Citrus Sinensis ID: 025014

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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-------26
Protein Sequence
MAFLRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHcccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccHHHHHHccccEEEEccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHccccccEEEEEEEccccccEEEEEEEEccccccccccEEEEEEEEEcEEEcccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHcccccccHHHHHHHcccHHHHHHHcccccccHHHHHHHcccccccccccccccEEEcccccccccccccccccccHHHccHHHHHcccEEEEEEccccEEccccccccccccHccccccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEEEccccccEEEEEEEEEEcccccccEEEEEEEEEEcHEEEEcc
Coil and Loop (DISEMBL)
MAFLRRLLTNhalnrtvgvSESAYLLgssrsyssgvsivpeiysqnissclckdhgalpwtrgstmtlrsslapksllYLNEKRfataqpkapaqARQMGAlkvsisspgfiyepyapreaipfwrrwftrdgwrrtKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY
Flexible Loop (DISEMBL)
MAFLRRLLtnhalnrtvgvsesaYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEpyapreaipfwrrwftrdgwrRTKDDIILELKSAYAIAKlrksgyskqkfYTEAVDLYKEINTlmangdktslRKAVTEKMYSALKNeikqresmwssVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEflakqvncpy
Low Complexity Region (SEG)
MAFLRRLLTNHALNRTVGVSEsayllgssrsyssgvsIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY
Disordered region (IsUnstruct)
***LRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEK******************LKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVN***
Disordered Region (DISOPRED)
****R*LLTNHALNRTVGV***AYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPW*********************************************ISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY
Disordered Region (DISEMBL)
MAFLRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFAT**************LKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY
Disordered Region (DISPRO)
*AFLRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAFLRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY
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

No hits with e-value below 0.001 by BLAST

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	259
255542538	619	pentatricopeptide repeat-containing prot	0.980	0.410	0.685	3e-94
388499100	305	unknown [Lotus japonicus]	0.976	0.829	0.613	2e-82
356576761	309	PREDICTED: probable 39S ribosomal protei	0.976	0.818	0.603	3e-82
449485732	302	PREDICTED: probable 39S ribosomal protei	0.942	0.807	0.630	4e-81
449435699	302	PREDICTED: uncharacterized protein LOC10	0.957	0.821	0.624	4e-80
186526131	296	Mitochondrial inner membrane translocase	0.957	0.837	0.572	9e-77
297808779	314	protein translocase [Arabidopsis lyrata	0.961	0.792	0.547	3e-76
145334561	313	Mitochondrial inner membrane translocase	0.957	0.792	0.536	1e-74
224123246	233	predicted protein [Populus trichocarpa]	0.683	0.759	0.741	2e-72
357441561	294	39S ribosomal protein L45 [Medicago trun	0.926	0.816	0.513	8e-68

>gi|255542538|ref|XP_002512332.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223548293|gb|EEF49784.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  350 bits (899), Expect = 3e-94,   Method: Compositional matrix adjust.
 Identities = 174/254 (68%), Positives = 199/254 (78%)

Query: 1   MAFLRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPW 60
           MA LRRL    AL+RT      + LL SSRSY S  S   E  SQ I     K H A PW
Sbjct: 1   MALLRRLQAIRALSRTAESRNPSCLLQSSRSYYSDFSNGLEFNSQRIFLSPYKGHNAFPW 60

Query: 61  TRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPRE 120
           T GSTMT +SS   +   ++N+KR  T Q +AP QARQMGALKVS+SSPGFIYEPYAPRE
Sbjct: 61  THGSTMTHQSSTPIELSTFVNDKRLLTTQARAPPQARQMGALKVSVSSPGFIYEPYAPRE 120

Query: 121 AIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMA 180
            IPFWRRWFT+ GWRRTK+DIILELKSAYA++KLRKSGYSK + Y EA++LYKEI+T++A
Sbjct: 121 PIPFWRRWFTKSGWRRTKEDIILELKSAYAVSKLRKSGYSKHQLYKEAIELYKEISTMIA 180

Query: 181 NGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLN 240
           NGDK SLRKAVTEKMYS LKNEIKQRESMWS V WEL+EP+IK+RTLRARLIGVDR+D +
Sbjct: 181 NGDKNSLRKAVTEKMYSELKNEIKQRESMWSKVYWELVEPVIKIRTLRARLIGVDRSDFS 240

Query: 241 KVFVQLTLEFLAKQ 254
           KVF+QLTLE L KQ
Sbjct: 241 KVFIQLTLELLTKQ 254

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388499100|gb|AFK37616.1| unknown [Lotus japonicus]

 Score =  311 bits (796), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 157/256 (61%), Positives = 191/256 (74%), Gaps = 3/256 (1%)

Query: 1   MAFLRRLLTNHALNRT--VGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGAL 58
           M  L+R      L R+  +G   S+YLLGS RSYS+ +S   E   ++  S L K H   
Sbjct: 1   MMPLKRFHAVRTLYRSSQIGQDSSSYLLGSCRSYSNALSNGSEGNFKSFHSHLFKCHDGF 60

Query: 59  PWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAP 118
           P   G T+TLRS++A +  +++N+KR  + Q K  + +R +G  ++S+SSPGFIYEPY P
Sbjct: 61  PLAGGKTLTLRSTMAAELSIFMNDKRMLSTQLKGSSLSRAVGT-QISVSSPGFIYEPYEP 119

Query: 119 REAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTL 178
           RE IPFW+RWFTR GW+RTK D+ILELKSAYAI KLRKSGYSK +FY EA  +YKEIN L
Sbjct: 120 REKIPFWQRWFTRSGWKRTKQDVILELKSAYAIQKLRKSGYSKSRFYNEAFKMYKEINAL 179

Query: 179 MANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRND 238
           +ANGDK SLRKAVTEKMYSALKNEIKQRE+ W+ V WELIEP+I++RTLRARLIGVD  D
Sbjct: 180 IANGDKKSLRKAVTEKMYSALKNEIKQRETTWNKVYWELIEPVIRVRTLRARLIGVDPKD 239

Query: 239 LNKVFVQLTLEFLAKQ 254
           LNKVFVQLTLE  AKQ
Sbjct: 240 LNKVFVQLTLEITAKQ 255

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576761|ref|XP_003556498.1| PREDICTED: probable 39S ribosomal protein L45, mitochondrial-like [Glycine max]

 Score =  310 bits (795), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 154/255 (60%), Positives = 194/255 (76%), Gaps = 2/255 (0%)

Query: 1   MAFLRRLLTNHALNRTVGVSESA-YLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALP 59
           M   +RL     L R+  + ES+ YLLGS +SYSS +S   E   ++  S L K     P
Sbjct: 2   MTPFKRLHLVRTLYRSSQIGESSSYLLGSCKSYSSALSNGSEGNFRSFHSHLLKGQDGFP 61

Query: 60  WTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPR 119
           +    ++TLRS++A +  +++N +R  + Q KA AQARQ+G  ++S+SSPGFIYEPY PR
Sbjct: 62  FAGVKSLTLRSTMAAELSIFMNNRRMLSTQVKASAQARQVGQ-QISLSSPGFIYEPYEPR 120

Query: 120 EAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLM 179
           + IPFW+RWFTR G RRTK+DIILELKSAYAIAKLRK+GYSK +FY EA ++YKEINTL+
Sbjct: 121 DKIPFWKRWFTRSGLRRTKNDIILELKSAYAIAKLRKTGYSKNQFYNEAANMYKEINTLI 180

Query: 180 ANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDL 239
           A GDK +LRKAVTE M+SALKNEIKQRE+ WS V WE++EP++K+RTLRARLIGVDR DL
Sbjct: 181 AKGDKRTLRKAVTENMFSALKNEIKQRETAWSRVYWEMVEPVVKIRTLRARLIGVDRKDL 240

Query: 240 NKVFVQLTLEFLAKQ 254
           NK F+QLTLE LAKQ
Sbjct: 241 NKTFIQLTLEILAKQ 255

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449485732|ref|XP_004157259.1| PREDICTED: probable 39S ribosomal protein L45, mitochondrial-like [Cucumis sativus]

 Score =  306 bits (785), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 155/246 (63%), Positives = 185/246 (75%), Gaps = 2/246 (0%)

Query: 11  HALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRS 70
             L RT  +      +GSS +YS G++ V ++  Q  SS L   H A    RG  M + S
Sbjct: 10  QTLYRTPKIRPFTSPIGSSANYSCGITNVSQLGIQKTSSFLSNSHSAFSLARGHKMIICS 69

Query: 71  SLAPKSLLYLNEK--RFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPREAIPFWRRW 128
           ++A + L++ +    R  T Q KAP QARQ   LKV++ SPGFIYEPY+PR+ +PFW+RW
Sbjct: 70  AVAAEFLVFSHGIGIRLVTTQVKAPPQARQKIGLKVTMLSPGFIYEPYSPRQQLPFWQRW 129

Query: 129 FTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLR 188
           FTR GW+RTKDDIILELKSAYAIAKLRK GYSK+KFY EA +LY+EINTL+ANGDKTSLR
Sbjct: 130 FTRSGWKRTKDDIILELKSAYAIAKLRKKGYSKKKFYEEAANLYREINTLIANGDKTSLR 189

Query: 189 KAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTL 248
           KAVTE MYSALKNEIK RES WS V WE+I P++K+RTLRARLIGVDR+DL KVFVQLTL
Sbjct: 190 KAVTENMYSALKNEIKLRESKWSKVYWEMIVPVVKIRTLRARLIGVDRSDLEKVFVQLTL 249

Query: 249 EFLAKQ 254
           E LAKQ
Sbjct: 250 EILAKQ 255

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449435699|ref|XP_004135632.1| PREDICTED: uncharacterized protein LOC101211143 [Cucumis sativus]

 Score =  303 bits (777), Expect = 4e-80,   Method: Compositional matrix adjust.
 Identities = 158/253 (62%), Positives = 188/253 (74%), Gaps = 5/253 (1%)

Query: 4   LRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRG 63
           LR L T   L RT  +      +GSS +YS G++ V ++  Q  SS L   H A    RG
Sbjct: 6   LRSLQT---LYRTPKIRPFTSPIGSSANYSCGITNVSQLGIQKTSSFLSNSHSAFSLARG 62

Query: 64  STMTLRSSLAPKSLLYLNEK--RFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPREA 121
             M + S++A +  ++ +    R  T Q KAP QARQ   LKV++ SPGFIYEPY+PR+ 
Sbjct: 63  HKMIICSAVAAEFSVFSHGIGIRLVTTQVKAPPQARQKIGLKVTMLSPGFIYEPYSPRQQ 122

Query: 122 IPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMAN 181
           +PFW+RWFTR GW+RTKDDIILELKSAYAIAKLRK GYSK+KFY EA +LY+EINTL+AN
Sbjct: 123 LPFWQRWFTRSGWKRTKDDIILELKSAYAIAKLRKKGYSKKKFYEEAANLYREINTLIAN 182

Query: 182 GDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNK 241
           GDKTSLRKAVTE MYSALKNEIK RES WS V WE+I P++K+RTLRARLIGVDR+DL K
Sbjct: 183 GDKTSLRKAVTENMYSALKNEIKLRESKWSKVYWEMIVPVVKIRTLRARLIGVDRSDLEK 242

Query: 242 VFVQLTLEFLAKQ 254
           VFVQLTLE LAKQ
Sbjct: 243 VFVQLTLEILAKQ 255

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186526131|ref|NP_001119286.1| Mitochondrial inner membrane translocase complex, subunit Tim44-related protein [Arabidopsis thaliana] gi|332006297|gb|AED93680.1| Mitochondrial inner membrane translocase complex, subunit Tim44-related protein [Arabidopsis thaliana]

 Score =  292 bits (748), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 146/255 (57%), Positives = 187/255 (73%), Gaps = 7/255 (2%)

Query: 1   MAFLRRLLTNHALNRTVGVSESAYL-LGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALP 59
           M+ +RR  T  +L +T G  ES+ L  G  RSY S +  VPE + ++  S L + H    
Sbjct: 1   MSLVRRFQTVRSLLKTAGSRESSSLPFGCWRSYHSSLCHVPEAHGKSAYSRLYEGHSV-- 58

Query: 60  WTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPR 119
               +T  LRS++  + L ++NEKR AT Q KAP Q ++ GA++VS+ SPGF+YEPYA R
Sbjct: 59  ----NTHLLRSTMIAEFLPFMNEKRSATTQVKAPPQLQKTGAVRVSMVSPGFVYEPYALR 114

Query: 120 EAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLM 179
           E I  WRR FTR GWRRTK+D I EL+SAYAIAKLRK+GYSK  FY EA++LYK+IN  M
Sbjct: 115 EKISIWRRCFTRSGWRRTKEDFIRELRSAYAIAKLRKTGYSKNTFYIEALELYKQINIQM 174

Query: 180 ANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDL 239
           ANG+K ++RK VTE+MYSALKNEIKQRE+MW  V WE++EP++K+RTL+ARLIG+DR DL
Sbjct: 175 ANGEKKTIRKNVTERMYSALKNEIKQREAMWDGVYWEMVEPVVKIRTLQARLIGIDRTDL 234

Query: 240 NKVFVQLTLEFLAKQ 254
            K F+QLTLEFL KQ
Sbjct: 235 KKAFIQLTLEFLTKQ 249

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297808779|ref|XP_002872273.1| protein translocase [Arabidopsis lyrata subsp. lyrata] gi|297318110|gb|EFH48532.1| protein translocase [Arabidopsis lyrata subsp. lyrata]

 Score =  290 bits (743), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 149/272 (54%), Positives = 189/272 (69%), Gaps = 23/272 (8%)

Query: 1   MAFLRRLLTNHALNRTVGVSESAYL------------------LGSSRSYSSGVSIVPEI 42
           MA +RR  T  +L +T G  ES+ L                   G  RSY S +  VPE 
Sbjct: 1   MALVRRFQTVRSLLKTAGSRESSSLPFRNGNEFSLIQIGDDFRFGCWRSYHSSLYQVPEA 60

Query: 43  YSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGAL 102
           + +++ S L + H        +T  LRS++  +SL + N+KR AT Q KAP Q ++ GA+
Sbjct: 61  HGKSVYSRLYEGH-----NNANTHLLRSTMIAESLPFTNDKRSATTQVKAPPQLQKTGAV 115

Query: 103 KVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQ 162
           +VS+ SPGF+YEPYA +E I  WRR FTR GWRRTK+D I EL+SAYAIAKLRK+GYSK 
Sbjct: 116 RVSMVSPGFVYEPYALQEKISIWRRCFTRSGWRRTKEDFIRELRSAYAIAKLRKTGYSKN 175

Query: 163 KFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPII 222
            FY EA++LYK+IN LMANGDK ++RK VTE+MYSALKNEIKQRE+MW  V WE+IEP++
Sbjct: 176 TFYIEALELYKQINILMANGDKKTIRKNVTERMYSALKNEIKQREAMWDGVYWEMIEPVV 235

Query: 223 KMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQ 254
           K+RTL+ARLIG+DR DL K F+QLTLEFL KQ
Sbjct: 236 KIRTLQARLIGIDRTDLKKAFIQLTLEFLTKQ 267

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145334561|ref|NP_001078626.1| Mitochondrial inner membrane translocase complex, subunit Tim44-related protein [Arabidopsis thaliana] gi|26451284|dbj|BAC42743.1| unknown protein [Arabidopsis thaliana] gi|332006296|gb|AED93679.1| Mitochondrial inner membrane translocase complex, subunit Tim44-related protein [Arabidopsis thaliana]

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 146/272 (53%), Positives = 187/272 (68%), Gaps = 24/272 (8%)

Query: 1   MAFLRRLLTNHALNRTVGVSESAYL------------------LGSSRSYSSGVSIVPEI 42
           M+ +RR  T  +L +T G  ES+ L                   G  RSY S +  VPE 
Sbjct: 1   MSLVRRFQTVRSLLKTAGSRESSSLPFRNGNEFSLIQIGDDFRFGCWRSYHSSLCHVPEA 60

Query: 43  YSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGAL 102
           + ++  S L + H        +T  LRS++  + L ++NEKR AT Q KAP Q ++ GA+
Sbjct: 61  HGKSAYSRLYEGHSV------NTHLLRSTMIAEFLPFMNEKRSATTQVKAPPQLQKTGAV 114

Query: 103 KVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQ 162
           +VS+ SPGF+YEPYA RE I  WRR FTR GWRRTK+D I EL+SAYAIAKLRK+GYSK 
Sbjct: 115 RVSMVSPGFVYEPYALREKISIWRRCFTRSGWRRTKEDFIRELRSAYAIAKLRKTGYSKN 174

Query: 163 KFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPII 222
            FY EA++LYK+IN  MANG+K ++RK VTE+MYSALKNEIKQRE+MW  V WE++EP++
Sbjct: 175 TFYIEALELYKQINIQMANGEKKTIRKNVTERMYSALKNEIKQREAMWDGVYWEMVEPVV 234

Query: 223 KMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQ 254
           K+RTL+ARLIG+DR DL K F+QLTLEFL KQ
Sbjct: 235 KIRTLQARLIGIDRTDLKKAFIQLTLEFLTKQ 266

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123246|ref|XP_002319031.1| predicted protein [Populus trichocarpa] gi|222857407|gb|EEE94954.1| predicted protein [Populus trichocarpa]

 Score =  278 bits (710), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 135/182 (74%), Positives = 156/182 (85%), Gaps = 5/182 (2%)

Query: 78  LYLNEKRFATAQPKAPAQARQMGALKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRT 137
           ++LN+KR AT +  AP QARQMG+LKVSISSPGFIYEPYAPR+ I FWRRWFT+ GWRRT
Sbjct: 5   IFLNDKRSATTKVNAPPQARQMGSLKVSISSPGFIYEPYAPRDTISFWRRWFTKSGWRRT 64

Query: 138 KDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYS 197
           K+DIILELK+AYAI KLRK+GYSK KFY EA+ LYKEINTL+ANGDKT+LRKAVTEKMYS
Sbjct: 65  KNDIILELKNAYAIVKLRKTGYSKHKFYVEAIKLYKEINTLLANGDKTALRKAVTEKMYS 124

Query: 198 ALKNEIKQRESMW--SSVNWELIEPIIKMRTLRARL---IGVDRNDLNKVFVQLTLEFLA 252
            LKNEIKQR+S W  S + WE+IEP + +RTLRARL   IGVD++DLNKVF+QLTLE   
Sbjct: 125 ELKNEIKQRQSAWNMSKLYWEMIEPAVLIRTLRARLATEIGVDKSDLNKVFIQLTLEIKT 184

Query: 253 KQ 254
           KQ
Sbjct: 185 KQ 186

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357441561|ref|XP_003591058.1| 39S ribosomal protein L45 [Medicago truncatula] gi|355480106|gb|AES61309.1| 39S ribosomal protein L45 [Medicago truncatula] gi|388515325|gb|AFK45724.1| unknown [Medicago truncatula]

 Score =  262 bits (670), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 130/253 (51%), Positives = 184/253 (72%), Gaps = 13/253 (5%)

Query: 4   LRRLLTNHALNRTVGVSESAYLLGSSRSYSSGVSIVPEIYSQNISSCLCKDHGALPWTRG 63
           L+RL +   L  +  +  S +LLGS R+YS+ +S   +++         K +    +   
Sbjct: 3   LKRLQSARNLYHSSQIRPS-HLLGSFRNYSNALSNASDLF---------KPNDGFSFANV 52

Query: 64  STMTLRSSLAPKSLLYLNEKRFATAQPKA--PAQARQMGALKVSISSPGFIYEPYAPREA 121
            T+T RS++A +  +++N+++ +T+  K    AQ R MGA ++ +SSPG IYEPY PRE 
Sbjct: 53  KTLTFRSTMAAEFSIFMNDRKMSTSAVKVRPNAQVRPMGA-QICLSSPGIIYEPYEPREK 111

Query: 122 IPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMAN 181
           IPFW+R FTR GW RTK D+++E+K+AY IA+LRK+GYSK++FY EA+ +YK+INTL+AN
Sbjct: 112 IPFWKRMFTRSGWERTKSDLMMEVKNAYTIARLRKTGYSKKQFYLEAISMYKQINTLIAN 171

Query: 182 GDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNK 241
           GDK SLRKAVTEKM+S LKNEIK RE+ WS V WE++EP++ +RTLRAR++GVD++D NK
Sbjct: 172 GDKHSLRKAVTEKMFSTLKNEIKVRETTWSRVYWEMVEPVVLIRTLRARMLGVDKSDTNK 231

Query: 242 VFVQLTLEFLAKQ 254
           VF Q+TLE LAKQ
Sbjct: 232 VFYQITLEILAKQ 244

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	259
TAIR|locus:4010713974	313	AT5G27395 [Arabidopsis thalian	0.810	0.670	0.606	1.3e-66
FB|FBgn0263863	361	mRpL45 "mitochondrial ribosoma	0.563	0.404	0.269	1.3e-07

TAIR|locus:4010713974 AT5G27395 [Arabidopsis thaliana (taxid:3702)]

 Score = 677 (243.4 bits), Expect = 1.3e-66, P = 1.3e-66
 Identities = 131/216 (60%), Positives = 166/216 (76%)

Query:    39 VPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQ 98
             VPE + ++  S L + H        +T  LRS++  + L ++NEKR AT Q KAP Q ++
Sbjct:    57 VPEAHGKSAYSRLYEGHSV------NTHLLRSTMIAEFLPFMNEKRSATTQVKAPPQLQK 110

Query:    99 MGALKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSG 158
              GA++VS+ SPGF+YEPYA RE I  WRR FTR GWRRTK+D I EL+SAYAIAKLRK+G
Sbjct:   111 TGAVRVSMVSPGFVYEPYALREKISIWRRCFTRSGWRRTKEDFIRELRSAYAIAKLRKTG 170

Query:   159 YSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELI 218
             YSK  FY EA++LYK+IN  MANG+K ++RK VTE+MYSALKNEIKQRE+MW  V WE++
Sbjct:   171 YSKNTFYIEALELYKQINIQMANGEKKTIRKNVTERMYSALKNEIKQREAMWDGVYWEMV 230

Query:   219 EPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQ 254
             EP++K+RTL+ARLIG+DR DL K F+QLTLEFL KQ
Sbjct:   231 EPVVKIRTLQARLIGIDRTDLKKAFIQLTLEFLTKQ 266

GO:0005739 "mitochondrion" evidence=ISM

GO:0005744 "mitochondrial inner membrane presequence translocase complex" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0015450 "P-P-bond-hydrolysis-driven protein transmembrane transporter activity" evidence=IEA

FB|FBgn0263863 mRpL45 "mitochondrial ribosomal protein L45" [Drosophila melanogaster (taxid:7227)]

 Score = 143 (55.4 bits), Expect = 1.3e-07, P = 1.3e-07
 Identities = 42/156 (26%), Positives = 79/156 (50%)

Query:   106 ISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRK--SGYSKQK 163
             IS  G I+E Y P E     +   +  G ++  + +  + KS  A+ K+R     +S   
Sbjct:   109 ISCTGGIFEAYVPPEG-DGKKSIISTSGAKQKLEFLEKKSKSLMAVRKIRSYDENFSSDD 167

Query:   164 FYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIK 223
             F  EA D+Y + +T MA  DK  +R+ V+E+ Y  + + +K +     ++ W+ ++ +  
Sbjct:   168 FGAEAQDIYIQAHTHMAAKDKYKIREFVSERCYPEMMHNVKDK-----TIRWKFLQSLEP 222

Query:   224 MRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY 259
              R + AR+  V   + N+ F Q+T+ F ++Q+   Y
Sbjct:   223 PRVVHARVTEVITKE-NQ-FAQVTVRFHSQQMLAIY 256


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.132   0.395    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      259       243   0.00097  113 3  11 22  0.41    33
                                                     32  0.45    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  611 (65 KB)
  Total size of DFA:  189 KB (2108 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  20.69u 0.10s 20.79t   Elapsed:  00:00:01
  Total cpu time:  20.69u 0.10s 20.79t   Elapsed:  00:00:01
  Start:  Sat May 11 11:57:07 2013   End:  Sat May 11 11:57:08 2013

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

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISS

GO:0006412 "translation" evidence=ISS

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0005744 "mitochondrial inner membrane presequence translocase complex" evidence=IEA

GO:0015450 "P-P-bond-hydrolysis-driven protein transmembrane transporter activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	259
smart00978	147	smart00978, Tim44, Tim44 is an essential component	9e-13
pfam04280	146	pfam04280, Tim44, Tim44-like domain	4e-10

>gnl|CDD|214950 smart00978, Tim44, Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane

 Score = 63.5 bits (155), Expect = 9e-13
 Identities = 26/113 (23%), Positives = 46/113 (40%), Gaps = 5/113 (4%)

Query: 147 SAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQR 206
            A    K    G+  ++F   A D +  I      GD  +LR+ +T +MY+ L  +I +R
Sbjct: 2   KALREIKRIDPGFDTERFLEGAKDAFPMIQEAWDRGDLETLRELLTPEMYNELAAQIAER 61

Query: 207 ESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY 259
           E+    V  + +  I  +    A L      D       +T+ F  +Q++   
Sbjct: 62  EARGLFVENK-LLDIDVVVLDAALLEAWQEGD----GAVITVRFHGQQIDVTR 109

Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region. Length = 147

>gnl|CDD|202957 pfam04280, Tim44, Tim44-like domain

 Score = 56.5 bits (137), Expect = 4e-10
 Identities = 21/111 (18%), Positives = 45/111 (40%), Gaps = 9/111 (8%)

Query: 147 SAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQR 206
           +A    K     +  ++F   A + Y+ I    A GD  +LR+ +T ++Y      I +R
Sbjct: 2   AALRAIKAADPSFDVEEFLEGAREAYEMIQEAWARGDLETLRELLTPEVYEEFAAAIAER 61

Query: 207 ESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNC 257
           E+   + +  ++          A L+             +T+ F+A+ ++ 
Sbjct: 62  EAQGLTNDSTIV------GIRDAELLEAKMEGD---EAVVTVRFVAQLISV 103

Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region. This family includes the C-terminal region of Tim44 that has been shown to form a stable proteolytic fragment in yeast. This region is also found in a set of smaller bacterial proteins. The molecular function of the bacterial members of this family is unknown but transport seems likely. The crystal structure of the C terminal of Tim44 has revealed a large hydrophobic pocket which might play an important role in interacting with the acyl chains of lipid molecules in the mitochondrial membrane. Length = 146

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	259
KOG4599	379	consensus Putative mitochondrial/chloroplast ribos	99.96
PF04280	147	Tim44: Tim44-like domain; InterPro: IPR007379 Tim4	99.76
TIGR00984	378	3a0801s03tim44 mitochondrial import inner membrane	99.74
PF07961	235	MBA1: MBA1-like protein; InterPro: IPR024621 Mba1	99.63
COG4395	281	Uncharacterized protein conserved in bacteria [Fun	99.47
KOG2580	459	consensus Mitochondrial import inner membrane tran	97.75
KOG4599	379	consensus Putative mitochondrial/chloroplast ribos	96.56

>KOG4599 consensus Putative mitochondrial/chloroplast ribosomal protein L45 [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=1.2e-29  Score=237.49  Aligned_cols=161  Identities=17%  Similarity=0.303  Sum_probs=153.1

Q ss_pred             CchhhhcccceeEEEecCCcccccCCCCCCCCccccccccchhhhhHHHHHHhhhhHHHHHHHHc----CCCChhhhHHH
Q 025014           92 APAQARQMGALKVSISSPGFIYEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRK----SGYSKQKFYTE  167 (259)
Q Consensus        92 ~~~~ar~~~~~~i~i~s~G~I~dpYvPpe~~~~~~s~~t~~Gwk~~~e~l~~~~ks~~al~kIrk----~~F~~~~Fl~g  167 (259)
                      ...+.|+|..+||+++|+|+|||+||||+|++. .+.++..|.++..+.+.+.+++.+++++|++    ..|+.++|.+.
T Consensus        95 ~v~~Pr~~ne~~i~f~~~~gIfD~yVPPegdg~-~~~l~skg~~~~~~~~~k~~~~q~sir~i~~k~~~~~F~ik~f~~k  173 (379)
T KOG4599|consen   95 LVIPPRKWNERPIHFSCTGGIFDAYVPPEGDGK-KSILSSKGLIQKTEILEKTVASQMSIRRIRDKDEIENFEIKDFGAK  173 (379)
T ss_pred             cccCCccccccceEEEeecccccccCCCCCCcc-cchhcCcchhHHHHHHHHHHHHHhhhhhhccCCcccceeccccchH
Confidence            456678899999999999999999999999999 8899999999999999999999999999998    58999999999


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHhhhH---------------HHHHHHHHHHHhhhccCCeEEEEEecccccceEEEEEEe
Q 025014          168 AVDLYKEINTLMANGDKTSLRKAVTE---------------KMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLI  232 (259)
Q Consensus       168 A~~aY~~I~~AfA~GDr~~Lr~LvTe---------------~vy~~f~~~Ik~Re~~~etv~w~fVesIe~~rVV~ARl~  232 (259)
                      |+++|+++|.++++.|+..+..+|||               .+|+.|...+|..     +++|+||..+||.+||++||.
T Consensus       174 akDifIqaH~~l~~~de~kays~l~e~~fvhl~~~~~t~~~~flp~m~~k~K~~-----~vR~~~vs~leP~~vv~~rc~  248 (379)
T KOG4599|consen  174 AKDIFIQAHLCLNNSDEMKAYSFLTESEFVHLKCPSITNLLHFLPVMQEKVKKG-----TVRWSFVSVLEPSRVVYVRCD  248 (379)
T ss_pred             hHHHHHHHHHHHhcChHHHHHHHhhccccccccCCCccchhhhccccchhhccC-----ceeEEEEeecccceeEEEEec
Confidence            99999999999999999999999999               9999999998884     999999999999999999999


Q ss_pred             ecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          233 GVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       233 ~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                      +++++ .+|.+||||||+|++|.+|+|
T Consensus       249 d~~~~-s~n~~aqitvRkh~~q~Lavy  274 (379)
T KOG4599|consen  249 DDNDK-SGNFIAQITVRKHTRQCLAVY  274 (379)
T ss_pred             CCccc-ccccceeeehHHHHHHHHHHH
Confidence            87766 589999999999999999998

>PF04280 Tim44: Tim44-like domain; InterPro: IPR007379 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane []

Probab=99.76  E-value=3.2e-18  Score=140.83  Aligned_cols=103  Identities=29%  Similarity=0.405  Sum_probs=91.3

Q ss_pred             HHHHHHHHc--CCCChhhhHHHHHHHHHHHHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEecccccce
Q 025014          148 AYAIAKLRK--SGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMR  225 (259)
Q Consensus       148 ~~al~kIrk--~~F~~~~Fl~gA~~aY~~I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVesIe~~r  225 (259)
                      +.|++.|++  |+|++..|+++|+++|.+|++|+++||.+.|+++||+++|..|..+|+.|+..|.+.+-+.| .|..++
T Consensus         2 a~a~~~i~~~dp~Fd~~~F~~~ak~~f~~i~~A~~~~D~~~l~~~~t~~~~~~~~~~i~~~~~~g~~~~~~~v-~i~~~~   80 (147)
T PF04280_consen    2 ASAIKQIKQRDPGFDPAAFLEEAKEAFLPIQEAWAKGDLEALRPLLTEELYERLQAEIKARRSRGEVNDPEIV-RIDNAE   80 (147)
T ss_dssp             HHHHCCHHHH-TT--HHHHHHHHHHTHHHHHHHHHHT-HHHHHHHB-HHHHHHHHHHHHHHHHTTEEEEEEEE-EEEEEE
T ss_pred             chHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHhCHHHHHHHHHHHHHHHHcCCcccceEE-EEEEEE
Confidence            467888998  99999999999999999999999999999999999999999999999999999999999987 788888


Q ss_pred             EEEEEEeecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          226 TLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       226 VV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                      ++++...        +.+++|||||+++|+.++|
T Consensus        81 i~~~~~~--------~~~~~vtv~f~~~~~~~~~  106 (147)
T PF04280_consen   81 IVEAEQE--------GNFDQVTVRFRSQQIDYVD  106 (147)
T ss_dssp             EEEEEEE--------TTEEEEEEEEEEEEEEEEE
T ss_pred             eeeceee--------CCEEEEEEEEEEEEEEEEE
Confidence            8888864        5899999999999998854

Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region [].; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0005744 mitochondrial inner membrane presequence translocase complex; PDB: 2CW9_A 2FXT_A 3QK9_A.

>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit

Probab=99.74  E-value=2.7e-17  Score=157.19  Aligned_cols=108  Identities=18%  Similarity=0.243  Sum_probs=100.3

Q ss_pred             hhhHHHHHHHHc--CCCChhhhHHHHHHH-HHHHHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEeccc
Q 025014          145 LKSAYAIAKLRK--SGYSKQKFYTEAVDL-YKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPI  221 (259)
Q Consensus       145 ~ks~~al~kIrk--~~F~~~~Fl~gA~~a-Y~~I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVesI  221 (259)
                      ...+.+|+.|++  |+|++..|+.+|+.+ |.||++||++||++.|+++|++++|..|..+|++|+++|.+++.+|| +|
T Consensus       225 te~a~~l~eIk~~DPsFd~~~Fl~gar~aI~p~ILeAf~kGD~e~LK~~lse~vy~~f~a~I~qr~~~G~~~d~~iL-~I  303 (378)
T TIGR00984       225 TEVSEVLTEFKKIDPTFDKEHFLRFLREYIVPEILEAYVKGDLEVLKSWCSEAPFSVYATVVKEYKKMGVSTKGRIL-DI  303 (378)
T ss_pred             CHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHhhCHHHHHHHHHHHHHHHHCCCeeeeEEe-ee
Confidence            334678999999  999999999999999 89999999999999999999999999999999999999999999998 89


Q ss_pred             ccceEEEEEEeecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          222 IKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       222 e~~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                      +...|+.|++.+      .+..+.|+|||+++|+.+++
T Consensus       304 ~~veI~~ak~~e------~~~~pviiV~F~aQqI~~vR  335 (378)
T TIGR00984       304 RGVEIASGKLLE------PGDIPVLIVTFRAQEINVTK  335 (378)
T ss_pred             cCeEEEEEEecC------CCCeEEEEEEEEEEEEEEEE
Confidence            999999999843      35689999999999998864

translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.

>PF07961 MBA1: MBA1-like protein; InterPro: IPR024621 Mba1 is an inner membrane protein that is part of the mitochondrial protein export machinery [, ]

Probab=99.63  E-value=5.1e-15  Score=133.95  Aligned_cols=151  Identities=25%  Similarity=0.393  Sum_probs=129.6

Q ss_pred             ceeEEEecCCcccccCCCCCCCCccccccc--cchhhhhHHHHHHhhhhHHHHHHHHc-CCCC--hhhhHHHHHHHHHHH
Q 025014          101 ALKVSISSPGFIYEPYAPREAIPFWRRWFT--RDGWRRTKDDIILELKSAYAIAKLRK-SGYS--KQKFYTEAVDLYKEI  175 (259)
Q Consensus       101 ~~~i~i~s~G~I~dpYvPpe~~~~~~s~~t--~~Gwk~~~e~l~~~~ks~~al~kIrk-~~F~--~~~Fl~gA~~aY~~I  175 (259)
                      ..+|.+..-|...|+|+||.-.|   ++++  +..|+..+.++.-...+.+.+.+-+. .|..  -..+.+.|.+.|+.+
T Consensus         7 ~~~~~~~~iGv~~~~yipps~~p---s~~~~P~~~~~~l~rr~~~~~~Nt~~i~~fr~~~g~k~~f~~wk~~AiE~yv~~   83 (235)
T PF07961_consen    7 ISQFPIRHIGVMADTYIPPSFLP---SPFTSPKVWWKLLIRRLYMFALNTVSIAKFRRQTGKKPRFNEWKNKAIELYVQM   83 (235)
T ss_pred             cccCCcccceeccccccChhhcc---CcccChhHHHHHHHHHHHHHhhhhheeeehhhhcCCCCchhHHHHHHHHHHHHH
Confidence            34788899999999999997633   2333  35788899999888889888887777 5544  458899999999999


Q ss_pred             HHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEecccccceEEEEEEeecccCCCCCeEEEEEEEEEeeEe
Q 025014          176 NTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQV  255 (259)
Q Consensus       176 ~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVesIe~~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~  255 (259)
                      ++|||+||.+.|+++|+..+|++|.+-++.|- .+.++.|+++.-.+.|+||..+..+++.+  .+.+.|+.|||.|+|.
T Consensus        84 NkaFA~~~~~~L~~~c~~~v~~sL~~R~~~~P-~~~kl~W~L~k~~~~PKvvs~~~~~~p~~--~~~~vQ~Vvk~~TkQ~  160 (235)
T PF07961_consen   84 NKAFAAGDLDKLRKICSSWVYESLAARIKQRP-KNSKLDWKLVKYNKNPKVVSFQAIPIPGG--PLEIVQFVVKFDTKQR  160 (235)
T ss_pred             HHHHHhccHHHHHHHhhHHHHHHHHHHHHhCC-CCCeeeEEEEEecCCCeEEEEeeeecCCC--CCeEEEEEEEEeeeEE
Confidence            99999999999999999999999999999986 45699999998899999999999887665  5669999999999999


Q ss_pred             ec
Q 025014          256 NC  257 (259)
Q Consensus       256 ~A  257 (259)
                      +.
T Consensus       161 li  162 (235)
T PF07961_consen  161 LI  162 (235)
T ss_pred             EE
Confidence            84

It binds to the large subunit of mitochondrial ribosomes and cooperates with the C-terminal ribosome-binding domain of Oxa1, which is a central component of the insertion machinery of the inner membrane. In the absence of both Mba1 and the C terminus of Oxa1, mitochondrial translation products fail to be properly inserted into the inner membrane and serve as substrates of the matrix chaperone Hsp70 []. It is proposed that Mba1 functions as a ribosome receptor that cooperates with Oxa1 in the positioning of the ribosome exit site to the insertion machinery of the inner membrane [].

>COG4395 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=99.47  E-value=1.2e-13  Score=127.51  Aligned_cols=105  Identities=19%  Similarity=0.256  Sum_probs=95.9

Q ss_pred             hhHHHHHHHHc--CCCChhhhHHHHHHHHHHHHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEeccccc
Q 025014          146 KSAYAIAKLRK--SGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIK  223 (259)
Q Consensus       146 ks~~al~kIrk--~~F~~~~Fl~gA~~aY~~I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVesIe~  223 (259)
                      ....+++.+.+  +.|+|+.|+++|+.+|+||++|++.||+++|++|+|++||+.|+.+|.+||..|++.+-+|| .|..
T Consensus       132 ~~~ag~~~v~~~~~~f~p~~fl~~a~~a~~~Iq~a~~~~D~~tL~~L~tpev~~~~~~e~~e~~~~G~~~~ssfv-~~~~  210 (281)
T COG4395         132 PLAAGARAVHNADPSFDPARFLNGARAAYEMIQQAYGAGDRKTLRELLTPEVMEYLEAEIAERESKGETNQSSFV-TILQ  210 (281)
T ss_pred             ccccchhhhhcCCcccchhHHHHHHHHHHHHHHHHhhhccHHHHHHhcCHHHHHHHHHHHhhhhhcCccccceec-chhh
Confidence            45667788887  99999999999999999999999999999999999999999999999999999999999998 8999


Q ss_pred             ceEEEEEEeecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          224 MRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       224 ~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                      ..|+++-+        .+..+++||+|..+-+.++|
T Consensus       211 ~di~~a~~--------~~~~~~atv~~~~~~i~~~~  238 (281)
T COG4395         211 ADIARADV--------EGDEDYATVAIRYQGIDVTR  238 (281)
T ss_pred             hhhhhccc--------cCCceEEEEEEEeeeeeeec
Confidence            99998876        46889999999998886543

>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.75  E-value=0.00011  Score=71.87  Aligned_cols=103  Identities=17%  Similarity=0.279  Sum_probs=85.5

Q ss_pred             hHHHHHHHHc--CCCChhhhHHHHHHHHHH-HHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEeccccc
Q 025014          147 SAYAIAKLRK--SGYSKQKFYTEAVDLYKE-INTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPIIK  223 (259)
Q Consensus       147 s~~al~kIrk--~~F~~~~Fl~gA~~aY~~-I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVesIe~  223 (259)
                      ....+..|++  |+||.++|+..-++.-+= |.+|+-.||.+.|++.|.|..|+-..+.++.-...|=-.+-+++ .|+.
T Consensus       301 ~Sev~tei~~iDPsF~~~~Flr~~ee~IiPnVLeAyvkGD~evLK~wcsea~~~~~aa~~keykk~gv~~d~kIL-dI~~  379 (459)
T KOG2580|consen  301 MSEVLTEIKKIDPSFDKEDFLRECEEYIIPNVLEAYVKGDLEVLKKWCSEAPFSQLAAPIKEYKKHGVYFDSKIL-DIRG  379 (459)
T ss_pred             HHHHHHHHHhcCCCCCcHHHHHHHHHhhhHHHHHHHHhccHHHHHHHHhhhHHHHHHHHHHHHHhcCeeecceee-eecc
Confidence            3456778888  999999999999987776 99999999999999999999999999999998877777788887 7888


Q ss_pred             ceEEEEEEeecccCCCCCeEEEEEEEEEeeEeecc
Q 025014          224 MRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCP  258 (259)
Q Consensus       224 ~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~Ai  258 (259)
                      ..|..++|-+        ..=-+-|.|.+++|+.+
T Consensus       380 Vdia~~KmM~--------d~PVlIitFqaQeI~~v  406 (459)
T KOG2580|consen  380 VDIASGKMME--------DGPVLIITFQAQEIMCV  406 (459)
T ss_pred             chhHHhhhhc--------cCCEEEEEEeeEEEEEE
Confidence            7777666632        22346688889988865

>KOG4599 consensus Putative mitochondrial/chloroplast ribosomal protein L45 [Translation, ribosomal structure and biogenesis]

Probab=96.56  E-value=0.0011  Score=63.72  Aligned_cols=159  Identities=19%  Similarity=0.200  Sum_probs=113.2

Q ss_pred             cCccccccccccccccccccccCCCCCCccccccccccccccccccccccccccccCCCCchhhhcccceeEEEecCCcc
Q 025014           33 SSGVSIVPEIYSQNISSCLCKDHGALPWTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQARQMGALKVSISSPGFI  112 (259)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ar~~~~~~i~i~s~G~I  112 (259)
                      +..+.|..|..   +||.++.+|+      +.+.-.++++-+.+..+|+++             -+-|.++..+-|   +
T Consensus       182 H~~l~~~de~k---ays~l~e~~f------vhl~~~~~t~~~~flp~m~~k-------------~K~~~vR~~~vs---~  236 (379)
T KOG4599|consen  182 HLCLNNSDEMK---AYSFLTESEF------VHLKCPSITNLLHFLPVMQEK-------------VKKGTVRWSFVS---V  236 (379)
T ss_pred             HHHHhcChHHH---HHHHhhcccc------ccccCCCccchhhhccccchh-------------hccCceeEEEEe---e
Confidence            56677777755   8999999998      889999999999999999854             344556666655   6


Q ss_pred             cccCCCCCCCCccccccccchhhhhHHHHHHhhhhHHHHHHHHcCCCChhhhHHHHHHHHHHHHHHHhcCCHHHHHHhhh
Q 025014          113 YEPYAPREAIPFWRRWFTRDGWRRTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVT  192 (259)
Q Consensus       113 ~dpYvPpe~~~~~~s~~t~~Gwk~~~e~l~~~~ks~~al~kIrk~~F~~~~Fl~gA~~aY~~I~~AfA~GDr~~Lr~LvT  192 (259)
                      +|||.-.     |.+.++.          -.++++.+|+..+|+-+      . ++..+|..++.+++.+.  ..++=|+
T Consensus       237 leP~~vv-----~~rc~d~----------~~~s~n~~aqitvRkh~------~-q~Lavydrfg~lm~g~E--~i~KDv~  292 (379)
T KOG4599|consen  237 LEPSRVV-----YVRCDDD----------NDKSGNFIAQITVRKHT------R-QCLAVYDRFGRLMFGSE--DIKKDVL  292 (379)
T ss_pred             cccceeE-----EEEecCC----------cccccccceeeehHHHH------H-HHHHHHHHHHHHhccCc--ccccchh
Confidence            7776531     1111110          01225566666666511      1 89999999999999997  6677777


Q ss_pred             HHHHHHHHHHHHhhhccCCeEEEEEecccccceEEEEEEeecccCCCCCeEEEEEEEEEeeEeec
Q 025014          193 EKMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNC  257 (259)
Q Consensus       193 e~vy~~f~~~Ik~Re~~~etv~w~fVesIe~~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~A  257 (259)
                      |  |..|++.|++++..|. ++|++|.     .++.+++         ..+.++++-+.+.|..-
T Consensus       293 e--yvvfe~hi~~~~g~wr-~h~kivp-----~wi~~kq---------k~~~tl~l~~lt~~~~~  340 (379)
T KOG4599|consen  293 E--YVVFENHIQNAYGRWR-LHKKIVP-----PWIPAKQ---------KAYKTLMLFILTMEKSE  340 (379)
T ss_pred             H--HHHHHHhhhhhhhhhh-hcccccC-----ccccccc---------cchheEEeehhccCchh
Confidence            7  9999999999999998 9999974     3455553         36777777777666543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	259
3qk9_A	222	Mitochondrial import inner membrane translocase S	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>3qk9_A Mitochondrial import inner membrane translocase S TIM44; mitochondrion, protein transport; 3.10A {Saccharomyces cerevisiae} PDB: 2fxt_A Length = 222

 Score = 41.1 bits (96), Expect = 1e-04
 Identities = 20/115 (17%), Positives = 42/115 (36%), Gaps = 8/115 (6%)

Query: 144 ELKSAYAIAKLRKSGYSKQKFYTEAVDLY-KEINTLMANGDKTSLRKAVTEKMYSALKNE 202
           E    Y+  KL    +S + F     +    EI      GD   L+K  +E  ++    +
Sbjct: 60  ESSRVYSQFKLMDPTFSNESFTRHLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQ 119

Query: 203 IKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNC 257
            K  +      +  +++ I  +  + A+L+             L +   A+++N 
Sbjct: 120 QKIFKEQDVYADGRILD-IRGVEIVSAKLLAPQDI------PVLVVGCRAQEINL 167

>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 = 41.4 bits (96), Expect = 2e-04
 Identities = 30/249 (12%), Positives = 72/249 (28%), Gaps = 63/249 (25%)

Query: 49  SCL----CKDHGALP-------WTRGSTMTLRSSLAPKSLLYLNEKRFATAQPKAPAQAR 97
           + +    C  +           W     + L++  +P+++L + +K      P   +++ 
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFW-----LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218

Query: 98  QMGALKVSISSPG------FIYEPYAPREAIPF---WRRW----F---------TRDGWR 135
               +K+ I S           +PY     +             F         TR    
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPY-ENCLLVLLNVQNAKAWNAFNLSCKILLTTRF--- 274

Query: 136 RTKDDIILELKSAYAIAKLRKSGYSKQKFYTEAVDLYKEINTLMANGDKTSLRKAVTE-- 193
           +   D +    + +          +      E   L  +      +     L + V    
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTP----DEVKSLLLKY----LDCRPQDLPREVLTTN 326

Query: 194 ----KMYSALKNEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLE 249
                + +    +       W  VN + +  II+  +L      ++  +  K+F +L++ 
Sbjct: 327 PRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES-SLNV----LEPAEYRKMFDRLSV- 380

Query: 250 FLAKQVNCP 258
                 + P
Sbjct: 381 -FPPSAHIP 388

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	259
2cw9_A	194	Translocase of inner mitochondrial membrane; struc	99.83
3qk9_A	222	Mitochondrial import inner membrane translocase S	99.75

>2cw9_A Translocase of inner mitochondrial membrane; structure genomics, TIM, structural genomics, NPPFSA, riken structural genomics/proteomics initiative; HET: 1PE; 1.90A {Homo sapiens} SCOP: d.17.4.13

Probab=99.83  E-value=1.7e-20  Score=162.63  Aligned_cols=108  Identities=15%  Similarity=0.210  Sum_probs=101.5

Q ss_pred             HhhhhHHHHHHHHc--CCCChhhhHHHHHHH-HHHHHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEec
Q 025014          143 LELKSAYAIAKLRK--SGYSKQKFYTEAVDL-YKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIE  219 (259)
Q Consensus       143 ~~~ks~~al~kIrk--~~F~~~~Fl~gA~~a-Y~~I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVe  219 (259)
                      .+...+.+|++|++  |+||++.|+++|+++ |.+|++|+++||.+.|+++||++||+.|+.+|++|+.+|.+.++++| 
T Consensus        34 ~~s~~~~~l~~i~~~dp~Fd~~~Fl~~ak~~iy~~Iq~A~~~gD~~~Lr~~~t~~~~~~~~~~i~~r~~~g~~~~~~~v-  112 (194)
T 2cw9_A           34 SKTEMSEVLTEILRVDPAFDKDRFLKQCENDIIPNVLEAMISGELDILKDWCYEATYSQLAHPIQQAKALGLQFHSRIL-  112 (194)
T ss_dssp             HHHHHHHHHHHHHHHCTTCCHHHHHHHHHHTHHHHHHHHHHHTCHHHHHHHBCHHHHHHHHHHHHHHHHTTCEECCEEE-
T ss_pred             CCCHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHhcCHHHHHHHHHHHHHHHHCCCccccEEE-
Confidence            46678899999999  999999999999998 99999999999999999999999999999999999999999999998 


Q ss_pred             ccccceEEEEEEeecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          220 PIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       220 sIe~~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                      .|+.++|++|++.+        ..++|||||+++|+.++|
T Consensus       113 ~i~~~el~~a~~~~--------~~~~itV~f~~~~i~~~r  144 (194)
T 2cw9_A          113 DIDNVDLAMGKMVE--------QGPVLIITFQAQLVMVVR  144 (194)
T ss_dssp             EEEEEEEEEEEEET--------TEEEEEEEEEEEEECEEE
T ss_pred             EecccEEEEEEEeC--------CeeEEEEEEEEEEEEEEE
Confidence            79999999999863        359999999999998875

>3qk9_A Mitochondrial import inner membrane translocase S TIM44; mitochondrion, protein transport; 3.10A {Saccharomyces cerevisiae} PDB: 2fxt_A

Probab=99.75  E-value=2.4e-18  Score=152.99  Aligned_cols=109  Identities=17%  Similarity=0.191  Sum_probs=96.3

Q ss_pred             hhhhHHHHHHHHc--CCCChhhhHHHHHHH-HHHHHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEecc
Q 025014          144 ELKSAYAIAKLRK--SGYSKQKFYTEAVDL-YKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEP  220 (259)
Q Consensus       144 ~~ks~~al~kIrk--~~F~~~~Fl~gA~~a-Y~~I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVes  220 (259)
                      ....+.+|+.|++  |+|++.+|+++|+.+ |.||++||++||.+.|+++|++++|..|..+|++|+++|.+.+.++| .
T Consensus        58 ~te~a~~l~~Ik~~DPsF~~~~Fl~~a~~ai~p~Il~Af~~GD~~~Lk~llse~~y~~f~~~i~~r~~~G~~~d~~il-~  136 (222)
T 3qk9_A           58 ETESSRVYSQFKLMDPTFSNESFTRHLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRIL-D  136 (222)
T ss_dssp             --CCHHHHTTCC-----CCHHHHHHHHHHTHHHHHHHHHHHTCHHHHHHHBCHHHHHHHHHHHHHHHTTTEEECCEEE-E
T ss_pred             CCHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHHCCCEeeeeEe-e
Confidence            3445688999999  999999999999999 56899999999999999999999999999999999999999999998 8


Q ss_pred             cccceEEEEEEeecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          221 IIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       221 Ie~~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                      |+...|++|++.+      .+..+.|||||.++|+.+++
T Consensus       137 I~~vdI~~a~~~~------~~~~p~itV~f~aq~i~~~r  169 (222)
T 3qk9_A          137 IRGVEIVSAKLLA------PQDIPVLVVGCRAQEINLYR  169 (222)
T ss_dssp             EEEEEEEEEEECS------SSCCEEEEEEEEEEEECCEE
T ss_pred             ecceEEEEEEEec------CCCceEEEEEEEEEEEEEEE
Confidence            9999999999853      35789999999999998864

---

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	259
d2fxta1	192	d.17.4.13 (A:234-425) Translocase of inner mitocho	3e-10
d2cw9a1	182	d.17.4.13 (A:270-451) Translocase of inner mitocho	3e-09

>d2fxta1 d.17.4.13 (A:234-425) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 192

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: TIM44-like
domain: Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 56.1 bits (135), Expect = 3e-10
 Identities = 18/117 (15%), Positives = 44/117 (37%), Gaps = 10/117 (8%)

Query: 144 ELKSAYAIAKLRK--SGYSKQKFYTEAVDLY-KEINTLMANGDKTSLRKAVTEKMYSALK 200
           E +S+   ++ +     +S + F     +    EI      GD   L+K  +E  ++   
Sbjct: 34  ETESSRVYSQFKLMDPTFSNESFTRHLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYA 93

Query: 201 NEIKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNC 257
            + K  +      +  +++ I  +  + A+L+             L +   A+++N 
Sbjct: 94  AQQKIFKEQDVYADGRILD-IRGVEIVSAKLLAPQD------IPVLVVGCRAQEINL 143

>d2cw9a1 d.17.4.13 (A:270-451) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 182

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: TIM44-like
domain: Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.1 bits (127), Expect = 3e-09
 Identities = 16/117 (13%), Positives = 45/117 (38%), Gaps = 12/117 (10%)

Query: 146 KSAYAIAKLRK--SGYSKQKFYTEAV-DLYKEINTLMANGDKTSLRKAVTEKMYSALKNE 202
           + +  + ++ +    + K +F  +   D+   +   M +G+   L+    E  YS L + 
Sbjct: 26  EMSEVLTEILRVDPAFDKDRFLKQCENDIIPNVLEAMISGELDILKDWCYEATYSQLAHP 85

Query: 203 IKQRESMWSSVNWELIEPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY 259
           I+Q +++    +  +++            + +    + +    L + F A+ V    
Sbjct: 86  IQQAKALGLQFHSRILDIDN---------VDLAMGKMVEQGPVLIITFQAQLVMVVR 133

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	259
d2fxta1	192	Translocase of inner mitochondrial membrane TIMM44	99.87
d2cw9a1	182	Translocase of inner mitochondrial membrane TIMM44	99.86

>d2fxta1 d.17.4.13 (A:234-425) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: TIM44-like
domain: Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.87  E-value=2.1e-22  Score=172.87  Aligned_cols=108  Identities=16%  Similarity=0.180  Sum_probs=101.4

Q ss_pred             hhhHHHHHHHHc--CCCChhhhHHHHHHHHH-HHHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEeccc
Q 025014          145 LKSAYAIAKLRK--SGYSKQKFYTEAVDLYK-EINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELIEPI  221 (259)
Q Consensus       145 ~ks~~al~kIrk--~~F~~~~Fl~gA~~aY~-~I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fVesI  221 (259)
                      .....+|++|++  |+|+..+|+.||+.+|+ ||++||++||++.|++||++++|..|..+|++|++.|+++++++| +|
T Consensus        35 te~~~~l~~ik~~Dp~F~~~~Fl~gak~~~~p~Il~Af~~GD~~~Lk~lls~~vy~~f~~~I~~r~~~g~~~~~~ii-~I  113 (192)
T d2fxta1          35 TESSRVYSQFKLMDPTFSNESFTRHLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRIL-DI  113 (192)
T ss_dssp             CCSHHHHHHHHHHCTTCCHHHHHHHHHHTHHHHHHHHHHTTCHHHHHHHBCHHHHHHHHHHHHHHHHTTEECCEEEC-CC
T ss_pred             CHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHhhHHHHHHHHHHHHHHHHcCCeeeEEEe-cc
Confidence            446788999999  99999999999999998 999999999999999999999999999999999999999999998 89


Q ss_pred             ccceEEEEEEeecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          222 IKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       222 e~~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                      +.++|++|++..      .+.+++|||||+++|+.+++
T Consensus       114 ~~~~I~~a~~~~------~~~~~~itV~F~t~qi~~~~  145 (192)
T d2fxta1         114 RGVEIVSAKLLA------PQDIPVLVVGCRAQEINLYR  145 (192)
T ss_dssp             EEEEEEEEEEET------TTTEEEEEEEEEECEEECCE
T ss_pred             ceeEEEEEEEec------CCCeEEEEEEEEEEEEEEEE
Confidence            999999999864      57899999999999998763

>d2cw9a1 d.17.4.13 (A:270-451) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: TIM44-like
domain: Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=5.8e-22  Score=168.11  Aligned_cols=109  Identities=15%  Similarity=0.238  Sum_probs=101.8

Q ss_pred             HHhhhhHHHHHHHHc--CCCChhhhHHHHHH-HHHHHHHHHhcCCHHHHHHhhhHHHHHHHHHHHHhhhccCCeEEEEEe
Q 025014          142 ILELKSAYAIAKLRK--SGYSKQKFYTEAVD-LYKEINTLMANGDKTSLRKAVTEKMYSALKNEIKQRESMWSSVNWELI  218 (259)
Q Consensus       142 ~~~~ks~~al~kIrk--~~F~~~~Fl~gA~~-aY~~I~~AfA~GDr~~Lr~LvTe~vy~~f~~~Ik~Re~~~etv~w~fV  218 (259)
                      ........+|++|++  |+|+++.|++||+. +|++|++||++||.+.|++|||+++|..|..+|++|+..|.++++++|
T Consensus        22 ~~~~~~~~~l~~i~~~Dp~F~~~~Fl~gAk~~~~~~i~~A~~~gD~~~L~~llt~~~~~~f~~~i~~r~~~g~~~~~~~i  101 (182)
T d2cw9a1          22 FSKTEMSEVLTEILRVDPAFDKDRFLKQCENDIIPNVLEAMISGELDILKDWCYEATYSQLAHPIQQAKALGLQFHSRIL  101 (182)
T ss_dssp             THHHHHHHHHHHHHHHCTTCCHHHHHHHHHHTHHHHHHHHHHHTCHHHHHHHBCHHHHHHHHHHHHHHHHTTCEECCEEE
T ss_pred             CCCCHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHhhHHHHHHHHHHHHHHHHCCCeeeeeec
Confidence            345667889999999  99999999999985 999999999999999999999999999999999999999999999998


Q ss_pred             cccccceEEEEEEeecccCCCCCeEEEEEEEEEeeEeeccC
Q 025014          219 EPIIKMRTLRARLIGVDRNDLNKVFVQLTLEFLAKQVNCPY  259 (259)
Q Consensus       219 esIe~~rVV~ARl~~~~~kd~~n~~AQVTVRf~S~Q~~AiY  259 (259)
                       +|+.++|++|++.        +..++|||||+++|+.++|
T Consensus       102 -~i~~~ei~~a~~~--------~~~~~itV~F~~~qi~~~~  133 (182)
T d2cw9a1         102 -DIDNVDLAMGKMV--------EQGPVLIITFQAQLVMVVR  133 (182)
T ss_dssp             -EEEEEEEEEEEEE--------TTEEEEEEEEEEEEECEEE
T ss_pred             -ccccceeEEEEee--------CCceEEEEEEEEEehhhee
Confidence             8999999999985        3579999999999999875