Psyllid ID: psy8862

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-----
Protein Sequence
MRLNNILPNKDAKHYKKRLGRGIGSGSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHcccHHHHHHHHHHHcccHHcHHHHHHHHHHHHcccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHEEEEcccccccccccccccccccccccccccccccccEEEcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHccHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHccccHHHHHHHcccHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHEEEEEEEHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHcEEEEcccHHHcccEEEcccccccccccEEEEEcc
Coil and Loop (DISEMBL)
mrlnnilpnkdaKHYKKRlgrgigsgsgahipipsinySQLTKLFEKNQNNILGMFnmfsggalsrlTIFSLGIMPYISSSIIMQLLSSIMpkfenlkkegelGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITeyglgngtsiIICSGIISSFPNILINLLKLVKIDLVNIIEnlpnatfkvklendHVILGHISgkmrmnyirilpgdkvtveltpydlsrgriifrtk
Flexible Loop (DISEMBL)
mrlnnilpnkdaKHYKKRLGRGIGSGSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLpnatfkvklenDHVILGHISGKMRMNYIRILpgdkvtveltpydlsrgriifrtk
Low Complexity Region (SEG)
MRLNNILPNKDAKHYKKRLGRGIGSGSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYisssiimqllssimPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTsiiicsgiissFPnilinllklvkidlvniiENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK
Disordered region (IsUnstruct)
***************************GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIF***
Disordered Region (DISOPRED)
********NKDAKHYKKRLGRGIGSGSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSSIMPKFENLK****LGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDK*TVELTPYDLSRGRIIFRT*
Disordered Region (DISEMBL)
MRLNNILPNKDAKHYKKRLGRGIGSGSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK
Disordered Region (DISPRO)
*RLNNILPNKDAKHYKKRLGRGIGSGSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTV*LTPYDLSRGRIIFR**
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRLNNILPNKDAKHYKKRLGRGIGSGSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK
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	265	2.2.26 [Sep-21-2011]
Q9HWF5	442	Protein translocase subun	yes	N/A	0.671	0.402	0.489	1e-48
Q4UMQ9	433	Protein translocase subun	yes	N/A	0.652	0.399	0.514	4e-43
Q9ZCS5	433	Protein translocase subun	yes	N/A	0.652	0.399	0.531	5e-43
P43804	441	Protein translocase subun	yes	N/A	0.652	0.392	0.471	5e-43
Q68W98	433	Protein translocase subun	yes	N/A	0.652	0.399	0.525	2e-42
Q92GY6	433	Protein translocase subun	yes	N/A	0.652	0.399	0.502	3e-42
P78283	444	Protein translocase subun	yes	N/A	0.615	0.367	0.512	4e-42
Q1RHP1	433	Protein translocase subun	yes	N/A	0.652	0.399	0.514	4e-41
P49976	356	Protein translocase subun	N/A	N/A	0.652	0.485	0.522	7e-41
P0AGA5	443	Protein translocase subun	yes	N/A	0.652	0.390	0.522	1e-40

>sp|Q9HWF5|SECY_PSEAE Protein translocase subunit SecY OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=secY PE=3 SV=1

 Score =  193 bits (490), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 93/190 (48%), Positives = 132/190 (69%), Gaps = 12/190 (6%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P IN  +L  LF +N+  IL +FNMFSGGAL R++IF+LGIMPYIS+SIIMQL+
Sbjct: 35  GAHIPVPGINPDRLAALFRQNEGTILSLFNMFSGGALERMSIFALGIMPYISASIIMQLM 94

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           ++I P+ E LKKEGE G+ KI+QY R+ T++LA++Q  G+S+ L SQ  +     F F+F
Sbjct: 95  TAISPQLEQLKKEGESGRRKISQYTRYGTVVLALVQAIGMSVGLGSQ-GVAFSNDFGFYF 153

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNIL-----------INLL 196
             V T V+G +F+MWL EQITE G+GNG S++I +GI++  P  +           IN+ 
Sbjct: 154 VAVTTFVAGAMFMMWLGEQITERGVGNGISMLIFAGIVAGLPRAIGQSFESARQGDINIF 213

Query: 197 KLVKIDLVNI 206
            L+ + L+ +
Sbjct: 214 ALIGVGLLAV 223

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.
Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) (taxid: 208964)

>sp|Q4UMQ9|SECY_RICFE Protein translocase subunit SecY OS=Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) GN=secY PE=3 SV=1

 Score =  175 bits (443), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 91/177 (51%), Positives = 127/177 (71%), Gaps = 4/177 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPIP I+   L+ + EKNQ+ ILGMFNM SGG+L R++IF+L IMPYI++SII+QL+
Sbjct: 30  GSFIPIPGIDSIALSSVAEKNQSGILGMFNMLSGGSLGRMSIFALAIMPYITASIIIQLM 89

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKS----QKNLVLDTSF 143
           S      ENLKKEGE+GK K+ Q  R+ T++LA  Q  G+++ L+S       +V+   F
Sbjct: 90  SVAYKPLENLKKEGEVGKRKVNQLSRYLTVLLASFQAYGVAISLESIVTNTGPVVILAGF 149

Query: 144 YFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           +F  TTV+TLV GT+ LMWL EQIT+ G+GNGTS+II  GIIS  P+ +I++ +L +
Sbjct: 150 FFRVTTVITLVVGTMLLMWLGEQITQRGIGNGTSLIIFIGIISGVPSAIISMFELSR 206

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (taxid: 315456)

>sp|Q9ZCS5|SECY_RICPR Protein translocase subunit SecY OS=Rickettsia prowazekii (strain Madrid E) GN=secY PE=3 SV=1

 Score =  174 bits (442), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 94/177 (53%), Positives = 124/177 (70%), Gaps = 4/177 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPIP I+   L  + EKNQ  ILGMFNM SGG+L R++IF+L IMPYI++SII+QL+
Sbjct: 30  GSFIPIPGIDSIALNSVAEKNQFGILGMFNMLSGGSLGRMSIFALAIMPYITASIIIQLM 89

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN----LVLDTSF 143
           S      ENLKKEGE GK KI Q  R+ T++LA  Q  G++L L+S       +V+   F
Sbjct: 90  SVAYKPLENLKKEGETGKRKINQLSRYLTVLLASFQAYGVALSLESMVTNTGPVVILAGF 149

Query: 144 YFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           +F  TTV+TLV GTI LMWL EQIT+ G+GNGTS+II  GIIS  P+ +I++ +L +
Sbjct: 150 FFRVTTVITLVVGTILLMWLGEQITQRGIGNGTSLIIFIGIISGVPSAIISMFELSR 206

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Rickettsia prowazekii (strain Madrid E) (taxid: 272947)

>sp|P43804|SECY_HAEIN Protein translocase subunit SecY OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=secY PE=3 SV=1

 Score =  174 bits (442), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 82/174 (47%), Positives = 125/174 (71%), Gaps = 1/174 (0%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IP+P I+ + L +L E+ +  I+ MFNMFSGGALSR +I +LGIMPYIS+SI++QLL
Sbjct: 36  GSFIPVPGIDAAVLAQLVEQQKGTIIDMFNMFSGGALSRASILALGIMPYISASIVIQLL 95

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ-KNLVLDTSFYFH 146
           +++ P    LKKEG  G+ KI++Y R++T++ A +Q   IS  L +    LV +  F F+
Sbjct: 96  ATVSPALAELKKEGAAGQRKISKYTRYATVVFATIQAVAISTGLPNMLSGLVPNVGFSFY 155

Query: 147 FTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           FT+V++LV+GT+FLMWL EQITE G+GNG SI++  GI++  P+ ++  ++  +
Sbjct: 156 FTSVVSLVTGTMFLMWLGEQITERGIGNGISILVFGGIVAGLPSAILQTIEQAR 209

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

>sp|Q68W98|SECY_RICTY Protein translocase subunit SecY OS=Rickettsia typhi (strain ATCC VR-144 / Wilmington) GN=secY PE=3 SV=1

 Score =  172 bits (437), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 93/177 (52%), Positives = 124/177 (70%), Gaps = 4/177 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPIP I+   L  + EKNQ  ILGMFNM SGG+L R++IF+L IMPYI++SII+QL+
Sbjct: 30  GSFIPIPGIDSIALNSVAEKNQFGILGMFNMLSGGSLGRMSIFALAIMPYITASIIIQLM 89

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN----LVLDTSF 143
           S      ENLKKEGE GK KI Q  R+ T++LA  Q  G++L L+S       +V+   F
Sbjct: 90  SVAYKPLENLKKEGESGKRKINQLSRYLTVLLASFQAYGVALSLESMVTNTGPVVILAGF 149

Query: 144 YFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           +F  TTV+TLV GT+ LMWL EQIT+ G+GNGTS+II  GIIS  P+ +I++ +L +
Sbjct: 150 FFRVTTVITLVVGTMLLMWLGEQITQRGIGNGTSLIIFIGIISGVPSAIISMFELSR 206

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Rickettsia typhi (strain ATCC VR-144 / Wilmington) (taxid: 257363)

>sp|Q92GY6|SECY_RICCN Protein translocase subunit SecY OS=Rickettsia conorii (strain ATCC VR-613 / Malish 7) GN=secY PE=3 SV=1

 Score =  171 bits (434), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 89/177 (50%), Positives = 126/177 (71%), Gaps = 4/177 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPIP I+   L+ +  +NQ+ ILGMFNM SGG+L R++IF+L IMPYI++SII+QL+
Sbjct: 30  GSFIPIPGIDSIALSSVAAQNQSGILGMFNMLSGGSLGRMSIFALAIMPYITASIIIQLM 89

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKS----QKNLVLDTSF 143
           S      ENLKKEGE+GK K+ Q  R+ T++LA  Q  G+++ L+S       +V+   F
Sbjct: 90  SVAYKPLENLKKEGEVGKRKVNQLSRYLTVLLASFQAYGVAISLESIVTNTGPVVILAGF 149

Query: 144 YFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           +F  TTV+TLV GT+ LMWL EQIT+ G+GNGTS+II  GIIS  P+ +I++ +L +
Sbjct: 150 FFRITTVITLVVGTMLLMWLGEQITQRGIGNGTSLIIFIGIISGVPSAIISMFELSR 206

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Rickettsia conorii (strain ATCC VR-613 / Malish 7) (taxid: 272944)

>sp|P78283|SECY_VIBCH Protein translocase subunit SecY OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=secY PE=3 SV=2

 Score =  171 bits (433), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 85/166 (51%), Positives = 119/166 (71%), Gaps = 3/166 (1%)

Query: 27  SGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQL 86
           +G+ +PIP I+ + L +LFE+ +  I+ MFNMFSGGAL R +I +LGIMPYIS+SI++QL
Sbjct: 35  AGSFVPIPGIDAAVLAELFEQQKGTIVEMFNMFSGGALERASILALGIMPYISASIVVQL 94

Query: 87  LSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN--LVLDTSFY 144
           L+ + P    LKKEGE G+ KI+QY R+ TL+LA  Q  GI+  L +  N  +V+D + +
Sbjct: 95  LTVVHPALAELKKEGEAGRRKISQYTRYGTLVLATFQAIGIATGLPNMVNNLVVIDQTMF 154

Query: 145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPN 190
               TV +LV+GT+FLMWL EQITE G+GNG SI+I +GI++  P 
Sbjct: 155 TLIATV-SLVTGTMFLMWLGEQITERGIGNGISILIFAGIVAGLPK 199

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) (taxid: 243277)

>sp|Q1RHP1|SECY_RICBR Protein translocase subunit SecY OS=Rickettsia bellii (strain RML369-C) GN=secY PE=3 SV=1

 Score =  168 bits (426), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 91/177 (51%), Positives = 124/177 (70%), Gaps = 4/177 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPI  I+   L  + EKNQ+ ILGMFNM SGG+L R++IF+L IMPYI++SII+QL+
Sbjct: 30  GSFIPIAGIDAIALGSIAEKNQSGILGMFNMLSGGSLGRMSIFALAIMPYITASIIIQLM 89

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKS----QKNLVLDTSF 143
           S      ENLKKEGE GK KI Q  R+ T++LA LQ  G+++ L+S       +V+    
Sbjct: 90  SVAYKPLENLKKEGEAGKRKINQLSRYLTVLLASLQAYGVAVSLESIVTNTGPVVIIPGL 149

Query: 144 YFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           +F  TTV+TLV GT+ LMWL EQIT+ G+GNGTS+II  GIIS  P+ +I++ +L +
Sbjct: 150 FFKITTVITLVVGTMLLMWLGEQITQRGIGNGTSLIIFIGIISGVPSAIISMFELSR 206

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Rickettsia bellii (strain RML369-C) (taxid: 336407)

>sp|P49976|SECY_BUCAK Protein translocase subunit SecY (Fragment) OS=Buchnera aphidicola subsp. Acyrthosiphon kondoi GN=secY PE=3 SV=1

 Score =  167 bits (423), Expect = 7e-41,   Method: Compositional matrix adjust.
 Identities = 92/176 (52%), Positives = 128/176 (72%), Gaps = 3/176 (1%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPIP I+ + L KL E+ +  I+ MFNMFSGGALSR +IF+LGIMPYIS+SII+QLL
Sbjct: 36  GSFIPIPGIDATVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLL 95

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKS---QKNLVLDTSFY 144
           + + P    +KKEGE G+ KI+QY R+ TL+LAI Q  GI+  L +    + LV++  F 
Sbjct: 96  TVVHPALAEVKKEGEAGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVMNPGFA 155

Query: 145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           F+FT V++LV+GT+FLMWL EQITE G+GNG SIII +GI++  P  + + ++  +
Sbjct: 156 FYFTAVVSLVTGTMFLMWLGEQITERGIGNGISIIIFAGIVAGLPPAVAHTIEQAR 211

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

Buchnera aphidicola subsp. Acyrthosiphon kondoi (taxid: 42474)

>sp|P0AGA5|SECY_SHIFL Protein translocase subunit SecY OS=Shigella flexneri GN=secY PE=3 SV=1

 Score =  166 bits (421), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 92/176 (52%), Positives = 128/176 (72%), Gaps = 3/176 (1%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPIP I+ + L KL E+ +  I+ MFNMFSGGALSR +IF+LGIMPYIS+SII+QLL
Sbjct: 36  GSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLL 95

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKS---QKNLVLDTSFY 144
           + + P    +KKEGE G+ KI+QY R+ TL+LAI Q  GI+  L +    + LV++  F 
Sbjct: 96  TVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFA 155

Query: 145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           F+FT V++LV+GT+FLMWL EQITE G+GNG SIII +GI++  P  + + ++  +
Sbjct: 156 FYFTAVVSLVTGTMFLMWLGEQITERGIGNGISIIIFAGIVAGLPPAIAHTIEQAR 211

The central subunit of the protein translocation channel SecYEG. Consists of two halves formed by TMs 1-5 and 6-10. These two domains form a lateral gate at the front which open onto the bilayer between TMs 2 and 7, and are clamped together by SecE at the back. The channel is closed by both a pore ring composed of hydrophobic SecY resides and a short helix (helix 2A) on the extracellular side of the membrane which forms a plug. The plug probably moves laterally to allow the channel to open. The ring and the pore may move independently.

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	265
300309476	443	preprotein translocase subunit SecY tran	0.690	0.413	0.606	3e-57
409408722	424	preprotein translocase SecY transmembran	0.690	0.431	0.606	4e-57
415943231	424	Preprotein translocase [Herbaspirillum f	0.690	0.431	0.606	4e-57
134096301	443	preprotein translocase membrane subunit	0.826	0.494	0.525	5e-57
452126802	441	preprotein translocase subunit SecY [Bor	0.826	0.496	0.515	1e-56
152980370	443	preprotein translocase subunit SecY [Jan	0.826	0.494	0.525	2e-56
329905509	443	Preprotein translocase secY subunit [Oxa	0.652	0.390	0.624	1e-55
149926586	435	protein translocase subunit SecY [Limnob	0.826	0.503	0.506	3e-55
237747385	444	preprotein translocase SecY subunit [Oxa	0.690	0.412	0.579	4e-55
332530060	439	preprotein translocase subunit SecY [Hyl	0.826	0.498	0.520	1e-54

>gi|300309476|ref|YP_003773568.1| preprotein translocase subunit SecY transmembrane protein [Herbaspirillum seropedicae SmR1] gi|300072261|gb|ADJ61660.1| preprotein translocase SecY transmembrane protein [Herbaspirillum seropedicae SmR1]

 Score =  227 bits (579), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 111/183 (60%), Positives = 138/183 (75%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P I+ +QL +LF++NQ  ILGMFNMFSGGALSR TIF+LGIMPYIS+SIIMQLL
Sbjct: 33  GAHIPVPGIDPTQLAQLFKQNQGGILGMFNMFSGGALSRFTIFALGIMPYISASIIMQLL 92

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S + P+ E LKKEGE G+ KI QY R+ TL+LA  Q  GI++ L+SQ  LVLD    F  
Sbjct: 93  SVVSPQLEALKKEGEAGRRKITQYTRYGTLVLATFQALGIAVALESQAGLVLDPGLAFRL 152

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           TTV+TL++GT+FLMWL EQITE GLGNG SIII +GI +  PN L  L +LV+   +N +
Sbjct: 153 TTVVTLITGTMFLMWLGEQITERGLGNGISIIIFAGIAAGLPNALGGLFELVRTGSMNAL 212

Query: 208 ENL 210
             +
Sbjct: 213 SAI 215

Source: Herbaspirillum seropedicae SmR1

Species: Herbaspirillum seropedicae

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|409408722|ref|ZP_11257157.1| preprotein translocase SecY transmembrane protein [Herbaspirillum sp. GW103] gi|386432044|gb|EIJ44872.1| preprotein translocase SecY transmembrane protein [Herbaspirillum sp. GW103]

 Score =  227 bits (579), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 111/183 (60%), Positives = 138/183 (75%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P I+ +QL +LF++NQ  ILGMFNMFSGGALSR TIF+LGIMPYIS+SIIMQLL
Sbjct: 14  GAHIPVPGIDPTQLAQLFKQNQGGILGMFNMFSGGALSRFTIFALGIMPYISASIIMQLL 73

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S + P+ E LKKEGE G+ KI QY R+ TL+LA  Q  GI++ L+SQ  LVLD    F  
Sbjct: 74  SVVSPQLEALKKEGEAGRRKITQYTRYGTLVLATFQALGIAVALESQAGLVLDPGLAFRL 133

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           TTV+TL++GT+FLMWL EQITE GLGNG SIII +GI +  PN L  L +LV+   +N +
Sbjct: 134 TTVVTLITGTMFLMWLGEQITERGLGNGISIIIFAGIAAGLPNALGGLFELVRTGSMNAL 193

Query: 208 ENL 210
             +
Sbjct: 194 SAI 196

Source: Herbaspirillum sp. GW103

Species: Herbaspirillum sp. GW103

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|415943231|ref|ZP_11556031.1| Preprotein translocase [Herbaspirillum frisingense GSF30] gi|407758747|gb|EKF68531.1| Preprotein translocase [Herbaspirillum frisingense GSF30]

 Score =  227 bits (578), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 111/183 (60%), Positives = 138/183 (75%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P I+ +QL +LF++NQ  ILGMFNMFSGGALSR TIF+LGIMPYIS+SIIMQLL
Sbjct: 14  GAHIPVPGIDPTQLAQLFKQNQGGILGMFNMFSGGALSRFTIFALGIMPYISASIIMQLL 73

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S + P+ E LKKEGE G+ KI QY R+ TL+LA  Q  GI++ L+SQ  LVLD    F  
Sbjct: 74  SVVSPQLEALKKEGEAGRRKITQYTRYGTLVLATFQALGIAVALESQAGLVLDPGLAFRM 133

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           TTV+TL++GT+FLMWL EQITE GLGNG SIII +GI +  PN L  L +LV+   +N +
Sbjct: 134 TTVVTLITGTMFLMWLGEQITERGLGNGISIIIFAGIAAGLPNALGGLFELVRTGSMNAL 193

Query: 208 ENL 210
             +
Sbjct: 194 SAI 196

Source: Herbaspirillum frisingense GSF30

Species: Herbaspirillum frisingense

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|134096301|ref|YP_001101376.1| preprotein translocase membrane subunit [Herminiimonas arsenicoxydans] gi|133740204|emb|CAL63255.1| Preprotein translocase SecY subunit [Herminiimonas arsenicoxydans]

 Score =  227 bits (578), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 115/219 (52%), Positives = 152/219 (69%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P IN  +L +LF++NQ  ILGMFNMFSGGALSR T+F+LGIMPYIS+SIIMQL+
Sbjct: 33  GAHIPVPGINPDELAQLFKQNQGGILGMFNMFSGGALSRFTVFALGIMPYISASIIMQLM 92

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S + P+ E LKKEGE G+ KI QY R+ TL+LA  QG GI++ L+SQ NLV+D    F  
Sbjct: 93  SVVSPQMEALKKEGESGRRKITQYTRYGTLLLATFQGLGIAVALESQANLVIDPGMAFRL 152

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           TTV+TLV+GT+FLMWL EQITE GLGNG SIII +GI +  P+ +  L +LV+   +N +
Sbjct: 153 TTVITLVTGTMFLMWLGEQITERGLGNGISIIIFAGIAAGLPSAVAGLFELVRTGSMNAL 212

Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKV 246
             +        +    V +     K+ +NY +   G+K+
Sbjct: 213 SAILICLVVAAVTYLVVFIERGQRKILVNYAKRQVGNKI 251

Source: Herminiimonas arsenicoxydans

Species: Herminiimonas arsenicoxydans

Genus: Herminiimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|452126802|ref|ZP_21939385.1| preprotein translocase subunit SecY [Bordetella holmesii F627] gi|452130175|ref|ZP_21942748.1| preprotein translocase subunit SecY [Bordetella holmesii H558] gi|451921897|gb|EMD72042.1| preprotein translocase subunit SecY [Bordetella holmesii F627] gi|451923035|gb|EMD73179.1| preprotein translocase subunit SecY [Bordetella holmesii H558]

 Score =  226 bits (575), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 113/219 (51%), Positives = 152/219 (69%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G HIP+P IN   L  LF +NQ  ILG+FNMFSGGALSR +IF+LGIMPYIS+SIIMQL+
Sbjct: 34  GTHIPVPGINPDALADLFRQNQGGILGLFNMFSGGALSRFSIFALGIMPYISASIIMQLM 93

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S ++P  E LKKEGE G+ KI QY R+ T++LA++Q  GIS+ L+SQ  LV+D    F F
Sbjct: 94  SVVVPSLEALKKEGEAGRRKITQYTRYGTVVLALVQAVGISVALESQPGLVVDPGMLFRF 153

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           TT++TLV+GT+F+MWL EQITE GLGNG SI+I +GI++  P  L  LL LV+ + ++++
Sbjct: 154 TTIVTLVTGTMFVMWLGEQITERGLGNGISILIFTGIVAGLPTALAGLLDLVRTNSMSVV 213

Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKV 246
             L      V +    V +     K+ +NY +   G+KV
Sbjct: 214 SALFIIALVVLVTAFVVFVERGQRKITVNYAKRQVGNKV 252

Source: Bordetella holmesii F627

Species: Bordetella holmesii

Genus: Bordetella

Family: Alcaligenaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|152980370|ref|YP_001355081.1| preprotein translocase subunit SecY [Janthinobacterium sp. Marseille] gi|151280447|gb|ABR88857.1| preprotein translocase SecY subunit [Janthinobacterium sp. Marseille]

 Score =  224 bits (572), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 115/219 (52%), Positives = 151/219 (68%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P I+  QL +LF++NQ  ILGMFNMFSGGALSR TIF+LGIMPYIS+SIIMQL+
Sbjct: 33  GAHIPVPGIDPEQLAQLFKQNQGGILGMFNMFSGGALSRFTIFALGIMPYISASIIMQLM 92

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S + P+ E LKKEGE G+ KI QY R+ TL+LA  QG GI++ L+SQ  LV+D    F  
Sbjct: 93  SVVSPQLEALKKEGESGRRKITQYTRYGTLLLATFQGLGIAVALESQIGLVIDPGMAFRL 152

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           TTV+TLV+GT+FLMWL EQITE GLGNG SIII +GI +  P+ +  L +LV+   +N +
Sbjct: 153 TTVITLVTGTMFLMWLGEQITERGLGNGISIIIFAGIAAGLPSAVAGLFELVRTGSMNAL 212

Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKV 246
             +        +    V +     K+ +NY +   G+K+
Sbjct: 213 SAILICVVVAAVTYLVVFIERGQRKILVNYAKRQVGNKI 251

Source: Janthinobacterium sp. Marseille

Species: Janthinobacterium sp. Marseille

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|329905509|ref|ZP_08274148.1| Preprotein translocase secY subunit [Oxalobacteraceae bacterium IMCC9480] gi|327547577|gb|EGF32378.1| Preprotein translocase secY subunit [Oxalobacteraceae bacterium IMCC9480]

 Score =  222 bits (566), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 108/173 (62%), Positives = 132/173 (76%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P I+  QL +LF++NQ  ILGMFNMFSGGALSR T+F+LGIMPYIS+SIIMQL+
Sbjct: 33  GAHIPVPGIDPQQLAQLFKQNQGGILGMFNMFSGGALSRFTVFALGIMPYISASIIMQLM 92

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S + P+ E LKKEGE G+ KI QY R+ TL LA+ Q  GI++ L+SQ  LVLD    F F
Sbjct: 93  SIVSPQLEALKKEGESGRRKITQYTRYGTLFLALFQALGIAVALESQAGLVLDPGLAFRF 152

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK 200
           T V+TLV+GT+FLMWL EQITE GLGNG SIII +GI +  P  L  L +LV+
Sbjct: 153 TCVVTLVTGTMFLMWLGEQITERGLGNGISIIIFAGIAAGLPTALGGLFELVR 205

Source: Oxalobacteraceae bacterium IMCC9480

Species: Oxalobacteraceae bacterium IMCC9480

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|149926586|ref|ZP_01914846.1| protein translocase subunit SecY [Limnobacter sp. MED105] gi|149824515|gb|EDM83731.1| protein translocase subunit SecY [Limnobacter sp. MED105]

 Score =  221 bits (562), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 111/219 (50%), Positives = 147/219 (67%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P I+ +QL +LF+  Q  ILGMFNMFSGGALSR T+F+LGIMPYIS+SI+MQL 
Sbjct: 27  GAHIPVPGIDPTQLKQLFDSQQGGILGMFNMFSGGALSRFTVFALGIMPYISASIVMQLA 86

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S ++P+ E LKKEGE G+ KI QY R+ T  LA  Q  GIS+ L+SQ  LV+D    F F
Sbjct: 87  SVVVPQLEALKKEGEAGRRKITQYTRYGTFFLATFQAIGISIALESQAGLVIDPGMAFRF 146

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           TT ++LV+GT+FLMWL EQITE GLGNG SI+I +GI +  P  +  L +LV+   +N +
Sbjct: 147 TTAVSLVTGTMFLMWLGEQITERGLGNGISILIFAGIAAGLPGAIGGLFELVRTGAMNSL 206

Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKV 246
             L      V +    V +     K+ +NY +   G+K+
Sbjct: 207 VALMIVVLAVAVTYLVVFVERGQRKITVNYAKRQVGNKI 245

Source: Limnobacter sp. MED105

Species: Limnobacter sp. MED105

Genus: Limnobacter

Family: Burkholderiaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|237747385|ref|ZP_04577865.1| preprotein translocase SecY subunit [Oxalobacter formigenes HOxBLS] gi|229378736|gb|EEO28827.1| preprotein translocase SecY subunit [Oxalobacter formigenes HOxBLS]

 Score =  220 bits (561), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 106/183 (57%), Positives = 136/183 (74%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P I+  QL  LF +NQ  ILGMFNMFSGGALSR T+F+LGIMPYIS+SIIMQ+L
Sbjct: 33  GAHIPVPGIDSEQLALLFRQNQGGILGMFNMFSGGALSRFTVFALGIMPYISASIIMQML 92

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
             + P+ + LKKEGE G+ K+ QY R+ TL+LA  QG GI++ L+SQ  LV+D    F F
Sbjct: 93  GIVSPQIDALKKEGEAGRRKMTQYTRYGTLVLAAFQGLGIAVALESQPGLVIDPGLAFRF 152

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           T V+TLV+GT+FLMWL EQITE GLGNG S+II +GI +  PN +  L++LV+   +N +
Sbjct: 153 TAVVTLVTGTMFLMWLGEQITERGLGNGISMIIFAGIAAGLPNAIGGLVELVRTGSMNTL 212

Query: 208 ENL 210
             L
Sbjct: 213 TAL 215

Source: Oxalobacter formigenes HOxBLS

Species: Oxalobacter formigenes

Genus: Oxalobacter

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|332530060|ref|ZP_08406010.1| preprotein translocase subunit SecY [Hylemonella gracilis ATCC 19624] gi|332040533|gb|EGI76909.1| preprotein translocase subunit SecY [Hylemonella gracilis ATCC 19624]

 Score =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 114/219 (52%), Positives = 148/219 (67%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GAHIP+P IN  QL +LF+  Q  IL +FNMFSGGALSR T+F+LGIMPYIS+SIIMQLL
Sbjct: 34  GAHIPVPGINPDQLAQLFKGQQGGILSLFNMFSGGALSRFTVFALGIMPYISASIIMQLL 93

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           + ++P FE LKKEGE G+ KI QY R++TL LA+ Q  GI++ L+S   LV+D    F F
Sbjct: 94  TYVLPTFEQLKKEGEAGRRKITQYTRYATLGLAVFQSLGIAIALESSPGLVIDPGMGFRF 153

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
           T V+TL +GT+FLMWL EQITE GLGNG SI+I  GI +  P  +  LL+LV+   ++II
Sbjct: 154 TAVVTLTAGTMFLMWLGEQITERGLGNGISILIFGGIAAGLPGAIGGLLELVRTGSMSII 213

Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKV 246
             L      + +    V +     K+ +NY R   G+KV
Sbjct: 214 AALFIVALVILVTWFVVFVERGQRKILVNYARRQVGNKV 252

Source: Hylemonella gracilis ATCC 19624

Species: Hylemonella gracilis

Genus: Hylemonella

Family: Comamonadaceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

---

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	265
TIGR_CMR|CBU_0258	442	CBU_0258 "preprotein transloca	0.607	0.364	0.462	7.2e-36
UNIPROTKB|P0AGA2	443	secY [Escherichia coli K-12 (t	0.558	0.334	0.509	6.5e-35
NCBI_NP|NP_354903.2	446	prlA "preprotein translocase s	0.558	0.331	0.479	4.6e-34
TIGR_CMR|SO_0251	446	SO_0251 "preprotein translocas	0.562	0.334	0.493	2.5e-33
TIGR_CMR|CPS_0621	445	CPS_0621 "preprotein transloca	0.558	0.332	0.469	3.2e-33
UNIPROTKB|P78283	444	secY "Protein translocase subu	0.558	0.333	0.476	2e-31
TIGR_CMR|VC_2576	444	VC_2576 "preprotein translocas	0.558	0.333	0.476	2e-31
TIGR_CMR|GSU_2837	435	GSU_2837 "preprotein transloca	0.558	0.340	0.437	3.3e-31
TIGR_CMR|SPO_0506	455	SPO_0506 "preprotein transloca	0.554	0.323	0.466	3e-30
TIGR_CMR|CHY_2289	419	CHY_2289 "preprotein transloca	0.539	0.341	0.418	9.4e-27

TIGR_CMR|CBU_0258 CBU_0258 "preprotein translocase, SecY subunit" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 387 (141.3 bits), Expect = 7.2e-36, P = 7.2e-36
 Identities = 75/162 (46%), Positives = 106/162 (65%)

Query:    28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
             GA+IP+P ++ S+L  LF +++   LGMFNMFSGGALSR+TIF+LG+MPY          
Sbjct:    35 GAYIPVPGLDPSRLAALFHQHETGFLGMFNMFSGGALSRMTIFALGVMPYISSSIIVQMY 94

Query:    88 XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
                 PK + L+KEGE G+ KI QY R+ T+IL++LQ + ++  L S    V++ +  F+F
Sbjct:    95 SQISPKMQALRKEGEAGRRKINQYTRYGTVILSLLQSAFMTKWLVSS-GTVINPNLGFYF 153

Query:   148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTXXXXXXXXXXXFP 189
             T ++TLV+GT+FLMWL EQ+TE G+GNG            FP
Sbjct:   154 TAIVTLVTGTMFLMWLGEQMTERGVGNGISLIIFASIASRFP 195

GO:0005887 "integral to plasma membrane" evidence=ISS

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

GO:0015627 "type II protein secretion system complex" evidence=ISS

GO:0015628 "protein secretion by the type II secretion system" evidence=ISS

UNIPROTKB|P0AGA2 secY [Escherichia coli K-12 (taxid:83333)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 77/151 (50%), Positives = 101/151 (66%)

Query:    28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
             G+ IPIP I+ + L KL E+ +  I+ MFNMFSGGALSR +IF+LGIMPY          
Sbjct:    36 GSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLL 95

Query:    88 XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ---KNLVLDTSFY 144
                 P    +KKEGE G+ KI+QY R+ TL+LAI Q  GI+  L +    + LV++  F 
Sbjct:    96 TVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFA 155

Query:   145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNG 175
             F+FT V++LV+GT+FLMWL EQITE G+GNG
Sbjct:   156 FYFTAVVSLVTGTMFLMWLGEQITERGIGNG 186

GO:0043952 "protein transport by the Sec complex" evidence=IMP

GO:0065002 "intracellular protein transmembrane transport" evidence=IMP

GO:0006886 "intracellular protein transport" evidence=IMP

GO:0016021 "integral to membrane" evidence=IEA;IDA

GO:0005886 "plasma membrane" evidence=IEA;IDA

GO:0005622 "intracellular" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

NCBI_NP|NP_354903.2 prlA "preprotein translocase subunit SecY" [Agrobacterium fabrum str. C58 (taxid:176299)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 71/148 (47%), Positives = 93/148 (62%)

Query:    28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
             G HIP+P +N     + F    N ILG+FNMF+GGA+ R+ IF+LGIMPY          
Sbjct:    40 GTHIPLPGLNPEAYAQAFRGQANGILGLFNMFAGGAVERMAIFALGIMPYISASIIVQLM 99

Query:    88 XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
                 P  E LKKEGE G+  I QY R+ T++L  LQ  GI++ L+S   LV+D   +F  
Sbjct:   100 TSVVPSLEALKKEGEAGRKIINQYTRYGTVLLGTLQAYGIAVGLESGNGLVVDPGMFFRV 159

Query:   148 TTVLTLVSGTIFLMWLSEQITEYGLGNG 175
             +TV+TL+ GT+FLMWL EQIT  G+GNG
Sbjct:   160 STVITLLGGTMFLMWLGEQITSRGIGNG 187

GO:0015627 "type II protein secretion system complex" evidence=ISS

GO:0015628 "protein secretion by the type II secretion system" evidence=ISS

TIGR_CMR|SO_0251 SO_0251 "preprotein translocase, SecY subunit" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 74/150 (49%), Positives = 97/150 (64%)

Query:    27 SGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXX 86
             +G+ +PIP I+ + L +LF +    ILGMFNMFSGGAL R +IF+LGIMPY         
Sbjct:    34 AGSFVPIPGIDAAVLAELFAQQSGTILGMFNMFSGGALERASIFALGIMPYISASIIMQL 93

Query:    87 XXXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ-KNLVLDTSFYF 145
                  P    LKKEGE G+ KI+QY R+ TL+L   Q  GI+  L +    LV++  F F
Sbjct:    94 LTVVHPALAELKKEGESGRKKISQYTRWGTLVLGTFQSVGIATGLPNLVPGLVVNIGFGF 153

Query:   146 HFTTVLTLVSGTIFLMWLSEQITEYGLGNG 175
             +F  V++LV+GT+FLMWL EQITE G+GNG
Sbjct:   154 YFVAVVSLVTGTMFLMWLGEQITERGIGNG 183

GO:0006886 "intracellular protein transport" evidence=ISS

GO:0008565 "protein transporter activity" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|CPS_0621 CPS_0621 "preprotein translocase, SecY subunit" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 362 (132.5 bits), Expect = 3.2e-33, P = 3.2e-33
 Identities = 70/149 (46%), Positives = 98/149 (65%)

Query:    28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
             G+ +PIP I+ + L + FE+ +  I+ MFNMFSGGAL R ++ +LGIMPY          
Sbjct:    38 GSFVPIPGIDAAVLAQFFEQQKGTIVEMFNMFSGGALERASVLALGIMPYISASIIMQLL 97

Query:    88 XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLIL-KSQKNLVLDTSFYFH 146
                 P    LKKEGE G+ KI+QY R+ TL+LA +Q   I+  L +  + LV++  F F+
Sbjct:    98 TVVHPAMAELKKEGEAGRRKISQYTRYGTLVLATVQSIAIARSLPEMMQGLVINAGFSFY 157

Query:   147 FTTVLTLVSGTIFLMWLSEQITEYGLGNG 175
             FT V++L++GT+FLMWL EQITE G+GNG
Sbjct:   158 FTAVISLITGTMFLMWLGEQITERGIGNG 186

GO:0006886 "intracellular protein transport" evidence=ISS

GO:0008565 "protein transporter activity" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

GO:0016020 "membrane" evidence=ISS

UNIPROTKB|P78283 secY "Protein translocase subunit SecY" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 345 (126.5 bits), Expect = 2.0e-31, P = 2.0e-31
 Identities = 72/151 (47%), Positives = 97/151 (64%)

Query:    27 SGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXX 86
             +G+ +PIP I+ + L +LFE+ +  I+ MFNMFSGGAL R +I +LGIMPY         
Sbjct:    35 AGSFVPIPGIDAAVLAELFEQQKGTIVEMFNMFSGGALERASILALGIMPYISASIVVQL 94

Query:    87 XXXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN--LVLDTSFY 144
                  P    LKKEGE G+ KI+QY R+ TL+LA  Q  GI+  L +  N  +V+D + +
Sbjct:    95 LTVVHPALAELKKEGEAGRRKISQYTRYGTLVLATFQAIGIATGLPNMVNNLVVIDQTMF 154

Query:   145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNG 175
                 TV +LV+GT+FLMWL EQITE G+GNG
Sbjct:   155 TLIATV-SLVTGTMFLMWLGEQITERGIGNG 184

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|VC_2576 VC_2576 "preprotein translocase, SecY subunit" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 345 (126.5 bits), Expect = 2.0e-31, P = 2.0e-31
 Identities = 72/151 (47%), Positives = 97/151 (64%)

Query:    27 SGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXX 86
             +G+ +PIP I+ + L +LFE+ +  I+ MFNMFSGGAL R +I +LGIMPY         
Sbjct:    35 AGSFVPIPGIDAAVLAELFEQQKGTIVEMFNMFSGGALERASILALGIMPYISASIVVQL 94

Query:    87 XXXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN--LVLDTSFY 144
                  P    LKKEGE G+ KI+QY R+ TL+LA  Q  GI+  L +  N  +V+D + +
Sbjct:    95 LTVVHPALAELKKEGEAGRRKISQYTRYGTLVLATFQAIGIATGLPNMVNNLVVIDQTMF 154

Query:   145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNG 175
                 TV +LV+GT+FLMWL EQITE G+GNG
Sbjct:   155 TLIATV-SLVTGTMFLMWLGEQITERGIGNG 184

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|GSU_2837 GSU_2837 "preprotein translocase, SecY subunit" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 343 (125.8 bits), Expect = 3.3e-31, P = 3.3e-31
 Identities = 67/153 (43%), Positives = 96/153 (62%)

Query:    28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
             G HIP P I+ + L   F + +  +LG+F+MFSGGAL +LT+F+LGIMPY          
Sbjct:    31 GCHIPTPGIDSNALAHFFAQARGTLLGLFDMFSGGALEKLTVFALGIMPYISSSIIFQLL 90

Query:    88 XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN-----LVLDTS 142
                 P  E L KEGE G+ KI QY R+ T++L+++Q  GIS+ L+S +      +V +  
Sbjct:    91 TVVVPSIEKLSKEGESGRKKIIQYTRYGTIVLSVVQALGISIGLESMRGPAGELVVPNPG 150

Query:   143 FYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNG 175
             + F   TV+TL +GT F+MWL EQ++E G+GNG
Sbjct:   151 WGFRLMTVITLTAGTAFIMWLGEQMSEKGIGNG 183

GO:0009306 "protein secretion" evidence=ISS

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

TIGR_CMR|SPO_0506 SPO_0506 "preprotein translocase, SecY subunit" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 334 (122.6 bits), Expect = 3.0e-30, P = 3.0e-30
 Identities = 69/148 (46%), Positives = 90/148 (60%)

Query:    28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
             G  IP+P I+   L +  E+    I GM +MF+GGAL R+ IF+LGIMPY          
Sbjct:    40 GTFIPVPGIDGVALREFMEQAGQGIGGMVSMFTGGALGRMGIFALGIMPYISASIIVQLL 99

Query:    88 XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
                 P  E LKKEGE G+ KI QY R  T+ LA +Q  G+++ L+S  +L  +   YF F
Sbjct:   100 TAMVPSLEQLKKEGEQGRKKINQYTRLGTVALATVQAYGLAVSLESG-DLATEPGMYFRF 158

Query:   148 TTVLTLVSGTIFLMWLSEQITEYGLGNG 175
              T++TLV GT+FLMWL EQIT  G+GNG
Sbjct:   159 ATMITLVGGTMFLMWLGEQITARGIGNG 186

GO:0009306 "protein secretion" evidence=ISS

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

TIGR_CMR|CHY_2289 CHY_2289 "preprotein translocase, SecY subunit" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 301 (111.0 bits), Expect = 9.4e-27, P = 9.4e-27
 Identities = 62/148 (41%), Positives = 87/148 (58%)

Query:    28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
             GAHIP+P IN +++ +L +     ILG F++ SGGA  + TIF++ I PY          
Sbjct:    31 GAHIPVPGINLARMEELIQSG--TILGFFDVISGGAFKKFTIFAMSITPYINASIIMQLL 88

Query:    88 XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
                 P  E L KEGE G+ KI +Y+R+ T+ILA +QG  +++ L+S  N   +     + 
Sbjct:    89 TVVIPYLEKLAKEGEEGRRKITEYVRYGTVILAFIQGFFMAIGLRSALN---NPGILTYL 145

Query:   148 TTVLTLVSGTIFLMWLSEQITEYGLGNG 175
                L L +GT FLMWL EQITE G+GNG
Sbjct:   146 YVALALTAGTAFLMWLGEQITEKGIGNG 173

GO:0006886 "intracellular protein transport" evidence=ISS

GO:0008565 "protein transporter activity" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P78283	SECY_VIBCH	No assigned EC number	0.5120	0.6150	0.3671	yes	N/A
Q9ZCS5	SECY_RICPR	No assigned EC number	0.5310	0.6528	0.3995	yes	N/A
P0AGA3	SECY_ECOL6	No assigned EC number	0.5227	0.6528	0.3905	yes	N/A
P0AGA5	SECY_SHIFL	No assigned EC number	0.5227	0.6528	0.3905	yes	N/A
Q8K969	SECY_BUCAP	No assigned EC number	0.5172	0.5358	0.3234	yes	N/A
Q89A85	SECY_BUCBP	No assigned EC number	0.5227	0.6528	0.3922	yes	N/A
Q68W98	SECY_RICTY	No assigned EC number	0.5254	0.6528	0.3995	yes	N/A
Q92GY6	SECY_RICCN	No assigned EC number	0.5028	0.6528	0.3995	yes	N/A
Q1RHP1	SECY_RICBR	No assigned EC number	0.5141	0.6528	0.3995	yes	N/A
P57571	SECY_BUCAI	No assigned EC number	0.5068	0.5396	0.3272	yes	N/A
Q4UMQ9	SECY_RICFE	No assigned EC number	0.5141	0.6528	0.3995	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	265
PRK09204	426	PRK09204, secY, preprotein translocase subunit Sec	8e-81
COG0201	436	COG0201, SecY, Preprotein translocase subunit SecY	5e-57
TIGR00967	410	TIGR00967, 3a0501s007, preprotein translocase, Sec	2e-48
pfam00344	340	pfam00344, SecY, SecY translocase	2e-47
CHL00161	417	CHL00161, secY, preprotein translocase subunit Sec	1e-46
PRK00276	72	PRK00276, infA, translation initiation factor IF-1	2e-39
PRK12907	434	PRK12907, secY, preprotein translocase subunit Sec	4e-37
cd04451	64	cd04451, S1_IF1, S1_IF1: Translation Initiation Fa	1e-33
TIGR00008	69	TIGR00008, infA, translation initiation factor IF-	4e-31
COG0361	75	COG0361, InfA, Translation initiation factor 1 (IF	1e-30
CHL00010	78	CHL00010, infA, translation initiation factor 1	6e-29
pfam01176	65	pfam01176, eIF-1a, Translation initiation factor 1	1e-23
PRK12442	87	PRK12442, PRK12442, translation initiation factor	2e-21
PRK12417	404	PRK12417, secY, preprotein translocase subunit Sec	1e-15
TIGR02920	395	TIGR02920, acc_sec_Y2, accessory Sec system transl	2e-14
PRK05592	146	PRK05592, rplO, 50S ribosomal protein L15; Reviewe	2e-07
cd05793	77	cd05793, S1_IF1A, S1_IF1A: Translation initiation	6e-05
PTZ00219	474	PTZ00219, PTZ00219, Sec61 alpha subunit; Provision	9e-05
TIGR01071	145	TIGR01071, rplO_bact, ribosomal protein L15, bacte	1e-04
smart00316	72	smart00316, S1, Ribosomal protein S1-like RNA-bind	1e-04
COG0200	152	COG0200, RplO, Ribosomal protein L15 [Translation,	5e-04
PRK08568	462	PRK08568, PRK08568, preprotein translocase subunit	8e-04

>gnl|CDD|236412 PRK09204, secY, preprotein translocase subunit SecY; Reviewed

 Score =  248 bits (637), Expect = 8e-81
 Identities = 90/184 (48%), Positives = 132/184 (71%), Gaps = 4/184 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G++IP+P I+ + L +LF++    ILG+FN+FSGGALSR +IF+LGIMPYI++SIIMQLL
Sbjct: 31  GSYIPVPGIDPAALAQLFDQQSGGILGLFNLFSGGALSRFSIFALGIMPYITASIIMQLL 90

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN----LVLDTSF 143
           + ++PK E LKKEGE G+ KI QY R+ T++LA +Q  GI+  L S       + +   F
Sbjct: 91  TVVIPKLEELKKEGEAGRRKINQYTRYLTVVLAFVQSIGIAAGLNSMSGGGGLVPIPPGF 150

Query: 144 YFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDL 203
           +F+ T V+TL +GT+FLMWL EQITE G+GNG S+II +GI++  P+ +    +L +   
Sbjct: 151 FFYLTIVITLTAGTMFLMWLGEQITERGIGNGISLIIFAGIVAGLPSAIGQTFELARTGS 210

Query: 204 VNII 207
           ++I+
Sbjct: 211 LSIL 214

Length = 426

>gnl|CDD|223279 COG0201, SecY, Preprotein translocase subunit SecY [Intracellular trafficking and secretion]

 Score =  187 bits (478), Expect = 5e-57
 Identities = 83/174 (47%), Positives = 119/174 (68%), Gaps = 4/174 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IP+P IN + L+ LF  N    L +FNMFSGGALSR +IF+LGIMPYI++SIIMQLL
Sbjct: 36  GSFIPVPGINPAALSDLF--NSQRFLILFNMFSGGALSRGSIFALGIMPYITASIIMQLL 93

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ--KNLVLDTSFYF 145
           +   P  + L KEGE G+ KI QY R+ TL+LA++Q  G+ L   +    + V +   +F
Sbjct: 94  TVGSPILKKLDKEGEEGRRKIQQYTRYLTLVLAVIQALGVVLGGNNGGSPSDVGNGGIFF 153

Query: 146 HFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLV 199
           +   +L L +GT+FLMWL EQIT+ G+GNG S+II +GI++S P+ +  ++  +
Sbjct: 154 YLLIILQLTAGTMFLMWLGEQITKRGIGNGISLIIFAGIVASLPSAIFGIIGAL 207

Length = 436

>gnl|CDD|233214 TIGR00967, 3a0501s007, preprotein translocase, SecY subunit

 Score =  165 bits (419), Expect = 2e-48
 Identities = 81/192 (42%), Positives = 123/192 (64%), Gaps = 8/192 (4%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G  IPIP I+ S    L +  QN I G+ N FSGGAL +++IF+LGI PYI++SII+QLL
Sbjct: 17  GTFIPIPGIDASAFQNLIQ--QNPIFGLLNTFSGGALGQISIFALGISPYITASIIIQLL 74

Query: 88  S-SIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFH 146
           +  + P  +  KKEGE+G+ KI Q  R+ TLILA +Q  GI +        V D   +F+
Sbjct: 75  TGDVPPLLQLQKKEGEIGRRKINQLTRYLTLILAFIQSLGIVMTGMY--GYVGDPGAFFY 132

Query: 147 FTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKI---DL 203
              V+ L +G++ +MWL EQIT+YG+GNG S++I +GI ++ P+ L+   ++ +    DL
Sbjct: 133 LLIVIQLTTGSMIVMWLGEQITKYGIGNGISLLIFAGIAATIPSGLLQPTEVRQSKVRDL 192

Query: 204 VNIIENLPNATF 215
           ++ ++NLP   +
Sbjct: 193 ISFLQNLPFLLY 204

Members of this protein family are the SecY component of the SecYEG translocon, or protein translocation pore, which is driven by the ATPase SecA. This model does not discriminate bacterial from archaeal forms [Protein fate, Protein and peptide secretion and trafficking]. Length = 410

>gnl|CDD|215869 pfam00344, SecY, SecY translocase

 Score =  159 bits (406), Expect = 2e-47
 Identities = 74/149 (49%), Positives = 99/149 (66%), Gaps = 6/149 (4%)

Query: 68  TIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGI 127
           +IF+LGI PYI++SIIMQLL+ + PK E L KEGE G+ KI QY R+ TL+LA++Q  GI
Sbjct: 1   SIFALGIGPYITASIIMQLLTVVGPKLEKLDKEGEEGRKKIQQYTRYLTLVLALIQAIGI 60

Query: 128 SLILKSQKN----LVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSG 183
            L L S       +VL   F      VL L +GT+FLMWL E IT+YG+GNG S+II +G
Sbjct: 61  VLGLGSYGAFSNGIVLGVGFLNLLLIVLQLTAGTMFLMWLGELITKYGIGNGISLIIFAG 120

Query: 184 IISSFPNILINLLKLVKID--LVNIIENL 210
           I++S P  +INL  L+     L++I+  L
Sbjct: 121 IVASIPWAIINLFSLLSSAGGLLSILYLL 149

Length = 340

>gnl|CDD|214379 CHL00161, secY, preprotein translocase subunit SecY; Validated

 Score =  160 bits (406), Expect = 1e-46
 Identities = 79/189 (41%), Positives = 116/189 (61%), Gaps = 6/189 (3%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G  IP+P I+++QL        N +L + N FSGG    + +F+LGI+PYI++SII+QLL
Sbjct: 27  GTFIPVPGIDHTQLYPSLS--NNPLLNLLNTFSGGGFFVIGLFALGILPYINASIIIQLL 84

Query: 88  SSIMPKFENLKKE-GELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFH 146
           +SI+P  E L+KE GE G+ KI QY R+ TL  AI+Q  GIS  LK     + + +    
Sbjct: 85  TSIIPSLEKLQKEEGEAGRRKINQYTRYLTLGWAIIQSIGISFWLKPY---LFNWNLLLA 141

Query: 147 FTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNI 206
              VL L SG++ ++WLSE ITE GLGNG+S++I   I+S+ P +L +LL  +  ++  +
Sbjct: 142 LEIVLALTSGSMIVLWLSELITEKGLGNGSSLLIFFNIVSNLPKLLQSLLFSLSANITIL 201

Query: 207 IENLPNATF 215
              L    F
Sbjct: 202 SILLLLFLF 210

Length = 417

>gnl|CDD|178954 PRK00276, infA, translation initiation factor IF-1; Validated

 Score =  131 bits (332), Expect = 2e-39
 Identities = 43/60 (71%), Positives = 52/60 (86%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
           ++E LPNA F+V+LEN H +L HISGKMR NYIRILPGDKVTVEL+PYDL++GRI +R K
Sbjct: 13  VVEALPNAMFRVELENGHEVLAHISGKMRKNYIRILPGDKVTVELSPYDLTKGRITYRHK 72

Length = 72

>gnl|CDD|183828 PRK12907, secY, preprotein translocase subunit SecY; Reviewed

 Score =  135 bits (341), Expect = 4e-37
 Identities = 71/167 (42%), Positives = 111/167 (66%), Gaps = 6/167 (3%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G  IP+P  N +++ K+  ++Q N+LGM N+F GGAL   +IF++GI PYI++SII+QLL
Sbjct: 31  GTFIPVPHTN-AEVLKV--QDQANVLGMLNVFGGGALQHFSIFAVGITPYITASIIVQLL 87

Query: 88  S-SIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILK--SQKNLVLDTSFY 144
              ++PKF    K+GE+G+ K AQ+ R+ T+ILA +Q  G+S      +   L+ D S+ 
Sbjct: 88  QMDVIPKFSEWAKQGEMGRKKSAQFTRYFTIILAFIQAIGMSYGFNNIAGGQLITDQSWT 147

Query: 145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNI 191
            +      L +GT FL+WL EQIT  G+GNG S++I +G++++ PN+
Sbjct: 148 TYLFIATVLTAGTAFLLWLGEQITANGVGNGISMLIFAGLVAAIPNV 194

Length = 434

>gnl|CDD|239898 cd04451, S1_IF1, S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain

 Score =  116 bits (292), Expect = 1e-33
 Identities = 41/58 (70%), Positives = 51/58 (87%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           + E LPNA F+V+LEN H +L HISGKMRMNYIRILPGD+V VEL+PYDL++GRI++R
Sbjct: 7   VTEALPNAMFRVELENGHEVLAHISGKMRMNYIRILPGDRVKVELSPYDLTKGRIVYR 64

IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of the mRNA. Length = 64

>gnl|CDD|188015 TIGR00008, infA, translation initiation factor IF-1

 Score =  109 bits (275), Expect = 4e-31
 Identities = 40/58 (68%), Positives = 51/58 (87%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           + E+LPNA F+V+LEN H +L HISGK+RM+YIRILPGD+V VEL+PYDL+RGRI +R
Sbjct: 11  VTESLPNAMFRVELENGHEVLAHISGKIRMHYIRILPGDRVKVELSPYDLTRGRITYR 68

This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575) [Protein synthesis, Translation factors]. Length = 69

>gnl|CDD|223438 COG0361, InfA, Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]

 Score =  108 bits (273), Expect = 1e-30
 Identities = 40/61 (65%), Positives = 48/61 (78%)

Query: 205 NIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRT 264
            +IE LPN  F+V+LEN H  L HISGKMR N IRILPGD V VEL+PYDL++GRI++R 
Sbjct: 12  TVIEMLPNGRFRVELENGHERLAHISGKMRKNRIRILPGDVVLVELSPYDLTKGRIVYRY 71

Query: 265 K 265
           K
Sbjct: 72  K 72

Length = 75

>gnl|CDD|214332 CHL00010, infA, translation initiation factor 1

 Score =  104 bits (262), Expect = 6e-29
 Identities = 36/58 (62%), Positives = 49/58 (84%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           + E+LPN  F+V+L+N   +LG+ISGK+R N IRILPGD+V VEL+PYDL++GRII+R
Sbjct: 13  VTESLPNGMFRVRLDNGCQVLGYISGKIRRNSIRILPGDRVKVELSPYDLTKGRIIYR 70

Length = 78

>gnl|CDD|216345 pfam01176, eIF-1a, Translation initiation factor 1A / IF-1

 Score = 90.3 bits (225), Expect = 1e-23
 Identities = 30/58 (51%), Positives = 38/58 (65%), Gaps = 1/58 (1%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           + E L N  F+V+LE+ H  L HI GK R   I IL GD V VEL+PYD ++G II+R
Sbjct: 9   VTEMLGNGRFEVELEDGHERLAHIPGKRR-KRIWILRGDFVLVELSPYDKTKGDIIYR 65

This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1. Length = 65

>gnl|CDD|237102 PRK12442, PRK12442, translation initiation factor IF-1; Reviewed

 Score = 85.6 bits (212), Expect = 2e-21
 Identities = 32/58 (55%), Positives = 44/58 (75%)

Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
           E LP++ F+V LEN   +  + SG+MR + IRIL GD+VT+EL+PYDL++GRI FR K
Sbjct: 15  EVLPDSRFRVTLENGVEVGAYASGRMRKHRIRILAGDRVTLELSPYDLTKGRINFRHK 72

Length = 87

>gnl|CDD|237095 PRK12417, secY, preprotein translocase subunit SecY; Reviewed

 Score = 75.4 bits (186), Expect = 1e-15
 Identities = 56/180 (31%), Positives = 93/180 (51%), Gaps = 14/180 (7%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G++I IP ++Y+           + L +    +GG L  L IFSLG+ P+++S II+QL 
Sbjct: 29  GSNISIPFVSYND----MLGGHESFLKIAAANTGGDLRTLNIFSLGLGPWMTSMIILQLF 84

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           S    K + L K+    ++   + +   TLI+A++Q   + L L S K  +  T+     
Sbjct: 85  SYR--KRDGLMKQTIEEQHYRERIL---TLIIAVIQSLAVILSLPS-KERISQTNIL--- 135

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
              L LV+GT+FL+WLS+    YG+G G   I+   +I S P  +I  +    I ++ +I
Sbjct: 136 LNTLILVTGTMFLVWLSDLNARYGIG-GPMPIVLVSMIKSIPQDVIEYIDASHIVIILLI 194

Length = 404

>gnl|CDD|131966 TIGR02920, acc_sec_Y2, accessory Sec system translocase SecY2

 Score = 72.1 bits (177), Expect = 2e-14
 Identities = 58/182 (31%), Positives = 98/182 (53%), Gaps = 16/182 (8%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G++IPIP +  S   +  E  +N+   +    +GG L+ L+IFSLG+ P+++S II+QL 
Sbjct: 19  GSYIPIPFVEVS--KQDMEGVKNSFFKIAIANTGGNLTTLSIFSLGLGPWMTSMIILQLF 76

Query: 88  S-SIMPKFENLKKEGELGKYKIAQYI-RFSTLILAILQGSGISLILKSQKNLVLDTSFYF 145
           S +    F+           K  QY  RF TLI+AI+QG  I     + KN + D +   
Sbjct: 77  SFTKSDGFDAQSP-------KEQQYRERFLTLIIAIIQGLAIIHSFTN-KNGLSDFNMLL 128

Query: 146 HFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVN 205
                L LV+GT  L+WL++   +YG+G G+  I+   ++ + P+ +  L ++  I L+ 
Sbjct: 129 ---ATLILVTGTCLLVWLADLNAKYGIG-GSMPIVLVSMLKNIPSNVFELFQMSYIWLIA 184

Query: 206 II 207
           ++
Sbjct: 185 LL 186

Members of this family are restricted to the Firmicutes lineage (low-GC Gram-positive bacteria) and appear to be paralogous to, and much more divergent than, the preprotein translocase SecY. Members include the SecY2 protein of the accessory Sec system in Streptococcus gordonii, involved in export of the highly glycosylated platelet-binding protein GspB [Protein fate, Protein and peptide secretion and trafficking]. Length = 395

>gnl|CDD|235523 PRK05592, rplO, 50S ribosomal protein L15; Reviewed

 Score = 48.9 bits (118), Expect = 2e-07
 Identities = 14/28 (50%), Positives = 20/28 (71%)

Query: 1  MRLNNILPNKDAKHYKKRLGRGIGSGSG 28
          M+LN + P   ++  +KR+GRGIGSG G
Sbjct: 1  MKLNELKPAPGSRKARKRVGRGIGSGLG 28

Length = 146

>gnl|CDD|240219 cd05793, S1_IF1A, S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain

 Score = 40.2 bits (95), Expect = 6e-05
 Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           + + L N   +V+  +    L  I GKMR   + I  GD V V    +   +  II++
Sbjct: 6   VEKMLGNGRLEVRCFDGKKRLCRIRGKMR-KRVWINEGDIVLVAPWDFQDDKADIIYK 62

S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea. Length = 77

>gnl|CDD|185519 PTZ00219, PTZ00219, Sec61 alpha subunit; Provisional

 Score = 43.1 bits (102), Expect = 9e-05
 Identities = 39/140 (27%), Positives = 69/140 (49%), Gaps = 14/140 (10%)

Query: 63  ALSRLTIFSLGIMPYISSSIIMQLLSS--IMPKFENLKKEGELGKYKIAQYIRFSTLILA 120
           A +R T+  LGI P ++SS++MQLL+   I+   +N K++  L  ++ AQ  +   L++ 
Sbjct: 72  ASNRGTLMELGISPIVTSSMVMQLLAGSKIIDVDQNNKEDRAL--FEGAQ--KLLGLLIT 127

Query: 121 ILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITE-YGLGNGTSII 179
           +  G  ++ +       + +         +L L    I ++ L E + + YGLG+G S+ 
Sbjct: 128 L--GEAVAYVWSGMYGDISEIGAGNAILIILQLFFAGIVVILLDELLQKGYGLGSGISLF 185

Query: 180 I----CSGII-SSFPNILIN 194
           I    C  II  +F    IN
Sbjct: 186 IATNICETIIWKAFSPTTIN 205

Length = 474

>gnl|CDD|233260 TIGR01071, rplO_bact, ribosomal protein L15, bacterial/organelle

 Score = 40.8 bits (96), Expect = 1e-04
 Identities = 16/28 (57%), Positives = 20/28 (71%)

Query: 2  RLNNILPNKDAKHYKKRLGRGIGSGSGA 29
          +LN + P K AK  +KR+GRGIGSG G 
Sbjct: 1  KLNELKPAKGAKKRRKRVGRGIGSGLGK 28

[Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 145

>gnl|CDD|197648 smart00316, S1, Ribosomal protein S1-like RNA-binding domain

 Score = 39.1 bits (92), Expect = 1e-04
 Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 4/55 (7%)

Query: 215 FKVKLENDHVILGHISGKMRM----NYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
             V L N    L  IS             +  GD+V V++   D  +GRII   K
Sbjct: 18  AFVDLGNGVEGLIPISELSDKRVKDPEEVLKVGDEVKVKVLSVDEEKGRIILSLK 72

Length = 72

>gnl|CDD|223278 COG0200, RplO, Ribosomal protein L15 [Translation, ribosomal structure and biogenesis]

 Score = 39.2 bits (92), Expect = 5e-04
 Identities = 16/28 (57%), Positives = 22/28 (78%)

Query: 1  MRLNNILPNKDAKHYKKRLGRGIGSGSG 28
          MRLN++ P + +K  +KR+GRGIGSG G
Sbjct: 1  MRLNDLKPARGSKKTRKRVGRGIGSGLG 28

Length = 152

>gnl|CDD|236293 PRK08568, PRK08568, preprotein translocase subunit SecY; Reviewed

 Score = 39.8 bits (94), Expect = 8e-04
 Identities = 28/119 (23%), Positives = 58/119 (48%), Gaps = 6/119 (5%)

Query: 68  TIFSLGIMPYISSSIIMQLL--SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGS 125
           T+  LGI P +++ II+QLL  S ++    +L    +   ++  Q  +   +++  L+ +
Sbjct: 72  TLLQLGIGPIVTAGIILQLLVGSKLINL--DLSDPEDRALFQGLQ--KLLAIVMIALEAA 127

Query: 126 GISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGI 184
              L         L ++        L L  G I ++ L E ++++G+G+G S+ I +G+
Sbjct: 128 PFVLAGAFGPATGLASTPLLALLIFLQLFLGGILIILLDELVSKWGIGSGISLFILAGV 186

Length = 462

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	265
PRK09204	426	secY preprotein translocase subunit SecY; Reviewed	100.0
COG0201	436	SecY Preprotein translocase subunit SecY [Intracel	100.0
PRK12907	434	secY preprotein translocase subunit SecY; Reviewed	100.0
CHL00161	417	secY preprotein translocase subunit SecY; Validate	100.0
TIGR00967	410	3a0501s007 preprotein translocase, SecY subunit.	100.0
PRK12417	404	secY preprotein translocase subunit SecY; Reviewed	100.0
PRK08568	462	preprotein translocase subunit SecY; Reviewed	100.0
TIGR02920	395	acc_sec_Y2 accessory Sec system translocase SecY2.	100.0
PTZ00219	474	Sec61 alpha subunit; Provisional	100.0
PF00344	346	SecY: SecY translocase; InterPro: IPR002208 Secret	100.0
KOG1373|consensus	476		100.0
PRK12442	87	translation initiation factor IF-1; Reviewed	91.9
PF10559	35	Plug_translocon: Plug domain of Sec61p; InterPro:	87.91
TIGR00008	68	infA translation initiation factor IF-1. This fami	82.74

>PRK09204 secY preprotein translocase subunit SecY; Reviewed

Probab=100.00  E-value=1.3e-61  Score=464.36  Aligned_cols=254  Identities=40%  Similarity=0.668  Sum_probs=218.1

Q ss_pred             ccCCCCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHh
Q psy8862           4 NNILPNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYIS   79 (265)
Q Consensus         4 ~~~~~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyIt   79 (265)
                      +++.+.+++||+|+|++||+++    |+|+|||+||+|.++.++.++++++++++++++++||+++++|+|+|||+||||
T Consensus         3 ~~~~~~~~~~~l~~ki~~Tl~~l~iyrlgs~IPlpGi~~~~~~~~~~~~~~~~~~~~~~~~Gga~~~~slf~LGI~PyIt   82 (426)
T PRK09204          3 KTLKNAFKIKELRKRILFTLGALIVFRIGSYIPVPGIDPAALAQLFDQQSGGILGLFNLFSGGALSRFSIFALGIMPYIT   82 (426)
T ss_pred             hhHHhHhcchhHHHHHHHHHHHHHHHHHHccCCCCCCCHHHHHHHHhhccccHHHHHHHHcccchhcccHHHhCcHHHHH
Confidence            3445677899999999999988    999999999999988766544322479999999999999999999999999999


Q ss_pred             HHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc---cccCc-hhHHHHHHHHHHHH
Q psy8862          80 SSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN---LVLDT-SFYFHFTTVLTLVS  155 (265)
Q Consensus        80 AsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~---~~~~~-~~~~~~~~vl~L~a  155 (265)
                      |||+||+++.++|+++|+|||||+||+|+|++||++|+++|++||++++..+....+   ...++ +..+.+.++++|++
T Consensus        83 AsIi~QLL~~~ip~l~~l~kege~gr~k~~~~tr~ltl~~a~iQs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~L~~  162 (426)
T PRK09204         83 ASIIMQLLTVVIPKLEELKKEGEAGRRKINQYTRYLTVVLAFVQSIGIAAGLNSMSGGGGLVPIPPGFFFYLTIVITLTA  162 (426)
T ss_pred             HHHHHHHHHHHhhhHHHHhhccHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCccccccCCccHHHHHHHHHHHHH
Confidence            999999999889999999999999999999999999999999999999876653211   11111 34467889999999


Q ss_pred             HHHHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeeeEEEEE
Q psy8862         156 GTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRM  235 (265)
Q Consensus       156 G~~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi  235 (265)
                      |+++++||||+|||||+|||+|++|++||++++|+++.+.++...++..+....++.+++++++++++||+|++|||||+
T Consensus       163 Gs~i~~wL~e~It~~GiGnGiSliI~~gI~~~ip~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~rIPi  242 (426)
T PRK09204        163 GTMFLMWLGEQITERGIGNGISLIIFAGIVAGLPSAIGQTFELARTGSLSILVFLLLIVLFLAVIAFVVFVEQAQRRIPV  242 (426)
T ss_pred             HHHHHHHHHHHHhccCcccchHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHheeeeeEEEEEE
Confidence            99999999999999999999999999999999999998877543333333344555677788889999999999999999


Q ss_pred             eeeeecCCCccccCCCccccCC
Q psy8862         236 NYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       236 ~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      ||+|+..|||+++++++|+|-|
T Consensus       243 ~~~~~~~~~~~~~~~~~yiPiK  264 (426)
T PRK09204        243 QYAKRQVGRKMYGGQSSYLPLK  264 (426)
T ss_pred             EehhhhccccccCCCCeeeeee
Confidence            9999889999999999999865

>COG0201 SecY Preprotein translocase subunit SecY [Intracellular trafficking and secretion]

Probab=100.00  E-value=4.9e-61  Score=458.10  Aligned_cols=248  Identities=37%  Similarity=0.594  Sum_probs=215.9

Q ss_pred             ccCCCCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHh
Q psy8862           4 NNILPNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYIS   79 (265)
Q Consensus         4 ~~~~~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyIt   79 (265)
                      +...|.++.||+|||++||+++    |+|++||+||+|.++..+.++.  +....++|+++||+++++|+|+|||+||||
T Consensus         8 ~~~~~~~~~~~l~kr~~fT~~~Livyrigs~IPvpGi~~~~~~~~~~~--~~~~~~~n~~~GGal~~~SIfaLGI~PyIT   85 (436)
T COG0201           8 EVLSPKFKVPELRKRILFTLGALIVYRIGSFIPVPGINPAALSDLFNS--QRFLILFNMFSGGALSRGSIFALGIMPYIT   85 (436)
T ss_pred             HHhcchhccHHHHHHHHHHHHHHHHHHHhCcCcCCCCCHHHHHHHHHH--hhhhHHHHHhcccccccchHHHHccHHHHH
Confidence            3456788999999999999988    8999999999999988776543  334448999999999999999999999999


Q ss_pred             HHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc--cccccCchhHHHHHHHHHHHHHH
Q psy8862          80 SSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ--KNLVLDTSFYFHFTTVLTLVSGT  157 (265)
Q Consensus        80 AsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~--~~~~~~~~~~~~~~~vl~L~aG~  157 (265)
                      ||||||||+...|.++|++||+|+||+|+|++|||+|+++|++||.+++..+.+.  .+...+++..+.++++++|++||
T Consensus        86 ASII~QLL~~~~p~l~~l~k~~e~gR~k~~~~tRyltlvla~iQa~~~~~~~~~~~~~~~~~~~~~~~~~l~il~L~~Gt  165 (436)
T COG0201          86 ASIIMQLLTVGSPILKKLDKEGEEGRRKIQQYTRYLTLVLAVIQALGVVLGGNNGGSPSDVGNGGIFFYLLIILQLTAGT  165 (436)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcccccccchHHHHHHHHHHHHHH
Confidence            9999999988889999999999999999999999999999999999999888642  11222334568899999999999


Q ss_pred             HHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhch--hhhhhhHHHHHHHHHHHhhhheeeeeeEEEEE
Q psy8862         158 IFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDL--VNIIENLPNATFKVKLENDHVILGHISGKMRM  235 (265)
Q Consensus       158 ~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~--~~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi  235 (265)
                      +++|||||+|||||+|||+||+|++||++++|+.+++.......+.  .+....++.++.++++++++||+|++|||||+
T Consensus       166 ~~lmwLgE~Itk~GIGnGiSLiIfagI~~~lp~~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~ii~~vvyve~~~r~IPI  245 (436)
T COG0201         166 MFLMWLGEQITKRGIGNGISLIIFAGIVASLPSAIFGIIGALPTGALFLSILFLLLLVLLTLAIIFLVVYVEQARRRIPI  245 (436)
T ss_pred             HHHHHHHHHHhhcCcccchHHHHHHHHHHHhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHhhheEEEeeh
Confidence            9999999999999999999999999999999999998776655453  33344567778888889999999999999999


Q ss_pred             eeeeecCCCccccCCCccccCC
Q psy8862         236 NYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       236 ~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      ||+||.    .+.|+++|+|-|
T Consensus       246 ~y~~~~----~~~g~~s~lPlK  263 (436)
T COG0201         246 QYAKRQ----SYRGQSSYLPLK  263 (436)
T ss_pred             hhhhhh----hcCCcCceeeeE
Confidence            999876    678899999865

>PRK12907 secY preprotein translocase subunit SecY; Reviewed

Probab=100.00  E-value=3.1e-60  Score=454.68  Aligned_cols=249  Identities=31%  Similarity=0.530  Sum_probs=204.3

Q ss_pred             CCCCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHhHH
Q psy8862           6 ILPNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSS   81 (265)
Q Consensus         6 ~~~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyItAs   81 (265)
                      +.+.+++||+|||++||+++    |+|+|||+||+|.++++. .+  .+++++++|+|+||+++++|+|+|||+||||||
T Consensus         5 ~~~~~~~~~lr~ril~Tl~il~iyrlG~~IPiPGi~~~~~~~-~~--~~~~~~~~~~fsGG~~~~~sifsLGI~PyItAs   81 (434)
T PRK12907          5 ISNFMRVAEIRRKILFTLAMLIVFRIGTFIPVPHTNAEVLKV-QD--QANVLGMLNVFGGGALQHFSIFAVGITPYITAS   81 (434)
T ss_pred             HHhhhccHHHHHHHHHHHHHHHHHHHhccCCCCCCCHHHHhh-hh--hhhHHHHHHHHhccccccChHHHHccHHHHHHH
Confidence            33455679999999999998    999999999999987652 11  145899999999999999999999999999999


Q ss_pred             HHHHHHhc-cchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-cc-ccCchhHHHHHHHHHHHHHHH
Q psy8862          82 IIMQLLSS-IMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQK-NL-VLDTSFYFHFTTVLTLVSGTI  158 (265)
Q Consensus        82 Ii~Qll~~-~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~-~~-~~~~~~~~~~~~vl~L~aG~~  158 (265)
                      |+||+++. .+|++++++||||+||||+++||||+|+++|++||++++..+.... +. ..+.++.+.+.++++|+||++
T Consensus        82 II~QLL~~~~~p~l~~l~kege~gr~k~~~~tR~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~aGt~  161 (434)
T PRK12907         82 IIVQLLQMDVIPKFSEWAKQGEMGRKKSAQFTRYFTIILAFIQAIGMSYGFNNIAGGQLITDQSWTTYLFIATVLTAGTA  161 (434)
T ss_pred             HHHHHHHhccCccHHHHhhcChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCccccCccHHHHHHHHHHHHHHHH
Confidence            99999954 8999999999999999999999999999999999999887654211 11 112233356778899999999


Q ss_pred             HHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhH--Hhhhch---hhhhhhHHHHHHHHHHHhhhheeeeeeEEE
Q psy8862         159 FLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLK--LVKIDL---VNIIENLPNATFKVKLENDHVILGHISGKM  233 (265)
Q Consensus       159 ~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~--~~~~g~---~~~~~~l~~~~~~l~~i~~~V~l~~a~rrI  233 (265)
                      ++|||||+|||||+|||+|++|++||++++|+++.+.+.  ....|+   ......++.+++++++++++|++|++||||
T Consensus       162 ~l~WL~e~It~~GIGnGiSliI~~gIv~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~v~v~~~~rrI  241 (434)
T PRK12907        162 FLLWLGEQITANGVGNGISMLIFAGLVAAIPNVANQIYLQQFQNAGDQLFMHIIKMLLIGLVILAIVVGVIYIQQAVRKI  241 (434)
T ss_pred             HHHHHHHHHhcCCcCcccHHHHHHHHHHHHHHHHHHHHHHHhhccCchhhhhHHHHHHHHHHHHHHHHHHhheeeeeEEE
Confidence            999999999999999999999999999999988766432  112232   111222344455567778899999999999


Q ss_pred             EEeeeeecCCCccccC-CCccccCC
Q psy8862         234 RMNYIRILPGDKVTVE-LTPYDLSR  257 (265)
Q Consensus       234 Pi~~~r~~~g~~~~~~-~~~y~~~~  257 (265)
                      |+||+||..|++.+++ +++|+|-|
T Consensus       242 Pi~ya~r~~~~~~~~~~~~syiPlK  266 (434)
T PRK12907        242 PIQYAKAVSGNNQYQGAKNTHLPLK  266 (434)
T ss_pred             EEEEchhhccccccCCCcCceeeee
Confidence            9999999999888777 78899965

>CHL00161 secY preprotein translocase subunit SecY; Validated

Probab=100.00  E-value=9.3e-58  Score=436.76  Aligned_cols=244  Identities=37%  Similarity=0.574  Sum_probs=208.3

Q ss_pred             CCCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHhHHH
Q psy8862           7 LPNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSI   82 (265)
Q Consensus         7 ~~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyItAsI   82 (265)
                      ++++|+||+|+|++||+++    |+|+|||+||+|.++..+..++  +++++++++++||+++++|+|+|||+|||||||
T Consensus         2 ~~~~~~~~l~~ri~~Tl~~L~iy~lg~~IPlpGv~~~~~~~~~~~--~~~~~~~~~~sgg~~~~~slf~LGI~PyItAsI   79 (417)
T CHL00161          2 LQSKKKDELLNRLLFTLGLLLLIRLGTFIPVPGIDHTQLYPSLSN--NPLLNLLNTFSGGGFFVIGLFALGILPYINASI   79 (417)
T ss_pred             CccccCccHHHHHHHHHHHHHHHHHhccCCCCCcCHHHHHHhhcc--ccHHHHHHHHcCCCcccCcHHHHCcHHHHHHHH
Confidence            3578999999999999988    9999999999999886554332  679999999999999999999999999999999


Q ss_pred             HHHHHhccchhhhhhhhc-chhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHHHHHHHH
Q psy8862          83 IMQLLSSIMPKFENLKKE-GELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLM  161 (265)
Q Consensus        83 i~Qll~~~~p~l~~l~~~-g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~aG~~~~~  161 (265)
                      +||+++.++|++++++|| ||+||||+|+|||++|+++|++||++++.++..  + ..+++..+.++++++|++|+++++
T Consensus        80 I~QLl~~~~p~l~~l~k~~g~~gr~k~~~~tr~ltl~la~iqa~~~~~~~~~--~-~~~~~~~~~~~~v~~L~~Gt~~~~  156 (417)
T CHL00161         80 IIQLLTSIIPSLEKLQKEEGEAGRRKINQYTRYLTLGWAIIQSIGISFWLKP--Y-LFNWNLLLALEIVLALTSGSMIVL  156 (417)
T ss_pred             HHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh--h-ccCcchHHHHHHHHHHHHHHHHHH
Confidence            999999889999999997 999999999999999999999999999877543  1 122233467889999999999999


Q ss_pred             HHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeec
Q psy8862         162 WLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRIL  241 (265)
Q Consensus       162 wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~  241 (265)
                      ||||+|||||+|||+|++|++||++++|+.+.+.+...+ ++......+..+++++++++++|++|++|||||+||+||.
T Consensus       157 wL~e~it~~GiGnGiSliI~~~I~~~~p~~~~~~~~~~~-~~~~~~~~~~~~~~~~~vi~~vv~~~~~~rrIPi~~~~~~  235 (417)
T CHL00161        157 WLSELITEKGLGNGSSLLIFFNIVSNLPKLLQSLLFSLS-ANITILSILLLLFLFFITLIGIIFLQEAIRKIPLISAKQL  235 (417)
T ss_pred             HHHHHHHhcCcCcchHHHHHHHHHHHHHHHHHHHHHHhc-cchhHHHHHHHHHHHHHHHHHHHHhhcceEEEEEEEhhhh
Confidence            999999999999999999999999999998876654322 2222333445556777888999999999999999999764


Q ss_pred             CCCccccCCCccccCC
Q psy8862         242 PGDKVTVELTPYDLSR  257 (265)
Q Consensus       242 ~g~~~~~~~~~y~~~~  257 (265)
                       +++..+++++|+|-|
T Consensus       236 -~~~~~~~~~~ylPiK  250 (417)
T CHL00161        236 -GKSSRLASNSYLPLR  250 (417)
T ss_pred             -ccccccCccceeeee
Confidence             466778889999865

>TIGR00967 3a0501s007 preprotein translocase, SecY subunit

Probab=100.00  E-value=9.5e-55  Score=415.34  Aligned_cols=235  Identities=34%  Similarity=0.566  Sum_probs=200.4

Q ss_pred             HHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHhHHHHHHHHhc-c
Q psy8862          16 KKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSS-I   90 (265)
Q Consensus        16 ~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyItAsIi~Qll~~-~   90 (265)
                      |+|++||+++    |+|++||+||+|.++..+..++  +++++++++++||+++++|+|+|||+|||||||+||+++. .
T Consensus         1 ~~ki~~Tl~~l~iyrlg~~IPlpGi~~~~~~~~~~~--~~~~~~~~~~sgga~~~~slf~LGI~PyItAsIi~QLL~~~~   78 (410)
T TIGR00967         1 REKLLFTLGLLVLFRIGTFIPVPGIDASAFQQDIQQ--NGIFNLLNLFSGGALNQGSIFALGISPYITASIIIQLLTGDV   78 (410)
T ss_pred             CchHHHHHHHHHHHHHHccCCCCCCCHHHHhhhhcc--ccHHHHHHHHhccccccccHHHHccHHHHHHHHHHHHHHhcc
Confidence            6899999988    9999999999999877554432  6789999999999999999999999999999999999964 6


Q ss_pred             chhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHH-HHhhcccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8862          91 MPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGIS-LILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQITE  169 (265)
Q Consensus        91 ~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~-~~~~~~~~~~~~~~~~~~~~~vl~L~aG~~~~~wL~e~it~  169 (265)
                      .|.+++++||||+||+|++++||++|+++|++||.+++ ..+..   ...+++..+.+.++++|++|+++++||||+|||
T Consensus        79 ~~~l~~~~~~g~~gr~k~~~~tr~lt~~~a~iQs~~~~~~~~~~---~~~~~~~~~~~~~v~~L~~Gs~~~~wL~e~it~  155 (410)
T TIGR00967        79 PPLLQLQKKEGEIGRRKINQLTRYLTLILAFIQSLGIVMTGMYG---YVGDPGAFFYLLIVIQLTTGSMIVMWLGEQITK  155 (410)
T ss_pred             ChHHHHHhhCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---hccCCchhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            78899999999999999999999999999999999988 44322   122334456788999999999999999999999


Q ss_pred             hcCCcchHHHHHHHHhhhhHHHHHHHhHHhh--hchh-h---hhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeecCC
Q psy8862         170 YGLGNGTSIIICSGIISSFPNILINLLKLVK--IDLV-N---IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPG  243 (265)
Q Consensus       170 ~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~--~g~~-~---~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g  243 (265)
                      ||+|||+|++|++||++++|+++.+.++..+  .++. +   ..+++..+++++++++++||+|++|||||+||+|+..+
T Consensus       156 ~GiGnG~SliI~~gI~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~IPi~~~~~~~~  235 (410)
T TIGR00967       156 YGIGNGISLLIFAGIIATIPSGLLQPTEVRQSKVRDLISFLQNLPFLLYLIATIIVFAVVVFVQQARRKIPIQSAKRQGG  235 (410)
T ss_pred             cCcccCcHHHHHHHHHHHHHHHHHHHHHHhhhhccchhhHHHHHHHHHHHHHHHHHHHHHheeeeeEEEEEEEEhhhhcC
Confidence            9999999999999999999999988765311  2221 1   24456677778888999999999999999999987767


Q ss_pred             CccccCCCccccCC
Q psy8862         244 DKVTVELTPYDLSR  257 (265)
Q Consensus       244 ~~~~~~~~~y~~~~  257 (265)
                      ++  .++++|+|-|
T Consensus       236 ~~--~~~~~~iPiK  247 (410)
T TIGR00967       236 RR--GSQSTYLPLK  247 (410)
T ss_pred             CC--CCccceeeeE
Confidence            66  6788999865

>PRK12417 secY preprotein translocase subunit SecY; Reviewed

Probab=100.00  E-value=1.2e-53  Score=406.40  Aligned_cols=226  Identities=27%  Similarity=0.342  Sum_probs=191.3

Q ss_pred             CCCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHhHHH
Q psy8862           7 LPNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSI   82 (265)
Q Consensus         7 ~~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyItAsI   82 (265)
                      ++.+++||+|+|++||+++    |+|+|||+||+|.++.++    .++++++++|+++||+++++|+|+|||+|||||||
T Consensus         4 ~~~~~~~~l~~ki~~Tl~~l~iyrlG~~IPiPGi~~~~~~~----~~~~~~~~~~~fsGG~~~~~slfsLGI~PyItAsI   79 (404)
T PRK12417          4 LKKFEYKIIYKKILFTCFILFIYILGSNISIPFVSYNDMLG----GHESFLKIAAANTGGDLRTLNIFSLGLGPWMTSMI   79 (404)
T ss_pred             hhhhccHHHHHHHHHHHHHHHHHHHhccCcCCCCCHHHhcC----ccchHHHHHHHhcccccccCcHHHHccHHHHHHHH
Confidence            3478999999999999988    999999999999988742    12569999999999999999999999999999999


Q ss_pred             HHHHHhcc-chhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHHHHHHHH
Q psy8862          83 IMQLLSSI-MPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLM  161 (265)
Q Consensus        83 i~Qll~~~-~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~aG~~~~~  161 (265)
                      +||+++.. +|++++++|| |+||+|     ||+|+++|++||++++.++.+.++.  . + .+.+.++++|+||++++|
T Consensus        80 I~QLL~~~~~~~l~~~~ke-e~gr~~-----r~ltl~la~iQs~~~~~~~~~~~~~--~-~-~~~~~~~l~L~aGt~~~~  149 (404)
T PRK12417         80 ILQLFSYRKRDGLMKQTIE-EQHYRE-----RILTLIIAVIQSLAVILSLPSKERI--S-Q-TNILLNTLILVTGTMFLV  149 (404)
T ss_pred             HHHHHHhCCCcchhhcChH-HHHHHH-----HHHHHHHHHHHHHHHHHHhcccccc--h-h-hHHHHHHHHHHHHHHHHH
Confidence            99999987 7999999988 888875     9999999999999999887642221  1 1 367889999999999999


Q ss_pred             HHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeec
Q psy8862         162 WLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRIL  241 (265)
Q Consensus       162 wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~  241 (265)
                      ||||+||+||+| |+|++|++||++++|+++.+.+....      ......+.+.+++++.+|++|++|||||+||++|.
T Consensus       150 WL~E~it~~GIG-G~SliI~~~Iv~~~p~~~~~~~~~~~------~~~~~~~~~~~~~i~~~v~~~~~~rrIPi~~~~~~  222 (404)
T PRK12417        150 WLSDLNARYGIG-GPMPIVLVSMIKSIPQDVIEYIDASH------IVIILLILLVIITLFFLYFIELVEYRIPYNDIMNH  222 (404)
T ss_pred             HHHHHHhCCCcc-HHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHhheEEEEEEEEhhhh
Confidence            999999999999 99999999999999999887654311      11223334445556679999999999999999887


Q ss_pred             CCCccccCCCccccCC
Q psy8862         242 PGDKVTVELTPYDLSR  257 (265)
Q Consensus       242 ~g~~~~~~~~~y~~~~  257 (265)
                      .+++    +++|+|-|
T Consensus       223 ~~~~----~~sylPiK  234 (404)
T PRK12417        223 NRFK----MYSYLSIK  234 (404)
T ss_pred             ccCC----CCcceeee
Confidence            7765    78999865

>PRK08568 preprotein translocase subunit SecY; Reviewed

Probab=100.00  E-value=3.1e-52  Score=402.80  Aligned_cols=235  Identities=19%  Similarity=0.251  Sum_probs=191.2

Q ss_pred             CccCCCCcCchh----hHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCc
Q psy8862           3 LNNILPNKDAKH----YKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGI   74 (265)
Q Consensus         3 ~~~~~~~~~~~~----l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI   74 (265)
                      +.+++|++++|+    +|+|++||+++    |+|++||+||+|.++         +++++++++++||+  ++|+|+|||
T Consensus        10 ~~~~~P~v~~p~~~~~l~~ki~~Tl~~l~iyrlgs~IPlpGi~~~~---------~~~l~~l~~~~gg~--~~slf~LGI   78 (462)
T PRK08568         10 ILERLPAVKRPKGHVPFKEKLKWTAIVLILYFILTNIPLYGISQSS---------QDLFELLRIIFAGS--FGTLLQLGI   78 (462)
T ss_pred             HHHhCCCccCCCcCccHHHHHHHHHHHHHHHHHHccCcCCCcCccc---------ccHHHHHHHHhCCc--ccchHHhCc
Confidence            456788887765    99999999988    999999999999864         25889999999995  899999999


Q ss_pred             hHHHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHH
Q psy8862          75 MPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLV  154 (265)
Q Consensus        75 ~PyItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~  154 (265)
                      +|||||||+||+++..  ++.++++++|+||+|+|++||++|+++|++||++++.++.+.+......+..+.+.++++|+
T Consensus        79 ~PyItAsII~QLL~~~--~l~~l~~~~~~gr~k~~~~tr~lti~~a~iqs~~~~~~~~~~~~~~~~~~~~~~~~i~l~L~  156 (462)
T PRK08568         79 GPIVTAGIILQLLVGS--KLINLDLSDPEDRALFQGLQKLLAIVMIALEAAPFVLAGAFGPATGLASTPLLALLIFLQLF  156 (462)
T ss_pred             HHHHHHHHHHHHHhhC--chheeccCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcccccccHHHHHHHHHHHH
Confidence            9999999999999752  34466666799999999999999999999999999987653211000123456788999999


Q ss_pred             HHHHHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHh---------------HHhhhchh--hhh-----hhHHH
Q psy8862         155 SGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLL---------------KLVKIDLV--NII-----ENLPN  212 (265)
Q Consensus       155 aG~~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~---------------~~~~~g~~--~~~-----~~l~~  212 (265)
                      +|++++|||||+|||||+|||+|++|++||++++|+++++..               +...++..  ...     +++..
T Consensus       157 ~Gt~i~~wL~E~Itk~GiGnGiSliI~~gI~~~i~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~r~~l~~l~~  236 (462)
T PRK08568        157 LGGILIILLDELVSKWGIGSGISLFILAGVSQTIFVGLFNWLTGGQGLPVGFIPALFSAITSGNLTLALLLTTRGLLLLG  236 (462)
T ss_pred             HHHHHHHHHHHHHHhcCcCcchHHHHHHHHHHHHHHHHhhhhcccCccccchHHHHHHHHhcCccchhhhhcccccHHHH
Confidence            999999999999999999999999999999999999998765               11112211  112     45667


Q ss_pred             HHHHHHHHhhhheeeeeeEEEEEeeeeecCCCccccCCCccccCC
Q psy8862         213 ATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       213 ~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      +++++++++++||+|++|||||+||+| .+|      +++|+|-|
T Consensus       237 ~~~~~~i~~~~v~~q~~~~~IPI~~~k-~~g------~~s~iPiK  274 (462)
T PRK08568        237 LITTIVIFLIVVYLESMRVEIPLSHGR-VRG------ARGRYPLK  274 (462)
T ss_pred             HHHHHHHHHHheeEEeeEEEEEEEecc-ccC------CCceeeEE
Confidence            777888899999999999999999997 333      56788754

>TIGR02920 acc_sec_Y2 accessory Sec system translocase SecY2

Probab=100.00  E-value=1.1e-48  Score=371.92  Aligned_cols=222  Identities=26%  Similarity=0.373  Sum_probs=181.1

Q ss_pred             hhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHhHHHHHHHHhc
Q psy8862          14 HYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLLSS   89 (265)
Q Consensus        14 ~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyItAsIi~Qll~~   89 (265)
                      .+|+|++||+++    |+|++||+||+|.+.. .. +.+++++++++|+++||+++++|+|+|||+|||||||+||+++.
T Consensus         1 ~~~~ri~~Tl~~l~iyrlgs~IPlpGi~~~~~-~~-~~~~~~~l~~l~~~~gg~~~~~slfsLGI~PyItAsIi~QLL~~   78 (395)
T TIGR02920         1 IIYKKILFTCFILIIYVLGSYIPIPFVEVSKQ-DM-EGVKNSFFKIAIANTGGNLTTLSIFSLGLGPWMTSMIILQLFSF   78 (395)
T ss_pred             CHHHHHHHHHHHHHHHHHhccCCCCCcChhhH-HH-hcccccHHHHHHHHhcCccccCcHHHhCcHHHHHHHHHHHHHHh
Confidence            379999999988    9999999999999762 22 22235799999999999999999999999999999999999988


Q ss_pred             -cchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8862          90 -IMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQIT  168 (265)
Q Consensus        90 -~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~aG~~~~~wL~e~it  168 (265)
                       .+|++++++|| |.||     .||++|+++|++||.+++.++.+..+. .  + .+.+.++++|++|+++++||||+||
T Consensus        79 ~~~~~l~~~~~~-~~~~-----~tr~ltl~~a~iQs~~~~~~~~~~~~~-~--~-~~~~~~vl~L~~Gt~iv~wL~E~it  148 (395)
T TIGR02920        79 TKSDGFDAQSPK-EQQY-----RERFLTLIIAIIQGLAIIHSFTNKNGL-S--D-FNMLLATLILVTGTCLLVWLADLNA  148 (395)
T ss_pred             CcCcchhhhCHH-HhhH-----HHHHHHHHHHHHHHHHHHHHhhccccc-c--h-hHHHHHHHHHHHHHHHHHHHHHHHh
Confidence             78999999988 5555     389999999999999998876642221 1  2 3567789999999999999999999


Q ss_pred             hhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeecCCCcccc
Q psy8862         169 EYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTV  248 (265)
Q Consensus       169 ~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g~~~~~  248 (265)
                      |||+| |+|++|++||++++|+++.+.++. ..    .....+..+++++++++++++|++|||||++|+||.. ++   
T Consensus       149 ~~GiG-G~sllI~~~I~s~~~~~~~~~~~~-~~----~~~~~~~~~~~~~~i~~~v~~~~~~~rIpv~~~~~~~-~~---  218 (395)
T TIGR02920       149 KYGIG-GSMPIVLVSMLKNIPSNVFELFQM-SY----IWLIALLILLTLVALFLLAFIERAEYRIPVNDISLHN-RS---  218 (395)
T ss_pred             CCCcc-hHHHHHHHHHHHHHHHHHHHHHhc-ch----HHHHHHHHHHHHHHHHHHHheecceEEEEEEEchhhc-cC---
Confidence            99999 999999999999999998776542 11    1122333445556666799999999999999997654 22   


Q ss_pred             CCCccccCC
Q psy8862         249 ELTPYDLSR  257 (265)
Q Consensus       249 ~~~~y~~~~  257 (265)
                      ++++|+|-|
T Consensus       219 ~~~~yiPiK  227 (395)
T TIGR02920       219 NLMSYLPIK  227 (395)
T ss_pred             CCCcccceE
Confidence            578998865

Members of this family are restricted to the Firmicutes lineage (low-GC Gram-positive bacteria) and appear to be paralogous to, and much more divergent than, the preprotein translocase SecY. Members include the SecY2 protein of the accessory Sec system in Streptococcus gordonii, involved in export of the highly glycosylated platelet-binding protein GspB.

>PTZ00219 Sec61 alpha subunit; Provisional

Probab=100.00  E-value=4.8e-48  Score=374.28  Aligned_cols=224  Identities=18%  Similarity=0.215  Sum_probs=177.4

Q ss_pred             CccCCCCcCchh----hHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCc
Q psy8862           3 LNNILPNKDAKH----YKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGI   74 (265)
Q Consensus         3 ~~~~~~~~~~~~----l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI   74 (265)
                      +.+++|++++|+    +|+|++||+++    |+|++||+||+|.++..       |+++++.+.++|+   ++|+|+|||
T Consensus        14 ~~~~lP~v~~p~~~~~lr~Kil~T~~~l~iy~lg~~IPlpGi~~~~~~-------~~~~~~~~ifag~---~~slf~LGI   83 (474)
T PTZ00219         14 AMAILPEVAEPDRKIPFKEKVLWTAIALFVFLVCCQIPLYGIRSSSSS-------DPFYWMRVILASN---RGTLMELGI   83 (474)
T ss_pred             HHHhCCCccCCccCccHHHHHHHHHHHHHHHHHhccCcCCCcChhhcc-------chHHHHHHHHhcC---cchHHHhcc
Confidence            457889888655    99999999988    99999999999997532       5677788888885   899999999


Q ss_pred             hHHHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHH
Q psy8862          75 MPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLV  154 (265)
Q Consensus        75 ~PyItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~  154 (265)
                      +|||||||+||++++  -++.+++++.+++|+|+|++||++|+++|++||++++....+  +...+.+..+.++++++|+
T Consensus        84 ~PyItAsII~QLL~~--~~l~~~~~~~~~~r~k~~~~tr~lti~la~iqa~~~~~~~~~--g~~~~~~~~~~~~iilqL~  159 (474)
T PTZ00219         84 SPIVTSSMVMQLLAG--SKIIDVDQNNKEDRALFEGAQKLLGLLITLGEAVAYVWSGMY--GDISEIGAGNAILIILQLF  159 (474)
T ss_pred             HHHHHHHHHHHHHhh--CCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc--ccccCccHHHHHHHHHHHH
Confidence            999999999999975  234445555567799999999999999999999999844222  2222333446788999999


Q ss_pred             HHHHHHHHHHHHHhh-hcCCcchHHHHHHHHhhhhHHHHHHHhHHh------hhchh-h---------------------
Q psy8862         155 SGTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILINLLKLV------KIDLV-N---------------------  205 (265)
Q Consensus       155 aG~~~~~wL~e~it~-~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~------~~g~~-~---------------------  205 (265)
                      +|+++++||||++|| ||+|||+||+|++||++++||+.+++....      ..|.+ .                     
T Consensus       160 ~g~~~v~wL~E~Itkg~GIGnGiSL~I~agI~~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~r  239 (474)
T PTZ00219        160 FAGIVVILLDELLQKGYGLGSGISLFIATNICETIIWKAFSPTTINTGRGTEFEGAIIALFHLLFTRSDKLRALKEAFYR  239 (474)
T ss_pred             HHHHHHHHHHHHHhcCcccccchHHHHHHHHHHHhHHHhcccccccccccccchhhHHHHHHHHhhcccccchhhhhhhh
Confidence            999999999999999 999999999999999999997766422110      00100 0                     


Q ss_pred             -hhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeee
Q psy8862         206 -IIENLPNATFKVKLENDHVILGHISGKMRMNYIRI  240 (265)
Q Consensus       206 -~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~  240 (265)
                       ..+.++.+++++++++++||+|+++||||++|+|+
T Consensus       240 ~~l~~~~~~~~~~~i~~~vv~~~~~~~~IPi~~~~~  275 (474)
T PTZ00219        240 PHLPNLTNLLATVLVFLVVIYFQGFRVDLPLKSQKV  275 (474)
T ss_pred             cccccHHHHHHHHHHHHhheeeeeeEEEEeeecccc
Confidence             01234455777888899999999999999999974

>PF00344 SecY: SecY translocase; InterPro: IPR002208 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway

Probab=100.00  E-value=1.6e-41  Score=317.99  Aligned_cols=185  Identities=40%  Similarity=0.610  Sum_probs=155.6

Q ss_pred             hhhhhCchHHHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccc-----Cch
Q psy8862          68 TIFSLGIMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVL-----DTS  142 (265)
Q Consensus        68 SlfsLGI~PyItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~-----~~~  142 (265)
                      |+|+|||+|||||||+||++..  |+++++|+|||+||+|++++||++|+++|++||++++..+.+......     +.+
T Consensus         1 SlfsLGI~PyitAsIi~Qll~~--~~l~~l~~~g~~~~~~~~~~tr~ltl~~a~iqa~~~~~~~~~~~~~~~~~~~~~~~   78 (346)
T PF00344_consen    1 SLFSLGIGPYITASIIMQLLII--PKLIKLQKEGEEGRKKLNRYTRYLTLILAVIQAIGIVLSLGYYGSVSPLILSSGSG   78 (346)
T ss_dssp             BTTSSTTHHHHHHHHHHHHHHS--SSSSSHSTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSSSSTTC-TTSTTC
T ss_pred             ChHhhccHHHHHHHHHHHHHhc--ccHHHhhhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccchH
Confidence            7999999999999999999944  999999999999999999999999999999999999987776421111     123


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhh--hch-hhhhhhHHHHHHHHHH
Q psy8862         143 FYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK--IDL-VNIIENLPNATFKVKL  219 (265)
Q Consensus       143 ~~~~~~~vl~L~aG~~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~--~g~-~~~~~~l~~~~~~l~~  219 (265)
                      ....+.++++|++|+++++||||+|||||+|||+|++|++||++++|+++.+.++...  .++ .++...+..+++++++
T Consensus        79 ~~~~~~i~l~L~~G~~i~~wL~e~it~~GiGnG~SliI~~~I~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~  158 (346)
T PF00344_consen   79 FINYLLIVLQLVAGSMILIWLSELITKYGIGNGISLIIFAGIISNLPWSIINLFQLLSNKAGSLSNALFLLIILIITLVV  158 (346)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCSSSTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCSTSSSTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence            4567899999999999999999999999999999999999999999999888776643  121 2344557778888888


Q ss_pred             HhhhheeeeeeEEEEEeeeeecCCCccccCCCccccCC
Q psy8862         220 ENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       220 i~~~V~l~~a~rrIPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      ++++|++|++|||||+||+|+.   +...++++|+|-|
T Consensus       159 ~~~~v~l~~~~~rIPi~~~~~~---~~~~~~~~ylPik  193 (346)
T PF00344_consen  159 IALVVYLQEAERRIPIQYARIV---NSSRGQSSYLPIK  193 (346)
T ss_dssp             HHHHHHHHHCEEEECEBBSSSB-----SSSBCSCEEEE
T ss_pred             HHhheeeeeeEEEEEEEecccc---ccCcccceeeeee
Confidence            9999999999999999999864   3335668888854

Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains []. Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices. The eubacterial secY protein [] interacts with the signal sequences of secretory proteins as well as with two other components of the protein translocation system: secA and secE. SecY is an integral plasma membrane protein of 419 to 492 amino acid residues that apparently contains 10 transmembrane (TM), 6 cytoplasmic and 5 periplasmic regions. Cytoplasmic regions 2 and 3, and TM domains 1, 2, 4, 5, 7 and 10 are well conserved: the conserved cytoplasmic regions are believed to interact with cytoplasmic secretion factors, while the TM domains may participate in protein export []. Homologs of secY are found in archaebacteria []. SecY is also encoded in the chloroplast genome of some algae [] where it could be involved in a prokaryotic-like protein export system across the two membranes of the chloroplast endoplasmic reticulum (CER) which is present in chromophyte and cryptophyte algae.; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0015031 protein transport, 0016020 membrane; PDB: 3J01_A 2ZJS_Y 2ZQP_Y 2WWA_A 2WW9_A 2YXR_A 1RHZ_A 3KCR_A 3DKN_A 2YXQ_A ....

>KOG1373|consensus

Probab=100.00  E-value=2.1e-33  Score=258.94  Aligned_cols=227  Identities=21%  Similarity=0.223  Sum_probs=196.4

Q ss_pred             ccCCCCcCchh----hHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCch
Q psy8862           4 NNILPNKDAKH----YKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIM   75 (265)
Q Consensus         4 ~~~~~~~~~~~----l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~   75 (265)
                      -+++|+++.||    +++|++||...    .++++||++|+..++        +++++++++.+.|.  ++.|+++||+.
T Consensus        14 ~~~lPEv~~Perk~pf~eK~~wt~i~~~iflv~~QiPLyGi~ssd--------t~DP~yw~Rvilas--nrgTLMelGis   83 (476)
T KOG1373|consen   14 LSFLPEVEAPERKLPFREKLLWTAISLLIFLVCSQIPLYGIMSSD--------TADPFYWMRVILAS--NRGTLMELGIS   83 (476)
T ss_pred             hccCccccCchhcCcHHHHHHHHHHHHHHHHHHhhccccccccCC--------CCCcHHHHHHHHhc--CCcchhhhccc
Confidence            46789999888    99999999877    789999999997653        25788899999998  99999999999


Q ss_pred             HHHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHH
Q psy8862          76 PYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVS  155 (265)
Q Consensus        76 PyItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~a  155 (265)
                      |.+|++.+||+|++  .++.+.+.+-++||..+|..||.+++++++.|+..++....|  |...+.+....+++++||+.
T Consensus        84 PivtSglimQlLag--~kiIeV~~~~~~DR~Lfn~aQKl~~iii~vgqa~~yV~tG~y--G~p~dLg~~~clLii~QL~~  159 (476)
T KOG1373|consen   84 PIVTSGLIMQLLAG--SKIIEVNFNIKEDRELFNGAQKLFAIIITVGQAVVYVMTGMY--GSPSDLGVGICLLIILQLFF  159 (476)
T ss_pred             hhhHHHHHHHHHcc--CcEEEecCCChhhHHHHHHHHHHHHHHHHHHHHHHHhhhccc--CChhhcchhHHHHHHHHHHH
Confidence            99999999999998  678888888899999999999999999999999999998877  43345556677899999999


Q ss_pred             HHHHHHHHHHHHhh-hcCCcchHHHHHHHHhhhhHHHHHHHhHHh------hhchh-h----------------------
Q psy8862         156 GTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILINLLKLV------KIDLV-N----------------------  205 (265)
Q Consensus       156 G~~~~~wL~e~it~-~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~------~~g~~-~----------------------  205 (265)
                      .+.+++.|||+++| ||+|||+|++|.+|||+++.|+-+++-+..      .+|++ +                      
T Consensus       160 Agiiv~lLdEllqKGyGlgSGislfiatnice~ivwkaFsptti~tGrg~efeGAvIalfhll~tr~~k~~al~eAF~Rq  239 (476)
T KOG1373|consen  160 AGIIVILLDELLQKGYGLGSGISLFIATNICESIVWKAFSPTTINTGRGTEFEGAVIALFHLLATRKDKVRALREAFYRQ  239 (476)
T ss_pred             hhHHHHHHHHHHHhccCcCcchhhhhHHHHHHHHHHHhcCceEEecCCCceechHHHHHHHHHHhcchHHHHHHHHHHHh
Confidence            99999999999999 999999999999999999999987753321      01221 1                      


Q ss_pred             hhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeecCCCc
Q psy8862         206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDK  245 (265)
Q Consensus       206 ~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g~~  245 (265)
                      .++++..++.+++++++++|+|.-+.++|++++| .||.+
T Consensus       240 nLPNl~nl~at~lif~iViYlQgfRVeLPirS~r-~RG~~  278 (476)
T KOG1373|consen  240 NLPNLTNLLATVLIFLIVIYLQGFRVELPIRSTR-ARGQY  278 (476)
T ss_pred             cccHHHHHHHHHHHHHHHhhccceEEEeeecchh-hcccC
Confidence            1588999999999999999999999999999885 67644

>PRK12442 translation initiation factor IF-1; Reviewed

Probab=91.90  E-value=0.14  Score=39.01  Aligned_cols=34  Identities=65%  Similarity=1.106  Sum_probs=27.3

Q ss_pred             EEEEeeeeecCCCccccCCCccccCCceeeeecC
Q psy8862         232 KMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK  265 (265)
Q Consensus       232 rIPi~~~r~~~g~~~~~~~~~y~~~~~~~~~~~~  265 (265)
                      |+-..+-|...|.+...+-+.|-++||+|+||.+
T Consensus        39 KmR~~rIrIl~GD~V~VE~spYDltkGRIiyR~~   72 (87)
T PRK12442         39 RMRKHRIRILAGDRVTLELSPYDLTKGRINFRHK   72 (87)
T ss_pred             ceeeeeEEecCCCEEEEEECcccCCceeEEEEec
Confidence            4444555667788888888999999999999973

>PF10559 Plug_translocon: Plug domain of Sec61p; InterPro: IPR019561 The Sec61/SecY translocon mediates translocation of proteins across the membrane and integration of membrane proteins into the lipid bilayer

Probab=87.91  E-value=0.13  Score=32.56  Aligned_cols=29  Identities=7%  Similarity=0.045  Sum_probs=20.1

Q ss_pred             ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhcc
Q psy8862          26 GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGG   62 (265)
Q Consensus        26 ~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg   62 (265)
                      .++++||++|++...        .++++++++.+.+|
T Consensus         4 l~ls~ipLyG~~~~~--------~~D~f~~~R~i~As   32 (35)
T PF10559_consen    4 LFLSQIPLYGLQSAS--------SSDPFYWLRAIFAS   32 (35)
T ss_dssp             HHHHHSB-STSTTTT--------SSCCHTTTHHHHTS
T ss_pred             EEeeCCccccccCCC--------cCCHHHHHHHHHcc
Confidence            467899999993322        15678888888776

The structure of the translocon revealed a plug domain blocking the pore on the lumenal side. The plug is unlikely to be important for sealing the translocation pore in yeast but it plays a role in stabilising Sec61p during translocon formation. The domain runs from residues 52-74 []. ; PDB: 2YXR_A 1RHZ_A 3KCR_A 3DKN_A 2YXQ_A 1RH5_A 3BO1_A 3BO0_A 2WWA_A 2WW9_A ....

>TIGR00008 infA translation initiation factor IF-1

Probab=82.74  E-value=0.63  Score=33.94  Aligned_cols=26  Identities=81%  Similarity=1.403  Sum_probs=21.1

Q ss_pred             eeecCCCccccCCCccccCCceeeee
Q psy8862         238 IRILPGDKVTVELTPYDLSRGRIIFR  263 (265)
Q Consensus       238 ~r~~~g~~~~~~~~~y~~~~~~~~~~  263 (265)
                      -+...|.+..-+-+.|-++||+|+||
T Consensus        43 I~I~~GD~V~Ve~spyd~tkgrIi~R   68 (68)
T TIGR00008        43 IRILPGDKVKVELSPYDLTRGRITYR   68 (68)
T ss_pred             EEECCCCEEEEEECcccCCcEeEEeC
Confidence            34456777777789999999999998

This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	265
3j01_A	435	Structure Of The Ribosome-Secye Complex In The Memb		9e-35
3dl8_G	429	Structure Of The Complex Of Aquifex Aeolicus Secyeg		7e-28
2zjs_Y	434	Crystal Structure Of Secye Translocon From Thermus		2e-23
2akh_Y	400	Normal Mode-Based Flexible Fitted Coordinates Of A		4e-21
1ah9_A	71	The Structure Of The Translational Initiation Facto		1e-20
3din_C	431	Crystal Structure Of The Protein-Translocation Comp		2e-19
3i4o_A	79	Crystal Structure Of Translation Initiation Factor		3e-19
1hr0_W	71	Crystal Structure Of Initiation Factor If1 Bound To		5e-18

>pdb|3J01|A Chain A, Structure Of The Ribosome-Secye Complex In The Membrane Environment Length = 435

Iteration: 1
 Score =  143 bits (361), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 73/145 (50%), Positives = 96/145 (66%), Gaps = 3/145 (2%)
Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
           G+ IPIP I+ + L KL E+ +  I+ MFNMFSGGALSR +IF+LGIMPY          
Sbjct: 29  GSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLL 88
Query: 88  XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKS---QKNLVLDTSFY 144
               P    +KKEGE G+ KI+QY R+ TL+LAI Q  GI+  L +    + LV++  F 
Sbjct: 89  TVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFA 148
Query: 145 FHFTTVLTLVSGTIFLMWLSEQITE 169
           F+FT V++LV+GT+FLMWL EQITE
Sbjct: 149 FYFTAVVSLVTGTMFLMWLGEQITE 173

>pdb|3DL8|G Chain G, Structure Of The Complex Of Aquifex Aeolicus Secyeg And Bacillus Subtilis Seca Length = 429

Iteration: 1
 Score =  120 bits (301), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 62/168 (36%), Positives = 97/168 (57%), Gaps = 6/168 (3%)
Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
           G+HIPIP IN   L    +  + ++  ++++FSGG L RLT+F+LG+MPY          
Sbjct: 31  GSHIPIPGINPEALRDFLKAFEGSVFALYDIFSGGNLGRLTVFALGVMPYISASIMMQLL 90
Query: 88  XXXXPKFENL-KKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN-----LVLDT 141
               P  + L K+EG+ G+YKI +Y ++ TL +A +Q  GI+  ++ Q +     +V + 
Sbjct: 91  TVAIPSLQRLAKEEGDYGRYKINEYTKYLTLFVATVQSLGIAFWIRGQVSPKGIPVVENP 150
Query: 142 SFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTXXXXXXXXXXXFP 189
              F   TVLTLV+GT+FL+W++++ITE G+GNG            FP
Sbjct: 151 GISFILITVLTLVAGTMFLVWIADRITEKGIGNGASLIIFAGIVANFP 198

>pdb|2ZJS|Y Chain Y, Crystal Structure Of Secye Translocon From Thermus Thermophilus With A Fab Fragment Length = 434

Iteration: 1
 Score =  106 bits (264), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 56/154 (36%), Positives = 81/154 (52%), Gaps = 5/154 (3%)
Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXX 87
           GA IP P ++  ++ +     Q  + G+ N+FSGG   R +IF+LGIMPY          
Sbjct: 31  GAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGNFERFSIFALGIMPYITAAIIMQIL 90
Query: 88  XXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGIS-LILKSQKNLVLDTSF--- 143
               P  E L KEGE G+  I QY R   + L   QG  ++   L ++    L   +   
Sbjct: 91  VTVVPALEKLSKEGEEGRRIINQYTRIGGIALGAFQGFFLATAFLGAEGGRFLLPGWSPG 150
Query: 144 -YFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGT 176
            +F F  V+T V+G   L+W++E+ITEYG+GNGT
Sbjct: 151 PFFWFVVVVTQVAGIALLLWMAERITEYGIGNGT 184

>pdb|2AKH|Y Chain Y, Normal Mode-Based Flexible Fitted Coordinates Of A Non- Translocating Secyeg Protein-Conducting Channel Into The Cryo-Em Map Of A Secyeg-Nascent Chain-70s Ribosome Complex From E. Coli Length = 400

Iteration: 1
 Score = 98.2 bits (243), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 54/121 (44%), Positives = 75/121 (61%), Gaps = 5/121 (4%)
Query: 52  ILGMFNMFSGGALSRLTIFSLGIMPYXXXXXXXXXXXXXXPKFENLKKEGELGKYKIAQY 111
           ++G   +F  G  S ++IF+LGIMPY              P    +KKEGE G+ KI+QY
Sbjct: 26  VIGALIVFRIG--SFISIFALGIMPYISASIIIQLLTVVHPTLAEIKKEGESGRRKISQY 83
Query: 112 IRFSTLILAILQGSGISLILKSQ---KNLVLDTSFYFHFTTVLTLVSGTIFLMWLSEQIT 168
            R+ TL+LAI Q  GI+  L +    + LV++  F F+FT V++LV+GT+FLMWL EQIT
Sbjct: 84  TRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLGEQIT 143
Query: 169 E 169
           E
Sbjct: 144 E 144

>pdb|1AH9|A Chain A, The Structure Of The Translational Initiation Factor If1 From Escherichia Coli, Nmr, 19 Structures Length = 71

Iteration: 1
 Score = 96.7 bits (239), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 43/58 (74%), Positives = 50/58 (86%)
Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
           E LPN  F+V+LEN HV+  HISGKMR NYIRIL GDKVTVELTPYDLS+GRI+FR++
Sbjct: 14  ETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVFRSR 71

>pdb|3DIN|C Chain C, Crystal Structure Of The Protein-Translocation Complex Formed By The Secy Channel And The Seca Atpase Length = 431

Iteration: 1
 Score = 92.4 bits (228), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 50/156 (32%), Positives = 86/156 (55%), Gaps = 8/156 (5%)
Query: 28  GAHIPIPSINYSQLTKLFEKNQNN-----ILGMFNMFSGGALSRLTIFSLGIMPYXXXXX 82
           G +IP+P +N     ++F +         IL  +++F+GGALSR ++F++ + PY     
Sbjct: 31  GIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYDVFTGGALSRFSVFTMSVTPYITASI 90
Query: 83  XXXXXXXXXPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLIL-KSQKNLVLDT 141
                    P  + + +EGE G+ K A+Y R  TL++   Q   +S  L +S  ++V   
Sbjct: 91  ILQLLASVMPSLKEMLREGEEGRKKFAKYTRRLTLLIGGFQAFFVSFSLARSNPDMVAPG 150
Query: 142 SFYFHFTTV--LTLVSGTIFLMWLSEQITEYGLGNG 175
                FT +  +++++GT+FL+WL E+ITE G+GNG
Sbjct: 151 VNVLQFTVLSTMSMLAGTMFLLWLGERITEKGIGNG 186

>pdb|3I4O|A Chain A, Crystal Structure Of Translation Initiation Factor 1 From Mycobacterium Tuberculosis Length = 79

Iteration: 1
 Score = 92.0 bits (227), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 40/58 (68%), Positives = 49/58 (84%)
Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
           E LPNA F+++LEN H +L HISGKMR +YIRILP D+V VEL+PYDLSRGRI++R K
Sbjct: 22  EPLPNAMFRIELENGHKVLAHISGKMRQHYIRILPEDRVVVELSPYDLSRGRIVYRYK 79

>pdb|1HR0|W Chain W, Crystal Structure Of Initiation Factor If1 Bound To The 30s Ribosomal Subunit Length = 71

Iteration: 1
 Score = 88.2 bits (217), Expect = 5e-18,   Method: Composition-based stats.
 Identities = 39/56 (69%), Positives = 49/56 (87%)
Query: 208 ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           E LPNATF+VKL++   IL +ISGKMRM+YIRILPGD+V VE+TPYD +RGRI++R
Sbjct: 15  EALPNATFRVKLDSGPEILAYISGKMRMHYIRILPGDRVVVEITPYDPTRGRIVYR 70

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	265
3j01_A	435	Preprotein translocase SECY subunit; ribonucleopro	3e-83
2zjs_Y	434	Preprotein translocase SECY subunit; translocon, S	1e-80
3dl8_G	429	Preprotein translocase subunit SECY; RECA-type ATP	1e-79
3din_C	431	Preprotein translocase subunit SECY; protein trans	2e-75
3mp7_A	482	Preprotein translocase subunit SECY; protein trans	3e-55
1rh5_A	436	Preprotein translocase SECY subunit; protein trans	2e-54
1ah9_A	71	IF1, initiation factor 1; ribosome binding, protei	5e-35
3i4o_A	79	Translation initiation factor IF-1; cytoplasm, pro	3e-34
1hr0_W	71	Translation initiation factor; ribosomal subunit,	3e-34
2wwb_A	476	Protein transport protein SEC61 subunit alpha ISO;	7e-32
2ww9_A	490	SEC sixty-one protein homolog; ribonucleoprotein,	1e-25
1d7q_A	143	Translation initiation factor 1A; OB-fold, beta-ba	2e-09
2oqk_A	117	Putative translation initiation factor EIF-1A; mal	1e-08
3bbo_N	257	Ribosomal protein L15; large ribosomal subunit, sp	1e-07
3v2d_P	150	50S ribosomal protein L15; ribosome associated inh	1e-07
3r8s_L	143	50S ribosomal protein L15; protein biosynthesis, R	8e-07
2zjr_I	156	50S ribosomal protein L15; ribosome, large ribosom	9e-06

>3j01_A Preprotein translocase SECY subunit; ribonucleoprotein, nucleotide-binding, PR biosynthesis, translation, zinc-finger, 70S ribosome, ribos translocon; 7.10A {Escherichia coli 536} PDB: 2akh_Y 2aki_Y Length = 435

 Score =  255 bits (653), Expect = 3e-83
 Identities = 92/183 (50%), Positives = 131/183 (71%), Gaps = 3/183 (1%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+ IPIP I+ + L KL E+ +  I+ MFNMFSGGALSR +IF+LGIMPYIS+SII+QLL
Sbjct: 29  GSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLL 88

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ---KNLVLDTSFY 144
           + + P    +KKEGE G+ KI+QY R+ TL+LAI Q  GI+  L +    + LV++  F 
Sbjct: 89  TVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFA 148

Query: 145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLV 204
           F+FT V++LV+GT+FLMWL EQITE G+GNG SIII +GI++  P  + + ++  +   +
Sbjct: 149 FYFTAVVSLVTGTMFLMWLGEQITERGIGNGISIIIFAGIVAGLPPAIAHTIEQARQGDL 208

Query: 205 NII 207
           + +
Sbjct: 209 HFL 211

>2zjs_Y Preprotein translocase SECY subunit; translocon, SEC, protein-conducting-channel, membrane, prote transport, translocation, transmembrane, transport; 3.20A {Thermus thermophilus} PDB: 2zqp_Y Length = 434

 Score =  248 bits (635), Expect = 1e-80
 Identities = 68/185 (36%), Positives = 109/185 (58%), Gaps = 5/185 (2%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           GA IP P ++  ++ +     Q  + G+ N+FSGG   R +IF+LGIMPYI+++IIMQ+L
Sbjct: 31  GAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGNFERFSIFALGIMPYITAAIIMQIL 90

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN-----LVLDTS 142
            +++P  E L KEGE G+  I QY R   + L   QG  ++      +            
Sbjct: 91  VTVVPALEKLSKEGEEGRRIINQYTRIGGIALGAFQGFFLATAFLGAEGGRFLLPGWSPG 150

Query: 143 FYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKID 202
            +F F  V+T V+G   L+W++E+ITEYG+GNGTS+II +GI+  +   ++  + L++  
Sbjct: 151 PFFWFVVVVTQVAGIALLLWMAERITEYGIGNGTSLIIFAGIVVEWLPQILRTIGLIRTG 210

Query: 203 LVNII 207
            VN++
Sbjct: 211 EVNLV 215

>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane protein translocation protein- protein complex, ATP-binding, cell membrane; 7.50A {Aquifex aeolicus} Length = 429

 Score =  245 bits (629), Expect = 1e-79
 Identities = 79/186 (42%), Positives = 127/186 (68%), Gaps = 6/186 (3%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
           G+HIPIP IN   L    +  + ++  ++++FSGG L RLT+F+LG+MPYIS+SI+MQLL
Sbjct: 31  GSHIPIPGINPEALRDFLKAFEGSVFALYDIFSGGNLGRLTVFALGVMPYISASIMMQLL 90

Query: 88  SSIMPKFENL-KKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN-----LVLDT 141
           +  +P  + L K+EG+ G+YKI +Y ++ TL +A +Q  GI+  ++ Q +     +V + 
Sbjct: 91  TVAIPSLQRLAKEEGDYGRYKINEYTKYLTLFVATVQSLGIAFWIRGQVSPKGIPVVENP 150

Query: 142 SFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKI 201
              F   TVLTLV+GT+FL+W++++ITE G+GNG S+II +GI+++FPN +I   + VK 
Sbjct: 151 GISFILITVLTLVAGTMFLVWIADRITEKGIGNGASLIIFAGIVANFPNAVIQFYEKVKT 210

Query: 202 DLVNII 207
             +  +
Sbjct: 211 GDIGPL 216

>3din_C Preprotein translocase subunit SECY; protein translocation, membrane protein, ATPase, ATP-binding membrane, nucleotide-binding, protein transport; HET: ADP; 4.50A {Thermotoga maritima MSB8} Length = 431

 Score =  234 bits (600), Expect = 2e-75
 Identities = 62/176 (35%), Positives = 109/176 (61%), Gaps = 8/176 (4%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQ-----NNILGMFNMFSGGALSRLTIFSLGIMPYISSSI 82
           G +IP+P +N     ++F +         IL  +++F+GGALSR ++F++ + PYI++SI
Sbjct: 31  GIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYDVFTGGALSRFSVFTMSVTPYITASI 90

Query: 83  IMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLD-- 140
           I+QLL+S+MP  + + +EGE G+ K A+Y R  TL++   Q   +S  L      ++   
Sbjct: 91  ILQLLASVMPSLKEMLREGEEGRKKFAKYTRRLTLLIGGFQAFFVSFSLARSNPDMVAPG 150

Query: 141 -TSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINL 195
                F   + +++++GT+FL+WL E+ITE G+GNG SI+I +GI++ +P+ +   
Sbjct: 151 VNVLQFTVLSTMSMLAGTMFLLWLGERITEKGIGNGISILIFAGIVARYPSYIRQA 206

>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane protein complex, preprotein TRAN membrane insertion,; 2.90A {Pyrococcus furiosus} Length = 482

 Score =  183 bits (467), Expect = 3e-55
 Identities = 35/188 (18%), Positives = 70/188 (37%), Gaps = 14/188 (7%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
            A IP+  I          +   +      +   G     +I +LGI P +++ II+QLL
Sbjct: 43  LAEIPVYGIP---------ERIQDYFQFLRVVLAG--RNGSILTLGIGPIVTAGIILQLL 91

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
                +   L       +       R  ++ +   + +   L       + +D ++    
Sbjct: 92  V--GSEIIKLDLANPEDRRFYQALQRVFSVFMCFFEAAVWILGGAFG-RVGVDVTYAIAV 148

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
             +L L  G I L+ L E ++++G+G+G S+ I +G+  +     +N L    I      
Sbjct: 149 LMILQLAMGGIVLIILDELVSKWGIGSGISLFIAAGVSQTILTRSLNPLTDPNIIDPLTG 208

Query: 208 ENLPNATF 215
           +       
Sbjct: 209 QPAIVGAI 216

>1rh5_A Preprotein translocase SECY subunit; protein translocation, SECY, membrane protein, protein channels, protein transport; 3.20A {Methanocaldococcus jannaschii} SCOP: f.41.1.1 PDB: 1rhz_A 2yxq_A 3dkn_A 2yxr_A 3bo0_A 3bo1_A 3kcr_A Length = 436

 Score =  180 bits (460), Expect = 2e-54
 Identities = 30/188 (15%), Positives = 70/188 (37%), Gaps = 18/188 (9%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
              I + +                I   +   +       T+ +LGI P +++ IIMQLL
Sbjct: 40  MGCIDVYTAG---------AQIPAIFEFWQTITASR--IGTLITLGIGPIVTAGIIMQLL 88

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
                    +       +       +  ++I+  ++                  +    F
Sbjct: 89  VG--SGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVLFVGAG-----AFGILTPLLAF 141

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
             ++ +  G+I L++L E +++YG+G+G  + I +G+  +     +     +   L ++I
Sbjct: 142 LVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGALGPEGYLWKFLNSLI 201

Query: 208 ENLPNATF 215
           + +PN  +
Sbjct: 202 QGVPNIEY 209

>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA interaction, OB fold; NMR {Escherichia coli} SCOP: b.40.4.5 Length = 71

 Score =  119 bits (300), Expect = 5e-35
 Identities = 43/60 (71%), Positives = 52/60 (86%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
           ++E LPN  F+V+LEN HV+  HISGKMR NYIRIL GDKVTVELTPYDLS+GRI+FR++
Sbjct: 12  VLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVFRSR 71

>3i4o_A Translation initiation factor IF-1; cytoplasm, protein biosynthesis; 1.47A {Mycobacterium tuberculosis} Length = 79

 Score =  117 bits (296), Expect = 3e-34
 Identities = 40/60 (66%), Positives = 51/60 (85%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
           ++E LPNA F+++LEN H +L HISGKMR +YIRILP D+V VEL+PYDLSRGRI++R K
Sbjct: 20  VVEPLPNAMFRIELENGHKVLAHISGKMRQHYIRILPEDRVVVELSPYDLSRGRIVYRYK 79

>1hr0_W Translation initiation factor; ribosomal subunit, ribosome, IF1; 3.20A {Escherichia coli} SCOP: b.40.4.5 PDB: 1zo1_W Length = 71

 Score =  117 bits (295), Expect = 3e-34
 Identities = 39/58 (67%), Positives = 50/58 (86%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           + E LPNATF+VKL++   IL +ISGKMRM+YIRILPGD+V VE+TPYD +RGRI++R
Sbjct: 13  VTEALPNATFRVKLDSGPEILAYISGKMRMHYIRILPGDRVVVEITPYDPTRGRIVYR 70

>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Canis lupus familiaris} Length = 476

 Score =  121 bits (304), Expect = 7e-32
 Identities = 34/172 (19%), Positives = 62/172 (36%), Gaps = 16/172 (9%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
              IP+  I  S     F          + M    A +R T+  LGI P ++S +IMQLL
Sbjct: 45  CCQIPLFGIMSSDSADPF----------YWMRVILASNRGTLMELGISPIVTSGLIMQLL 94

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           +           +    +       +   +I+ I Q   I  ++        +       
Sbjct: 95  AGAKIIEVGDTPK---DRALFNGAQKLFGMIITIGQ--SIVYVMTGMYGDPSEMGAGICL 149

Query: 148 TTVLTLVSGTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILINLLKL 198
              + L    + ++ L E + + YGLG+G S+ I + I  +      +   +
Sbjct: 150 LITIQLFVAGLIVLLLDELLQKGYGLGSGISLFIATNICETIVWKAFSPTTV 201

>2ww9_A SEC sixty-one protein homolog; ribonucleoprotein, transmembrane, phospho signal sequence, membrane, ribosome, transport; 8.60A {Saccharomyces cerevisiae} PDB: 2wwa_A Length = 490

 Score =  104 bits (259), Expect = 1e-25
 Identities = 27/172 (15%), Positives = 59/172 (34%), Gaps = 14/172 (8%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
            A  P+  +  +    + +        ++ +         T+   G+ P ISS +I+QLL
Sbjct: 45  FAQFPLVGLPKATTPNVND-------PIYFLRGVFGCEPRTLLEFGLFPNISSGLILQLL 97

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
           +    K   +  + +  +       +   ++  ++  +              D S     
Sbjct: 98  A--GLKVIKVNFKIQSDRELFQSLTKVFAIVQYVILTNIFIFAG----YFGDDLSVVQIG 151

Query: 148 TTVLTLVSGTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILINLLKL 198
                LV   IF   L+E I + +G  +G  II    I ++       + ++
Sbjct: 152 LINFQLVGAGIFTTLLAEVIDKGFGFSSGAMIINTVVIATNLVADTFGVSQI 203

>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel, RNA-binding protein, gene regulation; NMR {Homo sapiens} SCOP: b.40.4.5 Length = 143

 Score = 53.9 bits (129), Expect = 2e-09
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           +I+ L N   +    +    L HI GK+R   + I   D + V L  Y  ++  +I +
Sbjct: 37  VIKMLGNGRLEAMCFDGVKRLCHIRGKLR-KKVWINTSDIILVGLRDYQDNKADVILK 93

>2oqk_A Putative translation initiation factor EIF-1A; malaria, eukaryotic initiation facto SGC, structural genomics; 1.80A {Cryptosporidium parvum iowa II} Length = 117

 Score = 51.2 bits (122), Expect = 1e-08
 Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           +   L N        +    L HI GKMR     + PGD V V L  +  S+G II +
Sbjct: 38  VQRMLGNGRLDAYCFDGQKRLCHIRGKMRKKV-WVNPGDIVLVSLRDFQDSKGDIILK 94

>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 257

 Score = 50.6 bits (121), Expect = 1e-07
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 1  MRLNNILPNKDAKHYKKRLGRGIGSGSG 28
           RL+N+ P   ++   KR GRGI +G G
Sbjct: 65 FRLDNLGPQPGSRKRPKRKGRGIAAGQG 92

>3v2d_P 50S ribosomal protein L15; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_J 2hgj_O 2hgq_O 2hgu_O 1vsa_J 2j03_P 2jl6_P 2jl8_P 2v47_P 2v49_P 2wdi_P 2wdj_P 2wdl_P 2wdn_P 2wh2_P 2wh4_P 2wrj_P 2wrl_P 2wro_P 2wrr_P ... Length = 150

 Score = 48.7 bits (117), Expect = 1e-07
 Identities = 14/28 (50%), Positives = 20/28 (71%)

Query: 1  MRLNNILPNKDAKHYKKRLGRGIGSGSG 28
          M+L+++ PN  A   +KR+GRG GSG G
Sbjct: 1  MKLSDLRPNPGANKRRKRVGRGPGSGHG 28

>3r8s_L 50S ribosomal protein L15; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_L 2wwq_L 3oat_L* 3oas_L* 3ofd_L 3ofc_L 3ofr_L* 3ofz_L* 3og0_L 3ofq_L 3r8t_L 3i1n_L 1p85_J 1p86_J 1vs8_L 1vs6_L 2aw4_L 2awb_L 1vt2_L 2i2v_L ... Length = 143

 Score = 46.3 bits (111), Expect = 8e-07
 Identities = 16/27 (59%), Positives = 19/27 (70%)

Query: 2  RLNNILPNKDAKHYKKRLGRGIGSGSG 28
          RLN + P + +K   KRLGRGIGSG G
Sbjct: 1  RLNTLSPAEGSKKAGKRLGRGIGSGLG 27

>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.12.1.1 PDB: 1nwx_J* 1nwy_J* 1sm1_J* 1xbp_J* 2zjp_I* 2zjq_I 1nkw_J 3cf5_I* 3dll_I* 3pio_I* 3pip_I* 1pnu_J 1pny_J 1vor_M 1vou_M 1vow_M 1voy_M 1vp0_M Length = 156

 Score = 43.7 bits (104), Expect = 9e-06
 Identities = 9/26 (34%), Positives = 17/26 (65%)

Query: 1  MRLNNILPNKDAKHYKKRLGRGIGSG 26
          M+L+++ P   ++  +KR+GRG G  
Sbjct: 1  MKLHDLKPTPGSRKDRKRVGRGPGGT 26

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	265
2zjs_Y	434	Preprotein translocase SECY subunit; translocon, S	100.0
3dl8_G	429	Preprotein translocase subunit SECY; RECA-type ATP	100.0
3din_C	431	Preprotein translocase subunit SECY; protein trans	100.0
3j01_A	435	Preprotein translocase SECY subunit; ribonucleopro	100.0
1rh5_A	436	Preprotein translocase SECY subunit; protein trans	100.0
2ww9_A	490	SEC sixty-one protein homolog; ribonucleoprotein,	100.0
3mp7_A	482	Preprotein translocase subunit SECY; protein trans	100.0
2wwb_A	476	Protein transport protein SEC61 subunit alpha ISO;	100.0

>2zjs_Y Preprotein translocase SECY subunit; translocon, SEC, protein-conducting-channel, membrane, prote transport, translocation, transmembrane, transport; 3.20A {Thermus thermophilus} PDB: 2zqp_Y

Probab=100.00  E-value=6.4e-66  Score=492.52  Aligned_cols=250  Identities=31%  Similarity=0.569  Sum_probs=213.7

Q ss_pred             CCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHhHHHH
Q psy8862           8 PNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSII   83 (265)
Q Consensus         8 ~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyItAsIi   83 (265)
                      +.+++||+|||++||+++    |+|+|||+||+|.+++++.++++++++++++|+|+||+++++|+|+|||+|||||||+
T Consensus         7 ~~~~~~~lr~kilfTl~~L~iyrlg~~IPlPGi~~~~~~~~~~~~~~~~~~~~~~fsGGa~~~~SifaLGI~PyItASII   86 (434)
T 2zjs_Y            7 SALQIPELRQRVLFTLLVLAAYRLGAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGNFERFSIFALGIMPYITAAII   86 (434)
T ss_dssp             HHHSSHHHHHHHHHHHHHHHHHHHHTTCBCTTBCHHHHHHHHHSSGGGTTHHHHHHTTSCGGGTBTTSSTTHHHHHHHHH
T ss_pred             hHhcchhHHHHHHHHHHHHHHHHHhcccccCCcCHHHHHHHHhcccccHHHHHHHHcccccccCcHHHHhhHHHHHHHHH
Confidence            468899999999999988    9999999999999988776544335789999999999999999999999999999999


Q ss_pred             HHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh-cccc--cccC--chhHHHHHHHHHHHHHHH
Q psy8862          84 MQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILK-SQKN--LVLD--TSFYFHFTTVLTLVSGTI  158 (265)
Q Consensus        84 ~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~-~~~~--~~~~--~~~~~~~~~vl~L~aG~~  158 (265)
                      ||||+.++|.++|++||||+||+|+|+||||+|+++|++||++++.++. ...+  ...+  ++..+.++++++|++|++
T Consensus        87 ~QLL~~vip~l~~l~keGe~Gr~ki~~~tR~lti~la~iQa~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~vl~L~aGt~  166 (434)
T 2zjs_Y           87 MQILVTVVPALEKLSKEGEEGRRIINQYTRIGGIALGAFQGFFLATAFLGAEGGRFLLPGWSPGPFFWFVVVVTQVAGIA  166 (434)
T ss_dssp             HHHHHHHSHHHHHHHTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSSSTTBCTTCCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcchhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCccccccCCccHHHHHHHHHHHHHHHH
Confidence            9999989999999999999999999999999999999999999998864 2112  2223  445567899999999999


Q ss_pred             HHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeeeEEEEEeee
Q psy8862         159 FLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYI  238 (265)
Q Consensus       159 ~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~  238 (265)
                      ++|||||+|||||+|||+|++|++||++++|+++.+.++...+|+.++...++.+++++++++++||+|++||||||||+
T Consensus       167 ~lmwLgE~It~~GIGnGiSliI~~gIv~~lp~~~~~~~~~~~~~~~~~~~~~~~l~~~~~vi~~vV~~~~~~rrIPvqya  246 (434)
T 2zjs_Y          167 LLLWMAERITEYGIGNGTSLIIFAGIVVEWLPQILRTIGLIRTGEVNLVAFLFFLAFIVLAFAGMAAVQQAERRIPVQYA  246 (434)
T ss_dssp             HHHHHHHHHHHTSSSCHHHHHHHHHHHHTHHHHHHHHHHTTTTTSSCHHHHHHHHHHHHHHHHHHHHHHHCEEEEEEEEC
T ss_pred             HHHHHHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHhccCcccHHHHHHHHHHHHHHHHHHHHheeeEEEEeehhh
Confidence            99999999999999999999999999999999998887765545444445556677788888999999999999999999


Q ss_pred             eecCCCccccCCCccccCC
Q psy8862         239 RILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       239 r~~~g~~~~~~~~~y~~~~  257 (265)
                      ||++|||+++++++|+|-|
T Consensus       247 kr~~gr~~~~g~~s~lPlK  265 (434)
T 2zjs_Y          247 RKVVGGRVYGGQATYIPIK  265 (434)
T ss_dssp             C-------CCCCEEEEEEE
T ss_pred             hhhccCcccCCcceEEeee
Confidence            9999999999999999865

>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane protein translocation protein- protein complex, ATP-binding, cell membrane; 7.50A {Aquifex aeolicus}

Probab=100.00  E-value=1.4e-66  Score=496.88  Aligned_cols=255  Identities=33%  Similarity=0.601  Sum_probs=211.3

Q ss_pred             CccCCCCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHH
Q psy8862           3 LNNILPNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYI   78 (265)
Q Consensus         3 ~~~~~~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyI   78 (265)
                      ++.+.+.|++||+|||++||+++    |+|+|||+||+|.++.++.++.+++++++++|+++||+++++|+|+|||+|||
T Consensus         2 ~~~~~~~~~~~~lr~kilfTl~~L~iyrlg~~IPlpGi~~~~~~~~~~~~~~~~~~~l~~~~GGa~~~~sifaLGI~PyI   81 (429)
T 3dl8_G            2 SEYLKALFELKELRQKFIFTLLMFVIYRLGSHIPIPGINPEALRDFLKAFEGSVFALYDIFSGGNLGRLTVFALGVMPYI   81 (429)
T ss_dssp             ------CCSCCCCHHHHHHHHHHHHHHHHHHHCSSCCCC---------------CCSSSSSSCCSSSCCCSSSSSHHHHH
T ss_pred             hHHHHHHHcchhHHHHHHHHHHHHHHHHHHccCCCCCCCHHHHHHHhhhccccHHHHHHHHhCcccccccHHHHhhHHHH
Confidence            35677899999999999999988    99999999999998876544322357999999999999999999999999999


Q ss_pred             hHHHHHHHHhccchhhhhhhh-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-----cccccCchhHHHHHHHHH
Q psy8862          79 SSSIIMQLLSSIMPKFENLKK-EGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ-----KNLVLDTSFYFHFTTVLT  152 (265)
Q Consensus        79 tAsIi~Qll~~~~p~l~~l~~-~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~-----~~~~~~~~~~~~~~~vl~  152 (265)
                      ||||+||+|+.++|+++|++| |||+||+|+|+||||+|+++|++||++++.++.+.     ++...+++..+.++++++
T Consensus        82 tAsII~QLL~~~~P~l~~l~k~ege~gr~ki~~~tR~lti~la~iQa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~  161 (429)
T 3dl8_G           82 SASIMMQLLTVAIPSLQRLAKEEGDYGRYKINEYTKYLTLFVATVQSLGIAFWIRGQVSPKGIPVVENPGISFILITVLT  161 (429)
T ss_dssp             HHHHHHHHHHHHSSCSSSCSCSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCSSCCCCCSSSTTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHhhhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccCCcHHHHHHHHHH
Confidence            999999999999999999999 99999999999999999999999999998877642     122234455678899999


Q ss_pred             HHHHHHHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeeeEE
Q psy8862         153 LVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGK  232 (265)
Q Consensus       153 L~aG~~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~rr  232 (265)
                      ||+|++++|||||+|||||+|||+|++|++||++++|+++.+.++....|+.++..++..+++++++++++||+|++|||
T Consensus       162 L~aGt~~lmwL~E~It~~GiGnGiSliI~~gI~~~lp~~~~~~~~~~~~g~~~~~~~l~~l~~~l~vi~~vV~~~~~~rr  241 (429)
T 3dl8_G          162 LVAGTMFLVWIADRITEKGIGNGASLIIFAGIVANFPNAVIQFYEKVKTGDIGPLTLLLIIALIIAIIVGIVYVQEAERR  241 (429)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCTTHHHHHHHHHHHHHTTTTSSCCCCSSSCSSSCTHHHHHHHHHHHHHHHHHTCSCCCCCC
T ss_pred             HHHHHHHHHHHHHHHhhcCcCcchHHHHHHHHHHHHHHHHHhHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHheeeEEE
Confidence            99999999999999999999999999999999999999987765432224444556677788888889999999999999


Q ss_pred             EEEeeeeecCCCccccCCCccccCC
Q psy8862         233 MRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       233 IPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      ||+||+||+.|||+++|+++|+|-|
T Consensus       242 IPvqyakr~~g~~~~~g~~~~iPlK  266 (429)
T 3dl8_G          242 IPIQYPGRQVGRQLYAGRKTYLPIK  266 (429)
T ss_dssp             CCCBCSSSCBCCCCCCCCCCCCCCC
T ss_pred             EEEEEchhhccccccCCCCceeeee
Confidence            9999999999999999999999976

>3din_C Preprotein translocase subunit SECY; protein translocation, membrane protein, ATPase, ATP-binding membrane, nucleotide-binding, protein transport; HET: ADP; 4.50A {Thermotoga maritima MSB8}

Probab=100.00  E-value=3e-65  Score=487.80  Aligned_cols=251  Identities=28%  Similarity=0.533  Sum_probs=208.2

Q ss_pred             CccCCCCcCchhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhc---c--cchHHHHHhhhccccccchhhhhC
Q psy8862           3 LNNILPNKDAKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKN---Q--NNILGMFNMFSGGALSRLTIFSLG   73 (265)
Q Consensus         3 ~~~~~~~~~~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~---~--~~~l~~~~~~sGg~~~~~SlfsLG   73 (265)
                      ++.+.+.|++||+|+|++||+++    |+|+|||+||+|.+++++.++++   +  +++++++|+|+||+++++|+|+||
T Consensus         2 ~~~~~~~~~~~~lr~kilfTl~~L~iyrlgs~IPlPGi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~Ggal~~~SifaLG   81 (431)
T 3din_C            2 WQAFKNAFKIPELRDRIIFTFLALIVFRMGIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYDVFTGGALSRFSVFTMS   81 (431)
T ss_dssp             ------CCSCSCCSSHHHHHHHHHHHHHHHHSCSSCCCCC--------------------CTTHHHHCSSSSCCCSSSSS
T ss_pred             hHHHHHHHcChhHHHHHHHHHHHHHHHHHHccCCCCCcCHHHHHHHHhhhccccccccHHHHHHHHcCcccccccHHHHh
Confidence            35677899999999999999988    99999999999998875543321   2  468999999999999999999999


Q ss_pred             chHHHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-ccc-cCch-hHHHHHHH
Q psy8862          74 IMPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQK-NLV-LDTS-FYFHFTTV  150 (265)
Q Consensus        74 I~PyItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~-~~~-~~~~-~~~~~~~v  150 (265)
                      |+|||||||+||+|+.++|+++|++||||+||+|+|+||||+|+++|++||++++.++.+.+ +.. .+++ ..+.++++
T Consensus        82 I~PyItAsII~QLL~~~iP~l~~l~kege~gr~ki~~~tR~lti~la~iQa~~~~~~~~~~~~~~~~~~~~~~~~~~~~v  161 (431)
T 3din_C           82 VTPYITASIILQLLASVMPSLKEMLREGEEGRKKFAKYTRRLTLLIGGFQAFFVSFSLARSNPDMVAPGVNVLQFTVLST  161 (431)
T ss_dssp             HHHHHHHHHHHHHHHHHSCSSSSCSCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCCCCCCCSSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhhhhHHHhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccccccCCchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999998775421 111 2333 56788999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeee
Q psy8862         151 LTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHIS  230 (265)
Q Consensus       151 l~L~aG~~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~  230 (265)
                      ++||+|++++|||||+|||||+|||+|++|++||++++|+++.+.++    |+.++..++..+++++++++++||+|++|
T Consensus       162 l~L~aGt~~lmwL~E~It~~GiGnGiSliI~~gI~~~lp~~~~~~~~----~~~~~~~~l~~l~~~l~vi~~vV~~~~~~  237 (431)
T 3din_C          162 MSMLAGTMFLLWLGERITEKGIGNGISILIFAGIVARYPSYIRQAYL----GGLNLLEWIFLIAVALITIFGIILVQQAE  237 (431)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTTCTTHHHHHHHHHHHHHSTTSSSCCSS----CCSCTHHHHHHHHHHHHHHHHHTTTCCBC
T ss_pred             HHHHHHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHHHHHhc----ccccHHHHHHHHHHHHHHHHHHHhheeeE
Confidence            99999999999999999999999999999999999999998776542    23334566777888888899999999999


Q ss_pred             EEEEEeeeeecCCCccccCCCccccCC
Q psy8862         231 GKMRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       231 rrIPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      |||||||+||+.|||+++|+++|+|-|
T Consensus       238 rrIPvqyakr~~g~~~~~g~~~~iPlK  264 (431)
T 3din_C          238 RRITIQYARRVTGRRVYGGASTYLPIK  264 (431)
T ss_dssp             CCCCCCBTTTBCCCCCCCCCCCCCCCC
T ss_pred             EEEEEEechhhccccccCCCcceeeee
Confidence            999999999999999999999999976

>3j01_A Preprotein translocase SECY subunit; ribonucleoprotein, nucleotide-binding, PR biosynthesis, translation, zinc-finger, 70S ribosome, ribos translocon; 7.10A {Escherichia coli 536} PDB: 2akh_Y 2aki_Y

Probab=100.00  E-value=6.6e-65  Score=485.92  Aligned_cols=246  Identities=42%  Similarity=0.673  Sum_probs=213.5

Q ss_pred             chhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHHHhHHHHHHHH
Q psy8862          12 AKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL   87 (265)
Q Consensus        12 ~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~PyItAsIi~Qll   87 (265)
                      .||+|||++||+++    |+|+|||+||+|.+++++.++++++++++++|+|+||+++++|+|+|||+|||||||+||||
T Consensus         9 ~~~lr~kilfTl~~L~iyrlgs~IPlPGi~~~~~~~~~~~~~~~~~~~~~~fsGGal~~~SifaLGI~PyItAsII~QLL   88 (435)
T 3j01_A            9 LGELKRRLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLL   88 (435)
T ss_dssp             SCSSSHHHHHHHTHHHHHHHHHSCSTTCCSSSSCCSSCSCSCSCCSSSHHHHTCCSSSCCCCSSCCSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHccCCCCCcCHHHHHHHHhhccccHHHHHHHHcccccccccHHHHchHHHHHHHHHHHHH
Confidence            48999999999988    99999999999998765443322346899999999999999999999999999999999999


Q ss_pred             hccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc---cccccCchhHHHHHHHHHHHHHHHHHHHHH
Q psy8862          88 SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ---KNLVLDTSFYFHFTTVLTLVSGTIFLMWLS  164 (265)
Q Consensus        88 ~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~---~~~~~~~~~~~~~~~vl~L~aG~~~~~wL~  164 (265)
                      +.++|+++|++||||+||+|+|++|||+|+++|++||++++.++...   .+...+++..+.++++++||+|++++||||
T Consensus        89 ~~~ip~l~~l~kege~gr~ki~~~tR~lti~la~iQa~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~aGt~~lmwL~  168 (435)
T 3j01_A           89 TVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLG  168 (435)
T ss_dssp             HHHCSSSSSCSCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGSSCCCSCCCCSCSCSTTHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccHHHhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCccccCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999877532   122223444467889999999999999999


Q ss_pred             HHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeecCCC
Q psy8862         165 EQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGD  244 (265)
Q Consensus       165 e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g~  244 (265)
                      |+|||||+|||+|++|++||++++|+++.+.++..+.+..++...+..+++++++++++||+|++||||||||+||++||
T Consensus       169 E~It~~GiGnGiSLiI~~gI~~~lp~~~~~~~~~~~~~~~~~~~~l~~~~~~l~vi~~vV~~~~~~rrIPvqyakr~~g~  248 (435)
T 3j01_A          169 EQITERGIGNGISIIIFAGIVAGLPPAIAHTIEQARQGDLHFLVLLLVAVLVFAVTFFVVFVERGQRRIVVNYAKRQQGR  248 (435)
T ss_dssp             HHSTTSCCSSSHHHHHHHHHHHHSSTTSSSCCCSSSSTTSSSHHHHHHHHHHHHHHHHTTCCCCCSCCCCCCCCCCCSSC
T ss_pred             HHHHhcCcccccHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHhheeEEEEEEEehhhhccc
Confidence            99999999999999999999999999887665443334333444566677788888999999999999999999999999


Q ss_pred             ccccCCCccccCC
Q psy8862         245 KVTVELTPYDLSR  257 (265)
Q Consensus       245 ~~~~~~~~y~~~~  257 (265)
                      |+++|+++|+|-|
T Consensus       249 ~~~~g~~s~iPlK  261 (435)
T 3j01_A          249 RVYAAQSTHLPLK  261 (435)
T ss_dssp             CCCCCCCCCCSCC
T ss_pred             cccCCCCceeeee
Confidence            9999999999976

>1rh5_A Preprotein translocase SECY subunit; protein translocation, SECY, membrane protein, protein channels, protein transport; 3.20A {Methanocaldococcus jannaschii} SCOP: f.41.1.1 PDB: 1rhz_A 2yxq_A 3dkn_A 2yxr_A 3bo0_A 3bo1_A 3kcr_A

Probab=100.00  E-value=6.6e-56  Score=423.87  Aligned_cols=227  Identities=15%  Similarity=0.163  Sum_probs=189.0

Q ss_pred             cCCCCcC----chhhHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchH
Q psy8862           5 NILPNKD----AKHYKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMP   76 (265)
Q Consensus         5 ~~~~~~~----~~~l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~P   76 (265)
                      +++|+++    ++|+|+|++||+++    |+|+|||+||+|.++.         ++++++|+++|  ++++|+|+|||+|
T Consensus         9 ~~lP~v~~p~~~~~lr~kil~Tl~~L~iyr~gs~IPlpGi~~~~~---------~~~~~~~~~~a--~~~~sifaLGI~P   77 (436)
T 1rh5_A            9 EKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIP---------AIFEFWQTITA--SRIGTLITLGIGP   77 (436)
T ss_dssp             HHSCCCCCCSSCCCHHHHHHHHHHHHHHHHHHTTSBCCCSSCCCC---------SCCTTHHHHHT--CCTTBTTTTTTHH
T ss_pred             HhCCCCCCCCcCccHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHH---------HHHHHHHHhhc--cccchHHHHccHH
Confidence            3456654    45699999999988    9999999999998643         36778999985  4899999999999


Q ss_pred             HHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHHH
Q psy8862          77 YISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSG  156 (265)
Q Consensus        77 yItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~aG  156 (265)
                      ||||||+||||+.  -.+.+++||||+||+|+|++|||+|+++|++||++++.+..+     .+++..+.++++++|++|
T Consensus        78 yItAsII~QLL~g--~~~i~l~kege~gr~ki~~~tR~lti~la~iQa~~~~~~g~~-----~~~~~~~~~~~vl~L~~G  150 (436)
T 1rh5_A           78 IVTAGIIMQLLVG--SGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVLFVGAGAF-----GILTPLLAFLVIIQIAFG  150 (436)
T ss_dssp             HHHHHHHHHHHHH--HTTSCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS-----CCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh--CceeeecccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-----cCCchHHHHHHHHHHHHH
Confidence            9999999999964  133488999999999999999999999999999999876222     123445678899999999


Q ss_pred             HHHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHH-------HhHHhhhchhhhhhhHHHHHHHHHHHhhhheeeee
Q psy8862         157 TIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILIN-------LLKLVKIDLVNIIENLPNATFKVKLENDHVILGHI  229 (265)
Q Consensus       157 ~~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~-------~~~~~~~g~~~~~~~l~~~~~~l~~i~~~V~l~~a  229 (265)
                      ++++|||||+|||||+|||+|++|++||++++|+++++       .++...+|..++.. +..+++++++++++||+|++
T Consensus       151 t~~lmwL~E~It~~GiGnGiSLiI~~gI~~~lp~~~~~~~G~i~~~~~~~~~~~~~~~~-l~~l~~~l~v~~~vV~~~~~  229 (436)
T 1rh5_A          151 SIILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGALGPEGYLWKFLNSLIQGVPNIEY-IAPIIGTIIVFLMVVYAECM  229 (436)
T ss_dssp             HHHHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHTTTTCCCGGG-THHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCcccccHHHHHHHHHHHHHHHHhcccchHHHHHHHHhcccchHHH-HHHHHHHHHHHHHHHhhcce
Confidence            99999999999999999999999999999999999888       55544333222222 55666778888899999999


Q ss_pred             eEEEEEeeeeecCCCccccCCCccccCC
Q psy8862         230 SGKMRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       230 ~rrIPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      |||||+||+| +      +++++|+|-|
T Consensus       230 ~rrIPvqyak-~------~g~~~~lPlK  250 (436)
T 1rh5_A          230 RVEIPLAHGR-I------KGAVGKYPIK  250 (436)
T ss_dssp             EEEEECCCSS-S------TTCCCEEEEE
T ss_pred             EEEEEEEecc-c------CCccceeeee
Confidence            9999999997 3      4778898854

>2ww9_A SEC sixty-one protein homolog; ribonucleoprotein, transmembrane, phospho signal sequence, membrane, ribosome, transport; 8.60A {Saccharomyces cerevisiae} PDB: 2wwa_A

Probab=100.00  E-value=3.3e-55  Score=424.04  Aligned_cols=234  Identities=17%  Similarity=0.171  Sum_probs=192.1

Q ss_pred             CccCCCCcCchh----hHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCc
Q psy8862           3 LNNILPNKDAKH----YKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGI   74 (265)
Q Consensus         3 ~~~~~~~~~~~~----l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI   74 (265)
                      +-+++|++++|+    +|+|++||+++    |+ +|||+||+|.+++   ++  ++++++++|+++|+  +++|+|+|||
T Consensus        13 ~~~~lPev~~P~~~~~lr~Kil~Tl~~L~iyri-s~IPlpGi~~~~~---~~--~~~~~~~~~~~~a~--~~~sifaLGI   84 (490)
T 2ww9_A           13 ILPILPEVELPFEKLPFDDKIVYTIFAGLIYLF-AQFPLVGLPKATT---PN--VNDPIYFLRGVFGC--EPRTLLEFGL   84 (490)
T ss_dssp             SGGGSCCCCCCCCCCCSHHHHHHHHHHHHHTTC-CSSCCSCHHHHTT---TC--SSCCCTTTHHHHTC--CSSSTTSSTT
T ss_pred             HHHhCCcccCCCCCccHHHHHHHHHHHHHHHHH-HhcCCCCcCHHHH---hc--ccCHHHHHHHHHcc--cccHHHHHhh
Confidence            456789998776    99999999988    89 9999999998764   11  14588899999964  8999999999


Q ss_pred             hHHHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHH
Q psy8862          75 MPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLV  154 (265)
Q Consensus        75 ~PyItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~  154 (265)
                      +|||||||+||||+.  ..+.+++||||+||+|+|++|||+|+++|++||++++.++.+  +  .+.+..+.++++++|+
T Consensus        85 ~PyItASII~QLL~g--~~iipl~kege~gR~k~~~~tR~lti~la~iQa~~~~~~~~~--~--~~~~~~~~~~ivl~L~  158 (490)
T 2ww9_A           85 FPNISSGLILQLLAG--LKVIKVNFKIQSDRELFQSLTKVFAIVQYVILTNIFIFAGYF--G--DDLSVVQIGLINFQLV  158 (490)
T ss_dssp             HHHHHHHHHHHHHHH--HTSSCCCTTSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS--S--CCCSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh--CccccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--c--CCccHHHHHHHHHHHH
Confidence            999999999999964  123338889999999999999999999999999999987543  2  2334456789999999


Q ss_pred             HHHHHHHHHHHHHhh-hcCCcchHHHHHHHHhhhhHHHHH--------------------HHhHHh--hh----chh-hh
Q psy8862         155 SGTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILI--------------------NLLKLV--KI----DLV-NI  206 (265)
Q Consensus       155 aG~~~~~wL~e~it~-~GiGnG~SLiI~~gI~~~lp~~l~--------------------~~~~~~--~~----g~~-~~  206 (265)
                      +|++++|||||+||| ||+|||+||+|++||++++|++++                    +.++..  ..    +++ +.
T Consensus       159 ~Gt~~lmwLgE~It~G~GIGnGiSLiI~agI~~~lp~~~~s~~~~~~~~~~~~e~~G~~~~~~~~~~~~~~~~~~~l~~~  238 (490)
T 2ww9_A          159 GAGIFTTLLAEVIDKGFGFSSGAMIINTVVIATNLVADTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGIISA  238 (490)
T ss_dssp             HHHHHHHHHHHHHHTTSSSSCHHHHHHHHHHHHHHHHHHTCCCCCCCCSSCCCSCCCHHHHHHHHHHCCCSSCCCSCCCC
T ss_pred             HHHHHHHHHHHHHhcccCcccccHHHHHHHHHHHHHHHHhccccccccccccccccchHHHHHHHHhhcccccccchhhH
Confidence            999999999999999 999999999999999999999876                    223222  11    111 11


Q ss_pred             h-----hhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeecCCCccccCCCccccCC
Q psy8862         207 I-----ENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       207 ~-----~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      .     +++..+++++++++++||+|++||||||||+|+       +|+++|+|-|
T Consensus       239 ~~r~~lp~l~~l~~~l~vi~~vV~~q~~~rrIPIqyak~-------~g~~s~lPlK  287 (490)
T 2ww9_A          239 FNRDYLPNLTTTIIVLAIAIIVCYLQSVRVELPIRSTRA-------RGTNNVYPIK  287 (490)
T ss_dssp             CSSSSCCSHHHHHHHHHHHHHHHHHTTCCEECCCBCSSS-------SSBCCCCEEC
T ss_pred             HhhccccHHHHHHHHHHHHHHHheeeeeEEEEEEEEccc-------CCcCceeeeE
Confidence            1     246677778888889999999999999999975       4788998865

>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane protein complex, preprotein TRAN membrane insertion,; 2.90A {Pyrococcus furiosus} SCOP: f.41.1.0

Probab=100.00  E-value=2e-56  Score=431.76  Aligned_cols=232  Identities=18%  Similarity=0.251  Sum_probs=153.4

Q ss_pred             CccCCCCcCchh----hHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCc
Q psy8862           3 LNNILPNKDAKH----YKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGI   74 (265)
Q Consensus         3 ~~~~~~~~~~~~----l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI   74 (265)
                      +-+++|++++|+    +|+|++||+++    |+|++||+||+|.++         .++++++|+++||  +++|+|+|||
T Consensus        10 ~~~~lP~v~~P~~~~~lr~Kil~Tl~~L~iyrlgs~IPlpGi~~~~---------~~~~~~l~~~~Gg--~~~SifaLGI   78 (482)
T 3mp7_A           10 LERWFPEVERPKRRVPLRERFMWTGVALILYYVLAEIPVYGIPERI---------QDYFQFLRVVLAG--RNGSILTLGI   78 (482)
T ss_dssp             ----------------CTTTHHHHHHHHHHHHHHHHSBCTTCCSSC---------CCSCSSTTTTTCS--CTTBTTSSTT
T ss_pred             HHhhCCCccCccccccHHHHHHHHHHHHHHHHHHhhCCCCCcCccc---------ccHHHHHHHhcCC--CcccHHHHhh
Confidence            345777776655    99999999988    899999999999853         3578899999999  6999999999


Q ss_pred             hHHHhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc-cCchhHHHHHHHHHH
Q psy8862          75 MPYISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLV-LDTSFYFHFTTVLTL  153 (265)
Q Consensus        75 ~PyItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~-~~~~~~~~~~~vl~L  153 (265)
                      +|||||||+||||+.  .+++++|||||+||+|+|++|||+|+++|++||++++.++.+  +.. ..++..+.++++++|
T Consensus        79 ~PyITASII~QLL~~--~~l~~l~kege~gR~k~~~~tR~lti~la~iQa~~~v~~~~~--~~~~~~~~~~~~~~ivl~L  154 (482)
T 3mp7_A           79 GPIVTAGIILQLLVG--SEIIKLDLANPEDRRFYQALQRVFSVFMCFFEAAVWILGGAF--GRVGVDVTYAIAVLMILQL  154 (482)
T ss_dssp             HHHHHHHHHTTC-------------------------CHHHHHHHHHHHHHHHHHSSSS--SCC------CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh--ccHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc--cccccccchHHHHHHHHHH
Confidence            999999999999998  489999999999999999999999999999999999987654  111 012234678899999


Q ss_pred             HHHHHHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHhh-----------hchhh-h---------------
Q psy8862         154 VSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVK-----------IDLVN-I---------------  206 (265)
Q Consensus       154 ~aG~~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~~-----------~g~~~-~---------------  206 (265)
                      ++|++++|||||+|||||+|||+|++|++||++++|+++++.++...           .|.+. +               
T Consensus       155 ~aGt~~lmwL~E~It~~GiGnGiSLiI~agI~~~lp~~~~~~~~~~~~~~~~~~~~e~~g~~~~~~~~~~~~~l~~~~~~  234 (482)
T 3mp7_A          155 AMGGIVLIILDELVSKWGIGSGISLFIAAGVSQTILTRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILKGDLWGAIYR  234 (482)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHSCCCCCCC---CCSSSCCCSCHHHHHHHHHHHCCSCSSCCC
T ss_pred             HHHHHHHHHHHHHHhhcCcccccHHHHHHHHHHHHHHHHHhhhhcccccccccccccccchHHHHHHHHhcchhhHHHhh
Confidence            99999999999999999999999999999999999999876542210           12110 0               


Q ss_pred             -hh--hHHHHHHHHHHHhhhheeeeeeEEEEEeeeeecCCCccccCCCccccCC
Q psy8862         207 -IE--NLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       207 -~~--~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                       .+  ++..+++++++++++||+|++||||||||+|+ +       +++|+|-|
T Consensus       235 ~lp~~~l~~l~~~l~v~~~vV~~q~~~rrIPvqyak~-~-------~~~~iPiK  280 (482)
T 3mp7_A          235 GGSAPDMLSVVATIVVFFIVVYFESMRVEIPLGYRGV-T-------VRGSYPIR  280 (482)
T ss_dssp             SSSSCCHHHHHHHHHHHHHHHHHHHCCEEC--------------------CEEC
T ss_pred             ccchhHHHHHHHHHHHHHHhheeEeeEEEEEEEeccc-c-------ccceeeEe
Confidence             01  46667778888899999999999999999973 2       67888865

>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Canis lupus familiaris}

Probab=100.00  E-value=1.1e-51  Score=398.37  Aligned_cols=229  Identities=19%  Similarity=0.200  Sum_probs=184.3

Q ss_pred             cCCCCcCchh----hHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchH
Q psy8862           5 NILPNKDAKH----YKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMP   76 (265)
Q Consensus         5 ~~~~~~~~~~----l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~P   76 (265)
                      +++|++++||    +|||++||+++    |+|+|||+||+|.++.       +|+++++.++|   +++++|+|+|||+|
T Consensus        14 ~~lP~v~~P~~~~~lr~kil~Tl~~L~iyrigs~IPlpGi~~~~~-------~~~~~~~~~~f---a~~~~SifaLGI~P   83 (476)
T 2wwb_A           14 VILPEIQKPERKIQFKEKVLWTAITLFIFLVCCQIPLFGIMSSDS-------ADPFYWMRVIL---ASNRGTLMELGISP   83 (476)
T ss_dssp             HHSCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHSCCCSSSTTTC-------SCCCHHHHHHH---CSSCSSSCSSSSTH
T ss_pred             HhCCCCCCCCcCccHHHHHHHHHHHHHHHHHHccCCCCCcChhhc-------cccHHHHHHHH---ccccccHHHHhhHH
Confidence            5678887775    99999999988    9999999999998751       25688888988   45899999999999


Q ss_pred             HHhHHHHHHHH--hccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHH
Q psy8862          77 YISSSIIMQLL--SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLV  154 (265)
Q Consensus        77 yItAsIi~Qll--~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~  154 (265)
                      ||||||+||||  +.++|.+++++     ||+|+|++|||+|+++|++||++++.+..+  +...+.+..+.++++++|+
T Consensus        84 yItASII~QLL~g~~iip~~~~l~-----gR~k~~~~tR~lti~la~iQa~~~v~~g~~--~~~~~~~~~~~~~ivl~L~  156 (476)
T 2wwb_A           84 IVTSGLIMQLLAGAKIIEVGDTPK-----DRALFNGAQKLFGMIITIGQSIVYVMTGMY--GDPSEMGAGICLLITIQLF  156 (476)
T ss_dssp             HHHHHHHHHHHHHHCCCSCCSSSS-----CSSCHHHHHHHHHHHHHHHHHHHHHHHTSS--CCSSCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCccccchhhc-----cHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hcccCccHHHHHHHHHHHH
Confidence            99999999999  55889888874     999999999999999999999998873323  2222344456789999999


Q ss_pred             HHHHHHHHHHHHHhh-hcCCcchHHHHHHHHhhhhHHHHHHHh------------------HHh--hhc---h----h--
Q psy8862         155 SGTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILINLL------------------KLV--KID---L----V--  204 (265)
Q Consensus       155 aG~~~~~wL~e~it~-~GiGnG~SLiI~~gI~~~lp~~l~~~~------------------~~~--~~g---~----~--  204 (265)
                      +|++++|||||+||| ||+|||+|++|++||++++.|+.+++.                  +..  ..+   +    +  
T Consensus       157 ~Gt~~lmwL~E~It~g~GiGnGiSLiI~agI~~~l~~~~f~p~~~~~~~~~e~~G~i~~~~~~~~~~~~~~~~l~~~~~r  236 (476)
T 2wwb_A          157 VAGLIVLLLDELLQKGYGLGSGISLFIATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYR  236 (476)
T ss_dssp             HHHHHHHHHHHHHHTTTCSSCSHHHHHHHHHHHHHHHHHTCCSSCSCCCSCCTTTTCCCHHHHHHHTCTTSSSSSSCSSS
T ss_pred             HHHHHHHHHHHHHhccCCcccccHHHHHHHHHHHHHHHhcCcccccccccchhHHHHHHHHHHHhcccccccchhhhhhc
Confidence            999999999999999 999999999999999999955554432                  110  000   0    0  


Q ss_pred             hhhhhHHHHHHHHHHHhhhheeeeeeEEEEEeeeeecCCCccccCCCccccCC
Q psy8862         205 NIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSR  257 (265)
Q Consensus       205 ~~~~~l~~~~~~l~~i~~~V~l~~a~rrIPi~~~r~~~g~~~~~~~~~y~~~~  257 (265)
                      ...+++..+++++++++++||+|++|||||+||+| +      +|+++|+|-|
T Consensus       237 ~~l~~~~~ll~~~~v~~~vV~~q~~~rrIPv~yak-~------~g~~~~~PiK  282 (476)
T 2wwb_A          237 QNLPNLMNLIATIFVFAVVIYFQGFRVDLPIKSAR-Y------RGQYNTYPIK  282 (476)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHHHHCCBCCCCCBCS-S------SSBCSCCCBC
T ss_pred             cccchHHHHHHHHHHHhheeEEEEEEEEEEEEecc-c------CCccceeeee
Confidence            00113455666688888999999999999999997 4      4678888865

---

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	265
d1rh5a_	422	f.41.1.1 (A:) Preprotein translocase SecY subunit	2e-33
d1hr0w_	71	b.40.4.5 (W:) Translational initiation factor 1, I	2e-29
d1ah9a_	71	b.40.4.5 (A:) Translational initiation factor 1, I	9e-27
d1jt8a_	102	b.40.4.5 (A:) Archaeal initiation factor-1a, aIF1a	7e-16
d1d7qa_	143	b.40.4.5 (A:) Translation initiation factor-1a, eI	8e-15
d2gycj1	140	c.12.1.1 (J:4-143) Ribosomal protein L15 (L15p) {E	1e-04
d2j01p1	146	c.12.1.1 (P:5-150) Ribosomal protein L15 (L15p) {T	8e-04

>d1rh5a_ f.41.1.1 (A:) Preprotein translocase SecY subunit {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 422

class: Membrane and cell surface proteins and peptides
fold: Preprotein translocase SecY subunit
superfamily: Preprotein translocase SecY subunit
family: Preprotein translocase SecY subunit
domain: Preprotein translocase SecY subunit
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score =  123 bits (310), Expect = 2e-33
 Identities = 30/185 (16%), Positives = 69/185 (37%), Gaps = 18/185 (9%)

Query: 28  GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
              I + +                I   +   +       T+ +LGI P +++ IIMQLL
Sbjct: 39  MGCIDVYTAG---------AQIPAIFEFWQTITAS--RIGTLITLGIGPIVTAGIIMQLL 87

Query: 88  SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
                    +       +       +  ++I+  ++                  +    F
Sbjct: 88  V--GSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVLFVGA-----GAFGILTPLLAF 140

Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
             ++ +  G+I L++L E +++YG+G+G  + I +G+  +     +     +   L ++I
Sbjct: 141 LVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGALGPEGYLWKFLNSLI 200

Query: 208 ENLPN 212
           + +PN
Sbjct: 201 QGVPN 205

>d1hr0w_ b.40.4.5 (W:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]} Length = 71

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Translational initiation factor 1, IF1
species: Escherichia coli [TaxId: 562]

 Score =  103 bits (260), Expect = 2e-29
 Identities = 39/58 (67%), Positives = 50/58 (86%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           + E LPNATF+VKL++   IL +ISGKMRM+YIRILPGD+V VE+TPYD +RGRI++R
Sbjct: 13  VTEALPNATFRVKLDSGPEILAYISGKMRMHYIRILPGDRVVVEITPYDPTRGRIVYR 70

>d1ah9a_ b.40.4.5 (A:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]} Length = 71

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Translational initiation factor 1, IF1
species: Escherichia coli [TaxId: 562]

 Score = 97.1 bits (242), Expect = 9e-27
 Identities = 43/60 (71%), Positives = 52/60 (86%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
           ++E LPN  F+V+LEN HV+  HISGKMR NYIRIL GDKVTVELTPYDLS+GRI+FR++
Sbjct: 12  VLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVFRSR 71

>d1jt8a_ b.40.4.5 (A:) Archaeal initiation factor-1a, aIF1a {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 102

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Archaeal initiation factor-1a, aIF1a
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 69.3 bits (170), Expect = 7e-16
 Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 2/59 (3%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDL-SRGRIIFR 263
           I + L  +  +V+  +    LG I G+++   I +  GD V V+        +  II+R
Sbjct: 26  IEQMLGASRVRVRCLDGKTRLGRIPGRLKNR-IWVREGDVVIVKPWEVQGDQKCDIIWR 83

>d1d7qa_ b.40.4.5 (A:) Translation initiation factor-1a, eIF1a {Human (Homo sapiens) [TaxId: 9606]} Length = 143

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Translation initiation factor-1a, eIF1a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.6 bits (165), Expect = 8e-15
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
           +I+ L N   +    +    L HI GK+R   + I   D + V L  Y  ++  +I +
Sbjct: 37  VIKMLGNGRLEAMCFDGVKRLCHIRGKLR-KKVWINTSDIILVGLRDYQDNKADVILK 93

>d2gycj1 c.12.1.1 (J:4-143) Ribosomal protein L15 (L15p) {Escherichia coli [TaxId: 562]} Length = 140

class: Alpha and beta proteins (a/b)
fold: Ribosomal proteins L15p and L18e
superfamily: Ribosomal proteins L15p and L18e
family: Ribosomal proteins L15p and L18e
domain: Ribosomal protein L15 (L15p)
species: Escherichia coli [TaxId: 562]

 Score = 39.2 bits (91), Expect = 1e-04
 Identities = 14/25 (56%), Positives = 17/25 (68%)

Query: 4  NNILPNKDAKHYKKRLGRGIGSGSG 28
          N + P + +K   KRLGRGIGSG G
Sbjct: 1  NTLSPAEGSKKAGKRLGRGIGSGLG 25

>d2j01p1 c.12.1.1 (P:5-150) Ribosomal protein L15 (L15p) {Thermus thermophilus [TaxId: 274]} Length = 146

class: Alpha and beta proteins (a/b)
fold: Ribosomal proteins L15p and L18e
superfamily: Ribosomal proteins L15p and L18e
family: Ribosomal proteins L15p and L18e
domain: Ribosomal protein L15 (L15p)
species: Thermus thermophilus [TaxId: 274]

 Score = 36.5 bits (84), Expect = 8e-04
 Identities = 12/24 (50%), Positives = 16/24 (66%)

Query: 5  NILPNKDAKHYKKRLGRGIGSGSG 28
          ++ PN  A   +KR+GRG GSG G
Sbjct: 1  DLRPNPGANKRRKRVGRGPGSGHG 24

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	265
d1rh5a_	422	Preprotein translocase SecY subunit {Archaeon Meth	100.0

>d1rh5a_ f.41.1.1 (A:) Preprotein translocase SecY subunit {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Membrane and cell surface proteins and peptides
fold: Preprotein translocase SecY subunit
superfamily: Preprotein translocase SecY subunit
family: Preprotein translocase SecY subunit
domain: Preprotein translocase SecY subunit
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=100.00  E-value=3.3e-53  Score=402.61  Aligned_cols=218  Identities=17%  Similarity=0.180  Sum_probs=182.7

Q ss_pred             CCCCcCchh----hHHHHhhhhhc----ccceeccCCCCChhHHHHHHhhcccchHHHHHhhhccccccchhhhhCchHH
Q psy8862           6 ILPNKDAKH----YKKRLGRGIGS----GSGAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPY   77 (265)
Q Consensus         6 ~~~~~~~~~----l~~ril~Tl~i----~lg~~IPlPGi~~~~~~~~~~~~~~~~l~~~~~~sGg~~~~~SlfsLGI~Py   77 (265)
                      ++|++++|+    +|||++||+++    |+|+|||+||+|.+.         .+.+++++.++|+  +++|+|+|||+||
T Consensus         9 ~~p~v~~p~~~~~lr~kil~T~~~l~iy~igs~IPlpgi~~~~---------~~~~~~~~~~~a~--~~~Sif~LGI~Py   77 (422)
T d1rh5a_           9 KIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQI---------PAIFEFWQTITAS--RIGTLITLGIGPI   77 (422)
T ss_dssp             HSCCCCCCSSCCCHHHHHHHHHHHHHHHHHHTTSBCCCSSCCC---------CSCCTTHHHHHTC--CTTBTTTTTTHHH
T ss_pred             hCCCCCCCCCCCCHHHHHHHHHHHHHHHHHhccCCcCCCCCCc---------ccHHHHHHHHhcc--ccccHHHhChHHH
Confidence            458887775    99999999998    999999999998754         3456778888887  7899999999999


Q ss_pred             HhHHHHHHHHhccchhhhhhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCchhHHHHHHHHHHHHHH
Q psy8862          78 ISSSIIMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTVLTLVSGT  157 (265)
Q Consensus        78 ItAsIi~Qll~~~~p~l~~l~~~g~~gr~k~~~~tr~ltl~la~iQs~~~~~~~~~~~~~~~~~~~~~~~~~vl~L~aG~  157 (265)
                      |||||+||+|+.  |+++++|+|+|+||+|+|++||++|+++|++||++++....+     .+.+....+.++++|++|+
T Consensus        78 ItASIImQLL~~--~~l~~~~~~~~~gr~k~~~~tr~ltl~la~iQa~~~~~~~~~-----~~~~~~~~~~iv~~L~aGt  150 (422)
T d1rh5a_          78 VTAGIIMQLLVG--SGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVLFVGAGAF-----GILTPLLAFLVIIQIAFGS  150 (422)
T ss_dssp             HHHHHHHHHHHH--HTTSCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS-----CCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--hhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-----CCCCchHHHHHHHHHHHHH
Confidence            999999999976  899999999999999999999999999999999998865443     1223346678899999999


Q ss_pred             HHHHHHHHHHhhhcCCcchHHHHHHHHhhhhHHHHHHHhHHh---h---hchhhhhhhHHHHHHHHHHHhhhheeeeeeE
Q psy8862         158 IFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLV---K---IDLVNIIENLPNATFKVKLENDHVILGHISG  231 (265)
Q Consensus       158 ~~~~wL~e~it~~GiGnG~SLiI~~gI~~~lp~~l~~~~~~~---~---~g~~~~~~~l~~~~~~l~~i~~~V~l~~a~r  231 (265)
                      +++|||||+|||||+|||+|++|++||++++|++.+++....   .   .+.......+..+++++++++++||+|++||
T Consensus       151 ~~lmwL~E~It~~GiGnGiSLiI~~gI~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~i~~~vv~~~~~~~  230 (422)
T d1rh5a_         151 IILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGALGPEGYLWKFLNSLIQGVPNIEYIAPIIGTIIVFLMVVYAECMRV  230 (422)
T ss_dssp             HHHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHTTTTCCCGGGTHHHHHHHHHHHHHHHHTTCEE
T ss_pred             HHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHhccchhHHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            999999999999999999999999999999999876542111   0   1111223455666777778889999999999


Q ss_pred             EEEEeeeeec
Q psy8862         232 KMRMNYIRIL  241 (265)
Q Consensus       232 rIPi~~~r~~  241 (265)
                      |||+||+|+.
T Consensus       231 ~IPv~~~~~~  240 (422)
T d1rh5a_         231 EIPLAHGRIK  240 (422)
T ss_dssp             EEECCCSSST
T ss_pred             cccccccccc
Confidence            9999999753