Citrus Sinensis ID: 025843

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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-------
Protein Sequence
MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQPPFRS
Secondary Structure (PSIPRED)
cccccccEEcccccccEEEccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHccccccEEEEEcccccccccEEEEEEcccHHHHHHHHHHHHHHHHHHcccccccccccccEEEEEcccEEEEEccccHHccccHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEHHccccccccccccccccccccccccccccccHHHHHccccccccccEEEccccccEEEcccccccHHHEccccccccccccccccHHHHHHHHHHHcccEEEEccccccccccccccHHHHHHHHHHHHHHHHcccccEEEEEcccccEEEEEEEEEEcccHHHHHHHHHHHHHHHHHccccccccccccccEEEEEcccEEEEEEcccHHHHHHHHHHHcccccEEccccccccccc
Coil and Loop (DISEMBL)
MIASATLSLagavsgtrftcefhplgrletklshkprkhvewfcinghhllnckcfwqiprsrnsinfkprdlplhfaygkdaedsslsnvseDTDEMFDNLLNKYGKVVyrrndqkspaaeidddaESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIAtafsrpqiDAIGSRIRDLAEkeygkvpsgdskpnswtlldfgdvvihiflpqqrAFYNLEefygnattielpfenqppfrs
Flexible Loop (DISEMBL)
MIASATLslagavsgtrftCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIatafsrpqiDAIGSRIRDLAEKEYgkvpsgdskpnsWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATtielpfenqppfrs
Low Complexity Region (SEG)
MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQPPFRS
Disordered region (IsUnstruct)
********LAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIPRSRNSINFKPRDLPLHFAY*******************FDNLLNKYGKVVYR*****************LSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLA***************SWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP*********
Disordered Region (DISOPRED)
*****T**LAGAVSGTRFTCEFHPLGRL********RKHVEWFCINGHHLLNCKCFWQIPR************************************MFDNL******************************AVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLA**************NSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIE***********
Disordered Region (DISEMBL)
MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEK**********KPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQPPFRS
Disordered Region (DISPRO)
***SATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRN********I*DDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPF********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQPPFRS
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	247	2.2.26 [Sep-21-2011]
Q9LDY9	238	Protein Iojap, chloroplas	yes	no	0.935	0.970	0.627	2e-78
Q41822	228	Protein Iojap, chloroplas	N/A	no	0.611	0.662	0.649	9e-55
P73658	154	Ribosomal silencing facto	N/A	no	0.388	0.623	0.4	2e-15
Q9KD89	117	Ribosomal silencing facto	yes	no	0.445	0.940	0.333	5e-12
Q97P97	117	Ribosomal silencing facto	yes	no	0.380	0.803	0.360	1e-10
Q5NLX3	133	Ribosomal silencing facto	yes	no	0.279	0.518	0.371	6e-08
Q7P0P8	122	Ribosomal silencing facto	yes	no	0.372	0.754	0.322	4e-07
Q96EH3	234	Mitochondrial assembly of	yes	no	0.380	0.401	0.285	3e-05
P54457	118	Ribosomal silencing facto	yes	no	0.417	0.872	0.326	6e-05
P0AAT8	105	Ribosomal silencing facto	yes	no	0.360	0.847	0.293	7e-05

>sp|Q9LDY9|IOJAC_ARATH Protein Iojap, chloroplastic OS=Arabidopsis thaliana GN=IJ PE=2 SV=1

 Score =  291 bits (746), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 153/244 (62%), Positives = 177/244 (72%), Gaps = 13/244 (5%)

Query: 1   MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWF-CINGHHLLN-CKCFWQ 58
           M +S  L++AGA+    F        RL    S  PRK      C++   L +   C W+
Sbjct: 1   MASSTGLTVAGALLAGDF--------RLPAVSSLIPRKTSSSLSCLSNRDLSSPYNCCWR 52

Query: 59  IPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKS 118
           + R +   +         FA GK+AED  LSNVSEDTDEMFD+L NKYGKVV+R  D KS
Sbjct: 53  LSRGKILTSLSNSR---KFAVGKEAEDGFLSNVSEDTDEMFDDLFNKYGKVVFRSTDVKS 109

Query: 119 PAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIG 178
           P AE+DDDAESL+FAV +A+V SDVKA DIKVLFVKPLVYWT FFIIATAFSRPQIDAIG
Sbjct: 110 PTAEVDDDAESLAFAVELAKVASDVKAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDAIG 169

Query: 179 SRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
           SR+RDLAEK+YGKV +GD KPNSWTLLDFGDVVIH+FLP QR FYNLE+FYGNA  IELP
Sbjct: 170 SRMRDLAEKKYGKVANGDVKPNSWTLLDFGDVVIHLFLPPQRTFYNLEDFYGNAMQIELP 229

Query: 239 FENQ 242
           FE+Q
Sbjct: 230 FEDQ 233

May be a ribosome silencing factor (Potential). Involved in plastid biogenesis.
Arabidopsis thaliana (taxid: 3702)

>sp|Q41822|IOJAP_MAIZE Protein Iojap, chloroplast OS=Zea mays GN=Ij PE=1 SV=1

 Score =  213 bits (543), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 98/151 (64%), Positives = 121/151 (80%)

Query: 92  SEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVL 151
            +D D++ ++LL ++G+VVY       P  E DDDAE LSFAV++A+  S++KA DI+VL
Sbjct: 76  GDDADKLLEDLLKQHGEVVYSSGGPPDPTVEADDDAECLSFAVSLAKAASEIKATDIRVL 135

Query: 152 FVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVV 211
            V+ LVYWT FFII TAFS  QIDAI S++RD+ EK++ KV SGD+KPNSWTLLDFGDVV
Sbjct: 136 CVRRLVYWTRFFIILTAFSNAQIDAISSKMRDIGEKQFSKVASGDTKPNSWTLLDFGDVV 195

Query: 212 IHIFLPQQRAFYNLEEFYGNATTIELPFENQ 242
           +HIFLPQQRAFYNLEEFYGNAT IELPF+ Q
Sbjct: 196 VHIFLPQQRAFYNLEEFYGNATPIELPFDTQ 226

Involved in plastid biogenesis. Plastids affected by the a mutation in Iojap lose the ability to perform translation and lack chloroplast ribosomes.

Zea mays (taxid: 4577)

>sp|P73658|IOJAP_SYNY3 Ribosomal silencing factor RsfS OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=rsfS PE=1 SV=1

 Score = 82.8 bits (203), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 40/100 (40%), Positives = 63/100 (63%), Gaps = 4/100 (4%)

Query: 136 MARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS- 194
           +A+   + KA D+ +L V  + Y   +F+I T FSR Q+ AI   I    E  +G++P+ 
Sbjct: 34  IAQAAEERKAGDLVILKVTDVSYLADYFVICTGFSRTQVRAIADNIEKQVELVHGQLPTH 93

Query: 195 --GDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNA 232
             G+S+ + W L DFGDV++H F+P++R FY LE F+G+A
Sbjct: 94  TEGNSE-SIWVLQDFGDVLVHTFMPEEREFYKLEAFWGHA 132

Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.

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

>sp|Q9KD89|IOJAP_BACHD Ribosomal silencing factor RsfS OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) GN=rsfS PE=1 SV=1

 Score = 71.6 bits (174), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 63/114 (55%), Gaps = 4/114 (3%)

Query: 126 DAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLA 185
           + E L  AV     V D KA  +  L +K +     FF+I    S  Q+ AI   ++ +A
Sbjct: 3   NQELLQLAV---NAVDDKKAEQVVALNMKGISLIADFFLICHGNSEKQVQAIAHELKKVA 59

Query: 186 EKEYGKVPSGDSKPNS-WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
           +++  ++   +    + W L+D GDVV+H+F   +RA+YNLE+ +G+A T+EL 
Sbjct: 60  QEQGIEIKRLEGYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLWGDAPTVELE 113

Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.

Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125) (taxid: 272558)

>sp|Q97P97|IOJAP_STRPN Ribosomal silencing factor RsfS OS=Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) GN=rsfS PE=1 SV=1

 Score = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/97 (36%), Positives = 57/97 (58%), Gaps = 3/97 (3%)

Query: 144 KAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRD-LAEKEY-GKVPSGDSKPNS 201
           +A DI  L V+ L   T + +I ++ +  Q+DAI + IR+ +A+  + G    GD+    
Sbjct: 18  RAEDILALDVQDLTSVTDYLVITSSMNSRQLDAIAANIREKVAQAGFKGSHVEGDA-AGG 76

Query: 202 WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
           W LLD G VV+HIF  + RA YNLE+ +  A ++++ 
Sbjct: 77  WVLLDLGAVVVHIFSEEMRAHYNLEKLWHEANSVDIS 113

Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.

Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4) (taxid: 170187)

>sp|Q5NLX3|IOJAP_ZYMMO Ribosomal silencing factor RsfS OS=Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4) GN=rsfS PE=1 SV=1

 Score = 58.2 bits (139), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 42/70 (60%), Gaps = 1/70 (1%)

Query: 162 FFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNS-WTLLDFGDVVIHIFLPQQR 220
           + +IA+  S  Q+ A+  ++ D  +   G V   +  P + W LLD GD++IH+F P+ R
Sbjct: 49  YMVIASGRSSRQVTAMAQKLADRIKAATGYVSKIEGLPAADWVLLDAGDIIIHLFRPEVR 108

Query: 221 AFYNLEEFYG 230
           +FYNLE  +G
Sbjct: 109 SFYNLERMWG 118

Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.

Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4) (taxid: 264203)

>sp|Q7P0P8|IOJAP_CHRVO Ribosomal silencing factor RsfS OS=Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 / NCTC 9757) GN=rsfS PE=1 SV=1

 Score = 55.1 bits (131), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 30/93 (32%), Positives = 46/93 (49%), Gaps = 1/93 (1%)

Query: 140 VSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIR-DLAEKEYGKVPSGDSK 198
           + D+K  DI  L    L       I+AT  S  Q+ A+ + ++  L E     V S   +
Sbjct: 14  LEDIKGKDIIELDTSKLTSLFQRMIVATGDSNRQVKALANSVQVKLKEAGVDIVGSEGHE 73

Query: 199 PNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGN 231
              W L+D GDVV+H+ LP  R +Y++E  +G 
Sbjct: 74  SGEWVLVDAGDVVVHVMLPAVRDYYDIEALWGG 106

Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.

Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 / NCTC 9757) (taxid: 243365)

>sp|Q96EH3|MASU1_HUMAN Mitochondrial assembly of ribosomal large subunit protein 1 OS=Homo sapiens GN=MALSU1 PE=1 SV=1

 Score = 49.3 bits (116), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 47/98 (47%), Gaps = 4/98 (4%)

Query: 136 MARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRI----RDLAEKEYGK 191
           M  ++    A DI V+ V P + +T +F+I +  S   + A+   +    + L  K    
Sbjct: 97  MVSLLRQENARDICVIQVPPEMRYTDYFVIVSGTSTRHLHAMAFYVVKMYKHLKCKRDPH 156

Query: 192 VPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFY 229
           V       + W  +DFG +VIH+ LP+ R  Y LE+ +
Sbjct: 157 VKIEGKDTDDWLCVDFGSMVIHLMLPETREIYELEKLW 194

Participates in the assembly and/or regulation of the stability of the large subunit of the mitochondrial ribosome.

Homo sapiens (taxid: 9606)

>sp|P54457|IOJAP_BACSU Ribosomal silencing factor RsfS OS=Bacillus subtilis (strain 168) GN=rsfS PE=3 SV=1

 Score = 48.1 bits (113), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 34/104 (32%), Positives = 56/104 (53%), Gaps = 1/104 (0%)

Query: 137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGD 196
           A    D +A DI  L ++ +     +F+I    S  Q+ AI   I+D A++   +V   +
Sbjct: 11  AAACDDKRAEDILALDMEGISLVADYFLICHGNSDKQVQAIAREIKDQADENGIQVKKME 70

Query: 197 S-KPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPF 239
                 W L+D GDVV+H+F   +R++YNLE+ +G+A   +L F
Sbjct: 71  GFDEARWVLVDLGDVVVHVFHKDERSYYNLEKLWGDAPLADLDF 114

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|P0AAT8|IOJAP_SHIFL Ribosomal silencing factor RsfS OS=Shigella flexneri GN=rsfS PE=3 SV=1

 Score = 47.8 bits (112), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 27/92 (29%), Positives = 43/92 (46%), Gaps = 3/92 (3%)

Query: 140 VSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKP 199
           + D+K  DI  L V+     T   II T  S   + +I   +     +  G +P G    
Sbjct: 14  IDDLKGQDIIALDVQGKSSITDCMIICTGTSSRHVMSIADHVVQ-ESRAAGLLPLGVEGE 72

Query: 200 NS--WTLLDFGDVVIHIFLPQQRAFYNLEEFY 229
           NS  W ++D GDV++H+   + R  Y LE+ +
Sbjct: 73  NSADWIVVDLGDVIVHVMQEESRRLYELEKLW 104

Shigella flexneri (taxid: 623)

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	247
449460046	244	PREDICTED: protein Iojap, chloroplastic-	0.987	1.0	0.661	4e-86
449530871	244	PREDICTED: protein Iojap, chloroplastic-	0.987	1.0	0.657	1e-85
357451847	249	IojAP protein-like protein [Medicago tru	0.955	0.947	0.657	1e-84
356525784	240	PREDICTED: protein Iojap-like [Glycine m	0.923	0.95	0.659	3e-83
351725117	240	uncharacterized protein LOC100306104 [Gl	0.939	0.966	0.653	1e-82
21593503	238	putative iojap protein [Arabidopsis thal	0.935	0.970	0.631	3e-77
297829830	229	hypothetical protein ARALYDRAFT_897503 [	0.850	0.917	0.687	1e-76
18399794	238	Lojap-related protein [Arabidopsis thali	0.935	0.970	0.627	1e-76
225462172	219	PREDICTED: protein Iojap [Vitis vinifera	0.615	0.694	0.861	1e-71
224115386	150	predicted protein [Populus trichocarpa]	0.599	0.986	0.864	4e-70

>gi|449460046|ref|XP_004147757.1| PREDICTED: protein Iojap, chloroplastic-like [Cucumis sativus]

 Score =  323 bits (828), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 162/245 (66%), Positives = 188/245 (76%), Gaps = 1/245 (0%)

Query: 1   MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIP 60
           M  S TLSL GA +GT F  E   LG     +  +PRK +   C NG       C W++P
Sbjct: 1   MALSTTLSLHGAGAGTLFGAELRQLGHDYFGVFKRPRKQIFCSCWNGSPFPYRNCLWRVP 60

Query: 61  RSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPA 120
            S N+ + K  +    FA G +AED  LSN++++TD+M+D L  KYG VV++ NDQK P+
Sbjct: 61  -SVNNFHLKSMESSPLFAVGGEAEDGFLSNMNDETDDMYDELFKKYGNVVFKSNDQKPPS 119

Query: 121 AEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSR 180
           AEIDDD+ESLSFAV+MA+V SDVKAADI+VLFVKPLVYWT FFIIATAFSRPQIDAIGSR
Sbjct: 120 AEIDDDSESLSFAVSMAKVASDVKAADIRVLFVKPLVYWTRFFIIATAFSRPQIDAIGSR 179

Query: 181 IRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFE 240
           IRDLAEK+YG+ PSGD KPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNAT +ELPFE
Sbjct: 180 IRDLAEKKYGRSPSGDVKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATPVELPFE 239

Query: 241 NQPPF 245
           NQ PF
Sbjct: 240 NQRPF 244

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449530871|ref|XP_004172415.1| PREDICTED: protein Iojap, chloroplastic-like [Cucumis sativus]

 Score =  322 bits (824), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 161/245 (65%), Positives = 188/245 (76%), Gaps = 1/245 (0%)

Query: 1   MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIP 60
           M  S TLSL GA +GT F  E   LG     +  +PRK +   C NG       C W++P
Sbjct: 1   MALSTTLSLHGAGAGTLFGAELRQLGHDYFGVFKRPRKQIFCSCWNGSPFPYRNCLWRVP 60

Query: 61  RSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPA 120
            S N+ + K  +    FA G +AED  LSN++++TD+M+D L  KYG VV++ NDQK P+
Sbjct: 61  -SVNNFHLKSMESSPLFAVGGEAEDGFLSNMNDETDDMYDELFKKYGNVVFKSNDQKPPS 119

Query: 121 AEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSR 180
           AEID+D+ESLSFAV+MA+V SDVKAADI+VLFVKPLVYWT FFIIATAFSRPQIDAIGSR
Sbjct: 120 AEIDNDSESLSFAVSMAKVASDVKAADIRVLFVKPLVYWTRFFIIATAFSRPQIDAIGSR 179

Query: 181 IRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFE 240
           IRDLAEK+YG+ PSGD KPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNAT +ELPFE
Sbjct: 180 IRDLAEKKYGRSPSGDVKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATPVELPFE 239

Query: 241 NQPPF 245
           NQ PF
Sbjct: 240 NQRPF 244

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357451847|ref|XP_003596200.1| IojAP protein-like protein [Medicago truncatula] gi|355485248|gb|AES66451.1| IojAP protein-like protein [Medicago truncatula]

 Score =  318 bits (815), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 163/248 (65%), Positives = 191/248 (77%), Gaps = 12/248 (4%)

Query: 1   MIASATL-SLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQI 59
           MI S+TL SLAGA +   F+ E   +G  +T  S KPRK    FC     L         
Sbjct: 1   MIPSSTLLSLAGAFAPVSFSGE---MGHPQTNSSSKPRKVFTSFCKKALPLQR------- 50

Query: 60  PRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSP 119
             S NS+N K R+  L FA+GK+A D+S S+V EDTD+M+D LL+ YG+VVY+R DQK  
Sbjct: 51  -HSINSLNLKRRNSLLSFAFGKEANDNSFSDVGEDTDDMYDELLSNYGQVVYKRKDQKPA 109

Query: 120 AAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGS 179
           +AEIDDD+ESLSFAV +A V S+VKA DIKVLFVKPLVYWT FFIIATAFSRPQIDAIGS
Sbjct: 110 SAEIDDDSESLSFAVELATVASEVKAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDAIGS 169

Query: 180 RIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPF 239
           RIRD AEK+YGK+P+GD KPNSWTLLDFGDVV+H+FLP QRAFYNLEEFYGNAT++ELPF
Sbjct: 170 RIRDRAEKKYGKIPNGDLKPNSWTLLDFGDVVVHLFLPPQRAFYNLEEFYGNATSVELPF 229

Query: 240 ENQPPFRS 247
           ENQPPFR+
Sbjct: 230 ENQPPFRN 237

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356525784|ref|XP_003531503.1| PREDICTED: protein Iojap-like [Glycine max]

 Score =  313 bits (803), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 163/247 (65%), Positives = 186/247 (75%), Gaps = 19/247 (7%)

Query: 3   ASATLSLAGAVSGT--RFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQIP 60
           +S  LSLAG  +G    F+ E   LG LETK S +PRK     CI G           IP
Sbjct: 4   SSTVLSLAGTRAGVPVSFSGE---LGHLETKFSSRPRKVFSRSCIKG-----------IP 49

Query: 61  RSRNSIN---FKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQK 117
             +N+IN    K R+    FA+GK AEDS  S+V+ DTDEM+D L+N YGKVV+ R D+K
Sbjct: 50  LQQNTINGLNSKNRNSLSSFAFGKKAEDSFFSDVNGDTDEMYDELINNYGKVVFSRKDKK 109

Query: 118 SPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAI 177
             +AEIDDDAESLSFAV +A V S+VKA DIKVLFVKPLVYWT FFIIATAFSRPQIDAI
Sbjct: 110 PASAEIDDDAESLSFAVELATVASEVKAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDAI 169

Query: 178 GSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIEL 237
           GSRIRD AEK+YGK+P+GD+KPNSWTLLDFGDVV+HIFLP QRAFYNLEEFYGNAT +EL
Sbjct: 170 GSRIRDRAEKKYGKIPTGDTKPNSWTLLDFGDVVVHIFLPSQRAFYNLEEFYGNATQVEL 229

Query: 238 PFENQPP 244
           PFENQPP
Sbjct: 230 PFENQPP 236

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725117|ref|NP_001237593.1| uncharacterized protein LOC100306104 [Glycine max] gi|255627563|gb|ACU14126.1| unknown [Glycine max]

 Score =  311 bits (798), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 162/248 (65%), Positives = 188/248 (75%), Gaps = 16/248 (6%)

Query: 1   MIASAT-LSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWFCINGHHLLNCKCFWQI 59
           M+ S+T LSLAG  +G   +     LG LETK S +PRK     CI G           +
Sbjct: 1   MLPSSTVLSLAGTGAGVPVSFS-GKLGHLETKFSPRPRKVFSRSCIKG-----------L 48

Query: 60  PRSRNSIN---FKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQ 116
           P  +N++N    K R+    FA GK+AEDS LS+V+ DTDEM+D L+N YGKVV+ R D+
Sbjct: 49  PLQQNTVNGLKSKKRNTHSSFALGKNAEDSFLSDVNGDTDEMYDELINNYGKVVFSRKDK 108

Query: 117 KSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDA 176
           K  +AEIDDDAESLSFAV +A V S+VKA DIKVLFVKPLVYWT FFIIATAFSRPQIDA
Sbjct: 109 KPASAEIDDDAESLSFAVELATVASEVKAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDA 168

Query: 177 IGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIE 236
           IGSRIRD AEK+YGK+P+GD+KPNSWTLLDFGDVV+HIFLP QRAFYNLEEFYGNAT +E
Sbjct: 169 IGSRIRDRAEKKYGKIPTGDTKPNSWTLLDFGDVVVHIFLPAQRAFYNLEEFYGNATPVE 228

Query: 237 LPFENQPP 244
           LPFENQPP
Sbjct: 229 LPFENQPP 236

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21593503|gb|AAM65470.1| putative iojap protein [Arabidopsis thaliana]

 Score =  293 bits (751), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 154/244 (63%), Positives = 178/244 (72%), Gaps = 13/244 (5%)

Query: 1   MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWF-CINGHHLLN-CKCFWQ 58
           M +S  L++AGA+    F        RL   LS  PRK      C++   L +   C W+
Sbjct: 1   MASSTGLTVAGALLSGDF--------RLPAILSLIPRKTSSSLSCLSNRDLSSPYNCCWR 52

Query: 59  IPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKS 118
           + R +   +         FA GK+AED  LSNVSEDTDEMFD+L NKYGKVV+R  D KS
Sbjct: 53  LSRGKILTSLSNSR---KFAVGKEAEDGFLSNVSEDTDEMFDDLFNKYGKVVFRSTDVKS 109

Query: 119 PAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIG 178
           P AE+DDDAESL+FAV +A+V SDVKA DIKVLFVKPLVYWT FFIIATAFSRPQIDAIG
Sbjct: 110 PTAEVDDDAESLAFAVELAKVASDVKAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDAIG 169

Query: 179 SRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
           SR+RDLAEK+YGKV +GD KPNSWTLLDFGDVVIH+FLP QR FYNLE+FYGNA  IELP
Sbjct: 170 SRMRDLAEKKYGKVANGDVKPNSWTLLDFGDVVIHLFLPPQRTFYNLEDFYGNAMQIELP 229

Query: 239 FENQ 242
           FE+Q
Sbjct: 230 FEDQ 233

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297829830|ref|XP_002882797.1| hypothetical protein ARALYDRAFT_897503 [Arabidopsis lyrata subsp. lyrata] gi|297328637|gb|EFH59056.1| hypothetical protein ARALYDRAFT_897503 [Arabidopsis lyrata subsp. lyrata]

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 152/221 (68%), Positives = 170/221 (76%), Gaps = 11/221 (4%)

Query: 27  RLETKLSHKPRKHVEWF-CINGHHLLNCKCFWQIPRSR--NSINFKPRDLPLHFAYGKDA 83
           RL    S  PRK      C+N        C W++ R R   S++ K R L    A GK+A
Sbjct: 14  RLPAISSLIPRKTSSSLSCLNNRAY---NCCWRLSRGRILTSVS-KSRRL----AVGKEA 65

Query: 84  EDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDV 143
           ED  LSNVSEDTDEMFD+L NKYGKVV+R ND KSP AE+DDDAESL+FAV +A+V SDV
Sbjct: 66  EDGFLSNVSEDTDEMFDDLFNKYGKVVFRSNDIKSPTAEVDDDAESLAFAVELAKVASDV 125

Query: 144 KAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWT 203
           KA DIKVLFVKPLVYWT FFIIATAFSRPQIDAIGSR+RDLAEK+YGKV +GD KPNSWT
Sbjct: 126 KAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDAIGSRMRDLAEKKYGKVANGDVKPNSWT 185

Query: 204 LLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQPP 244
           LLDFGDVVIH+FLP QR FYNLE+FYGNA  IELPFE+Q P
Sbjct: 186 LLDFGDVVIHLFLPPQRTFYNLEDFYGNAMQIELPFEDQSP 226

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18399794|ref|NP_566439.1| Lojap-related protein [Arabidopsis thaliana] gi|75273160|sp|Q9LDY9.1|IOJAC_ARATH RecName: Full=Protein Iojap, chloroplastic; Flags: Precursor gi|15795122|dbj|BAB02500.1| IojAP protein-like [Arabidopsis thaliana] gi|22655076|gb|AAM98129.1| expressed protein [Arabidopsis thaliana] gi|27311971|gb|AAO00951.1| expressed protein [Arabidopsis thaliana] gi|332641742|gb|AEE75263.1| Lojap-related protein [Arabidopsis thaliana]

 Score =  291 bits (746), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 153/244 (62%), Positives = 177/244 (72%), Gaps = 13/244 (5%)

Query: 1   MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWF-CINGHHLLN-CKCFWQ 58
           M +S  L++AGA+    F        RL    S  PRK      C++   L +   C W+
Sbjct: 1   MASSTGLTVAGALLAGDF--------RLPAVSSLIPRKTSSSLSCLSNRDLSSPYNCCWR 52

Query: 59  IPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKS 118
           + R +   +         FA GK+AED  LSNVSEDTDEMFD+L NKYGKVV+R  D KS
Sbjct: 53  LSRGKILTSLSNSR---KFAVGKEAEDGFLSNVSEDTDEMFDDLFNKYGKVVFRSTDVKS 109

Query: 119 PAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIG 178
           P AE+DDDAESL+FAV +A+V SDVKA DIKVLFVKPLVYWT FFIIATAFSRPQIDAIG
Sbjct: 110 PTAEVDDDAESLAFAVELAKVASDVKAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDAIG 169

Query: 179 SRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
           SR+RDLAEK+YGKV +GD KPNSWTLLDFGDVVIH+FLP QR FYNLE+FYGNA  IELP
Sbjct: 170 SRMRDLAEKKYGKVANGDVKPNSWTLLDFGDVVIHLFLPPQRTFYNLEDFYGNAMQIELP 229

Query: 239 FENQ 242
           FE+Q
Sbjct: 230 FEDQ 233

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462172|ref|XP_002267512.1| PREDICTED: protein Iojap [Vitis vinifera] gi|296082765|emb|CBI21770.3| unnamed protein product [Vitis vinifera]

 Score =  275 bits (703), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 131/152 (86%), Positives = 141/152 (92%)

Query: 90  NVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIK 149
           NVSEDTD+M+D L  KYGKVV RR D+K  +AE+DDDAESL+FAVA+A+V SDVKAADI+
Sbjct: 68  NVSEDTDDMYDELFEKYGKVVLRRGDKKPHSAEVDDDAESLAFAVALAKVASDVKAADIR 127

Query: 150 VLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGD 209
           VLFVKPLVYWT FFIIATAFSRPQIDAIGSRIRDLAEK+YGKVPSGDSKPNSWTLLDFGD
Sbjct: 128 VLFVKPLVYWTRFFIIATAFSRPQIDAIGSRIRDLAEKQYGKVPSGDSKPNSWTLLDFGD 187

Query: 210 VVIHIFLPQQRAFYNLEEFYGNATTIELPFEN 241
           VVIHIFLPQQRAFYNLEEFY NAT IELPFEN
Sbjct: 188 VVIHIFLPQQRAFYNLEEFYANATLIELPFEN 219

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115386|ref|XP_002317019.1| predicted protein [Populus trichocarpa] gi|118484473|gb|ABK94112.1| unknown [Populus trichocarpa] gi|222860084|gb|EEE97631.1| predicted protein [Populus trichocarpa]

 Score =  270 bits (690), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 128/148 (86%), Positives = 137/148 (92%)

Query: 98  MFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLV 157
           MFD+L NKYGKVV+R ND K P AE+DDDAESLSFAV MA+V SDVKA+DI+VLFVKPLV
Sbjct: 1   MFDDLFNKYGKVVFRSNDNKPPTAEVDDDAESLSFAVEMAKVASDVKASDIRVLFVKPLV 60

Query: 158 YWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLP 217
           YWT FFIIATAFSRPQIDAI SR+RDLAEK+YGKVPSGD+KPNSWTLLDFGDVVIHIFLP
Sbjct: 61  YWTRFFIIATAFSRPQIDAINSRMRDLAEKKYGKVPSGDTKPNSWTLLDFGDVVIHIFLP 120

Query: 218 QQRAFYNLEEFYGNATTIELPFENQPPF 245
            QRAFYNLEEFYGNAT IELPFENQPPF
Sbjct: 121 PQRAFYNLEEFYGNATPIELPFENQPPF 148

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	247
TAIR|locus:2089235	238	AT3G12930 [Arabidopsis thalian	0.935	0.970	0.627	1.4e-71
UNIPROTKB|Q747Q6	131	GSU3209 "Uncharacterized prote	0.445	0.839	0.321	3.1e-12
TIGR_CMR|GSU_3209	131	GSU_3209 "iojap-related protei	0.445	0.839	0.321	3.1e-12
UNIPROTKB|Q97P97	117	rsfS "Ribosomal silencing fact	0.408	0.863	0.336	8.2e-12
UNIPROTKB|Q3Z9G1	114	DET0393 "Iojap-like protein" [	0.421	0.912	0.336	1.3e-11
TIGR_CMR|DET_0393	114	DET_0393 "iojap protein, homol	0.421	0.912	0.336	1.3e-11
UNIPROTKB|Q71ZI4	118	LMOf2365_1505 "Iojap-related p	0.408	0.855	0.323	2.3e-11
UNIPROTKB|Q0C5G0	80	HNE_0303 "Iojap homolog" [Hyph	0.267	0.825	0.402	2.4e-09
UNIPROTKB|Q3AF31	120	CHY_0391 "Iojap protein, homol	0.392	0.808	0.326	7e-09
TIGR_CMR|CHY_0391	120	CHY_0391 "iojap protein, homol	0.392	0.808	0.326	7e-09

TAIR|locus:2089235 AT3G12930 [Arabidopsis thaliana (taxid:3702)]

 Score = 724 (259.9 bits), Expect = 1.4e-71, P = 1.4e-71
 Identities = 153/244 (62%), Positives = 177/244 (72%)

Query:     1 MIASATLSLAGAVSGTRFTCEFHPLGRLETKLSHKPRKHVEWF-CINGHHLLN-CKCFWQ 58
             M +S  L++AGA+    F        RL    S  PRK      C++   L +   C W+
Sbjct:     1 MASSTGLTVAGALLAGDF--------RLPAVSSLIPRKTSSSLSCLSNRDLSSPYNCCWR 52

Query:    59 IPRSRNSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNKYGKVVYRRNDQKS 118
             + R +   +         FA GK+AED  LSNVSEDTDEMFD+L NKYGKVV+R  D KS
Sbjct:    53 LSRGKILTSLSNSR---KFAVGKEAEDGFLSNVSEDTDEMFDDLFNKYGKVVFRSTDVKS 109

Query:   119 PAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIG 178
             P AE+DDDAESL+FAV +A+V SDVKA DIKVLFVKPLVYWT FFIIATAFSRPQIDAIG
Sbjct:   110 PTAEVDDDAESLAFAVELAKVASDVKAGDIKVLFVKPLVYWTRFFIIATAFSRPQIDAIG 169

Query:   179 SRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
             SR+RDLAEK+YGKV +GD KPNSWTLLDFGDVVIH+FLP QR FYNLE+FYGNA  IELP
Sbjct:   170 SRMRDLAEKKYGKVANGDVKPNSWTLLDFGDVVIHLFLPPQRTFYNLEDFYGNAMQIELP 229

Query:   239 FENQ 242
             FE+Q
Sbjct:   230 FEDQ 233

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0009073 "aromatic amino acid family biosynthetic process" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

UNIPROTKB|Q747Q6 GSU3209 "Uncharacterized protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 36/112 (32%), Positives = 62/112 (55%)

Query:   130 LSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEY 189
             L  A+  AR   D KA D+KVL +  +     + ++AT  S  Q  AI   ++    K+Y
Sbjct:    10 LERALQCARFALDKKALDVKVLEIGRISSIADYLVLATGRSDKQAQAIADSVKK-GLKKY 68

Query:   190 GKVPSGDS-KPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFE 240
             GKV   +  +  +W ++D+GDV++HIF  + R++Y+L+  +  A  + +P E
Sbjct:    69 GKVIDMEGLREGNWIVIDYGDVIVHIFREELRSYYDLDGLWSAAGQVAIPAE 120

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|GSU_3209 GSU_3209 "iojap-related protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 36/112 (32%), Positives = 62/112 (55%)

Query:   130 LSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEY 189
             L  A+  AR   D KA D+KVL +  +     + ++AT  S  Q  AI   ++    K+Y
Sbjct:    10 LERALQCARFALDKKALDVKVLEIGRISSIADYLVLATGRSDKQAQAIADSVKK-GLKKY 68

Query:   190 GKVPSGDS-KPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFE 240
             GKV   +  +  +W ++D+GDV++HIF  + R++Y+L+  +  A  + +P E
Sbjct:    69 GKVIDMEGLREGNWIVIDYGDVIVHIFREELRSYYDLDGLWSAAGQVAIPAE 120

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q97P97 rsfS "Ribosomal silencing factor RsfS" [Streptococcus pneumoniae TIGR4 (taxid:170187)]

 Score = 160 (61.4 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 35/104 (33%), Positives = 60/104 (57%)

Query:   136 MARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRD-LAEKEY-GKVP 193
             + +   + +A DI  L V+ L   T + +I ++ +  Q+DAI + IR+ +A+  + G   
Sbjct:    10 VVKAADEKRAEDILALDVQDLTSVTDYLVITSSMNSRQLDAIAANIREKVAQAGFKGSHV 69

Query:   194 SGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIEL 237
              GD+    W LLD G VV+HIF  + RA YNLE+ +  A ++++
Sbjct:    70 EGDAA-GGWVLLDLGAVVVHIFSEEMRAHYNLEKLWHEANSVDI 112

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q3Z9G1 DET0393 "Iojap-like protein" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 158 (60.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 36/107 (33%), Positives = 60/107 (56%)

Query:   128 ESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRI-RDLAE 186
             ES+  A  M  + S+ +A DI +L V+ LV +  +F++ +  S  Q+ AI   + +    
Sbjct:     2 ESIDIARQMVSIASEKQAEDIVLLDVRELVSYCDYFVLMSGASGRQLSAIADTVEKTFKP 61

Query:   187 KEYG-KVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNA 232
              + G +   GD+  + W LLDFG V+ HIF P+ R++Y L+  + NA
Sbjct:    62 LKIGPRHREGDAD-SGWILLDFGGVIAHIFTPEIRSYYKLDRLWENA 107

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|DET_0393 DET_0393 "iojap protein, homolog" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 158 (60.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 36/107 (33%), Positives = 60/107 (56%)

Query:   128 ESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRI-RDLAE 186
             ES+  A  M  + S+ +A DI +L V+ LV +  +F++ +  S  Q+ AI   + +    
Sbjct:     2 ESIDIARQMVSIASEKQAEDIVLLDVRELVSYCDYFVLMSGASGRQLSAIADTVEKTFKP 61

Query:   187 KEYG-KVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNA 232
              + G +   GD+  + W LLDFG V+ HIF P+ R++Y L+  + NA
Sbjct:    62 LKIGPRHREGDAD-SGWILLDFGGVIAHIFTPEIRSYYKLDRLWENA 107

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q71ZI4 LMOf2365_1505 "Iojap-related protein" [Listeria monocytogenes serotype 4b str. F2365 (taxid:265669)]

 Score = 156 (60.0 bits), Expect = 2.3e-11, P = 2.3e-11
 Identities = 33/102 (32%), Positives = 57/102 (55%)

Query:   137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGD 196
             A+   D +A DI  L +K L  +  +F+I    S  Q+ AI   I++ A +    V   +
Sbjct:    11 AKAADDKRAEDILALDMKGLSSFADYFVICHGNSDKQVQAIAREIKEKALENQVDVKRLE 70

Query:   197 S-KPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIEL 237
                   W L+D GDV+IH+F  ++R++YNLE+ +G+A  +++
Sbjct:    71 GFDAAKWILIDLGDVIIHVFHKEERSYYNLEKLWGDAPLVDV 112

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q0C5G0 HNE_0303 "Iojap homolog" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]

 Score = 139 (54.0 bits), Expect = 2.4e-09, P = 2.4e-09
 Identities = 27/67 (40%), Positives = 42/67 (62%)

Query:   164 IIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNS-WTLLDFGDVVIHIFLPQQRAF 222
             IIA+  S   + A+ S +    +K  G+ PS +  PN+ W L+D GDV++H+F P+ R F
Sbjct:     2 IIASGRSGRHVAALASSVAQEVKKITGRSPSVEGMPNADWVLIDAGDVIVHLFRPEVREF 61

Query:   223 YNLEEFY 229
             YNLE+ +
Sbjct:    62 YNLEKIW 68

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q3AF31 CHY_0391 "Iojap protein, homolog" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 135 (52.6 bits), Expect = 7.0e-09, P = 7.0e-09
 Identities = 33/101 (32%), Positives = 54/101 (53%)

Query:   134 VAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVP 193
             +AM   + D K  ++ +L V  L     +F+I +A S  Q+ AI   I +    E G  P
Sbjct:    11 IAMDAAL-DKKGFNLSLLDVSSLTPICDYFLIVSASSTIQVKAIVDNIEEKLS-EIGLTP 68

Query:   194 SGDSKPNS--WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNA 232
                   N+  W L+D+GD+V+H+F+ ++R FY+LE  +  A
Sbjct:    69 YRIEGKNAARWVLMDYGDLVVHVFVEEEREFYDLERLWRTA 109

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|CHY_0391 CHY_0391 "iojap protein, homolog" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 135 (52.6 bits), Expect = 7.0e-09, P = 7.0e-09
 Identities = 33/101 (32%), Positives = 54/101 (53%)

Query:   134 VAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVP 193
             +AM   + D K  ++ +L V  L     +F+I +A S  Q+ AI   I +    E G  P
Sbjct:    11 IAMDAAL-DKKGFNLSLLDVSSLTPICDYFLIVSASSTIQVKAIVDNIEEKLS-EIGLTP 68

Query:   194 SGDSKPNS--WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNA 232
                   N+  W L+D+GD+V+H+F+ ++R FY+LE  +  A
Sbjct:    69 YRIEGKNAARWVLMDYGDLVVHVFVEEEREFYDLERLWRTA 109

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)
Q9LDY9	IOJAC_ARATH	No assigned EC number	0.6270	0.9352	0.9705	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	scaffold_301473.1	annotation not avaliable (229 aa)
		(Arabidopsis lyrata)
Predicted Functional Partners:
	fgenesh2_kg.6__1874__AT5G18570.1	annotation not avaliable (681 aa)	•			•					0.709
	fgenesh2_kg.1__3647__AT1G35680.1	annotation not avaliable (215 aa)	•			•					0.690
	Al_scaffold_0004_707	annotation not avaliable (411 aa)	•			•					0.477
	fgenesh2_kg.7__3313__AT5G40950.1	annotation not avaliable (198 aa)	•			•					0.474
	fgenesh2_kg.8__1423__AT5G55220.1	annotation not avaliable (551 aa)				•					0.461
	fgenesh1_pm.C_scaffold_3001496	annotation not avaliable (313 aa)				•					0.459
	fgenesh2_kg.6__1115__AT5G11450.1	annotation not avaliable (297 aa)				•					0.457
	fgenesh2_kg.6__1501__AT5G15220.1	annotation not avaliable (154 aa)	•								0.455
	scaffold_802413.1	annotation not avaliable (210 aa)				•					0.450
	fgenesh2_kg.7__1610__AT4G26370.1	annotation not avaliable (300 aa)				•					0.448

---

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	247
pfam02410	99	pfam02410, Oligomerisation, Oligomerisation domain	3e-28
COG0799	115	COG0799, COG0799, Uncharacterized homolog of plant	7e-26
TIGR00090	99	TIGR00090, iojap_ybeB, iojap-like ribosome-associa	4e-24
PRK11538	105	PRK11538, PRK11538, ribosome-associated protein; P	9e-06

>gnl|CDD|217021 pfam02410, Oligomerisation, Oligomerisation domain

 Score =  102 bits (257), Expect = 3e-28
 Identities = 33/94 (35%), Positives = 49/94 (52%), Gaps = 1/94 (1%)

Query: 137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGD 196
            + + D KA DI VL V        +F+IAT  S   + AI   + +  ++   K    +
Sbjct: 6   VKALDDKKAEDIVVLDVSKKSSIADYFVIATGTSTRHVKAIADNVEEELKEAGLKPLGVE 65

Query: 197 SKPNS-WTLLDFGDVVIHIFLPQQRAFYNLEEFY 229
                 W LLD+GDVV+HIF P+ R FY+LE+ +
Sbjct: 66  GLDEGDWVLLDYGDVVVHIFTPEAREFYDLEKLW 99

In yeasts, this domain is required for the oligomerisation of ATP synthase subunit 9 into a ring structure. Length = 99

>gnl|CDD|223870 COG0799, COG0799, Uncharacterized homolog of plant Iojap protein [Function unknown]

 Score = 97.3 bits (243), Expect = 7e-26
 Identities = 39/114 (34%), Positives = 61/114 (53%), Gaps = 7/114 (6%)

Query: 131 SFAVAMARVV----SDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAE 186
                +  V+     D KA DI VL V      T +F+IAT  S   + AI   +++   
Sbjct: 1   MSMEELLEVIVEALDDKKAEDIVVLDVSGKSSLTDYFVIATGNSSRHVKAIADNVKEEL- 59

Query: 187 KEYGKVPSGDSKPNS--WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
           KE G+VP      +   W L+D GD+V+H+F P++R FYNLE+ +G+A  +++ 
Sbjct: 60  KEAGEVPLRIEGLSEGEWVLIDLGDIVVHVFTPEEREFYNLEKLWGDAPVVDVD 113

Length = 115

>gnl|CDD|161702 TIGR00090, iojap_ybeB, iojap-like ribosome-associated protein

 Score = 92.1 bits (230), Expect = 4e-24
 Identities = 35/95 (36%), Positives = 50/95 (52%), Gaps = 3/95 (3%)

Query: 137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSG- 195
              + D KA DI VL V+       +F+IA+  S   + AI   + +   KE G  P G 
Sbjct: 6   VEALDDKKAEDIVVLDVRGKSSIADYFVIASGTSSRHVKAIADNVEEEL-KEAGLKPLGV 64

Query: 196 DSKPNS-WTLLDFGDVVIHIFLPQQRAFYNLEEFY 229
           +      W L+D GDVV+HIF P+ R FY+LE+ +
Sbjct: 65  EGLEEGDWVLVDLGDVVVHIFQPEAREFYDLEKLW 99

This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown [Unknown function, General]. Length = 99

>gnl|CDD|183184 PRK11538, PRK11538, ribosome-associated protein; Provisional

 Score = 43.2 bits (102), Expect = 9e-06
 Identities = 26/93 (27%), Positives = 43/93 (46%), Gaps = 3/93 (3%)

Query: 140 VSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKP 199
           + D+K  DI  L V+     T   II T  S   + +I   +     +  G +P G    
Sbjct: 14  IDDLKGQDIIALDVQGKSSITDCMIICTGTSSRHVMSIADHVVQ-ESRAAGLLPLGVEGE 72

Query: 200 NS--WTLLDFGDVVIHIFLPQQRAFYNLEEFYG 230
           N+  W ++D GDV++H+   + R  Y LE+ + 
Sbjct: 73  NAADWIVVDLGDVIVHVMQEESRRLYELEKLWS 105

Length = 105

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	247
COG0799	115	Uncharacterized homolog of plant Iojap protein [Fu	100.0
PRK11538	105	ribosome-associated protein; Provisional	100.0
TIGR00090	99	iojap_ybeB iojap-like ribosome-associated protein.	100.0
PF02410	100	Oligomerisation: Oligomerisation domain; InterPro:	100.0
KOG3212	208	consensus Uncharacterized conserved protein relate	99.93

>COG0799 Uncharacterized homolog of plant Iojap protein [Function unknown]

Probab=100.00  E-value=7.3e-39  Score=260.13  Aligned_cols=110  Identities=33%  Similarity=0.615  Sum_probs=101.0

Q ss_pred             hhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEE
Q 025843          128 ESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLL  205 (247)
Q Consensus       128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLl  205 (247)
                      +..++++.++++|+|+||+||++|||++++++|||||||||+|.||++|||++|.+.+|+ .|..|.  +|...++|+||
T Consensus         2 ~~~~l~~~i~~alddkKAeDIv~lDv~~~s~~tDyfVIatg~s~rhv~Aiad~i~~~~k~-~g~~~~~~EG~~~~~Wvli   80 (115)
T COG0799           2 SMEELLEVIVEALDDKKAEDIVVLDVSGKSSLTDYFVIATGNSSRHVKAIADNVKEELKE-AGEVPLRIEGLSEGEWVLI   80 (115)
T ss_pred             cHHHHHHHHHHHHHhccCCCeEEEEccCCcccccEEEEEEeCchHHHHHHHHHHHHHHHH-cCCCcccccCCCcCCEEEE
Confidence            456789999999999999999999999999999999999999999999999999999965 466664  46678999999


Q ss_pred             EcCCEEEEecCcccccccchhhhcCCCceecCC
Q 025843          206 DFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP  238 (247)
Q Consensus       206 D~GdIVVHIFtpE~RefYdLE~LW~da~~i~l~  238 (247)
                      |+||||||||+|+.|+|||||+||++++.++..
T Consensus        81 D~GdivVHvf~~e~R~~Y~LEklW~d~~~~~~~  113 (115)
T COG0799          81 DLGDIVVHVFTPEEREFYNLEKLWGDAPVVDVD  113 (115)
T ss_pred             ecCcEEEEecCHHHHHHccHHHHhccCCccCcc
Confidence            999999999999999999999999999988754

>PRK11538 ribosome-associated protein; Provisional

Probab=100.00  E-value=3.5e-37  Score=245.90  Aligned_cols=101  Identities=24%  Similarity=0.435  Sum_probs=93.3

Q ss_pred             hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEE
Q 025843          129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLD  206 (247)
Q Consensus       129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD  206 (247)
                      +.++++.++++|+|+||+||+||||+++++++||||||||+|.||++|||++|.+.+++. |..|.  +|..+++|+|+|
T Consensus         3 ~~~~~~~i~~~l~dkKa~DI~vlDv~~~~~~~Dy~VIatg~S~rh~~aia~~v~~~~k~~-~~~~~~~eG~~~~~WillD   81 (105)
T PRK11538          3 GKALQDFVIDKIDDLKGQDIIALDVQGKSSITDCMIICTGTSSRHVMSIADHVVQESRAA-GLLPLGVEGENAADWIVVD   81 (105)
T ss_pred             HHHHHHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHHHc-CCCCCcccCCCCCCEEEEe
Confidence            457899999999999999999999999999999999999999999999999999999865 55554  466778999999


Q ss_pred             cCCEEEEecCcccccccchhhhcC
Q 025843          207 FGDVVIHIFLPQQRAFYNLEEFYG  230 (247)
Q Consensus       207 ~GdIVVHIFtpE~RefYdLE~LW~  230 (247)
                      ||+||||||+|+.|+|||||+||+
T Consensus        82 ~g~ivVHif~~e~Re~Y~LE~LW~  105 (105)
T PRK11538         82 LGDVIVHVMQEESRRLYELEKLWS  105 (105)
T ss_pred             CCCEEEEcCCHHHHhhcCHHhhhC
Confidence            999999999999999999999996

>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein

Probab=100.00  E-value=1.2e-36  Score=239.49  Aligned_cols=96  Identities=33%  Similarity=0.605  Sum_probs=90.2

Q ss_pred             HHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEEcCCE
Q 025843          133 AVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLDFGDV  210 (247)
Q Consensus       133 a~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD~GdI  210 (247)
                      ++.++++|+++||+||+||||++.++++||||||||+|.||++|||++|.+.+|+. |..|.  +|.++++|+|+|||+|
T Consensus         2 ~~~i~~~l~~kka~dI~vldv~~~~~~~dy~VI~Tg~S~rh~~aia~~v~~~~k~~-~~~~~~~EG~~~~~WillD~g~i   80 (99)
T TIGR00090         2 LELIVEALDDKKAEDIVVLDVRGKSSIADYFVIASGTSSRHVKAIADNVEEELKEA-GLKPLGVEGLEEGDWVLVDLGDV   80 (99)
T ss_pred             HHHHHHHHHHcCCCCEEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHHHc-CCCcccccCCCCCCEEEEECCCE
Confidence            67899999999999999999999999999999999999999999999999999864 66654  5678899999999999


Q ss_pred             EEEecCcccccccchhhhc
Q 025843          211 VIHIFLPQQRAFYNLEEFY  229 (247)
Q Consensus       211 VVHIFtpE~RefYdLE~LW  229 (247)
                      |||||+||.|+|||||+||
T Consensus        81 vVHif~~e~R~~Y~LE~LW   99 (99)
T TIGR00090        81 VVHIFQPEAREFYDLEKLW   99 (99)
T ss_pred             EEEeCChHHhhhcCHhhcC
Confidence            9999999999999999999

This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.

>PF02410 Oligomerisation: Oligomerisation domain; InterPro: IPR004394 The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells

Probab=100.00  E-value=1.6e-35  Score=232.30  Aligned_cols=97  Identities=37%  Similarity=0.717  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEEcCCE
Q 025843          133 AVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLDFGDV  210 (247)
Q Consensus       133 a~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD~GdI  210 (247)
                      ++.|+++|+++||+||++|||++.++++||||||||+|.||++|+|++|.+.++++.+..|.  +|.++++|+++|||+|
T Consensus         2 ~~~i~~~l~~~k~~dI~v~dv~~~~~~~dy~II~T~~S~rh~~aia~~v~~~~~k~~~~~~~~~eG~~~~~W~lvD~g~i   81 (100)
T PF02410_consen    2 LEEIVEALEDKKAEDIVVLDVREKSSWADYFIIATGRSERHVRAIADEVEKALKKEYGERPLRIEGLDESDWVLVDYGDI   81 (100)
T ss_dssp             HHHHHHHHHHTT-EEEEEEEGCTTBSS-SEEEEEEESSHHHHHHHHHHHHHHH-HHTT----EEESTTTTSEEEEEESSE
T ss_pred             HHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHHcCCcccccCCCCCCCEEEEcccEE
Confidence            68899999999999999999999999999999999999999999999999999544455544  4777899999999999


Q ss_pred             EEEecCcccccccchhhhc
Q 025843          211 VIHIFLPQQRAFYNLEEFY  229 (247)
Q Consensus       211 VVHIFtpE~RefYdLE~LW  229 (247)
                      |||||+||.|+|||||+||
T Consensus        82 vVHif~~e~R~~Y~LE~LW  100 (100)
T PF02410_consen   82 VVHIFTPEAREYYDLESLW  100 (100)
T ss_dssp             EEEEEEHHHHHHHCHHHHT
T ss_pred             EEEcCCHHHHhHcCHhhcC
Confidence            9999999999999999999

Maize has two RNA polymerases in plastids, but the plastid-encoded one, similar to bacterial RNA polymerases, is missing in iojap mutants. The role of iojap in chloroplast development, and the role of its bacterial orthologs modeled here, is unclear [, ]. This entry contains the bacterial protein YbeB (P0AAT6 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2O5A_A 2ID1_B 3UPS_A.

>KOG3212 consensus Uncharacterized conserved protein related to IojAP [Function unknown]

Probab=99.93  E-value=4.5e-26  Score=199.03  Aligned_cols=103  Identities=18%  Similarity=0.380  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcC-C--CC-CCCCCCCCEEEE
Q 025843          130 LSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYG-K--VP-SGDSKPNSWTLL  205 (247)
Q Consensus       130 ~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g-~--~p-~~g~~~~~WiLl  205 (247)
                      ...++.++++|.+.+|.||.|+-+.+.+.|+||+|||||+|.||+.|||++|+..+|.+-+ .  .+ ++|.++++|+++
T Consensus        68 h~~ve~vv~lLrdenadDVfVi~vpeem~y~dh~VIcSgrs~rhl~aiAe~lv~m~Kik~~kgd~hvriegk~s~dW~v~  147 (208)
T KOG3212|consen   68 HLTVEEVVKLLRDENADDVFVIPVPEEMFYADHTVICSGRSDRHLRAIAEALVYMAKIKSQKGDKHVRIEGKQSSDWIVI  147 (208)
T ss_pred             hhhHHHHHHHHHhcccCceEEEeccccceeeeeEEEEecCchHHHHHHHHHHHHHHHHhhcCCCcccccccccCCCeEEE
Confidence            3448999999999999999999999999999999999999999999999999999987622 1  22 246788999999


Q ss_pred             EcCCEEEEecCcccccccchhhhcCCC
Q 025843          206 DFGDVVIHIFLPQQRAFYNLEEFYGNA  232 (247)
Q Consensus       206 D~GdIVVHIFtpE~RefYdLE~LW~da  232 (247)
                      |||.++||+|.||+|++||||.||+..
T Consensus       148 D~g~~vvH~mseeaRe~YdLEsLWa~~  174 (208)
T KOG3212|consen  148 DYGKFVVHAMSEEAREYYDLESLWAAE  174 (208)
T ss_pred             EeceEEEEecCHHHhhhccHHHHhccc
Confidence            999999999999999999999999873

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	247
2o5a_A	125	Crystal Structure Of Q9kd89 From Bacillus Haloduran		7e-13
3ups_A	136	Crystal Structure Of Iojap-Like Protein From Zymomo		3e-08
2id1_A	130	X-Ray Crystal Structure Of Protein Cv0518 From Chro		1e-07

>pdb|2O5A|A Chain A, Crystal Structure Of Q9kd89 From Bacillus Halodurans. Northeast Structural Genomics Target Bhr21 Length = 125

Iteration: 1
 Score = 70.9 bits (172), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 62/114 (54%), Gaps = 4/114 (3%)
Query: 126 DAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLA 185
           + E L  AV     V D KA  +  L  K +     FF+I    S  Q+ AI   ++ +A
Sbjct: 3   NQELLQLAV---NAVDDKKAEQVVALNXKGISLIADFFLICHGNSEKQVQAIAHELKKVA 59
Query: 186 EKEYGKVPSGDSKPNS-WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
           +++  ++   +    + W L+D GDVV+H+F   +RA+YNLE+ +G+A T+EL 
Sbjct: 60  QEQGIEIKRLEGYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLWGDAPTVELE 113

>pdb|3UPS|A Chain A, Crystal Structure Of Iojap-Like Protein From Zymomonas Mobilis Length = 136

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/70 (37%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
Query: 162 FFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNS-WTLLDFGDVVIHIFLPQQR 220
           + +IA+  S  Q+ A   ++ D  +   G V   +  P + W LLD GD++IH+F P+ R
Sbjct: 52  YXVIASGRSSRQVTAXAQKLADRIKAATGYVSKIEGLPAADWVLLDAGDIIIHLFRPEVR 111
Query: 221 AFYNLEEFYG 230
           +FYNLE  +G
Sbjct: 112 SFYNLERXWG 121

>pdb|2ID1|A Chain A, X-Ray Crystal Structure Of Protein Cv0518 From Chromobacterium Violaceum, Northeast Structural Genomics Consortium Target Cvr5. Length = 130

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 30/93 (32%), Positives = 46/93 (49%), Gaps = 1/93 (1%)
Query: 140 VSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIR-DLAEKEYGKVPSGDSK 198
           + D+K  DI  L    L       I+AT  S  Q+ A+ + ++  L E     V S   +
Sbjct: 14  LEDIKGKDIIELDTSKLTSLFQRXIVATGDSNRQVKALANSVQVKLKEAGVDIVGSEGHE 73
Query: 199 PNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGN 231
              W L+D GDVV+H+ LP  R +Y++E  +G 
Sbjct: 74  SGEWVLVDAGDVVVHVXLPAVRDYYDIEALWGG 106

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	247
2o5a_A	125	BH1328 protein; BHR21, NESG, structural genomics,	4e-26
3ups_A	136	Iojap-like protein; PSI-biology, MCSG, midwest cen	7e-25
2id1_A	130	Hypothetical protein; alpha-beta protein, structur	2e-23

>2o5a_A BH1328 protein; BHR21, NESG, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; 2.70A {Bacillus halodurans} SCOP: d.218.1.12 Length = 125

 Score = 97.6 bits (244), Expect = 4e-26
 Identities = 34/103 (33%), Positives = 58/103 (56%), Gaps = 1/103 (0%)

Query: 137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGD 196
              V D KA  +  L +K +     FF+I    S  Q+ AI   ++ +A+++  ++   +
Sbjct: 11  VNAVDDKKAEQVVALNMKGISLIADFFLICHGNSEKQVQAIAHELKKVAQEQGIEIKRLE 70

Query: 197 SKPNS-WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
               + W L+D GDVV+H+F   +RA+YNLE+ +G+A T+EL 
Sbjct: 71  GYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLWGDAPTVELE 113

>3ups_A Iojap-like protein; PSI-biology, MCSG, midwest center for structural genomics, U function, structural genomics; HET: MSE; 1.75A {Zymomonas mobilis subsp} Length = 136

 Score = 94.7 bits (236), Expect = 7e-25
 Identities = 30/98 (30%), Positives = 51/98 (52%), Gaps = 1/98 (1%)

Query: 142 DVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNS 201
           D +A +I  + +        + +IA+  S  Q+ A+  ++ D  +   G V   +  P +
Sbjct: 32  DDQALEIATIPLAGKSSIADYMVIASGRSSRQVTAMAQKLADRIKAATGYVSKIEGLPAA 91

Query: 202 -WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238
            W LLD GD++IH+F P+ R+FYNLE  +G     + P
Sbjct: 92  DWVLLDAGDIIIHLFRPEVRSFYNLERMWGFGDESDQP 129

>2id1_A Hypothetical protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 3.00A {Chromobacterium violaceum} SCOP: d.218.1.12 Length = 130

 Score = 91.1 bits (227), Expect = 2e-23
 Identities = 26/93 (27%), Positives = 45/93 (48%), Gaps = 1/93 (1%)

Query: 141 SDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPN 200
            D+K  DI  L    L       I+AT  S  Q+ A+ + ++   ++    +   +   +
Sbjct: 15  EDIKGKDIIELDTSKLTSLFQRMIVATGDSNRQVKALANSVQVKLKEAGVDIVGSEGHES 74

Query: 201 S-WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNA 232
             W L+D GDVV+H+ LP  R +Y++E  +G  
Sbjct: 75  GEWVLVDAGDVVVHVMLPAVRDYYDIEALWGGQ 107

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	247
2o5a_A	125	BH1328 protein; BHR21, NESG, structural genomics,	100.0
2id1_A	130	Hypothetical protein; alpha-beta protein, structur	100.0
3ups_A	136	Iojap-like protein; PSI-biology, MCSG, midwest cen	100.0

>2o5a_A BH1328 protein; BHR21, NESG, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; 2.70A {Bacillus halodurans} SCOP: d.218.1.12

Probab=100.00  E-value=1.4e-40  Score=271.74  Aligned_cols=113  Identities=31%  Similarity=0.539  Sum_probs=98.3

Q ss_pred             hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEE
Q 025843          129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLD  206 (247)
Q Consensus       129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD  206 (247)
                      +.++++.++++|+|+||+||+||||++++++|||||||||+|.||++|||++|++.+|+. |..|.  +|..+++|+|+|
T Consensus         3 ~~~l~~~i~~al~dkKa~DI~vlDv~~~s~~~DyfVIatg~S~rqv~Aiad~v~~~lk~~-g~~~~~~EG~~~~~WvLlD   81 (125)
T 2o5a_A            3 NQELLQLAVNAVDDKKAEQVVALNMKGISLIADFFLICHGNSEKQVQAIAHELKKVAQEQ-GIEIKRLEGYEQARWVLID   81 (125)
T ss_dssp             CHHHHHHHHHHHHHTTCEEEEEEECBTTBC--CEEEEEEESSHHHHHHHHHHHHHHHHHT-TCCCCEEESTTTTSEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCCCeEEEEcCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHc-CCccccccCCCCCCEEEEe
Confidence            457899999999999999999999999999999999999999999999999999999876 66665  477889999999


Q ss_pred             cCCEEEEecCcccccccchhhhcCCCceecCCCCCC
Q 025843          207 FGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQ  242 (247)
Q Consensus       207 ~GdIVVHIFtpE~RefYdLE~LW~da~~i~l~~~~~  242 (247)
                      |||||||||+||.|+|||||+||+++|.++++....
T Consensus        82 ~GdVvVHif~~e~RefY~LE~LW~da~~~~~~~~~~  117 (125)
T 2o5a_A           82 LGDVVVHVFHKDERAYYNLEKLWGDAPTVELEGVIS  117 (125)
T ss_dssp             CSSEEEEEEETTCGGGTSTTTCC---CBCCSCC---
T ss_pred             CCCEEEEeCCHHHHhHcCHHHHhCCCCccccccccc
Confidence            999999999999999999999999999998876543

>2id1_A Hypothetical protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 3.00A {Chromobacterium violaceum} SCOP: d.218.1.12

Probab=100.00  E-value=1.2e-39  Score=268.08  Aligned_cols=115  Identities=24%  Similarity=0.432  Sum_probs=104.3

Q ss_pred             hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEE
Q 025843          129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLD  206 (247)
Q Consensus       129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD  206 (247)
                      +.++++.++++|+|+||+||+||||++++++|||||||||+|.||++|||++|++.+|+. |..|.  +|.++++|+|||
T Consensus         3 ~~~l~~~i~~al~dkKa~DI~vlDv~~~s~~~DyfVIaTg~S~rqv~Aiad~v~~~lk~~-g~~~~~~EG~~~~~WvLlD   81 (130)
T 2id1_A            3 IQEISKLAIEALEDIKGKDIIELDTSKLTSLFQRMIVATGDSNRQVKALANSVQVKLKEA-GVDIVGSEGHESGEWVLVD   81 (130)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEEGGGTCSSCSEEEEEECSSHHHHHHHHHHHHHHHHHT-TCCCCBCCSTTTSSEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCCCeEEEEcCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHc-CCcCccccCCCCCCEEEEe
Confidence            567899999999999999999999999999999999999999999999999999999875 65555  467889999999


Q ss_pred             cCCEEEEecCcccccccchhhhc-CCCceecCCCCCCCCCC
Q 025843          207 FGDVVIHIFLPQQRAFYNLEEFY-GNATTIELPFENQPPFR  246 (247)
Q Consensus       207 ~GdIVVHIFtpE~RefYdLE~LW-~da~~i~l~~~~~~~~~  246 (247)
                      |||||||||+||.|+|||||+|| +++|.+  ....+.|..
T Consensus        82 ~GdVvVHIf~~e~RefY~LE~LW~~da~~~--~~g~~~~~~  120 (130)
T 2id1_A           82 AGDVVVHVMLPAVRDYYDIEALWGGQKPSF--AVGAAKPWS  120 (130)
T ss_dssp             ETTEEEEEECHHHHHHHCHHHHTTCCCCCC--CSCCSCSCC
T ss_pred             cCCEEEEcCCHHHHhHcCHHHHhcCCCccc--ccCCccchH
Confidence            99999999999999999999999 999986  456666653

>3ups_A Iojap-like protein; PSI-biology, MCSG, midwest center for structural genomics, U function, structural genomics; HET: MSE; 1.75A {Zymomonas mobilis subsp}

Probab=100.00  E-value=3.7e-39  Score=266.91  Aligned_cols=116  Identities=24%  Similarity=0.428  Sum_probs=99.5

Q ss_pred             CcchhhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCC
Q 025843          124 DDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNS  201 (247)
Q Consensus       124 ~dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~  201 (247)
                      .+.+++.++++.|+++|+|+||+||+||||++++++|||||||||+|.||++|||++|++.+|+. |..|.  +|..+++
T Consensus        14 ~~~~~~~~l~~~i~~al~dkKa~DI~vlDv~~~s~~~DyfVIatg~S~rqv~Aiad~v~~~lk~~-g~~~~~~EG~~~~~   92 (136)
T 3ups_A           14 QTSFDPEMLLKLVTDSLDDDQALEIATIPLAGKSSIADYMVIASGRSSRQVTAMAQKLADRIKAA-TGYVSKIEGLPAAD   92 (136)
T ss_dssp             ---CCHHHHHHHHHHHHHHTTCEEEEEEECTTTCSSCSEEEEEECSSHHHHHHHHHHHHHHHHHH-HCCCCEEESCSSCS
T ss_pred             cCCCCHHHHHHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHc-CCccCcccCCCCCC
Confidence            34456788999999999999999999999999999999999999999999999999999999876 44554  4778899


Q ss_pred             EEEEEcCCEEEEecCcccccccchhhhcCCCceecCCCC
Q 025843          202 WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFE  240 (247)
Q Consensus       202 WiLlD~GdIVVHIFtpE~RefYdLE~LW~da~~i~l~~~  240 (247)
                      |+||||||||||||+||.|+|||||+||++++..+-+..
T Consensus        93 WvLlD~GdVvVHIf~~e~RefY~LE~LW~d~~~~d~~~s  131 (136)
T 3ups_A           93 WVLLDAGDIIIHLFRPEVRSFYNLERMWGFGDESDQPVS  131 (136)
T ss_dssp             EEEEECSSEEEEEECHHHHHHHHHHHHTTTTC-------
T ss_pred             EEEEeCCCEEEEeCCHHHHHHcCHHHHhCcCCcccchhh
Confidence            999999999999999999999999999999998765543

---

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	247
d2o5aa1	113	d.218.1.12 (A:2-114) Uncharacterized protein BH132	3e-25
d2id1a1	120	d.218.1.12 (A:1-120) Hypothetical protein CV0518 {	3e-23

>d2o5aa1 d.218.1.12 (A:2-114) Uncharacterized protein BH1328 {Bacillus halodurans [TaxId: 86665]} Length = 113

class: Alpha and beta proteins (a+b)
fold: Nucleotidyltransferase
superfamily: Nucleotidyltransferase
family: Iojap/YbeB-like
domain: Uncharacterized protein BH1328
species: Bacillus halodurans [TaxId: 86665]

 Score = 94.2 bits (234), Expect = 3e-25
 Identities = 34/102 (33%), Positives = 57/102 (55%), Gaps = 1/102 (0%)

Query: 137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS-G 195
              V D KA  +  L +K +     FF+I    S  Q+ AI   ++ +A+++  ++    
Sbjct: 10  VNAVDDKKAEQVVALNMKGISLIADFFLICHGNSEKQVQAIAHELKKVAQEQGIEIKRLE 69

Query: 196 DSKPNSWTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIEL 237
             +   W L+D GDVV+H+F   +RA+YNLE+ +G+A T+EL
Sbjct: 70  GYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLWGDAPTVEL 111

>d2id1a1 d.218.1.12 (A:1-120) Hypothetical protein CV0518 {Chromobacterium violaceum [TaxId: 536]} Length = 120

class: Alpha and beta proteins (a+b)
fold: Nucleotidyltransferase
superfamily: Nucleotidyltransferase
family: Iojap/YbeB-like
domain: Hypothetical protein CV0518
species: Chromobacterium violaceum [TaxId: 536]

 Score = 88.9 bits (220), Expect = 3e-23
 Identities = 27/110 (24%), Positives = 48/110 (43%), Gaps = 2/110 (1%)

Query: 137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGD 196
              + D+K  DI  L    L       I+AT  S  Q+ A+ + ++   ++    +   +
Sbjct: 11  IEALEDIKGKDIIELDTSKLTSLFQRMIVATGDSNRQVKALANSVQVKLKEAGVDIVGSE 70

Query: 197 SKPNS-WTLLDFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQPPF 245
              +  W L+D GDVV+H+ LP  R +Y++E  +G             P+
Sbjct: 71  GHESGEWVLVDAGDVVVHVMLPAVRDYYDIEALWGGQKPS-FAVGAAKPW 119

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	247
d2o5aa1	113	Uncharacterized protein BH1328 {Bacillus haloduran	100.0
d2id1a1	120	Hypothetical protein CV0518 {Chromobacterium viola	100.0

>d2o5aa1 d.218.1.12 (A:2-114) Uncharacterized protein BH1328 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a+b)
fold: Nucleotidyltransferase
superfamily: Nucleotidyltransferase
family: Iojap/YbeB-like
domain: Uncharacterized protein BH1328
species: Bacillus halodurans [TaxId: 86665]

Probab=100.00  E-value=8.8e-40  Score=260.44  Aligned_cols=109  Identities=32%  Similarity=0.588  Sum_probs=96.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEE
Q 025843          129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLD  206 (247)
Q Consensus       129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD  206 (247)
                      ++++++.++++|+++||+||+||||++.+++|||||||||+|.||++|||++|.+.+|+. +..|.  +|...++|+|+|
T Consensus         2 ~~el~~~i~~~l~dkKa~dI~vldv~~~~~~~D~~VIatg~S~rh~~aia~~v~~~~k~~-~~~~~~~eG~~~~~WvliD   80 (113)
T d2o5aa1           2 NQELLQLAVNAVDDKKAEQVVALNMKGISLIADFFLICHGNSEKQVQAIAHELKKVAQEQ-GIEIKRLEGYEQARWVLID   80 (113)
T ss_dssp             CHHHHHHHHHHHHHTTCEEEEEEECBTTBC--CEEEEEEESSHHHHHHHHHHHHHHHHHT-TCCCCEEESTTTTSEEEEE
T ss_pred             HHHHHHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHHHh-ccccccccCCCCCCEEEee
Confidence            568899999999999999999999999999999999999999999999999999999875 55554  477789999999


Q ss_pred             cCCEEEEecCcccccccchhhhcCCCceecCC
Q 025843          207 FGDVVIHIFLPQQRAFYNLEEFYGNATTIELP  238 (247)
Q Consensus       207 ~GdIVVHIFtpE~RefYdLE~LW~da~~i~l~  238 (247)
                      ||+||||||+||.|+|||||+||+++|.++++
T Consensus        81 ~gdvvVHif~~e~Re~Y~LE~LW~da~~i~~e  112 (113)
T d2o5aa1          81 LGDVVVHVFHKDERAYYNLEKLWGDAPTVELE  112 (113)
T ss_dssp             CSSEEEEEEETTCGGGTSTTTCC---CBCCSC
T ss_pred             CCCEEEEcCCHHHHhHcCHHHHhCcCCcCCCC
Confidence            99999999999999999999999999999875

>d2id1a1 d.218.1.12 (A:1-120) Hypothetical protein CV0518 {Chromobacterium violaceum [TaxId: 536]}

class: Alpha and beta proteins (a+b)
fold: Nucleotidyltransferase
superfamily: Nucleotidyltransferase
family: Iojap/YbeB-like
domain: Hypothetical protein CV0518
species: Chromobacterium violaceum [TaxId: 536]

Probab=100.00  E-value=6.1e-39  Score=257.90  Aligned_cols=117  Identities=25%  Similarity=0.434  Sum_probs=105.9

Q ss_pred             hhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEE
Q 025843          128 ESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLL  205 (247)
Q Consensus       128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLl  205 (247)
                      +..++++.|+++|+++||+||+||||++.++++||||||||+|.||++|||++|.+.+|+. |..|.  +|..+++|+||
T Consensus         2 ~~~~l~~~i~~~l~d~Ka~DI~vldv~~~~~~~D~~VI~Tg~S~rh~~aia~~i~~~lk~~-~~~~~~~eG~~~~~Will   80 (120)
T d2id1a1           2 EIQEISKLAIEALEDIKGKDIIELDTSKLTSLFQRMIVATGDSNRQVKALANSVQVKLKEA-GVDIVGSEGHESGEWVLV   80 (120)
T ss_dssp             CHHHHHHHHHHHHHHTTCEEEEEEEGGGTCSSCSEEEEEECSSHHHHHHHHHHHHHHHHHT-TCCCCBCCSTTTSSEEEE
T ss_pred             CHHHHHHHHHHHHHHcCCCCeEEEECCCCCccccEEEEEEecCHHHHHHHHHHHHHHHHHc-CCccccccCCCCCCEEEE
Confidence            4678899999999999999999999999999999999999999999999999999999875 54554  46778899999


Q ss_pred             EcCCEEEEecCcccccccchhhhcCCCceecCCCCCCCCCC
Q 025843          206 DFGDVVIHIFLPQQRAFYNLEEFYGNATTIELPFENQPPFR  246 (247)
Q Consensus       206 D~GdIVVHIFtpE~RefYdLE~LW~da~~i~l~~~~~~~~~  246 (247)
                      |||+||||||+||.|+||+||+||+++++ .++.+..+||+
T Consensus        81 D~gdivVHif~~e~R~~Y~LE~LW~d~~p-~~~~~a~~p~~  120 (120)
T d2id1a1          81 DAGDVVVHVMLPAVRDYYDIEALWGGQKP-SFAVGAAKPWS  120 (120)
T ss_dssp             EETTEEEEEECHHHHHHHCHHHHTTCCCC-CCCSCCSCSCC
T ss_pred             ecCceEEEeCCHHHHHHcCHHHHhCCCCC-CCcCCCCCCCC
Confidence            99999999999999999999999999844 57788888874