Citrus Sinensis ID: 042358

---

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---
Protein Sequence
ATFALYVYPSSTMAMSPAISPLTSSLSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAELETTDLKKYVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIMES
Secondary Structure (PSIPRED)
ccEEEEEccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccHHcccccccccccccHHHHHHcccccccccccEEEccccccccEEEEEEEccccEEEEccccHHccccccHHHHHHHHHHHHHHcccccccEEEEEccccHHHHHHHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEccccHHHHHHHcccHHHHHHHHHHcccccccccHHHHHcccccccccccccHHHHHHHHHccccccHHHHHHcHHHHHHHHccccccEEEEEccccccccEEEEEEEccccEEEEccccHHHHccccHHHHHHHcccEEEEcccccEEEEEEEcccccccHHHHHHHHHHHHHHHccHHHcHHHcc
Coil and Loop (DISEMBL)
atfalyvypsstmamspaispltsslsslsfssqisqkpgipfvslhrsksisispkndktpklVVSATeaapaeleTTDLKKYVKsrlpggfaaqtifgtgrrKCAIARVVLQEGTGKFIINYRDAkeylqgnplwlQYIKVPLVTLGYETSYDVFVkahggglsgqAQAITLGVARALLKFCtsvpgimes
Flexible Loop (DISEMBL)
ATFALYVYPSSTMAMSPAISPLTSSLSSLSFSSQISQKPGIPFVSLHRSKSisispkndktpklVVSAteaapaelettdlKKYVKSRLPGgfaaqtifgtgrrKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCtsvpgimes
Low Complexity Region (SEG)
ATFALYVYPSSTMAMspaispltsslsslsfssqisqKPGIPFVSLHRSKSISISPKNDKTPKLVVSateaapaelettDLKKYVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIMES
Disordered region (IsUnstruct)
****LYVY***********************************************************************DLKKYVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVP*****
Disordered Region (DISOPRED)
*TFALYVYPSSTMAMSPAISPLTSSLSSL****************************************************************AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIM**
Disordered Region (DISEMBL)
ATFALYVYPSSTMAMSPAISPLTSSLSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAELETTDLKKYVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIMES
Disordered Region (DISPRO)
ATFALYVYPSSTMAMSPAISPLTSSLSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAELETTDLKKYVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIME*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
ATFALYVYPSSTMAMSPAISPLTSSLSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAELETTDLKKYVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIMES
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	193	2.2.26 [Sep-21-2011]
P82278	197	30S ribosomal protein S9,	N/A	no	0.818	0.802	0.717	6e-59
Q9XJ27	208	30S ribosomal protein S9,	yes	no	0.720	0.668	0.765	5e-56
Q8DMK7	137	30S ribosomal protein S9	yes	no	0.440	0.620	0.576	2e-22
B2ITM7	138	30S ribosomal protein S9	yes	no	0.440	0.615	0.564	1e-20
Q2JUJ9	137	30S ribosomal protein S9	yes	no	0.424	0.598	0.609	2e-20
B1XJI0	137	30S ribosomal protein S9	yes	no	0.440	0.620	0.541	4e-20
Q2JL70	136	30S ribosomal protein S9	yes	no	0.424	0.602	0.609	4e-20
B1WQT9	137	30S ribosomal protein S9	yes	no	0.445	0.627	0.546	1e-19
B0JY34	137	30S ribosomal protein S9	yes	no	0.445	0.627	0.534	2e-19
Q8YPK7	138	30S ribosomal protein S9	yes	no	0.440	0.615	0.552	4e-19

>sp|P82278|RR9_SPIOL 30S ribosomal protein S9, chloroplastic (Fragment) OS=Spinacia oleracea GN=PRPS9 PE=1 SV=1

 Score =  226 bits (577), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 117/163 (71%), Positives = 134/163 (82%), Gaps = 5/163 (3%)

Query: 26  LSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEA-APAEL-ETTDLKK 83
            +SLSF+S ++ KP    + + R+K  S+S      P LV++AT A AP E+ ET DL+K
Sbjct: 1   FASLSFTSNLTPKPQT--LPMARTKPFSLSNPAVVKP-LVITATSATAPVEVAETADLEK 57

Query: 84  YVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKV 143
           +VKSRLPGGFAAQT+ GTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQY+K 
Sbjct: 58  FVKSRLPGGFAAQTVIGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYVKT 117

Query: 144 PLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTS 186
           PL TLGYET+YDVFVKAHGGGLSGQAQAI+LGVARALLK   S
Sbjct: 118 PLATLGYETNYDVFVKAHGGGLSGQAQAISLGVARALLKVSAS 160

Binds directly to 16S ribosomal RNA.
Spinacia oleracea (taxid: 3562)

>sp|Q9XJ27|RR9_ARATH 30S ribosomal protein S9, chloroplastic OS=Arabidopsis thaliana GN=RPS9 PE=2 SV=1

 Score =  216 bits (551), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 108/141 (76%), Positives = 119/141 (84%), Gaps = 2/141 (1%)

Query: 44  VSLHRSKSISISP-KNDKTPKLVVSATEAAP-AELETTDLKKYVKSRLPGGFAAQTIFGT 101
           +S  R+ S+   P K+ +   L ++AT +AP  E E  +LKKYVKSRLPGGFAAQ I GT
Sbjct: 27  ISFPRANSVFALPAKSARRASLSITATVSAPPEEEEIVELKKYVKSRLPGGFAAQKIIGT 86

Query: 102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
           GRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE SYD+FVKAH
Sbjct: 87  GRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYENSYDIFVKAH 146

Query: 162 GGGLSGQAQAITLGVARALLK 182
           GGGLSGQAQAITLGVARALLK
Sbjct: 147 GGGLSGQAQAITLGVARALLK 167

Binds directly to 16S ribosomal RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8DMK7|RS9_THEEB 30S ribosomal protein S9 OS=Thermosynechococcus elongatus (strain BP-1) GN=rpsI PE=3 SV=1

 Score =  105 bits (261), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 49/85 (57%), Positives = 62/85 (72%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
            GTGRRK A+ARV L  G+G+  IN R+  +YLQ NP++L  +K PL TLG E SYD++V
Sbjct: 13  LGTGRRKSAVARVRLIPGSGQLWINGRNGADYLQNNPIYLNLVKAPLETLGLENSYDIYV 72

Query: 159 KAHGGGLSGQAQAITLGVARALLKF 183
            A GGGL+GQA AI LG+ARAL + 
Sbjct: 73  NATGGGLTGQADAIRLGIARALCQL 97

Thermosynechococcus elongatus (strain BP-1) (taxid: 197221)

>sp|B2ITM7|RS9_NOSP7 30S ribosomal protein S9 OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) GN=rpsI PE=3 SV=1

 Score = 99.4 bits (246), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 48/85 (56%), Positives = 59/85 (69%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK A+ARV L  GTG+  +N +D   Y Q NP +L  IK PL TLG E  YD+ V
Sbjct: 14  WGTGRRKNAVARVRLVPGTGQLTVNGKDGNLYFQFNPNYLGVIKAPLETLGLENEYDILV 73

Query: 159 KAHGGGLSGQAQAITLGVARALLKF 183
           KA GGGL+GQA ++ LGVARAL + 
Sbjct: 74  KAEGGGLTGQADSVRLGVARALCQL 98

Nostoc punctiforme (strain ATCC 29133 / PCC 73102) (taxid: 63737)

>sp|Q2JUJ9|RS9_SYNJA 30S ribosomal protein S9 OS=Synechococcus sp. (strain JA-3-3Ab) GN=rpsI PE=3 SV=1

 Score = 99.0 bits (245), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 50/82 (60%), Positives = 57/82 (69%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK A+ARV L  GTGK IIN R   +YLQ     L  +K PL  LG E SYD+ V
Sbjct: 13  WGTGRRKTAVARVRLVPGTGKLIINDRPGDQYLQYQEALLASVKAPLELLGLENSYDILV 72

Query: 159 KAHGGGLSGQAQAITLGVARAL 180
           +AHGGG+ GQA AI LGVARAL
Sbjct: 73  RAHGGGVHGQADAIKLGVARAL 94

Synechococcus sp. (strain JA-3-3Ab) (taxid: 321327)

>sp|B1XJI0|RS9_SYNP2 30S ribosomal protein S9 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=rpsI PE=3 SV=1

 Score = 97.8 bits (242), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 46/85 (54%), Positives = 60/85 (70%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK +IARV L  G+GK ++N R  ++Y    P +L  +K PL TLG E+ YD+ V
Sbjct: 13  WGTGRRKASIARVRLVPGSGKVVVNNRSGEDYFNRIPGYLAVLKSPLETLGLESEYDILV 72

Query: 159 KAHGGGLSGQAQAITLGVARALLKF 183
            AHGGGL+GQA A+ LGVARAL + 
Sbjct: 73  NAHGGGLTGQADAVKLGVARALCEL 97

Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (taxid: 32049)

>sp|Q2JL70|RS9_SYNJB 30S ribosomal protein S9 OS=Synechococcus sp. (strain JA-2-3B'a(2-13)) GN=rpsI PE=3 SV=1

 Score = 97.8 bits (242), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 50/82 (60%), Positives = 57/82 (69%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK A+ARV L  GTGK IIN R   +YLQ     L  +K PL  LG E SYD+ V
Sbjct: 12  WGTGRRKTAVARVRLVPGTGKIIINDRPGDQYLQYQEALLASVKGPLEILGLENSYDILV 71

Query: 159 KAHGGGLSGQAQAITLGVARAL 180
           +AHGGG+ GQA AI LGVARAL
Sbjct: 72  RAHGGGVHGQADAIKLGVARAL 93

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

>sp|B1WQT9|RS9_CYAA5 30S ribosomal protein S9 OS=Cyanothece sp. (strain ATCC 51142) GN=rpsI PE=3 SV=1

 Score = 96.3 bits (238), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 47/86 (54%), Positives = 58/86 (67%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK A+ARV L  G+G+ I+N +    Y    P +LQ IK PL TLG E  YD+ V
Sbjct: 13  WGTGRRKSAVARVRLVPGSGEIIVNKKPGNIYFNRIPDYLQAIKGPLETLGLENDYDILV 72

Query: 159 KAHGGGLSGQAQAITLGVARALLKFC 184
            AHGGGL+GQA A+ LGVARAL +  
Sbjct: 73  NAHGGGLTGQADAVKLGVARALCELA 98

Cyanothece sp. (strain ATCC 51142) (taxid: 43989)

>sp|B0JY34|RS9_MICAN 30S ribosomal protein S9 OS=Microcystis aeruginosa (strain NIES-843) GN=rpsI PE=3 SV=1

 Score = 95.5 bits (236), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 46/86 (53%), Positives = 57/86 (66%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK A+A V L  GTG   +N RD + +    P ++Q IK PL TLG E  YD+ V
Sbjct: 13  WGTGRRKSAVAAVRLVPGTGAITVNGRDGETHFNRIPTYIQTIKAPLETLGLENEYDIIV 72

Query: 159 KAHGGGLSGQAQAITLGVARALLKFC 184
           KA GGGL+GQA A+ LGVARAL +  
Sbjct: 73  KAEGGGLTGQADAVKLGVARALCQLA 98

Microcystis aeruginosa (strain NIES-843) (taxid: 449447)

>sp|Q8YPK7|RS9_NOSS1 30S ribosomal protein S9 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=rpsI PE=3 SV=1

 Score = 94.4 bits (233), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 47/85 (55%), Positives = 58/85 (68%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK A+ARV L  GTG+ I+N +    Y Q N  +L  IK PL TLG E  YD+ V
Sbjct: 14  WGTGRRKSAVARVRLVPGTGQLIVNGKPGDLYFQFNANYLGVIKAPLETLGLENEYDILV 73

Query: 159 KAHGGGLSGQAQAITLGVARALLKF 183
           KA GGGL+GQA ++ LGVARAL + 
Sbjct: 74  KAEGGGLTGQADSVRLGVARALCQL 98

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

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	193
48428519	197	RecName: Full=30S ribosomal protein S9,	0.818	0.802	0.717	3e-57
351723489	207	uncharacterized protein LOC100305975 [Gl	0.751	0.700	0.774	5e-56
225458416	209	PREDICTED: 30S ribosomal protein S9, chl	0.756	0.698	0.763	9e-56
356552153	207	PREDICTED: 30S ribosomal protein S9, chl	0.761	0.710	0.765	1e-55
255538526	200	ribosomal protein S9, putative [Ricinus	0.730	0.705	0.773	6e-55
224136610	210	predicted protein [Populus trichocarpa]	0.761	0.7	0.769	1e-54
15222063	208	30S ribosomal protein S9 [Arabidopsis th	0.720	0.668	0.765	3e-54
51969174	208	putative ribosomal protein S9 [Arabidops	0.720	0.668	0.758	8e-54
297842243	208	hypothetical protein ARALYDRAFT_476636 [	0.761	0.706	0.748	1e-53
51971475	208	putative ribosomal protein S9 [Arabidops	0.720	0.668	0.751	2e-53

>gi|48428519|sp|P82278.1|RR9_SPIOL RecName: Full=30S ribosomal protein S9, chloroplastic; Flags: Precursor gi|188036210|pdb|3BBN|I Chain I, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome. gi|7578887|gb|AAF64170.1|AF242547_1 plastid ribosomal protein S9 precursor, partial [Spinacia oleracea]

 Score =  226 bits (577), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 117/163 (71%), Positives = 134/163 (82%), Gaps = 5/163 (3%)

Query: 26  LSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEA-APAEL-ETTDLKK 83
            +SLSF+S ++ KP    + + R+K  S+S      P LV++AT A AP E+ ET DL+K
Sbjct: 1   FASLSFTSNLTPKPQT--LPMARTKPFSLSNPAVVKP-LVITATSATAPVEVAETADLEK 57

Query: 84  YVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKV 143
           +VKSRLPGGFAAQT+ GTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQY+K 
Sbjct: 58  FVKSRLPGGFAAQTVIGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYVKT 117

Query: 144 PLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTS 186
           PL TLGYET+YDVFVKAHGGGLSGQAQAI+LGVARALLK   S
Sbjct: 118 PLATLGYETNYDVFVKAHGGGLSGQAQAISLGVARALLKVSAS 160

Source: Spinacia oleracea

Species: Spinacia oleracea

Genus: Spinacia

Family: Amaranthaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723489|ref|NP_001235745.1| uncharacterized protein LOC100305975 [Glycine max] gi|255627157|gb|ACU13923.1| unknown [Glycine max]

 Score =  222 bits (566), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 117/151 (77%), Positives = 129/151 (85%), Gaps = 6/151 (3%)

Query: 34  QISQKPGIPFVSLHRSKSISIS-PKNDKTPK-LVVSATEAAPAELETTDLKKYVKSRLPG 91
            ISQ+P    +S  R++S+S+S  +  KTP  LVVSAT  A AE ET DLK YVKSRLPG
Sbjct: 20  HISQRPNT--LSFARTESLSVSVSRFPKTPSSLVVSAT--ALAEPETEDLKNYVKSRLPG 75

Query: 92  GFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYE 151
           GFAAQTI GTGRRK AIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPL+TLGYE
Sbjct: 76  GFAAQTIIGTGRRKSAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLITLGYE 135

Query: 152 TSYDVFVKAHGGGLSGQAQAITLGVARALLK 182
           ++YDVFVKA GGGLSGQAQAI+LG+ARALLK
Sbjct: 136 SNYDVFVKAEGGGLSGQAQAISLGIARALLK 166

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225458416|ref|XP_002283650.1| PREDICTED: 30S ribosomal protein S9, chloroplastic [Vitis vinifera] gi|147855629|emb|CAN79164.1| hypothetical protein VITISV_019246 [Vitis vinifera] gi|302142422|emb|CBI19625.3| unnamed protein product [Vitis vinifera]

 Score =  221 bits (564), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 113/148 (76%), Positives = 122/148 (82%), Gaps = 2/148 (1%)

Query: 44  VSLHRSKSISIS--PKNDKTPKLVVSATEAAPAELETTDLKKYVKSRLPGGFAAQTIFGT 101
           +S  RS S+SIS   K      +  +A  A+P ELET DLKKYVKSRLPGGFAAQTI GT
Sbjct: 28  LSFVRSNSLSISHLTKTSSLAVVASAAAVASPLELETADLKKYVKSRLPGGFAAQTIIGT 87

Query: 102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
           GRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE+SYDVFVKAH
Sbjct: 88  GRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYESSYDVFVKAH 147

Query: 162 GGGLSGQAQAITLGVARALLKFCTSVPG 189
           GGGLSGQAQAI+LG+ARALLK      G
Sbjct: 148 GGGLSGQAQAISLGIARALLKVSEDHRG 175

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552153|ref|XP_003544434.1| PREDICTED: 30S ribosomal protein S9, chloroplastic-like [Glycine max]

 Score =  221 bits (563), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 114/149 (76%), Positives = 124/149 (83%), Gaps = 2/149 (1%)

Query: 34  QISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAELETTDLKKYVKSRLPGGF 93
            ISQ+P     +   S S+S+SP       LVV+AT  A AE ET DLKKYVKSRLPGGF
Sbjct: 20  HISQRPCTLSFARTESLSLSVSPFPKTPSSLVVTAT--ALAEPETEDLKKYVKSRLPGGF 77

Query: 94  AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
           AAQTI GTGRRK AIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPL+TLGYE++
Sbjct: 78  AAQTIIGTGRRKSAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLITLGYESN 137

Query: 154 YDVFVKAHGGGLSGQAQAITLGVARALLK 182
           YDVFVKA GGGLSGQAQAI+LG+ARALLK
Sbjct: 138 YDVFVKAEGGGLSGQAQAISLGIARALLK 166

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255538526|ref|XP_002510328.1| ribosomal protein S9, putative [Ricinus communis] gi|223551029|gb|EEF52515.1| ribosomal protein S9, putative [Ricinus communis]

 Score =  219 bits (557), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 116/150 (77%), Positives = 122/150 (81%), Gaps = 9/150 (6%)

Query: 37  QKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAELETTDLKKYVKSRLPGGFAAQ 96
           QKP     +L  SKS+S+   N K   L VSAT A P   +T DLKK VKSRLPGGFAAQ
Sbjct: 23  QKPN----TLSFSKSLSLC--NSKPSPLRVSATVAEP---QTADLKKLVKSRLPGGFAAQ 73

Query: 97  TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDV 156
            IFGTGRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE SYDV
Sbjct: 74  PIFGTGRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYENSYDV 133

Query: 157 FVKAHGGGLSGQAQAITLGVARALLKFCTS 186
           FVKAHGGGLSGQAQAI+LGVARALLK   S
Sbjct: 134 FVKAHGGGLSGQAQAISLGVARALLKVSDS 163

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136610|ref|XP_002326903.1| predicted protein [Populus trichocarpa] gi|118483304|gb|ABK93554.1| unknown [Populus trichocarpa] gi|222835218|gb|EEE73653.1| predicted protein [Populus trichocarpa]

 Score =  218 bits (554), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 117/152 (76%), Positives = 127/152 (83%), Gaps = 5/152 (3%)

Query: 34  QISQKPGIPFVSLHRSKSIS--ISPKNDKTPKLVVSATEAAP-AELETTDLKKYVKSRLP 90
           QISQKP    +S  RS S+S  +S  + +   L VSAT A+P     TTDLKK VKSRLP
Sbjct: 20  QISQKPNT--LSFSRSNSLSFPLSHPSKQPLTLRVSATVASPETTTTTTDLKKLVKSRLP 77

Query: 91  GGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGY 150
           GGFAAQTI GTGRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGY
Sbjct: 78  GGFAAQTIHGTGRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGY 137

Query: 151 ETSYDVFVKAHGGGLSGQAQAITLGVARALLK 182
           E+SYDVFVKAHGGGL+GQAQAI+LGVARALLK
Sbjct: 138 ESSYDVFVKAHGGGLAGQAQAISLGVARALLK 169

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222063|ref|NP_177635.1| 30S ribosomal protein S9 [Arabidopsis thaliana] gi|48428563|sp|Q9XJ27.1|RR9_ARATH RecName: Full=30S ribosomal protein S9, chloroplastic; Flags: Precursor gi|5882726|gb|AAD55279.1|AC008263_10 Identical to gb|AB022676 ribosomal protein S9 from Arabidopsis thaliana. ESTs gb|T13861, gb|AA389790, gb|T42539, gb|AA586013, gb|AA395093 and gb|AA041154 come from this gene [Arabidopsis thaliana] gi|12744979|gb|AAK06869.1|AF344318_1 putative ribosomal protein S9 [Arabidopsis thaliana] gi|5456946|dbj|BAA82396.1| ribosomal protein S9 [Arabidopsis thaliana] gi|15010598|gb|AAK73958.1| ATg74970/F25A4.6 [Arabidopsis thaliana] gi|15027999|gb|AAK76530.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|20259211|gb|AAM14321.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|21554316|gb|AAM63421.1| ribosomal protein S9, putative [Arabidopsis thaliana] gi|51968396|dbj|BAD42890.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51969144|dbj|BAD43264.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51969266|dbj|BAD43325.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51969626|dbj|BAD43505.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51969796|dbj|BAD43590.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51969932|dbj|BAD43658.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51970078|dbj|BAD43731.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51970878|dbj|BAD44131.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51971589|dbj|BAD44459.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51971705|dbj|BAD44517.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51971713|dbj|BAD44521.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51971743|dbj|BAD44536.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51971777|dbj|BAD44553.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51971791|dbj|BAD44560.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|51971913|dbj|BAD44621.1| putative ribosomal protein S9 [Arabidopsis thaliana] gi|332197537|gb|AEE35658.1| 30S ribosomal protein S9 [Arabidopsis thaliana]

 Score =  216 bits (551), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 108/141 (76%), Positives = 119/141 (84%), Gaps = 2/141 (1%)

Query: 44  VSLHRSKSISISP-KNDKTPKLVVSATEAAP-AELETTDLKKYVKSRLPGGFAAQTIFGT 101
           +S  R+ S+   P K+ +   L ++AT +AP  E E  +LKKYVKSRLPGGFAAQ I GT
Sbjct: 27  ISFPRANSVFALPAKSARRASLSITATVSAPPEEEEIVELKKYVKSRLPGGFAAQKIIGT 86

Query: 102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
           GRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE SYD+FVKAH
Sbjct: 87  GRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYENSYDIFVKAH 146

Query: 162 GGGLSGQAQAITLGVARALLK 182
           GGGLSGQAQAITLGVARALLK
Sbjct: 147 GGGLSGQAQAITLGVARALLK 167

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|51969174|dbj|BAD43279.1| putative ribosomal protein S9 [Arabidopsis thaliana]

 Score =  215 bits (547), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 107/141 (75%), Positives = 118/141 (83%), Gaps = 2/141 (1%)

Query: 44  VSLHRSKSISISP-KNDKTPKLVVSATEAAP-AELETTDLKKYVKSRLPGGFAAQTIFGT 101
           +S  R+ S+   P K+ +   L ++AT +AP  E E  +LKKYVKSRLPGGFAAQ I GT
Sbjct: 27  ISFPRANSVFALPAKSARRASLSITATVSAPPEEEEIVELKKYVKSRLPGGFAAQKIIGT 86

Query: 102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
           GRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE SYD+FVKAH
Sbjct: 87  GRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYENSYDIFVKAH 146

Query: 162 GGGLSGQAQAITLGVARALLK 182
           GGGLSGQAQAIT GVARALLK
Sbjct: 147 GGGLSGQAQAITFGVARALLK 167

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297842243|ref|XP_002889003.1| hypothetical protein ARALYDRAFT_476636 [Arabidopsis lyrata subsp. lyrata] gi|297334844|gb|EFH65262.1| hypothetical protein ARALYDRAFT_476636 [Arabidopsis lyrata subsp. lyrata]

 Score =  214 bits (545), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 113/151 (74%), Positives = 125/151 (82%), Gaps = 4/151 (2%)

Query: 34  QISQKPGIPFVSLHRSKSISISP-KNDKTPKLVVSAT-EAAPAELETTDLKKYVKSRLPG 91
           Q+SQ+P    +S  R+ S+   P K+D+   L ++AT  A P E E  +LKKYVKSRLPG
Sbjct: 19  QVSQRPNT--ISFPRANSVFALPAKSDRRSSLSITATVAAPPEEEEIIELKKYVKSRLPG 76

Query: 92  GFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYE 151
           GFAAQ I GTGRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE
Sbjct: 77  GFAAQKIIGTGRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYE 136

Query: 152 TSYDVFVKAHGGGLSGQAQAITLGVARALLK 182
            SYD+FVKAHGGGLSGQAQAITLGVARALLK
Sbjct: 137 NSYDIFVKAHGGGLSGQAQAITLGVARALLK 167

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|51971475|dbj|BAD44402.1| putative ribosomal protein S9 [Arabidopsis thaliana]

 Score =  214 bits (545), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 106/141 (75%), Positives = 119/141 (84%), Gaps = 2/141 (1%)

Query: 44  VSLHRSKSISISP-KNDKTPKLVVSATEAAP-AELETTDLKKYVKSRLPGGFAAQTIFGT 101
           +S  R+ S+   P ++ +   L ++AT +AP  E E  +LKKYVKSRLPGGFAAQ I GT
Sbjct: 27  ISFPRANSVFALPAESARRASLSITATVSAPPEEEEIVELKKYVKSRLPGGFAAQKIIGT 86

Query: 102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
           GRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE SYD+F+KAH
Sbjct: 87  GRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYENSYDIFMKAH 146

Query: 162 GGGLSGQAQAITLGVARALLK 182
           GGGLSGQAQAITLGVARALLK
Sbjct: 147 GGGLSGQAQAITLGVARALLK 167

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	193
TAIR|locus:2037222	208	RPS9 "ribosomal protein S9" [A	0.720	0.668	0.723	4.7e-48
UNIPROTKB|P66639	151	rpsI "30S ribosomal protein S9	0.409	0.523	0.512	3.8e-14
UNIPROTKB|Q9KUF0	130	rpsI "30S ribosomal protein S9	0.512	0.761	0.37	6.2e-14
TIGR_CMR|BA_0144	130	BA_0144 "ribosomal protein S9"	0.430	0.638	0.488	6.2e-14
TIGR_CMR|VC_0571	130	VC_0571 "ribosomal protein S9"	0.512	0.761	0.37	6.2e-14
TIGR_CMR|CHY_2273	130	CHY_2273 "ribosomal protein S9	0.507	0.753	0.404	1.3e-13
TIGR_CMR|CBU_1748	139	CBU_1748 "ribosomal protein S9	0.430	0.597	0.452	5.6e-13
UNIPROTKB|P0A7X3	130	rpsI "30S ribosomal subunit pr	0.481	0.715	0.372	1.2e-12
TIGR_CMR|GSU_2875	130	GSU_2875 "ribosomal protein S9	0.507	0.753	0.373	1.5e-12
TIGR_CMR|SPO_1692	160	SPO_1692 "ribosomal protein S9	0.487	0.587	0.347	3.9e-12

TAIR|locus:2037222 RPS9 "ribosomal protein S9" [Arabidopsis thaliana (taxid:3702)]

 Score = 502 (181.8 bits), Expect = 4.7e-48, P = 4.7e-48
 Identities = 102/141 (72%), Positives = 112/141 (79%)

Query:    44 VSLHRSKSISISP-KNDKTPKLVVSXXXXXX-XXXXXXDLKKYVKSRLPGGFAAQTIFGT 101
             +S  R+ S+   P K+ +   L ++             +LKKYVKSRLPGGFAAQ I GT
Sbjct:    27 ISFPRANSVFALPAKSARRASLSITATVSAPPEEEEIVELKKYVKSRLPGGFAAQKIIGT 86

Query:   102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
             GRRKCAIARVVLQEGTGK IINYRDAKEYLQGNPLWLQY+KVPLVTLGYE SYD+FVKAH
Sbjct:    87 GRRKCAIARVVLQEGTGKVIINYRDAKEYLQGNPLWLQYVKVPLVTLGYENSYDIFVKAH 146

Query:   162 GGGLSGQAQAITLGVARALLK 182
             GGGLSGQAQAITLGVARALLK
Sbjct:   147 GGGLSGQAQAITLGVARALLK 167

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS;TAS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0022627 "cytosolic small ribosomal subunit" evidence=ISS

GO:0000312 "plastid small ribosomal subunit" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0016020 "membrane" evidence=IDA

UNIPROTKB|P66639 rpsI "30S ribosomal protein S9" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 182 (69.1 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 41/80 (51%), Positives = 52/80 (65%)

Query:   102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
             GRRK A+ RV L  GTGKF +N R  ++Y   N +  Q IK PLVT+    S+D+F    
Sbjct:    31 GRRKEAVVRVRLVPGTGKFDLNGRSLEDYFP-NKVHQQLIKAPLVTVDRVESFDIFAHLG 89

Query:   162 GGGLSGQAQAITLGVARALL 181
             GGG SGQA A+ LG+ARAL+
Sbjct:    90 GGGPSGQAGALRLGIARALI 109

GO:0005886 "plasma membrane" evidence=IDA

UNIPROTKB|Q9KUF0 rpsI "30S ribosomal protein S9" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 37/100 (37%), Positives = 58/100 (58%)

Query:    94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
             A    +GTGRRK + ARV ++ G+G  +IN R  +EY  G P     +K PL  +     
Sbjct:     2 AENQYYGTGRRKSSAARVFIKPGSGNIVINKRSLEEYF-GRPTSCMVVKQPLELVDMVEK 60

Query:   154 YDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIMES 193
              D+++   GGG+SGQA AI  G+ RAL+++  S+  ++ +
Sbjct:    61 LDLYITVKGGGISGQAGAIRHGITRALMEYDESLRPVLRA 100

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|BA_0144 BA_0144 "ribosomal protein S9" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 41/84 (48%), Positives = 54/84 (64%)

Query:    99 FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
             +GTGRRK ++ARV L  G G+ IIN RD + Y+    L  + +K PLV      +YDV V
Sbjct:     7 YGTGRRKSSVARVRLVSGEGRVIINGRDFENYIPFAAL-REVVKQPLVATETLGNYDVLV 65

Query:   159 KAHGGGLSGQAQAITLGVARALLK 182
               +GGG +GQA AI  G++RALLK
Sbjct:    66 NVNGGGYTGQAGAIRHGISRALLK 89

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_0571 VC_0571 "ribosomal protein S9" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 37/100 (37%), Positives = 58/100 (58%)

Query:    94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
             A    +GTGRRK + ARV ++ G+G  +IN R  +EY  G P     +K PL  +     
Sbjct:     2 AENQYYGTGRRKSSAARVFIKPGSGNIVINKRSLEEYF-GRPTSCMVVKQPLELVDMVEK 60

Query:   154 YDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIMES 193
              D+++   GGG+SGQA AI  G+ RAL+++  S+  ++ +
Sbjct:    61 LDLYITVKGGGISGQAGAIRHGITRALMEYDESLRPVLRA 100

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CHY_2273 CHY_2273 "ribosomal protein S9" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 177 (67.4 bits), Expect = 1.3e-13, P = 1.3e-13
 Identities = 40/99 (40%), Positives = 57/99 (57%)

Query:    94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
             A    +GTGRRK A+ARV +  G G   IN +  +EY     L +  +K PL        
Sbjct:     2 AVVNFYGTGRRKEAVARVFVVPGEGNITINGKSLEEYFPRKTLQI-IVKQPLELTNTVGK 60

Query:   154 YDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIME 192
             +DV  K HGGG+SGQA A+ LG+ARAL++   S+  +++
Sbjct:    61 FDVKAKVHGGGISGQAGAVRLGIARALVQADPSLRPVLK 99

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CBU_1748 CBU_1748 "ribosomal protein S9" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 171 (65.3 bits), Expect = 5.6e-13, P = 5.6e-13
 Identities = 38/84 (45%), Positives = 51/84 (60%)

Query:   100 GTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVK 159
             GTGRRK + ARV L+ GTG+ IIN     EY  G       ++ PLV L  ++ +DV+  
Sbjct:    11 GTGRRKTSSARVFLRSGTGQIIINGLPLDEYF-GRETARMVVRQPLVKLDVQSRFDVYAT 69

Query:   160 AHGGGLSGQAQAITLGVARALLKF 183
               GGG SGQA AI  G+ RAL+++
Sbjct:    70 VQGGGDSGQAGAIRHGITRALIQY 93

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

UNIPROTKB|P0A7X3 rpsI "30S ribosomal subunit protein S9" [Escherichia coli K-12 (taxid:83333)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 35/94 (37%), Positives = 54/94 (57%)

Query:    94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
             A    +GTGRRK + ARV ++ G GK +IN R  ++Y  G       ++ PL  +     
Sbjct:     2 AENQYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYF-GRETARMVVRQPLELVDMVEK 60

Query:   154 YDVFVKAHGGGLSGQAQAITLGVARALLKFCTSV 187
              D+++   GGG+SGQA AI  G+ RAL+++  S+
Sbjct:    61 LDLYITVKGGGISGQAGAIRHGITRALMEYDESL 94

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0000049 "tRNA binding" evidence=IEA

TIGR_CMR|GSU_2875 GSU_2875 "ribosomal protein S9" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 37/99 (37%), Positives = 58/99 (58%)

Query:    94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
             A  + +GTG+RK ++ARV L+ GTG  +IN +   EY  G       +K PL  +    +
Sbjct:     2 AGISYYGTGKRKSSVARVWLKPGTGAIVINNKPIDEYF-GRETSKMIVKQPLELVEKVGA 60

Query:   154 YDVFVKAHGGGLSGQAQAITLGVARALLKFCTSVPGIME 192
             +D++V   GGG SGQA AI  G+ +ALL+   ++ G ++
Sbjct:    61 FDIYVNVRGGGDSGQAGAIKHGITKALLEVDVALRGTLK 99

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|SPO_1692 SPO_1692 "ribosomal protein S9" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 163 (62.4 bits), Expect = 3.9e-12, P = 3.9e-12
 Identities = 33/95 (34%), Positives = 56/95 (58%)

Query:    99 FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
             + TG+RK A+ARV ++ G+GK ++N +D   Y    P+    ++ P    G E  +DV  
Sbjct:    37 YATGKRKDAVARVWIKPGSGKVVVNGKDQDAYF-ARPVLQLILRQPFQVAGVEGQFDVMA 95

Query:   159 KAHGGGLSGQAQAITLGVARALLKFCTSVPGIMES 193
                GGGL+GQA A+  G+++AL  +  S+ G +++
Sbjct:    96 TVKGGGLTGQAGAVKHGISKALQLYDPSLRGALKA 130

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

GO:0006412 "translation" 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)
P82278	RR9_SPIOL	No assigned EC number	0.7177	0.8186	0.8020	N/A	no
Q9XJ27	RR9_ARATH	No assigned EC number	0.7659	0.7202	0.6682	yes	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:
	GSVIVG00014698001	SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_1, whole genome shotgun sequence); (209 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00015322001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (167 aa)	•			•	•		•		0.981
	GSVIVG00027910001	SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (235 aa)	•			•			•		0.972
	GSVIVG00033342001	SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (203 aa)	•			•	•		•		0.969
	GSVIVG00003076001	SubName- Full=Chromosome chr10 scaffold_138, whole genome shotgun sequence; (340 aa)	•		•	•	•		•		0.965
	rps2	ribosomal protein S2 (180 aa)	•			•	•		•		0.956
	rps3	SubName- Full=Chromosome undetermined scaffold_3592, whole genome shotgun sequence; (207 aa)	•		•	•	•		•		0.955
	GSVIVG00020550001	SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (207 aa)	•			•			•		0.952
	rps8	RecName- Full=30S ribosomal protein S8, chloroplastic;; One of the primary rRNA binding protein [...] (134 aa)	•		•	•	•		•		0.947
	GSVIVG00026943001	SubName- Full=Chromosome chr15 scaffold_40, whole genome shotgun sequence; (265 aa)	•			•			•		0.932
	GSVIVG00035271001	SubName- Full=Chromosome chr10 scaffold_76, whole genome shotgun sequence; (140 aa)	•			•	•		•		0.923

---

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	193
CHL00079	130	CHL00079, rps9, ribosomal protein S9	7e-40
PRK00132	130	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	8e-37
pfam00380	121	pfam00380, Ribosomal_S9, Ribosomal protein S9/S16	1e-35
COG0103	130	COG0103, RpsI, Ribosomal protein S9 [Translation,	2e-28
PRK00474	134	PRK00474, rps9p, 30S ribosomal protein S9P; Review	2e-12
TIGR03627	130	TIGR03627, arch_S9P, archaeal ribosomal protein S9	3e-11

>gnl|CDD|214357 CHL00079, rps9, ribosomal protein S9

 Score =  131 bits (333), Expect = 7e-40
 Identities = 50/86 (58%), Positives = 61/86 (70%)

Query: 98  IFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVF 157
             GTGRRK A+A+V L  G+G+ IIN + A+EYLQ NP +L  IK PL  LG E  YD+ 
Sbjct: 5   YIGTGRRKTAVAQVRLVPGSGEIIINGKPAEEYLQYNPNYLNAIKAPLKLLGLENKYDII 64

Query: 158 VKAHGGGLSGQAQAITLGVARALLKF 183
           VK  GGGL+GQA+AI LG+ARAL K 
Sbjct: 65  VKVKGGGLTGQAEAIRLGLARALCKI 90

Length = 130

>gnl|CDD|178888 PRK00132, rpsI, 30S ribosomal protein S9; Reviewed

 Score =  124 bits (313), Expect = 8e-37
 Identities = 41/90 (45%), Positives = 55/90 (61%), Gaps = 1/90 (1%)

Query: 94  AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
           A    +GTGRRK A+ARV L+ G+GK  +N RD +EY          ++ PL     E  
Sbjct: 2   AEVQYYGTGRRKTAVARVRLKPGSGKITVNGRDLEEYF-PRETLRMVVRQPLELTETEGK 60

Query: 154 YDVFVKAHGGGLSGQAQAITLGVARALLKF 183
           +DV+V   GGG+SGQA AI  G+ARALL++
Sbjct: 61  FDVYVTVKGGGISGQAGAIRHGIARALLEY 90

Length = 130

>gnl|CDD|201193 pfam00380, Ribosomal_S9, Ribosomal protein S9/S16

 Score =  120 bits (304), Expect = 1e-35
 Identities = 37/83 (44%), Positives = 48/83 (57%), Gaps = 1/83 (1%)

Query: 102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAH 161
           GRRK A+ARV L+ G+GK  IN +  +EY   N      I  PL   G    +D+ V   
Sbjct: 1   GRRKTAVARVWLKPGSGKITINGKPLEEYFP-NETLRMKILEPLELTGTLGKFDIVVTVK 59

Query: 162 GGGLSGQAQAITLGVARALLKFC 184
           GGG+SGQA AI L +ARAL+ + 
Sbjct: 60  GGGISGQAGAIRLAIARALVAYD 82

This family includes small ribosomal subunit S9 from prokaryotes and S16 from eukaryotes. Length = 121

>gnl|CDD|223181 COG0103, RpsI, Ribosomal protein S9 [Translation, ribosomal structure and biogenesis]

 Score =  102 bits (257), Expect = 2e-28
 Identities = 35/84 (41%), Positives = 47/84 (55%), Gaps = 1/84 (1%)

Query: 100 GTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVK 159
            TG+RK A+ARV L  G GK  +N R  + Y          I  PL+  G    +D+ V 
Sbjct: 8   TTGKRKSAVARVRLVPGKGKITVNGRPLELY-FPRETLRMKIMQPLLLTGTVGKFDIDVT 66

Query: 160 AHGGGLSGQAQAITLGVARALLKF 183
             GGG+SGQA AI  G+ARAL+++
Sbjct: 67  VKGGGISGQAGAIRHGIARALVEY 90

Length = 130

>gnl|CDD|179041 PRK00474, rps9p, 30S ribosomal protein S9P; Reviewed

 Score = 61.0 bits (149), Expect = 2e-12
 Identities = 31/92 (33%), Positives = 47/92 (51%), Gaps = 18/92 (19%)

Query: 101 TGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKV-------PLVTLGYE-- 151
           +G+RK AIAR  ++EG G+  IN         G PL L   ++       PL+  G +  
Sbjct: 8   SGKRKTAIARATIREGKGRVRIN---------GVPLELIEPELARLKIMEPLILAGEDLR 58

Query: 152 TSYDVFVKAHGGGLSGQAQAITLGVARALLKF 183
           +  D+ V   GGG+ GQA A    +AR L+++
Sbjct: 59  SKVDIDVNVEGGGIMGQADAARTAIARGLVEW 90

Length = 134

>gnl|CDD|132666 TIGR03627, arch_S9P, archaeal ribosomal protein S9P

 Score = 58.1 bits (141), Expect = 3e-11
 Identities = 32/84 (38%), Positives = 44/84 (52%), Gaps = 3/84 (3%)

Query: 101 TGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS-YDVFVK 159
           +G+RK AIAR  ++EG G+  IN    + Y     L    I  PL+  G      D+ VK
Sbjct: 5   SGKRKTAIARATIREGKGRVRINGVPVELY--PPELARLKIMEPLILAGDIAKEVDIDVK 62

Query: 160 AHGGGLSGQAQAITLGVARALLKF 183
             GGG+ GQA A    +AR L++F
Sbjct: 63  VSGGGIMGQADAARTAIARGLVEF 86

This model describes exclusively the archaeal ribosomal protein S9P. Homologous eukaryotic and bacterial ribosomal proteins are excluded from this model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 130

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	193
COG0103	130	RpsI Ribosomal protein S9 [Translation, ribosomal	100.0
CHL00079	130	rps9 ribosomal protein S9	100.0
PRK00132	130	rpsI 30S ribosomal protein S9; Reviewed	100.0
KOG1697	275	consensus Mitochondrial/chloroplast ribosomal prot	100.0
TIGR03627	130	arch_S9P archaeal ribosomal protein S9P. This mode	100.0
PRK00474	134	rps9p 30S ribosomal protein S9P; Reviewed	100.0
PF00380	121	Ribosomal_S9: Ribosomal protein S9/S16; InterPro:	100.0
PTZ00086	147	40S ribosomal protein S16; Provisional	100.0
PLN00210	141	40S ribosomal protein S16; Provisional	99.98
KOG1753	145	consensus 40S ribosomal protein S16 [Translation,	99.78
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	93.65
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	86.57
PTZ00265	1466	multidrug resistance protein (mdr1); Provisional	81.79

>COG0103 RpsI Ribosomal protein S9 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.7e-36  Score=242.59  Aligned_cols=96  Identities=36%  Similarity=0.567  Sum_probs=93.2

Q ss_pred             eEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHH
Q 042358           97 TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGV  176 (193)
Q Consensus        97 ~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAI  176 (193)
                      .++++||||+|+|||||.||+|+|+|||+|+++||+ ++.++++|++||.+++..++|||+|+|+|||++|||+||||||
T Consensus         5 ~~~~tGkRK~AvArv~l~~g~G~i~vNg~~~e~yf~-~e~~r~~i~~Pl~l~~~~~~~Di~v~V~GGG~~GQA~AiR~gI   83 (130)
T COG0103           5 QVYTTGKRKSAVARVRLVPGKGKITVNGRPLELYFP-RETLRMKIMQPLLLTGTVGKFDIDVTVKGGGISGQAGAIRHGI   83 (130)
T ss_pred             eeeeeccccceEEEEEEEcCCcEEEECCcCHHHhcc-hHHHHHHHhhhHHHhCccccccEEEEEecCCchHHHHHHHHHH
Confidence            678999999999999999999999999999999999 8999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCccCcCCCCC
Q 042358          177 ARALLKFCTSVPGIMES  193 (193)
Q Consensus       177 ARALv~~~p~~R~~Lk~  193 (193)
                      ||||++++|++|+.||+
T Consensus        84 aRAL~~~~~~lr~~lk~  100 (130)
T COG0103          84 ARALVEYDPELRPALKK  100 (130)
T ss_pred             HHHHHHHCHHHHHHHHH
Confidence            99999999999998873

>CHL00079 rps9 ribosomal protein S9

Probab=100.00  E-value=2.8e-36  Score=240.98  Aligned_cols=97  Identities=52%  Similarity=0.769  Sum_probs=92.6

Q ss_pred             eEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHH
Q 042358           97 TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGV  176 (193)
Q Consensus        97 ~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAI  176 (193)
                      .++++||||+|+|+|||+||+|+|+|||+|+++||++++.++++|++||.+++..++|||+|+|+|||.+|||+||||||
T Consensus         4 ~~~~~GrRKta~Arv~l~~G~G~i~INg~~~~~yf~~~~~~~~~v~~Pl~~~~~~~~~Di~i~V~GGG~sgQa~Air~aI   83 (130)
T CHL00079          4 LYIGTGRRKTAVAQVRLVPGSGEIIINGKPAEEYLQYNPNYLNAIKAPLKLLGLENKYDIIVKVKGGGLTGQAEAIRLGL   83 (130)
T ss_pred             EEEEEeeCCCeEEEEEEEcCCcEEEECCCcHHHHCCcCHHHHHHHHHHHHHhCcCCceeEEEEEEcCChhHHHHHHHHHH
Confidence            46799999999999999999999999999999999866778899999999999999999999999999999999999999


Q ss_pred             HHHHHhhCccCcCCCCC
Q 042358          177 ARALLKFCTSVPGIMES  193 (193)
Q Consensus       177 ARALv~~~p~~R~~Lk~  193 (193)
                      ||||++++|++++.||+
T Consensus        84 araLv~~~~~~k~~Lk~  100 (130)
T CHL00079         84 ARALCKINPENRKSLKK  100 (130)
T ss_pred             HHHHHHHCHHHHHHHHH
Confidence            99999999999998874

>PRK00132 rpsI 30S ribosomal protein S9; Reviewed

Probab=100.00  E-value=7.1e-36  Score=238.56  Aligned_cols=96  Identities=42%  Similarity=0.679  Sum_probs=92.5

Q ss_pred             eEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHH
Q 042358           97 TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGV  176 (193)
Q Consensus        97 ~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAI  176 (193)
                      .++++||||+|+|+||++||+|+|+|||+|+++||+ ++.++++|++||.+++..++|||+|+|+|||++|||+||||||
T Consensus         5 ~~~~~GrRK~a~A~v~l~~G~G~i~INg~~~~~yf~-~~~~r~~i~~Pl~~~~~~~~~Di~i~V~GGG~sgQa~Air~ai   83 (130)
T PRK00132          5 QYYGTGRRKTAVARVRLKPGSGKITVNGRDLEEYFP-RETLRMVVRQPLELTETEGKFDVYVTVKGGGISGQAGAIRHGI   83 (130)
T ss_pred             eEEEEeeCCCeEEEEEEEcCccEEEECCEeHHHHcC-CHHHHHHHHHHHHHhCccCceeEEEEEEcCCHHHHHHHHHHHH
Confidence            457999999999999999999999999999999998 7999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCccCcCCCCC
Q 042358          177 ARALLKFCTSVPGIMES  193 (193)
Q Consensus       177 ARALv~~~p~~R~~Lk~  193 (193)
                      ||||+.++|++|+.||+
T Consensus        84 araLv~~~~~~r~~Lk~  100 (130)
T PRK00132         84 ARALLEYDPDLRPALKK  100 (130)
T ss_pred             HHHHHHHCHHHHHHHHH
Confidence            99999999999998873

>KOG1697 consensus Mitochondrial/chloroplast ribosomal protein S9 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.3e-36  Score=264.06  Aligned_cols=175  Identities=28%  Similarity=0.301  Sum_probs=158.9

Q ss_pred             ccccccccccccceeeeccccCCCCCCceecccccccc-cCCCCCCCCceEEeeeccC-CcchhhhhhhhhhhccCCCCc
Q 042358           16 SPAISPLTSSLSSLSFSSQISQKPGIPFVSLHRSKSIS-ISPKNDKTPKLVVSATEAA-PAELETTDLKKYVKSRLPGGF   93 (193)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~e~~~l~~~v~~r~~~~~   93 (193)
                      |+++-....++...+++++-+|.+++  ..|.+.+.+. ...+..+..++.++...++ +.+.|+..+++|+++..+.+.
T Consensus        69 ai~~l~psg~~d~~arp~m~~~~~et--~~~~ll~di~~~~~~~~~~~~~s~~~l~s~p~~~~e~~f~~~~~k~~~~~g~  146 (275)
T KOG1697|consen   69 AISYLFPSGLFDPNARPVMAFQFDET--KYYQLLHDIGVLTNKLAKLYSISIEHLLSSPYSAIEEKFLKRFRKPLDESGK  146 (275)
T ss_pred             HHHHhccccccCccccccccccCCcc--hHHHHHHHHHhhhhhhhhhhhhHHHHHhhCchhHHHHHHHHHHHhcccccCC
Confidence            56777788899999999999999998  7888888887 6777778888888888766 455666699999999999999


Q ss_pred             cceeEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHH
Q 042358           94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAIT  173 (193)
Q Consensus        94 ~~~~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIR  173 (193)
                      ...+++++||||+|+|+|++.||+|+|.|||+++++||+ ...+|+.++.||.+++.+++|||+++|+|||++||++|||
T Consensus       147 ~~~~~~~~g~rK~a~A~V~v~~GtGk~~vNg~~~~~yF~-~~~~Re~ll~Pl~~~~~lg~~dv~atv~GGG~sgqagAI~  225 (275)
T KOG1697|consen  147 PEVRIIAVGRRKCARATVKVQPGTGKFDVNGRDLDVYFQ-HLQHREQLLYPLAVSESLGKYDVTATVSGGGPSGQAGAIR  225 (275)
T ss_pred             CceeeeeccceecceeEEEEecCceeEEecchhHHhHhc-cchhHHHHhhhHHHhccccceeEEEEecCCCccchhHHHH
Confidence            999999999999999999999999999999999999999 6678899999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhCccCcCCCCC
Q 042358          174 LGVARALLKFCTSVPGIMES  193 (193)
Q Consensus       174 lAIARALv~~~p~~R~~Lk~  193 (193)
                      |||||||+.++|+.+..||.
T Consensus       226 ~gia~aL~~~~p~~~~~lr~  245 (275)
T KOG1697|consen  226 LGIAKALASFEPDLIEPLRL  245 (275)
T ss_pred             HHHHHHHHhcCHHHhhHHHh
Confidence            99999999999999988873

>TIGR03627 arch_S9P archaeal ribosomal protein S9P

Probab=100.00  E-value=3.1e-34  Score=229.10  Aligned_cols=93  Identities=34%  Similarity=0.505  Sum_probs=88.0

Q ss_pred             EEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhC-ccCccceEEEEecCChhhHHHHHHHHH
Q 042358           98 IFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLG-YETSYDVFVKAHGGGLSGQAQAITLGV  176 (193)
Q Consensus        98 ~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~-~~~kyDI~i~VkGGG~sGQA~AIRlAI  176 (193)
                      ++++||||+|+|+|||+||+|+|+|||+|+++||  ++.+++.|++||.+++ +.++|||+|+|+|||++|||+||||||
T Consensus         2 ~~~~GrRKta~A~v~l~~G~G~i~VNg~~~~~y~--~~~~r~~i~~Pl~~~~~~~~~~Dv~i~V~GGG~sgQa~Air~aI   79 (130)
T TIGR03627         2 VITSGKRKTAIARATIREGKGRVRINGVPVELYP--PELARLKIMEPLILAGDIAKEVDIDVKVSGGGIMGQADAARTAI   79 (130)
T ss_pred             eEEEeeCCCeEEEEEEEcCceEEEECCEeHHHhC--CHHHHHHHHHHHHHHhccccCccEEEEEEcCChhHHHHHHHHHH
Confidence            5799999999999999999999999999999886  6889999999999997 899999999999999999999999999


Q ss_pred             HHHHHhh--CccCcCCCC
Q 042358          177 ARALLKF--CTSVPGIME  192 (193)
Q Consensus       177 ARALv~~--~p~~R~~Lk  192 (193)
                      ||||+.+  +|++|+.||
T Consensus        80 araL~~~~~~~~~r~~lk   97 (130)
T TIGR03627        80 ARGLVEFTGDKELRDAFR   97 (130)
T ss_pred             HHHHHHhccCHHHHHHHH
Confidence            9999999  788888775

This model describes exclusively the archaeal ribosomal protein S9P. Homologous eukaryotic and bacterial ribosomal proteins are excluded from this model.

>PRK00474 rps9p 30S ribosomal protein S9P; Reviewed

Probab=100.00  E-value=3.9e-34  Score=229.57  Aligned_cols=94  Identities=31%  Similarity=0.441  Sum_probs=89.0

Q ss_pred             eEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhC--ccCccceEEEEecCChhhHHHHHHH
Q 042358           97 TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLG--YETSYDVFVKAHGGGLSGQAQAITL  174 (193)
Q Consensus        97 ~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~--~~~kyDI~i~VkGGG~sGQA~AIRl  174 (193)
                      .++++||||+|+|+|||+||+|+|+|||+|+++||  ++.++++|++||.+++  +.++|||+|+|+|||++|||+||||
T Consensus         4 ~~~~~GrRKta~A~v~l~~G~G~i~VNg~~~~~y~--~~~~r~~i~~Pl~~~~~~~~~~~di~i~V~GGG~sgQa~Air~   81 (134)
T PRK00474          4 VVITSGKRKTAIARATIREGKGRVRINGVPLELIE--PELARLKIMEPLILAGEDLRSKVDIDVNVEGGGIMGQADAART   81 (134)
T ss_pred             eEEEEeeCCCeEEEEEEEcCceEEEECCEeHHHHC--CHHHHHHHHHHHHHhCccccCCccEEEEEEcCChhHHHHHHHH
Confidence            46899999999999999999999999999999886  6889999999999999  8999999999999999999999999


Q ss_pred             HHHHHHHhh--CccCcCCCC
Q 042358          175 GVARALLKF--CTSVPGIME  192 (193)
Q Consensus       175 AIARALv~~--~p~~R~~Lk  192 (193)
                      ||||||+.+  +|++|+.||
T Consensus        82 aIaraL~~~~~~~~~r~~lk  101 (134)
T PRK00474         82 AIARGLVEWTGDMELKDAFL  101 (134)
T ss_pred             HHHHHHHHhccCHHHHHHHH
Confidence            999999999  889888775

>PF00380 Ribosomal_S9: Ribosomal protein S9/S16; InterPro: IPR000754 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=1.2e-34  Score=228.79  Aligned_cols=91  Identities=45%  Similarity=0.679  Sum_probs=88.5

Q ss_pred             ceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHHHHHHH
Q 042358          102 GRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALL  181 (193)
Q Consensus       102 GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAIARALv  181 (193)
                      ||||+|+|+|||+||+|+|.|||+|+++||+ ++.++++|++||.+++..++|||+|+|+|||.+|||+||||||||||+
T Consensus         1 GkRK~a~A~v~l~~G~G~i~INg~~l~~yf~-~~~~r~~il~Pl~~~~~~~~~di~~~V~GGG~~gQa~Air~aiaraL~   79 (121)
T PF00380_consen    1 GKRKTAIARVWLKPGSGKIRINGKPLEEYFP-NPYLREKILEPLELTGTLGKFDIFANVKGGGISGQAGAIRLAIARALV   79 (121)
T ss_dssp             EEETTEEEEEEEEESSSEEEETTSEHHHHSS-STTTGCCTTHHHHCTTTSTSEEEEEEEESSSHHHHHHHHHHHHHHHHH
T ss_pred             CCCceEEEEEEEEeCceEEEECCEEHHHhcC-cHhHHHHHHHHHHHhCcCCeeeEEEEEecCcEeeehHHHHHHHHHHHH
Confidence            8999999999999999999999999999996 889999999999999999999999999999999999999999999999


Q ss_pred             hhCccCcCCCCC
Q 042358          182 KFCTSVPGIMES  193 (193)
Q Consensus       182 ~~~p~~R~~Lk~  193 (193)
                      .++|++++.||+
T Consensus        80 ~~~~~~~~~Lk~   91 (121)
T PF00380_consen   80 KFNPSLKPELKK   91 (121)
T ss_dssp             HHHTTCHHHHCT
T ss_pred             HHhHHHHHHHhh
Confidence            999999998874

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 S9 is one of the proteins from the small ribosomal subunit. It belongs to the S9P family of ribosomal proteins which, on the basis of sequence similarities [, ], groups bacterial; algal chloroplast; cyanelle and archaeal S9 proteins; and mammalian; plant; and yeast mitochondrial ribosomal S9 proteins. These proteins adopt a beta-alpha-beta fold similar to that found in numerous RNA/DNA-binding proteins, as well as in kinases from the GHMP kinase family [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V46_I 3T1H_I 3MR8_I 3F1G_I 3D5C_I 3D5A_I 2WDG_I 3MS0_I 2WDM_I 2J02_I ....

>PTZ00086 40S ribosomal protein S16; Provisional

Probab=100.00  E-value=1.6e-33  Score=229.22  Aligned_cols=94  Identities=22%  Similarity=0.313  Sum_probs=87.0

Q ss_pred             eEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCc--cCccceEEEEecCChhhHHHHHHH
Q 042358           97 TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGY--ETSYDVFVKAHGGGLSGQAQAITL  174 (193)
Q Consensus        97 ~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~--~~kyDI~i~VkGGG~sGQA~AIRl  174 (193)
                      .++++||||+|+|+||+++|+|+|+|||+|+++||+  +.++++|++||.+++.  .++|||+|+|+|||++|||+||||
T Consensus        10 ~v~~~GrRKtAiArv~l~~G~G~i~INg~~l~~y~~--~~~r~~i~~Pl~~~~~~~~~~~Di~i~V~GGG~sgQA~Air~   87 (147)
T PTZ00086         10 QVQTFGKKKTAVAVALVTKGKGLIRVNGVPLDLINP--ETLRAKVFEPLLLVGKERFSRLDIRVRVRGGGQVAQAYAIRQ   87 (147)
T ss_pred             ceEEeeecCCceEEEEEEcCCceEEECCcCHHHhCc--HHHHHHHHHHHHHhCcCccCceeEEEEEEcCCHHHHHHHHHH
Confidence            578999999999999999999999999999999996  6789999999999985  889999999999999999999999


Q ss_pred             HHHHHHHhh-----CccCcCCCC
Q 042358          175 GVARALLKF-----CTSVPGIME  192 (193)
Q Consensus       175 AIARALv~~-----~p~~R~~Lk  192 (193)
                      ||||||+.+     +++.|+.||
T Consensus        88 aIaRAL~~~~~~~~~~~~r~~Lk  110 (147)
T PTZ00086         88 AIAKGLVAYYQKYVDEATKAELK  110 (147)
T ss_pred             HHHHHHHHHhcccCChHHHHHHH
Confidence            999999999     556666554

>PLN00210 40S ribosomal protein S16; Provisional

Probab=99.98  E-value=4.2e-33  Score=225.33  Aligned_cols=95  Identities=23%  Similarity=0.299  Sum_probs=86.3

Q ss_pred             eeEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCc--cCccceEEEEecCChhhHHHHHH
Q 042358           96 QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGY--ETSYDVFVKAHGGGLSGQAQAIT  173 (193)
Q Consensus        96 ~~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~--~~kyDI~i~VkGGG~sGQA~AIR  173 (193)
                      ..++++||||+|+|+||++||+|+|+|||+|+++||+  +.++++|++||.+++.  .++|||+|+|+|||++|||+|||
T Consensus         3 ~~~~~~GrRKta~Arv~~~~G~G~i~INg~~~~~y~~--~~~r~~i~~Pl~~~~~~~~~~~Di~~~V~GGG~sgQa~Air   80 (141)
T PLN00210          3 ESVQCFGRKKTAVAVTYCKRGRGLIKINGCPIELVQP--EILRFKAFEPILLLGRHRFAGVDMRIRVKGGGHTSQIYAIR   80 (141)
T ss_pred             cceeeeccCCCceEEEEEECCCceEEECCCcHHHHCC--HHHHHHHHHHHHHhCccccCceeEEEEEEcCCHhHHHHHHH
Confidence            3578999999999999999999999999999999975  7789999999999985  58999999999999999999999


Q ss_pred             HHHHHHHHhhCc-----cCcCCCC
Q 042358          174 LGVARALLKFCT-----SVPGIME  192 (193)
Q Consensus       174 lAIARALv~~~p-----~~R~~Lk  192 (193)
                      |||||||+.+++     ++|+.||
T Consensus        81 ~aiaraL~~~~~~~~~~~~r~~Lk  104 (141)
T PLN00210         81 QSIAKALVAYYQKYVDEQSKKEIK  104 (141)
T ss_pred             HHHHHHHHHhcccccChhHHHHHH
Confidence            999999999966     5555554

>KOG1753 consensus 40S ribosomal protein S16 [Translation, ribosomal structure and biogenesis]

Probab=99.78  E-value=5.2e-19  Score=142.97  Aligned_cols=91  Identities=26%  Similarity=0.349  Sum_probs=82.9

Q ss_pred             cceeEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCc--cCccceEEEEecCChhhHHHH
Q 042358           94 AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGY--ETSYDVFVKAHGGGLSGQAQA  171 (193)
Q Consensus        94 ~~~~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~--~~kyDI~i~VkGGG~sGQA~A  171 (193)
                      ..++++.+||+|+|+|.+.++.|+|-|.|||+|++.+ + +..++.+++||+.+++.  ....||.|.|+|||.++|.+|
T Consensus         5 ~~qSvq~fG~KK~AtAva~ck~G~glikvNg~ple~i-e-~~~L~~Kl~Epvlllgk~rfa~vdi~v~~~ggghvsqiya   82 (145)
T KOG1753|consen    5 PLQSVQVFGRKKTATAVAHCKHGSGLIKVNGRPLELI-E-PEILRYKLLEPVLLLGKERFAGVDIRVRVKGGGHVSQIYA   82 (145)
T ss_pred             cccceeeeccccceEEEEEeecCceEEEECCcchHhc-c-HHHHHHHHhhhHhhhhhhhhCCCceEEEEecCchHHHHHH
Confidence            3567889999999999999999999999999999965 3 68889999999999984  568999999999999999999


Q ss_pred             HHHHHHHHHHhhCcc
Q 042358          172 ITLGVARALLKFCTS  186 (193)
Q Consensus       172 IRlAIARALv~~~p~  186 (193)
                      ||++||+||++++..
T Consensus        83 irqa~~kalvayyqk   97 (145)
T KOG1753|consen   83 IRQAIAKALVAYYQK   97 (145)
T ss_pred             HHHHhhHHHHHHHHH
Confidence            999999999999763

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.65  E-value=0.061  Score=53.98  Aligned_cols=80  Identities=26%  Similarity=0.457  Sum_probs=56.7

Q ss_pred             EceecceEEEEEE---EccceEEEEcCccccccccCCHHHHHHHH----HHHH---------------------------
Q 042358          101 TGRRKCAIARVVL---QEGTGKFIINYRDAKEYLQGNPLWLQYIK----VPLV---------------------------  146 (193)
Q Consensus       101 ~GRRKtAiArV~L---~pGsGkI~INgkpl~eYF~~~~~~r~~Il----~PL~---------------------------  146 (193)
                      .|.=|+++|.--+   .|-+|+|.++|+|+.+|=  ...+|++|-    ||..                           
T Consensus       503 SGsGKSTiasLL~rfY~PtsG~IllDG~~i~~~~--~~~lr~~Ig~V~QEPvLFs~sI~eNI~YG~~~~t~e~i~~AAk~  580 (716)
T KOG0058|consen  503 SGSGKSTIASLLLRFYDPTSGRILLDGVPISDIN--HKYLRRKIGLVGQEPVLFSGSIRENIAYGLDNATDEEIEAAAKM  580 (716)
T ss_pred             CCCCHHHHHHHHHHhcCCCCCeEEECCeehhhcC--HHHHHHHeeeeeccceeecccHHHHHhcCCCCCCHHHHHHHHHH
Confidence            4555888887633   488999999999999983  345555431    2321                           


Q ss_pred             ------HhCccCccceEEEEecCChh-hHHHHHHHHHHHHHHhhCc
Q 042358          147 ------TLGYETSYDVFVKAHGGGLS-GQAQAITLGVARALLKFCT  185 (193)
Q Consensus       147 ------lt~~~~kyDI~i~VkGGG~s-GQA~AIRlAIARALv~~~p  185 (193)
                            +.+..++||-.|--||-=+| ||-|  |.||||||++ ||
T Consensus       581 ANah~FI~~~p~gY~T~VGEkG~qLSGGQKQ--RIAIARALlr-~P  623 (716)
T KOG0058|consen  581 ANAHEFITNFPDGYNTVVGEKGSQLSGGQKQ--RIAIARALLR-NP  623 (716)
T ss_pred             hChHHHHHhCccccccccCCccccccchHHH--HHHHHHHHhc-CC
Confidence                  44567889999988885554 3665  7799999987 44

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=86.57  E-value=0.9  Score=42.32  Aligned_cols=80  Identities=21%  Similarity=0.282  Sum_probs=49.9

Q ss_pred             EceecceEEEEEE---EccceEEEEcCcccccccc-----------CC-----HHHH------------HHHHHHHHHhC
Q 042358          101 TGRRKCAIARVVL---QEGTGKFIINYRDAKEYLQ-----------GN-----PLWL------------QYIKVPLVTLG  149 (193)
Q Consensus       101 ~GRRKtAiArV~L---~pGsGkI~INgkpl~eYF~-----------~~-----~~~r------------~~Il~PL~lt~  149 (193)
                      .|-=|+..++.-+   .|.+|+|.|||+++.++ .           .+     ...+            +.+.+-+...+
T Consensus       370 SGsGKSTLl~lL~g~~~p~~G~I~i~g~~i~~~-~~~lr~~i~~V~Q~~~lF~~TI~eNI~~g~~~~~~e~i~~al~~a~  448 (529)
T TIGR02868       370 SGSGKSTLLMLLTGLLDPLQGEVTLDGVSVSSL-QDELRRRISVFAQDAHLFDTTVRDNLRLGRPDATDEELWAALERVG  448 (529)
T ss_pred             CCCCHHHHHHHHhcCCCCCCcEEEECCEEhhhH-HHHHHhheEEEccCcccccccHHHHHhccCCCCCHHHHHHHHHHcC
Confidence            3444777777633   57889999999887754 2           01     1112            22333344333


Q ss_pred             -------ccCccceEEEEecCChhhHHHHHHHHHHHHHHh
Q 042358          150 -------YETSYDVFVKAHGGGLSGQAQAITLGVARALLK  182 (193)
Q Consensus       150 -------~~~kyDI~i~VkGGG~sGQA~AIRlAIARALv~  182 (193)
                             +.+.||-.+--+|..+||- |-=|+||||||++
T Consensus       449 l~~~i~~lp~GldT~ige~G~~LSGG-QrQRiaiARall~  487 (529)
T TIGR02868       449 LADWLRSLPDGLDTVLGEGGARLSGG-ERQRLALARALLA  487 (529)
T ss_pred             CHHHHHhCcccccchhccccCcCCHH-HHHHHHHHHHHhc
Confidence                   3457888877667667642 3349999999987

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PTZ00265 multidrug resistance protein (mdr1); Provisional

Probab=81.79  E-value=1.7  Score=46.74  Aligned_cols=81  Identities=23%  Similarity=0.277  Sum_probs=52.9

Q ss_pred             EEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHH------------------------------HHHHHHHHh
Q 042358           99 FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQ------------------------------YIKVPLVTL  148 (193)
Q Consensus        99 ~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~------------------------------~Il~PL~lt  148 (193)
                      +..+.++.+--.-...|-+|+|+|||+++.+|=.  ..+|+                              .|.+-+...
T Consensus      1258 ~~~~~~~~~~~~~~~~~~~G~I~idG~di~~~~~--~~lR~~i~~V~Qep~LF~gTIreNI~~g~~~at~eeI~~A~k~A 1335 (1466)
T PTZ00265       1258 FSLTKEGGSGEDSTVFKNSGKILLDGVDICDYNL--KDLRNLFSIVSQEPMLFNMSIYENIKFGKEDATREDVKRACKFA 1335 (1466)
T ss_pred             cccccccccccccccCCCCCeEEECCEEHHhCCH--HHHHhhccEeCCCCccccccHHHHHhcCCCCCCHHHHHHHHHHc
Confidence            3455566655555666789999999999876521  12221                              223333332


Q ss_pred             C-------ccCccceEEEEecCChhhHHHHHHHHHHHHHHh
Q 042358          149 G-------YETSYDVFVKAHGGGLSGQAQAITLGVARALLK  182 (193)
Q Consensus       149 ~-------~~~kyDI~i~VkGGG~sGQA~AIRlAIARALv~  182 (193)
                      +       +.++||-.|--+|..+|| =|.=|+||||||++
T Consensus      1336 ~l~~fI~~LP~GydT~VGe~G~~LSG-GQkQRIaIARALlr 1375 (1466)
T PTZ00265       1336 AIDEFIESLPNKYDTNVGPYGKSLSG-GQKQRIAIARALLR 1375 (1466)
T ss_pred             CCHHHHHhCccccCCccCCCCCcCCH-HHHHHHHHHHHHhc
Confidence            2       456789888877777775 35669999999987

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	193
3bbn_I	197	Homology Model For The Spinach Chloroplast 30s Subu		1e-53
1fjg_I	128	Structure Of The Thermus Thermophilus 30s Ribosomal		9e-13
2hgi_L	128	Crystal Structure Of The 70s Thermus Thermophilus R		9e-13
1pns_I	127	Crystal Structure Of A Streptomycin Dependent Ribos		1e-12
1vs5_I	130	Crystal Structure Of The Bacterial Ribosome From Es		1e-12
1p6g_I	129	Real Space Refined Coordinates Of The 30s Subunit F		2e-12
3fih_I	127	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		2e-12
2gy9_I	126	Structure Of The 30s Subunit Of A Pre-Translocation		2e-12
3j20_K	135	Promiscuous Behavior Of Proteins In Archaeal Riboso		3e-09

>pdb|3BBN|I Chain I, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 197

Iteration: 1
 Score =  205 bits (521), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 95/107 (88%), Positives = 101/107 (94%)
Query: 80  DLKKYVKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQ 139
           DL+K+VKSRLPGGFAAQT+ GTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQ
Sbjct: 54  DLEKFVKSRLPGGFAAQTVIGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQ 113
Query: 140 YIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKFCTS 186
           Y+K PL TLGYET+YDVFVKAHGGGLSGQAQAI+LGVARALLK   S
Sbjct: 114 YVKTPLATLGYETNYDVFVKAHGGGLSGQAQAISLGVARALLKVSAS 160

>pdb|1FJG|I Chain I, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin Length = 128

Iteration: 1
 Score = 69.7 bits (169), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 37/88 (42%), Positives = 54/88 (61%), Gaps = 1/88 (1%)
Query: 96  QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYD 155
           +  +GTGRRK A+ARV L+ G GK  +N +D  EY QG    +  ++ PL  +     +D
Sbjct: 2   EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALE-PLRAVDALGRFD 60
Query: 156 VFVKAHGGGLSGQAQAITLGVARALLKF 183
            ++   GGG SGQ  AI LG+ARAL+++
Sbjct: 61  AYITVRGGGKSGQIDAIKLGIARALVQY 88

>pdb|2HGI|L Chain L, Crystal Structure Of The 70s Thermus Thermophilus Ribosome Showing How The 16s 3'-End Mimicks Mrna E And P Codons. This Entry 2hgi Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 2hgj. Length = 128

Iteration: 1
 Score = 69.7 bits (169), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 37/88 (42%), Positives = 54/88 (61%), Gaps = 1/88 (1%)
Query: 96  QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYD 155
           +  +GTGRRK A+ARV L+ G GK  +N +D  EY QG    +  ++ PL  +     +D
Sbjct: 2   EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALE-PLRAVDALGHFD 60
Query: 156 VFVKAHGGGLSGQAQAITLGVARALLKF 183
            ++   GGG SGQ  AI LG+ARAL+++
Sbjct: 61  AYITVRGGGKSGQIDAIKLGIARALVQY 88

>pdb|1PNS|I Chain I, Crystal Structure Of A Streptomycin Dependent Ribosome From E. Coli, 30s Subunit Of 70s Ribosome. This File, 1pns, Contains The 30s Subunit, Two Trnas, And One Mrna Molecule. The 50s Ribosomal Subunit Is In File 1pnu. Length = 127

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 37/88 (42%), Positives = 54/88 (61%), Gaps = 1/88 (1%)
Query: 96  QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYD 155
           +  +GTGRRK A+ARV L+ G GK  +N +D  EY QG    +  ++ PL  +     +D
Sbjct: 1   EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALE-PLRAVDALGRFD 59
Query: 156 VFVKAHGGGLSGQAQAITLGVARALLKF 183
            ++   GGG SGQ  AI LG+ARAL+++
Sbjct: 60  AYITVRGGGKSGQIDAIKLGIARALVQY 87

>pdb|1VS5|I Chain I, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 130

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 35/95 (36%), Positives = 54/95 (56%), Gaps = 1/95 (1%)
Query: 93  FAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET 152
            A    +GTGRRK + ARV ++ G GK +IN R  ++Y  G       ++ PL  +    
Sbjct: 1   MAENQYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYF-GRETARMVVRQPLELVDMVE 59
Query: 153 SYDVFVKAHGGGLSGQAQAITLGVARALLKFCTSV 187
             D+++   GGG+SGQA AI  G+ RAL+++  S+
Sbjct: 60  KLDLYITVKGGGISGQAGAIRHGITRALMEYDESL 94

>pdb|1P6G|I Chain I, Real Space Refined Coordinates Of The 30s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 129

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 35/94 (37%), Positives = 54/94 (57%), Gaps = 1/94 (1%)
Query: 94  AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETS 153
           A    +GTGRRK + ARV ++ G GK +IN R  ++Y  G       ++ PL  +     
Sbjct: 1   AENQYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYF-GRETARMVVRQPLELVDMVEK 59
Query: 154 YDVFVKAHGGGLSGQAQAITLGVARALLKFCTSV 187
            D+++   GGG+SGQA AI  G+ RAL+++  S+
Sbjct: 60  LDLYITVKGGGISGQAGAIRHGITRALMEYDESL 93

>pdb|3FIH|I Chain I, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 30s Subunit, Trnas And The Ternary Complex. Length = 127

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 34/89 (38%), Positives = 53/89 (59%), Gaps = 1/89 (1%)
Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK + ARV ++ G GK +IN R  ++Y  G       ++ PL  +      D+++
Sbjct: 4   YGTGRRKSSAARVFIKPGNGKIVINQRSLEQYF-GRETARMVVRQPLELVDMVEKLDLYI 62
Query: 159 KAHGGGLSGQAQAITLGVARALLKFCTSV 187
              GGG+SGQA AI  G+ RAL+++  S+
Sbjct: 63  TVKGGGISGQAGAIRHGITRALMEYDESL 91

>pdb|2GY9|I Chain I, Structure Of The 30s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 126

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 34/89 (38%), Positives = 53/89 (59%), Gaps = 1/89 (1%)
Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK + ARV ++ G GK +IN R  ++Y  G       ++ PL  +      D+++
Sbjct: 3   YGTGRRKSSAARVFIKPGNGKIVINQRSLEQYF-GRETARMVVRQPLELVDMVEKLDLYI 61
Query: 159 KAHGGGLSGQAQAITLGVARALLKFCTSV 187
              GGG+SGQA AI  G+ RAL+++  S+
Sbjct: 62  TVKGGGISGQAGAIRHGITRALMEYDESL 90

>pdb|3J20|K Chain K, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 135

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/92 (40%), Positives = 55/92 (59%), Gaps = 6/92 (6%)
Query: 96  QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQY-IKVPLVTLGYE--T 152
           + I  TG+RK AIAR V++EG G+  IN +   E ++  P   ++ I  PL+  G E   
Sbjct: 2   RIIQTTGKRKTAIARAVIREGKGRVRINGKPV-EIIE--PEIARFTILEPLILAGEEIWN 58
Query: 153 SYDVFVKAHGGGLSGQAQAITLGVARALLKFC 184
           S D+ VK  GGG  GQA+A  + +ARAL+++ 
Sbjct: 59  SVDIDVKVEGGGFMGQAEAARMAIARALVEWT 90

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	193
3bbn_I	197	Ribosomal protein S9; small ribosomal subunit, spi	4e-47
2vqe_I	128	30S ribosomal protein S9, 30S ribosomal protein S6	2e-35
3r8n_I	127	30S ribosomal protein S9; protein biosynthesis, RN	7e-34
2xzm_I	145	RPS16E; ribosome, translation; 3.93A {Tetrahymena	1e-27
3u5c_Q	143	RP61R, 40S ribosomal protein S16-A; translation, r	2e-27
2zkq_i	146	40S ribosomal protein S16E; protein-RNA complex, 4	2e-27
3iz6_I	149	40S ribosomal protein S16 (S9P); eukaryotic riboso	4e-27

>3bbn_I Ribosomal protein S9; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 197

 Score =  152 bits (385), Expect = 4e-47
 Identities = 111/159 (69%), Positives = 129/159 (81%), Gaps = 3/159 (1%)

Query: 26  LSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSATEAAPAEL-ETTDLKKY 84
            +SLSF+S ++ KP      + R+K  S+S      P ++ + +  AP E+ ET DL+K+
Sbjct: 1   FASLSFTSNLTPKPQTL--PMARTKPFSLSNPAVVKPLVITATSATAPVEVAETADLEKF 58

Query: 85  VKSRLPGGFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVP 144
           VKSRLPGGFAAQT+ GTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQY+K P
Sbjct: 59  VKSRLPGGFAAQTVIGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYVKTP 118

Query: 145 LVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKF 183
           L TLGYET+YDVFVKAHGGGLSGQAQAI+LGVARALLK 
Sbjct: 119 LATLGYETNYDVFVKAHGGGLSGQAQAISLGVARALLKV 157

>2vqe_I 30S ribosomal protein S9, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.14.1.1 PDB: 1gix_L* 1hnw_I* 1hnx_I* 1hnz_I* 1hr0_I 1i94_I* 1i95_I* 1i96_I* 1i97_I* 1ibk_I* 1ibl_I* 1ibm_I 1j5e_I 1jgo_L* 1jgp_L* 1jgq_L* 1ml5_L* 1n32_I* 1n33_I* 1n34_I ... Length = 128

 Score =  119 bits (302), Expect = 2e-35
 Identities = 35/88 (39%), Positives = 50/88 (56%), Gaps = 1/88 (1%)

Query: 96  QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYD 155
           +  +GTGRRK A+ARV L+ G GK  +N +D  EY     +       PL  +     +D
Sbjct: 2   EQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYF-QGLVRAVAALEPLRAVDALGRFD 60

Query: 156 VFVKAHGGGLSGQAQAITLGVARALLKF 183
            ++   GGG SGQ  AI LG+ARAL+++
Sbjct: 61  AYITVRGGGKSGQIDAIKLGIARALVQY 88

>2xzm_I RPS16E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_I Length = 145

 Score =  100 bits (251), Expect = 1e-27
 Identities = 19/90 (21%), Positives = 40/90 (44%), Gaps = 4/90 (4%)

Query: 96  QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET--S 153
           Q +   GR+K A+A   ++ G G   +N            +    I  P++ LG +   +
Sbjct: 7   QLVQTFGRKKNAVAVASVRPGKGLLKVNGSPIDMI--NPQILQAKIYEPILLLGQQKFAN 64

Query: 154 YDVFVKAHGGGLSGQAQAITLGVARALLKF 183
            D+ ++  G G + Q  AI   +++ ++ +
Sbjct: 65  LDIRIRVRGSGYTSQVYAIRQALSKGIVAY 94

>3u5c_Q RP61R, 40S ribosomal protein S16-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_I 3o30_J 3o2z_J 3u5g_Q 1s1h_I 3jyv_I* Length = 143

 Score =  100 bits (250), Expect = 2e-27
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 4/92 (4%)

Query: 94  AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET- 152
           A  ++   G++K A A   ++ G G   +N            +    +  PL+ +G +  
Sbjct: 3   AVPSVQTFGKKKSATAVAHVKAGKGLIKVNGSPITLV--EPEILRFKVYEPLLLVGLDKF 60

Query: 153 -SYDVFVKAHGGGLSGQAQAITLGVARALLKF 183
            + D+ V+  GGG   Q  AI   +A+ L+ +
Sbjct: 61  SNIDIRVRVTGGGHVSQVYAIRQAIAKGLVAY 92

>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 146

 Score =  100 bits (250), Expect = 2e-27
 Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 4/90 (4%)

Query: 96  QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET--S 153
           Q++   GR+K A A    + G G   +N R  +   +   L    +  P++ LG E    
Sbjct: 8   QSVQVFGRKKTATAVAHCKRGNGLIKVNGRPLEMI-EPRTL-QYKLLEPVLLLGKERFAG 65

Query: 154 YDVFVKAHGGGLSGQAQAITLGVARALLKF 183
            D+ V+  GGG   Q  AI   +++AL+ +
Sbjct: 66  VDIRVRVKGGGHVAQIYAIRQSISKALVAY 95

>3iz6_I 40S ribosomal protein S16 (S9P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Length = 149

 Score = 99.3 bits (248), Expect = 4e-27
 Identities = 21/92 (22%), Positives = 38/92 (41%), Gaps = 4/92 (4%)

Query: 94  AAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYET- 152
              T+   GR+K A+A    + G G   +N    +       +       P++  G    
Sbjct: 9   PPGTVQCFGRKKTAVAVSYCKPGRGLIKVNGVPIELI--RPEMLRLKAFEPILLAGRSRF 66

Query: 153 -SYDVFVKAHGGGLSGQAQAITLGVARALLKF 183
              D+ ++  GGG + Q  AI   +A+AL+ +
Sbjct: 67  KDIDMRIRVRGGGKTSQIYAIRQAIAKALVAY 98

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	193
3bbn_I	197	Ribosomal protein S9; small ribosomal subunit, spi	100.0
2vqe_I	128	30S ribosomal protein S9, 30S ribosomal protein S6	100.0
3r8n_I	127	30S ribosomal protein S9; protein biosynthesis, RN	100.0
2zkq_i	146	40S ribosomal protein S16E; protein-RNA complex, 4	100.0
2xzm_I	145	RPS16E; ribosome, translation; 3.93A {Tetrahymena	100.0
3u5c_Q	143	RP61R, 40S ribosomal protein S16-A; translation, r	100.0
3j20_K	135	30S ribosomal protein S9P; archaea, archaeal, KINK	100.0
3iz6_I	149	40S ribosomal protein S16 (S9P); eukaryotic riboso	99.96
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	87.71
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	80.45

>3bbn_I Ribosomal protein S9; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=5.2e-52  Score=349.45  Aligned_cols=165  Identities=68%  Similarity=1.042  Sum_probs=92.5

Q ss_pred             ccceeeeccccCCCCCCceecccccccccCCCCCCCCceEEeee-ccC-CcchhhhhhhhhhhccCCCCccceeEEEEce
Q 042358           26 LSSLSFSSQISQKPGIPFVSLHRSKSISISPKNDKTPKLVVSAT-EAA-PAELETTDLKKYVKSRLPGGFAAQTIFGTGR  103 (193)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~e~~~l~~~v~~r~~~~~~~~~~~~~GR  103 (193)
                      ||||||+||++|+|++  ++|+|.+.++ ++++.++.+|+++|+ .++ ++++|.++|++|++++++..+..+.++++||
T Consensus         1 ~~~~~~~~~~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~k~~~~~~~~~~~~~~tGR   77 (197)
T 3bbn_I            1 FASLSFTSNLTPKPQT--LPMARTKPFS-LSNPAVVKPLVITATSATAPVEVAETADLEKFVKSRLPGGFAAQTVIGTGR   77 (197)
T ss_dssp             -------------------------------------------------------------------------CBCCCCE
T ss_pred             CccccccccccCCCCC--Ccchhccccc-CCccccccceEEEeeeccCCcchhHHHHHHHHHHHhcccccCccEEEEEee
Confidence            6899999999999999  9999998666 788889999999998 444 5777778999999999998888888899999


Q ss_pred             ecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHHHHHHHhh
Q 042358          104 RKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVARALLKF  183 (193)
Q Consensus       104 RKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAIARALv~~  183 (193)
                      ||+|+|+|||+||+|+|+|||+|+++||+.++.++++|++||.+++.+++|||+|+|+|||.+|||+||||||||||+++
T Consensus        78 RKtAvArV~l~~G~G~I~VNg~~l~~YF~~~~~~~~~v~~PL~l~~~~~k~DI~v~V~GGG~sGQA~AIR~gIARALv~~  157 (197)
T 3bbn_I           78 RKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYVKTPLATLGYETNYDVFVKAHGGGLSGQAQAISLGVARALLKV  157 (197)
T ss_dssp             ETTEEEEEEEEESSCCEEETTEEHHHHSCSCCGGGTTTSHHHHTTTCTTTEEEEEEEESSCHHHHHHHHHHHHHHHTTTS
T ss_pred             CCceEEEEEEEcCceeEEECCCcHHHHcCccHHHHHHHHHHHHHhCccCceeEEEEEecCCeehHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999997566666799999999999999999999999999999999999999999999


Q ss_pred             CccCcCCCCC
Q 042358          184 CTSVPGIMES  193 (193)
Q Consensus       184 ~p~~R~~Lk~  193 (193)
                      ||++|+.||+
T Consensus       158 ~~~~r~~LK~  167 (197)
T 3bbn_I          158 SASHRAPLKQ  167 (197)
T ss_dssp             CGGGSHHHHT
T ss_pred             CHHHHHHHHH
Confidence            9999998874

>2vqe_I 30S ribosomal protein S9, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.14.1.1 PDB: 1gix_L* 1hnw_I* 1hnx_I* 1hnz_I* 1hr0_I 1i94_I* 1i95_I* 1i96_I* 1i97_I* 1ibk_I* 1ibl_I* 1ibm_I 1j5e_I 1jgo_L* 1jgp_L* 1jgq_L* 1ml5_L* 1n32_I* 1n33_I* 1n34_I ...

Probab=100.00  E-value=3.1e-37  Score=245.08  Aligned_cols=95  Identities=38%  Similarity=0.615  Sum_probs=91.6

Q ss_pred             EEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHHH
Q 042358           98 IFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVA  177 (193)
Q Consensus        98 ~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAIA  177 (193)
                      ++++||||+|+|+|||.||+|+|+|||+|+++||+ ++.++++|++||.+++..++|||+|+|+|||.+|||+|||||||
T Consensus         4 ~~~~GrRKtavArv~l~~G~G~i~VNg~~l~~yf~-~~~~r~~v~~Pl~~~~~~~~~Di~v~V~GGG~sgQA~AiR~gIa   82 (128)
T 2vqe_I            4 YYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQ-GLVRAVAALEPLRAVDALGRFDAYITVRGGGKSGQIDAIKLGIA   82 (128)
T ss_dssp             EEECCEETTEEEEEEEEESSCCEEESSSBHHHHSS-SCSSGGGGGHHHHHHTCSTTEEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             cEEeCcCCCEEEEEEEEcCceEEEECCCcHHHHcC-CHHHHHHHHhHHHHHcccCceeEEEEEEcCCeehHHHHHHHHHH
Confidence            58999999999999999999999999999999998 67788999999999999999999999999999999999999999


Q ss_pred             HHHHhhCccCcCCCCC
Q 042358          178 RALLKFCTSVPGIMES  193 (193)
Q Consensus       178 RALv~~~p~~R~~Lk~  193 (193)
                      |||+++||++|+.||+
T Consensus        83 rAL~~~~~~~r~~Lk~   98 (128)
T 2vqe_I           83 RALVQYNPDYRAKLKP   98 (128)
T ss_dssp             HHHHHHCGGGHHHHTT
T ss_pred             HHHHHHCHHHHHHHHH
Confidence            9999999999999874

>2zkq_i 40S ribosomal protein S16E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=1.1e-35  Score=240.47  Aligned_cols=100  Identities=24%  Similarity=0.295  Sum_probs=91.3

Q ss_pred             CccceeEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCc--cCccceEEEEecCChhhHH
Q 042358           92 GFAAQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGY--ETSYDVFVKAHGGGLSGQA  169 (193)
Q Consensus        92 ~~~~~~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~--~~kyDI~i~VkGGG~sGQA  169 (193)
                      .+..+.++++||||+|+|+|||.||+|+|+|||+|+ +||+ ++.++++|++||.+++.  .++|||+|+|+|||.+|||
T Consensus         4 ~~~~~~~~~~GrRKtAvArv~l~~G~G~i~VNg~~l-eyf~-~~~~r~~v~~Pl~l~~~~~~~~~Di~v~V~GGG~sgQA   81 (146)
T 2zkq_i            4 KGPLQSVQVFGRKKTATAVAHCKRGNGLIKVNGRPL-EMIE-PRTLQYKLLEPVLLLGKERFAGVDIRVRVKGGGHVAQI   81 (146)
T ss_dssp             ----CCEEECCBCSSCEEEEEEEESSSCEEETTEEH-HHHS-TTSCCGGGGHHHHHTSSCTTSSEEEEEEEESSCHHHHH
T ss_pred             CCCCceEEEEeeCCCeEEEEEEEcCCeeEEEcCcCH-HHcC-cHHHHHHHHHHHHHhCccccCceEEEEEEEcCCeehHH
Confidence            344567899999999999999999999999999999 6998 67889999999999994  6999999999999999999


Q ss_pred             HHHHHHHHHHHHhh-----CccCcCCCCC
Q 042358          170 QAITLGVARALLKF-----CTSVPGIMES  193 (193)
Q Consensus       170 ~AIRlAIARALv~~-----~p~~R~~Lk~  193 (193)
                      +||||||||||+.+     ||++|+.||+
T Consensus        82 ~AiR~aIArAL~~~~~k~~d~~~r~~Lk~  110 (146)
T 2zkq_i           82 YAIRQSISKALVAYYQKYVDEASKKEIKD  110 (146)
T ss_dssp             HHHHHHHHHHHHHHCTTCTTSSSCCCCCS
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHH
Confidence            99999999999999     9999999985

>2xzm_I RPS16E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_I

Probab=100.00  E-value=2.2e-35  Score=238.61  Aligned_cols=95  Identities=20%  Similarity=0.339  Sum_probs=90.4

Q ss_pred             eeEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhC--ccCccceEEEEecCChhhHHHHHH
Q 042358           96 QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLG--YETSYDVFVKAHGGGLSGQAQAIT  173 (193)
Q Consensus        96 ~~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~--~~~kyDI~i~VkGGG~sGQA~AIR  173 (193)
                      +.++++||||+|+|+|||+||+|+|+|||+|++ ||+ ++.++++|++||.+++  ..++|||+|+|+|||.+|||+|||
T Consensus         7 ~~~~~~GrRKtAvArv~l~~G~G~i~VNg~~l~-yf~-~~~~r~~v~~Pl~l~~~~~~~~~Di~v~V~GGG~sgQA~AiR   84 (145)
T 2xzm_I            7 QLVQTFGRKKNAVAVASVRPGKGLLKVNGSPID-MIN-PQILQAKIYEPILLLGQQKFANLDIRIRVRGSGYTSQVYAIR   84 (145)
T ss_dssp             SCEEEEEEETTEEEEEEEEESSCEEEESSSBGG-GCS-STTTHHHHHHHHHHHCHHHHHHEEEEEEECCSSHHHHHHHHH
T ss_pred             cEEEEEeECCCEEEEEEEEeCceEEEECCEeHH-HcC-cHHHHHHHHHHHHHhChhhhCceeEEEEEEcCCeecHHHHHH
Confidence            568999999999999999999999999999999 998 7788999999999999  799999999999999999999999


Q ss_pred             HHHHHHHHhh-----CccCcCCCC
Q 042358          174 LGVARALLKF-----CTSVPGIME  192 (193)
Q Consensus       174 lAIARALv~~-----~p~~R~~Lk  192 (193)
                      |||||||+.+     ||++|+.||
T Consensus        85 ~aIArAL~~~~~k~~d~~~r~~Lk  108 (145)
T 2xzm_I           85 QALSKGIVAYHAKYVDENSKREIK  108 (145)
T ss_dssp             HHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HHHHHHHHHHhhhcCCHHHHHHHH
Confidence            9999999999     998888776

>3u5c_Q RP61R, 40S ribosomal protein S16-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_I 3o30_J 3o2z_J 3u5g_Q 1s1h_I 3jyv_I*

Probab=100.00  E-value=5.6e-35  Score=235.69  Aligned_cols=96  Identities=21%  Similarity=0.294  Sum_probs=88.5

Q ss_pred             ceeEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCc--cCccceEEEEecCChhhHHHHH
Q 042358           95 AQTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGY--ETSYDVFVKAHGGGLSGQAQAI  172 (193)
Q Consensus        95 ~~~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~--~~kyDI~i~VkGGG~sGQA~AI  172 (193)
                      .+.++++||||+|+|+|||+||+|+|+|||+|+++||+  +.++++|++||.+++.  .++|||+|+|+|||++|||+||
T Consensus         4 ~~~v~~~GrRKtAvArv~l~~G~G~i~VNg~~l~~y~~--~~~r~~v~~Pl~l~~~~~~~~~Di~v~V~GGG~sgQA~Ai   81 (143)
T 3u5c_Q            4 VPSVQTFGKKKSATAVAHVKAGKGLIKVNGSPITLVEP--EILRFKVYEPLLLVGLDKFSNIDIRVRVTGGGHVSQVYAI   81 (143)
T ss_dssp             CCEEEEEECSTTCEEEEEEEECSCCEEETTEETTTCSS--CSTHHHHHHHHHHTCSTTSTTEEEEEEEESSCHHHHHHHH
T ss_pred             cceEEEeccCcceEEEEEEEeCceEEEECCCcHHHHCh--HHHHHHHHHHHHHHhhhccCceeEEEEEECCCEecHHhHH
Confidence            35789999999999999999999999999999999997  3678999999999986  4899999999999999999999


Q ss_pred             HHHHHHHHHhh-----CccCcCCCC
Q 042358          173 TLGVARALLKF-----CTSVPGIME  192 (193)
Q Consensus       173 RlAIARALv~~-----~p~~R~~Lk  192 (193)
                      ||||||||+++     ||++|+.||
T Consensus        82 R~aIArAL~~~~~~~vd~~~r~~LK  106 (143)
T 3u5c_Q           82 RQAIAKGLVAYHQKYVDEQSKNELK  106 (143)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhcCCHHHHHHHH
Confidence            99999999998     777777665

>3j20_K 30S ribosomal protein S9P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=7.6e-35  Score=233.04  Aligned_cols=94  Identities=37%  Similarity=0.486  Sum_probs=87.8

Q ss_pred             eEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhC--ccCccceEEEEecCChhhHHHHHHH
Q 042358           97 TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLG--YETSYDVFVKAHGGGLSGQAQAITL  174 (193)
Q Consensus        97 ~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~--~~~kyDI~i~VkGGG~sGQA~AIRl  174 (193)
                      .++++||||+|+|+|||+||+|+|+|||+|+++||+  +.++++|++||.+++  ..++|||+|+|+|||++|||+||||
T Consensus         3 ~v~~~GrRKtAvArv~l~~G~G~i~VNg~~l~~y~~--~~~r~~i~~Pl~l~~~~~~~~~Di~v~V~GGG~~gQA~AiR~   80 (135)
T 3j20_K            3 IIQTTGKRKTAIARAVIREGKGRVRINGKPVEIIEP--EIARFTILEPLILAGEEIWNSVDIDVKVEGGGFMGQAEAARM   80 (135)
T ss_dssp             CEEEEEEETTEEEEEEEEESSCCEEETTEEGGGCSC--SHHHHHHSHHHHHHCHHHHHHEEEEEEEECSCHHHHHHHHHH
T ss_pred             EEEEeCcCccEEEEEEEEeCceEEEECCeeHHHHCh--HHHHHHhhCChhhcchhhcccccEEEEEECCCEechHhHHHH
Confidence            468999999999999999999999999999998874  688999999999998  8999999999999999999999999


Q ss_pred             HHHHHHHhhC--ccCcCCCC
Q 042358          175 GVARALLKFC--TSVPGIME  192 (193)
Q Consensus       175 AIARALv~~~--p~~R~~Lk  192 (193)
                      ||||||++++  |++|+.|+
T Consensus        81 aIarAL~~~~~~~~lr~~l~  100 (135)
T 3j20_K           81 AIARALVEWTGDMSLKEKFM  100 (135)
T ss_dssp             HHHHHHHHHHCCHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHH
Confidence            9999999995  78887764

>3iz6_I 40S ribosomal protein S16 (S9P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}

Probab=99.96  E-value=8.9e-35  Score=235.94  Aligned_cols=96  Identities=22%  Similarity=0.272  Sum_probs=76.1

Q ss_pred             eeEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCcc--CccceEEEEecCChhhHHHHHH
Q 042358           96 QTIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYE--TSYDVFVKAHGGGLSGQAQAIT  173 (193)
Q Consensus        96 ~~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~--~kyDI~i~VkGGG~sGQA~AIR  173 (193)
                      +.++++||||+|+|+|||+||+|+|+|||+|+++||+  +.++++|++||.+++.+  ++|||+|+|+|||.+|||+|||
T Consensus        11 ~~v~~~GrRKtAvArv~l~~G~G~i~VNg~~l~~y~~--~~~r~~v~~Pl~l~~~~~~~~~DI~v~V~GGG~sgQA~AiR   88 (149)
T 3iz6_I           11 GTVQCFGRKKTAVAVSYCKPGRGLIKVNGVPIELIRP--EMLRLKAFEPILLAGRSRFKDIDMRIRVRGGGKTSQIYAIR   88 (149)
T ss_dssp             -------------CCCCCCCCCCSSSEECCCCCCSSC--CEEESSSBHHHHTCSCHHHHHHHTTTTTTSCSTTCCEEECE
T ss_pred             cEEEEeccCcceEEEEEEEeCcEEEEECCCcHHHHCh--HHHHHHHHHHHHHHhHhccCceeEEEEEeCCCeecHHHHHH
Confidence            4578999999999999999999999999999999997  36788999999999864  8999999999999999999999


Q ss_pred             HHHHHHHHhh-----CccCcCCCCC
Q 042358          174 LGVARALLKF-----CTSVPGIMES  193 (193)
Q Consensus       174 lAIARALv~~-----~p~~R~~Lk~  193 (193)
                      |||||||+.+     ||++|+.||+
T Consensus        89 ~gIArALv~~~~~~vd~~~r~~LK~  113 (149)
T 3iz6_I           89 QAIAKALVAYYQKYVDEASKKEVKD  113 (149)
T ss_dssp             ESSCTTTHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHhhhcCCHHHHHHHHH
Confidence            9999999998     7777776663

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=87.71  E-value=0.38  Score=48.94  Aligned_cols=77  Identities=21%  Similarity=0.263  Sum_probs=49.0

Q ss_pred             ecceEEEEEE---EccceEEEEcCccccccc------------cC----CHHHH--------------HHHHHHHHHhC-
Q 042358          104 RKCAIARVVL---QEGTGKFIINYRDAKEYL------------QG----NPLWL--------------QYIKVPLVTLG-  149 (193)
Q Consensus       104 RKtAiArV~L---~pGsGkI~INgkpl~eYF------------~~----~~~~r--------------~~Il~PL~lt~-  149 (193)
                      =|++.+..-+   .|-+|+|.|||+++.++=            |+    +...+              +.|.+-+...+ 
T Consensus      1117 GKSTL~~lL~rl~~p~~G~I~iDG~di~~i~~~~lR~~i~~V~Qdp~LF~gTIreNI~~gld~~~~sd~ei~~Al~~a~l 1196 (1321)
T 4f4c_A         1117 GKSTVVALLERFYDTLGGEIFIDGSEIKTLNPEHTRSQIAIVSQEPTLFDCSIAENIIYGLDPSSVTMAQVEEAARLANI 1196 (1321)
T ss_dssp             STTSHHHHHTTSSCCSSSEEEETTEETTTBCHHHHHTTEEEECSSCCCCSEEHHHHHSSSSCTTTSCHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHhcCccCCCCEEEECCEEhhhCCHHHHHhheEEECCCCEeeCccHHHHHhccCCCCCCCHHHHHHHHHHhCC
Confidence            3666665522   467899999999987641            10    00112              23444555443 


Q ss_pred             ------ccCccceEEEEecCChh-hHHHHHHHHHHHHHHh
Q 042358          150 ------YETSYDVFVKAHGGGLS-GQAQAITLGVARALLK  182 (193)
Q Consensus       150 ------~~~kyDI~i~VkGGG~s-GQA~AIRlAIARALv~  182 (193)
                            +.++||-.|--+|..+| ||.|  |++|||||++
T Consensus      1197 ~~~I~~Lp~GldT~vge~G~~LSgGQrQ--riaiARAllr 1234 (1321)
T 4f4c_A         1197 HNFIAELPEGFETRVGDRGTQLSGGQKQ--RIAIARALVR 1234 (1321)
T ss_dssp             HHHHHTSTTTTCSEETTTSCSSCHHHHH--HHHHHHHHHS
T ss_pred             hHHHHcCcCCCCCEecCCCcccCHHHHH--HHHHHHHHHh
Confidence                  45789988876666665 4665  8999999987

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=80.45  E-value=1.3  Score=44.98  Aligned_cols=80  Identities=25%  Similarity=0.344  Sum_probs=51.5

Q ss_pred             ceecceEEEEEE---EccceEEEEcCcccccc----------------------------ccCCHHHHHHHHHHHHHhC-
Q 042358          102 GRRKCAIARVVL---QEGTGKFIINYRDAKEY----------------------------LQGNPLWLQYIKVPLVTLG-  149 (193)
Q Consensus       102 GRRKtAiArV~L---~pGsGkI~INgkpl~eY----------------------------F~~~~~~r~~Il~PL~lt~-  149 (193)
                      |-=|++..+.-+   .|-+|+|.|||+++.++                            |.......+.+.+-+...+ 
T Consensus       454 GsGKSTll~ll~~~~~~~~G~I~idG~~i~~~~~~~lr~~i~~v~Q~~~Lf~~TI~eNI~~g~~~~~~~~v~~a~~~a~l  533 (1321)
T 4f4c_A          454 GCGKSTIISLLLRYYDVLKGKITIDGVDVRDINLEFLRKNVAVVSQEPALFNCTIEENISLGKEGITREEMVAACKMANA  533 (1321)
T ss_dssp             SSCHHHHHHHHTTSSCCSEEEEEETTEETTTSCHHHHHHHEEEECSSCCCCSEEHHHHHHTTCTTCCHHHHHHHHHHTTC
T ss_pred             CCcHHHHHHHhccccccccCcccCCCccchhccHHHHhhcccccCCcceeeCCchhHHHhhhcccchHHHHHHHHHHccc
Confidence            334666665532   46689999999987654                            1111112334555555443 


Q ss_pred             ------ccCccceEEEEecCChhhHHHHHHHHHHHHHHh
Q 042358          150 ------YETSYDVFVKAHGGGLSGQAQAITLGVARALLK  182 (193)
Q Consensus       150 ------~~~kyDI~i~VkGGG~sGQA~AIRlAIARALv~  182 (193)
                            +.+.||-.|--+|..+||= |--|.||||||++
T Consensus       534 ~~~i~~lp~G~~T~vGe~G~~LSGG-QkQRiaiARAl~~  571 (1321)
T 4f4c_A          534 EKFIKTLPNGYNTLVGDRGTQLSGG-QKQRIAIARALVR  571 (1321)
T ss_dssp             HHHHHHSTTTTSSEESSSSCCCCHH-HHHHHHHHHHHTT
T ss_pred             hhHHHcCCCCCccEecCCCCCCCHH-HHHHHHHHHHHcc
Confidence                  4578999998888778763 2339999999986

---

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	193
d2vqei1	127	d.14.1.1 (I:2-128) Ribosomal protein S9 {Thermus t	3e-23
d2gy9i1	126	d.14.1.1 (I:4-129) Ribosomal protein S9 {Escherich	5e-22

>d2vqei1 d.14.1.1 (I:2-128) Ribosomal protein S9 {Thermus thermophilus [TaxId: 274]} Length = 127

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Translational machinery components
domain: Ribosomal protein S9
species: Thermus thermophilus [TaxId: 274]

 Score = 87.3 bits (216), Expect = 3e-23
 Identities = 37/85 (43%), Positives = 53/85 (62%), Gaps = 1/85 (1%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK A+ARV L+ G GK  +N +D  EY QG    +  ++ PL  +     +D ++
Sbjct: 4   YGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALE-PLRAVDALGRFDAYI 62

Query: 159 KAHGGGLSGQAQAITLGVARALLKF 183
              GGG SGQ  AI LG+ARAL+++
Sbjct: 63  TVRGGGKSGQIDAIKLGIARALVQY 87

>d2gy9i1 d.14.1.1 (I:4-129) Ribosomal protein S9 {Escherichia coli [TaxId: 562]} Length = 126

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Translational machinery components
domain: Ribosomal protein S9
species: Escherichia coli [TaxId: 562]

 Score = 84.5 bits (209), Expect = 5e-22
 Identities = 32/85 (37%), Positives = 51/85 (60%), Gaps = 1/85 (1%)

Query: 99  FGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFV 158
           +GTGRRK + ARV ++ G GK +IN R  ++Y       +  ++ PL  +      D+++
Sbjct: 3   YGTGRRKSSAARVFIKPGNGKIVINQRSLEQYFGRETARMV-VRQPLELVDMVEKLDLYI 61

Query: 159 KAHGGGLSGQAQAITLGVARALLKF 183
              GGG+SGQA AI  G+ RAL+++
Sbjct: 62  TVKGGGISGQAGAIRHGITRALMEY 86

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	193
d2vqei1	127	Ribosomal protein S9 {Thermus thermophilus [TaxId:	100.0
d2gy9i1	126	Ribosomal protein S9 {Escherichia coli [TaxId: 562	100.0

>d2vqei1 d.14.1.1 (I:2-128) Ribosomal protein S9 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Translational machinery components
domain: Ribosomal protein S9
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=4.6e-37  Score=241.00  Aligned_cols=96  Identities=38%  Similarity=0.609  Sum_probs=91.9

Q ss_pred             eEEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHH
Q 042358           97 TIFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGV  176 (193)
Q Consensus        97 ~~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAI  176 (193)
                      .+|++||||+|+|+|||.||+|+|+|||+|+++||+ +..+++.+++||.+++..++|||+|+|+|||++||++||||||
T Consensus         2 ~~y~~GrRKtaiArv~l~~G~G~I~IN~~~~~~yf~-~~~~~~~~~~Pl~~~~~~~~~Di~~~V~GGG~~gQa~Air~aI   80 (127)
T d2vqei1           2 QYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQ-GLVRAVAALEPLRAVDALGRFDAYITVRGGGKSGQIDAIKLGI   80 (127)
T ss_dssp             CEEECCEETTEEEEEEEEESSCCEEESSSBHHHHSS-SCSSGGGGGHHHHHHTCSTTEEEEEEEESSCHHHHHHHHHHHH
T ss_pred             ccEeecccccEEEEEEEEcCCceEEEechhHhhhcc-HHHHHHHHHhhhhhhccccceeEEEEEecCChhHHHHHHHHHH
Confidence            468999999999999999999999999999999999 6778889999999999999999999999999999999999999


Q ss_pred             HHHHHhhCccCcCCCCC
Q 042358          177 ARALLKFCTSVPGIMES  193 (193)
Q Consensus       177 ARALv~~~p~~R~~Lk~  193 (193)
                      ||||+.++|++|+.||.
T Consensus        81 aRaL~~~~~~~r~~lk~   97 (127)
T d2vqei1          81 ARALVQYNPDYRAKLKP   97 (127)
T ss_dssp             HHHHHHHCGGGHHHHTT
T ss_pred             HHHHHHHCHHhHHHHHH
Confidence            99999999999998874

>d2gy9i1 d.14.1.1 (I:4-129) Ribosomal protein S9 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Translational machinery components
domain: Ribosomal protein S9
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=7.9e-37  Score=239.39  Aligned_cols=95  Identities=35%  Similarity=0.632  Sum_probs=91.3

Q ss_pred             EEEEceecceEEEEEEEccceEEEEcCccccccccCCHHHHHHHHHHHHHhCccCccceEEEEecCChhhHHHHHHHHHH
Q 042358           98 IFGTGRRKCAIARVVLQEGTGKFIINYRDAKEYLQGNPLWLQYIKVPLVTLGYETSYDVFVKAHGGGLSGQAQAITLGVA  177 (193)
Q Consensus        98 ~~~~GRRKtAiArV~L~pGsGkI~INgkpl~eYF~~~~~~r~~Il~PL~lt~~~~kyDI~i~VkGGG~sGQA~AIRlAIA  177 (193)
                      +|++||||+|+|+|||+||+|+|+|||+|+++||+ +..+++.+++||.+++..++|||+|+|+|||++||++|||||||
T Consensus         2 ~y~tGrRKtaiArv~l~~G~G~I~IN~~~~~~yf~-~~~~~~~~~~pl~~~~~~~~~di~v~V~GGG~sgQa~Air~aIa   80 (126)
T d2gy9i1           2 YYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYFG-RETARMVVRQPLELVDMVEKLDLYITVKGGGISGQAGAIRHGIT   80 (126)
T ss_dssp             EEECCEETTEEEEEEEEESSSCEEETTEEHHHHTT-TCGGGGGGGHHHHHTTCGGGEEEEEEEESSCHHHHHHHHHHHHH
T ss_pred             cccccccccEEEEEEEEecCcEEEECchhHhhhcc-hHhHHHHHHhHHHhhccccceeEEEEEecCCchhHHHHHHHHHH
Confidence            58999999999999999999999999999999999 56788899999999999999999999999999999999999999


Q ss_pred             HHHHhhCccCcCCCCC
Q 042358          178 RALLKFCTSVPGIMES  193 (193)
Q Consensus       178 RALv~~~p~~R~~Lk~  193 (193)
                      |||+.++|++|+.||+
T Consensus        81 RaLv~~~~~~r~~lk~   96 (126)
T d2gy9i1          81 RALMEYDESLRSELRK   96 (126)
T ss_dssp             HHHHHHCGGGHHHHTT
T ss_pred             HHHHHhCHHHHHHHHH
Confidence            9999999999998874