Citrus Sinensis ID: 021285

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310----
Protein Sequence
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGGGGGDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGCAVDSQLKTNPALPD
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEcccccccccccccEEEEEEEccccccccEEEEEccccccEEEEEccEEEEccEEccccccccccccccccEEcccccEEEEccccccccccccccccccccEEEEEEEEEccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccHHcHHHHccccccHHHHHHccccccccccccccccEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEccccccccccccccEEEEEEEEEcccccHHEEEEEEccccEEEEEccEEEEccEEccccHcccccccccccEEcccccEEEEcccccccccccEcccccHHHEEEEEEEEEccHHHcccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mmislnllptlpslqnpnftstqssnplknpnfaakpfskslknpyftilnlhpksnppqfsrtrwpfvsinpnfvnfqhqnprplnpknllYRLNCNKLKSSGEETKSvvntgsggggggdggggdgsddeeaegqsgalpgwlnitSDDAKTVLAALVISLAFRsfvaepryipslsmyptfdvgDRIVAekevgytdddvFIKRVVakegdvvevregklivngvvrnedyileapsynmtpitvpensvfvmgdnrnnsydshvwgplpakniigrsvfrywppqrigstvpeggcavdsqlktnpalpd
Flexible Loop (DISEMBL)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSvvntgsggggggDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKevgytdddvfikrvvakegdvvevregklivngvvrnedyileapsynmtpitVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRigstvpeggcavdsqlktnpalpd
Low Complexity Region (SEG)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTgsggggggdggggdgsddeeaegqsgALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGCAVDSQLKTNPALPD
Disordered region (IsUnstruct)
*******************************************NPYFTILNLH*******FSRTRWPFVSINPNFVNFQHQ******PKNLLYRLNC*******************************************LPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTV*******************
Disordered Region (DISOPRED)
*******LPTLPSLQNPNFT***SSN******************************************VSINPNFVNFQHQ*****************************************************************ITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPE*****************
Disordered Region (DISEMBL)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGG*******************SGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGCAVDSQLKTNPALPD
Disordered Region (DISPRO)
**ISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKS*************************************ALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEG****************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGGGGGDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGCAVDSQLKTNPALPD
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	314	2.2.26 [Sep-21-2011]
Q8H0W1	291	Chloroplast processing pe	yes	no	0.735	0.793	0.607	4e-75
O04348	340	Thylakoidal processing pe	no	no	0.550	0.508	0.495	9e-51
Q9M9Z2	367	Probable thylakoidal proc	no	no	0.525	0.449	0.521	2e-48
Q51876	203	Signal peptidase I OS=Pho	N/A	no	0.455	0.704	0.422	3e-31
P73157	218	Probable signal peptidase	N/A	no	0.458	0.660	0.403	8e-31
P72660	196	Probable signal peptidase	N/A	no	0.407	0.653	0.483	4e-30
Q57350	185	Signal peptidase I P OS=B	N/A	no	0.487	0.827	0.320	7e-15
P28628	184	Signal peptidase I S OS=B	yes	no	0.455	0.777	0.309	2e-14
P41025	193	Signal peptidase I OS=Bac	yes	no	0.455	0.740	0.331	1e-13
P42668	186	Signal peptidase I OS=Bac	no	no	0.5	0.844	0.294	2e-13

>sp|Q8H0W1|PLSP1_ARATH Chloroplast processing peptidase OS=Arabidopsis thaliana GN=PLSP1 PE=2 SV=2

 Score =  281 bits (720), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 161/265 (60%), Positives = 178/265 (67%), Gaps = 34/265 (12%)

Query: 72  NPNFVNF----QHQNPRPLN---PKNLLYR-LNCNKLKSSGEETKSVVNTGSGGGGGGDG 123
           NPNF+ F    Q   P+ LN     NL  R L+C  +K S E TKS     S   G G G
Sbjct: 30  NPNFIQFTPKSQLLFPQRLNFNTGTNLNRRTLSCYGIKDSSETTKS---APSLDSGDGGG 86

Query: 124 GGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPT 183
           G G   D  E E ++   P WL+ TSDDA+TV  A+ +SLAFR F+AEPRYIPSLSMYPT
Sbjct: 87  GDGGDDDKGEVEEKNRLFPEWLDFTSDDAQTVFVAIAVSLAFRYFIAEPRYIPSLSMYPT 146

Query: 184 FDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGDVVEVRE 220
           FDVGDR+VAEK                       EVGYTD DVFIKR+VAKEGD+VEV  
Sbjct: 147 FDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHN 206

Query: 221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGR 280
           GKL+VNGV RNE +ILE P Y MTPI VPENSVFVMGDNRNNSYDSHVWGPLP KNIIGR
Sbjct: 207 GKLMVNGVARNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSHVWGPLPLKNIIGR 266

Query: 281 SVFRYWPPQRIGSTVPEGGCAVDSQ 305
           SVFRYWPP R+  TV EGGCAVD Q
Sbjct: 267 SVFRYWPPNRVSGTVLEGGCAVDKQ 291

Involved in the maturation of the plastid protein translocation channel. Required for the biogenesis of plastid internal membranes. May also function as a thylakoidal processing peptidase.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: 8EC: 9

>sp|O04348|TPP1_ARATH Thylakoidal processing peptidase 1, chloroplastic OS=Arabidopsis thaliana GN=TPP1 PE=2 SV=2

 Score =  200 bits (509), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 101/204 (49%), Positives = 132/204 (64%), Gaps = 31/204 (15%)

Query: 122 DGGGGDGSDDEEAEGQSGALPGWLN----ITSDDAKTVLAALVISLAFRSFVAEPRYIPS 177
           D GG    DD++ E ++G   GW+N    + S+DAK    A+ +S+ FRS +AEP+ IPS
Sbjct: 124 DKGGTVCDDDDDKESRNGG-SGWVNKLLSVCSEDAKAAFTAVTVSILFRSALAEPKSIPS 182

Query: 178 LSMYPTFDVGDRIVAEK--------------------------EVGYTDDDVFIKRVVAK 211
            SMYPT D GDR++AEK                          E GY+ +DVFIKR+VA 
Sbjct: 183 TSMYPTLDKGDRVMAEKVSYFFRKPEVSDIVIFKAPPILLEYPEYGYSSNDVFIKRIVAS 242

Query: 212 EGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGP 271
           EGD VEVR+GKL VN +V+ ED++LE  SY M P+ VP+  VFV+GDNRN S+DSH WGP
Sbjct: 243 EGDWVEVRDGKLFVNDIVQEEDFVLEPMSYEMEPMFVPKGYVFVLGDNRNKSFDSHNWGP 302

Query: 272 LPAKNIIGRSVFRYWPPQRIGSTV 295
           LP +NI+GRSVFRYWPP ++  T+
Sbjct: 303 LPIENIVGRSVFRYWPPSKVSDTI 326

Cleaves the thylakoid-transfer domain from a chloroplast protein.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q9M9Z2|TPP2_ARATH Probable thylakoidal processing peptidase 2, chloroplastic OS=Arabidopsis thaliana GN=TPP2 PE=2 SV=1

 Score =  193 bits (490), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 98/188 (52%), Positives = 122/188 (64%), Gaps = 23/188 (12%)

Query: 131 DEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRI 190
           D+ + G +G +   LNI S+DAK    A+ +SL FRS +AEP+ IPS SM PT DVGDR+
Sbjct: 166 DKVSNGGNGWVNKLLNICSEDAKAAFTAVTVSLLFRSALAEPKSIPSTSMLPTLDVGDRV 225

Query: 191 VAEK-----------------------EVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNG 227
           +AEK                       E GY+  DVFIKR+VA EGD VEV +GKL+VN 
Sbjct: 226 IAEKVSYFFRKPEVSDIVIFKAPPILVEHGYSCADVFIKRIVASEGDWVEVCDGKLLVND 285

Query: 228 VVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP 287
            V+ ED++LE   Y M P+ VPE  VFV+GDNRN S+DSH WGPLP KNIIGRSVFRYWP
Sbjct: 286 TVQAEDFVLEPIDYEMEPMFVPEGYVFVLGDNRNKSFDSHNWGPLPIKNIIGRSVFRYWP 345

Query: 288 PQRIGSTV 295
           P ++   +
Sbjct: 346 PSKVSDII 353

Cleaves the thylakoid-transfer domain from a chloroplast protein.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q51876|LEP_PHOLA Signal peptidase I OS=Phormidium laminosum GN=lepB PE=3 SV=1

 Score =  136 bits (342), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 71/168 (42%), Positives = 99/168 (58%), Gaps = 25/168 (14%)

Query: 153 KTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGY-------------- 198
           KT+  ++V++L  R+FVAE RYIPS SM PT +V DR++ EK + Y              
Sbjct: 33  KTIGLSVVLALGIRTFVAEARYIPSESMLPTLEVNDRLIVEK-ISYHFNPPRRGDIIVFH 91

Query: 199 ----------TDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITV 248
                     + ++ FIKRV+   G+ V+V  G++++NG    E+YI   P Y   P  V
Sbjct: 92  PTEALKQQNPSLNEAFIKRVIGLPGETVQVTGGRVLINGQPLEENYIQSPPDYQWGPEKV 151

Query: 249 PENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVP 296
           P +S  V+GDNRNNSYDSH WG +P +NIIGR+V R+WP  R+G   P
Sbjct: 152 PADSFLVLGDNRNNSYDSHFWGYVPRQNIIGRAVVRFWPVNRLGELGP 199

Phormidium laminosum (taxid: 32059)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P73157|LEP2_SYNY3 Probable signal peptidase I-2 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=lepB2 PE=3 SV=1

 Score =  134 bits (337), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 69/171 (40%), Positives = 101/171 (59%), Gaps = 27/171 (15%)

Query: 144 WLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGY----- 198
           WL +     KT++ A+++++  R+FVAE RYIPS SM PT  + DR++ EK + Y     
Sbjct: 21  WLEL----GKTMVTAVILAIGIRTFVAEARYIPSSSMEPTLQINDRLIIEK-ISYRLRDP 75

Query: 199 ----------TD-------DDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSY 241
                     TD        D FIKR++   GD V V +G + VNG + +E+YI   P+Y
Sbjct: 76  ERGEIVVFNPTDALKAKNFHDAFIKRIIGLPGDEVRVSQGNVYVNGKMLDENYIAAPPAY 135

Query: 242 NMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIG 292
              P+ VP++   V+GDNRNNSYDSH WG +P + ++GR+  R+WP  R+G
Sbjct: 136 EYGPVKVPDDQYLVLGDNRNNSYDSHYWGFVPREKLLGRAFVRFWPVPRVG 186

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P72660|LEP1_SYNY3 Probable signal peptidase I-1 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=lepB1 PE=3 SV=1

 Score =  132 bits (332), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 73/151 (48%), Positives = 87/151 (57%), Gaps = 23/151 (15%)

Query: 166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKEV-----------------------GYTDDD 202
           R FVAEPRYIPS SM PT + GDR+V EK                         GY    
Sbjct: 31  RFFVAEPRYIPSDSMLPTLEQGDRLVVEKVSYHFHPPQVGDIIVFHPPELLQVQGYDLGQ 90

Query: 203 VFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNN 262
            FIKRV+A  G  VEV  G +  +G    E+YILE P YN+  + VP+  VFVMGDNRNN
Sbjct: 91  AFIKRVIALPGQTVEVNNGIVYRDGQPLQEEYILEPPQYNLPAVRVPDGQVFVMGDNRNN 150

Query: 263 SYDSHVWGPLPAKNIIGRSVFRYWPPQRIGS 293
           S DSHVWG LP +NIIG ++FR++P  R G 
Sbjct: 151 SNDSHVWGFLPQQNIIGHALFRFFPASRWGQ 181

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q57350|LEPQ_BACNA Signal peptidase I P OS=Bacillus subtilis subsp. natto GN=sipP PE=3 SV=1

 Score = 81.6 bits (200), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 60/187 (32%), Positives = 89/187 (47%), Gaps = 34/187 (18%)

Query: 131 DEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRI 190
           D+E   +S  +  W+       K +L AL++    R+F+ EP  +   SM PT    +R+
Sbjct: 3   DKEKRKKSNIID-WI-------KAILIALILVFLVRTFLFEPYIVQGESMKPTLFNSERL 54

Query: 191 VAEKEVGYTDD----DV-----------FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI 235
              K V YT D    D+           ++KR++   GD +E++   L VNG   NE+Y+
Sbjct: 55  FVNKFVKYTGDFKRGDIVVLNGEEKKTHYVKRLIGLPGDTIEMKNDNLFVNGKRFNEEYL 114

Query: 236 LEAPS------YNMT----PITVPENSVFVMGDNRNNSYDSHV-WGPLPAKNIIGRSVFR 284
            E          N+T    PI VP++  FVMGDNR NS DS    G    K+I+G     
Sbjct: 115 KENKKDAHDSDLNLTGDFGPIKVPKDKYFVMGDNRQNSMDSRNGLGLFNKKDIVGVEELV 174

Query: 285 YWPPQRI 291
           ++P  RI
Sbjct: 175 FFPLDRI 181

Bacillus subtilis subsp. natto (taxid: 86029)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P28628|LEPS_BACSU Signal peptidase I S OS=Bacillus subtilis (strain 168) GN=sipS PE=1 SV=1

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 80/168 (47%), Gaps = 25/168 (14%)

Query: 152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYT------------ 199
           AK ++ A+V++L  R+F+  P  +   SMYPT    +R+     V Y             
Sbjct: 16  AKAIVIAVVLALLIRNFIFAPYVVDGDSMYPTLHNRERVFVNMTVKYIGEFDRGDIVVLN 75

Query: 200 -DDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI-----------LEAPSYNMTPIT 247
            DD  ++KR++   GD VE++  +L +NG   +E Y+            +  + +  P+ 
Sbjct: 76  GDDVHYVKRIIGLPGDTVEMKNDQLYINGKKVDEPYLAANKKRAKQDGFDHLTDDFGPVK 135

Query: 248 VPENSVFVMGDNRNNSYDSHV-WGPLPAKNIIGRSVFRYWPPQRIGST 294
           VP+N  FVMGDNR NS DS    G    K I G S F ++P   +  T
Sbjct: 136 VPDNKYFVMGDNRRNSMDSRNGLGLFTKKQIAGTSKFVFYPFNEMRKT 183

Not essential for cell viability, but required for efficient secretion of many proteins.

Bacillus subtilis (strain 168) (taxid: 224308)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P41025|LEP2_BACAM Signal peptidase I OS=Bacillus amyloliquefaciens GN=sipS2 PE=3 SV=1

 Score = 77.4 bits (189), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 56/169 (33%), Positives = 84/169 (49%), Gaps = 26/169 (15%)

Query: 152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDD----DV---- 203
            K ++ A+ ++L  R F+ EP  +   SMYPT   G+R+   K V Y  +    D+    
Sbjct: 24  GKAIIIAVALALLIRHFLFEPYLVEGSSMYPTLHDGERLFVNKSVNYIGEIERGDIVIIN 83

Query: 204 -------FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYIL----EAPSY--NMT----PI 246
                  ++KR++ K G+ VE++   L +NG    E Y+     EA     N+T    P+
Sbjct: 84  GDTSKVHYVKRLIGKPGETVEMKNDTLYINGKKIAEPYLASNKKEAKKLGVNLTGDFGPV 143

Query: 247 TVPENSVFVMGDNRNNSYDSHVWGPLPAKN-IIGRSVFRYWPPQRIGST 294
            VP+   FVMGDNR NS DS     L A+N I+G S F ++P   +  T
Sbjct: 144 KVPKGKYFVMGDNRLNSMDSRNGLGLIAENRIVGTSKFVFFPFHDMRQT 192

Bacillus amyloliquefaciens (taxid: 1390)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P42668|LEP_BACLI Signal peptidase I OS=Bacillus licheniformis GN=lepB PE=3 SV=1

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 56/190 (29%), Positives = 91/190 (47%), Gaps = 33/190 (17%)

Query: 131 DEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRI 190
           +E++  +  +L  W+       K ++ A+V++L  R+F+ EP  +   SM PT   G+R+
Sbjct: 3   EEKSTNKKNSLFEWV-------KAIIIAVVLALLIRAFLFEPYLVEGTSMDPTLHDGERL 55

Query: 191 VAEKEVGYTDD----DV-----------FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI 235
              K V Y  +    D+           ++KR++   GD V++++  L +NG   +E Y+
Sbjct: 56  FVYKTVRYVGEFKRGDIVIIDGDEKNVHYVKRLIGLPGDTVQMKDDTLYINGKKVSEPYL 115

Query: 236 ------LEAPSYNMT----PITVPENSVFVMGDNRNNSYDSH-VWGPLPAKNIIGRSVFR 284
                  EA    +T    P+ VPE   FVMGDNR  S DS    G +  K + G S F 
Sbjct: 116 SENRKEAEAVGVKLTGDFGPVKVPEGKYFVMGDNRQRSMDSRNGLGLIDKKRVAGTSQFV 175

Query: 285 YWPPQRIGST 294
           ++P   I  T
Sbjct: 176 FFPFNEIRKT 185

Bacillus licheniformis (taxid: 1402)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

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	314
225445220	334	PREDICTED: chloroplast processing peptid	0.875	0.823	0.596	1e-90
255546463	313	signal peptidase I, putative [Ricinus co	0.910	0.913	0.572	3e-85
449518835	331	PREDICTED: chloroplast processing peptid	0.939	0.891	0.553	4e-82
449467167	331	PREDICTED: chloroplast processing peptid	0.942	0.894	0.540	8e-82
356523807	293	PREDICTED: chloroplast processing peptid	0.831	0.890	0.514	9e-77
224142153	202	predicted protein [Populus trichocarpa]	0.554	0.861	0.710	5e-74
224119740	202	predicted protein [Populus trichocarpa]	0.557	0.866	0.702	1e-73
9294054	310	unnamed protein product [Arabidopsis tha	0.735	0.745	0.607	1e-73
30687572	291	chloroplast processing peptidase [Arabid	0.735	0.793	0.607	2e-73
25082936	291	chloroplast thylakoidal processing pepti	0.735	0.793	0.603	1e-72

>gi|225445220|ref|XP_002284378.1| PREDICTED: chloroplast processing peptidase [Vitis vinifera]

 Score =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 185/310 (59%), Positives = 216/310 (69%), Gaps = 35/310 (11%)

Query: 29  KNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTR-WPFVSINPNFVNFQHQNPRPLN 87
           ++PN       K ++NP F + NL+P S  P FS+    PF   NPNF  F     +P+N
Sbjct: 17  RDPNLVLVQRLKRIENPSFIVFNLYPISRTPHFSKKLILPFE--NPNFQGF-----KPIN 69

Query: 88  PKNLLYRLNCNKLKSSGEETKSVVNTGSGGGGGGDGGGGDGSDDEEAEGQSGALPGWLNI 147
            +  L RLNCN  K S EETK+V++   G GGG  G        E+ + + G LP W+N+
Sbjct: 70  SRTRLQRLNCNGFKDSSEETKAVLDEEGGDGGGDGGDDAQT---EKKDAKVGILPEWVNL 126

Query: 148 TSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEK------------- 194
           TSDDAKTV AAL IS AFRSFVAEPR+IPSLSMYPTFDVGDRIVAEK             
Sbjct: 127 TSDDAKTVFAALAISFAFRSFVAEPRFIPSLSMYPTFDVGDRIVAEKVSYYFRKPCANDI 186

Query: 195 ----------EVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMT 244
                     EVGYTD+DVFIKR+VAKEGD VEVREGKLIVNGVVRNE++I E PSY+MT
Sbjct: 187 VIFKSPPVLQEVGYTDEDVFIKRIVAKEGDTVEVREGKLIVNGVVRNENFIFERPSYSMT 246

Query: 245 PITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGCAVDS 304
           PI VPEN+VFVMGDNRNNSYDSHVWG LPAKNI+GRS+FRYWPP RIG TV + GCAVD 
Sbjct: 247 PIRVPENAVFVMGDNRNNSYDSHVWGSLPAKNILGRSIFRYWPPNRIGGTVSDAGCAVDK 306

Query: 305 QLKTNPALPD 314
           Q +++PAL D
Sbjct: 307 Q-ESSPALSD 315

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546463|ref|XP_002514291.1| signal peptidase I, putative [Ricinus communis] gi|223546747|gb|EEF48245.1| signal peptidase I, putative [Ricinus communis]

 Score =  321 bits (822), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 194/339 (57%), Positives = 223/339 (65%), Gaps = 53/339 (15%)

Query: 2   MISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKS--NPP 59
           MI L LL  LP+LQ  NF ST +S PL          SK  KN  F ILNL   +  +  
Sbjct: 1   MIPLQLLSPLPALQISNFYSTPTSIPL----------SKPYKNSNFEILNLRDSTLTHIT 50

Query: 60  QFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGGG 119
              +   P +  +P F  F+              RL C  +K+SGEET + + +G G GG
Sbjct: 51  SLPKNHNPILK-SPKFAQFR--------------RLTCYGIKNSGEETSTAIGSGGGSGG 95

Query: 120 GGDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLS 179
              GGGGD  D EE + + G LP WL+ TSDDAKTV  AL +SLAFRSF+AEPRYIPSLS
Sbjct: 96  DDGGGGGDDGD-EEVKKKDGLLPEWLDFTSDDAKTVFIALAVSLAFRSFIAEPRYIPSLS 154

Query: 180 MYPTFDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGDVV 216
           MYPTFDVGDR+VAEK                       EVGYTD+DVFIKRVVAKEGD+V
Sbjct: 155 MYPTFDVGDRVVAEKVSYYFRKPCANDVVIFKSPPVLQEVGYTDNDVFIKRVVAKEGDIV 214

Query: 217 EVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKN 276
           EVR GKL+VNGV RNE++ILE+PSY+MTPI VPENSVFVMGDNRNNSYDSHVWGPLPAKN
Sbjct: 215 EVRAGKLLVNGVERNENFILESPSYDMTPIRVPENSVFVMGDNRNNSYDSHVWGPLPAKN 274

Query: 277 IIGRSVFRYWPPQRIGSTVPEGGCAVDSQ--LKTNPALP 313
           IIGRS FRYWPP RIG TV E GCAVD Q  + T+ +LP
Sbjct: 275 IIGRSFFRYWPPNRIGGTVLETGCAVDKQESISTSESLP 313

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449518835|ref|XP_004166441.1| PREDICTED: chloroplast processing peptidase-like [Cucumis sativus]

 Score =  311 bits (796), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 187/338 (55%), Positives = 225/338 (66%), Gaps = 43/338 (12%)

Query: 2   MISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNP-YFTILNLHPKSNPPQ 60
           M+SL+LL + PS  +   TS Q +  LK PN           NP Y  ILNLH   N P+
Sbjct: 1   MLSLHLLSSAPSFHD---TSLQRTRLLK-PN-----------NPSYLPILNLHSIPNSPK 45

Query: 61  FSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGGGG 120
            + T +   SI    V ++ Q  +  +    L R  C+    S E+T+SV++TG GG GG
Sbjct: 46  LAHTHFANRSIQS--VTYRFQAFKTPSDGTHLKRGRCSAANDSDEKTRSVLDTGGGGDGG 103

Query: 121 GDGGGGDGSDD-EEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLS 179
             G G D +   E  +G SG LP WLN+TSDDAKTV AA+ ISLAFR+F+AEPRYIPSLS
Sbjct: 104 DGGDGSDDNGKVENQKGSSGFLPEWLNLTSDDAKTVFAAIAISLAFRTFIAEPRYIPSLS 163

Query: 180 MYPTFDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGDVV 216
           MYPTFDVGDR+VAEK                       EVGYTD+DVFIKR+VAKEGD V
Sbjct: 164 MYPTFDVGDRLVAEKVTYYFRKPCANDIVIFKSPPVLQEVGYTDEDVFIKRIVAKEGDTV 223

Query: 217 EVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKN 276
           EVR+GKLIVNGV R+E +ILE PSY+MTP+ VPENSVFVMGDNRNNSYDSHVWGPLPAKN
Sbjct: 224 EVRKGKLIVNGVERDEKFILEPPSYDMTPVQVPENSVFVMGDNRNNSYDSHVWGPLPAKN 283

Query: 277 IIGRSVFRYWPPQRIGSTVPEGGCAVDSQLKTNPALPD 314
           IIGRS+FRYWPP RI  TV E  CA+D + ++ P+ P+
Sbjct: 284 IIGRSLFRYWPPNRISGTVSEPSCAIDKE-ESIPSTPE 320

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449467167|ref|XP_004151296.1| PREDICTED: chloroplast processing peptidase-like [Cucumis sativus]

 Score =  309 bits (792), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 182/337 (54%), Positives = 222/337 (65%), Gaps = 41/337 (12%)

Query: 2   MISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQF 61
           M+SL+LL + PS  + +   T+   P  NP+             Y  ILNLH   N P+ 
Sbjct: 1   MLSLHLLSSAPSFHDTSLQRTRLPKP-NNPS-------------YLPILNLHSIPNSPKL 46

Query: 62  SRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGGGGG 121
           + T +   SI    V ++ Q  +  +    L R  C+    S E+T+SV++TG GG GG 
Sbjct: 47  AHTHFANRSIQS--VTYRFQAFKTPSDGTHLKRGRCSAANDSDEKTRSVLDTGGGGDGGD 104

Query: 122 DGGGGDGSDD-EEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSM 180
            G G D +   E  +G SG LP WLN+TSDDAKTV AA+ ISLAFR+F+AEPRYIPSLSM
Sbjct: 105 GGDGSDDNGKVENQKGSSGFLPEWLNLTSDDAKTVFAAIAISLAFRTFIAEPRYIPSLSM 164

Query: 181 YPTFDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGDVVE 217
           YPTFDVGDR+VAEK                       EVGYTD+DVFIKR+VAKEGD VE
Sbjct: 165 YPTFDVGDRLVAEKVTYYFRKPCANDIVIFKSPPVLQEVGYTDEDVFIKRIVAKEGDTVE 224

Query: 218 VREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNI 277
           VR+GKLIVNGV R+E +ILE PSY+MTP+ VPENSVFVMGDNRNNSYDSHVWGPLPAKNI
Sbjct: 225 VRKGKLIVNGVERDEKFILEPPSYDMTPVQVPENSVFVMGDNRNNSYDSHVWGPLPAKNI 284

Query: 278 IGRSVFRYWPPQRIGSTVPEGGCAVDSQLKTNPALPD 314
           IGRS+FRYWPP RI  TV E  CA+D + ++ P+ P+
Sbjct: 285 IGRSLFRYWPPNRISGTVSEPSCAIDKE-ESIPSTPE 320

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356523807|ref|XP_003530526.1| PREDICTED: chloroplast processing peptidase-like [Glycine max]

 Score =  293 bits (749), Expect = 9e-77,   Method: Compositional matrix adjust.
 Identities = 176/342 (51%), Positives = 203/342 (59%), Gaps = 81/342 (23%)

Query: 2   MISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQF 61
           M SL++ P+LPSLQNPN +                                         
Sbjct: 1   MPSLSVFPSLPSLQNPNLS----------------------------------------- 19

Query: 62  SRTRWPFVSINPNFVNFQHQN--PRPLNPKNLLY--RLNCNKLKSSGEETKSVVNTGSGG 117
                      PNF NF+  +   RPL      +  R+ C   + SGE+ K+V+ +  GG
Sbjct: 20  ----------QPNFFNFRLPSLCHRPLVKSTATFHRRILCKAFRDSGEDIKAVLKSDDGG 69

Query: 118 GGGGDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPS 177
           G G  GG G G  D +AE + G LP WLN +SDDAKTVL AL ISLAFR+FVAEPRYIPS
Sbjct: 70  GSGDGGGDGGGGGDRDAEKKEGPLPEWLNFSSDDAKTVLVALAISLAFRTFVAEPRYIPS 129

Query: 178 LSMYPTFDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGD 214
           LSMYPTFDVGDRIVAEK                       EVGY+DDDVFIKRVVAK GD
Sbjct: 130 LSMYPTFDVGDRIVAEKVSYYFRKPCASDIVIFKSPPVLQEVGYSDDDVFIKRVVAKAGD 189

Query: 215 VVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPA 274
           +VEVR+G L+VNGV RNE+YILE P+Y M P  VPEN VFVMGDNRNNSYDSHVWGPLPA
Sbjct: 190 IVEVRKGHLVVNGVERNEEYILEPPAYEMKPTRVPENYVFVMGDNRNNSYDSHVWGPLPA 249

Query: 275 KNIIGRSVFRYWPPQRIGSTVPEGGCAVD---SQLKTNPALP 313
           KNIIGRSVFRYWPP RI  TV +  C+V+   +Q     ALP
Sbjct: 250 KNIIGRSVFRYWPPNRIAGTVSKETCSVETTQTQESAETALP 291

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142153|ref|XP_002324423.1| predicted protein [Populus trichocarpa] gi|222865857|gb|EEF02988.1| predicted protein [Populus trichocarpa]

 Score =  284 bits (726), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 140/197 (71%), Positives = 154/197 (78%), Gaps = 23/197 (11%)

Query: 135 EGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEK 194
           E   G LP WLN T+DD KTV +A+ +SLAFR FVAEPR+IPSLSMYPTFDVGDR+VAEK
Sbjct: 2   EKNDGILPEWLNFTTDDVKTVFSAVAVSLAFRYFVAEPRFIPSLSMYPTFDVGDRVVAEK 61

Query: 195 -----------------------EVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRN 231
                                  EVGYTDDDVFIKR+VAKEGD+VEV EGKLIVNGVVR+
Sbjct: 62  VSYYFRKPCVNDIVIFRSPPVLQEVGYTDDDVFIKRIVAKEGDIVEVHEGKLIVNGVVRS 121

Query: 232 EDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRI 291
           E +ILE+P Y MTP+ VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPP+RI
Sbjct: 122 EKFILESPLYEMTPVRVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPKRI 181

Query: 292 GSTVPEGGCAVDSQLKT 308
           G TV E GCAVD+Q  T
Sbjct: 182 GGTVLETGCAVDNQKNT 198

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119740|ref|XP_002331149.1| predicted protein [Populus trichocarpa] gi|222873232|gb|EEF10363.1| predicted protein [Populus trichocarpa]

 Score =  283 bits (723), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 139/198 (70%), Positives = 154/198 (77%), Gaps = 23/198 (11%)

Query: 135 EGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEK 194
           E + G LP WLN T+DDAKT+ AA+ +SLAFRSFVAEPR+IPSLSMYPTFDVGDR+ +EK
Sbjct: 2   EKKDGILPEWLNFTTDDAKTLFAAVAVSLAFRSFVAEPRFIPSLSMYPTFDVGDRVFSEK 61

Query: 195 -----------------------EVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRN 231
                                  EVGYTDDDVFIKR+VAKEGD VEV EGKLIVNGV+R+
Sbjct: 62  VSYYFRKPCVNDIVIFKSPPVLQEVGYTDDDVFIKRIVAKEGDTVEVHEGKLIVNGVMRS 121

Query: 232 EDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRI 291
           E +ILE PSY +TPI VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS+FRYWPP RI
Sbjct: 122 EKFILEPPSYELTPIHVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSIFRYWPPYRI 181

Query: 292 GSTVPEGGCAVDSQLKTN 309
           G TV E GCAVD Q  T+
Sbjct: 182 GRTVLETGCAVDKQDSTS 199

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9294054|dbj|BAB02011.1| unnamed protein product [Arabidopsis thaliana]

 Score =  282 bits (722), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 161/265 (60%), Positives = 178/265 (67%), Gaps = 34/265 (12%)

Query: 72  NPNFVNF----QHQNPRPLN---PKNLLYR-LNCNKLKSSGEETKSVVNTGSGGGGGGDG 123
           NPNF+ F    Q   P+ LN     NL  R L+C  +K S E TKS     S   G G G
Sbjct: 49  NPNFIQFTPKSQLLFPQRLNFNTGTNLNRRTLSCYGIKDSSETTKS---APSLDSGDGGG 105

Query: 124 GGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPT 183
           G G   D  E E ++   P WL+ TSDDA+TV  A+ +SLAFR F+AEPRYIPSLSMYPT
Sbjct: 106 GDGGDDDKGEVEEKNRLFPEWLDFTSDDAQTVFVAIAVSLAFRYFIAEPRYIPSLSMYPT 165

Query: 184 FDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGDVVEVRE 220
           FDVGDR+VAEK                       EVGYTD DVFIKR+VAKEGD+VEV  
Sbjct: 166 FDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHN 225

Query: 221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGR 280
           GKL+VNGV RNE +ILE P Y MTPI VPENSVFVMGDNRNNSYDSHVWGPLP KNIIGR
Sbjct: 226 GKLMVNGVARNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSHVWGPLPLKNIIGR 285

Query: 281 SVFRYWPPQRIGSTVPEGGCAVDSQ 305
           SVFRYWPP R+  TV EGGCAVD Q
Sbjct: 286 SVFRYWPPNRVSGTVLEGGCAVDKQ 310

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30687572|ref|NP_189102.2| chloroplast processing peptidase [Arabidopsis thaliana] gi|160419231|sp|Q8H0W1.2|PLSP1_ARATH RecName: Full=Chloroplast processing peptidase; AltName: Full=Signal peptidase I-3; Flags: Precursor gi|51536582|gb|AAU05529.1| At1g05140 [Arabidopsis thaliana] gi|332643406|gb|AEE76927.1| chloroplast processing peptidase [Arabidopsis thaliana]

 Score =  281 bits (720), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 161/265 (60%), Positives = 178/265 (67%), Gaps = 34/265 (12%)

Query: 72  NPNFVNF----QHQNPRPLN---PKNLLYR-LNCNKLKSSGEETKSVVNTGSGGGGGGDG 123
           NPNF+ F    Q   P+ LN     NL  R L+C  +K S E TKS     S   G G G
Sbjct: 30  NPNFIQFTPKSQLLFPQRLNFNTGTNLNRRTLSCYGIKDSSETTKS---APSLDSGDGGG 86

Query: 124 GGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPT 183
           G G   D  E E ++   P WL+ TSDDA+TV  A+ +SLAFR F+AEPRYIPSLSMYPT
Sbjct: 87  GDGGDDDKGEVEEKNRLFPEWLDFTSDDAQTVFVAIAVSLAFRYFIAEPRYIPSLSMYPT 146

Query: 184 FDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGDVVEVRE 220
           FDVGDR+VAEK                       EVGYTD DVFIKR+VAKEGD+VEV  
Sbjct: 147 FDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHN 206

Query: 221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGR 280
           GKL+VNGV RNE +ILE P Y MTPI VPENSVFVMGDNRNNSYDSHVWGPLP KNIIGR
Sbjct: 207 GKLMVNGVARNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSHVWGPLPLKNIIGR 266

Query: 281 SVFRYWPPQRIGSTVPEGGCAVDSQ 305
           SVFRYWPP R+  TV EGGCAVD Q
Sbjct: 267 SVFRYWPPNRVSGTVLEGGCAVDKQ 291

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|25082936|gb|AAN72018.1| chloroplast thylakoidal processing peptidase, putative [Arabidopsis thaliana]

 Score =  279 bits (713), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 160/265 (60%), Positives = 177/265 (66%), Gaps = 34/265 (12%)

Query: 72  NPNFVNF----QHQNPRPLN---PKNLLYR-LNCNKLKSSGEETKSVVNTGSGGGGGGDG 123
           NPNF+ F    Q   P+ LN     NL  R L+C  +K S E TKS     S   G G G
Sbjct: 30  NPNFIQFTPKSQLLFPQRLNFNTGTNLNRRTLSCYGIKDSSETTKS---APSLDSGDGGG 86

Query: 124 GGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPT 183
           G G   D  E E ++   P WL+ TSDDA+TV  A+ +SLAFR F+AEPRYIPSLSMYPT
Sbjct: 87  GDGGDDDKGEVEEKNRLFPEWLDFTSDDAQTVFVAIAVSLAFRYFIAEPRYIPSLSMYPT 146

Query: 184 FDVGDRIVAEK-----------------------EVGYTDDDVFIKRVVAKEGDVVEVRE 220
           FDVGDR+VAEK                       EVGYTD DVFIKR+VAKEGD+VEV  
Sbjct: 147 FDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHN 206

Query: 221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGR 280
           GK +VNGV RNE +ILE P Y MTPI VPENSVFVMGDNRNNSYDSHVWGPLP KNIIGR
Sbjct: 207 GKQMVNGVARNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSHVWGPLPLKNIIGR 266

Query: 281 SVFRYWPPQRIGSTVPEGGCAVDSQ 305
           SVFRYWPP R+  TV EGGCAVD Q
Sbjct: 267 SVFRYWPPNRVSGTVLEGGCAVDKQ 291

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	314
TAIR|locus:2033108	367	Plsp2A "plastidic type I signa	0.321	0.275	0.633	2e-47
TAIR|locus:2091717	291	PLSP1 "plastidic type i signal	0.356	0.384	0.812	2e-47
TAIR|locus:2064337	340	TPP "thylakoid processing pept	0.382	0.352	0.558	2.2e-34
TIGR_CMR|CHY_1360	184	CHY_1360 "signal peptidase I"	0.273	0.467	0.395	2e-21
TIGR_CMR|GSU_1267	222	GSU_1267 "signal peptidase I"	0.312	0.441	0.418	1.5e-14
UNIPROTKB|P00803	324	lepB [Escherichia coli K-12 (t	0.226	0.219	0.392	1.2e-11
TIGR_CMR|DET_1192	192	DET_1192 "signal peptidase I"	0.321	0.526	0.352	2.9e-11
TIGR_CMR|BA_3977	183	BA_3977 "signal peptidase I S"	0.283	0.486	0.378	6.4e-11
TIGR_CMR|VC_2462	298	VC_2462 "signal peptidase I" [	0.140	0.147	0.454	1.7e-10
UNIPROTKB|Q10789	294	lepB "Signal peptidase I" [Myc	0.331	0.353	0.356	2.1e-10

TAIR|locus:2033108 Plsp2A "plastidic type I signal peptidase 2A" [Arabidopsis thaliana (taxid:3702)]

 Score = 349 (127.9 bits), Expect = 2.0e-47, Sum P(2) = 2.0e-47
 Identities = 64/101 (63%), Positives = 77/101 (76%)

Query:   195 EVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVF 254
             E GY+  DVFIKR+VA EGD VEV +GKL+VN  V+ ED++LE   Y M P+ VPE  VF
Sbjct:   253 EHGYSCADVFIKRIVASEGDWVEVCDGKLLVNDTVQAEDFVLEPIDYEMEPMFVPEGYVF 312

Query:   255 VMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTV 295
             V+GDNRN S+DSH WGPLP KNIIGRSVFRYWPP ++   +
Sbjct:   313 VLGDNRNKSFDSHNWGPLPIKNIIGRSVFRYWPPSKVSDII 353

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

GO:0008236 "serine-type peptidase activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IEA;ISS

GO:0016021 "integral to membrane" evidence=IEA

TAIR|locus:2091717 PLSP1 "plastidic type i signal peptidase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 496 (179.7 bits), Expect = 2.0e-47, P = 2.0e-47
 Identities = 91/112 (81%), Positives = 97/112 (86%)

Query:   194 KEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSV 253
             +EVGYTD DVFIKR+VAKEGD+VEV  GKL+VNGV RNE +ILE P Y MTPI VPENSV
Sbjct:   180 QEVGYTDADVFIKRIVAKEGDLVEVHNGKLMVNGVARNEKFILEPPGYEMTPIRVPENSV 239

Query:   254 FVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGCAVDSQ 305
             FVMGDNRNNSYDSHVWGPLP KNIIGRSVFRYWPP R+  TV EGGCAVD Q
Sbjct:   240 FVMGDNRNNSYDSHVWGPLPLKNIIGRSVFRYWPPNRVSGTVLEGGCAVDKQ 291

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS;IMP

GO:0008236 "serine-type peptidase activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016020 "membrane" evidence=ISS

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009526 "plastid envelope" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA;IMP

GO:0051604 "protein maturation" evidence=IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA

GO:0019761 "glucosinolate biosynthetic process" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

GO:0051607 "defense response to virus" evidence=RCA

TAIR|locus:2064337 TPP "thylakoid processing peptide" [Arabidopsis thaliana (taxid:3702)]

 Score = 373 (136.4 bits), Expect = 2.2e-34, P = 2.2e-34
 Identities = 67/120 (55%), Positives = 87/120 (72%)

Query:   176 PSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI 235
             P +S    F     ++   E GY+ +DVFIKR+VA EGD VEVR+GKL VN +V+ ED++
Sbjct:   207 PEVSDIVIFKAPPILLEYPEYGYSSNDVFIKRIVASEGDWVEVRDGKLFVNDIVQEEDFV 266

Query:   236 LEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTV 295
             LE  SY M P+ VP+  VFV+GDNRN S+DSH WGPLP +NI+GRSVFRYWPP ++  T+
Sbjct:   267 LEPMSYEMEPMFVPKGYVFVLGDNRNKSFDSHNWGPLPIENIVGRSVFRYWPPSKVSDTI 326

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

GO:0008236 "serine-type peptidase activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IEA;ISS

GO:0016021 "integral to membrane" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IDA

GO:0006465 "signal peptide processing" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

TIGR_CMR|CHY_1360 CHY_1360 "signal peptidase I" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 191 (72.3 bits), Expect = 2.0e-21, Sum P(2) = 2.0e-21
 Identities = 36/91 (39%), Positives = 57/91 (62%)

Query:   204 FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI---LEAPSYNMTPITVPENSVFVMGDNR 260
             FIKRV+   G+ +E++   + +NG    E+Y+   +E   +   P  +P++++FVMGDNR
Sbjct:    92 FIKRVIGLPGETLEIKNNTVYINGKPLKENYLPAKMEMEPFG--PFKIPKDAIFVMGDNR 149

Query:   261 NNSYDSHVWGPLPAKNIIGRSVFRYWPPQRI 291
              +S DS  +G +P KNI GR+V  YWP  R+
Sbjct:   150 QHSADSRYFGAVPIKNIKGRAVLTYWPLNRV 180

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|GSU_1267 GSU_1267 "signal peptidase I" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 186 (70.5 bits), Expect = 1.5e-14, P = 1.5e-14
 Identities = 46/110 (41%), Positives = 61/110 (55%)

Query:   187 GDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNG--------VVRNEDYILEA 238
             GD IV E     + D  FIKRV+   GD ++V + ++ +NG        V + +D I  A
Sbjct:    96 GDVIVFEYPEDPSKD--FIKRVIGLPGDTIQVVQKQVFINGKPFSVPQEVHKEKDVIPAA 153

Query:   239 --PSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYW 286
               P  N  P+TVPENS FVMGDNR+ SYDS  WG +    I G +  +YW
Sbjct:   154 QNPRDNFGPVTVPENSYFVMGDNRDRSYDSRFWGFVKNSQIKGLAFIKYW 203

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

UNIPROTKB|P00803 lepB [Escherichia coli K-12 (taxid:83333)]

 Score = 116 (45.9 bits), Expect = 1.2e-11, Sum P(2) = 1.2e-11
 Identities = 31/79 (39%), Positives = 41/79 (51%)

Query:   142 PGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDD 201
             PGWL    +   +V   L I L  RSF+ EP  IPS SM PT  +GD I+ EK      D
Sbjct:    58 PGWL----ETGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKD 113

Query:   202 DVFIKRVVA----KEGDVV 216
              ++ K ++     K GD+V
Sbjct:   114 PIYQKTLIETGHPKRGDIV 132

GO:0016485 "protein processing" evidence=IMP

GO:0015643 "toxic substance binding" evidence=IMP

GO:0008233 "peptidase activity" evidence=IEA;IMP;IDA

GO:0006508 "proteolysis" evidence=IEA;IDA;IMP

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

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

GO:0008236 "serine-type peptidase activity" evidence=IEA

TIGR_CMR|DET_1192 DET_1192 "signal peptidase I" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 158 (60.7 bits), Expect = 2.9e-11, P = 2.9e-11
 Identities = 36/102 (35%), Positives = 57/102 (55%)

Query:   187 GDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVRE-GKLIVNGVVRNEDYILEAPSYNMTP 245
             GD IV      Y+ ++ FIKR++   GD VEV+E G + +N    +E Y++   ++  T 
Sbjct:    72 GDIIVFPPPEQYSYENDFIKRIIGLPGDSVEVKEDGTVYINDQPLSEPYVVYPKAFPTTK 131

Query:   246 ITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP 287
             + VPE   +VMGDNR  S DS     +  ++I+G++    WP
Sbjct:   132 VYVPEGQYYVMGDNRVVSLDSRYGFFVAREDIVGKAWVSVWP 173

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|BA_3977 BA_3977 "signal peptidase I S" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 155 (59.6 bits), Expect = 6.4e-11, P = 6.4e-11
 Identities = 39/103 (37%), Positives = 53/103 (51%)

Query:   199 TDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDY-------ILEAP-SYNMT------ 244
             T+D  +IKR++   GD +E R  KL VNG    E Y       I + P +Y+ T      
Sbjct:    73 TEDKDYIKRIIGLPGDEIEYRNDKLYVNGKAYEEPYLDKQKKQIADGPLTYDFTLEEMTG 132

Query:   245 PITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP 287
               TVPE  +FV+GDNR  S DS   G +    +IG++   YWP
Sbjct:   133 KKTVPEGQLFVLGDNRRFSKDSRSIGTISMDQVIGKANILYWP 175

GO:0006508 "proteolysis" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|VC_2462 VC_2462 "signal peptidase I" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 113 (44.8 bits), Expect = 1.7e-10, Sum P(2) = 1.7e-10
 Identities = 20/44 (45%), Positives = 29/44 (65%)

Query:   239 PSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSV 282
             P   +    VP+   FVMGDNR+NS DS  WG +P +N++G++V
Sbjct:   222 PRSGVNEWVVPQGHYFVMGDNRDNSADSRFWGFVPEQNLVGKAV 265

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

UNIPROTKB|Q10789 lepB "Signal peptidase I" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 135 (52.6 bits), Expect = 2.1e-10, Sum P(2) = 2.1e-10
 Identities = 47/132 (35%), Positives = 62/132 (46%)

Query:   196 VGYT--DDDVFIKRVVAKEGDVVEVREGK-LIVNGVVRNEDYILEA-----PS-Y----- 241
             +G+   D++  +KRV+A  G  V+ R    L VNG    E Y+  A     PS Y     
Sbjct:   162 IGFVPPDENDLVKRVIAVGGQTVQCRSDTGLTVNGRPLKEPYLDPATMMADPSIYPCLGS 221

Query:   242 NMTPITVPENSVFVMGDNRNNSYDSHVWGPL-----------PAKNIIGRSVFRYWPPQR 290
                P+TVP   V+VMGDNR +S DS    PL           P  N+IG++    WPP R
Sbjct:   222 EFGPVTVPPGRVWVMGDNRTHSADSRAHCPLLCTDDPLPGTVPVANVIGKARLIVWPPSR 281

Query:   291 IG---STVPEGG 299
              G   S  P+ G
Sbjct:   282 WGVVRSVNPQQG 293

GO:0005576 "extracellular region" evidence=IGI

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

GO:0040007 "growth" evidence=IMP

---

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)
Q8H0W1	PLSP1_ARATH	3, ., 4, ., 2, 1, ., 8, 9	0.6075	0.7356	0.7938	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.21	0.921
3rd Layer	3.4.21.89	0.914

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	314
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	3e-41
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	1e-17
COG0681	166	COG0681, LepB, Signal peptidase I [Intracellular t	6e-12
pfam10502	138	pfam10502, Peptidase_S26, Signal peptidase, peptid	2e-11
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	2e-08
cd06462	84	cd06462, Peptidase_S24_S26, The S24, S26 LexA/sign	3e-08
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	3e-07
TIGR02771	171	TIGR02771, TraF_Ti, conjugative transfer signal pe	6e-07
pfam00717	69	pfam00717, Peptidase_S24, Peptidase S24-like	2e-05
COG4959	173	COG4959, TraF, Type IV secretory pathway, protease	7e-05
PRK13838	176	PRK13838, PRK13838, conjugal transfer pilin proces	2e-04

>gnl|CDD|233790 TIGR02227, sigpep_I_bact, signal peptidase I, bacterial type

 Score =  140 bits (356), Expect = 3e-41
 Identities = 58/159 (36%), Positives = 85/159 (53%), Gaps = 24/159 (15%)

Query: 153 KTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDD----DV----- 203
            ++L A++++L  R+FV  P  +P  SM PT   GDRI+  K    T D    D+     
Sbjct: 3   LSLLIAILLALLIRTFVFFPYKVPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKD 62

Query: 204 -------FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI--------LEAPSYNMTPITV 248
                  +IKRV+   GD VE R+GKL +NG   +E Y+         E  + +  P+TV
Sbjct: 63  PDDNKNIYIKRVIGLPGDKVEFRDGKLYINGKKIDEPYLKPNGFLDTSEFNTTDYGPVTV 122

Query: 249 PENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP 287
           P    FV+GDNR+NS DS  +G +P  +IIG+  F ++P
Sbjct: 123 PPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGKVSFVFYP 161

This model represents signal peptidase I from most bacteria. Eukaryotic sequences are likely organellar. Several bacteria have multiple paralogs, but these represent isozymes of signal peptidase I. Virtually all known bacteria may be presumed to A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes [Protein fate, Protein and peptide secretion and trafficking]. Length = 163

>gnl|CDD|119398 cd06530, S26_SPase_I, The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3

 Score = 75.7 bits (187), Expect = 1e-17
 Identities = 36/113 (31%), Positives = 49/113 (43%), Gaps = 32/113 (28%)

Query: 171 EPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVR 230
           EP  +P  SM PT   GD ++  K    +      KR     GDVV              
Sbjct: 1   EPVVVPGGSMEPTLQPGDLVLVNK---LSYGFREPKR-----GDVV-------------- 38

Query: 231 NEDYILEAPSYNMTPIT---VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGR 280
               + ++P     PI    +     FV+GDNRNNS DS  WGP+P  +I+G+
Sbjct: 39  ----VFKSPGDPGKPIIKRVI---GYFVLGDNRNNSLDSRYWGPVPEDDIVGK 84

4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa) belong to this family and they process many proteins that enter the ER for retention or for export to the Golgi apparatus, secretory vesicles, plasma membranes or vacuole. An atypical member of the S26 SPase type I family is the TraF peptidase which has the remarkable activity of producing a cyclic protein of the Pseudomonas pilin system. The type I signal peptidases are unique serine proteases that utilize a serine/lysine catalytic dyad mechanism in place of the classical serine/histidine/aspartic acid catalytic triad mechanism. Length = 85

>gnl|CDD|223753 COG0681, LepB, Signal peptidase I [Intracellular trafficking and secretion]

 Score = 62.7 bits (152), Expect = 6e-12
 Identities = 39/143 (27%), Positives = 65/143 (45%), Gaps = 26/143 (18%)

Query: 155 VLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEK-EVGYTDDDV---------- 203
           +   L + +  R+FV EP  +PS SM PT +VGDR++ +K   G+    V          
Sbjct: 16  IAIILALIIGVRTFVFEPVVVPSGSMEPTLNVGDRVLVKKFSYGFGKLKVPDIIVLPAVV 75

Query: 204 ---FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNR 260
               IKRV+   GD+V  ++ +L V  ++    Y L           V +++   + D  
Sbjct: 76  EGDLIKRVIGLRGDIVVFKDDRLYVVPII-PRVYGL-----------VEKDNGKHLVDVI 123

Query: 261 NNSYDSHVWGPLPAKNIIGRSVF 283
            N+  S V+G +  K+ I R + 
Sbjct: 124 VNANSSRVFGIITKKDYIKRVIG 146

Length = 166

>gnl|CDD|151062 pfam10502, Peptidase_S26, Signal peptidase, peptidase S26

 Score = 59.9 bits (146), Expect = 2e-11
 Identities = 28/86 (32%), Positives = 45/86 (52%), Gaps = 10/86 (11%)

Query: 204 FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEA-------PSYNMTPITVPENSVFVM 256
            +KRV+A  G  V +R+G + ++GV  +    LE        P +      +PE  +F+M
Sbjct: 52  LLKRVLALPGQRVCIRDGLVTIDGVPVSA--ALERDRKGRPLPPWQGCR-VLPEGELFLM 108

Query: 257 GDNRNNSYDSHVWGPLPAKNIIGRSV 282
                +S+DS  +GP+PA  IIGR+ 
Sbjct: 109 SVTSPDSFDSRYFGPVPASAIIGRAR 134

This is a family of membrane signal serine endopeptidases which function in the processing of newly-synthesised secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal, signal peptides as proteins are translocated across membranes. The active site residues take the form of a catalytic dyad that is Ser, Lys in subfamily S26A; the Ser is the nucleophile in catalysis, and the Lys is the general base. Length = 138

>gnl|CDD|182787 PRK10861, PRK10861, signal peptidase I; Provisional

 Score = 54.3 bits (131), Expect = 2e-08
 Identities = 39/118 (33%), Positives = 49/118 (41%), Gaps = 34/118 (28%)

Query: 128 GSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVG 187
            + D+    +    PGWL    +   +V   L I L  RSF+ EP  IPS SM PT  +G
Sbjct: 44  DALDKATLAKVAPKPGWL----ETGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIG 99

Query: 188 DRIVAEK---------------EVG-----------YTDD---DVFIKRVVAKEGDVV 216
           D I+ EK               E G           Y +D   D +IKRVV   GD V
Sbjct: 100 DFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKLD-YIKRVVGLPGDKV 156

Length = 324

>gnl|CDD|119396 cd06462, Peptidase_S24_S26, The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families

 Score = 50.0 bits (120), Expect = 3e-08
 Identities = 26/118 (22%), Positives = 40/118 (33%), Gaps = 49/118 (41%)

Query: 174 YIPSLSMYPTFDVGDRIVAEK-----EVG------YTDDDVFIKRVVAKEGDVVEVREGK 222
            +   SM PT   GD ++ +K     + G          ++ +KRV+   G         
Sbjct: 4   RVEGDSMEPTIPDGDLVLVDKSSYEPKRGDIVVFRLPGGELTVKRVIGLPG--------- 54

Query: 223 LIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGR 280
                                      E   F++GDN  NS DS + GP P  +I+G 
Sbjct: 55  ---------------------------EGHYFLLGDN-PNSPDSRIDGP-PELDIVGV 83

The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the transport of proteins across membranes in all living organisms. All members in this superfamily are unique serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. Length = 84

>gnl|CDD|182787 PRK10861, PRK10861, signal peptidase I; Provisional

 Score = 50.8 bits (122), Expect = 3e-07
 Identities = 17/35 (48%), Positives = 24/35 (68%)

Query: 248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSV 282
           VP    F+MGDNR+NS DS  WG +P  N++G++ 
Sbjct: 264 VPPGQYFMMGDNRDNSADSRYWGFVPEANLVGKAT 298

Length = 324

>gnl|CDD|131818 TIGR02771, TraF_Ti, conjugative transfer signal peptidase TraF

 Score = 48.2 bits (115), Expect = 6e-07
 Identities = 34/132 (25%), Positives = 50/132 (37%), Gaps = 13/132 (9%)

Query: 162 SLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAE--KEVGYTDDDV-------FIKRVVAKE 212
           SL    +            Y  F   D    E  +E GY  + +        +KRV+   
Sbjct: 33  SLPLGLYWTTSSKPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGLP 92

Query: 213 GDVVEVREGKLIVNGVVRNEDYILEAPSYN--MTPI--TVPENSVFVMGDNRNNSYDSHV 268
           GD V VR   + +NG +      L   S    + P    V     FV+ D    S+DS  
Sbjct: 93  GDRVTVRADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPGFFVVHDTSPTSFDSRY 152

Query: 269 WGPLPAKNIIGR 280
           +GP+  + +IGR
Sbjct: 153 FGPISREQVIGR 164

This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems. Length = 171

>gnl|CDD|216079 pfam00717, Peptidase_S24, Peptidase S24-like

 Score = 41.8 bits (99), Expect = 2e-05
 Identities = 13/68 (19%), Positives = 27/68 (39%), Gaps = 14/68 (20%)

Query: 174 YIPSLSMYPTFDVGDRIVAEKE----------VGYTDDDVFIKRVVAKEGDVVEVRE--- 220
            +   SM PT   GD ++ +K                ++  +KR++   GD++ +     
Sbjct: 1   RVKGDSMEPTIPDGDLLLVDKTSEPKRGDIVVARLDGEEATVKRLIGLPGDIILLPSNPE 60

Query: 221 -GKLIVNG 227
              + +NG
Sbjct: 61  YPPIYING 68

Length = 69

>gnl|CDD|227294 COG4959, TraF, Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

 Score = 42.5 bits (100), Expect = 7e-05
 Identities = 19/85 (22%), Positives = 37/85 (43%), Gaps = 10/85 (11%)

Query: 205 IKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEA-------PSYNMTPITVPENSVFVMG 257
           +KR++A  G  V +    + ++G        L         P +       P + + ++ 
Sbjct: 85  LKRILALPGQHVCITSQGIAIDGKPVA--ASLPVDRVGRALPRWQGCRYLAP-SELLLLT 141

Query: 258 DNRNNSYDSHVWGPLPAKNIIGRSV 282
           D  + S+DS  +GP+PA  +IG + 
Sbjct: 142 DRSSTSFDSRYFGPIPASQVIGVAR 166

Length = 173

>gnl|CDD|172365 PRK13838, PRK13838, conjugal transfer pilin processing protease TraF; Provisional

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 28/93 (30%), Positives = 41/93 (44%), Gaps = 15/93 (16%)

Query: 205 IKRVVAKEGDVVEVR-----EGKLIVNGVVRNEDYILEAPSYNMTPI---TVPENSVFVM 256
           IK V A  G  VE+      +G+ + +  VR  D         +TP     VP   +F+ 
Sbjct: 89  IKTVAALAGQRVEIGGSVSIDGRPLPSSSVRRRD----GEGRPLTPFPGGVVPPGHLFLH 144

Query: 257 GDNRNNSYDSHVWGPLPAKNIIG--RSVFRYWP 287
                 SYDS  +GP+PA  ++G  R V  + P
Sbjct: 145 SSFAG-SYDSRYFGPVPASGLLGLARPVLTFDP 176

Length = 176

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	314
TIGR02227	163	sigpep_I_bact signal peptidase I, bacterial type.	100.0
PRK10861	324	signal peptidase I; Provisional	99.97
KOG0171	176	consensus Mitochondrial inner membrane protease, s	99.94
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.9
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.9
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.9
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.88
KOG1568	174	consensus Mitochondrial inner membrane protease, s	99.87
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	99.61
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.48
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.41
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.36
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	98.97
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	98.47
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	98.19
COG2932	214	Predicted transcriptional regulator [Transcription	97.59
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	97.35
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	97.09
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	96.97
PRK00215	205	LexA repressor; Validated	96.92
PRK12423	202	LexA repressor; Provisional	96.9
COG1974	201	LexA SOS-response transcriptional repressors (RecA	95.76
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	94.17

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=100.00  E-value=8e-36  Score=260.81  Aligned_cols=138  Identities=39%  Similarity=0.706  Sum_probs=120.1

Q ss_pred             HHHHHHHHHHHHHHHHheeeeEEEcCCCCCcCCCCCCEEEEEeec----c--------c----CCCceEEEEEEecCCCE
Q 021285          152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEV----G--------Y----TDDDVFIKRVVAKEGDV  215 (314)
Q Consensus       152 ~~~llialli~lll~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~~----~--------~----~~g~~lVKRVvGlPGDt  215 (314)
                      +..++++++++++++.|+++.+.|+|+||+|||++||+|++++..    .        +    ..++.++|||+|+|||+
T Consensus         2 ~~~~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~~~~~~iKRVig~pGd~   81 (163)
T TIGR02227         2 ILSLLIAILLALLIRTFVFFPYKIPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYVKRVIGLPGDK   81 (163)
T ss_pred             HHHHHHHHHHHHHHHhhEEEEEEECCcccccchhCCCEEEEEEeEcCCCCCCCCcEEEEecCCCCCceeEEEEEecCCCE
Confidence            457778888889999999999999999999999999999999821    1        1    13568999999999999


Q ss_pred             EEEeCCEEEECCEEccccccccCC--------CCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcC
Q 021285          216 VEVREGKLIVNGVVRNEDYILEAP--------SYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP  287 (314)
Q Consensus       216 V~I~dg~vyINGk~i~e~yi~~~p--------~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP  287 (314)
                      |+++++.+||||+.+.+.|.....        .....+++||+|||||||||+.+|+||||||+|++++|+|||++++||
T Consensus        82 v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~G~V~~~~I~Gk~~~~~~p  161 (163)
T TIGR02227        82 VEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGKVSFVFYP  161 (163)
T ss_pred             EEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCcccCCcCcCCHHHeEEEEEEEECC
Confidence            999999999999999998765321        123446799999999999999999999999999999999999999999


Q ss_pred             CC
Q 021285          288 PQ  289 (314)
Q Consensus       288 ~~  289 (314)
                      ++
T Consensus       162 ~~  163 (163)
T TIGR02227       162 FD  163 (163)
T ss_pred             CC
Confidence            75

A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes.

>PRK10861 signal peptidase I; Provisional

Probab=99.97  E-value=1.6e-30  Score=250.29  Aligned_cols=139  Identities=35%  Similarity=0.535  Sum_probs=113.0

Q ss_pred             HHHHHHHHHHHHHHHHHheeeeEEEcCCCCCcCCCCCCEEEEEeec-c-------------------------c--CCCc
Q 021285          151 DAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEV-G-------------------------Y--TDDD  202 (314)
Q Consensus       151 ~~~~llialli~lll~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~~-~-------------------------~--~~g~  202 (314)
                      ++..++++++++++++.|+++++.|+|.||+|||..||+|+|+|.. +                         +  ..+.
T Consensus        63 ~~~~~~~~l~i~~~ir~fv~~~~~Ips~SM~PTL~~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~~~~  142 (324)
T PRK10861         63 TGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKL  142 (324)
T ss_pred             HHHHHHHHHhHHHHHHhhEEEEEEECCCcCcCcccCCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCCCCC
Confidence            4556777888888999999999999999999999999999999921 0                         0  1235


Q ss_pred             eEEEEEEecCCCEEEEe--CCEEEECCEEcccc-----------------------------------------------
Q 021285          203 VFIKRVVAKEGDVVEVR--EGKLIVNGVVRNED-----------------------------------------------  233 (314)
Q Consensus       203 ~lVKRVvGlPGDtV~I~--dg~vyINGk~i~e~-----------------------------------------------  233 (314)
                      .+||||+|+|||+|+++  ++++||||+.+...                                               
T Consensus       143 ~yIKRVIGlPGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  222 (324)
T PRK10861        143 DYIKRVVGLPGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLNETKENGI  222 (324)
T ss_pred             cEEEEeeecCCcEEEEEeCCCEEEEcCccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            79999999999999998  89999999742110                                               


Q ss_pred             ----cccc----------CCC-------------CCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEc
Q 021285          234 ----YILE----------APS-------------YNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYW  286 (314)
Q Consensus       234 ----yi~~----------~p~-------------~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~w  286 (314)
                          |...          .+.             .....++||+|+||||||||++|+||||||+||+++|+|||.++||
T Consensus       223 ~~~~~~E~l~~~~h~i~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~yf~mgdnr~~S~DSRy~G~Vp~~~i~G~a~~i~~  302 (324)
T PRK10861        223 RLSERKETLGDVTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGKATAIWM  302 (324)
T ss_pred             cceeEEEecCCccceeeecCCcccccccccccCCCcCceEEECCCeEEEeCCCCCCCcccCcccccCHHHcEEEEEEEEE
Confidence                0000          000             1134679999999999999999999999999999999999999999


Q ss_pred             CCC
Q 021285          287 PPQ  289 (314)
Q Consensus       287 P~~  289 (314)
                      +++
T Consensus       303 s~d  305 (324)
T PRK10861        303 SFE  305 (324)
T ss_pred             EcC
Confidence            986

>KOG0171 consensus Mitochondrial inner membrane protease, subunit IMP1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=3.8e-27  Score=206.16  Aligned_cols=133  Identities=43%  Similarity=0.642  Sum_probs=106.4

Q ss_pred             HHHHHHHHHHheeeeEEEcCCCCCcCCCCCC-EEEEEee----ccc------------CCCceEEEEEEecCCCEEEEeC
Q 021285          158 ALVISLAFRSFVAEPRYIPSLSMYPTFDVGD-RIVAEKE----VGY------------TDDDVFIKRVVAKEGDVVEVRE  220 (314)
Q Consensus       158 alli~lll~~fv~~~~~V~G~SM~PTL~~GD-~Vlv~k~----~~~------------~~g~~lVKRVvGlPGDtV~I~d  220 (314)
                      -.+++.....|++++..++|.||+||+++++ ++++++.    .+.            ...+.++|||+|++||.|++.+
T Consensus        21 ~~~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD~v~v~~  100 (176)
T KOG0171|consen   21 YAAFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPDPKEHICKRIVAMEGDLVEVHD  100 (176)
T ss_pred             HHHHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCCchhhhhheeeccCCceEEEec
Confidence            3445555667999999999999999988755 5554661    111            2345789999999999999999


Q ss_pred             CEEEECCEEccccccccCCCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCccccCCCCCc
Q 021285          221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVPEGGC  300 (314)
Q Consensus       221 g~vyINGk~i~e~yi~~~p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~rig~i~~~~~~  300 (314)
                      +.+.+|+..  |.+        ..+++||+||+||+|||+.+|+|||+||+||...|+||+++++||.++++.+.....+
T Consensus       101 ~~~~~n~~~--e~~--------~~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~~~~~~~~  170 (176)
T KOG0171|consen  101 GPLVVNDLV--EKF--------STPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSGLILHWIN  170 (176)
T ss_pred             CCcccchhh--hhc--------cceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCchhcceeeecccc
Confidence            888887653  221        1468999999999999999999999999999999999999999999998877655444

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.90  E-value=3e-23  Score=184.95  Aligned_cols=103  Identities=25%  Similarity=0.399  Sum_probs=83.0

Q ss_pred             CCCCCCEEEEEe----------ecccC------CC-ceEEEEEEecCCCEEEEeCCEEEECCEEccccccc--c-----C
Q 021285          183 TFDVGDRIVAEK----------EVGYT------DD-DVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYIL--E-----A  238 (314)
Q Consensus       183 TL~~GD~Vlv~k----------~~~~~------~g-~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~--~-----~  238 (314)
                      .++.||+|+++.          .++|.      ++ ..++|||+|+|||+|+++++.+||||+.+.+....  +     .
T Consensus        50 ~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva~pGD~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~l  129 (178)
T PRK13884         50 PVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLAAKGDAVSVTDDGVRVNGELLPLSKPILADGAGRPL  129 (178)
T ss_pred             CCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEeeCCcEEEEECCEEEECCEEccccccccccccCCcc
Confidence            478899999985          12332      11 37999999999999999999999999998643322  1     1


Q ss_pred             CCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          239 PSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       239 p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                      +.+....++||+|+|||||||+.+|+||||||+|++++|+|++..++
T Consensus       130 ~~~~~~~~~lp~g~~fvlgd~~~~S~DSRYfG~V~~~~I~G~~~Pl~  176 (178)
T PRK13884        130 PRYQANSYTLGESELLLMSDVSATSFDGRYFGPINRSQIKTVIRPVI  176 (178)
T ss_pred             cccCCCceEECCCEEEEECCCCCCCCcccccCcccHHHEEEEEEEeE
Confidence            23444457999999999999999999999999999999999998764

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.90  E-value=5.1e-23  Score=183.23  Aligned_cols=116  Identities=23%  Similarity=0.299  Sum_probs=87.9

Q ss_pred             heeeeEEEcCCCCC----------cCCCCCCEEEEEee----------cccC-------CCceEEEEEEecCCCEEEEeC
Q 021285          168 FVAEPRYIPSLSMY----------PTFDVGDRIVAEKE----------VGYT-------DDDVFIKRVVAKEGDVVEVRE  220 (314)
Q Consensus       168 fv~~~~~V~G~SM~----------PTL~~GD~Vlv~k~----------~~~~-------~g~~lVKRVvGlPGDtV~I~d  220 (314)
                      |........++||.          -.++.||+|+++..          .+|.       ....++|||+|+|||+|++++
T Consensus        25 ~~~~~~~N~T~S~pig~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~  104 (176)
T PRK13838         25 WIGGYRINLTPSEPLGLWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGG  104 (176)
T ss_pred             HHCceEEECCCCCEEEEEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECC
Confidence            33444555566652          25789999999851          1221       123599999999999999985


Q ss_pred             CEEEECCEEccccccccCCCC-----CCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          221 GKLIVNGVVRNEDYILEAPSY-----NMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       221 g~vyINGk~i~e~yi~~~p~~-----~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                       .+||||+.+.+.|+......     .....+||+|+||||||| .+|+||||||+|++++|+|+|..+|
T Consensus       105 -~v~iNg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g~~fvlgd~-~~S~DSRy~G~V~~~~I~G~a~pi~  172 (176)
T PRK13838        105 -SVSIDGRPLPSSSVRRRDGEGRPLTPFPGGVVPPGHLFLHSSF-AGSYDSRYFGPVPASGLLGLARPVL  172 (176)
T ss_pred             -EEEECCEEccccccccccccCCcCCCCCccCcCCCeEEEECCC-CCCCcccccCcccHHHeEEEEEEEE
Confidence             89999999998876532211     122468999999999998 5899999999999999999998764

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.90  E-value=8.6e-23  Score=180.93  Aligned_cols=119  Identities=26%  Similarity=0.407  Sum_probs=91.2

Q ss_pred             HHheeeeEEEcCCCCCc---------CCCCCCEEEEEee----------ccc-CCC------ceEEEEEEecCCCEEEEe
Q 021285          166 RSFVAEPRYIPSLSMYP---------TFDVGDRIVAEKE----------VGY-TDD------DVFIKRVVAKEGDVVEVR  219 (314)
Q Consensus       166 ~~fv~~~~~V~G~SM~P---------TL~~GD~Vlv~k~----------~~~-~~g------~~lVKRVvGlPGDtV~I~  219 (314)
                      ..|........++||-.         .++.||+|+++..          +++ ..+      ..+||||+|+|||+|+++
T Consensus        20 ~~~~~~~~~N~T~S~P~g~Y~~~~~~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRViglpGD~V~i~   99 (171)
T TIGR02771        20 GLYCVGARINTTKSLPLGLYWTTSSKPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGLPGDRVTVR   99 (171)
T ss_pred             hcceeeEEEECCCCCcceEEEeCCCCCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEEEeCCCEEEEE
Confidence            34444455566777743         5788999999851          111 111      279999999999999999


Q ss_pred             CCEEEECCEEccccccccC-----CCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          220 EGKLIVNGVVRNEDYILEA-----PSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       220 dg~vyINGk~i~e~yi~~~-----p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                      ++.++|||+.+.+.+....     +.....+++||+| ||+||||+.+|+||||||+|++++|+|||..+|
T Consensus       100 ~~~v~INg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~~~~IiGk~~pl~  169 (171)
T TIGR02771       100 ADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPISREQVIGRVKPLF  169 (171)
T ss_pred             CCEEEECCEEcccccccccccCCCccccCCCcEECCC-EEEECCCCCCCCcccccceecHHHeEEEEEEeE
Confidence            9999999999877654321     1112236799999 999999999999999999999999999998753

This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems.

>PF10502 Peptidase_S26: Signal peptidase, peptidase S26 ; InterPro: IPR019533 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=99.88  E-value=1e-23  Score=180.66  Aligned_cols=102  Identities=38%  Similarity=0.605  Sum_probs=33.0

Q ss_pred             CCCCCEEEEEee---------ccc-CCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCC----CcceEec
Q 021285          184 FDVGDRIVAEKE---------VGY-TDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYN----MTPITVP  249 (314)
Q Consensus       184 L~~GD~Vlv~k~---------~~~-~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~----~~~~~VP  249 (314)
                      ++.||+|+++..         .+| ..+..++|||+|+|||+|+++++.++|||+.+.+.+..+..+..    ....+||
T Consensus        22 ~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~~~~~d~~g~~l~~~~~~~~vp  101 (138)
T PF10502_consen   22 IERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGEPLATDSDGRPLPQFSGSGTVP  101 (138)
T ss_dssp             -------------------------------------------------------------------S-T----TEEE--
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCceEeC
Confidence            899999999872         233 24568999999999999999999999999988877655332221    1478999


Q ss_pred             CCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          250 ENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       250 ~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                      +|+|||||||+.+|+||||||+|++++|+|||..+|
T Consensus       102 ~g~~~v~gd~~~~S~DSRy~G~V~~~~I~g~~~pl~  137 (138)
T PF10502_consen  102 EGEYFVLGDNRPNSFDSRYFGPVPRSQIIGKARPLW  137 (138)
T ss_dssp             TTEEEEE-SBTTS--SHHHH--EEGGGEEEEEEEEE
T ss_pred             CCEEEEecCCCCCccccCEecccCHHHEEEEEEEEE
Confidence            999999999999999999999999999999998875

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents a conserved region found in the S26A family of serine endopeptidases, which function in the processing of newly-synthesised secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal signal peptides as proteins are translocated across membranes. ; PDB: 3S04_B 1KN9_C 1B12_D 3IIQ_B 1T7D_A.

>KOG1568 consensus Mitochondrial inner membrane protease, subunit IMP2 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.87  E-value=1.3e-22  Score=177.52  Aligned_cols=114  Identities=34%  Similarity=0.580  Sum_probs=95.7

Q ss_pred             HHHHHheeeeEEEcCCCCCcCCCCC------CEEEEEee--------c--------ccCCCceEEEEEEecCCCEEEEeC
Q 021285          163 LAFRSFVAEPRYIPSLSMYPTFDVG------DRIVAEKE--------V--------GYTDDDVFIKRVVAKEGDVVEVRE  220 (314)
Q Consensus       163 lll~~fv~~~~~V~G~SM~PTL~~G------D~Vlv~k~--------~--------~~~~g~~lVKRVvGlPGDtV~I~d  220 (314)
                      +.+...+.....|.|.||.|+++++      |+|++.+.        +        ..+.++.+||||+|++||++.-.+
T Consensus        24 ~t~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t~~  103 (174)
T KOG1568|consen   24 LTFSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVTED  103 (174)
T ss_pred             eeeeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCChhheeeeeeecccccEeccCC
Confidence            3445567788999999999999874      88999881        1        123567899999999999987532


Q ss_pred             CEEEECCEEccccccccCCCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCccccCC
Q 021285          221 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIGSTVP  296 (314)
Q Consensus       221 g~vyINGk~i~e~yi~~~p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~rig~i~~  296 (314)
                                          +....+.||+|||||.|||...|+|||.||||+...|+|||++++||+.|++.+.+
T Consensus       104 --------------------~k~~~v~vpkghcWVegDn~~hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~~  159 (174)
T KOG1568|consen  104 --------------------EKEEPVVVPKGHCWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLDK  159 (174)
T ss_pred             --------------------CCCCceecCCCcEEEecCCcccccccCccCCcchhheeeeEEEEEcChHHhhhhcc
Confidence                                33456799999999999999999999999999999999999999999999887764

>COG4959 TraF Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

Probab=99.61  E-value=2.2e-15  Score=131.24  Aligned_cols=104  Identities=21%  Similarity=0.423  Sum_probs=85.5

Q ss_pred             CCCCCEEEEEe---------ecccC-CCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccC-----CCCCCcceEe
Q 021285          184 FDVGDRIVAEK---------EVGYT-DDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEA-----PSYNMTPITV  248 (314)
Q Consensus       184 L~~GD~Vlv~k---------~~~~~-~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~-----p~~~~~~~~V  248 (314)
                      +..||+|+++.         .++|. ....++|||.|+|||+|++.++.+.|||+.+......+.     |.++.+ ..+
T Consensus        54 vt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~D~~GR~lp~~~gc-R~l  132 (173)
T COG4959          54 VTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPVDRVGRALPRWQGC-RYL  132 (173)
T ss_pred             cccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeeccccccCCcCCcccCC-cee
Confidence            78899999987         45663 356789999999999999999999999999866544432     334433 358


Q ss_pred             cCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCC
Q 021285          249 PENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQ  289 (314)
Q Consensus       249 P~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~  289 (314)
                      -++|+|+|+|....|+||||||+||.++|+|.+..+ |-++
T Consensus       133 ~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRPv-wt~~  172 (173)
T COG4959         133 APSELLLLTDRSSTSFDSRYFGPIPASQVIGVARPV-WTED  172 (173)
T ss_pred             cCCeEEEEeccCCcccccceecccCHHHcceeeeee-eccC
Confidence            999999999999999999999999999999999885 4433

>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease

Probab=99.48  E-value=2.1e-13  Score=107.59  Aligned_cols=85  Identities=34%  Similarity=0.553  Sum_probs=59.6

Q ss_pred             EEcCCCCCcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeC----CEEEECCEEccccccccCCCCCCcceEec
Q 021285          174 YIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVRE----GKLIVNGVVRNEDYILEAPSYNMTPITVP  249 (314)
Q Consensus       174 ~V~G~SM~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~d----g~vyINGk~i~e~yi~~~p~~~~~~~~VP  249 (314)
                      .|.|+||+|+|++||+|++++......        .-.+||.|.+..    +.++|.                 .-+.++
T Consensus         2 ~V~g~SM~P~l~~GD~vlv~~~~~~~~--------~~~~Gdivv~~~~~~~~~~~vk-----------------Rv~~~~   56 (90)
T TIGR02754         2 KVTGVSMSPTLPPGDRIIVVPWLKIFR--------VPPIGNVVVVRHPLQPYGLIIK-----------------RLAAVD   56 (90)
T ss_pred             EeeCCCccCccCCCCEEEEEEccccCC--------CCCCCeEEEEecCCCCcceEEE-----------------EeeEEc
Confidence            689999999999999999986211000        001255544431    122221                 012345


Q ss_pred             CCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEE
Q 021285          250 ENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVF  283 (314)
Q Consensus       250 ~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~  283 (314)
                      ++++|++|||+..|.|||+||+|+..+|+|||+|
T Consensus        57 ~~~~~l~~dN~~~~~d~~~~g~v~~~~I~G~v~~   90 (90)
T TIGR02754        57 DNGLFLLGDNPKASTDSRQLGPVPRSLLLGKVLW   90 (90)
T ss_pred             CCeEEEeCCCCCCCCcccccCCCcHHHEEEEEEC
Confidence            7889999999999999999999999999999963

Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.

>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3

Probab=99.41  E-value=5.6e-13  Score=103.59  Aligned_cols=76  Identities=42%  Similarity=0.719  Sum_probs=55.7

Q ss_pred             eEEEcCCCCCcCCCCCCEEEEEeecc----cCCCceEEEEEEecCCCEEEEeCC----EEEECCEEccccccccCCCCCC
Q 021285          172 PRYIPSLSMYPTFDVGDRIVAEKEVG----YTDDDVFIKRVVAKEGDVVEVREG----KLIVNGVVRNEDYILEAPSYNM  243 (314)
Q Consensus       172 ~~~V~G~SM~PTL~~GD~Vlv~k~~~----~~~g~~lVKRVvGlPGDtV~I~dg----~vyINGk~i~e~yi~~~p~~~~  243 (314)
                      .+.|.|+||+|+++.||+|++++...    ..            .||.|.++..    ..++. +               
T Consensus         2 ~~~v~g~SM~P~i~~gd~v~v~~~~~~~~~~~------------~GDiv~~~~~~~~~~~~vk-R---------------   53 (85)
T cd06530           2 PVVVPGGSMEPTLQPGDLVLVNKLSYGFREPK------------RGDVVVFKSPGDPGKPIIK-R---------------   53 (85)
T ss_pred             eeEEcCCCCcCcccCCCEEEEEEeecccCCCC------------CCCEEEEeCCCCCCCEEEE-E---------------
Confidence            57899999999999999999987321    22            3444444321    11110 0               


Q ss_pred             cceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEE
Q 021285          244 TPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS  281 (314)
Q Consensus       244 ~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV  281 (314)
                         .+.   ||++|||..+|.|||+||+|+.++|+|++
T Consensus        54 ---v~~---~~~~gDn~~ns~d~~~~g~~~~~~i~G~~   85 (85)
T cd06530          54 ---VIG---YFVLGDNRNNSLDSRYWGPVPEDDIVGKV   85 (85)
T ss_pred             ---EEE---EEEeeCCCCCCCccCCcCCCcHHHeEEeC
Confidence               111   99999999999999999999999999985

4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa

>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]

Probab=99.36  E-value=6.7e-12  Score=107.63  Aligned_cols=122  Identities=31%  Similarity=0.417  Sum_probs=90.7

Q ss_pred             hhhHHHHHHHHHHHHHHH--HHheeeeEEEcCCCCCcCCCCCCEEEEEeecc--------------cCCCceEEEEEEec
Q 021285          148 TSDDAKTVLAALVISLAF--RSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVG--------------YTDDDVFIKRVVAK  211 (314)
Q Consensus       148 ~~~~~~~llialli~lll--~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~~~--------------~~~g~~lVKRVvGl  211 (314)
                      ...++..+++++++++++  +.|+++.+.|+|.||+||++.||+|++++...              ......++||++++
T Consensus         7 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~~GD~v~v~k~~~~~~~~~~~~~~~~~~~~~~~~~kr~~~~   86 (166)
T COG0681           7 FLELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLNVGDRVLVKKFSYGFGKLKVPDIIVLPAVVEGDLIKRVIGL   86 (166)
T ss_pred             HHHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccccCCEEEEEeccccccCCccceeeecCCCCCcceEEEeccC
Confidence            345666777777888877  89999999999999999999999999999211              24566799999999


Q ss_pred             CCCEEEEeCCEEEECCEEccccccccCCCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEE
Q 021285          212 EGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS  281 (314)
Q Consensus       212 PGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV  281 (314)
                      +||.+.+++...|+ +..+.+.+           ..+..++.++.++....+.++|.++......++.++
T Consensus        87 ~GD~i~~~~~~~~~-~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (166)
T COG0681          87 RGDIVVFKDDRLYV-VPIIPRVY-----------GLVEKDNGKHLVDVIVNANSSRVFGIITKKDYIKRV  144 (166)
T ss_pred             CCCEEEEECCEEEe-ecccCcch-----------hhhhcccccccccccccccCccccccccccccccce
Confidence            99999999999888 22222211           111222222556666677888888887778888777

>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type

Probab=98.97  E-value=4.3e-09  Score=92.58  Aligned_cols=71  Identities=31%  Similarity=0.465  Sum_probs=48.5

Q ss_pred             EcCCCCCcCCCCCCEEEEEeec--ccC---------CC--ceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCC
Q 021285          175 IPSLSMYPTFDVGDRIVAEKEV--GYT---------DD--DVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSY  241 (314)
Q Consensus       175 V~G~SM~PTL~~GD~Vlv~k~~--~~~---------~g--~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~  241 (314)
                      |.|.||+||+++||++++++..  ...         ++  ..++|||+++.++     +      |              
T Consensus        36 V~g~SM~Ptl~~GD~vlv~~~~~~~~~~GDIVvf~~~~~~~~iihRVi~v~~~-----~------g--------------   90 (158)
T TIGR02228        36 VLSGSMEPTFNTGDLILVTGADPNDIQVGDVITYKSPGFNTPVTHRVIEINNS-----G------G--------------   90 (158)
T ss_pred             EcCCCCcCCccCCCEEEEEecccCCCCCCCEEEEEECCCCccEEEEEEEEECC-----C------C--------------
Confidence            8999999999999999998711  111         11  3344454444321     0      0              


Q ss_pred             CCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEE
Q 021285          242 NMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSV  282 (314)
Q Consensus       242 ~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~  282 (314)
                              +-.|+..|||. ...|   .++|..++|+||+.
T Consensus        91 --------~~~~~tkGDnN-~~~D---~~~v~~~~IiG~v~  119 (158)
T TIGR02228        91 --------ELGFITKGDNN-PAPD---GEPVPSENVIGKYL  119 (158)
T ss_pred             --------cEEEEEEecCC-CCCC---cccCCHHHEEEEEE
Confidence                    11377889996 5557   68999999999998

This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.

>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification

Probab=98.47  E-value=2.6e-07  Score=68.81  Aligned_cols=47  Identities=30%  Similarity=0.486  Sum_probs=37.8

Q ss_pred             EEcCCCCCcCCCCCCEEEEEeec---------ccCCCc--eEEEEEEecCCCEEEEeC
Q 021285          174 YIPSLSMYPTFDVGDRIVAEKEV---------GYTDDD--VFIKRVVAKEGDVVEVRE  220 (314)
Q Consensus       174 ~V~G~SM~PTL~~GD~Vlv~k~~---------~~~~g~--~lVKRVvGlPGDtV~I~d  220 (314)
                      +|.|+||+|++++||+|++++..         ...++.  .++|||++.+|+.+.+..
T Consensus         1 ~V~GdSM~P~i~~Gd~v~v~~~~~~~~gdivv~~~~~~~~~~iKrv~~~~~~~~~~~~   58 (70)
T PF00717_consen    1 RVEGDSMEPTIKDGDIVLVDPSSEPKDGDIVVVKIDGDEELYIKRVVGEPGGIILISS   58 (70)
T ss_dssp             EEESSTTGGTSSTTEEEEEEETS---TTSEEEEEETTEESEEEEEEEEETTEEEEE-S
T ss_pred             CeECcCcccCeeCCCEEEEEEcCCCccCeEEEEEECCceeeEEEEEEEeCCCEEEEec
Confidence            58999999999999999999821         112333  899999999999999874

; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....

>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families

Probab=98.19  E-value=7.7e-06  Score=62.05  Aligned_cols=80  Identities=38%  Similarity=0.533  Sum_probs=49.2

Q ss_pred             eEEEcCCCCCcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCC--EEEECCEEccccccccCCCCCCcceEec
Q 021285          172 PRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREG--KLIVNGVVRNEDYILEAPSYNMTPITVP  249 (314)
Q Consensus       172 ~~~V~G~SM~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg--~vyINGk~i~e~yi~~~p~~~~~~~~VP  249 (314)
                      .+.|.|+||+|++..||+|++++...           ....||.+.+..+  .++|.-                 -...+
T Consensus         2 ~~~v~g~SM~P~i~~gd~v~i~~~~~-----------~~~~G~iv~~~~~~~~~~ikr-----------------l~~~~   53 (84)
T cd06462           2 ALRVEGDSMEPTIPDGDLVLVDKSSY-----------EPKRGDIVVFRLPGGELTVKR-----------------VIGLP   53 (84)
T ss_pred             eeEEcCCCccCcccCCCEEEEEecCC-----------CCcCCEEEEEEcCCCcEEEEE-----------------EEEEC
Confidence            46899999999999999999988433           1224444444321  222210                 01222


Q ss_pred             -CCeEEEecCCCCCCCCCCCcCcccCCCeeEEE
Q 021285          250 -ENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS  281 (314)
Q Consensus       250 -~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV  281 (314)
                       ++++++.+|| .+..|.+..+. ....|+|++
T Consensus        54 ~~~~~~l~~~N-~~~~~~~~~~~-~~~~i~g~v   84 (84)
T cd06462          54 GEGHYFLLGDN-PNSPDSRIDGP-PELDIVGVV   84 (84)
T ss_pred             CCCEEEEECCC-CCCCcccccCC-CHHHEEEeC
Confidence             3789999999 35666655443 556677763

The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr

>COG2932 Predicted transcriptional regulator [Transcription]

Probab=97.59  E-value=9.8e-05  Score=67.06  Aligned_cols=25  Identities=24%  Similarity=0.373  Sum_probs=22.8

Q ss_pred             eeEEEcCCCCCcCCCCCCEEEEEee
Q 021285          171 EPRYIPSLSMYPTFDVGDRIVAEKE  195 (314)
Q Consensus       171 ~~~~V~G~SM~PTL~~GD~Vlv~k~  195 (314)
                      ..+.|.|+||+|++++||+|+|+..
T Consensus       124 ~~i~V~GDSMeP~~~~Gd~ilVd~~  148 (214)
T COG2932         124 FALRVTGDSMEPTYEDGDTLLVDPG  148 (214)
T ss_pred             EEEEEeCCcccccccCCCEEEECCC
Confidence            5689999999999999999999883

>cd06529 S24_LexA-like Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell

Probab=97.35  E-value=0.00055  Score=51.86  Aligned_cols=24  Identities=25%  Similarity=0.319  Sum_probs=21.7

Q ss_pred             eEEEcCCCCCcCCCCCCEEEEEee
Q 021285          172 PRYIPSLSMYPTFDVGDRIVAEKE  195 (314)
Q Consensus       172 ~~~V~G~SM~PTL~~GD~Vlv~k~  195 (314)
                      .++|.|+||+|+++.||+|++++.
T Consensus         2 ~~~v~g~sM~p~i~~gd~lii~~~   25 (81)
T cd06529           2 ALRVKGDSMEPTIPDGDLVLVDPS   25 (81)
T ss_pred             EEEEECCCcCCccCCCCEEEEcCC
Confidence            468999999999999999999873

This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=97.09  E-value=0.0072  Score=51.61  Aligned_cols=36  Identities=17%  Similarity=0.198  Sum_probs=26.7

Q ss_pred             eeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEE
Q 021285          170 AEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFI  205 (314)
Q Consensus       170 ~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lV  205 (314)
                      ....+|.|+||. |++.+||+|++++.....+|+.++
T Consensus        51 ~f~l~V~GdSM~~~~I~~GD~liVd~~~~~~~Gdivv   87 (139)
T PRK10276         51 TYFVKASGDSMIDAGISDGDLLIVDSAITASHGDIVI   87 (139)
T ss_pred             EEEEEEecCCCCCCCCCCCCEEEEECCCCCCCCCEEE
Confidence            445899999998 689999999999743334444444

>TIGR00498 lexA SOS regulatory protein LexA

Probab=96.97  E-value=0.013  Score=52.45  Aligned_cols=87  Identities=15%  Similarity=0.100  Sum_probs=52.9

Q ss_pred             eeeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceE
Q 021285          169 VAEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPIT  247 (314)
Q Consensus       169 v~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~  247 (314)
                      -...++|.|+||. |.+.+||+|+++......+|+.++-++    ++.+.++                         .+.
T Consensus       110 ~~f~~~V~GdSM~~~~i~~Gd~v~v~~~~~~~~G~ivvv~~----~~~~~vK-------------------------rl~  160 (199)
T TIGR00498       110 AVFLLKVMGDSMVDAGICDGDLLIVRSQKDARNGEIVAAMI----DGEVTVK-------------------------RFY  160 (199)
T ss_pred             CEEEEEecCCCCCCCCCCCCCEEEEecCCCCCCCCEEEEEE----CCEEEEE-------------------------EEE
Confidence            3457899999996 689999999998754444455544443    2222222                         112


Q ss_pred             ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcC
Q 021285          248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWP  287 (314)
Q Consensus       248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP  287 (314)
                      ...+.+++..+|.+.  .-..... ..-.|+|+|+..+..
T Consensus       161 ~~~~~i~L~s~N~~y--~~i~~~~-~~~~IiG~Vv~~~r~  197 (199)
T TIGR00498       161 KDGTKVELKPENPEF--DPIVLNA-EDVTILGKVVGVIRN  197 (199)
T ss_pred             EECCEEEEEcCCCCC--cCCcCCC-CcEEEEEEEEEEEEe
Confidence            234678888888642  1111110 135899999987654

LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.

>PRK00215 LexA repressor; Validated

Probab=96.92  E-value=0.01  Score=53.38  Aligned_cols=85  Identities=14%  Similarity=0.136  Sum_probs=49.3

Q ss_pred             eeeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceE
Q 021285          169 VAEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPIT  247 (314)
Q Consensus       169 v~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~  247 (314)
                      -....+|.|+||. |++.+||+|+|++.....+|+.++-++   .| .+.++                         .+.
T Consensus       117 ~~~~~~V~GdSM~~~~i~~Gd~v~v~~~~~~~~G~ivv~~~---~~-~~~vK-------------------------rl~  167 (205)
T PRK00215        117 EDFLLRVRGDSMIDAGILDGDLVIVRKQQTARNGQIVVALI---DD-EATVK-------------------------RFR  167 (205)
T ss_pred             CeEEEEEccCCCCCCCcCCCCEEEEeCCCCCCCCCEEEEEE---CC-EEEEE-------------------------EEE
Confidence            3456889999995 799999999998733323343333222   11 22222                         112


Q ss_pred             ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                      ...|.+++..||.+  ++......= .-.|+|+|+..+
T Consensus       168 ~~~~~~~L~s~Np~--y~~~~~~~~-~~~IiG~Vv~~~  202 (205)
T PRK00215        168 REGGHIRLEPENPA--YEPIIVDPD-RVTIEGKVVGLI  202 (205)
T ss_pred             EeCCEEEEEcCCCC--CCCEEeCCC-cEEEEEEEEEEE
Confidence            22466888888864  222221110 358999998765

>PRK12423 LexA repressor; Provisional

Probab=96.90  E-value=0.012  Score=53.42  Aligned_cols=83  Identities=16%  Similarity=0.136  Sum_probs=49.9

Q ss_pred             eEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceEecC
Q 021285          172 PRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPE  250 (314)
Q Consensus       172 ~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~VP~  250 (314)
                      ...|.|+||. |+|.+||+|+|++.....+|++++-++    ++.+.++.                         +..-.
T Consensus       116 ~l~V~GdSM~~~~i~~Gd~viv~~~~~~~~Gdivv~~~----~~~~~vKr-------------------------l~~~~  166 (202)
T PRK12423        116 LLQVQGDSMIDDGILDGDLVGVHRSPEARDGQIVVARL----DGEVTIKR-------------------------LERSG  166 (202)
T ss_pred             EEEEecCcCCCCCcCCCCEEEEeCCCcCCCCCEEEEEE----CCEEEEEE-------------------------EEEeC
Confidence            5799999997 799999999999754444455444332    22233321                         11123


Q ss_pred             CeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          251 NSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       251 g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                      +.+++..+|.+  ++...+-.-..=.|+|+|+..+
T Consensus       167 ~~~~L~s~N~~--y~~i~~~~~~~~~I~Gvv~g~~  199 (202)
T PRK12423        167 DRIRLLPRNPA--YAPIVVAPDQDFAIEGVFCGLI  199 (202)
T ss_pred             CEEEEEcCCCC--CCCEEcCCCCcEEEEEEEEEEE
Confidence            56888888853  2222221112347999998764

>COG1974 LexA SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]

Probab=95.76  E-value=0.11  Score=47.82  Aligned_cols=89  Identities=16%  Similarity=0.151  Sum_probs=58.9

Q ss_pred             eeeeEEEcCCCCC-cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceE
Q 021285          169 VAEPRYIPSLSMY-PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPIT  247 (314)
Q Consensus       169 v~~~~~V~G~SM~-PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~  247 (314)
                      -....+|.|+||. +.+.+||+|+|++.....+|++.|-++-+   +..+++  +++                       
T Consensus       111 ~~f~L~V~GdSM~~~gi~dGDlvvV~~~~~a~~GdiVvA~i~g---~e~TvK--rl~-----------------------  162 (201)
T COG1974         111 ATFFLRVSGDSMIDAGILDGDLVVVDPTEDAENGDIVVALIDG---EEATVK--RLY-----------------------  162 (201)
T ss_pred             ceEEEEecCCccccCcCCCCCEEEEcCCCCCCCCCEEEEEcCC---CcEEEE--EEE-----------------------
Confidence            3446889999997 68889999999997666777777666643   445544  122                       


Q ss_pred             ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCC
Q 021285          248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPP  288 (314)
Q Consensus       248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~  288 (314)
                      ...+.++++--|.  .+....+..- .-.|+|+|+.++|+.
T Consensus       163 ~~g~~i~L~p~Np--~~~~i~~~~~-~~~I~G~vvgv~r~~  200 (201)
T COG1974         163 RDGNQILLKPENP--AYPPIPVDAD-SVTILGKVVGVIRDI  200 (201)
T ss_pred             EeCCEEEEEeCCC--CCCCcccCcc-ceEEEEEEEEEEecC
Confidence            2234566666664  2233333222 467999999999874

>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.17  E-value=0.34  Score=43.18  Aligned_cols=90  Identities=29%  Similarity=0.332  Sum_probs=50.5

Q ss_pred             eEEEcCCCCCcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEcccc--ccccCCCCCCcceEec
Q 021285          172 PRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNED--YILEAPSYNMTPITVP  249 (314)
Q Consensus       172 ~~~V~G~SM~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~--yi~~~p~~~~~~~~VP  249 (314)
                      +..|-+.||+|.++.||+++......-     .+     .-||.|.++     +.|++++--  -+..   +     .=-
T Consensus        50 iVVVLSgSMePaF~RGDlLfL~N~~~~-----p~-----~vGdivVf~-----vegR~IPiVHRviK~---h-----e~~  106 (180)
T KOG3342|consen   50 IVVVLSGSMEPAFHRGDLLFLTNRNED-----PI-----RVGDIVVFK-----VEGREIPIVHRVIKQ---H-----EKS  106 (180)
T ss_pred             EEEEEcCCcCcccccccEEEEecCCCC-----cc-----eeccEEEEE-----ECCccCchhHHHHHH---h-----ccc
Confidence            567788999999999999988641110     00     046666543     333333210  0000   0     001


Q ss_pred             CC--eEEEecCCCCCCCCCCC-c----CcccCCCeeEEEEEEEcC
Q 021285          250 EN--SVFVMGDNRNNSYDSHV-W----GPLPAKNIIGRSVFRYWP  287 (314)
Q Consensus       250 ~g--~yfVLGDNr~nS~DSRy-f----G~Vp~~~IiGKV~~i~wP  287 (314)
                      +|  +++.-|||  |--|-|- |    -...+++|+|+|.= |.|
T Consensus       107 ~~~~~~LTKGDN--N~~dD~~Ly~~gq~~L~r~~Ivg~~~G-~~P  148 (180)
T KOG3342|consen  107 NGHIKFLTKGDN--NAVDDRGLYAQGQNWLERKDIVGRVRG-YLP  148 (180)
T ss_pred             CCcEEEEecCCC--CcccchhcccccccceeccceeeEEee-ccc
Confidence            22  36777888  5555552 2    24678999999864 444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	314
1kn9_A	249	Crystal Structure Of A Bacterial Signal Peptidase A		1e-05
1t7d_A	250	Crystal Structure Of Escherichia Coli Type I Signal		1e-05
1b12_A	248	Crystal Structure Of Type 1 Signal Peptidase From E		1e-05

>pdb|1KN9|A Chain A, Crystal Structure Of A Bacterial Signal Peptidase Apo- Enzyme, Implications For Signal Peptide Binding And The Ser-Lys Dyad Mechanism. Length = 249

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 237 EAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS 281
           + P   +    VP    F+MGDNR+NS DS  WG +P  N++GR+
Sbjct: 178 QQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRA 222

>pdb|1T7D|A Chain A, Crystal Structure Of Escherichia Coli Type I Signal Peptidase In Complex With A Lipopeptide Inhibitor Length = 250

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 237 EAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS 281
           + P   +    VP    F+MGDNR+NS DS  WG +P  N++GR+
Sbjct: 179 QQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRA 223

>pdb|1B12|A Chain A, Crystal Structure Of Type 1 Signal Peptidase From Escherichia Coli In Complex With A Beta-Lactam Inhibitor Length = 248

Iteration: 1
 Score = 47.0 bits (110), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 237 EAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRS 281
           + P   +    VP    F+MGDNR+NS DS  WG +P  N++GR+
Sbjct: 177 QQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRA 221

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	314
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	99.97
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	98.41
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	98.04
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	97.89
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	97.87
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	97.73
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	97.12
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	80.53

>1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase, signal peptid processing, protein translocation; HET: 1PN; 1.95A {Escherichia coli} SCOP: b.87.1.2 PDB: 3s04_A* 1t7d_A* 3iiq_A* 1kn9_A*

Probab=99.97  E-value=1.6e-31  Score=245.83  Aligned_cols=127  Identities=35%  Similarity=0.518  Sum_probs=102.1

Q ss_pred             HHHheeeeEEEcCCCCCcCCCCCCEEEEEeec----------------cc----------C--CCceEEEEEEecCCCEE
Q 021285          165 FRSFVAEPRYIPSLSMYPTFDVGDRIVAEKEV----------------GY----------T--DDDVFIKRVVAKEGDVV  216 (314)
Q Consensus       165 l~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~~----------------~~----------~--~g~~lVKRVvGlPGDtV  216 (314)
                      ++.|+++.+.|+|+||+|||+.||+|+|++..                ..          +  .+..+||||+|+|||+|
T Consensus         1 ir~fv~~~~~v~g~SM~Ptl~~GD~vlv~k~~yg~r~P~~~~~l~~~~~~~rGDIvvf~~p~~~~~~~iKRViglpGD~v   80 (248)
T 1b12_A            1 VRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKV   80 (248)
T ss_dssp             -CBCCEEEEECCSCTTTTTSCTTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCEE
T ss_pred             CeEEEEEEEEeccccccccccCCCEEEEEecccCcccccccccccccCCCCCCcEEEEEeCCCCCceEEEEEEeeCCCEE
Confidence            35789999999999999999999999998721                11          1  24579999999999999


Q ss_pred             EEeCC--EEEECC-----------EEccccccc-----------------------------------------------
Q 021285          217 EVREG--KLIVNG-----------VVRNEDYIL-----------------------------------------------  236 (314)
Q Consensus       217 ~I~dg--~vyING-----------k~i~e~yi~-----------------------------------------------  236 (314)
                      +++++  .+||||           +.+.+.+..                                               
T Consensus        81 ~i~~~~~~l~ING~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~~~~~~~~~~~~~e~l~~~~~  160 (248)
T 1b12_A           81 TYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTH  160 (248)
T ss_dssp             EEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEEE
T ss_pred             EEEcCceEEEECCccccccccccceeeeeeccccccccccccccccccccccccccccccccccchhhhhHHhhhcCccc
Confidence            99999  999999           555432110                                               


Q ss_pred             ---cCCC-------C------CCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCc
Q 021285          237 ---EAPS-------Y------NMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRI  291 (314)
Q Consensus       237 ---~~p~-------~------~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~ri  291 (314)
                         ..+.       +      ....++||+||||||||||++|.||||||+||+++|+|||+++|||+++.
T Consensus       161 ~~~~~p~~~~~~~~~~~~~~~~~~~~~VP~g~yFvmGDNR~nS~DSR~~G~Vp~~~IvGka~~i~~s~~~~  231 (248)
T 1b12_A          161 RILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFDKQ  231 (248)
T ss_dssp             EEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC--
T ss_pred             eeEecCCccccccchhcccccccccEEeCCCcEEEecCCCcccCCCCcccccCHHHeEEEEEEEEEeCCcc
Confidence               0011       1      22367999999999999999999999999999999999999999988765

>1kca_A Repressor protein CI; gene regulation, DNA-binding, lambda repressor, protein oligomerization, DNA-looping; 2.91A {Enterobacteria phage lambda} SCOP: b.87.1.1

Probab=98.41  E-value=1.6e-06  Score=69.84  Aligned_cols=88  Identities=22%  Similarity=0.338  Sum_probs=56.4

Q ss_pred             eeEEEcCCCCC------cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEe-CC-EEEECCEEccccccccCCCCC
Q 021285          171 EPRYIPSLSMY------PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVR-EG-KLIVNGVVRNEDYILEAPSYN  242 (314)
Q Consensus       171 ~~~~V~G~SM~------PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~-dg-~vyINGk~i~e~yi~~~p~~~  242 (314)
                      ..++|.|+||+      |+|.+||+|++++.....            .||.|.+. ++ .++|.                
T Consensus        14 f~~~V~GdSM~~~~g~~p~i~~Gd~v~Vd~~~~~~------------~Gdivv~~~~~~~~~vK----------------   65 (109)
T 1kca_A           14 FWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVE------------PGDFCIARLGGDEFTFK----------------   65 (109)
T ss_dssp             EEEECCSSTTCCCTTCSSCCCTTCEEEEETTSCCC------------TTCEEEEECSTTCEEEE----------------
T ss_pred             EEEEEeCcCcCCCCCCCCeeCCCCEEEEecCCcCC------------CCCEEEEEECCCeEEEE----------------
Confidence            46889999999      999999999998843222            34433332 11 22221                


Q ss_pred             CcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCcc
Q 021285          243 MTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIG  292 (314)
Q Consensus       243 ~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~rig  292 (314)
                        .+....|.+++.+||..  +.....-  ..-.|+|+|++.+||+..||
T Consensus        66 --rl~~~~~~~~L~s~N~~--y~~~~~~--~~~~IiG~Vv~~~~~~~~~~  109 (109)
T 1kca_A           66 --KLIRDSGQVFLQPLNPQ--YPMIPCN--ESCSVVGKVIASQWPEETFG  109 (109)
T ss_dssp             --EEEEETTEEEEECSSTT--SCCEECC--TTCEEEEEEEEEECCGGGGC
T ss_pred             --EEEEeCCEEEEEECCCC--CCCEEcC--CCcEEEEEEEEEEeCHHHcC
Confidence              11223567888899863  1111111  35689999999999987765

>1umu_A UMUD'; induced mutagenesis, SOS mutagenesis, DNA repair, beta- lactamase cleavage reaction, LEXA repressor, lambda CI; 2.50A {Escherichia coli} SCOP: b.87.1.1 PDB: 1i4v_A 1ay9_A

Probab=98.04  E-value=2.6e-05  Score=62.87  Aligned_cols=87  Identities=15%  Similarity=0.205  Sum_probs=49.6

Q ss_pred             eeeEEEcCCCCCc-CCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEe-CCEEEECCEEccccccccCCCCCCcceE
Q 021285          170 AEPRYIPSLSMYP-TFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVR-EGKLIVNGVVRNEDYILEAPSYNMTPIT  247 (314)
Q Consensus       170 ~~~~~V~G~SM~P-TL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~-dg~vyINGk~i~e~yi~~~p~~~~~~~~  247 (314)
                      ...+.|.|+||+| +|++||+|++++.....            .||.+.+. ++.++|.  .                +.
T Consensus        27 ~~~~~v~GdSM~p~~i~~Gd~v~vd~~~~~~------------~gdivv~~~~~~~~vK--r----------------~~   76 (116)
T 1umu_A           27 TYFVKASGDSMIDGGISDGDLLIVDSAITAS------------HGDIVIAAVDGEFTVK--K----------------LQ   76 (116)
T ss_dssp             EEEEECCSSTTGGGTCCTTCEEEEETTSCCC------------TTCEEEEEETTEEEEE--E----------------EE
T ss_pred             EEEEEECCCCcCCCCCCCCCEEEEEcCCCCC------------CCCEEEEEECCEEEEE--E----------------EE
Confidence            4568899999999 89999999998743333            34433322 2222221  0                01


Q ss_pred             ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCC
Q 021285          248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQ  289 (314)
Q Consensus       248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~  289 (314)
                      .-. .+++.+||..  +....+..-..-.|+|+|++.+..+.
T Consensus        77 ~~~-~~~L~s~N~~--y~~~~i~~~~~~~IiG~Vv~~~r~~r  115 (116)
T 1umu_A           77 LRP-TVQLIPMNSA--YSPITISSEDTLDVFGVVIHVVKAAT  115 (116)
T ss_dssp             CSS-SCEEECSSTT--SCCEECCTTSCEEEEEEEEEEEC---
T ss_pred             eCC-cEEEECCCCC--CCCEEcCCCCeEEEEEEEEEEEEecC
Confidence            112 5788888863  22221111123469999999877654

>1jhf_A LEXA repressor; LEXA SOS repressor, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.2 b.87.1.1 PDB: 1jhh_A 3jso_A* 3jsp_A* 3k3r_E* 1jhc_A 1jhe_A 1lea_A 1leb_A

Probab=97.89  E-value=8.4e-05  Score=64.77  Aligned_cols=89  Identities=17%  Similarity=0.175  Sum_probs=52.4

Q ss_pred             eeeEEEcCCCCCcC-CCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceEe
Q 021285          170 AEPRYIPSLSMYPT-FDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITV  248 (314)
Q Consensus       170 ~~~~~V~G~SM~PT-L~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~V  248 (314)
                      ...+.|.|+||+|+ |.+||+|++++.....+|++++-++           ++.++|.                  .+..
T Consensus       110 ~~~~~v~GdSM~p~~i~~Gd~v~vd~~~~~~~G~i~v~~~-----------~~~~~vK------------------rl~~  160 (202)
T 1jhf_A          110 DFLLRVSGMSMKDIGIMDGDLLAVHKTQDVRNGQVVVARI-----------DDEVTVK------------------RLKK  160 (202)
T ss_dssp             CEEEECCSSTTGGGTCCTTCEEEEEECSCCCTTSEEEEEE-----------TTEEEEE------------------EEEE
T ss_pred             EEEEEECCCCCCCCCCCCCCEEEEeccCCcCCCeEEEEEE-----------CCEEEEE------------------EEEE
Confidence            34688999999999 9999999998843333333333222           2222221                  1233


Q ss_pred             cCCeEEEecCCCCCCCCCCCcC-cccCCCeeEEEEEEEcCCC
Q 021285          249 PENSVFVMGDNRNNSYDSHVWG-PLPAKNIIGRSVFRYWPPQ  289 (314)
Q Consensus       249 P~g~yfVLGDNr~nS~DSRyfG-~Vp~~~IiGKV~~i~wP~~  289 (314)
                      +.|.+++.+||..  +....+. .-..-.|+|+|++.+..++
T Consensus       161 ~~~~~~l~s~N~~--y~~~~~~~~~~~~~IiG~Vv~~~r~~~  200 (202)
T 1jhf_A          161 QGNKVELLPENSE--FKPIVVDLRQQSFTIEGLAVGVIRNGD  200 (202)
T ss_dssp             ETTEEEEECSSTT--CCCEEEETTTSCEEEEEEEEEEEEC--
T ss_pred             eCCEEEEEECCCC--CCCEEccCCCCceEEEEEEEEEEEccc
Confidence            5677888888852  2221111 0012359999998876544

>3bdn_A Lambda repressor; repressor, allostery; HET: DNA; 3.91A {Enterobacteria phage lambda}

Probab=97.87  E-value=2.3e-05  Score=69.38  Aligned_cols=89  Identities=21%  Similarity=0.318  Sum_probs=55.7

Q ss_pred             eeeEEEcCCCCC------cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEe-C-CEEEECCEEccccccccCCCC
Q 021285          170 AEPRYIPSLSMY------PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVR-E-GKLIVNGVVRNEDYILEAPSY  241 (314)
Q Consensus       170 ~~~~~V~G~SM~------PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~-d-g~vyINGk~i~e~yi~~~p~~  241 (314)
                      ...+.|.|+||+      |+|.+||+|+|++....            ..||.|.+. + +.++|                
T Consensus       140 ~~~l~V~GdSM~~~~g~~P~i~~Gd~v~vd~~~~~------------~~g~ivv~~~~~~~~~v----------------  191 (236)
T 3bdn_A          140 AFWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAV------------EPGDFCIARLGGDEFTF----------------  191 (236)
T ss_dssp             CEEEECCSSSSCCCSSCSSCCCSSCEEEECCSSCC------------CTTSEEEEESTTTCCCC----------------
T ss_pred             EEEEEEeCCCcCCCCCCCCcCCCCCEEEECCCCCC------------CCCcEEEEEECCCeEEE----------------
Confidence            346889999999      99999999999873322            245544443 1 11111                


Q ss_pred             CCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCcc
Q 021285          242 NMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIG  292 (314)
Q Consensus       242 ~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~rig  292 (314)
                        ..+....|.+++..||..  +....+-  ..-.|+|+|++.+||.+.|+
T Consensus       192 --Krl~~~~~~~~L~s~N~~--y~~~~~~--~~~~IiG~Vv~~~~~~~~~~  236 (236)
T 3bdn_A          192 --KKLIRGSGQVFLQPLNPQ--YPMIPCN--ESCSVVGKVIASQWPEETFG  236 (236)
T ss_dssp             --EEEECCSSSCEEECSSTT--SCCBC----CCCEEEEEEEECCCCSSSCC
T ss_pred             --EEEEEcCCcEEEEeCCCC--CCCeecC--CCcEEEEEEEEEEcCHHhcC
Confidence              112223566778888863  2221111  34579999999999987764

>2hnf_A Repressor protein CI101-229DM-K192A; viral protein; 1.80A {Escherichia coli} PDB: 2ho0_A 1f39_A

Probab=97.73  E-value=0.00021  Score=58.95  Aligned_cols=83  Identities=20%  Similarity=0.239  Sum_probs=49.5

Q ss_pred             eeeEEEcCCCCC------cCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCC
Q 021285          170 AEPRYIPSLSMY------PTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNM  243 (314)
Q Consensus       170 ~~~~~V~G~SM~------PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~  243 (314)
                      ...++|.|+||+      |+|.+||+|++++.....+++.++-++   .|+       .++|.                 
T Consensus        44 ~f~~~V~GdSM~~~~g~~p~i~~Gd~v~vd~~~~~~~Gdivv~~~---~~~-------~~~vK-----------------   96 (133)
T 2hnf_A           44 AFWLEVEGNSMTTPTGSKTSFPDGMLILVDPEQAVEPGDFCIARL---GGD-------EFTFA-----------------   96 (133)
T ss_dssp             CEEEECCSSTTCCC---CCCCCTTCEEEEETTSCCCTTSEEEEEE---TTT-------EEEEE-----------------
T ss_pred             EEEEEEeCCCcCCCcCCCCccCCCCEEEEccCCCCCCCCEEEEEE---CCC-------EEEEE-----------------
Confidence            346889999999      999999999999843333333333222   111       22221                 


Q ss_pred             cceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEE
Q 021285          244 TPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFR  284 (314)
Q Consensus       244 ~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i  284 (314)
                       .+....|.+++.+||..  +.....-  ..-.|+|+|++.
T Consensus        97 -rl~~~~~~~~L~s~N~~--y~~~~~~--~~~~IiG~Vv~~  132 (133)
T 2hnf_A           97 -KLIRDSGQVFLQPLNPQ--YPMIPCN--ESCSVVGKVIAS  132 (133)
T ss_dssp             -EEEEETTEEEEECSSTT--SCCEECS--TTEEEEEEEEEE
T ss_pred             -EEEEeCCeEEEEECCCC--CCCEEcC--CCCEEEEEEEEE
Confidence             11223567888899863  2122111  345799999874

>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima}

Probab=97.12  E-value=0.0036  Score=54.48  Aligned_cols=83  Identities=18%  Similarity=0.201  Sum_probs=50.6

Q ss_pred             eeeEEEcCCCC-CcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEe-CCEEEECCEEccccccccCCCCCCcceE
Q 021285          170 AEPRYIPSLSM-YPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVR-EGKLIVNGVVRNEDYILEAPSYNMTPIT  247 (314)
Q Consensus       170 ~~~~~V~G~SM-~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~-dg~vyINGk~i~e~yi~~~p~~~~~~~~  247 (314)
                      ....+|.|+|| +|++.+||+|+|++....            ..||.|.+. ++.++|.                  .+.
T Consensus       109 ~f~l~v~GdSM~~p~i~~GD~viv~~~~~~------------~~G~ivv~~~~~~~~vK------------------r~~  158 (196)
T 3k2z_A          109 HFLLKVKGESMIEEHICDGDLVLVRRQDWA------------QNGDIVAAMVDGEVTLA------------------KFY  158 (196)
T ss_dssp             EEEEECCSSTTGGGTCCTTCEEEEEECSCC------------CTTCEEEEEETTEEEEE------------------EEE
T ss_pred             EEEEEEeCCCcCCCCCCCCCEEEEeccCcC------------CCCCEEEEEECCcEEEE------------------EEE
Confidence            45689999999 699999999999984322            244444332 2222221                  122


Q ss_pred             ecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          248 VPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       248 VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                      ...|.+++..||...  .....- -..-.|+|+|++.+
T Consensus       159 ~~~~~~~L~~~N~~y--~~i~i~-~~~~~i~G~Vv~~~  193 (196)
T 3k2z_A          159 QRGDTVELRPANREM--SSMFFR-AEKVKILGKVVGVF  193 (196)
T ss_dssp             EETTEEEEECSCTTS--CCEEEE-GGGCEEEEEEEEEE
T ss_pred             EECCEEEEEECCCCC--CCEEec-CCCEEEEEEEEEEE
Confidence            335678888888632  111110 12357999998875

>2fjr_A Repressor protein CI; genetic switch, regulation, cooperativity, transcription regulator; 1.95A {Enterobacteria phage 186} PDB: 2fkd_A

Probab=80.53  E-value=3.8  Score=34.22  Aligned_cols=31  Identities=26%  Similarity=0.397  Sum_probs=18.5

Q ss_pred             cCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEE
Q 021285          249 PENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY  285 (314)
Q Consensus       249 P~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~  285 (314)
                      +.|.+.+..||.+     ...- ...=.|+|||++.+
T Consensus       155 ~~~~i~L~s~N~~-----~~i~-~~~i~IiG~Vv~~~  185 (189)
T 2fjr_A          155 PGRKLHVAGGKVP-----FECG-IDDIKTLGRVVGVY  185 (189)
T ss_dssp             TTTEEEEESSSSC-----EEEE-TTSSEEEEEEEEEE
T ss_pred             CCCEEEEEeCCCC-----eEec-ccceEEEEEEEEEE
Confidence            4456778888851     1110 12346999999764

---

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	314
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	3e-15
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	7e-09

>d1b12a_ b.87.1.2 (A:) Type 1 signal peptidase {Escherichia coli [TaxId: 562]} Length = 247

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: Type 1 signal peptidase
domain: Type 1 signal peptidase
species: Escherichia coli [TaxId: 562]

 Score = 71.9 bits (175), Expect = 3e-15
 Identities = 29/133 (21%), Positives = 48/133 (36%), Gaps = 3/133 (2%)

Query: 166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIV 225
            S V    ++ + S     +         +    ++ + +       GDV       L V
Sbjct: 108 YSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTHR---ILTV 164

Query: 226 NGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRY 285
                      + P   +    VP    F+MGDNR+NS DS  WG +P  N++GR+   +
Sbjct: 165 PIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIW 224

Query: 286 WPPQRIGSTVPEG 298
               +     P G
Sbjct: 225 MSFDKQEGEWPTG 237

>d1b12a_ b.87.1.2 (A:) Type 1 signal peptidase {Escherichia coli [TaxId: 562]} Length = 247

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: Type 1 signal peptidase
domain: Type 1 signal peptidase
species: Escherichia coli [TaxId: 562]

 Score = 53.4 bits (127), Expect = 7e-09
 Identities = 30/155 (19%), Positives = 45/155 (29%), Gaps = 28/155 (18%)

Query: 166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEK----------------------------EVG 197
           RSF+ EP  IPS SM PT  +GD I+ EK                            +  
Sbjct: 1   RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 60

Query: 198 YTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMG 257
                 +IKR V   GD V        +              +  +T   V  +      
Sbjct: 61  EDPKLDYIKRAVGLPGDKVTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTF 120

Query: 258 DNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIG 292
             RN    +  +  +P        +      + +G
Sbjct: 121 SRRNGGEATSGFFEVPKNETKENGIRLSERKETLG 155

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	314
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	99.97
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	98.24
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	97.78
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	97.1

>d1b12a_ b.87.1.2 (A:) Type 1 signal peptidase {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: Type 1 signal peptidase
domain: Type 1 signal peptidase
species: Escherichia coli [TaxId: 562]

Probab=99.97  E-value=2.1e-31  Score=239.91  Aligned_cols=124  Identities=35%  Similarity=0.497  Sum_probs=94.8

Q ss_pred             HHheeeeEEEcCCCCCcCCCCCCEEEEEee--------------------c--------ccCCCceEEEEEEecCCCEEE
Q 021285          166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKE--------------------V--------GYTDDDVFIKRVVAKEGDVVE  217 (314)
Q Consensus       166 ~~fv~~~~~V~G~SM~PTL~~GD~Vlv~k~--------------------~--------~~~~g~~lVKRVvGlPGDtV~  217 (314)
                      +.|+++.+.|++.||+|||+.||+|+|+|.                    +        .......+||||+|+|||+|+
T Consensus         1 R~f~~~~f~IPs~SMePTL~~GD~l~V~K~~Yg~r~P~~~~~~~~~~~~~rgdivvf~~p~~~~~~~ikR~ig~pGD~i~   80 (247)
T d1b12a_           1 RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKVT   80 (247)
T ss_dssp             CBCCEEEEECCSCTTTTTSCTTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCEEE
T ss_pred             CEEEEEEEEeCcccccchhccCCEEEEEccccCccCCccCcccccccCcccCceeeecCCCCCCccccccccCCCCCeEE
Confidence            358999999999999999999999999981                    0        012345799999999999999


Q ss_pred             EeCCEEEECCEEcccc-------------------cc-------------------------------------------
Q 021285          218 VREGKLIVNGVVRNED-------------------YI-------------------------------------------  235 (314)
Q Consensus       218 I~dg~vyINGk~i~e~-------------------yi-------------------------------------------  235 (314)
                      +++...+++++...+.                   ++                                           
T Consensus        81 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (247)
T d1b12a_          81 YDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTHR  160 (247)
T ss_dssp             EETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEEEE
T ss_pred             EecccceEEecccccccceeecceeecccccCcccceeeeeeccCceeccceeeccccccccCceEeeeeeeccCCccee
Confidence            9854433332211000                   00                                           


Q ss_pred             -cc-------------CCCCCCcceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCC
Q 021285          236 -LE-------------APSYNMTPITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQ  289 (314)
Q Consensus       236 -~~-------------~p~~~~~~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~  289 (314)
                       ..             ........++||+||||||||||++|.|||+||+||+++|+|||+++|||++
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~Vp~~~yfvmGDNR~nS~DSR~wG~Vp~~~I~Gka~~i~~p~~  228 (247)
T d1b12a_         161 ILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFD  228 (247)
T ss_dssp             EEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC
T ss_pred             EEecccchhcccccccCCccccceEEEeCCeEEEecCCCCCCccccccCcCCHHHeEEEEEEEEEECC
Confidence             00             0112234689999999999999999999999999999999999999999965

>d1f39a_ b.87.1.1 (A:) lambda repressor C-terminal domain {Bacteriophage lambda [TaxId: 10710]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: LexA-related
domain: lambda repressor C-terminal domain
species: Bacteriophage lambda [TaxId: 10710]

Probab=98.24  E-value=3.8e-06  Score=65.07  Aligned_cols=90  Identities=21%  Similarity=0.291  Sum_probs=57.2

Q ss_pred             eeEEEcCCCC------CcCCCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCc
Q 021285          171 EPRYIPSLSM------YPTFDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMT  244 (314)
Q Consensus       171 ~~~~V~G~SM------~PTL~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~  244 (314)
                      ...+|.|+||      +|++.+||+|+|++.....++++++-+   ..|+.+.++                         
T Consensus         6 F~l~V~GdSM~~~~~~ep~i~~Gd~viVd~~~~~~~g~ivva~---~~~~~~~vK-------------------------   57 (101)
T d1f39a_           6 FWLEVEGNSMTAPTGSKPSFPDGMLILVDPEQAVEPGDFCIAR---LGGDEFTFK-------------------------   57 (101)
T ss_dssp             EEEECCSSTTCCCTTCSSCCCTTCEEEEETTSCCCTTCEEEEE---CTTSCEEEE-------------------------
T ss_pred             EEEEEeCCccCCCcccCCCcCCCCEEEEEecCccCCCCEEEEE---ECCCeEEEE-------------------------
Confidence            3578999999      899999999999985444433332211   222222222                         


Q ss_pred             ceEecCCeEEEecCCCCCCCCCCCcCcccCCCeeEEEEEEEcCCCCcc
Q 021285          245 PITVPENSVFVMGDNRNNSYDSHVWGPLPAKNIIGRSVFRYWPPQRIG  292 (314)
Q Consensus       245 ~~~VP~g~yfVLGDNr~nS~DSRyfG~Vp~~~IiGKV~~i~wP~~rig  292 (314)
                      .+....++++++.+|...  ......  ..-.|+|+|+..+||-+-+|
T Consensus        58 r~~~~~~~~~L~s~N~~y--~~i~~~--~~~~IiG~Vv~s~~p~~~~~  101 (101)
T d1f39a_          58 KLIRDSGQVFLQPLNPQY--PMIPCN--ESCSVVGKVIASQWPEETFG  101 (101)
T ss_dssp             EEEEETTEEEEECSSTTS--CCEECS--TTCEEEEEEEEEECCGGGGC
T ss_pred             EEEEcCCEEEEEECCCCC--CCCcCC--CCcEEEEEEEEEECcHHHCC
Confidence            223346778889998632  222221  24689999999999976654

>d1jhfa2 b.87.1.1 (A:73-198) LexA C-terminal domain {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: LexA-related
domain: LexA C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.78  E-value=0.00013  Score=58.07  Aligned_cols=84  Identities=19%  Similarity=0.169  Sum_probs=52.3

Q ss_pred             eeEEEcCCCCCcC-CCCCCEEEEEeecccCCCceEEEEEEecCCCEEEEeCCEEEECCEEccccccccCCCCCCcceEec
Q 021285          171 EPRYIPSLSMYPT-FDVGDRIVAEKEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVP  249 (314)
Q Consensus       171 ~~~~V~G~SM~PT-L~~GD~Vlv~k~~~~~~g~~lVKRVvGlPGDtV~I~dg~vyINGk~i~e~yi~~~p~~~~~~~~VP  249 (314)
                      ...+|.|+||+|+ +.+||+|++++.....+|++++-++   .| .+.++                         .+...
T Consensus        39 f~lrV~GdSM~~~~i~~gd~viv~~~~~~~~G~ivv~~~---~g-e~~vK-------------------------rl~~~   89 (126)
T d1jhfa2          39 FLLRVSGMSMKDIGIMDGDLLAVHKTQDVRNGQVVVARI---DD-EVTVK-------------------------RLKKQ   89 (126)
T ss_dssp             EEEECCSSTTGGGTCCTTCEEEEEECSCCCTTSEEEEEE---TT-EEEEE-------------------------EEEEE
T ss_pred             EEEEEcCCcccCcccCCCEEEEEeccccccCCCEEEEEE---CC-EEEEE-------------------------EEEEc
Confidence            4589999999997 9999999999865555555554444   12 23332                         12334


Q ss_pred             CCeEEEecCCCCCCCCCCCcC-cccCCCeeEEEEEEE
Q 021285          250 ENSVFVMGDNRNNSYDSHVWG-PLPAKNIIGRSVFRY  285 (314)
Q Consensus       250 ~g~yfVLGDNr~nS~DSRyfG-~Vp~~~IiGKV~~i~  285 (314)
                      .|.+++..+|....  ...+. .=..=.|+|+|+..+
T Consensus        90 ~~~~~L~s~N~~y~--pi~~~~~~~~~~IiG~Vv~vi  124 (126)
T d1jhfa2          90 GNKVELLPENSEFK--PIVVDLRQQSFTIEGLAVGVI  124 (126)
T ss_dssp             TTEEEEECSSTTCC--CEEEETTTSCEEEEEEEEEEE
T ss_pred             CCEEEEecCCcCCC--CeEccCCCCcEEEEEEEEEEE
Confidence            67788888886321  11110 001126999998765

>d1umua_ b.87.1.1 (A:) UmuD' {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: LexA-related
domain: UmuD'
species: Escherichia coli [TaxId: 562]

Probab=97.10  E-value=0.0011  Score=51.26  Aligned_cols=38  Identities=18%  Similarity=0.169  Sum_probs=29.1

Q ss_pred             eeEEEcCCCC-CcCCCCCCEEEEEeecccCCCceEEEEE
Q 021285          171 EPRYIPSLSM-YPTFDVGDRIVAEKEVGYTDDDVFIKRV  208 (314)
Q Consensus       171 ~~~~V~G~SM-~PTL~~GD~Vlv~k~~~~~~g~~lVKRV  208 (314)
                      ...+|.|+|| .+.+.+||++++++......|++++-++
T Consensus        21 f~~rV~GdSM~~~gI~~GDlliVd~~~~~~~g~ivva~i   59 (105)
T d1umua_          21 YFVKASGDSMIDGGISDGDLLIVDSAITASHGDIVIAAV   59 (105)
T ss_dssp             EEEECCSSTTGGGTCCTTCEEEEETTSCCCTTCEEEEEE
T ss_pred             EEEEEcCCccccCccCCCCEEEEEcccccccCcEEEEEE
Confidence            4689999999 5889999999999965555555555444