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQK 218
                 G Y +  +    ++++ LE   +   ++IR  +F+    ++K
Sbjct: 76  ------GDYTVIYFRCDGQNLQELENFYRVTPEIIRWQTFRRFDLEKK 117

>3i1m_F 30S ribosomal protein S6; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1p6g_F 1p87_F* 1vs7_F* 2avy_F 2aw7_F 1vs5_F 2i2u_F 2i2p_F* 2qan_F* 2qb9_F* 2qbb_F* 2qbd_F 2qbf_F 2qbh_F* 2qbj_F* 2qou_F* 2qow_F* 2qoy_F* 2qp0_F* 2vho_F ... Length = 135

 Score = 80.9 bits (200), Expect = 7e-20
 Identities = 28/103 (27%), Positives = 45/103 (43%), Gaps = 10/103 (9%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R YE + ++ PD SE +   + ++Y   +    G    + + G   LAY I K +K    
Sbjct: 2   RHYEIVFMVHPDQSE-QVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLHK---- 56

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRK 214
                  Y+L       E I+ LE T + +D VIRS   + + 
Sbjct: 57  -----AHYVLMNVEAPQEVIDELETTFRFNDAVIRSMVMRTKH 94

>2kjw_A TS9, 30S ribosomal protein S6; S6 permutant, solution structure, backbone dynamics, folding, ribonucleoprotein, RNA-binding, rRNA-binding; NMR {Thermus thermophilus} Length = 96

 Score = 48.0 bits (114), Expect = 6e-08
 Identities = 14/53 (26%), Positives = 24/53 (45%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRK 164
            +YE  +VL P++ + +     +  +  L   G    +V   G+  LAY I K
Sbjct: 44  GRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAYPIAK 96

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	219
3bbn_F	168	Ribosomal protein S6; small ribosomal subunit, spi	100.0
1cqm_A	101	Ribosomal protein S6; alzheimer disease, oligomeri	99.98
2j5a_A	110	30S ribosomal protein S6; ribonucleoprotein, RIBO	99.97
1vmb_A	140	30S ribosomal protein S6; TM0603, structural genom	99.97
3r3t_A	99	30S ribosomal protein S6; structural genomics, cen	99.97
3r8n_F	100	30S ribosomal protein S6; protein biosynthesis, RN	99.97
3i1m_F	135	30S ribosomal protein S6; ribosome structure, prot	99.96
2kjw_A	96	TS9, 30S ribosomal protein S6; S6 permutant, solut	99.66
3zzp_A	77	TS9, ribosomal protein S6; protein folding, RNA-bi	99.11
2kjw_A	96	TS9, 30S ribosomal protein S6; S6 permutant, solut	98.82
3zzp_A	77	TS9, ribosomal protein S6; protein folding, RNA-bi	98.25

>3bbn_F Ribosomal protein S6; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=7.3e-54  Score=359.62  Aligned_cols=154  Identities=78%  Similarity=1.246  Sum_probs=105.4

Q ss_pred             eeeEeeeeecccccccccCCCCC-CCCCCCCCCCCCCcccccccCCCCCCCCCCCcccEEEEeCCCCCHHHHHHHHHHHH
Q 027743           59 SLTVKAQTLDFSGSFFEGGGFGS-DDDPTSVPPGSVGTATAIEDKEEPQCPPGLRQYETMMVLRPDMSEDERLALTQKYE  137 (219)
Q Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~e~~~~~~Mr~YElm~ILrP~lseeei~~lik~l~  137 (219)
                      +++||+|+|||+|+|||| |||+ ||||+|++ | +|  +|++++|++|||++||+||+|+|++|++++++++++++++.
T Consensus        14 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~-~-~~--~~~~~~~~~~~~~~Mr~YE~m~IlrPdl~eeev~alver~~   88 (168)
T 3bbn_F           14 GPYVKAIALDFSGSFFEG-GFGGLDEDPPSTP-P-AG--LAVEEKPEPQCPPGLRQYETMAVLRPDMTEDERLTLTQKYE   88 (168)
T ss_dssp             -----------------------------------------------------CEEEEEEEEECTTSCHHHHHSTTHHHH
T ss_pred             cceeeeeeeccccceeec-cCCCcccCCCCCC-C-CC--ccccccccccCCCCCCceeEEEEECCCCCHHHHHHHHHHHH
Confidence            899999999999999999 8999 99999986 7 67  99999999999999999999999999999999999999999


Q ss_pred             HHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhhHHHHHHHhCCCCCeeEEEeEeeccccC
Q 027743          138 ELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQ  217 (219)
Q Consensus       138 ~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~aIkELEr~Lrlde~VLR~liVKv~k~k~  217 (219)
                      ++|+++||+|+++++||+|+|||+|+|++|||.+++|++|+|++|+|+++|++++||++.||+|++||||+++|+++.||
T Consensus        89 ~iI~~~GG~I~~ve~WG~RrLAY~IkK~~kgg~~~~h~eG~Yvlm~F~a~p~~I~ELeR~Lride~VLR~liVK~d~~k~  168 (168)
T 3bbn_F           89 ELLVAGGAMYVEVFNRGVIPLAYSIKRKNKAGETNNYLDGIYLLFTYFTKPESISPLEAALVTDDDVIRSSSFKIRKRKY  168 (168)
T ss_dssp             HHHTTTSCEEEEEEEEEECCCSSCTTSCSSSCSSCCCCCCEEEEEEEEECTTSSHHHHHHHHTSSCCSEEECCBCCSCCC
T ss_pred             HHHHHCCCEEEEEEecccccccceeccCcccccccccceEEEEEEEEEeCHHHHHHHHHHhcCCcCeeEEEEEecccccC
Confidence            99999999999999999999999999999988999999999999999999999999999999999999999999999886

>1cqm_A Ribosomal protein S6; alzheimer disease, oligomerization; 1.65A {Thermus thermophilus} SCOP: d.58.14.1 PDB: 1cqn_A 1qjh_A 1ris_A 1fka_F 1gix_I* 1hnw_F* 1hnx_F* 1hnz_F* 1hr0_F 1i94_F* 1i95_F* 1i96_F* 1i97_F* 1ibk_F* 1ibl_F* 1ibm_F 1j5e_F 1jgo_I* 1jgp_I* 1jgq_I* ...

Probab=99.98  E-value=2.1e-32  Score=210.67  Aligned_cols=95  Identities=24%  Similarity=0.378  Sum_probs=93.0

Q ss_pred             CCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhh
Q 027743          111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPES  190 (219)
Q Consensus       111 Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~a  190 (219)
                      ||.||+|+|++|++++++++++++++.++|.++||+|+++++||+|+|||+|+|++         +|+|++|+|+|+|++
T Consensus         1 M~~YE~~~Il~p~l~~e~~~~~~~~~~~~i~~~gg~i~~~e~wG~R~LAY~I~k~~---------~G~Y~l~~f~a~~~~   71 (101)
T 1cqm_A            1 MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVAILGLRRLAYPIAKDP---------QGYFLWYQVEMPEDR   71 (101)
T ss_dssp             CEEEEEEEEECTTCCHHHHHHHHHHHHHHHHHTTCEEEEEEEEEEEEEEEEETTEE---------EEEEEEEEEEECHHH
T ss_pred             CCceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCcccccCcCCCC---------EEEEEEEEEEeChHH
Confidence            89999999999999999999999999999999999999999999999999999986         799999999999999


Q ss_pred             HHHHHHHhCCCCCeeEEEeEeecc
Q 027743          191 IEALERTMKADDDVIRSSSFKVRK  214 (219)
Q Consensus       191 IkELEr~Lrlde~VLR~liVKv~k  214 (219)
                      ++||++.||+|++||||+++|+++
T Consensus        72 i~eler~lr~~~~VlR~l~vk~~~   95 (101)
T 1cqm_A           72 VNDLARELRIRDNVRRVMVVKSQE   95 (101)
T ss_dssp             HHHHHHHHHTSTTEEEEEEEECSS
T ss_pred             HHHHHHHhcCCcceEEEEEEEecc
Confidence            999999999999999999999985

>2j5a_A 30S ribosomal protein S6; ribonucleoprotein, RIBO protein S6, RNA-binding, rRNA-binding, protein folding; 2.3A {Aquifex aeolicus} SCOP: d.58.14.1

Probab=99.97  E-value=7.9e-32  Score=210.69  Aligned_cols=98  Identities=31%  Similarity=0.505  Sum_probs=94.7

Q ss_pred             CCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEc-Ch
Q 027743          110 GLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFT-KP  188 (219)
Q Consensus       110 ~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a-~P  188 (219)
                      .|+.||+|+|++|++++++++++++++.++|.++||+|+++++||.|+|||+|+|++         +|+|++++|+| +|
T Consensus         6 ~M~~YE~~~Il~p~l~~e~~~~~v~~~~~~i~~~Gg~i~~~e~wG~R~LAY~I~K~~---------~G~Y~l~~f~a~~~   76 (110)
T 2j5a_A            6 TLRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFN---------NARYFLVQFKTENP   76 (110)
T ss_dssp             SCEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEECSSCSSSCS---------EEEEEEEEEEESCT
T ss_pred             CCCcceEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCcccccCcCCCC---------EEEEEEEEEEeCCH
Confidence            499999999999999999999999999999999999999999999999999999987         79999999999 99


Q ss_pred             hhHHHHHHHhCCCCCeeEEEeEeecccc
Q 027743          189 ESIEALERTMKADDDVIRSSSFKVRKQK  216 (219)
Q Consensus       189 ~aIkELEr~Lrlde~VLR~liVKv~k~k  216 (219)
                      ++++||++.||+|++||||+++|+++.+
T Consensus        77 ~~i~eler~lr~~e~VlR~livk~~~~~  104 (110)
T 2j5a_A           77 QLPNELDFQLKIDEDVIRWLNIQIKESE  104 (110)
T ss_dssp             THHHHHHHHHHHCTTEEEEEEEEECGGG
T ss_pred             HHHHHHHHHhCCCcCeEEEEEEEccccc
Confidence            9999999999999999999999998754

>1vmb_A 30S ribosomal protein S6; TM0603, structural genomics, JCSG, structure initiative, PSI, joint center for structural GENO translation; 1.70A {Thermotoga maritima} SCOP: d.58.14.1

Probab=99.97  E-value=3.4e-31  Score=216.13  Aligned_cols=100  Identities=24%  Similarity=0.422  Sum_probs=94.3

Q ss_pred             CCCCCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhC-CcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEE
Q 027743          107 CPPGLRQYETMMVLRPDMSEDERLALTQKYEELLVAG-GGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYF  185 (219)
Q Consensus       107 ~~~~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~-GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~  185 (219)
                      .|.+||.||+|+|++|++++++++++++++.++|.++ ||+|+++++||+|+|||+|+|++         +|+|++|+|+
T Consensus        14 ~~~~Mr~YE~~~Il~P~l~ee~v~~~ve~~~~~I~~~~GG~I~~ve~wG~R~LAY~I~K~~---------~G~Yvl~~f~   84 (140)
T 1vmb_A           14 AYVKERIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKKFN---------EGDYTVIYFR   84 (140)
T ss_dssp             ---CCEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEEEEEEEETTEE---------EEEEEEEEEE
T ss_pred             cccccccceEEEEECCCCCHHHHHHHHHHHHHHHHhcCCCEEEEEEeecCcccccccCCCC---------EEEEEEEEEE
Confidence            5789999999999999999999999999999999999 99999999999999999999986         7999999999


Q ss_pred             cChhhHHHHHHHhCCCCCeeEEEeEeeccc
Q 027743          186 TKPESIEALERTMKADDDVIRSSSFKVRKQ  215 (219)
Q Consensus       186 a~P~aIkELEr~Lrlde~VLR~liVKv~k~  215 (219)
                      ++|++++||++.||+|++||||+++|+++.
T Consensus        85 a~~~~i~ELer~lri~e~VLR~livK~~~~  114 (140)
T 1vmb_A           85 CDGQNLQELENFYRVTPEIIRWQTFRRFDL  114 (140)
T ss_dssp             ECSSSTHHHHHHHHTCTTEEEEEEEECHHH
T ss_pred             ECHHHHHHHHHHhcCCcceeEEEEEEeccc
Confidence            999999999999999999999999998753

>3r3t_A 30S ribosomal protein S6; structural genomics, center for structural genomics of infec diseases, csgid, beta-barrel, cytosol; 2.30A {Bacillus anthracis}

Probab=99.97  E-value=4.7e-33  Score=213.88  Aligned_cols=97  Identities=26%  Similarity=0.540  Sum_probs=93.1

Q ss_pred             CCCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcCh
Q 027743          109 PGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKP  188 (219)
Q Consensus       109 ~~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P  188 (219)
                      -+||.||+|+|++|++++++++++++++.++|+++||+|+++++||.|+|||+|+|++         +|+|++++|+|+|
T Consensus         2 ~~M~~YE~~~Il~p~~~~e~~~~~~~~~~~~i~~~gg~i~~~e~wG~R~LAY~I~k~~---------~G~Y~l~~f~a~~   72 (99)
T 3r3t_A            2 NAMRKYEIMYIIRPGVEEEAQKALVERFAGVLTNNGAEIINTKEWGKRRLAYEINDLR---------EGFYMILNVNANA   72 (99)
T ss_dssp             -CCCCCCCCCCCCTTSCHHHHHHHHHHHHHHHHTTTCCCCCCCCCCSCCCCCCCCCCC---------CSCCCCCCCCCCH
T ss_pred             CCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEeeccccCcCcCCCC---------EEEEEEEEEEeCH
Confidence            3699999999999999999999999999999999999999999999999999999987         6899999999999


Q ss_pred             hhHHHHHHHhCCCCCeeEEEeEeecc
Q 027743          189 ESIEALERTMKADDDVIRSSSFKVRK  214 (219)
Q Consensus       189 ~aIkELEr~Lrlde~VLR~liVKv~k  214 (219)
                      ++++||++.||+|++||||+++|+++
T Consensus        73 ~~i~eler~lr~~~~VlR~livk~~~   98 (99)
T 3r3t_A           73 EAINEFDRLAKINEDILRHIVVKEEE   98 (99)
T ss_dssp             HHHHHHHHHHHHCTTCCCCCCCCCC-
T ss_pred             HHHHHHHHHhcCCCCeEEEEEEEecC
Confidence            99999999999999999999999987

>3i1m_F 30S ribosomal protein S6; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1p6g_F 1p87_F* 1vs7_F* 2avy_F 2aw7_F 1vs5_F 2i2u_F 2i2p_F* 2qan_F* 2qb9_F* 2qbb_F* 2qbd_F 2qbf_F 2qbh_F* 2qbj_F* 2qou_F* 2qow_F* 2qoy_F* 2qp0_F* 2vho_F ...

Probab=99.96  E-value=2.9e-30  Score=209.39  Aligned_cols=94  Identities=28%  Similarity=0.490  Sum_probs=91.5

Q ss_pred             CCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhh
Q 027743          111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPES  190 (219)
Q Consensus       111 Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~a  190 (219)
                      ||+||+|+|++|+++ ++++++++++.++|.++||+|+++++||.|+|||+|+|++         +|+|++|+|+|+|++
T Consensus         1 Mr~YE~~~Il~P~~~-e~v~~~ve~~~~~I~~~GG~I~~ve~wG~R~LAY~I~K~~---------~G~Y~l~~f~a~~~~   70 (135)
T 3i1m_F            1 MRHYEIVFMVHPDQS-EQVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLH---------KAHYVLMNVEAPQEV   70 (135)
T ss_dssp             CCEECBEEEECSTTT-TSHHHHHHHHHHHHHHTTCEECCCEEEEEECCSSCTTSSS---------CEEEEECCEECCTTH
T ss_pred             CCceEEEEEECCCch-HHHHHHHHHHHHHHHHCCCEEEEEEeeccccCceEcCCCC---------eEEEEEEEEEeCHHH
Confidence            899999999999998 7999999999999999999999999999999999999987         699999999999999


Q ss_pred             HHHHHHHhCCCCCeeEEEeEeecc
Q 027743          191 IEALERTMKADDDVIRSSSFKVRK  214 (219)
Q Consensus       191 IkELEr~Lrlde~VLR~liVKv~k  214 (219)
                      +++|++.||+|++||||+++|+++
T Consensus        71 i~ELer~lri~e~VLR~livk~d~   94 (135)
T 3i1m_F           71 IDELETTFRFNDAVIRSMVMRTKH   94 (135)
T ss_dssp             HHHHHHHHHHCSSEESCCBCCCSS
T ss_pred             HHHHHHHhcCCCCeEEEEEEEecc
Confidence            999999999999999999999886

>2kjw_A TS9, 30S ribosomal protein S6; S6 permutant, solution structure, backbone dynamics, folding, ribonucleoprotein, RNA-binding, rRNA-binding; NMR {Thermus thermophilus}

Probab=99.66  E-value=2.8e-17  Score=126.54  Aligned_cols=55  Identities=25%  Similarity=0.316  Sum_probs=53.9

Q ss_pred             CCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeeccccccccccc
Q 027743          110 GLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRK  164 (219)
Q Consensus       110 ~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK  164 (219)
                      +|++||+|+|++|++++++++++++++.++|+++||+|.++++||+|+|||+|+|
T Consensus        42 ~Mr~YE~m~Il~P~l~ee~~~~~ve~~~~iI~~~gG~i~~ve~WG~R~LAY~I~K   96 (96)
T 2kjw_A           42 TPGRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAYPIAK   96 (96)
T ss_dssp             SSSCEEEEEECCSSCCHHHHHHHHHHHHHHHHHHTCCCSCCEECCCCCCCCSCCC
T ss_pred             hhhhhheeeeeCCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeccccccccccCCC
Confidence            4999999999999999999999999999999999999999999999999999987

>3zzp_A TS9, ribosomal protein S6; protein folding, RNA-binding; 0.96A {Thermus thermophilus}

Probab=99.11  E-value=3.2e-11  Score=89.21  Aligned_cols=40  Identities=15%  Similarity=0.218  Sum_probs=38.0

Q ss_pred             eeEEEEEEEEEcChhhHHHHHHHhCCCCCeeEEEeEeecc
Q 027743          175 LDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRK  214 (219)
Q Consensus       175 ~eG~Yvlm~F~a~P~aIkELEr~Lrlde~VLR~liVKv~k  214 (219)
                      .+|+|++++|.|+|++++|||+.||+||+|||||++|.++
T Consensus         3 ~~G~Yvl~~~~a~~~~i~Eler~~rine~VlR~l~vr~d~   42 (77)
T 3zzp_A            3 PQGYTTWYQVEMPEDRVNDLARELRIRDNVRRVMVVASTT   42 (77)
T ss_dssp             -CTTEEEEEEECCHHHHHHHHHHHHTSTTEEEEEEEECSS
T ss_pred             ceEEEEEEEEEeCHhHHHHHHHHhCCCHHHHHHHHHhccC
Confidence            3699999999999999999999999999999999999986

>2kjw_A TS9, 30S ribosomal protein S6; S6 permutant, solution structure, backbone dynamics, folding, ribonucleoprotein, RNA-binding, rRNA-binding; NMR {Thermus thermophilus}

Probab=98.82  E-value=5.8e-10  Score=85.70  Aligned_cols=39  Identities=18%  Similarity=0.328  Sum_probs=37.7

Q ss_pred             eeEEEEEEEEEcChhhHHHHHHHhCCCCCeeEEEeEeec
Q 027743          175 LDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVR  213 (219)
Q Consensus       175 ~eG~Yvlm~F~a~P~aIkELEr~Lrlde~VLR~liVKv~  213 (219)
                      .+|||++++|+|+|++++|||+.||++|+|||++++|++
T Consensus         3 ~~g~Y~~~~~~a~~~~v~eler~~r~~e~vlR~l~v~~e   41 (96)
T 2kjw_A            3 PQGYFLWYQVEMPEDRVNDLARELRIRDNVRRVMVVAST   41 (96)
T ss_dssp             TSCCCEEECCCCCHHHHHHHHHHHHHCTTCSEEEEEECS
T ss_pred             ceEEEEEEEeecChhHHHHHHHHhccchhhhhhhheehh
Confidence            369999999999999999999999999999999999998

>3zzp_A TS9, ribosomal protein S6; protein folding, RNA-binding; 0.96A {Thermus thermophilus}

Probab=98.25  E-value=9.1e-07  Score=65.22  Aligned_cols=37  Identities=19%  Similarity=0.285  Sum_probs=34.9

Q ss_pred             CCCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCc
Q 027743          109 PGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGG  145 (219)
Q Consensus       109 ~~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG  145 (219)
                      ..+|.||+|+|++|++++++++++++++..+|+++||
T Consensus        41 d~~r~YE~m~Il~P~l~ee~~~~~vek~~~~i~~~Gg   77 (77)
T 3zzp_A           41 TTPGRYEVNIVLNPNLDQSQLQNEKEIIQRALENYGA   77 (77)
T ss_dssp             SSTTEEEEEEEECTTCCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cCCCceEEEEEECCCCCHHHHHHHHHHHHHHHHhcCC
Confidence            4578999999999999999999999999999999987

---

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	219
d1vmba_	107	d.58.14.1 (A:) Ribosomal protein S6 {Thermotoga ma	1e-21
d1loua_	97	d.58.14.1 (A:) Ribosomal protein S6 {Thermus therm	3e-21
d2qalf1	100	d.58.14.1 (F:1-100) Ribosomal protein S6 {Escheric	6e-21
d2j5aa1	106	d.58.14.1 (A:3-108) Ribosomal protein S6 {Aquifex	4e-20

>d1vmba_ d.58.14.1 (A:) Ribosomal protein S6 {Thermotoga maritima [TaxId: 2336]} Length = 107

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Thermotoga maritima [TaxId: 2336]

 Score = 83.3 bits (206), Expect = 1e-21
 Identities = 25/108 (23%), Positives = 54/108 (50%), Gaps = 10/108 (9%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVA-GGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
           R YE+M ++ P++ E+ER  L ++ ++++     G   +V   G+   AY I+K N    
Sbjct: 3   RIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKKFN---- 58

Query: 171 SNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRKQKQK 218
                +G Y +  +    ++++ LE   +   ++IR  +F+    ++K
Sbjct: 59  -----EGDYTVIYFRCDGQNLQELENFYRVTPEIIRWQTFRRFDLEKK 101

>d1loua_ d.58.14.1 (A:) Ribosomal protein S6 {Thermus thermophilus [TaxId: 274]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Thermus thermophilus [TaxId: 274]

 Score = 82.2 bits (203), Expect = 3e-21
 Identities = 22/103 (21%), Positives = 41/103 (39%), Gaps = 9/103 (8%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R+YE  +VL P++ + +     +  +      G    +V   G+  LAY I K       
Sbjct: 2   RRYEVNIVLNPNLDQSQLALEKEIIQRAAENYGARVEKVEELGLRRLAYPIAKDP----- 56

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRK 214
                G +L +      + +  L R ++  D+V R    K ++
Sbjct: 57  ----QGYFLWYQVEMPEDRVNDLARELRIRDNVRRVMVVKSQE 95

>d2qalf1 d.58.14.1 (F:1-100) Ribosomal protein S6 {Escherichia coli [TaxId: 562]} Length = 100

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Escherichia coli [TaxId: 562]

 Score = 81.7 bits (202), Expect = 6e-21
 Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 10/103 (9%)

Query: 112 RQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGES 171
           R YE + ++ PD SE +   + ++Y   +    G    + + G   LAY I K +     
Sbjct: 2   RHYEIVFMVHPDQSE-QVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLH----- 55

Query: 172 NTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSSFKVRK 214
                  Y+L       E I+ LE T + +D VIRS   + + 
Sbjct: 56  ----KAHYVLMNVEAPQEVIDELETTFRFNDAVIRSMVMRTKH 94

>d2j5aa1 d.58.14.1 (A:3-108) Ribosomal protein S6 {Aquifex aeolicus [TaxId: 63363]} Length = 106

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Aquifex aeolicus [TaxId: 63363]

 Score = 79.5 bits (196), Expect = 4e-20
 Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 10/105 (9%)

Query: 111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGE 170
           LR YET+  ++P +SE+E     ++ +E +   GG  +   + G+  LAY I+K N    
Sbjct: 5   LRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFN---- 60

Query: 171 SNTYLDGIYLLFTY-FTKPESIEALERTMKADDDVIRSSSFKVRK 214
                +  Y L  +    P+    L+  +K D+DVIR  + ++++
Sbjct: 61  -----NARYFLVQFKTENPQLPNELDFQLKIDEDVIRWLNIQIKE 100

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	219
d1loua_	97	Ribosomal protein S6 {Thermus thermophilus [TaxId:	99.97
d2j5aa1	106	Ribosomal protein S6 {Aquifex aeolicus [TaxId: 633	99.96
d1vmba_	107	Ribosomal protein S6 {Thermotoga maritima [TaxId:	99.96
d2qalf1	100	Ribosomal protein S6 {Escherichia coli [TaxId: 562	99.96
d1sc6a3	84	Phosphoglycerate dehydrogenase, regulatory (C-term	82.85

>d1loua_ d.58.14.1 (A:) Ribosomal protein S6 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Thermus thermophilus [TaxId: 274]

Probab=99.97  E-value=3e-31  Score=200.18  Aligned_cols=95  Identities=23%  Similarity=0.368  Sum_probs=93.0

Q ss_pred             CCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhh
Q 027743          111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPES  190 (219)
Q Consensus       111 Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~a  190 (219)
                      |+.||+|+|++|++++++++++++++.++|+++||+|+++++||.|+|||+|+|++         +|+|++++|.++|++
T Consensus         1 M~~YE~~~i~~p~l~~~~~~~~~~~~~~~i~~~gg~i~~~e~~G~r~LAY~I~k~~---------~G~Y~~~~f~~~~~~   71 (97)
T d1loua_           1 MRRYEVNIVLNPNLDQSQLALEKEIIQRAAENYGARVEKVEELGLRRLAYPIAKDP---------QGYFLWYQVEMPEDR   71 (97)
T ss_dssp             CEEEEEEEEECTTCCHHHHHHHHHHHHHHHHHTTCEEEEEEEEEEEEEEEEETTEE---------EEEEEEEEEEECGGG
T ss_pred             CCcceEEEEECCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeeeEEEeccccccccc---------eeEEEEEEEEeCHHH
Confidence            89999999999999999999999999999999999999999999999999999987         699999999999999


Q ss_pred             HHHHHHHhCCCCCeeEEEeEeecc
Q 027743          191 IEALERTMKADDDVIRSSSFKVRK  214 (219)
Q Consensus       191 IkELEr~Lrlde~VLR~liVKv~k  214 (219)
                      +++|++.|++|++||||+++|+++
T Consensus        72 i~el~~~l~l~~~VlR~l~vk~~e   95 (97)
T d1loua_          72 VNDLARELRIRDNVRRVMVVKSQE   95 (97)
T ss_dssp             HHHHHHHHHTSTTEEEEEEEECSS
T ss_pred             HHHHHHHhcCCcCeEEEEEEEecC
Confidence            999999999999999999999885

>d2j5aa1 d.58.14.1 (A:3-108) Ribosomal protein S6 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.96  E-value=3.1e-30  Score=197.79  Aligned_cols=99  Identities=30%  Similarity=0.499  Sum_probs=94.5

Q ss_pred             CCCCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcC-
Q 027743          109 PGLRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTK-  187 (219)
Q Consensus       109 ~~Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~-  187 (219)
                      ..||+||+|+|++|++++++++++++++.++|.++||+|+++++||.|+|||+|+|++         +|+|++++|.++ 
T Consensus         3 k~Mr~YE~~~Il~p~l~~~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~Ikk~~---------~G~Y~~~~f~~~~   73 (106)
T d2j5aa1           3 KTLRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFN---------NARYFLVQFKTEN   73 (106)
T ss_dssp             CSCEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEECSSCSSSCS---------EEEEEEEEEEESC
T ss_pred             CccccccEEEEECCCCCHHHHHHHHHHHHHHHHHCCCeEEEEecceeechhhhhhhcc---------ceEEEEEEEEECc
Confidence            5799999999999999999999999999999999999999999999999999999987         699999999996 


Q ss_pred             hhhHHHHHHHhCCCCCeeEEEeEeecccc
Q 027743          188 PESIEALERTMKADDDVIRSSSFKVRKQK  216 (219)
Q Consensus       188 P~aIkELEr~Lrlde~VLR~liVKv~k~k  216 (219)
                      |+++++|++.|++|++||||+++|+++-.
T Consensus        74 ~~~i~el~~~l~l~~~VlR~l~vkl~~~~  102 (106)
T d2j5aa1          74 PQLPNELDFQLKIDEDVIRWLNIQIKESE  102 (106)
T ss_dssp             TTHHHHHHHHHHHCTTEEEEEEEEECGGG
T ss_pred             HHHHHHHHHHhCCCcCeeEEEEEEecchh
Confidence            78899999999999999999999998743

>d1vmba_ d.58.14.1 (A:) Ribosomal protein S6 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Thermotoga maritima [TaxId: 2336]

Probab=99.96  E-value=1.3e-29  Score=194.83  Aligned_cols=95  Identities=25%  Similarity=0.469  Sum_probs=91.9

Q ss_pred             CCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhC-CcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChh
Q 027743          111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAG-GGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPE  189 (219)
Q Consensus       111 Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~-GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~  189 (219)
                      ||+||+|+|++|++++++++++++++.++|+++ ||+|+.+++||.|+|||+|+|+.         +|+|++|+|.++|+
T Consensus         2 ~R~YE~~~Il~p~l~~~~~~~~~~~~~~~i~~~~gg~i~~~e~wG~r~LAY~I~k~~---------~G~Y~~~~f~~~~~   72 (107)
T d1vmba_           2 ERIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKKFN---------EGDYTVIYFRCDGQ   72 (107)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEEEEEEEETTEE---------EEEEEEEEEEECSS
T ss_pred             CceeEEEEEECCCCCHHHHHHHHHHHHHHHHhcCCCEEEEEEeeeeeccceEcCCCc---------EEEEEEEEEEECHH
Confidence            899999999999999999999999999999886 99999999999999999999976         79999999999999


Q ss_pred             hHHHHHHHhCCCCCeeEEEeEeecc
Q 027743          190 SIEALERTMKADDDVIRSSSFKVRK  214 (219)
Q Consensus       190 aIkELEr~Lrlde~VLR~liVKv~k  214 (219)
                      ++++|++.|++|++||||+++|+++
T Consensus        73 ~i~el~~~l~l~~~VlR~livk~~~   97 (107)
T d1vmba_          73 NLQELENFYRVTPEIIRWQTFRRFD   97 (107)
T ss_dssp             STHHHHHHHHTCTTEEEEEEEECHH
T ss_pred             HHHHHHHHhcCCcCeEEEEEEEccc
Confidence            9999999999999999999999865

>d2qalf1 d.58.14.1 (F:1-100) Ribosomal protein S6 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Ribosomal protein S6
family: Ribosomal protein S6
domain: Ribosomal protein S6
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=2.7e-30  Score=196.11  Aligned_cols=95  Identities=28%  Similarity=0.488  Sum_probs=91.6

Q ss_pred             CCcccEEEEeCCCCCHHHHHHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhh
Q 027743          111 LRQYETMMVLRPDMSEDERLALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPES  190 (219)
Q Consensus       111 Mr~YElm~ILrP~lseeei~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~a  190 (219)
                      ||.||+|+|++|++++ +++++++++.++|+++||+|+++++||.|+|||+|+|++         +|+|++++|.++|++
T Consensus         1 M~~YE~~~Il~p~~~e-~~~~~~~~~~~~i~~~gg~v~~~~~~G~r~LAY~I~k~~---------~G~Y~~~~f~~~~~~   70 (100)
T d2qalf1           1 MRHYEIVFMVHPDQSE-QVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLH---------KAHYVLMNVEAPQEV   70 (100)
T ss_dssp             CCEECEEEEECGGGTT-HHHHHHHHHHHHHHHTTCCCCCCCCCBSCBCSSCTTSCS---------BCBBCCCCEECCHHH
T ss_pred             CCcceEEEEECCCcHH-HHHHHHHHHHHHHHhCCCEEEEEeeeeeeecccccccCC---------eeEEEEEEEecCHHH
Confidence            9999999999999986 799999999999999999999999999999999999987         689999999999999


Q ss_pred             HHHHHHHhCCCCCeeEEEeEeeccc
Q 027743          191 IEALERTMKADDDVIRSSSFKVRKQ  215 (219)
Q Consensus       191 IkELEr~Lrlde~VLR~liVKv~k~  215 (219)
                      +++|++.|++|++||||+++|+++.
T Consensus        71 i~el~~~l~~~~~VlR~l~vk~~~~   95 (100)
T d2qalf1          71 IDELETTFRFNDAVIRSMVMRTKHA   95 (100)
T ss_dssp             HHHHHHHTTSCTTEEEEEECCCSSC
T ss_pred             HHHHHHHhcCccCeeEEEEEEeccC
Confidence            9999999999999999999999864

>d1sc6a3 d.58.18.1 (A:327-410) Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: ACT-like
family: Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain
domain: Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain
species: Escherichia coli [TaxId: 562]

Probab=82.85  E-value=4.8  Score=27.05  Aligned_cols=61  Identities=13%  Similarity=0.128  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHhhCCcEEEEEEeecccccccccccccccCCCCceeeEEEEEEEEEcChhhHHHHHHHhCCCCCeeEEEe
Q 027743          130 LALTQKYEELLVAGGGMYVEVFNRGVIPLAYSIRKRNKAGESNTYLDGIYLLFTYFTKPESIEALERTMKADDDVIRSSS  209 (219)
Q Consensus       130 ~~lik~l~~iI~k~GG~I~~venwG~RkLAYpIkK~~ka~~~~~~~eG~Yvlm~F~a~P~aIkELEr~Lrlde~VLR~li  209 (219)
                      -.++.++..+|.++|..|....+-          ...         ++-|.++.++.+....+++-+.|+.-+.|+|..+
T Consensus        22 PGvla~I~~~l~~~~iNI~~~~~~----------~~~---------~~~~a~~~i~~D~~~~~~v~~~i~~l~~Vi~vR~   82 (84)
T d1sc6a3          22 PGVLTALNKIFAEQGVNIAAQYLQ----------TSA---------QMGYVVIDIEADEDVAEKALQAMKAIPGTIRARL   82 (84)
T ss_dssp             TTHHHHHHHHHHHTTCEEEEEEEE----------ECS---------SEEEEEEEEECCHHHHHHHHHHHHTSTTEEEEEE
T ss_pred             CCHHHHHHHHHHHcCCCHHHhccc----------cCC---------CCcEEEEEEECCCCCHHHHHHHHHCCCCEEEEEE
Confidence            356779999999999999887552          222         4679999999998889998888999999998754