Citrus Sinensis ID: 020905

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320
Protein Sequence
MATLSTSFKLSTSRPVPSSCYLSSSSSSSSSSSSSSSSSSSSSSVSPFVTPRKSQLAKTLSYNSSFFGPFKQITVMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSSQNN
Secondary Structure (PSIPRED)
ccccccEEccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccEEEEEEcccccccHHHHHHHHHHHHHHHHHHcccccEEEEEEEEEcccccccccEEEEEEEEEccccEEEEEEEccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccHHHHHHHHHcccccEEEEEEcccccEEEEEEcccccEEEEEEcccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEcEEEcccccccccEEEEEEEccccccccccccccccccccccccccHcHHHHHEEccccccccccEcEEEEcEEcccccEEEEEcccccccEEEEEEEcccEEccHHHHHHHHHHHHHHHHHHccccccEEEEEEEEEcccccccccEEEEEEEcccccEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEccccccccccccccccccccccccccccEEEEEEEEccccccHHHHHHHHHHccccEEEEEEcccccEEEEEEEccccEEEEEEcccccccccccccccccccccccc
Coil and Loop (DISEMBL)
matlstsfklstsrpvpsscylssssssssssssssssssssssvspfvtprksqlaktlsynssffgpfkqitvmrptkvhtkplpvrmswdgplssVKLIiqgknleltdTVKNHVEEKVGKAVLKHSHLVREVDVRlsvrggefgkgprirrcevtlftkkhgvvraeedaeTVYASIDLVSSIIQRKLRKIKEKEsdhgrhmkgfnrlkvrepvtqvvendadvqseeeddnfVDEVIVRMkffemppltVSEAIEQLENvdhdfygfrneetgeINIVYkrkaggygviipkgngkakkleplevetassssqnn
Flexible Loop (DISEMBL)
matlstsfklstsrpvpsscylssssssssssssssssssssssvspfvTPRKSQLAktlsynssffgpfkqitvmrpTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVgkavlkhshlvrevdvrlsvrggefgkgprirrcevtlftkkhgvvraeedaetvyasidlvsSIIQRKLRKIkekesdhgrhmkgfnrlkvrepvTQVVendadvqseeeddnfVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIpkgngkakkleplevetassssqnn
Low Complexity Region (SEG)
MATLSTSFKLSTSRPVPSSCYLssssssssssssssssssssssVSPFVTPRKSQLAKTLSYNSSFFGPFKQITVMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSSQNN
Disordered region (IsUnstruct)
***********************************************************LSYNSSFFGPFKQITVMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKL*******************************************NFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIP************************
Disordered Region (DISOPRED)
********KLSTSRPVPSSCYLSSSS**************************************SFFGPFKQ***********************LSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIK***************************************NFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPK***********************
Disordered Region (DISEMBL)
********************************************************AKTLSYNSSFFGPFKQITVMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPL************
Disordered Region (DISPRO)
***LSTSFKLSTSRPVPSSCYLSSSSSS**********************PRKSQLAKTLSYNSSFFGPFKQITVMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHG*********************************FVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGN*********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATLSTSFKLSTSRPVPSSCYLSSSSSSSSSSSSSSSSSSSSSSVSPFVTPRKSQLAKTLSYNSSFFGPFKQITVMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSSQNN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	320	2.2.26 [Sep-21-2011]
P19954	302	Ribosome-binding factor P	N/A	no	0.706	0.748	0.705	9e-94
P74518	191	Light-repressed protein A	N/A	no	0.568	0.952	0.428	2e-33
P47908	193	Light-repressed protein A	yes	no	0.559	0.927	0.406	1e-32
Q4L4H7	192	Uncharacterized protein S	yes	no	0.571	0.953	0.34	2e-18
Q9RVE7	191	Uncharacterized protein D	yes	no	0.559	0.937	0.336	3e-18
Q8CTF2	189	Uncharacterized protein S	yes	no	0.571	0.968	0.335	9e-17
Q5HQX7	189	Uncharacterized protein S	yes	no	0.571	0.968	0.335	9e-17
Q49VV1	190	Uncharacterized protein S	yes	no	0.568	0.957	0.326	1e-16
Q6GIN9	190	Uncharacterized protein S	yes	no	0.562	0.947	0.335	2e-16
Q2G055	190	Uncharacterized protein S	yes	no	0.562	0.947	0.335	2e-16

>sp|P19954|PRSP1_SPIOL Ribosome-binding factor PSRP1, chloroplastic OS=Spinacia oleracea GN=PSRP1 PE=1 SV=2

 Score =  343 bits (880), Expect = 9e-94,   Method: Compositional matrix adjust.
 Identities = 168/238 (70%), Positives = 202/238 (84%), Gaps = 12/238 (5%)

Query: 84  KPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVR 143
           KP  V MSWDGPLSSVKLI+QG+NLE++D V++HVE+KVGK+V KHSHLVREVDVRLS R
Sbjct: 60  KPNVVCMSWDGPLSSVKLILQGRNLEVSDNVRSHVEDKVGKSVAKHSHLVREVDVRLSAR 119

Query: 144 GGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHG 203
           GG+  KGP++RRCEVTLFTK+HGV+RAEEDAE++Y+SIDLVSSIIQRKLRKIK+K SDHG
Sbjct: 120 GGDLSKGPKLRRCEVTLFTKRHGVIRAEEDAESLYSSIDLVSSIIQRKLRKIKDKVSDHG 179

Query: 204 RHMKGFNRLKVREP---------VTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLT 254
           RHMKGFNR KVR+P         V + VE+ A      EDD+F++EV VR K+F+MPPLT
Sbjct: 180 RHMKGFNRSKVRDPEPVRITREEVLEEVES-APAPVSVEDDDFIEEV-VRTKYFDMPPLT 237

Query: 255 VSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVET 312
           ++EA+EQLENVDHDFY FRNEETG+INI+YKRK GGYG+IIPK +GK +KLE L V+T
Sbjct: 238 ITEAVEQLENVDHDFYAFRNEETGDINILYKRKEGGYGLIIPK-DGKTEKLESLPVQT 294

May have a specific function in chloroplast development other than its participation in the small ribosomal subunit. Modeling onto the 70S ribosome suggests it binds in the decoding region of the 30S ribosomal subunit which would preclude the binding of mRNA and tRNA to the ribosome, suggesting that PSRP1 might be a translation factor.
Spinacia oleracea (taxid: 3562)

>sp|P74518|LRTA_SYNY3 Light-repressed protein A homolog OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=lrtA PE=3 SV=1

 Score =  143 bits (360), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 87/203 (42%), Positives = 125/203 (61%), Gaps = 21/203 (10%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRI---RR 155
           +KL+IQG N+ +T+ + ++VEEKV +AV    +L  +VDV LSV      +  RI    +
Sbjct: 1   MKLLIQGNNITVTEAIHDYVEEKVERAVKHFQNLTTKVDVHLSV-----ARNARITNKHK 55

Query: 156 CEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVR 215
            EVT++     V+RA+E +E +YASIDLV+  I R+LRK KE+  D     K    +K  
Sbjct: 56  AEVTVYANG-TVIRAQEGSENLYASIDLVADKIARQLRKYKERIQD-----KQHGNVKTS 109

Query: 216 EPVTQ--VVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFR 273
           E V    V EN    ++ E     +   ++RMK+F MPP+ + +A+EQL+ VDHDFY FR
Sbjct: 110 EIVEDKPVEENLIGDRAPE-----LPSEVLRMKYFAMPPMAIEDALEQLQLVDHDFYMFR 164

Query: 274 NEETGEINIVYKRKAGGYGVIIP 296
           N++T EIN++Y R  GGYGVI P
Sbjct: 165 NKDTDEINVIYIRNHGGYGVIQP 187

Might modulate either transcription and/or translation.

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

>sp|P47908|LRTA_SYNP2 Light-repressed protein A OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=lrtA PE=2 SV=2

 Score =  140 bits (353), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 85/209 (40%), Positives = 121/209 (57%), Gaps = 30/209 (14%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRI---RR 155
           +KL+IQG N+ +T+++ ++VE K+ KA         +VDV LSV         RI    +
Sbjct: 1   MKLLIQGNNIAVTESIHDYVESKLEKATKHFQTFATKVDVHLSV-----ANNARITDKHK 55

Query: 156 CEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVR 215
            EVT++     V+RA+E +E +YASIDLVS  I R+LRK KEK      H        V+
Sbjct: 56  AEVTVYANG-TVIRAQEGSENLYASIDLVSDKIARQLRKYKEKNFGKKTH--------VQ 106

Query: 216 EPVTQVVENDADVQSEEEDDNFVDE-------VIVRMKFFEMPPLTVSEAIEQLENVDHD 268
           E  ++V+  D         DN + +        +VRMK+F MPP+T+ EA+EQL+ VDHD
Sbjct: 107 EKTSEVLPEDP------VPDNLIGDRAPELPSEVVRMKYFAMPPMTIDEALEQLQLVDHD 160

Query: 269 FYGFRNEETGEINIVYKRKAGGYGVIIPK 297
           FY F N++T  IN++Y R  GGYGVI P+
Sbjct: 161 FYMFLNKDTNAINVIYIRNHGGYGVIQPR 189

Might modulate either transcription and/or translation.

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

>sp|Q4L4H7|Y2139_STAHJ Uncharacterized protein SH2139 OS=Staphylococcus haemolyticus (strain JCSC1435) GN=SH2139 PE=3 SV=1

 Score = 93.6 bits (231), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 68/200 (34%), Positives = 111/200 (55%), Gaps = 17/200 (8%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEV 158
           ++  I G NL +TD ++N++E+K+GK + ++ + V      + V+  +        + EV
Sbjct: 2   IRFEIHGDNLTITDAIRNYIEDKIGK-LERYFNDVPNAVAHVKVKTYQNSTT----KIEV 56

Query: 159 TLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIK----EKESDHGRHMKGFNRLKV 214
           T+   K+  +RAEE  + +YA IDLV+S ++R++RK K     K   HG        ++ 
Sbjct: 57  TI-PLKNVTLRAEERHDDLYAGIDLVTSKLERQVRKYKTRVNRKHKTHGEPEAFVAEVQE 115

Query: 215 REPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRN 274
             P     EN  DV +E  +D+ ++  I+R K F + P+   EA+ Q+E + HDFY F +
Sbjct: 116 APP-----ENVDDVNAEPTNDSEIE--IIRSKQFSLKPMDSEEAVLQMELLGHDFYIFTD 168

Query: 275 EETGEINIVYKRKAGGYGVI 294
            ET   +IVYKRK G YG+I
Sbjct: 169 RETDGTSIVYKRKDGKYGLI 188

Staphylococcus haemolyticus (strain JCSC1435) (taxid: 279808)

>sp|Q9RVE7|Y1082_DEIRA Uncharacterized protein DR_1082 OS=Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422) GN=DR_1082 PE=1 SV=1

 Score = 92.8 bits (229), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 66/196 (33%), Positives = 113/196 (57%), Gaps = 17/196 (8%)

Query: 103 IQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFT 162
           + G+N+E+T+ ++ +VEEK+ + + +++  + +  V L+VR  +     R  R EV L  
Sbjct: 6   LSGRNVEVTEPMREYVEEKLSR-LDRYTDQITDARVTLTVR--DVRNNERRNRVEVQLNV 62

Query: 163 KKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVR-EPVTQV 221
              G++RAEE    +YA+ID  S +++R+LRK K       R+MK   R + R EP+   
Sbjct: 63  PG-GIIRAEEHHADMYAAIDKASDVLERQLRKFKT------RYMK--QRQEGRPEPLPGP 113

Query: 222 VENDADVQSEEEDDNFVDEV---IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETG 278
            E + + Q      + V E    IVR K FE+ P++  +A+ Q+E + HDFY F++ + G
Sbjct: 114 AEAEVNAQGSGAAMDDVSEFHPEIVRQKRFELRPMSAEDAVVQMEALGHDFYVFQDLQ-G 172

Query: 279 EINIVYKRKAGGYGVI 294
           +  +VY+R+ G YG+I
Sbjct: 173 QTGVVYRRRDGHYGLI 188

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

>sp|Q8CTF2|Y534_STAES Uncharacterized protein SE_0534 OS=Staphylococcus epidermidis (strain ATCC 12228) GN=SE_0534 PE=3 SV=1

 Score = 87.8 bits (216), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 66/197 (33%), Positives = 106/197 (53%), Gaps = 14/197 (7%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEV 158
           ++  I G NL +TD ++N++EEKVGK     +++   V     VR   +       + EV
Sbjct: 2   IRFEIHGDNLTITDAIRNYIEEKVGKLERYFNNVPNAV---AHVRVKTYSNSTT--KIEV 56

Query: 159 TLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPV 218
           T+   K   +RAEE  + +YA IDL+++ ++R++RK K + +   R  +G   + V E  
Sbjct: 57  TI-PLKDVTLRAEERHDDLYAGIDLITNKLERQVRKYKTRVNRKHRD-RGDQDIFVAEVQ 114

Query: 219 TQVVENDAD-VQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEET 277
                N AD ++SE       D  I+R K F + P+   EA+ Q+  + HDF+ F + ET
Sbjct: 115 ESTTNNHADDIESEN------DIEIIRSKQFSLKPMDSEEAVLQMNLLGHDFFIFTDRET 168

Query: 278 GEINIVYKRKAGGYGVI 294
              +IVY+RK G YG+I
Sbjct: 169 DGTSIVYRRKDGKYGLI 185

Staphylococcus epidermidis (strain ATCC 12228) (taxid: 176280)

>sp|Q5HQX7|Y419_STAEQ Uncharacterized protein SERP0419 OS=Staphylococcus epidermidis (strain ATCC 35984 / RP62A) GN=SERP0419 PE=3 SV=1

 Score = 87.8 bits (216), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 66/197 (33%), Positives = 106/197 (53%), Gaps = 14/197 (7%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEV 158
           ++  I G NL +TD ++N++EEKVGK     +++   V     VR   +       + EV
Sbjct: 2   IRFEIHGDNLTITDAIRNYIEEKVGKLERYFNNVPNAV---AHVRVKTYSNSTT--KIEV 56

Query: 159 TLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPV 218
           T+   K   +RAEE  + +YA IDL+++ ++R++RK K + +   R  +G   + V E  
Sbjct: 57  TI-PLKDVTLRAEERHDDLYAGIDLITNKLERQVRKYKTRVNRKHRD-RGDQDIFVAEVQ 114

Query: 219 TQVVENDAD-VQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEET 277
                N AD ++SE       D  I+R K F + P+   EA+ Q+  + HDF+ F + ET
Sbjct: 115 ESTTNNHADDIESEN------DIEIIRSKQFSLKPMDSEEAVLQMNLLGHDFFIFTDRET 168

Query: 278 GEINIVYKRKAGGYGVI 294
              +IVY+RK G YG+I
Sbjct: 169 DGTSIVYRRKDGKYGLI 185

Staphylococcus epidermidis (strain ATCC 35984 / RP62A) (taxid: 176279)

>sp|Q49VV1|Y1964_STAS1 Uncharacterized protein SSP1964 OS=Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / DSM 20229) GN=SSP1964 PE=3 SV=1

 Score = 87.8 bits (216), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 65/199 (32%), Positives = 113/199 (56%), Gaps = 17/199 (8%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEV 158
           ++  I G+NL +TD ++N++EEK+GK + ++ + V      + V+  +        + EV
Sbjct: 2   IRFEIHGENLTITDAIRNYIEEKIGK-LERYFNDVPNATAHVKVKTYQNSAT----KIEV 56

Query: 159 TLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGR---HMKGFNRLKVR 215
           T+  KK   +RAEE  + +YA IDL+++ ++R++RK K + +   R     + F  L   
Sbjct: 57  TIPLKK-VTLRAEERNDDLYAGIDLINNKLERQVRKYKTRVNRRNRNRGEQEAFASLPEE 115

Query: 216 EPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNE 275
           +   ++ +ND     E E DN ++  I+R K F + P+   EA+ Q++ + HDF+ F + 
Sbjct: 116 KEAVEI-QND-----ENEADNEIE--IIRAKNFSLKPMDSEEAVLQMDLLGHDFFIFTDR 167

Query: 276 ETGEINIVYKRKAGGYGVI 294
           ET   +IVYKRK G YG+I
Sbjct: 168 ETDGTSIVYKRKDGKYGLI 186

Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / DSM 20229) (taxid: 342451)

>sp|Q6GIN9|Y806_STAAR Uncharacterized protein SAR0806 OS=Staphylococcus aureus (strain MRSA252) GN=SAR0806 PE=3 SV=1

 Score = 86.3 bits (212), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 67/200 (33%), Positives = 108/200 (54%), Gaps = 20/200 (10%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEV 158
           ++  I G NL +TD ++N++EEK+GK     + +   V     V+   +       + EV
Sbjct: 2   IRFEIHGDNLTITDAIRNYIEEKIGKLERYFNDVPNAV---AHVKVKTYSNSAT--KIEV 56

Query: 159 TLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRK----IKEKESDHGRHMKGFNRLKV 214
           T+   K+  +RAEE  + +YA IDL+++ ++R++RK    I  K  D G        L+ 
Sbjct: 57  TI-PLKNVTLRAEERNDDLYAGIDLINNKLERQVRKYKTRINRKSRDRGDQEVFVAELQE 115

Query: 215 REPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRN 274
            +  TQV +NDA       DDN ++  I+R K F + P+   EA+ Q+  + HDF+ F +
Sbjct: 116 MQE-TQV-DNDA------YDDNEIE--IIRSKEFSLKPMDSEEAVLQMNLLGHDFFVFTD 165

Query: 275 EETGEINIVYKRKAGGYGVI 294
            ET   +IVY+RK G YG+I
Sbjct: 166 RETDGTSIVYRRKDGKYGLI 185

Staphylococcus aureus (strain MRSA252) (taxid: 282458)

>sp|Q2G055|Y767_STAA8 Uncharacterized protein SAOUHSC_00767 OS=Staphylococcus aureus (strain NCTC 8325) GN=SAOUHSC_00767 PE=3 SV=1

 Score = 86.3 bits (212), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 67/200 (33%), Positives = 108/200 (54%), Gaps = 20/200 (10%)

Query: 99  VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEV 158
           ++  I G NL +TD ++N++EEK+GK     + +   V     V+   +       + EV
Sbjct: 2   IRFEIHGDNLTITDAIRNYIEEKIGKLERYFNDVPNAV---AHVKVKTYSNSAT--KIEV 56

Query: 159 TLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRK----IKEKESDHGRHMKGFNRLKV 214
           T+   K+  +RAEE  + +YA IDL+++ ++R++RK    I  K  D G        L+ 
Sbjct: 57  TI-PLKNVTLRAEERNDDLYAGIDLINNKLERQVRKYKTRINRKSRDRGDQEVFVAELQE 115

Query: 215 REPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRN 274
            +  TQV +NDA       DDN ++  I+R K F + P+   EA+ Q+  + HDF+ F +
Sbjct: 116 MQE-TQV-DNDA------YDDNEIE--IIRSKEFSLKPMDSEEAVLQMNLLGHDFFVFTD 165

Query: 275 EETGEINIVYKRKAGGYGVI 294
            ET   +IVY+RK G YG+I
Sbjct: 166 RETDGTSIVYRRKDGKYGLI 185

Staphylococcus aureus (strain NCTC 8325) (taxid: 93061)

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	320
224118512	306	predicted protein [Populus trichocarpa]	0.912	0.954	0.685	1e-112
118488335	306	unknown [Populus trichocarpa]	0.865	0.905	0.705	1e-108
255566888	311	Plastid-specific 30S ribosomal protein 1	0.806	0.829	0.749	1e-106
359490749	298	PREDICTED: 30S ribosomal protein 1, chlo	0.753	0.808	0.772	1e-106
224134949	231	predicted protein [Populus trichocarpa]	0.709	0.982	0.816	1e-104
356516154	291	PREDICTED: 30S ribosomal protein 1, chlo	0.893	0.982	0.648	1e-102
302143982	230	unnamed protein product [Vitis vinifera]	0.709	0.986	0.789	1e-102
10177849	365	unnamed protein product [Arabidopsis tha	0.721	0.632	0.781	1e-101
363808026	291	uncharacterized protein LOC100784915 [Gl	0.728	0.800	0.774	1e-101
18420800	308	putative 30S ribosomal protein [Arabidop	0.721	0.75	0.781	1e-101

>gi|224118512|ref|XP_002317839.1| predicted protein [Populus trichocarpa] gi|222858512|gb|EEE96059.1| predicted protein [Populus trichocarpa]

 Score =  410 bits (1055), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 220/321 (68%), Positives = 250/321 (77%), Gaps = 29/321 (9%)

Query: 2   ATLSTSFKLSTSRPVPSSCYLSSSSSSSSSSSSSSSSSSSSSSVSPFVTPRKSQLAKTLS 61
            TL TSF         ++ ++S S +   +S +SSS  S+           K+Q+ K+ S
Sbjct: 7   GTLQTSF---------NNPFVSLSPTPPKTSLASSSVIST-----------KTQIPKS-S 45

Query: 62  YNSSFFGPFKQITVMRPTKVHTKPLP-----VRMSWDGPLSSVKLIIQGKNLELTDTVKN 116
             SSF G  K ++ +   +    PL      V+MSWDGPL SVKLIIQGKNLELTDTVK 
Sbjct: 46  LKSSFLG--KNMSFIELGRTARTPLTHGGCSVKMSWDGPLHSVKLIIQGKNLELTDTVKR 103

Query: 117 HVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAET 176
           HVE+KVGKAV KHSHLVREVDVRLSVRGGE GKGPRIRRCEVTLFT +HGVVRAEEDAET
Sbjct: 104 HVEDKVGKAVQKHSHLVREVDVRLSVRGGELGKGPRIRRCEVTLFTNRHGVVRAEEDAET 163

Query: 177 VYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVENDADVQSEEEDDN 236
           +YASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPV QVVE DAD  S++E ++
Sbjct: 164 IYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVPQVVEGDADEVSQQEVED 223

Query: 237 FVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIP 296
            ++EV VR KFF+MPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYG+IIP
Sbjct: 224 SIEEV-VRTKFFDMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGLIIP 282

Query: 297 KGNGKAKKLEPLEVETASSSS 317
           KGN +A++LEPL VE A  SS
Sbjct: 283 KGNDEAERLEPLVVEPARESS 303

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118488335|gb|ABK95986.1| unknown [Populus trichocarpa]

 Score =  396 bits (1017), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 204/289 (70%), Positives = 239/289 (82%), Gaps = 12/289 (4%)

Query: 36  SSSSSSSSSVSPFVTPRKSQLAKTLSYNSSFFGP-FKQITVMRPTKVHTKPLP-----VR 89
           +S++ + S  S FV   K+Q+ K     S F G     + + R TK+   PL      +R
Sbjct: 20  TSTTPTPSLASSFVNSTKTQVPKVF-LKSRFLGKNVNFVEIRRKTKI---PLSHGGSSIR 75

Query: 90  MSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGK 149
           MSWDGPLSSVKLIIQGK+LEL+DTVK HVE+KVGKAV K SHLVR VDVRLSVRGGE GK
Sbjct: 76  MSWDGPLSSVKLIIQGKHLELSDTVKKHVEDKVGKAVQKSSHLVRGVDVRLSVRGGELGK 135

Query: 150 GPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGF 209
           GPRIRRCEVTLFTK+HGVVRAEEDAET++ASIDLVSSIIQRKLRKIK+KESDHGRHMKGF
Sbjct: 136 GPRIRRCEVTLFTKRHGVVRAEEDAETIHASIDLVSSIIQRKLRKIKDKESDHGRHMKGF 195

Query: 210 NRLKVREPVTQ-VVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHD 268
           NRLKVREP+ Q VVE+DAD  S++ED+++++EV VR K+F+MPPLTVSEAIEQLE+V HD
Sbjct: 196 NRLKVREPMHQVVVEDDADEVSQQEDEDYIEEV-VRTKYFDMPPLTVSEAIEQLEHVHHD 254

Query: 269 FYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSS 317
           FYGFR+EETGEINI+YKRKAGGYG+IIPKGNG+A++LEPL VE A   S
Sbjct: 255 FYGFRDEETGEINIIYKRKAGGYGLIIPKGNGEAERLEPLVVEPAREPS 303

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255566888|ref|XP_002524427.1| Plastid-specific 30S ribosomal protein 1, chloroplast precursor, putative [Ricinus communis] gi|223536311|gb|EEF37962.1| Plastid-specific 30S ribosomal protein 1, chloroplast precursor, putative [Ricinus communis]

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 197/263 (74%), Positives = 222/263 (84%), Gaps = 5/263 (1%)

Query: 59  TLSYNSSFFGPFKQIT-VMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNH 117
           +LS  +SF  P K  + V        +   VRMSW+GPLSSVKLI QGKNLELTDTVK H
Sbjct: 47  SLSSKTSFLNPLKLGSNVKYFENKRGRRSAVRMSWEGPLSSVKLITQGKNLELTDTVKKH 106

Query: 118 VEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETV 177
           VE+KVGKAV KHSHLVREVDVRLSVRGGEFGKGP+IRRCEVTLFTKKHGV+RAEEDAET+
Sbjct: 107 VEDKVGKAVQKHSHLVREVDVRLSVRGGEFGKGPKIRRCEVTLFTKKHGVIRAEEDAETI 166

Query: 178 YASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVENDADVQS---EEED 234
           YASIDLVSSIIQRKLRKIKEK SDHGRHMKGFNRLKVREPV + V++D D       +ED
Sbjct: 167 YASIDLVSSIIQRKLRKIKEKVSDHGRHMKGFNRLKVREPVAEPVKDDTDEVDGVLGDED 226

Query: 235 DNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVI 294
           ++++DEV VR K+F+MPPLTVSEAIEQL+NVDHDFYGFRNEETGEINI+YKRKAGGYG+I
Sbjct: 227 EDYIDEV-VRTKYFDMPPLTVSEAIEQLKNVDHDFYGFRNEETGEINIIYKRKAGGYGII 285

Query: 295 IPKGNGKAKKLEPLEVETASSSS 317
           IPK NGKA+KLEP+ +E A   S
Sbjct: 286 IPKENGKAEKLEPVVIEPAREPS 308

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490749|ref|XP_003634154.1| PREDICTED: 30S ribosomal protein 1, chloroplastic-like [Vitis vinifera]

 Score =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 187/242 (77%), Positives = 215/242 (88%), Gaps = 1/242 (0%)

Query: 76  MRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVRE 135
           +  T   TKPL VRMSWDGPLSSVKLI+QGKNLELTDTV++HVEEKVGKAV KHSHLVRE
Sbjct: 55  LNATTRQTKPLAVRMSWDGPLSSVKLILQGKNLELTDTVRSHVEEKVGKAVQKHSHLVRE 114

Query: 136 VDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKI 195
           VDVRLS+RGGE GKGP+IRRCEVTLFTKKHGVVRAEE AET+Y SID+VSSIIQRKLRKI
Sbjct: 115 VDVRLSIRGGELGKGPKIRRCEVTLFTKKHGVVRAEEHAETLYGSIDMVSSIIQRKLRKI 174

Query: 196 KEKESDHGRHMKGFNRLKVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTV 255
           KEK+SDHGRHMKGFNRLKVR+P T +VE +ADV  ++ED + ++E IVR K+F+MPPLTV
Sbjct: 175 KEKDSDHGRHMKGFNRLKVRDPETPLVEEEADVVPQKEDGDLINE-IVRTKYFDMPPLTV 233

Query: 256 SEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASS 315
            EA+EQLENVDHDF+GFRNEETGEINI+YKRKAGGYG+IIPK NGK ++LEP+ V++   
Sbjct: 234 PEAVEQLENVDHDFFGFRNEETGEINILYKRKAGGYGLIIPKENGKTEELEPVVVKSDRE 293

Query: 316 SS 317
            S
Sbjct: 294 PS 295

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134949|ref|XP_002321945.1| predicted protein [Populus trichocarpa] gi|222868941|gb|EEF06072.1| predicted protein [Populus trichocarpa]

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 187/229 (81%), Positives = 212/229 (92%), Gaps = 2/229 (0%)

Query: 90  MSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGK 149
           MSWDGPLSSVKLIIQGK+LEL+DTVK HVE+KVGKAV K SHLVR VDVRLSVRGGE GK
Sbjct: 1   MSWDGPLSSVKLIIQGKHLELSDTVKKHVEDKVGKAVQKSSHLVRGVDVRLSVRGGELGK 60

Query: 150 GPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGF 209
           GPRIRRCEVTLFTK+HGVVRAEEDAET++ASIDLVSSIIQRKLRKIK+KESDHGRHMKGF
Sbjct: 61  GPRIRRCEVTLFTKRHGVVRAEEDAETIHASIDLVSSIIQRKLRKIKDKESDHGRHMKGF 120

Query: 210 NRLKVREPVTQ-VVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHD 268
           NRLKVREP+ Q VVE+DAD  S++ED+++++EV VR K+F+MPPLTVSEAIEQLE+V HD
Sbjct: 121 NRLKVREPMHQVVVEDDADEVSQQEDEDYIEEV-VRTKYFDMPPLTVSEAIEQLEHVHHD 179

Query: 269 FYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSS 317
           FYGFR+EETGEINI+YKRKAGGYG+IIPKGNG+A++LEPL VE A   S
Sbjct: 180 FYGFRDEETGEINIIYKRKAGGYGLIIPKGNGEAERLEPLVVEPAREPS 228

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516154|ref|XP_003526761.1| PREDICTED: 30S ribosomal protein 1, chloroplastic-like [Glycine max]

 Score =  379 bits (972), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 207/319 (64%), Positives = 236/319 (73%), Gaps = 33/319 (10%)

Query: 1   MATLSTSFKL-STSRPVPSSCYLSSSSSSSSSSSSSSSSSSSSSSVSPFVTPRKSQLAKT 59
           MATL   F   ST RP   SCYL  S SSS    S++ S++    +             T
Sbjct: 1   MATL---FNFNSTLRP---SCYLPLSPSSSYPHFSNTLSTTFLGHIV------------T 42

Query: 60  LSYNSSFFGPFKQITVMRPTKVHTKPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVE 119
           L Y ++             T    + L  RMSWDGPLSSVKLIIQGKNLELTD VK HVE
Sbjct: 43  LKYAAT------------STSNRGRSLSTRMSWDGPLSSVKLIIQGKNLELTDAVKQHVE 90

Query: 120 EKVGKAVLKHSHLVREVDVRLSVRGG-EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY 178
           +KVGKAV KHSHLVREVDVRLS+RGG EFG+GPR RRCEVTLFTK+HGVVRAEEDAE+ Y
Sbjct: 91  DKVGKAVQKHSHLVREVDVRLSIRGGGEFGRGPRTRRCEVTLFTKRHGVVRAEEDAESTY 150

Query: 179 ASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVENDADVQSEEEDDNFV 238
            SIDLVSSIIQRKLRKIKEK SDHGRHMKGFNRLKVREPV Q+   + ++ S  E++  +
Sbjct: 151 GSIDLVSSIIQRKLRKIKEKVSDHGRHMKGFNRLKVREPVEQLPMEEDEILSPREEEESI 210

Query: 239 DEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKG 298
           DEV VR K+F+MPPLTV+EAIEQLENVDHDFYGFRNEETGEINIVYKRK GGYG+IIPKG
Sbjct: 211 DEV-VRTKYFDMPPLTVAEAIEQLENVDHDFYGFRNEETGEINIVYKRKEGGYGLIIPKG 269

Query: 299 NGKAKKLEPLEVETASSSS 317
           +G+A+KLE + +E A  SS
Sbjct: 270 DGEAEKLESVVLEPAIESS 288

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143982|emb|CBI23087.3| unnamed protein product [Vitis vinifera]

 Score =  376 bits (966), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 180/228 (78%), Positives = 207/228 (90%), Gaps = 1/228 (0%)

Query: 90  MSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGK 149
           MSWDGPLSSVKLI+QGKNLELTDTV++HVEEKVGKAV KHSHLVREVDVRLS+RGGE GK
Sbjct: 1   MSWDGPLSSVKLILQGKNLELTDTVRSHVEEKVGKAVQKHSHLVREVDVRLSIRGGELGK 60

Query: 150 GPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGF 209
           GP+IRRCEVTLFTKKHGVVRAEE AET+Y SID+VSSIIQRKLRKIKEK+SDHGRHMKGF
Sbjct: 61  GPKIRRCEVTLFTKKHGVVRAEEHAETLYGSIDMVSSIIQRKLRKIKEKDSDHGRHMKGF 120

Query: 210 NRLKVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDF 269
           NRLKVR+P T +VE +ADV  ++ED + ++E IVR K+F+MPPLTV EA+EQLENVDHDF
Sbjct: 121 NRLKVRDPETPLVEEEADVVPQKEDGDLINE-IVRTKYFDMPPLTVPEAVEQLENVDHDF 179

Query: 270 YGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSS 317
           +GFRNEETGEINI+YKRKAGGYG+IIPK NGK ++LEP+ V++    S
Sbjct: 180 FGFRNEETGEINILYKRKAGGYGLIIPKENGKTEELEPVVVKSDREPS 227

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|10177849|dbj|BAB11201.1| unnamed protein product [Arabidopsis thaliana]

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 186/238 (78%), Positives = 208/238 (87%), Gaps = 7/238 (2%)

Query: 86  LPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGG 145
           L V+MSWDGPL+SVKLIIQGKNLEL++ +K HVEEKVGK+V KHSHLVREVDVRLSVRGG
Sbjct: 126 LAVKMSWDGPLASVKLIIQGKNLELSEPIKQHVEEKVGKSVQKHSHLVREVDVRLSVRGG 185

Query: 146 EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRH 205
           EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYA IDLVS+IIQRKLRKIKEK+SDHGRH
Sbjct: 186 EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYACIDLVSTIIQRKLRKIKEKDSDHGRH 245

Query: 206 MKGFNRLKVREPVTQ-VVEN-----DADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAI 259
           MKGFNRLKVREPV + VVE+     D+ V  EEE+D+ + E IVR K FEMPPLTV+EA+
Sbjct: 246 MKGFNRLKVREPVIEPVVEDVEDSTDSSVGEEEEEDDLIKE-IVRTKTFEMPPLTVAEAV 304

Query: 260 EQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSS 317
           EQLE V HDFYGF+NEETGEINIVYKRK GGYG+IIPK +GKA+K+EPL  E  +  S
Sbjct: 305 EQLELVSHDFYGFQNEETGEINIVYKRKEGGYGLIIPKKDGKAEKVEPLPTEQLNEHS 362

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363808026|ref|NP_001241953.1| uncharacterized protein LOC100784915 [Glycine max] gi|255634767|gb|ACU17745.1| unknown [Glycine max]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 182/235 (77%), Positives = 206/235 (87%), Gaps = 2/235 (0%)

Query: 84  KPLPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVR 143
           + L   MSWDGPLSSVKL IQGKNLELTD VK HVE+KVGKAV KHSHLVREVDVRLS+R
Sbjct: 55  RSLSAHMSWDGPLSSVKLTIQGKNLELTDAVKQHVEDKVGKAVQKHSHLVREVDVRLSIR 114

Query: 144 GG-EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDH 202
           GG EFG+GPR RRCEVTLFTK+HGVVRAEEDAE+ Y SIDLVSSIIQRKLRKIKEK SDH
Sbjct: 115 GGGEFGRGPRTRRCEVTLFTKRHGVVRAEEDAESTYGSIDLVSSIIQRKLRKIKEKVSDH 174

Query: 203 GRHMKGFNRLKVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQL 262
           GRHMKGFNRLKVREPV Q+   + ++ S +E++  +DEV VR K+F+MPPLTV+EAIEQL
Sbjct: 175 GRHMKGFNRLKVREPVEQLPVEEDEILSPQEEEESIDEV-VRTKYFDMPPLTVAEAIEQL 233

Query: 263 ENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSS 317
           ENVDHDFYGFRNEETGEINIVYKRK GGYG+I+PKG+G+A+KLEP+ +E A  SS
Sbjct: 234 ENVDHDFYGFRNEETGEINIVYKRKEGGYGLIVPKGDGEAEKLEPVVLEPAIESS 288

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18420800|ref|NP_568447.1| putative 30S ribosomal protein [Arabidopsis thaliana] gi|13877771|gb|AAK43963.1|AF370148_1 unknown protein [Arabidopsis thaliana] gi|29824163|gb|AAP04042.1| unknown protein [Arabidopsis thaliana] gi|332005933|gb|AED93316.1| putative 30S ribosomal protein [Arabidopsis thaliana]

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 186/238 (78%), Positives = 208/238 (87%), Gaps = 7/238 (2%)

Query: 86  LPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGG 145
           L V+MSWDGPL+SVKLIIQGKNLEL++ +K HVEEKVGK+V KHSHLVREVDVRLSVRGG
Sbjct: 69  LAVKMSWDGPLASVKLIIQGKNLELSEPIKQHVEEKVGKSVQKHSHLVREVDVRLSVRGG 128

Query: 146 EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRH 205
           EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYA IDLVS+IIQRKLRKIKEK+SDHGRH
Sbjct: 129 EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYACIDLVSTIIQRKLRKIKEKDSDHGRH 188

Query: 206 MKGFNRLKVREPVTQ-VVEN-----DADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAI 259
           MKGFNRLKVREPV + VVE+     D+ V  EEE+D+ + E IVR K FEMPPLTV+EA+
Sbjct: 189 MKGFNRLKVREPVIEPVVEDVEDSTDSSVGEEEEEDDLIKE-IVRTKTFEMPPLTVAEAV 247

Query: 260 EQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSS 317
           EQLE V HDFYGF+NEETGEINIVYKRK GGYG+IIPK +GKA+K+EPL  E  +  S
Sbjct: 248 EQLELVSHDFYGFQNEETGEINIVYKRKEGGYGLIIPKKDGKAEKVEPLPTEQLNEHS 305

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	320
TAIR|locus:2184017	308	AT5G24490 "AT5G24490" [Arabido	0.721	0.75	0.781	1.3e-93
UNIPROTKB|Q9RVE7	191	DR_1082 "Uncharacterized prote	0.559	0.937	0.336	1.9e-21
UNIPROTKB|Q71WR7	187	yfiA "Ribosomal subunit interf	0.571	0.978	0.321	3.6e-18
UNIPROTKB|Q81X25	180	yfiA "Ribosomal subunit interf	0.412	0.733	0.372	9.8e-16
TIGR_CMR|BA_5422	180	BA_5422 "ribosomal subunit int	0.412	0.733	0.372	9.8e-16
UNIPROTKB|Q3AFQ6	177	yfiA "Ribosomal subunit interf	0.406	0.734	0.331	6.5e-15
TIGR_CMR|CHY_0156	177	CHY_0156 "ribosomal subunit in	0.406	0.734	0.331	6.5e-15
UNIPROTKB|Q74BZ2	181	raiA "Ribosomal subunit interf	0.55	0.972	0.279	2.6e-14
TIGR_CMR|GSU_1886	181	GSU_1886 "ribosomal subunit in	0.55	0.972	0.279	2.6e-14
UNIPROTKB|Q5LWN3	187	SPO0078 "Ribosomal subunit int	0.568	0.973	0.256	6.5e-13

TAIR|locus:2184017 AT5G24490 "AT5G24490" [Arabidopsis thaliana (taxid:3702)]

 Score = 932 (333.1 bits), Expect = 1.3e-93, P = 1.3e-93
 Identities = 186/238 (78%), Positives = 208/238 (87%)

Query:    86 LPVRMSWDGPLSSVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGG 145
             L V+MSWDGPL+SVKLIIQGKNLEL++ +K HVEEKVGK+V KHSHLVREVDVRLSVRGG
Sbjct:    69 LAVKMSWDGPLASVKLIIQGKNLELSEPIKQHVEEKVGKSVQKHSHLVREVDVRLSVRGG 128

Query:   146 EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRH 205
             EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYA IDLVS+IIQRKLRKIKEK+SDHGRH
Sbjct:   129 EFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYACIDLVSTIIQRKLRKIKEKDSDHGRH 188

Query:   206 MKGFNRLKVREPVTQ-VVEN-----DADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAI 259
             MKGFNRLKVREPV + VVE+     D+ V  EEE+D+ + E IVR K FEMPPLTV+EA+
Sbjct:   189 MKGFNRLKVREPVIEPVVEDVEDSTDSSVGEEEEEDDLIKE-IVRTKTFEMPPLTVAEAV 247

Query:   260 EQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNGKAKKLEPLEVETASSSS 317
             EQLE V HDFYGF+NEETGEINIVYKRK GGYG+IIPK +GKA+K+EPL  E  +  S
Sbjct:   248 EQLELVSHDFYGFQNEETGEINIVYKRKEGGYGLIIPKKDGKAEKVEPLPTEQLNEHS 305

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

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0044238 "primary metabolic process" evidence=IEA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

UNIPROTKB|Q9RVE7 DR_1082 "Uncharacterized protein DR_1082" [Deinococcus radiodurans R1 (taxid:243230)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 66/196 (33%), Positives = 113/196 (57%)

Query:   103 IQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFT 162
             + G+N+E+T+ ++ +VEEK+ + + +++  + +  V L+VR  +     R  R EV L  
Sbjct:     6 LSGRNVEVTEPMREYVEEKLSR-LDRYTDQITDARVTLTVR--DVRNNERRNRVEVQL-N 61

Query:   163 KKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVR-EPVTQV 221
                G++RAEE    +YA+ID  S +++R+LRK K       R+MK   R + R EP+   
Sbjct:    62 VPGGIIRAEEHHADMYAAIDKASDVLERQLRKFKT------RYMK--QRQEGRPEPLPGP 113

Query:   222 VENDADVQSEEEDDNFVDEV---IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETG 278
              E + + Q      + V E    IVR K FE+ P++  +A+ Q+E + HDFY F++ + G
Sbjct:   114 AEAEVNAQGSGAAMDDVSEFHPEIVRQKRFELRPMSAEDAVVQMEALGHDFYVFQDLQ-G 172

Query:   279 EINIVYKRKAGGYGVI 294
             +  +VY+R+ G YG+I
Sbjct:   173 QTGVVYRRRDGHYGLI 188

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q71WR7 yfiA "Ribosomal subunit interface protein" [Listeria monocytogenes serotype 4b str. F2365 (taxid:265669)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 63/196 (32%), Positives = 103/196 (52%)

Query:    99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEV 158
             +K  I+G+N+E+T+ ++++VE+K+ K      +     D  + V    +    +  + EV
Sbjct:     2 LKYNIRGENIEVTEPIRDYVEKKIDKL---ERYFTETPDANVHVNLKVYSD--KNAKVEV 56

Query:   159 TLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPV 218
             T+    + V+RAEE +  +YASIDL+   ++R++RK K K +   R  KG  R       
Sbjct:    57 TI-PLPNLVLRAEETSGDLYASIDLIVDKLERQIRKHKTKVNRKFRD-KGAER-----DY 109

Query:   219 TQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETG 278
                 + +     EE + +F D  IVR K F + P+   EA+ Q+  + H FY + + ET 
Sbjct:   110 FAYSDVNGSTPPEENEGDF-DLEIVRTKQFSLKPMDSEEAVLQMNLLGHSFYVYTDAETN 168

Query:   279 EINIVYKRKAGGYGVI 294
               NIVY RK G YG+I
Sbjct:   169 GTNIVYSRKDGKYGLI 184

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q81X25 yfiA "Ribosomal subunit interface protein" [Bacillus anthracis (taxid:1392)]

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 54/145 (37%), Positives = 87/145 (60%)

Query:   154 RRCEVTL-FTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRL 212
             +R EVT+ FT    ++RAEE    +YA+IDLV   ++R++RK K K +   R ++    +
Sbjct:    48 QRVEVTIPFTDL--LLRAEETNSDMYAAIDLVVDKLERQIRKHKTKVN---RKLREKGSM 102

Query:   213 KVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGF 272
             K    + + V   A + + EED+  ++  +VR K F++ P+ V EAI Q++ + H+F+ F
Sbjct:   103 KTNFILPEAV---AVLDAVEEDE--LE--LVRTKRFDLKPMDVEEAILQMDMLGHNFFVF 155

Query:   273 RNEETGEINIVYKRKAGGYGVIIPK 297
              N +T E N+VY RK G YG+I  K
Sbjct:   156 TNADTNETNVVYGRKDGKYGLIETK 180

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|BA_5422 BA_5422 "ribosomal subunit interface protein" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 54/145 (37%), Positives = 87/145 (60%)

Query:   154 RRCEVTL-FTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRL 212
             +R EVT+ FT    ++RAEE    +YA+IDLV   ++R++RK K K +   R ++    +
Sbjct:    48 QRVEVTIPFTDL--LLRAEETNSDMYAAIDLVVDKLERQIRKHKTKVN---RKLREKGSM 102

Query:   213 KVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGF 272
             K    + + V   A + + EED+  ++  +VR K F++ P+ V EAI Q++ + H+F+ F
Sbjct:   103 KTNFILPEAV---AVLDAVEEDE--LE--LVRTKRFDLKPMDVEEAILQMDMLGHNFFVF 155

Query:   273 RNEETGEINIVYKRKAGGYGVIIPK 297
              N +T E N+VY RK G YG+I  K
Sbjct:   156 TNADTNETNVVYGRKDGKYGLIETK 180

GO:0003674 "molecular_function" evidence=ND

GO:0005840 "ribosome" evidence=ISS

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q3AFQ6 yfiA "Ribosomal subunit interface protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 190 (71.9 bits), Expect = 6.5e-15, P = 6.5e-15
 Identities = 48/145 (33%), Positives = 81/145 (55%)

Query:   153 IRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRL 212
             + + EVT+    + ++R EE++  +Y+SIDLV   ++R+ +K KEK          + R 
Sbjct:    47 LHKTEVTIPVAGY-LLRGEEESPDMYSSIDLVVDKLERQAKKYKEKL---------YARF 96

Query:   213 KVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGF 272
             K  +    +   +   ++  E DN +   IV+ K F + P++  EA  Q+E + H F+ F
Sbjct:    97 KNNK---NIATGEKSAETTPEPDNEIK--IVKSKRFAIKPMSPEEAAMQMELLGHSFFVF 151

Query:   273 RNEETGEINIVYKRKAGGYGVIIPK 297
              N +T EIN+VYKR+ G YG+I P+
Sbjct:   152 TNADTDEINVVYKRRDGKYGLIEPE 176

GO:0003674 "molecular_function" evidence=ND

TIGR_CMR|CHY_0156 CHY_0156 "ribosomal subunit interface protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 190 (71.9 bits), Expect = 6.5e-15, P = 6.5e-15
 Identities = 48/145 (33%), Positives = 81/145 (55%)

Query:   153 IRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRL 212
             + + EVT+    + ++R EE++  +Y+SIDLV   ++R+ +K KEK          + R 
Sbjct:    47 LHKTEVTIPVAGY-LLRGEEESPDMYSSIDLVVDKLERQAKKYKEKL---------YARF 96

Query:   213 KVREPVTQVVENDADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGF 272
             K  +    +   +   ++  E DN +   IV+ K F + P++  EA  Q+E + H F+ F
Sbjct:    97 KNNK---NIATGEKSAETTPEPDNEIK--IVKSKRFAIKPMSPEEAAMQMELLGHSFFVF 151

Query:   273 RNEETGEINIVYKRKAGGYGVIIPK 297
              N +T EIN+VYKR+ G YG+I P+
Sbjct:   152 TNADTDEINVVYKRRDGKYGLIEPE 176

GO:0003674 "molecular_function" evidence=ND

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=ISS

UNIPROTKB|Q74BZ2 raiA "Ribosomal subunit interface-associated sigma-54 modulation protein RaiA" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 185 (70.2 bits), Expect = 2.6e-14, P = 2.6e-14
 Identities = 54/193 (27%), Positives = 101/193 (52%)

Query:   108 LELTDTVKNHVEEKVGK--AVLKHSHLVREVDVRLSVRGGEFGKGPRIRR-CEVTLFTKK 164
             +++T T ++  + +  K  A  K   + + +D  ++ +   F    +IR   EVTL T K
Sbjct:     1 MQITTTFRHMEQSEALKSYAAEKLERVKKYIDEPITAQ--VFLTVEKIRHIAEVTL-TAK 57

Query:   165 HGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVEN 224
                ++A E+   +YA++D V   I+R+LR+ KE+  +H +       L++++ V      
Sbjct:    58 GITIKAAEETNDMYAALDAVIDKIERQLRRYKERLKEH-KPSADDRALEIQKSVV----- 111

Query:   225 DADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVY 284
                  + E  +   + V++R K   + P++V EA+ Q++ +  DF  F +  T  IN+VY
Sbjct:   112 -----TAESIEQRTEPVVIRSKTISIKPMSVEEAVMQMDLLHKDFLVFTDASTEAINVVY 166

Query:   285 KRKAGGYGVIIPK 297
             +RK G YG+I P+
Sbjct:   167 RRKDGNYGLIEPQ 179

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|GSU_1886 GSU_1886 "ribosomal subunit interface protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 185 (70.2 bits), Expect = 2.6e-14, P = 2.6e-14
 Identities = 54/193 (27%), Positives = 101/193 (52%)

Query:   108 LELTDTVKNHVEEKVGK--AVLKHSHLVREVDVRLSVRGGEFGKGPRIRR-CEVTLFTKK 164
             +++T T ++  + +  K  A  K   + + +D  ++ +   F    +IR   EVTL T K
Sbjct:     1 MQITTTFRHMEQSEALKSYAAEKLERVKKYIDEPITAQ--VFLTVEKIRHIAEVTL-TAK 57

Query:   165 HGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVVEN 224
                ++A E+   +YA++D V   I+R+LR+ KE+  +H +       L++++ V      
Sbjct:    58 GITIKAAEETNDMYAALDAVIDKIERQLRRYKERLKEH-KPSADDRALEIQKSVV----- 111

Query:   225 DADVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVY 284
                  + E  +   + V++R K   + P++V EA+ Q++ +  DF  F +  T  IN+VY
Sbjct:   112 -----TAESIEQRTEPVVIRSKTISIKPMSVEEAVMQMDLLHKDFLVFTDASTEAINVVY 166

Query:   285 KRKAGGYGVIIPK 297
             +RK G YG+I P+
Sbjct:   167 RRKDGNYGLIEPQ 179

GO:0003674 "molecular_function" evidence=ND

GO:0005840 "ribosome" evidence=ISS

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q5LWN3 SPO0078 "Ribosomal subunit interface protein, putative" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 173 (66.0 bits), Expect = 6.5e-13, P = 6.5e-13
 Identities = 50/195 (25%), Positives = 95/195 (48%)

Query:   103 IQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFT 162
             I GK +++   +++HV+ ++G+ V K++   R  D  +      F +      CE T+  
Sbjct:     5 ISGKQIDIGAALQSHVQTELGEVVSKYAQ--RPTDAHVV-----FSRSAHEYVCEATVHL 57

Query:   163 KKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPVTQVV 222
                   +A+  A  +YA+ D     + ++LR+ K +  DH  H      +++    + ++
Sbjct:    58 STGLTAQAKAHATEIYAAFDGCCEKMDKQLRRYKRRLKDH--HKDRAEPVELFGASSYIL 115

Query:   223 ENDA-DVQSEEEDDNFVDEVIVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEIN 281
              ++  D QSE   D+    ++  M+  ++P L+V EA+ Q+E        FRNE    +N
Sbjct:   116 ASEEPDAQSEP--DSLQPMIVAEMET-KIPSLSVGEAVMQMELAGAPVLVFRNESKDGLN 172

Query:   282 IVYKRKAGGYGVIIP 296
             +VY+R+ G  G I P
Sbjct:   173 VVYRREDGNIGWIDP 187

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

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)
P19954	PRSP1_SPIOL	No assigned EC number	0.7058	0.7062	0.7483	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00120337 hypothetical protein (306 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	320
pfam02482	94	pfam02482, Ribosomal_S30AE, Sigma 54 modulation pr	3e-24
cd00552	93	cd00552, RaiA, RaiA ("ribosome-associated inhibito	4e-24
COG1544	110	COG1544, COG1544, Ribosome-associated protein Y (P	2e-19
TIGR00741	95	TIGR00741, yfiA, ribosomal subunit interface prote	6e-16

>gnl|CDD|217061 pfam02482, Ribosomal_S30AE, Sigma 54 modulation protein / S30EA ribosomal protein

 Score = 94.1 bits (235), Expect = 3e-24
 Identities = 38/103 (36%), Positives = 61/103 (59%), Gaps = 9/103 (8%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
           K+ I G+++E+TD ++ +VEEK+ K + K+   +   DV LS     F       + E+T
Sbjct: 1   KINITGRHVEVTDALREYVEEKLEK-LEKYFDRIISADVTLSKEKNRF-------KVEIT 52

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDH 202
           +     G +RAE +A+ +YA+IDL    ++R+LRK KEK  DH
Sbjct: 53  I-HLPGGTLRAEAEADDMYAAIDLAVDKLERQLRKYKEKLKDH 94

This Pfam family contains the sigma-54 modulation protein family and the S30AE family of ribosomal proteins which includes the light- repressed protein (lrtA). Length = 94

>gnl|CDD|238308 cd00552, RaiA, RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site

 Score = 93.7 bits (234), Expect = 4e-24
 Identities = 39/99 (39%), Positives = 60/99 (60%), Gaps = 6/99 (6%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
            + I G+N+E+TD ++ +VEEK+ K + K+   +  VDV LSV         +  + E+T
Sbjct: 1   NINITGRNIEVTDALREYVEEKLEK-LEKYFDRIISVDVVLSVEKNH----GKRFKVEIT 55

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEK 198
           +     GV+RAE  AE +YA+IDL    ++R+LRK KEK
Sbjct: 56  IHLP-GGVLRAEASAEDLYAAIDLAVDKLERQLRKYKEK 93

RaiA is also thought to counteract miscoding at the A site thus reducing translation errors. The RaiA fold structurally resembles the double-stranded RNA-binding domain (dsRBD). Length = 93

>gnl|CDD|224461 COG1544, COG1544, Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]

 Score = 81.5 bits (202), Expect = 2e-19
 Identities = 40/105 (38%), Positives = 59/105 (56%), Gaps = 7/105 (6%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
           KL I GKN+E+T+ ++ +VEEK+ K       ++  VDV LS             + E T
Sbjct: 2   KLNISGKNVEITEAIREYVEEKLAKLERYFDDII-NVDVTLSKEKNRSRF-----KVEAT 55

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGR 204
           +     G++RAE + E +YA+IDL    ++R+LRK KEK  DH R
Sbjct: 56  IHLP-GGILRAEAEHEDMYAAIDLAIDKLERQLRKHKEKLKDHRR 99

Length = 110

>gnl|CDD|129824 TIGR00741, yfiA, ribosomal subunit interface protein

 Score = 71.6 bits (176), Expect = 6e-16
 Identities = 37/103 (35%), Positives = 61/103 (59%), Gaps = 9/103 (8%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
            + I G N+E+T+ ++ +VEEK+ +   ++   +  VDV LSV    F       + E T
Sbjct: 2   NINITGNNVEITEALREYVEEKLARLE-RYFTRIINVDVVLSVERNRF-------KVEAT 53

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDH 202
           L+    GV+RA  ++E +YA+IDL    ++R+LRK+KEK  +H
Sbjct: 54  LYVNG-GVIRASAESEDMYAAIDLAIDKLERQLRKLKEKRKEH 95

This model includes a small protein encoded by one of two genes, both downstream of the gene rpoN for sigma 54, whose deletion leads to increased expression from sigma 54-dependent promoters. It also includes the N-terminal half of a light-repressed protein LtrA of Synechococcus PCC 7002 and the N-terminal region (after removal of the transit peptide) of a larger plastid-specific ribosomal protein of spinach. The member of this family from E. coli is now recognized as a protein at the interace between ribosomal large and small subunits, with about 1/3 as many copies per cell as the number of ribosomes [Protein synthesis, Translation factors]. Length = 95

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	320
COG1544	110	Ribosome-associated protein Y (PSrp-1) [Translatio	99.94
PRK10324	113	translation inhibitor protein RaiA; Provisional	99.94
PRK10470	95	ribosome hibernation promoting factor HPF; Provisi	99.94
TIGR00741	95	yfiA ribosomal subunit interface protein. The memb	99.92
PF02482	97	Ribosomal_S30AE: Sigma 54 modulation protein / S30	99.9
cd00552	93	RaiA RaiA ("ribosome-associated inhibitor A", also	99.88

>COG1544 Ribosome-associated protein Y (PSrp-1) [Translation, ribosomal structure and biogenesis]

Probab=99.94  E-value=8.3e-27  Score=193.17  Aligned_cols=99  Identities=40%  Similarity=0.559  Sum_probs=92.2

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+++|+|+|+++||+||+||++||+| |++|+.+++.++|+|.+++.     +..+.|||+|++++ ++|+|++.++|||
T Consensus         1 m~~~IsG~nieit~a~r~~Ve~Kl~k-l~r~~~~~~~~~v~l~~e~~-----~~~~~ve~ti~~~~-g~l~a~~~~~d~Y   73 (110)
T COG1544           1 MKLNISGKNVEITEAIREYVEEKLAK-LERYFDDIINVDVTLSKEKN-----RSRFKVEATIHLPG-GILRAEAEHEDMY   73 (110)
T ss_pred             CeeEEeeeeeeeCHHHHHHHHHHHHH-HHhhhccCccEEEEEEeecc-----ccceEEEEEEEcCC-ceEEEeecCCCHH
Confidence            89999999999999999999999999 89998888899999999974     13489999999995 5999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhccC
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDHGR  204 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~~r  204 (320)
                      +|||.|+|||||||||+|+|+++|++
T Consensus        74 aAID~a~dKLerqlrK~K~K~~~~~~   99 (110)
T COG1544          74 AAIDLAIDKLERQLRKHKEKLKDHRR   99 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence            99999999999999999999999873

>PRK10324 translation inhibitor protein RaiA; Provisional

Probab=99.94  E-value=2.1e-26  Score=191.61  Aligned_cols=98  Identities=22%  Similarity=0.342  Sum_probs=92.3

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|||+++||+|++||++|++| |+||++++.+|+|+|+.+++       .++|||+|+++ |..|+|++.++|||
T Consensus         1 M~I~Itgr~v~~tdalr~~ie~Kl~k-L~k~~~~i~~~~V~l~~e~~-------~~~veitv~~~-g~~l~ae~~~~D~y   71 (113)
T PRK10324          1 MTMNITSKQMEITPAIRQHVADRLAK-LEKWQTHLINPHIILSKEPQ-------GFVADATINTP-NGVLVASGKHEDMY   71 (113)
T ss_pred             CEEEEEEEcCcCCHHHHHHHHHHHHH-HHHhcCCCceEEEEEEEcCC-------CeEEEEEEECC-CCeEEEEEecCCHH
Confidence            89999999999999999999999999 99999999999999998864       27899999998 67899999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhccCC
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDHGRH  205 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~~r~  205 (320)
                      +|||.|+++|+|||+|+|+|+.+|+.+
T Consensus        72 ~AID~a~dklerQLrK~K~k~~~~~~~   98 (113)
T PRK10324         72 TAINELINKLERQLNKLQHKGEARRAA   98 (113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999988643

>PRK10470 ribosome hibernation promoting factor HPF; Provisional

Probab=99.94  E-value=2.1e-26  Score=184.99  Aligned_cols=95  Identities=28%  Similarity=0.417  Sum_probs=89.8

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|||+++|++|++||++|+++ |+||+++|..|+|+|+.+++.       +.|||+++++ |..++|++.++|||
T Consensus         1 M~i~i~~r~i~~t~al~~~v~~kl~k-L~r~~~~i~~~~V~l~~~~~~-------~~~ei~~~~~-g~~l~a~~~~~d~y   71 (95)
T PRK10470          1 MQLNITGHNVEITEALREFVTAKFAK-LEQYFDRINQVYVVLKVEKVT-------HISDATLHVN-GGEIHASAEGQDMY   71 (95)
T ss_pred             CEEEEEEEeeccCHHHHHHHHHHHHH-HHHhcCCCceEEEEEEEecCC-------eEEEEEEEeC-CCEEEEEEecCcHH
Confidence            89999999999999999999999998 999999999999999987642       7899999998 67999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhc
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDH  202 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~  202 (320)
                      +|||.|+++|+|||+|+|+|+++|
T Consensus        72 ~Aid~a~~klerqL~k~k~k~~~~   95 (95)
T PRK10470         72 AAIDGLIDKLARQLTKHKDKLKQH   95 (95)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccC
Confidence            999999999999999999998764

>TIGR00741 yfiA ribosomal subunit interface protein

Probab=99.92  E-value=1.4e-24  Score=173.33  Aligned_cols=95  Identities=38%  Similarity=0.608  Sum_probs=89.9

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|+|+++|++|++||++|+++ |+||++.+..|+|+|+.+++.       ++|+|+|+++ |+.++|++.++|+|
T Consensus         1 M~i~i~~~~~~~t~~l~~~i~~k~~k-l~k~~~~i~~~~V~l~~e~~~-------~~~~i~v~~~-g~~l~a~~~~~d~~   71 (95)
T TIGR00741         1 MNINITGKNVEITEALREYVEEKLAR-LERYFTHIINVDVVLSKERNR-------FKVEATIYTP-GGVIRASAEHEDMY   71 (95)
T ss_pred             CEEEEEEeccccCHHHHHHHHHHHHH-HHHhcCCCceEEEEEEEecCc-------eEEEEEEEcC-CCEEEEEEecCcHH
Confidence            89999999999999999999999999 999999999999999988642       8999999999 56999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhc
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDH  202 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~  202 (320)
                      +|||.|+++|+|||+|+|+|+++|
T Consensus        72 ~Aid~a~~klerql~k~k~k~~~~   95 (95)
T TIGR00741        72 AAIDLAIDKLERQLRKLKEKRKEH   95 (95)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhcC
Confidence            999999999999999999998764

The member of this family from E. coli is now recognized as a protein at the interace between ribosomal large and small subunits, with about 1/3 as many copies per cell as the number of ribosomes.

>PF02482 Ribosomal_S30AE: Sigma 54 modulation protein / S30EA ribosomal protein; InterPro: IPR003489 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.90  E-value=2.3e-23  Score=166.26  Aligned_cols=97  Identities=38%  Similarity=0.499  Sum_probs=85.0

Q ss_pred             EEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHHH
Q 020905          100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYA  179 (320)
Q Consensus       100 kI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Ya  179 (320)
                      ||+|+|||+++|++|++||++||++ |++|++++..++|+|+.++    .++..++|+|+|.++ |..|+|++.++|+|+
T Consensus         1 ~i~i~~~~~~~t~~l~~~i~~kl~k-l~~~~~~i~~~~V~l~~~~----~~~~~~~v~i~i~~~-~~~l~a~~~~~d~~~   74 (97)
T PF02482_consen    1 NIQITGRNFELTDALREYIEEKLEK-LERFFDDIIEAHVTLSKEK----SEGKGYRVEITIHVP-GHVLVAEESAEDLYA   74 (97)
T ss_dssp             EEEEEECSS---HHHHHHHHHHHHH-HHTTSSC-SEEEEEEEEE------ETTEEEEEEEEEET-TEEEEEEEEESSHHH
T ss_pred             CEEEEEEcccCCHHHHHHHHHHHHH-HHhhcCCCeeEEEEEEEee----ccCCCEEEEEEEEeC-CceEEEEEecCCHHH
Confidence            6899999999999999999999999 9999999999999999972    223569999999997 679999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhHhhhc
Q 020905          180 SIDLVSSIIQRKLRKIKEKESDH  202 (320)
Q Consensus       180 AID~A~dKLeRQLrK~KeKlk~~  202 (320)
                      |||.|+++|+|||+|+|+|+++|
T Consensus        75 Aid~a~dkl~rql~k~k~k~~~h   97 (97)
T PF02482_consen   75 AIDEAFDKLERQLRKYKEKLRDH   97 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCT-
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcC
Confidence            99999999999999999999876

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the sigma-54 modulation protein family and the S30Ae family of ribosomal proteins which includes the light-repressed protein (lrtA) [].; GO: 0005488 binding, 0044238 primary metabolic process; PDB: 1L4S_A 1VOX_a 1VOV_a 3V2E_Y 3V2C_Y 1N3G_A 1VOS_a 1VOZ_a 1VOQ_a 1IMU_A ....

>cd00552 RaiA RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site

Probab=99.88  E-value=5.9e-22  Score=157.35  Aligned_cols=93  Identities=42%  Similarity=0.580  Sum_probs=86.7

Q ss_pred             EEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHHH
Q 020905          100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYA  179 (320)
Q Consensus       100 kI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Ya  179 (320)
                      +|+|+|||+++|++|++||++++++ |.||++++..|+|+|+.++++    +..++|+|+|+++ |..|+|++.++|+|+
T Consensus         1 ~i~i~~r~~~~t~al~~~i~~k~~k-l~r~~~~i~~~~V~l~~~~~~----~~~~~v~i~v~~~-g~~~~a~~~~~d~~~   74 (93)
T cd00552           1 NINITGRNIEVTDALREYVEEKLEK-LEKYFDRIISVDVVLSVEKNH----GKRFKVEITIHLP-GGVLRAEASAEDLYA   74 (93)
T ss_pred             CEEEEEEcccCCHHHHHHHHHHHHH-HHHhcCCCceEEEEEEEecCC----CCceEEEEEEEeC-CCEEEEEEccCCHHH
Confidence            5899999999999999999999999 999999999999999988752    3358999999999 789999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhH
Q 020905          180 SIDLVSSIIQRKLRKIKEK  198 (320)
Q Consensus       180 AID~A~dKLeRQLrK~KeK  198 (320)
                      |||.|+++|+|||+|+|+|
T Consensus        75 Aid~a~~kl~rqL~k~k~k   93 (93)
T cd00552          75 AIDLAVDKLERQLRKYKEK   93 (93)
T ss_pred             HHHHHHHHHHHHHHHhccC
Confidence            9999999999999999986

RaiA is also thought to counteract miscoding at the A site thus reducing translation errors. The RaiA fold structurally resembles the double-stranded RNA-binding domain (dsRBD).

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	320
3k2t_A	57	Crystal Structure Of Lmo2511 Protein From Listeria		9e-07
3ka5_A	65	Crystal Structure Of Ribosome-Associated Protein Y		3e-05
3lyv_A	66	Crystal Structure Of A Domain Of Ribosome-Associate		2e-04

>pdb|3K2T|A Chain A, Crystal Structure Of Lmo2511 Protein From Listeria Monocytogenes, Northeast Structural Genomics Consortium Target Lkr84a Length = 57

Iteration: 1
 Score = 50.8 bits (120), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 24/53 (45%), Positives = 32/53 (60%)
Query: 242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVI 294
           IVR K F + P+   EA+ Q+  + H FY + + ET   NIVY RK G YG+I
Sbjct: 2   IVRTKQFSLKPMDSEEAVLQMNLLGHSFYVYTDAETNGTNIVYSRKDGKYGLI 54

>pdb|3KA5|A Chain A, Crystal Structure Of Ribosome-Associated Protein Y (Psrp-1) From Clostridium Acetobutylicum. Northeast Structural Genomics Consortium Target Id Car123a Length = 65

Iteration: 1
 Score = 45.8 bits (107), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 39/56 (69%)
Query: 242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPK 297
           IV+ K F + P +  EA+ + E + H+F+ F+N ++ E+N+VYKRK G YG+I P+
Sbjct: 2   IVKTKRFAIKPXSEEEAVLEXELLGHNFFVFQNGDSNEVNVVYKRKDGNYGLIEPE 57

>pdb|3LYV|A Chain A, Crystal Structure Of A Domain Of Ribosome-Associated Factor Streptococcus Pyogenes Serotype M6. Northeast Structural Ge Consortium Target Id Dr64a Length = 66

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 22/56 (39%), Positives = 32/56 (57%)
Query: 242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPK 297
           +VR K   + P  V EA  Q E + HDF+ + + E G  NI+Y+R+ G  G+I  K
Sbjct: 3   VVRTKNVTLKPXDVEEARLQXELLGHDFFIYTDSEDGATNILYRREDGNLGLIEAK 58

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	320
2ywq_A	105	Protein Y, ribosomal subunit interface protein; si	1e-28
3lyv_A	66	Ribosome-associated factor Y; ribosomal protein S3	2e-26
3ka5_A	65	Ribosome-associated protein Y (PSRP-1); structural	3e-26
3k2t_A	57	LMO2511 protein; listeria monocytogenes,binding, s	4e-26
3tqm_A	96	Ribosome-associated factor Y; protein synthesis, p	6e-26
4fyl_A	95	Ribosome hibernation protein YHBH; beta-alpha-beta	8e-26
3v2c_Y	119	Ribosome-associated inhibitor A; RAIA, protein Y,	1e-24
1imu_A	107	Hypothetical protein HI0257; dsRNA binding protein	3e-24
3v26_X	101	ORF3, ORF95, probable sigma(54) modulation protein	3e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-04

>2ywq_A Protein Y, ribosomal subunit interface protein; sigma-54 modulation protein family, structural genomics; 2.64A {Thermus thermophilus} SCOP: d.204.1.1 Length = 105

 Score =  105 bits (264), Expect = 1e-28
 Identities = 27/103 (26%), Positives = 56/103 (54%), Gaps = 4/103 (3%)

Query: 103 IQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFT 162
           + G+NLE+TD ++++VE+K+ + + ++        V LS+ G       +  R E+ +  
Sbjct: 6   LIGRNLEITDAIRDYVEKKLAR-LDRYQDGELMAKVVLSLAGS--PHVEKKARAEIQVDL 62

Query: 163 KKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRH 205
              G+VR EE+   +YA+ID     ++ ++++ +E+     RH
Sbjct: 63  P-GGLVRVEEEDADLYAAIDRAVDRLETQVKRFRERRYVGKRH 104

>3lyv_A Ribosome-associated factor Y; ribosomal protein S30AE family, structural genomics, PSI-2, structure initiative; 2.70A {Streptococcus pyogenes} Length = 66

 Score = 98.5 bits (246), Expect = 2e-26
 Identities = 22/59 (37%), Positives = 34/59 (57%)

Query: 242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNG 300
           +VR K   + P+ V EA  Q+E + HDF+ + + E G  NI+Y+R+ G  G+I  K   
Sbjct: 3   VVRTKNVTLKPMDVEEARLQMELLGHDFFIYTDSEDGATNILYRREDGNLGLIEAKLEH 61

>3ka5_A Ribosome-associated protein Y (PSRP-1); structural genomics, PSI-2, protein structure initiative; 1.80A {Clostridium acetobutylicum} Length = 65

 Score = 97.8 bits (244), Expect = 3e-26
 Identities = 24/59 (40%), Positives = 41/59 (69%)

Query: 242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNG 300
           IV+ K F + P++  EA+ ++E + H+F+ F+N ++ E+N+VYKRK G YG+I P+   
Sbjct: 2   IVKTKRFAIKPMSEEEAVLEMELLGHNFFVFQNGDSNEVNVVYKRKDGNYGLIEPELEH 60

>3k2t_A LMO2511 protein; listeria monocytogenes,binding, structural genomics, PSI-2, protein structure initiative; 2.40A {Listeria monocytogenes} Length = 57

 Score = 97.3 bits (243), Expect = 4e-26
 Identities = 24/55 (43%), Positives = 32/55 (58%)

Query: 242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIP 296
           IVR K F + P+   EA+ Q+  + H FY + + ET   NIVY RK G YG+I  
Sbjct: 2   IVRTKQFSLKPMDSEEAVLQMNLLGHSFYVYTDAETNGTNIVYSRKDGKYGLIET 56

>3tqm_A Ribosome-associated factor Y; protein synthesis, protein binding; 2.45A {Coxiella burnetii} Length = 96

 Score = 98.0 bits (245), Expect = 6e-26
 Identities = 13/103 (12%), Positives = 46/103 (44%), Gaps = 9/103 (8%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
            + + G+ ++++  ++   E+K+ + +      +  + +   +   +          +  
Sbjct: 2   HIQMTGQGVDISPALRELTEKKLHR-IQPCRDEISNIHIIFHINKLKK-------IVDAN 53

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDH 202
           +       + A+ +++ +Y ++DL+   ++ +L K K K+ DH
Sbjct: 54  VKLP-GSTINAQAESDDMYKTVDLLMHKLETQLSKYKAKKGDH 95

>3v2c_Y Ribosome-associated inhibitor A; RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome-inhibitor; 2.70A {Escherichia coli k-12} PDB: 3v2e_Y 1n3g_A 1l4s_A 1voq_a 1vos_a 1vov_a 1vox_a 1voz_a Length = 119

 Score = 95.4 bits (238), Expect = 1e-24
 Identities = 26/119 (21%), Positives = 51/119 (42%), Gaps = 10/119 (8%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
            + I  K +E+T  ++ HV +++ K + K    +    + LS     F         + T
Sbjct: 2   TMNITSKQMEITPAIRQHVADRLAK-LEKWQTHLINPHIILSKEPQGF-------VADAT 53

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPV 218
           + T  +GV+ A    E +Y +I+ + + ++R+L K++ K     R           E V
Sbjct: 54  INTP-NGVLVASGKHEDMYTAINELINKLERQLNKLQHKGEAR-RAATSVKDANFVEEV 110

>1imu_A Hypothetical protein HI0257; dsRNA binding protein, proteome, solution structure, ribosome, structure 2 function project, S2F; NMR {Haemophilus influenzae} SCOP: d.204.1.1 Length = 107

 Score = 94.2 bits (235), Expect = 3e-24
 Identities = 23/110 (20%), Positives = 48/110 (43%), Gaps = 10/110 (9%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
            L I  K +++T  ++ H+EE++ K + K    +      L+     F         E +
Sbjct: 2   TLNITSKQMDITPAIREHLEERLAK-LGKWQTQLISPHFVLNKVPNGF-------SVEAS 53

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGF 209
           + T   G + A   ++ +Y +I+ V   ++R+L K++ K     R  +  
Sbjct: 54  IGTPL-GNLLASATSDDMYKAINEVEEKLERQLNKLQHKSESR-RADERL 101

>3v26_X ORF3, ORF95, probable sigma(54) modulation protein; ribosome hibernation factor, YHBH, protein E, stress respons stationary phase; 3.10A {Escherichia coli} PDB: 3v28_X 2rql_A Length = 101

 Score = 93.4 bits (233), Expect = 3e-24
 Identities = 28/106 (26%), Positives = 49/106 (46%), Gaps = 9/106 (8%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
           +L I G N+E+T+ ++  V  K  K + ++   + +V V L V              + T
Sbjct: 2   QLNITGNNVEITEALREFVTAKFAK-LEQYFDRINQVYVVLKVEKVTH-------TSDAT 53

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRH 205
           L     G + A  + + +YA+ID +   + R+L K K+K   H  H
Sbjct: 54  LHVN-GGEIHASAEGQDMYAAIDGLIDKLARQLTKHKDKLKQHHHH 98

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.2 bits (93), Expect = 8e-04
 Identities = 42/320 (13%), Positives = 84/320 (26%), Gaps = 96/320 (30%)

Query: 45  VSPFVTPRKSQLAKTLSYNSS---FFG---PFKQITVMRPTKVHTKPLPVRMSWDGPLSS 98
           +SP  T ++     T  Y       +     F +  V R          +R +    L  
Sbjct: 95  MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK----LRQA----LLE 146

Query: 99  VK----LIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEF----GKG 150
           ++    ++I G                 GK  +    +     V+  +    F       
Sbjct: 147 LRPAKNVLIDGVL-------------GSGKTWVA-LDVCLSYKVQCKMDFKIFWLNLKNC 192

Query: 151 PRIRRC---EVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKES------- 200
                       L  +      +  D     ++I L    IQ +LR++ + +        
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDH---SSNIKLRIHSIQAELRRLLKSKPYENCLLV 249

Query: 201 -DH---GRHMKGFN-RLKV----REP-VTQVVENDA--DVQSEEEDDNFV-DEV------ 241
             +    +    FN   K+    R   VT  +       +  +        DEV      
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309

Query: 242 IVRMKFFEMP-------PLTVS-------EAIEQLENVDHDFY---------GFRNEETG 278
            +  +  ++P       P  +S       + +   +N  H                 E  
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369

Query: 279 EINIVYKRKAGGYGVIIPKG 298
           E   ++ R +     + P  
Sbjct: 370 EYRKMFDRLS-----VFPPS 384

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	320
4fyl_A	95	Ribosome hibernation protein YHBH; beta-alpha-beta	99.96
3ka5_A	65	Ribosome-associated protein Y (PSRP-1); structural	99.96
3lyv_A	66	Ribosome-associated factor Y; ribosomal protein S3	99.96
3k2t_A	57	LMO2511 protein; listeria monocytogenes,binding, s	99.96
2ywq_A	105	Protein Y, ribosomal subunit interface protein; si	99.96
3tqm_A	96	Ribosome-associated factor Y; protein synthesis, p	99.95
3v26_X	101	ORF3, ORF95, probable sigma(54) modulation protein	99.95
3v2c_Y	119	Ribosome-associated inhibitor A; RAIA, protein Y,	99.95
1imu_A	107	Hypothetical protein HI0257; dsRNA binding protein	99.95
1pu1_A	94	Hypothetical protein MTH677; structural genomics,	81.74

>3ka5_A Ribosome-associated protein Y (PSRP-1); structural genomics, PSI-2, protein structure initiative; 1.80A {Clostridium acetobutylicum}

Probab=99.96  E-value=3.2e-30  Score=193.20  Aligned_cols=59  Identities=41%  Similarity=0.785  Sum_probs=55.5

Q ss_pred             eeEeeeccCCCCCHHHHHHHHhcCCCcEEEEeeCCCCceeEEEEecCCcEEEEEeCCCC
Q 020905          242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNG  300 (320)
Q Consensus       242 IVr~K~~~lkPMsveEAV~QMEllghdF~vF~N~eTg~vnVVYRRkDG~YGLIeP~~~~  300 (320)
                      |||+|.|+++|||+||||+|||++||+||||+|++||++||||||+||+||||+|..+.
T Consensus         2 iVr~K~~~~kpMsveEAv~qmel~gh~F~vF~n~etg~~nVVYRR~dG~yGlI~p~~~~   60 (65)
T 3ka5_A            2 IVKTKRFAIKPMSEEEAVLEMELLGHNFFVFQNGDSNEVNVVYKRKDGNYGLIEPELEH   60 (65)
T ss_dssp             EEEEECSCCSCBCHHHHHHHHHHHTCSEEEEEETTTTEEEEEEECTTSCEEEEECC---
T ss_pred             eEEEEeecCCCCCHHHHHHHHHhCCCcEEEEEeCCCCCEEEEEEeCCCCEEEEEeCccc
Confidence            79999999999999999999999999999999999999999999999999999998763

>3lyv_A Ribosome-associated factor Y; ribosomal protein S30AE family, structural genomics, PSI-2, structure initiative; 2.70A {Streptococcus pyogenes}

Probab=99.96  E-value=3.3e-30  Score=193.72  Aligned_cols=59  Identities=37%  Similarity=0.633  Sum_probs=56.9

Q ss_pred             eeEeeeccCCCCCHHHHHHHHhcCCCcEEEEeeCCCCceeEEEEecCCcEEEEEeCCCC
Q 020905          242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPKGNG  300 (320)
Q Consensus       242 IVr~K~~~lkPMsveEAV~QMEllghdF~vF~N~eTg~vnVVYRRkDG~YGLIeP~~~~  300 (320)
                      |||+|.|+++|||+||||+|||++||+||||+|++||++||||||+||+||||+|..+.
T Consensus         3 iVr~K~~~~kpMsveEAv~qMel~gh~F~vF~n~etg~~nVVYRR~dG~yGlI~p~~~~   61 (66)
T 3lyv_A            3 VVRTKNVTLKPMDVEEARLQMELLGHDFFIYTDSEDGATNILYRREDGNLGLIEAKLEH   61 (66)
T ss_dssp             CCCCCCCCCCEECHHHHHHHHHTTTCSEEEEEETTTCSEEEEEECTTSSEEEEEECCC-
T ss_pred             EEEEEEccCCCCCHHHHHHHHHcCCCcEEEEEeCCCCCEEEEEEECCCCEEEEEeCccc
Confidence            79999999999999999999999999999999999999999999999999999998764

>3k2t_A LMO2511 protein; listeria monocytogenes,binding, structural genomics, PSI-2, protein structure initiative; 2.40A {Listeria monocytogenes}

Probab=99.96  E-value=2.2e-30  Score=189.84  Aligned_cols=56  Identities=43%  Similarity=0.735  Sum_probs=51.4

Q ss_pred             eeEeeeccCCCCCHHHHHHHHhcCCCcEEEEeeCCCCceeEEEEecCCcEEEEEeC
Q 020905          242 IVRMKFFEMPPLTVSEAIEQLENVDHDFYGFRNEETGEINIVYKRKAGGYGVIIPK  297 (320)
Q Consensus       242 IVr~K~~~lkPMsveEAV~QMEllghdF~vF~N~eTg~vnVVYRRkDG~YGLIeP~  297 (320)
                      |||+|.|+++|||+||||+|||++||+||||+|++||++||||||+||+||||+|.
T Consensus         2 ivr~K~~~~kpmsveEAv~qmel~gh~F~vF~n~~t~~~nVvYrR~dG~yGlI~p~   57 (57)
T 3k2t_A            2 IVRTKQFSLKPMDSEEAVLQMNLLGHSFYVYTDAETNGTNIVYSRKDGKYGLIETN   57 (57)
T ss_dssp             CCCCCC---CCBCHHHHHHHHHHHTCSEEEEEBSSSCCEEEEEECTTSCEEEECC-
T ss_pred             eEEEEeccCCCCCHHHHHHHHHhCCCcEEEEEcCCCCCEEEEEEeCCCCEEEEeeC
Confidence            79999999999999999999999999999999999999999999999999999984

>2ywq_A Protein Y, ribosomal subunit interface protein; sigma-54 modulation protein family, structural genomics; 2.64A {Thermus thermophilus} SCOP: d.204.1.1

Probab=99.96  E-value=7e-29  Score=201.68  Aligned_cols=103  Identities=25%  Similarity=0.381  Sum_probs=86.4

Q ss_pred             ceEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCH
Q 020905           98 SVKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETV  177 (320)
Q Consensus        98 ~MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~  177 (320)
                      ||+|+|+|+||++|++|++||++||+| |+||+++|.+|+|+|++++++  +++..++|||+|+++ |.+|+|++.++||
T Consensus         1 ~M~i~I~g~~i~~t~al~~~v~~kl~k-L~r~~~~i~~~~V~l~~e~~~--~~~~~~~~eitv~~~-g~~l~a~~~~~d~   76 (105)
T 2ywq_A            1 MNIYKLIGRNLEITDAIRDYVEKKLAR-LDRYQDGELMAKVVLSLAGSP--HVEKKARAEIQVDLP-GGLVRVEEEDADL   76 (105)
T ss_dssp             CEEEEEEEETSCCCHHHHHHHHHHHHG-GGGSCSSCCEEEEEEEECC--------CEEEEEEEEET-TEEEEEEEEESSH
T ss_pred             CcEEEEEEecCcCCHHHHHHHHHHHHH-HHHhcCCCeEEEEEEEEecCC--CCCCceEEEEEEEcC-CcEEEEEEccCCH
Confidence            699999999999999999999999998 999999999999999999864  222358999999998 6899999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHhHhhhccC
Q 020905          178 YASIDLVSSIIQRKLRKIKEKESDHGR  204 (320)
Q Consensus       178 YaAID~A~dKLeRQLrK~KeKlk~~~r  204 (320)
                      |+|||.|+|||+|||+|+|+|+++|++
T Consensus        77 y~Aid~a~dklerqL~k~k~K~~~~~~  103 (105)
T 2ywq_A           77 YAAIDRAVDRLETQVKRFRERRYVGKR  103 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHTC--------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            999999999999999999999998864

>3tqm_A Ribosome-associated factor Y; protein synthesis, protein binding; 2.45A {Coxiella burnetii}

Probab=99.95  E-value=1.3e-28  Score=197.32  Aligned_cols=96  Identities=14%  Similarity=0.360  Sum_probs=88.0

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|+||++||+|++||++||+| |+||++++.+|+|+|+++++       .++|||+|+++ |.+|+|++.++|||
T Consensus         1 M~i~i~g~~i~~t~al~~~v~~kl~k-L~k~~~~i~~~~V~l~~e~~-------~~~~ei~i~~~-g~~l~a~~~~~d~y   71 (96)
T 3tqm_A            1 MHIQMTGQGVDISPALRELTEKKLHR-IQPCRDEISNIHIIFHINKL-------KKIVDANVKLP-GSTINAQAESDDMY   71 (96)
T ss_dssp             CEEEEEEESSCCCHHHHHHHHHHHTT-CCSSGGGCCEEEEEEEEETT-------EEEEEEEEEET-TEEEEEEECCSCHH
T ss_pred             CEEEEEEEcccCCHHHHHHHHHHHHH-HHHhcCCCeEEEEEEEEeCC-------ceEEEEEEEeC-CcEEEEEEecCCHH
Confidence            99999999999999999999999999 99999999999999999975       38999999999 67999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhcc
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDHG  203 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~~  203 (320)
                      +|||.|+|||+|||+|+|+|+++|+
T Consensus        72 ~Aid~a~dklerqL~k~k~k~~~h~   96 (96)
T 3tqm_A           72 KTVDLLMHKLETQLSKYKAKKGDHR   96 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHTC-----
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccC
Confidence            9999999999999999999999874

>3v26_X ORF3, ORF95, probable sigma(54) modulation protein; ribosome hibernation factor, YHBH, protein E, stress respons stationary phase; 3.10A {Escherichia coli} PDB: 3v28_X 2rql_A

Probab=99.95  E-value=3e-28  Score=197.60  Aligned_cols=98  Identities=29%  Similarity=0.430  Sum_probs=91.2

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|+||++||+|++||++||+| |+||+++|.+|+|+|+.+++.       ++|||+|+++ |.+|+|++.++|||
T Consensus         1 M~i~I~g~~ie~t~alr~~ve~Kl~k-L~k~~d~i~~~~V~l~~e~~~-------~~~eitv~~~-G~~l~ae~~~~d~y   71 (101)
T 3v26_X            1 MQLNITGNNVEITEALREFVTAKFAK-LEQYFDRINQVYVVLKVEKVT-------HTSDATLHVN-GGEIHASAEGQDMY   71 (101)
T ss_dssp             CCEEEECSSSCCCHHHHHHHHHHHHH-HHTTCSCCCCEEEEEEECSSC-------EEEEEEECST-TCCEEEEECCSSSS
T ss_pred             CEEEEEEecccCCHHHHHHHHHHHHH-HHhhcCCCeEEEEEEEEcCCC-------EEEEEEEEcC-CceEEEEEecCCHH
Confidence            89999999999999999999999999 999999999999999999753       8999999999 56999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhccCC
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDHGRH  205 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~~r~  205 (320)
                      +|||.|+|||+|||+|+|+|++.|+.+
T Consensus        72 aAID~a~dkLerQLrK~K~k~~~~~~~   98 (101)
T 3v26_X           72 AAIDGLIDKLARQLTKHKDKLKQHHHH   98 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            999999999999999999999987643

>3v2c_Y Ribosome-associated inhibitor A; RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome-inhibitor; 2.70A {Escherichia coli k-12} PDB: 3v2e_Y 1n3g_A 1l4s_A 1voq_a 1vos_a 1vov_a 1vox_a 1voz_a

Probab=99.95  E-value=1.9e-27  Score=198.31  Aligned_cols=97  Identities=23%  Similarity=0.361  Sum_probs=91.0

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|+||++|++|++||++||+| |+||+++|++|+|+|+++++.       ++|||+|+++ |.+|+|++.++|||
T Consensus         1 M~i~I~g~~ievt~alr~~ve~Kl~k-L~k~~d~i~~~~V~ls~e~~~-------~~veiti~~~-G~~l~ae~~~~D~y   71 (119)
T 3v2c_Y            1 MTMNITSKQMEITPAIRQHVADRLAK-LEKWQTHLINPHIILSKEPQG-------FVADATINTP-NGVLVASGKHEDMY   71 (119)
T ss_dssp             -CCEEEEETSCCCHHHHHHHHHHGGG-GGGGCCCCEEEEEEEECCSSC-------EEEEEEEEET-TEEEEEEEEESSHH
T ss_pred             CEEEEEEecccCCHHHHHHHHHHHHH-HHHhcCCCeEEEEEEEEeCCC-------EEEEEEEEcC-CceEEEEEcCCCHH
Confidence            89999999999999999999999999 999999999999999998753       8999999999 56999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhccC
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDHGR  204 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~~r  204 (320)
                      +|||.|+|||+|||+|+|+|+++|++
T Consensus        72 aAID~a~dkLerQLrK~K~K~~~~~~   97 (119)
T 3v2c_Y           72 TAINELINKLERQLNKLQHKGEARRA   97 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTCCC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            99999999999999999999998865

>1imu_A Hypothetical protein HI0257; dsRNA binding protein, proteome, solution structure, ribosome, structure 2 function project, S2F; NMR {Haemophilus influenzae} SCOP: d.204.1.1

Probab=99.95  E-value=1.1e-27  Score=195.84  Aligned_cols=97  Identities=22%  Similarity=0.320  Sum_probs=92.0

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|+||++|++|++||++||+| |+||++++.+|+|+|+++++       .++|||+|+++ |..|+|++.++|||
T Consensus         1 M~i~I~g~~i~~t~alr~~v~~kl~k-L~r~~~~i~~~~V~l~~e~~-------~~~~ei~i~~~-g~~l~a~~~~~d~y   71 (107)
T 1imu_A            1 MTLNITSKQMDITPAIREHLEERLAK-LGKWQTQLISPHFVLNKVPN-------GFSVEASIGTP-LGNLLASATSDDMY   71 (107)
T ss_dssp             CCCEECCSSSCCCHHHHHHHHHHHHH-HHTSSCCCSSCEEEEEEETT-------EEEEEEEECCT-TCCEEEEEEESCHH
T ss_pred             CEEEEEEecCcCCHHHHHHHHHHHHH-HHHhcCCCcEEEEEEEEcCC-------ceEEEEEEEcC-CCEEEEEEecCCHH
Confidence            89999999999999999999999999 99999999999999999964       48999999999 56899999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhccC
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDHGR  204 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~~r  204 (320)
                      +|||.|+|||+|||+|+|+|+++|++
T Consensus        72 ~AiD~a~dkLerqLrk~k~K~~~~~~   97 (107)
T 1imu_A           72 KAINEVEEKLERQLNKLQHKSESRRA   97 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCSCCSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            99999999999999999999988764

>1pu1_A Hypothetical protein MTH677; structural genomics, alpha and beta protein (A+B), unknown function; NMR {Methanothermobacterthermautotrophicus} SCOP: d.266.1.1

Probab=81.74  E-value=2.7  Score=33.06  Aligned_cols=58  Identities=14%  Similarity=0.214  Sum_probs=37.1

Q ss_pred             CceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHHHHHHHHHHHHHHHHHHHHh
Q 020905          132 LVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKE  197 (320)
Q Consensus       132 ~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~YaAID~A~dKLeRQLrK~Ke  197 (320)
                      .|.+.+|.+....+.    .-..-++|-|.++  ..  ++..-.=...|||.|..++++.|+.|++
T Consensus        37 Ei~Dldi~v~v~~~~----~Ldvdvdv~l~~d--~l--sk~D~~ivdeAi~~AY~~ie~yl~d~r~   94 (94)
T 1pu1_A           37 EIVDIDITVLVEYTD----ELKVDISAELYLD--EL--SDADPGIVDEAVDAAYRSLESFLDGFRE   94 (94)
T ss_dssp             TEEEEEEEEEEEESS----SEEEEEEEEEEEC--TT--CCCCTTHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HhhcceeEEEEccCC----ceeeEEEEEEEeC--ch--hhcCHHHHHHHHHHHHHHHHHHHHhccC
Confidence            567777777776542    1223455555554  22  3333366778999999999999987763

---

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	320
d1imua_	107	d.204.1.1 (A:) Ribosome binding protein Y (YfiA ho	1e-19
d2ywqa1	95	d.204.1.1 (A:1-95) Ribosome binding protein Y (Yfi	6e-19
d1l4sa_	112	d.204.1.1 (A:) Ribosome binding protein Y (YfiA ho	1e-18

>d1imua_ d.204.1.1 (A:) Ribosome binding protein Y (YfiA homologue) {Haemophilus influenzae [TaxId: 727]} Length = 107

class: Alpha and beta proteins (a+b)
fold: Ribosome binding protein Y (YfiA homologue)
superfamily: Ribosome binding protein Y (YfiA homologue)
family: Ribosome binding protein Y (YfiA homologue)
domain: Ribosome binding protein Y (YfiA homologue)
species: Haemophilus influenzae [TaxId: 727]

 Score = 80.3 bits (198), Expect = 1e-19
 Identities = 23/110 (20%), Positives = 48/110 (43%), Gaps = 10/110 (9%)

Query: 100 KLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVT 159
            L I  K +++T  ++ H+EE++ K + K    +      L+     F         E +
Sbjct: 2   TLNITSKQMDITPAIREHLEERLAK-LGKWQTQLISPHFVLNKVPNGF-------SVEAS 53

Query: 160 LFTKKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGF 209
           + T   G + A   ++ +Y +I+ V   ++R+L K++ K     R  +  
Sbjct: 54  IGTP-LGNLLASATSDDMYKAINEVEEKLERQLNKLQHKSESR-RADERL 101

>d2ywqa1 d.204.1.1 (A:1-95) Ribosome binding protein Y (YfiA homologue) {Thermus thermophilus [TaxId: 274]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ribosome binding protein Y (YfiA homologue)
superfamily: Ribosome binding protein Y (YfiA homologue)
family: Ribosome binding protein Y (YfiA homologue)
domain: Ribosome binding protein Y (YfiA homologue)
species: Thermus thermophilus [TaxId: 274]

 Score = 78.3 bits (193), Expect = 6e-19
 Identities = 24/94 (25%), Positives = 53/94 (56%), Gaps = 4/94 (4%)

Query: 103 IQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFT 162
           + G+NLE+TD ++++VE+K+ + + ++        V LS+ G    +  +  R E+ +  
Sbjct: 6   LIGRNLEITDAIRDYVEKKLAR-LDRYQDGELMAKVVLSLAGSPHVE--KKARAEIQVDL 62

Query: 163 KKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIK 196
              G+VR EE+   +YA+ID     ++ ++++ +
Sbjct: 63  P-GGLVRVEEEDADLYAAIDRAVDRLETQVKRFR 95

>d1l4sa_ d.204.1.1 (A:) Ribosome binding protein Y (YfiA homologue) {Escherichia coli [TaxId: 562]} Length = 112

class: Alpha and beta proteins (a+b)
fold: Ribosome binding protein Y (YfiA homologue)
superfamily: Ribosome binding protein Y (YfiA homologue)
family: Ribosome binding protein Y (YfiA homologue)
domain: Ribosome binding protein Y (YfiA homologue)
species: Escherichia coli [TaxId: 562]

 Score = 77.6 bits (191), Expect = 1e-18
 Identities = 25/116 (21%), Positives = 49/116 (42%), Gaps = 10/116 (8%)

Query: 103 IQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFT 162
           I  K +E+T  ++ HV +++ K + K    +    + LS     F         + T+  
Sbjct: 4   ITSKQMEITPAIRQHVADRLAK-LEKWQTHLINPHIILSKEPQGF-------VADATI-N 54

Query: 163 KKHGVVRAEEDAETVYASIDLVSSIIQRKLRKIKEKESDHGRHMKGFNRLKVREPV 218
             +GV+ A    E +Y +I+ + + ++R+L K++ K     R           E V
Sbjct: 55  TPNGVLVASGKHEDMYTAINELINKLERQLNKLQHKGEAR-RAATSVKDANFVEEV 109

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	320
d2ywqa1	95	Ribosome binding protein Y (YfiA homologue) {Therm	99.94
d1imua_	107	Ribosome binding protein Y (YfiA homologue) {Haemo	99.93
d1l4sa_	112	Ribosome binding protein Y (YfiA homologue) {Esche	99.93

>d2ywqa1 d.204.1.1 (A:1-95) Ribosome binding protein Y (YfiA homologue) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ribosome binding protein Y (YfiA homologue)
superfamily: Ribosome binding protein Y (YfiA homologue)
family: Ribosome binding protein Y (YfiA homologue)
domain: Ribosome binding protein Y (YfiA homologue)
species: Thermus thermophilus [TaxId: 274]

Probab=99.94  E-value=1e-26  Score=183.56  Aligned_cols=94  Identities=26%  Similarity=0.441  Sum_probs=85.0

Q ss_pred             eEE-EEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCH
Q 020905           99 VKL-IIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETV  177 (320)
Q Consensus        99 MkI-~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~  177 (320)
                      |+| +|+|||+++||+|++||++||++ |+||++++..|+|+|+.++++  .++..++||++++++ |..|+|++.++||
T Consensus         1 M~i~~Itgr~~~lt~al~~~ve~kl~k-L~k~~~~i~~~~V~l~~e~~~--~~~~~~~~ei~v~~~-g~~i~a~~~~~d~   76 (95)
T d2ywqa1           1 MNIYKLIGRNLEITDAIRDYVEKKLAR-LDRYQDGELMAKVVLSLAGSP--HVEKKARAEIQVDLP-GGLVRVEEEDADL   76 (95)
T ss_dssp             CEEEEEEEETSCCCHHHHHHHHHHHHG-GGGSCSSCCEEEEEEEECC--------CEEEEEEEEET-TEEEEEEEEESSH
T ss_pred             CceEEEEEECCccCHHHHHHHHHHHHH-HHHhCCCCceEEEEEEEecCC--CCCCcEEEEEEEEeC-CcEEEEEEecCCH
Confidence            898 99999999999999999999999 899999999999999999864  334568999999998 6799999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 020905          178 YASIDLVSSIIQRKLRKIK  196 (320)
Q Consensus       178 YaAID~A~dKLeRQLrK~K  196 (320)
                      |+|||.|+++|+|||||||
T Consensus        77 y~AiD~a~~klerqLrK~K   95 (95)
T d2ywqa1          77 YAAIDRAVDRLETQVKRFR   95 (95)
T ss_dssp             HHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHhhcC
Confidence            9999999999999999997

>d1imua_ d.204.1.1 (A:) Ribosome binding protein Y (YfiA homologue) {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: Ribosome binding protein Y (YfiA homologue)
superfamily: Ribosome binding protein Y (YfiA homologue)
family: Ribosome binding protein Y (YfiA homologue)
domain: Ribosome binding protein Y (YfiA homologue)
species: Haemophilus influenzae [TaxId: 727]

Probab=99.93  E-value=2e-26  Score=185.82  Aligned_cols=97  Identities=22%  Similarity=0.320  Sum_probs=92.0

Q ss_pred             eEEEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHH
Q 020905           99 VKLIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVY  178 (320)
Q Consensus        99 MkI~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~Y  178 (320)
                      |+|+|+|||+++||+|++||++||++ |+||++.+..|+|+|+.+++       .++|||+|+++ |..|+|++.++|+|
T Consensus         1 M~i~i~~r~~~lt~al~~~i~~kl~k-l~k~~~~~~~~~V~l~~e~~-------~~~vei~v~~~-g~~l~a~~~~~d~y   71 (107)
T d1imua_           1 MTLNITSKQMDITPAIREHLEERLAK-LGKWQTQLISPHFVLNKVPN-------GFSVEASIGTP-LGNLLASATSDDMY   71 (107)
T ss_dssp             CCCEECCSSSCCCHHHHHHHHHHHHH-HHTSSCCCSSCEEEEEEETT-------EEEEEEEECCT-TCCEEEEEEESCHH
T ss_pred             CEEEEEEEcCcCCHHHHHHHHHHHHH-HHhhCCCCceEEEEEEEeCC-------cEEEEEEEEeC-CcEEEEEecCCCHH
Confidence            99999999999999999999999999 89999999999999999875       38999999998 57899999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhHhhhccC
Q 020905          179 ASIDLVSSIIQRKLRKIKEKESDHGR  204 (320)
Q Consensus       179 aAID~A~dKLeRQLrK~KeKlk~~~r  204 (320)
                      +|||.|+++|+|||+|+|+|+++|++
T Consensus        72 ~Aid~a~~kl~rqLrk~k~K~~~~~~   97 (107)
T d1imua_          72 KAINEVEEKLERQLNKLQHKSESRRA   97 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCSCCSS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999998854

>d1l4sa_ d.204.1.1 (A:) Ribosome binding protein Y (YfiA homologue) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosome binding protein Y (YfiA homologue)
superfamily: Ribosome binding protein Y (YfiA homologue)
family: Ribosome binding protein Y (YfiA homologue)
domain: Ribosome binding protein Y (YfiA homologue)
species: Escherichia coli [TaxId: 562]

Probab=99.93  E-value=6.3e-26  Score=184.38  Aligned_cols=96  Identities=23%  Similarity=0.356  Sum_probs=90.5

Q ss_pred             EEEEeeecccCHHHHHHHHHHHHHHHhhhCCCceEEEEEEEeecCcCCCCCceeEEEEEEEcCCCceEEEEeeccCHHHH
Q 020905          101 LIIQGKNLELTDTVKNHVEEKVGKAVLKHSHLVREVDVRLSVRGGEFGKGPRIRRCEVTLFTKKHGVVRAEEDAETVYAS  180 (320)
Q Consensus       101 I~ItgRnvelTdaLkeyIeeKl~K~L~Ky~d~I~~a~V~Ls~e~~~~~kg~~~~~vEVtV~~~~g~~IrAee~~~D~YaA  180 (320)
                      |+|+|||+++||+|++||++||++ |+||++.+..|+|+|+++++.       ++|||+|+++ |..|+|++.++|||+|
T Consensus         2 I~It~r~~~lt~al~~~i~~kl~k-l~k~~~~i~~~~V~l~~e~~~-------~~vei~v~~~-g~~i~a~~~~~d~y~A   72 (112)
T d1l4sa_           2 MNITSKQMEITPAIRQHVADRLAK-LEKWQTHLINPHIILSKEPQG-------FVADATINTP-NGVLVASGKHEDMYTA   72 (112)
T ss_dssp             CEEEESSSCCCHHHHHHHHHHHHH-CTTTCSCCCSCEEEEEEETTE-------EEEEEEEEET-TEEEEEEECCSSHHHH
T ss_pred             EEEEEeCCccCHHHHHHHHHHHHH-HHHhcCCCceEEEEEEEcCCc-------EEEEEEEEcC-CCeEEEEeecCCHHHH
Confidence            689999999999999999999999 899999999999999999753       8999999998 6799999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhHhhhccCC
Q 020905          181 IDLVSSIIQRKLRKIKEKESDHGRH  205 (320)
Q Consensus       181 ID~A~dKLeRQLrK~KeKlk~~~r~  205 (320)
                      ||.|+++|+|||+|||+|+++|++.
T Consensus        73 id~a~~klerQLrk~K~K~~~~~~~   97 (112)
T d1l4sa_          73 INELINKLERQLNKLQHKGEARRAA   97 (112)
T ss_dssp             HHHHHHHHHHHHHHHHCCCCCCCCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhccc
Confidence            9999999999999999999988653