Citrus Sinensis ID: 031985

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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-------15
Protein Sequence
MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGPSAIYDFEGIEEEDNDEEEYDSEDAERKEH
Secondary Structure (PSIPRED)
cccccEEEEEcccccHHHHHHHHHHHHHHHcccccEEEEEcccccccccccccccccEEEEEEEEEEEEEccccHHHHHHHHHccccEEEEEEEEcccccccHHHHHHHccHHHHcccccccccccccccccccccccccccHHHHHcc
Secondary Structure Prediction (SSPRO)
ccHHHHHEEEcccccHHHHHHHHHHHHHHHHHcccEEEEEccccEEEEEEEEEcccccEEEEEEEEEEcccccccHHHHHHHcHHcHEEHHHEEHccccccccEccccccccccccccccccccccccccccccccccHccHHHHHHcc
Coil and Loop (DISEMBL)
mplydcmlllkphvrKESLMELVARVGkhvygrngvltditsfgtvqlgygikkldgryYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRgmkngkearyaetseadlkkygpsaiydfegieeedndeeeydsedaerkeh
Flexible Loop (DISEMBL)
MPLYDCMLLLKPHVRKESLMELVARVGKhvygrngvltditsfgtvqlGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKhrgmkngkearyaetseadlkkygpsAIYDfegieeedndeeeydsedaerkeh
Low Complexity Region (SEG)
MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGPSAIYdfegieeedndeeeydsedaerkeH
Disordered region (IsUnstruct)
**LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRG************************IY*************************
Disordered Region (DISOPRED)
MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRG***************************************************
Disordered Region (DISEMBL)
MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGPSAIYDFEGIE*******************
Disordered Region (DISPRO)
MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYA*******************************DSEDA*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGPSAIYDFEGIEEEDNDEEEYDSEDAERKEH
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	149	2.2.26 [Sep-21-2011]
Q9UT82	111	37S ribosomal protein MRP	yes	no	0.510	0.684	0.337	2e-05
Q8R6M1	95	30S ribosomal protein S6	yes	no	0.610	0.957	0.281	0.0004

>sp|Q9UT82|RT06_SCHPO 37S ribosomal protein MRP17, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=mrp17 PE=3 SV=2

 Score = 48.1 bits (113), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 39/77 (50%), Gaps = 1/77 (1%)

Query: 20  MELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKEL 79
           M +    G+ +    GV+ D+ S G  +L   IKKL+  Y  G    MT  S P +  E+
Sbjct: 26  MNIAKNCGRAILDNKGVVVDVESMGLKELAKPIKKLNQSYSFGHWWSMTFYSNPTVQSEI 85

Query: 80  Q-YLNKEDRLLRWLLVK 95
           Q  L  E  +LR+++VK
Sbjct: 86  QRILRLEPSVLRYMIVK 102

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q8R6M1|RS6_THETN 30S ribosomal protein S6 OS=Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) GN=rpsF PE=3 SV=1

 Score = 43.9 bits (102), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 27/96 (28%), Positives = 52/96 (54%), Gaps = 5/96 (5%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
          M  Y+ M +L P + +E    L+ R    +  R G +T+   +G  +L Y I+K    YY
Sbjct: 1  MRSYETMYVLSPDLNEEERKGLIERFKNLIVERGGEITNFDEWGKRKLAYPIQKKSEGYY 60

Query: 61 QGQLMQMTMMSTPNINKELQYLNK-EDRLLRWLLVK 95
              + M   S+P++++EL+ + +  D +LR+L+++
Sbjct: 61 ----VLMNFNSSPDVSRELERVYRITDGVLRYLIIR 92

Binds together with S18 to 16S ribosomal RNA.

Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) (taxid: 273068)

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	149
313586453	163	30S ribosomal protein S6A [Hevea brasili	0.778	0.711	0.728	1e-49
313586455	163	30S ribosomal protein S6B [Hevea brasili	0.778	0.711	0.714	1e-48
225463002	162	PREDICTED: uncharacterized protein LOC10	0.832	0.765	0.741	3e-47
224144016	136	predicted protein [Populus trichocarpa]	0.684	0.75	0.872	7e-47
255565089	162	structural constituent of ribosome, puta	0.832	0.765	0.693	6e-44
18401997	139	small subunit ribosomal protein S6 [Arab	0.892	0.956	0.644	7e-44
296084586	156	unnamed protein product [Vitis vinifera]	0.791	0.756	0.737	6e-43
297834792	139	ribosomal protein S6 family protein [Ara	0.765	0.820	0.710	3e-42
449529120	153	PREDICTED: 37S ribosomal protein MRP17,	0.697	0.679	0.788	4e-42
449463238	140	PREDICTED: LOW QUALITY PROTEIN: 37S ribo	0.691	0.735	0.775	4e-42

>gi|313586453|gb|ADR71237.1| 30S ribosomal protein S6A [Hevea brasiliensis]

 Score =  201 bits (510), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 102/140 (72%), Positives = 107/140 (76%), Gaps = 24/140 (17%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYDCMLLLKPHVRKE+LM+LVARVGKHVYGRNGVLTDI SFGT+QLGYGIKKLDGRYY
Sbjct: 1   MPLYDCMLLLKPHVRKEALMDLVARVGKHVYGRNGVLTDIKSFGTIQLGYGIKKLDGRYY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGP 120
           QGQLMQMTMM+TPNINKEL YLNKEDRLLRWLLVKHR   NG E                
Sbjct: 61  QGQLMQMTMMATPNINKELHYLNKEDRLLRWLLVKHRDTTNGLE---------------- 104

Query: 121 SAIYDFEGIEEEDNDEEEYD 140
                     EEDND+EE D
Sbjct: 105 --------FLEEDNDKEELD 116

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|313586455|gb|ADR71238.1| 30S ribosomal protein S6B [Hevea brasiliensis]

 Score =  197 bits (502), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 100/140 (71%), Positives = 106/140 (75%), Gaps = 24/140 (17%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYDCMLLLKPHVRKE+LM+LVARVGKHVY RNGVLTDI SFGT+QLGYGIKKLDGRYY
Sbjct: 1   MPLYDCMLLLKPHVRKEALMDLVARVGKHVYARNGVLTDIKSFGTIQLGYGIKKLDGRYY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGP 120
           QGQLMQMTMM+TPNINKEL YLNKEDRLLRWLLVKHR   +G E                
Sbjct: 61  QGQLMQMTMMATPNINKELHYLNKEDRLLRWLLVKHRDTTDGLE---------------- 104

Query: 121 SAIYDFEGIEEEDNDEEEYD 140
                     EEDND+EE D
Sbjct: 105 --------FLEEDNDKEELD 116

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463002|ref|XP_002264271.1| PREDICTED: uncharacterized protein LOC100256785 [Vitis vinifera]

 Score =  192 bits (488), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 92/124 (74%), Positives = 102/124 (82%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MP YDCMLLLKPHV KESLM+LVARVGKHVY RNGVLTDI SFG V+LGYGIKKLDGRYY
Sbjct: 1   MPFYDCMLLLKPHVNKESLMDLVARVGKHVYRRNGVLTDIKSFGIVRLGYGIKKLDGRYY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGP 120
           QGQLMQM+MM+TPN NKEL YLNKEDRLLRWLLVKHR  K G E    +   ++L K+  
Sbjct: 61  QGQLMQMSMMATPNFNKELHYLNKEDRLLRWLLVKHRNTKYGLEFLNEDDVRSELSKFPR 120

Query: 121 SAIY 124
           S ++
Sbjct: 121 STLF 124

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224144016|ref|XP_002325157.1| predicted protein [Populus trichocarpa] gi|222866591|gb|EEF03722.1| predicted protein [Populus trichocarpa]

 Score =  191 bits (486), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 89/102 (87%), Positives = 97/102 (95%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYDCML+LKPHVRKE+LM+LVARVGKHVY RNGV+TDI SFGTVQLGYGIKKLDGR+Y
Sbjct: 1   MPLYDCMLMLKPHVRKEALMDLVARVGKHVYSRNGVVTDIKSFGTVQLGYGIKKLDGRHY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNG 102
           QGQLMQ+TMM+TPNINKEL YLNKEDRLLRWLLVKHR +K G
Sbjct: 61  QGQLMQITMMATPNINKELHYLNKEDRLLRWLLVKHRDIKFG 102

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565089|ref|XP_002523537.1| structural constituent of ribosome, putative [Ricinus communis] gi|223537244|gb|EEF38876.1| structural constituent of ribosome, putative [Ricinus communis]

 Score =  181 bits (460), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 86/124 (69%), Positives = 100/124 (80%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYDCMLLLKPH+ KE++++LVARVGKHV  RNGVLTD+ SFGT+QLGYGIKK + RY+
Sbjct: 1   MPLYDCMLLLKPHIHKEAVIDLVARVGKHVQSRNGVLTDMKSFGTIQLGYGIKKRENRYF 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGP 120
           QGQLMQMTMM+TPNINKEL YLNKEDRLLRWLLVKHR  K G +       + +L K  P
Sbjct: 61  QGQLMQMTMMATPNINKELHYLNKEDRLLRWLLVKHRDTKYGLDFMDENDGKGELNKLSP 120

Query: 121 SAIY 124
           S  +
Sbjct: 121 SKYW 124

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18401997|ref|NP_566618.1| small subunit ribosomal protein S6 [Arabidopsis thaliana] gi|9293899|dbj|BAB01802.1| unnamed protein product [Arabidopsis thaliana] gi|21617981|gb|AAM67031.1| unknown [Arabidopsis thaliana] gi|26451219|dbj|BAC42712.1| unknown protein [Arabidopsis thaliana] gi|28827770|gb|AAO50729.1| unknown protein [Arabidopsis thaliana] gi|332642621|gb|AEE76142.1| small subunit ribosomal protein S6 [Arabidopsis thaliana]

 Score =  181 bits (460), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 87/135 (64%), Positives = 108/135 (80%), Gaps = 2/135 (1%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYDCMLL KP +RKE L++LVAR+GKHVY RNGVLT+I SFG V+LGYGI+KLDGR+Y
Sbjct: 1   MPLYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKLDGRHY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGP 120
           QGQLMQ+TMM+TPN+NKEL YLNKED+LLRWLLVKHR +K G+  +  E S     +   
Sbjct: 61  QGQLMQITMMTTPNMNKELHYLNKEDKLLRWLLVKHRDIKIGQSEK--EDSLTVPNRLTS 118

Query: 121 SAIYDFEGIEEEDND 135
            ++YD    +E+DN+
Sbjct: 119 GSLYDGSSSDEDDNN 133

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296084586|emb|CBI25607.3| unnamed protein product [Vitis vinifera]

 Score =  178 bits (452), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 87/118 (73%), Positives = 97/118 (82%)

Query: 7   MLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQ 66
           MLLLKPHV KESLM+LVARVGKHVY RNGVLTDI SFG V+LGYGIKKLDGRYYQGQLMQ
Sbjct: 1   MLLLKPHVNKESLMDLVARVGKHVYRRNGVLTDIKSFGIVRLGYGIKKLDGRYYQGQLMQ 60

Query: 67  MTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKKYGPSAIY 124
           M+MM+TPN NKEL YLNKEDRLLRWLLVKHR  K G E    +   ++L K+  S ++
Sbjct: 61  MSMMATPNFNKELHYLNKEDRLLRWLLVKHRNTKYGLEFLNEDDVRSELSKFPRSTLF 118

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834792|ref|XP_002885278.1| ribosomal protein S6 family protein [Arabidopsis lyrata subsp. lyrata] gi|297331118|gb|EFH61537.1| ribosomal protein S6 family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  176 bits (446), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 81/114 (71%), Positives = 98/114 (85%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYDCMLL KP +RKE L++LVAR+GKHVY RNGVLT+I SFG V+LGYGI+KLDGR+Y
Sbjct: 1   MPLYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKLDGRHY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEAD 114
           QGQLMQ+TMM+TPN+NKEL YLNKED+LLRWLLVKHR +K G+  +    +E +
Sbjct: 61  QGQLMQITMMTTPNMNKELHYLNKEDKLLRWLLVKHRDIKIGQLEKEVSLTEPN 114

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449529120|ref|XP_004171549.1| PREDICTED: 37S ribosomal protein MRP17, mitochondrial-like [Cucumis sativus]

 Score =  175 bits (444), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 82/104 (78%), Positives = 93/104 (89%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYD M L+KPHV+KE+L++LVARVGKHV+ RNGV+ DI SFG VQLGYGIKKLDGRYY
Sbjct: 1   MPLYDVMFLMKPHVKKEALLDLVARVGKHVFRRNGVVCDIKSFGVVQLGYGIKKLDGRYY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKE 104
           QGQLMQMTMM+TPN+NKEL YLNKEDRLLRW+LVKHR  + G E
Sbjct: 61  QGQLMQMTMMATPNMNKELFYLNKEDRLLRWILVKHRDRQFGLE 104

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463238|ref|XP_004149341.1| PREDICTED: LOW QUALITY PROTEIN: 37S ribosomal protein MRP17, mitochondrial-like [Cucumis sativus]

 Score =  175 bits (444), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 83/107 (77%), Positives = 95/107 (88%), Gaps = 4/107 (3%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
           MPLYD M L+KPHV+KE+L++LVARVGKHV+ RNGV+ DI SFG VQLGYGIKKLDGRYY
Sbjct: 1   MPLYDVMFLMKPHVKKEALLDLVARVGKHVFRRNGVVCDIKSFGVVQLGYGIKKLDGRYY 60

Query: 61  QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHR----GMKNGK 103
           QGQLMQMTMM+TPN+NKEL YLNKEDRLLRW+LVKHR    G+KN +
Sbjct: 61  QGQLMQMTMMATPNMNKELFYLNKEDRLLRWILVKHRDRQFGLKNCR 107

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	149
TAIR|locus:2094009	139	AT3G18760 [Arabidopsis thalian	0.711	0.762	0.754	1.7e-41
POMBASE|SPAC343.08c	111	mrp17 "mitochondrial ribosomal	0.637	0.855	0.303	2.9e-07
CGD|CAL0003691	119	MRP17 [Candida albicans (taxid	0.536	0.672	0.329	1.3e-06
GENEDB_PFALCIPARUM|PF14_0606	120	PF14_0606 "hypothetical protei	0.765	0.95	0.232	0.0001
UNIPROTKB|Q8IKJ9	120	PF14_0606 "Mitochondrial ribos	0.765	0.95	0.232	0.0001
ZFIN|ZDB-GENE-060825-59	118	mrps6 "mitochondrial ribosomal	0.630	0.796	0.291	0.0001
TIGR_CMR|GSU_0665	117	GSU_0665 "ribosomal protein S6	0.597	0.760	0.276	0.00035
TIGR_CMR|CJE_1213	125	CJE_1213 "ribosomal protein S6	0.637	0.76	0.274	0.00065

TAIR|locus:2094009 AT3G18760 [Arabidopsis thaliana (taxid:3702)]

 Score = 440 (159.9 bits), Expect = 1.7e-41, P = 1.7e-41
 Identities = 80/106 (75%), Positives = 95/106 (89%)

Query:     1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
             MPLYDCMLL KP +RKE L++LVAR+GKHVY RNGVLT+I SFG V+LGYGI+KLDGR+Y
Sbjct:     1 MPLYDCMLLFKPIIRKEGLIDLVARIGKHVYSRNGVLTEIKSFGKVELGYGIRKLDGRHY 60

Query:    61 QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVKHRGMKNGKEAR 106
             QGQLMQ+TMM+TPN+NKEL YLNKED+LLRWLLVKHR +K G+  +
Sbjct:    61 QGQLMQITMMTTPNMNKELHYLNKEDKLLRWLLVKHRDIKIGQSEK 106

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

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0019843 "rRNA binding" evidence=IEA

POMBASE|SPAC343.08c mrp17 "mitochondrial ribosomal protein subunit Mrp17 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 117 (46.2 bits), Expect = 2.9e-07, P = 2.9e-07
 Identities = 31/102 (30%), Positives = 48/102 (47%)

Query:     1 MPLYDCMLLLKPHV---RKES---LMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKK 54
             M +Y+   + +P     R  S    M +    G+ +    GV+ D+ S G  +L   IKK
Sbjct:     1 MVMYELFCITRPAANATRTSSPTLAMNIAKNCGRAILDNKGVVVDVESMGLKELAKPIKK 60

Query:    55 LDGRYYQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVK 95
             L+  Y  G    MT  S P +  E+Q  L  E  +LR+++VK
Sbjct:    61 LNQSYSFGHWWSMTFYSNPTVQSEIQRILRLEPSVLRYMIVK 102

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0005763 "mitochondrial small ribosomal subunit" evidence=ISS

GO:0006412 "translation" evidence=ISS

GO:0019843 "rRNA binding" evidence=IEA

GO:0032543 "mitochondrial translation" evidence=NAS

CGD|CAL0003691 MRP17 [Candida albicans (taxid:5476)]

 Score = 111 (44.1 bits), Expect = 1.3e-06, P = 1.3e-06
 Identities = 27/82 (32%), Positives = 46/82 (56%)

Query:    16 KESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNI 75
             KE+  ++ + VGK +    G++ DITS G   L   I K   R++QG    +   S+PN+
Sbjct:    19 KEAT-KIASTVGKLILNNRGIIRDITSLGAKPLPQIISKEQERHFQGYHFIIGFDSSPNV 77

Query:    76 NKEL-QYLNKEDRLLRWLLVKH 96
               +L + L ++ R+LR  ++KH
Sbjct:    78 QTQLLRTLRRDPRILRSSIMKH 99

GO:0005763 "mitochondrial small ribosomal subunit" evidence=IEA

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

GENEDB_PFALCIPARUM|PF14_0606 PF14_0606 "hypothetical protein, conserved" [Plasmodium falciparum (taxid:5833)]

 Score = 93 (37.8 bits), Expect = 0.00010, P = 0.00010
 Identities = 27/116 (23%), Positives = 54/116 (46%)

Query:     1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD-GRY 59
             M LY+  + L  H++K+ +  L+      +   NG +  I   G  +  + IKK   G +
Sbjct:     1 MVLYESYISLNKHIKKDDVRNLMKNFNYIINKHNGNIISINDLGWRKFAFCIKKPKVGTF 60

Query:    60 YQGQLMQMTMMSTPNINKEL-QYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEAD 114
             + G+   +T  S     K+L ++ +    +LR+L +K +   N   A ++  +E +
Sbjct:    61 HFGRFYCITFYSNSKSIKDLNEFFHSNTYVLRFLNMKMKYRSNFLVAPFSYVNEIE 116

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q8IKJ9 PF14_0606 "Mitochondrial ribosomal protein S6-2, putative" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 93 (37.8 bits), Expect = 0.00010, P = 0.00010
 Identities = 27/116 (23%), Positives = 54/116 (46%)

Query:     1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD-GRY 59
             M LY+  + L  H++K+ +  L+      +   NG +  I   G  +  + IKK   G +
Sbjct:     1 MVLYESYISLNKHIKKDDVRNLMKNFNYIINKHNGNIISINDLGWRKFAFCIKKPKVGTF 60

Query:    60 YQGQLMQMTMMSTPNINKEL-QYLNKEDRLLRWLLVKHRGMKNGKEARYAETSEAD 114
             + G+   +T  S     K+L ++ +    +LR+L +K +   N   A ++  +E +
Sbjct:    61 HFGRFYCITFYSNSKSIKDLNEFFHSNTYVLRFLNMKMKYRSNFLVAPFSYVNEIE 116

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-060825-59 mrps6 "mitochondrial ribosomal protein S6" [Danio rerio (taxid:7955)]

 Score = 93 (37.8 bits), Expect = 0.00010, P = 0.00010
 Identities = 28/96 (29%), Positives = 48/96 (50%)

Query:     1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
             MP Y+  ++LK   R E+   L  R  + ++ R  V+  + + G  +L Y I K D R  
Sbjct:     1 MPRYELYMVLKAMQRPETAAVL-RRTVETLFERGAVVRSLENLGERKLPYKISKHDSRQS 59

Query:    61 QGQLMQMTMMSTPNI-NKELQYLNKEDRLLRWLLVK 95
              G    +   ++PNI +  L +L ++  +LR  +VK
Sbjct:    60 HGGYFSIDFHASPNIVSGLLNHLERDVDVLRPTVVK 95

GO:0005840 "ribosome" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

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

 Score = 88 (36.0 bits), Expect = 0.00035, P = 0.00035
 Identities = 26/94 (27%), Positives = 49/94 (52%)

Query:     3 LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKK-LDGRYYQ 61
             +Y+ +++++P +  + L  L A+V   +    GVL  +  +G  +L Y +KK + GRYY 
Sbjct:     4 MYETIVIVQPELGDDELKGLTAKVTDIIGSFKGVLHRLEDWGVRKLAYPVKKSVRGRYYY 63

Query:    62 GQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVK 95
              +         P I +  + L  +D++LR+  VK
Sbjct:    64 VRFDG----DAPLIAELERRLRLDDKVLRYQSVK 93

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

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

 Score = 87 (35.7 bits), Expect = 0.00065, P = 0.00065
 Identities = 28/102 (27%), Positives = 50/102 (49%)

Query:     1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGV-LTDITSFGTVQLGYGIKKLDGRY 59
             M  Y+ + +LKP + +E +   +  V K V  +N   +  +   GT +L Y IKK    Y
Sbjct:     1 MKHYEVLFILKPTLTEEEVNAKLEFV-KEVLTKNSAEIETVVPMGTRKLAYKIKK----Y 55

Query:    60 YQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVKHRGMK 100
              +G    +   +  N+  EL+  L   + ++R+L+VK+   K
Sbjct:    56 ERGTYFVIYFKAPTNLIAELERVLRITEEVIRFLIVKYENKK 97


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        0.320   0.137   0.404    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      149       125   0.00091  102 3  11 22  0.37    31
                                                     29  0.39    33


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:  8
  No. of states in DFA:  567 (60 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:  12.53u 0.15s 12.68t   Elapsed:  00:00:01
  Total cpu time:  12.53u 0.15s 12.68t   Elapsed:  00:00:01
  Start:  Fri May 10 10:01:13 2013   End:  Fri May 10 10:01:14 2013

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

GO:0042254 "ribosome biogenesis" 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	149
pfam01250	92	pfam01250, Ribosomal_S6, Ribosomal protein S6	7e-05
PRK00453	108	PRK00453, rpsF, 30S ribosomal protein S6; Reviewed	9e-05
COG0360	112	COG0360, RpsF, Ribosomal protein S6 [Translation,	4e-04

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

 Score = 39.0 bits (92), Expect = 7e-05
 Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 7/95 (7%)

Query: 3  LYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKL-DGRYYQ 61
           Y+ M +L+P + +E +  L+ +  K +    G +  +  +G  +L Y IKK  +G Y  
Sbjct: 2  KYETMFILRPDLSEEEVKALIEKYKKLIEENGGEVVKVEDWGKRKLAYPIKKKREGYYV- 60

Query: 62 GQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVK 95
               +   + P    EL+  L   + +LR+L VK
Sbjct: 61 ----LINFEAEPEAIAELERRLRINEDVLRFLTVK 91

Length = 92

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

 Score = 39.0 bits (92), Expect = 9e-05
 Identities = 25/97 (25%), Positives = 43/97 (44%), Gaps = 7/97 (7%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKL-DGRY 59
          M  Y+ + +L+P + +E +  LV R    +    G +  +  +G  +L Y I KL  G Y
Sbjct: 1  MRKYEIVFILRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRRRLAYPINKLRKGHY 60

Query: 60 YQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVK 95
                 +   + P    EL+      + +LR+L VK
Sbjct: 61 V-----LLNFEAPPAAIAELERLFRINEDVLRFLTVK 92

Length = 108

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

 Score = 37.6 bits (88), Expect = 4e-04
 Identities = 29/116 (25%), Positives = 50/116 (43%), Gaps = 14/116 (12%)

Query: 4   YDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKL-DGRYYQG 62
           Y+ + +++P + +E +  LV +    +    G +  +  +G  +L Y IKKL +G Y   
Sbjct: 3   YEIVFIVRPDLSEEQVAALVEKYKGVLTNNGGEIHKVEDWGKRRLAYPIKKLREGHYV-- 60

Query: 63  QLMQMTMMSTPNINKELQY-LNKEDRLLRWLLVKHRGMKNGKEARYAETSEADLKK 117
               M   + P    EL+  L   + +LR L++K        E    E S    KK
Sbjct: 61  ---LMNFEAEPAAIAELERLLRINEDVLRHLIIK-------VEKAKEELSPMLKKK 106

Length = 112

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	149
CHL00123	97	rps6 ribosomal protein S6; Validated	99.98
PRK00453	108	rpsF 30S ribosomal protein S6; Reviewed	99.97
COG0360	112	RpsF Ribosomal protein S6 [Translation, ribosomal	99.97
TIGR00166	93	S6 ribosomal protein S6. MRP17 protein is a compon	99.97
PF01250	92	Ribosomal_S6: Ribosomal protein S6; InterPro: IPR0	99.97
KOG4708	141	consensus Mitochondrial ribosomal protein MRP17 [T	99.92
PRK14074	257	rpsF 30S ribosomal protein S6; Provisional	99.83
PRK14074	257	rpsF 30S ribosomal protein S6; Provisional	98.37

>CHL00123 rps6 ribosomal protein S6; Validated

Probab=99.98  E-value=6.6e-32  Score=194.20  Aligned_cols=92  Identities=26%  Similarity=0.443  Sum_probs=88.7

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      |+.||+|+|++|++++++++++++++.++|.++||.|.++++||+|+|||||+|+    .+|+|++++|.++|+++++|+
T Consensus         5 mr~YE~~~Il~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~----~~G~Yv~~~f~~~~~~i~ele   80 (97)
T CHL00123          5 LNKYETMYLLKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKY----EDGIYIQMNYSGNGKLVNSLE   80 (97)
T ss_pred             ccceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCC----CEEEEEEEEEEECHHHHHHHH
Confidence            7899999999999999999999999999999999999999999999999999985    499999999999999999995


Q ss_pred             -hhhccCCeeEEEEEec
Q 031985           81 -YLNKEDRLLRWLLVKH   96 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~   96 (149)
                       .|+++++||||+++|.
T Consensus        81 r~lri~e~VlR~m~vk~   97 (97)
T CHL00123         81 KALKLDENVLRYLTFKK   97 (97)
T ss_pred             HHhCCCCCeEEEEEEeC
Confidence             8999999999999983

>PRK00453 rpsF 30S ribosomal protein S6; Reviewed

Probab=99.97  E-value=9.5e-32  Score=195.72  Aligned_cols=100  Identities=24%  Similarity=0.475  Sum_probs=94.5

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      ||+||+|+|++|.++++++++++++++++|.++||+|+++++||+|+|||+|+|+    .+|+|++|+|.++|+++++|+
T Consensus         1 M~~YE~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~i~~~~~~G~r~LAY~I~k~----~~G~Y~~~~f~~~~~~i~el~   76 (108)
T PRK00453          1 MRKYEIVFILRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRRRLAYPINKL----RKGHYVLLNFEAPPAAIAELE   76 (108)
T ss_pred             CCceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEecccccccceEcCCC----cEEEEEEEEEEeCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999985    499999999999999999996


Q ss_pred             -hhhccCCeeEEEEEeccCcccchh
Q 031985           81 -YLNKEDRLLRWLLVKHRGMKNGKE  104 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~~~~~~~~~  104 (149)
                       .|++|++||||+++|+++......
T Consensus        77 ~~l~~~~~VlR~~~vk~~~~~~~~~  101 (108)
T PRK00453         77 RLFRINEDVLRFLTVKVEEAEEEPS  101 (108)
T ss_pred             HHhCCCCCeEEEEEEEecccccccC
Confidence             899999999999999988654444

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

Probab=99.97  E-value=1.7e-31  Score=197.00  Aligned_cols=103  Identities=23%  Similarity=0.443  Sum_probs=97.0

Q ss_pred             CceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH-
Q 031985            2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ-   80 (149)
Q Consensus         2 ~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~-   80 (149)
                      ++||+|||++|+++++++.++++++.++|+.+||+|.++++||+|+|||+|+|+.    +|+|++|+|.|+|++++||+ 
T Consensus         1 ~~YEi~~iv~p~~see~~~~~ve~~~~~l~~~gg~i~~~e~wG~R~LAY~IkK~~----~g~Y~l~~f~~~~~~i~Eler   76 (112)
T COG0360           1 RKYEIVFIVRPDLSEEQVAALVEKYKGVLTNNGGEIHKVEDWGKRRLAYPIKKLR----EGHYVLMNFEAEPAAIAELER   76 (112)
T ss_pred             CceEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEehhhhhhhhcceecccc----eEEEEEEEEEcCHHHHHHHHH
Confidence            4799999999999999999999999999999999999999999999999999975    89999999999999999995 


Q ss_pred             hhhccCCeeEEEEEeccCcccchhhhhh
Q 031985           81 YLNKEDRLLRWLLVKHRGMKNGKEARYA  108 (149)
Q Consensus        81 ~lr~de~VLR~l~vK~~~~~~~~~~~~e  108 (149)
                      .|++|++|||||+||.+..+..++++..
T Consensus        77 ~~rin~~VlR~liik~~~~~~~~~~~~~  104 (112)
T COG0360          77 LLRINEDVLRHLIIKVEKAKEELSPMLK  104 (112)
T ss_pred             HhccchhhheeeEEEechhhcccchhhh
Confidence            8999999999999999998777777653

>TIGR00166 S6 ribosomal protein S6

Probab=99.97  E-value=7.9e-31  Score=186.35  Aligned_cols=91  Identities=21%  Similarity=0.380  Sum_probs=86.8

Q ss_pred             CceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH-
Q 031985            2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ-   80 (149)
Q Consensus         2 ~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~-   80 (149)
                      +.||+|+|++|+++++ +++++++++++|.++||+|+++++||.|+|||||+|+    .+|+|++|+|+++|+++++|+ 
T Consensus         1 ~~YE~~~Il~p~~~~~-~~~~~~~~~~~i~~~gg~i~~~~~~G~r~LaY~I~k~----~~G~Y~~~~f~~~~~~i~el~~   75 (93)
T TIGR00166         1 RHYEIIFLVRPTLSEE-VKGQIERYKKVITLNGAEIVRSEDWGKRRLAYPIKKQ----LRAHYVLMNFSGEAQVIKEFER   75 (93)
T ss_pred             CceeEEEEECCCCcHH-HHHHHHHHHHHHHhCCCEEEEEEeecceecceEcCCC----ceEEEEEEEEEeCHHHHHHHHH
Confidence            5799999999999888 9999999999999999999999999999999999985    599999999999999999996 


Q ss_pred             hhhccCCeeEEEEEecc
Q 031985           81 YLNKEDRLLRWLLVKHR   97 (149)
Q Consensus        81 ~lr~de~VLR~l~vK~~   97 (149)
                      .|++|++||||+++|.+
T Consensus        76 ~lr~~~~VlR~~~vk~~   92 (93)
T TIGR00166        76 TARINDNVIRSLIIKLE   92 (93)
T ss_pred             HhcCCcCeEEEEEEEec
Confidence            89999999999999974

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

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

Probab=99.97  E-value=1.8e-30  Score=183.37  Aligned_cols=91  Identities=31%  Similarity=0.591  Sum_probs=86.2

Q ss_pred             CceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH-
Q 031985            2 PLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ-   80 (149)
Q Consensus         2 ~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~-   80 (149)
                      +.||+|+|++|+++++++++++++++++|.++||+|+++++||.|+|||+|+|+    .+|+|++++|+++|+++++|+ 
T Consensus         1 r~YE~~~il~~~~~~~~~~~~~~~~~~~i~~~gg~v~~~~~~G~r~LaY~i~k~----~~G~Y~~~~f~~~~~~i~el~~   76 (92)
T PF01250_consen    1 RKYELMFILRPDLSEEEIKKLIERVKKIIEKNGGVVRSVENWGKRRLAYPIKKQ----KEGHYFLFNFDASPSAIKELER   76 (92)
T ss_dssp             EEEEEEEEE-TTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEEESSEETTE----CEEEEEEEEEEESTTHHHHHHH
T ss_pred             CceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEEeecccccCCCCC----CEEEEEEEEEEeCHHHHHHHHH
Confidence            579999999999999999999999999999999999999999999999999985    699999999999999999996 


Q ss_pred             hhhccCCeeEEEEEec
Q 031985           81 YLNKEDRLLRWLLVKH   96 (149)
Q Consensus        81 ~lr~de~VLR~l~vK~   96 (149)
                      .|+++++||||++||.
T Consensus        77 ~l~~~~~VlR~~~vK~   92 (92)
T PF01250_consen   77 KLRLDEDVLRYLIVKK   92 (92)
T ss_dssp             HHHTSTTEEEEEEEE-
T ss_pred             HhcCCCCeEEEEEEeC
Confidence            8999999999999984

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=99.92  E-value=3.1e-26  Score=173.46  Aligned_cols=102  Identities=42%  Similarity=0.764  Sum_probs=94.8

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      ||+||+++|+++...++ ++.++.|.+..+...||+|++|+++|.|.|||+|+|++++|++|+||+|.|.++|++..|+.
T Consensus         3 mp~yelali~~~~~rpe-la~~l~rt~~~lid~ngVvrdveslG~r~Lpy~i~K~~~~h~~g~~f~m~f~ss~~v~~ei~   81 (141)
T KOG4708|consen    3 MPLYELALITRSLSRPE-LAKLLARTGGHLIDRNGVVRDVESLGKRELPYKIKKLDQRHYRGQHFLMTFYSSPAVQSEIK   81 (141)
T ss_pred             chHHHHHHHhcccCCHH-HHHHHHHHhhHHhhcCCeEeechhcchhhhcchHHHhcCccccceEEEEeecCCHHHHHHHH
Confidence            89999999999986555 78899999999999999999999999999999999999999999999999999999999995


Q ss_pred             -hhhccCCeeEEEEEeccCcccch
Q 031985           81 -YLNKEDRLLRWLLVKHRGMKNGK  103 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~~~~~~~~  103 (149)
                       .|+.|.+||||++||+++.+...
T Consensus        82 ~~l~~D~dviR~~IVKv~~~~~~~  105 (141)
T KOG4708|consen   82 RILKRDPDVIRWLIVKVDDIKQEQ  105 (141)
T ss_pred             HHHhcChhhHHhhheecccccccc
Confidence             79999999999999999865443

>PRK14074 rpsF 30S ribosomal protein S6; Provisional

Probab=99.83  E-value=1.2e-20  Score=154.32  Aligned_cols=88  Identities=19%  Similarity=0.268  Sum_probs=78.4

Q ss_pred             CCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH-hhhccCCeeEEE
Q 031985           14 VRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWL   92 (149)
Q Consensus        14 l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~-~lr~de~VLR~l   92 (149)
                      +.+++++++++++.++|+++|  +.++++||+|+|||||+|.    .+|+|++++|.|+|+++++|+ .||++++|||||
T Consensus       160 v~PDQveevvEkik~iIe~~G--iikvE~WGkRkLAYpIkK~----~eGyYvL~nFeAep~aIaELER~lRInE~VIRfL  233 (257)
T PRK14074        160 NGPNQSNKTLEMLLKNIEASG--LIKYEYWGLLDFAYPINKM----KSGHYCIMCISSTSSIMDEFVRRMKLNENIIRHL  233 (257)
T ss_pred             CCHHHHHHHHHHHHHHHHhcC--eeehHhhcchhhccccCCC----CeEEEEEEEEEcCHHHHHHHHHHhcCccceeeEE
Confidence            345688999999999999995  5699999999999999985    599999999999999999995 899999999999


Q ss_pred             EEeccCcccchhhhh
Q 031985           93 LVKHRGMKNGKEARY  107 (149)
Q Consensus        93 ~vK~~~~~~~~~~~~  107 (149)
                      +||+++...+++++.
T Consensus       234 tVKlDe~~~~pSpim  248 (257)
T PRK14074        234 SVQVDKFFEGKSYMM  248 (257)
T ss_pred             EEeeccccccCChhh
Confidence            999998776666543

>PRK14074 rpsF 30S ribosomal protein S6; Provisional

Probab=98.37  E-value=3.6e-07  Score=75.44  Aligned_cols=48  Identities=13%  Similarity=0.173  Sum_probs=46.3

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeeccccccc
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQL   48 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~L   48 (149)
                      ||+||.+||++|+++..++..+++.++.++.++||.|.+.+.||.+.-
T Consensus         1 m~lYE~~fIa~q~ls~~q~e~l~e~~~~~l~~~~~~v~~~e~wG~~~~   48 (257)
T PRK14074          1 MNLYEFTFIAQQGLLQQEVEEMVQELAVLLKNIKADVMFQQIKGILEK   48 (257)
T ss_pred             CCccceeeeecccccHHHHHHHHHHHHHHHHhcCCeeehhhhhhhhhc
Confidence            999999999999999999999999999999999999999999998753

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	149
3bbn_F	168	Ribosomal protein S6; small ribosomal subunit, spi	5e-05
1cqm_A	101	Ribosomal protein S6; alzheimer disease, oligomeri	4e-04
3r3t_A	99	30S ribosomal protein S6; structural genomics, cen	7e-04

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

 Score = 40.3 bits (94), Expect = 5e-05
 Identities = 19/101 (18%), Positives = 42/101 (41%), Gaps = 6/101 (5%)

Query: 1   MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKK-----L 55
           +  Y+ M +L+P + ++  + L  +  + +     +  ++ + G + L Y IK+      
Sbjct: 62  LRQYETMAVLRPDMTEDERLTLTQKYEELLVAGGAMYVEVFNRGVIPLAYSIKRKNKAGE 121

Query: 56  DGRYYQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVK 95
              Y  G  +  T  + P     L+  L  +D ++R    K
Sbjct: 122 TNNYLDGIYLLFTYFTKPESISPLEAALVTDDDVIRSSSFK 162

>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 = 36.4 bits (85), Expect = 4e-04
 Identities = 17/97 (17%), Positives = 36/97 (37%), Gaps = 7/97 (7%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKL-DGRY 59
          M  Y+  ++L P++ +  L      + + +      +  +   G  +L Y I K   G +
Sbjct: 1  MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVAILGLRRLAYPIAKDPQGYF 60

Query: 60 YQGQLMQMTMMSTPNINKELQY-LNKEDRLLRWLLVK 95
                   +    +   +L   L   D + R ++VK
Sbjct: 61 L-----WYQVEMPEDRVNDLARELRIRDNVRRVMVVK 92

>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 = 36.0 bits (84), Expect = 7e-04
 Identities = 23/97 (23%), Positives = 42/97 (43%), Gaps = 7/97 (7%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKL-DGRY 59
          M  Y+ M +++P V +E+   LV R    +      + +   +G  +L Y I  L +G Y
Sbjct: 4  MRKYEIMYIIRPGVEEEAQKALVERFAGVLTNNGAEIINTKEWGKRRLAYEINDLREGFY 63

Query: 60 YQGQLMQMTMMSTPNINKELQYLNK-EDRLLRWLLVK 95
                 + + +      E   L K  + +LR ++VK
Sbjct: 64 M-----ILNVNANAEAINEFDRLAKINEDILRHIVVK 95

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	149
1cqm_A	101	Ribosomal protein S6; alzheimer disease, oligomeri	100.0
2j5a_A	110	30S ribosomal protein S6; ribonucleoprotein, RIBO	100.0
3r8n_F	100	30S ribosomal protein S6; protein biosynthesis, RN	100.0
3bbn_F	168	Ribosomal protein S6; small ribosomal subunit, spi	100.0
3r3t_A	99	30S ribosomal protein S6; structural genomics, cen	100.0
3i1m_F	135	30S ribosomal protein S6; ribosome structure, prot	100.0
1vmb_A	140	30S ribosomal protein S6; TM0603, structural genom	99.98
2kjw_A	96	TS9, 30S ribosomal protein S6; S6 permutant, solut	99.76
3zzp_A	77	TS9, ribosomal protein S6; protein folding, RNA-bi	99.11
2kjw_A	96	TS9, 30S ribosomal protein S6; S6 permutant, solut	98.84
3zzp_A	77	TS9, ribosomal protein S6; protein folding, RNA-bi	98.51

>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=100.00  E-value=4.9e-35  Score=210.34  Aligned_cols=97  Identities=19%  Similarity=0.237  Sum_probs=92.7

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      ||+||+|+|++|+++++++++++++++++|+++||+|+++++||+|+|||+|+|+    .+|+|++|+|+|+|+++++|+
T Consensus         1 M~~YE~~~Il~p~l~~e~~~~~~~~~~~~i~~~gg~i~~~e~wG~R~LAY~I~k~----~~G~Y~l~~f~a~~~~i~ele   76 (101)
T 1cqm_A            1 MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVAILGLRRLAYPIAKD----PQGYFLWYQVEMPEDRVNDLA   76 (101)
T ss_dssp             CEEEEEEEEECTTCCHHHHHHHHHHHHHHHHHTTCEEEEEEEEEEEEEEEEETTE----EEEEEEEEEEEECHHHHHHHH
T ss_pred             CCceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCcccccCcCCC----CEEEEEEEEEEeChHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999984    699999999999999999996


Q ss_pred             -hhhccCCeeEEEEEeccCccc
Q 031985           81 -YLNKEDRLLRWLLVKHRGMKN  101 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~~~~~~  101 (149)
                       .|++|++||||++||+++...
T Consensus        77 r~lr~~~~VlR~l~vk~~~~~~   98 (101)
T 1cqm_A           77 RELRIRDNVRRVMVVKSQEPFL   98 (101)
T ss_dssp             HHHHTSTTEEEEEEEECSSCCC
T ss_pred             HHhcCCcceEEEEEEEeccccc
Confidence             799999999999999987543

>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=100.00  E-value=4.8e-34  Score=208.20  Aligned_cols=97  Identities=20%  Similarity=0.454  Sum_probs=92.3

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEe-CcchHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMS-TPNINKEL   79 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a-~p~~v~EL   79 (149)
                      ||+||+|+|++|++++++++++++++.++|+++||+|+++++||+|+|||+|+|+    .+|+|++|+|+| +|+++++|
T Consensus         7 M~~YE~~~Il~p~l~~e~~~~~v~~~~~~i~~~Gg~i~~~e~wG~R~LAY~I~K~----~~G~Y~l~~f~a~~~~~i~el   82 (110)
T 2j5a_A            7 LRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKF----NNARYFLVQFKTENPQLPNEL   82 (110)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEECSSCSSSC----SEEEEEEEEEEESCTTHHHHH
T ss_pred             CCcceEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCcccccCcCCC----CEEEEEEEEEEeCCHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999985    499999999999 99999999


Q ss_pred             H-hhhccCCeeEEEEEeccCccc
Q 031985           80 Q-YLNKEDRLLRWLLVKHRGMKN  101 (149)
Q Consensus        80 ~-~lr~de~VLR~l~vK~~~~~~  101 (149)
                      + .|++|++||||++||+++...
T Consensus        83 er~lr~~e~VlR~livk~~~~~~  105 (110)
T 2j5a_A           83 DFQLKIDEDVIRWLNIQIKESEV  105 (110)
T ss_dssp             HHHHHHCTTEEEEEEEEECGGGC
T ss_pred             HHHhCCCcCeEEEEEEEcccccc
Confidence            6 799999999999999986543

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

Probab=100.00  E-value=8.9e-34  Score=220.63  Aligned_cols=101  Identities=21%  Similarity=0.401  Sum_probs=97.2

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCc-----cceeeEEEEEEEEEeCcch
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLD-----GRYYQGQLMQMTMMSTPNI   75 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~-----~~~~~G~Y~~~~f~a~p~~   75 (149)
                      ||.||+|+|++|++++++++++++++.++|+++||+|+++++||+|+|||+|+|++     ++|++|+|++|+|+|+|++
T Consensus        62 Mr~YE~m~IlrPdl~eeev~alver~~~iI~~~GG~I~~ve~WG~RrLAY~IkK~~kgg~~~~h~eG~Yvlm~F~a~p~~  141 (168)
T 3bbn_F           62 LRQYETMAVLRPDMTEDERLTLTQKYEELLVAGGAMYVEVFNRGVIPLAYSIKRKNKAGETNNYLDGIYLLFTYFTKPES  141 (168)
T ss_dssp             CEEEEEEEEECTTSCHHHHHSTTHHHHHHHTTTSCEEEEEEEEEECCCSSCTTSCSSSCSSCCCCCCEEEEEEEEECTTS
T ss_pred             CCceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEecccccccceeccCcccccccccceEEEEEEEEEeCHHH
Confidence            89999999999999999999999999999999999999999999999999999998     7899999999999999999


Q ss_pred             HHHHH-hhhccCCeeEEEEEeccCccc
Q 031985           76 NKELQ-YLNKEDRLLRWLLVKHRGMKN  101 (149)
Q Consensus        76 v~EL~-~lr~de~VLR~l~vK~~~~~~  101 (149)
                      ++||+ .|++|++||||++||+++.+|
T Consensus       142 I~ELeR~Lride~VLR~liVK~d~~k~  168 (168)
T 3bbn_F          142 ISPLEAALVTDDDVIRSSSFKIRKRKY  168 (168)
T ss_dssp             SHHHHHHHHTSSCCSEEECCBCCSCCC
T ss_pred             HHHHHHHhcCCcCeeEEEEEecccccC
Confidence            99996 899999999999999997654

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

Probab=100.00  E-value=7e-35  Score=208.99  Aligned_cols=94  Identities=22%  Similarity=0.421  Sum_probs=90.3

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      ||.||+|+|++|++++++++++++++.++|+++||+|+++++||+|+|||+|+|+    .+|+|++|+|+|+|++++||+
T Consensus         4 M~~YE~~~Il~p~~~~e~~~~~~~~~~~~i~~~gg~i~~~e~wG~R~LAY~I~k~----~~G~Y~l~~f~a~~~~i~ele   79 (99)
T 3r3t_A            4 MRKYEIMYIIRPGVEEEAQKALVERFAGVLTNNGAEIINTKEWGKRRLAYEINDL----REGFYMILNVNANAEAINEFD   79 (99)
T ss_dssp             CCCCCCCCCCCTTSCHHHHHHHHHHHHHHHHTTTCCCCCCCCCCSCCCCCCCCCC----CCSCCCCCCCCCCHHHHHHHH
T ss_pred             CcceeEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEeeccccCcCcCCC----CEEEEEEEEEEeCHHHHHHHH
Confidence            8999999999999999999999999999999999999999999999999999985    499999999999999999996


Q ss_pred             -hhhccCCeeEEEEEeccC
Q 031985           81 -YLNKEDRLLRWLLVKHRG   98 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~~~   98 (149)
                       .|++|++||||++||+++
T Consensus        80 r~lr~~~~VlR~livk~~~   98 (99)
T 3r3t_A           80 RLAKINEDILRHIVVKEEE   98 (99)
T ss_dssp             HHHHHCTTCCCCCCCCCC-
T ss_pred             HHhcCCCCeEEEEEEEecC
Confidence             899999999999999875

>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=100.00  E-value=1.2e-33  Score=213.17  Aligned_cols=102  Identities=19%  Similarity=0.385  Sum_probs=94.7

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      ||+||+|||++|+++ ++++++++++.++|+++||+|+++++||+|+|||+|+|+    .+|+|++|+|.|+|+++++|+
T Consensus         1 Mr~YE~~~Il~P~~~-e~v~~~ve~~~~~I~~~GG~I~~ve~wG~R~LAY~I~K~----~~G~Y~l~~f~a~~~~i~ELe   75 (135)
T 3i1m_F            1 MRHYEIVFMVHPDQS-EQVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKL----HKAHYVLMNVEAPQEVIDELE   75 (135)
T ss_dssp             CCEECBEEEECSTTT-TSHHHHHHHHHHHHHHTTCEECCCEEEEEECCSSCTTSS----SCEEEEECCEECCTTHHHHHH
T ss_pred             CCceEEEEEECCCch-HHHHHHHHHHHHHHHHCCCEEEEEEeeccccCceEcCCC----CeEEEEEEEEEeCHHHHHHHH
Confidence            999999999999998 799999999999999999999999999999999999985    499999999999999999996


Q ss_pred             -hhhccCCeeEEEEEeccCcccchhhhh
Q 031985           81 -YLNKEDRLLRWLLVKHRGMKNGKEARY  107 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~~~~~~~~~~~~  107 (149)
                       .|++|++||||++||+++...+.++|.
T Consensus        76 r~lri~e~VLR~livk~d~~~~~~s~~~  103 (135)
T 3i1m_F           76 TTFRFNDAVIRSMVMRTKHAVTEASPMV  103 (135)
T ss_dssp             HHHHHCSSEESCCBCCCSSCCCSCC---
T ss_pred             HHhcCCCCeEEEEEEEeccCccCCChhh
Confidence             899999999999999999877777654

>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=99.98  E-value=5.1e-33  Score=210.96  Aligned_cols=98  Identities=22%  Similarity=0.460  Sum_probs=92.8

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccC-CcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGR-NGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKEL   79 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~-GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL   79 (149)
                      |+.||+|||++|++++++++++++++.++|+++ ||+|+++++||+|+|||+|+|+    .+|+|++|+|.|+|+++++|
T Consensus        18 Mr~YE~~~Il~P~l~ee~v~~~ve~~~~~I~~~~GG~I~~ve~wG~R~LAY~I~K~----~~G~Yvl~~f~a~~~~i~EL   93 (140)
T 1vmb_A           18 ERIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKKF----NEGDYTVIYFRCDGQNLQEL   93 (140)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEEEEEEEETTE----EEEEEEEEEEEECSSSTHHH
T ss_pred             cccceEEEEECCCCCHHHHHHHHHHHHHHHHhcCCCEEEEEEeecCcccccccCCC----CEEEEEEEEEEECHHHHHHH
Confidence            899999999999999999999999999999999 9999999999999999999984    59999999999999999999


Q ss_pred             H-hhhccCCeeEEEEEeccCcccc
Q 031985           80 Q-YLNKEDRLLRWLLVKHRGMKNG  102 (149)
Q Consensus        80 ~-~lr~de~VLR~l~vK~~~~~~~  102 (149)
                      + .|++|++||||++||+++...+
T Consensus        94 er~lri~e~VLR~livK~~~~~~~  117 (140)
T 1vmb_A           94 ENFYRVTPEIIRWQTFRRFDLEKK  117 (140)
T ss_dssp             HHHHHTCTTEEEEEEEECHHHHHH
T ss_pred             HHHhcCCcceeEEEEEEecccccc
Confidence            5 7999999999999999875433

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

Probab=99.76  E-value=2.4e-19  Score=128.12  Aligned_cols=54  Identities=17%  Similarity=0.295  Sum_probs=53.1

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeeccccccccccccc
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKK   54 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK   54 (149)
                      |+.||+|+|++|++++++++++++++.++|+++||.|.++++||+|+|||+|+|
T Consensus        43 Mr~YE~m~Il~P~l~ee~~~~~ve~~~~iI~~~gG~i~~ve~WG~R~LAY~I~K   96 (96)
T 2kjw_A           43 PGRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAYPIAK   96 (96)
T ss_dssp             SSCEEEEEECCSSCCHHHHHHHHHHHHHHHHHHTCCCSCCEECCCCCCCCSCCC
T ss_pred             hhhhheeeeeCCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeccccccccccCCC
Confidence            899999999999999999999999999999999999999999999999999986

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

Probab=99.11  E-value=2.8e-11  Score=82.93  Aligned_cols=46  Identities=15%  Similarity=0.078  Sum_probs=41.1

Q ss_pred             eeEEEEEEEEEeCcchHHHHH-hhhccCCeeEEEEEeccC-cccchhh
Q 031985           60 YQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVKHRG-MKNGKEA  105 (149)
Q Consensus        60 ~~G~Y~~~~f~a~p~~v~EL~-~lr~de~VLR~l~vK~~~-~~~~~~~  105 (149)
                      .+|+|++|+|.|+|++++||+ .||++++|||||+||.++ .+|++-+
T Consensus         3 ~~G~Yvl~~~~a~~~~i~Eler~~rine~VlR~l~vr~d~~r~YE~m~   50 (77)
T 3zzp_A            3 PQGYTTWYQVEMPEDRVNDLARELRIRDNVRRVMVVASTTPGRYEVNI   50 (77)
T ss_dssp             -CTTEEEEEEECCHHHHHHHHHHHHTSTTEEEEEEEECSSTTEEEEEE
T ss_pred             ceEEEEEEEEEeCHhHHHHHHHHhCCCHHHHHHHHHhccCCCceEEEE
Confidence            489999999999999999996 899999999999999997 5676655

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

Probab=98.84  E-value=5.8e-10  Score=79.35  Aligned_cols=47  Identities=15%  Similarity=0.104  Sum_probs=40.2

Q ss_pred             eeeEEEEEEEEEeCcchHHHHH-hhhccCCeeEEEEEeccC-cccchhh
Q 031985           59 YYQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVKHRG-MKNGKEA  105 (149)
Q Consensus        59 ~~~G~Y~~~~f~a~p~~v~EL~-~lr~de~VLR~l~vK~~~-~~~~~~~  105 (149)
                      +.+|+|++|+|+|+|+++++|+ .+|++++|||||+|+++. ..|++-+
T Consensus         2 ~~~g~Y~~~~~~a~~~~v~eler~~r~~e~vlR~l~v~~e~Mr~YE~m~   50 (96)
T 2kjw_A            2 DPQGYFLWYQVEMPEDRVNDLARELRIRDNVRRVMVVASTTPGRYEVNI   50 (96)
T ss_dssp             TTSCCCEEECCCCCHHHHHHHHHHHHHCTTCSEEEEEECSSSSCEEEEE
T ss_pred             CceEEEEEEEeecChhHHHHHHHHhccchhhhhhhheehhhhhhhheee
Confidence            3589999999999999999996 899999999999999993 3444433

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

Probab=98.51  E-value=7.6e-08  Score=65.72  Aligned_cols=35  Identities=11%  Similarity=0.224  Sum_probs=33.6

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCc
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNG   35 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG   35 (149)
                      ++.||+|||++|++++++++++++++.++|+++||
T Consensus        43 ~r~YE~m~Il~P~l~ee~~~~~vek~~~~i~~~Gg   77 (77)
T 3zzp_A           43 PGRYEVNIVLNPNLDQSQLQNEKEIIQRALENYGA   77 (77)
T ss_dssp             TTEEEEEEEECTTCCHHHHHHHHHHHHHHHHHHTC
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHHHHHHHhcCC
Confidence            47899999999999999999999999999999998

---

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	149
d2qalf1	100	d.58.14.1 (F:1-100) Ribosomal protein S6 {Escheric	4e-09
d1loua_	97	d.58.14.1 (A:) Ribosomal protein S6 {Thermus therm	2e-08
d2j5aa1	106	d.58.14.1 (A:3-108) Ribosomal protein S6 {Aquifex	3e-07
d1vmba_	107	d.58.14.1 (A:) Ribosomal protein S6 {Thermotoga ma	6e-07

>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 = 49.0 bits (117), Expect = 4e-09
 Identities = 20/96 (20%), Positives = 43/96 (44%), Gaps = 6/96 (6%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
          M  Y+ + ++ P    E +  ++ R    + G  G +  +  +G  QL Y I KL   +Y
Sbjct: 1  MRHYEIVFMVHPDQ-SEQVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLHKAHY 59

Query: 61 QGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVK 95
              + M + +   +  EL+      D ++R ++++
Sbjct: 60 ----VLMNVEAPQEVIDELETTFRFNDAVIRSMVMR 91

>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 = 46.7 bits (111), Expect = 2e-08
 Identities = 17/96 (17%), Positives = 36/96 (37%), Gaps = 5/96 (5%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
          M  Y+  ++L P++ +  L      + +        +  +   G  +L Y I K    Y+
Sbjct: 1  MRRYEVNIVLNPNLDQSQLALEKEIIQRAAENYGARVEKVEELGLRRLAYPIAKDPQGYF 60

Query: 61 QGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVK 95
              +   +    +   +L   L   D + R ++VK
Sbjct: 61 ----LWYQVEMPEDRVNDLARELRIRDNVRRVMVVK 92

>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 = 44.0 bits (104), Expect = 3e-07
 Identities = 20/95 (21%), Positives = 45/95 (47%), Gaps = 2/95 (2%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYY 60
          +  Y+ +  +KP + +E + +   +V + +  + G +     +G  QL Y I+K +   Y
Sbjct: 5  LRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKFNNARY 64

Query: 61 QGQLMQMTMMSTPNINKELQYLNKEDRLLRWLLVK 95
             L+Q    +    N+    L  ++ ++RWL ++
Sbjct: 65 --FLVQFKTENPQLPNELDFQLKIDEDVIRWLNIQ 97

>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 = 43.2 bits (102), Expect = 6e-07
 Identities = 22/97 (22%), Positives = 41/97 (42%), Gaps = 6/97 (6%)

Query: 1  MPLYDCMLLLKPHVRKESLMELVARVGKHVYGR-NGVLTDITSFGTVQLGYGIKKLDGRY 59
            +Y+ M ++ P+V +E    LV RV K +  R  G +  +   G  +  Y IKK    +
Sbjct: 2  ERIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKK----F 57

Query: 60 YQGQLMQMTMMSTPNINKELQ-YLNKEDRLLRWLLVK 95
           +G    +         +EL+ +      ++RW   +
Sbjct: 58 NEGDYTVIYFRCDGQNLQELENFYRVTPEIIRWQTFR 94

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	149
d1loua_	97	Ribosomal protein S6 {Thermus thermophilus [TaxId:	99.98
d2j5aa1	106	Ribosomal protein S6 {Aquifex aeolicus [TaxId: 633	99.97
d1vmba_	107	Ribosomal protein S6 {Thermotoga maritima [TaxId:	99.97
d2qalf1	100	Ribosomal protein S6 {Escherichia coli [TaxId: 562	99.97
d1sc6a3	84	Phosphoglycerate dehydrogenase, regulatory (C-term	83.29

>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=99.98  E-value=9.3e-33  Score=194.89  Aligned_cols=95  Identities=19%  Similarity=0.262  Sum_probs=91.6

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      |+.||+|+|++|++++++++++++++.++|+++||+|.++++||+|+|||+|+|+    .+|+|++++|.++|+++++|+
T Consensus         1 M~~YE~~~i~~p~l~~~~~~~~~~~~~~~i~~~gg~i~~~e~~G~r~LAY~I~k~----~~G~Y~~~~f~~~~~~i~el~   76 (97)
T d1loua_           1 MRRYEVNIVLNPNLDQSQLALEKEIIQRAAENYGARVEKVEELGLRRLAYPIAKD----PQGYFLWYQVEMPEDRVNDLA   76 (97)
T ss_dssp             CEEEEEEEEECTTCCHHHHHHHHHHHHHHHHHTTCEEEEEEEEEEEEEEEEETTE----EEEEEEEEEEEECGGGHHHHH
T ss_pred             CCcceEEEEECCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeeeEEEecccccccc----ceeEEEEEEEEeCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999974    699999999999999999996


Q ss_pred             -hhhccCCeeEEEEEeccCc
Q 031985           81 -YLNKEDRLLRWLLVKHRGM   99 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~~~~   99 (149)
                       .|+++++||||++||++++
T Consensus        77 ~~l~l~~~VlR~l~vk~~e~   96 (97)
T d1loua_          77 RELRIRDNVRRVMVVKSQEP   96 (97)
T ss_dssp             HHHHTSTTEEEEEEEECSSC
T ss_pred             HHhcCCcCeEEEEEEEecCC
Confidence             8999999999999998864

>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=99.97  E-value=1.7e-31  Score=191.36  Aligned_cols=95  Identities=20%  Similarity=0.464  Sum_probs=90.3

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeC-cchHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMST-PNINKEL   79 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~-p~~v~EL   79 (149)
                      ||.||+|+|++|++++++++++++++.++|+++||.|.++++||+|+|||+|+|+    .+|+|++++|.++ |+++++|
T Consensus         5 Mr~YE~~~Il~p~l~~~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~Ikk~----~~G~Y~~~~f~~~~~~~i~el   80 (106)
T d2j5aa1           5 LRYYETVFAVKPTLSEEEMKKKFEQVKEFIKQKGGEILYEEDWGMRQLAYPIQKF----NNARYFLVQFKTENPQLPNEL   80 (106)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEEEEEECSSCSSSC----SEEEEEEEEEEESCTTHHHHH
T ss_pred             cccccEEEEECCCCCHHHHHHHHHHHHHHHHHCCCeEEEEecceeechhhhhhhc----cceEEEEEEEEECcHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999985    4999999999996 6788999


Q ss_pred             H-hhhccCCeeEEEEEeccCc
Q 031985           80 Q-YLNKEDRLLRWLLVKHRGM   99 (149)
Q Consensus        80 ~-~lr~de~VLR~l~vK~~~~   99 (149)
                      + .|+++++||||++||+++.
T Consensus        81 ~~~l~l~~~VlR~l~vkl~~~  101 (106)
T d2j5aa1          81 DFQLKIDEDVIRWLNIQIKES  101 (106)
T ss_dssp             HHHHHHCTTEEEEEEEEECGG
T ss_pred             HHHhCCCcCeeEEEEEEecch
Confidence            5 8999999999999999864

>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=99.97  E-value=3.5e-31  Score=190.12  Aligned_cols=94  Identities=23%  Similarity=0.477  Sum_probs=89.9

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccC-CcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGR-NGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKEL   79 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~-GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL   79 (149)
                      ||+||+|+|++|+++++++.++++++.++|+++ ||.|.++++||+|+|||+|+|    +.+|+|++|+|.++|+++++|
T Consensus         2 ~R~YE~~~Il~p~l~~~~~~~~~~~~~~~i~~~~gg~i~~~e~wG~r~LAY~I~k----~~~G~Y~~~~f~~~~~~i~el   77 (107)
T d1vmba_           2 ERIYESMFIIAPNVPEEERENLVERVKKIIEERVKGKIDKVERMGMRKFAYEIKK----FNEGDYTVIYFRCDGQNLQEL   77 (107)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHHHHHHTTCCEEEEEEEEEEEEEEEEETT----EEEEEEEEEEEEECSSSTHHH
T ss_pred             CceeEEEEEECCCCCHHHHHHHHHHHHHHHHhcCCCEEEEEEeeeeeccceEcCC----CcEEEEEEEEEEECHHHHHHH
Confidence            799999999999999999999999999999986 999999999999999999997    469999999999999999999


Q ss_pred             H-hhhccCCeeEEEEEeccC
Q 031985           80 Q-YLNKEDRLLRWLLVKHRG   98 (149)
Q Consensus        80 ~-~lr~de~VLR~l~vK~~~   98 (149)
                      + .|+++++||||++||+++
T Consensus        78 ~~~l~l~~~VlR~livk~~~   97 (107)
T d1vmba_          78 ENFYRVTPEIIRWQTFRRFD   97 (107)
T ss_dssp             HHHHHTCTTEEEEEEEECHH
T ss_pred             HHHhcCCcCeEEEEEEEccc
Confidence            5 899999999999999875

>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=99.97  E-value=4.5e-32  Score=192.46  Aligned_cols=95  Identities=19%  Similarity=0.424  Sum_probs=90.2

Q ss_pred             CCceeEEEEEcCCCCHHHHHHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHHH
Q 031985            1 MPLYDCMLLLKPHVRKESLMELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKELQ   80 (149)
Q Consensus         1 M~~YE~~~Ilrp~l~~e~~~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL~   80 (149)
                      ||.||+|+|++|++++ +++++++++.++|+++||.|.++++||+|+|||+|+|+.    +|+|++++|.++|+++++|+
T Consensus         1 M~~YE~~~Il~p~~~e-~~~~~~~~~~~~i~~~gg~v~~~~~~G~r~LAY~I~k~~----~G~Y~~~~f~~~~~~i~el~   75 (100)
T d2qalf1           1 MRHYEIVFMVHPDQSE-QVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLH----KAHYVLMNVEAPQEVIDELE   75 (100)
T ss_dssp             CCEECEEEEECGGGTT-HHHHHHHHHHHHHHHTTCCCCCCCCCBSCBCSSCTTSCS----BCBBCCCCEECCHHHHHHHH
T ss_pred             CCcceEEEEECCCcHH-HHHHHHHHHHHHHHhCCCEEEEEeeeeeeecccccccCC----eeEEEEEEEecCHHHHHHHH
Confidence            9999999999999875 789999999999999999999999999999999999864    99999999999999999996


Q ss_pred             -hhhccCCeeEEEEEeccCcc
Q 031985           81 -YLNKEDRLLRWLLVKHRGMK  100 (149)
Q Consensus        81 -~lr~de~VLR~l~vK~~~~~  100 (149)
                       .|+++++||||++||.++..
T Consensus        76 ~~l~~~~~VlR~l~vk~~~~~   96 (100)
T d2qalf1          76 TTFRFNDAVIRSMVMRTKHAV   96 (100)
T ss_dssp             HHTTSCTTEEEEEECCCSSCC
T ss_pred             HHhcCccCeeEEEEEEeccCc
Confidence             89999999999999998754

>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=83.29  E-value=3.1  Score=25.86  Aligned_cols=60  Identities=8%  Similarity=0.008  Sum_probs=46.6

Q ss_pred             HHHHHHHHhhhccCCcEEEeeecccccccccccccCccceeeEEEEEEEEEeCcchHHHH-HhhhccCCeeEEEE
Q 031985           20 MELVARVGKHVYGRNGVLTDITSFGTVQLGYGIKKLDGRYYQGQLMQMTMMSTPNINKEL-QYLNKEDRLLRWLL   93 (149)
Q Consensus        20 ~~lv~r~~~~I~~~GG~V~~ve~wG~R~LAY~IkK~~~~~~~G~Y~~~~f~a~p~~v~EL-~~lr~de~VLR~l~   93 (149)
                      -.++.++.+++.++|..|..... |         ..    .+|.|.+|.+........++ +.++.-+.|||.-+
T Consensus        22 PGvla~I~~~l~~~~iNI~~~~~-~---------~~----~~~~~a~~~i~~D~~~~~~v~~~i~~l~~Vi~vR~   82 (84)
T d1sc6a3          22 PGVLTALNKIFAEQGVNIAAQYL-Q---------TS----AQMGYVVIDIEADEDVAEKALQAMKAIPGTIRARL   82 (84)
T ss_dssp             TTHHHHHHHHHHHTTCEEEEEEE-E---------EC----SSEEEEEEEEECCHHHHHHHHHHHHTSTTEEEEEE
T ss_pred             CCHHHHHHHHHHHcCCCHHHhcc-c---------cC----CCCcEEEEEEECCCCCHHHHHHHHHCCCCEEEEEE
Confidence            34678999999999999988644 2         11    26778999999887778887 68999899998644