Citrus Sinensis ID: 021373

---

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
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGGGGGDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAKDW
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEcccccccccccccEEEEEEccccccccccccEEEEccccccccccccccccEEEEEccccccEEEEEccEEEEccEEccccccccccccccccEEcccccEEEEccccccccccccccccccccEEEEEEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccHccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEccccccccccccccEEEEEEEEEEEcccccccEEEEcccHHHHHcccccccHHEEEEEEccccEEEEEccEEEEccEEccccHcccccccccccEEcccccEEEEcccccccccccccccHHHEEEEEEEEEEcccccc
Coil and Loop (DISEMBL)
mmislnllptlpslqnpnftstqssnplknpnfaakpfskslknpyftilnlhpksnppqfsrtrwpfvsinpnfvnfqhqnprplnpknllYRLNCNKLKSSGEETKSvvntgsggggggdggggdgsddeeaegqsgalpgwlnitSDDAKTVLAALVISLAFRsfvaepryipslsmyptfdvgdRIVAEKVTYYfrkpcsndivifksppvlqevgytdddVFIKRVVakegdvvevregklivngvvrnedyileapsynmtpitvpensvfvmgdnrnnsydshgappcqeyHRKISISLLASAKDW
Flexible Loop (DISEMBL)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSvvntgsggggggDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSfvaepryipslsmyptfdvGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVvakegdvvevregklivngvvrnedyileapsynmtpitVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAKDW
Low Complexity Region (SEG)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTgsggggggdggggdgsddeeaegqsgALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAKDW
Disordered region (IsUnstruct)
*******************************************NPYFTILNLH*******FSRTRWPFVSINPNFVNFQHQ******PKNLLYRLNC*******************************************LPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMG*********************************
Disordered Region (DISOPRED)
*******LPTLPSLQNPNFT****S**************************************************************************************************************************TSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAKDW
Disordered Region (DISEMBL)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGG*******************SGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAKDW
Disordered Region (DISPRO)
**ISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNK****************************************ALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAK**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MMISLNLLPTLPSLQNPNFTSTQSSNPLKNPNFAAKPFSKSLKNPYFTILNLHPKSNPPQFSRTRWPFVSINPNFVNFQHQNPRPLNPKNLLYRLNCNKLKSSGEETKSVVNTGSGGGGGGDGGGGDGSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAKDW
Positional Conservation
no confident homologs detected

---

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	313	2.2.26 [Sep-21-2011]
Q8H0W1	291	Chloroplast processing pe	yes	no	0.690	0.742	0.665	6e-72
O04348	340	Thylakoidal processing pe	no	no	0.549	0.505	0.55	9e-50
Q9M9Z2	367	Probable thylakoidal proc	no	no	0.523	0.446	0.579	1e-48
P72660	196	Probable signal peptidase	N/A	no	0.399	0.637	0.552	9e-32
Q51876	203	Signal peptidase I OS=Pho	N/A	no	0.450	0.694	0.439	4e-30
P73157	218	Probable signal peptidase	N/A	no	0.450	0.646	0.428	1e-29
O33021	289	Probable signal peptidase	yes	no	0.434	0.470	0.337	5e-15
Q10789	294	Signal peptidase I OS=Myc	yes	no	0.456	0.486	0.327	9e-15
P71013	193	Signal peptidase I T OS=B	yes	no	0.418	0.678	0.322	2e-13
P28628	184	Signal peptidase I S OS=B	no	no	0.412	0.701	0.306	4e-13

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

 Score =  271 bits (692), Expect = 6e-72,   Method: Compositional matrix adjust.
 Identities = 151/227 (66%), Positives = 169/227 (74%), Gaps = 11/227 (4%)

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 FDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVRE 243
           FDVGDR+VAEKV+YYFRKPC+NDIVIFKSPPVLQEVGYTD DVFIKR+VAKEGD+VEV  
Sbjct: 147 FDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHN 206

Query: 244 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           GKL+VNGV RNE +ILE P Y MTPI VPENSVFVMGDNRNNSYDSH
Sbjct: 207 GKLMVNGVARNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSH 253

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 =  197 bits (501), Expect = 9e-50,   Method: Compositional matrix adjust.
 Identities = 99/180 (55%), Positives = 130/180 (72%), Gaps = 8/180 (4%)

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 LSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQ---EVGYTDDDVFIKRVVAK 234
            SMYPT D GDR++AEKV+Y+FRKP  +DIVIFK+PP+L    E GY+ +DVFIKR+VA 
Sbjct: 183 TSMYPTLDKGDRVMAEKVSYFFRKPEVSDIVIFKAPPILLEYPEYGYSSNDVFIKRIVAS 242

Query: 235 EGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPP 294
           EGD VEVR+GKL VN +V+ ED++LE  SY M P+ VP+  VFV+GDNRN S+DSH   P
Sbjct: 243 EGDWVEVRDGKLFVNDIVQEEDFVLEPMSYEMEPMFVPKGYVFVLGDNRNKSFDSHNWGP 302

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 =  194 bits (492), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 95/164 (57%), Positives = 121/164 (73%)

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

Query: 191 VAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNG 250
           +AEKV+Y+FRKP  +DIVIFK+PP+L E GY+  DVFIKR+VA EGD VEV +GKL+VN 
Sbjct: 226 IAEKVSYFFRKPEVSDIVIFKAPPILVEHGYSCADVFIKRIVASEGDWVEVCDGKLLVND 285

Query: 251 VVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPP 294
            V+ ED++LE   Y M P+ VPE  VFV+GDNRN S+DSH   P
Sbjct: 286 TVQAEDFVLEPIDYEMEPMFVPEGYVFVLGDNRNKSFDSHNWGP 329

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

 Score =  137 bits (345), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 69/125 (55%), Positives = 83/125 (66%)

Query: 166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDD 225
           R FVAEPRYIPS SM PT + GDR+V EKV+Y+F  P   DI++F  P +LQ  GY    
Sbjct: 31  RFFVAEPRYIPSDSMLPTLEQGDRLVVEKVSYHFHPPQVGDIIVFHPPELLQVQGYDLGQ 90

Query: 226 VFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNN 285
            FIKRV+A  G  VEV  G +  +G    E+YILE P YN+  + VP+  VFVMGDNRNN
Sbjct: 91  AFIKRVIALPGQTVEVNNGIVYRDGQPLQEEYILEPPQYNLPAVRVPDGQVFVMGDNRNN 150

Query: 286 SYDSH 290
           S DSH
Sbjct: 151 SNDSH 155

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

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 =  132 bits (332), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 62/141 (43%), Positives = 92/141 (65%)

Query: 150 DDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVI 209
           +  KT+  ++V++L  R+FVAE RYIPS SM PT +V DR++ EK++Y+F  P   DI++
Sbjct: 30  EGIKTIGLSVVLALGIRTFVAEARYIPSESMLPTLEVNDRLIVEKISYHFNPPRRGDIIV 89

Query: 210 FKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPI 269
           F     L++   + ++ FIKRV+   G+ V+V  G++++NG    E+YI   P Y   P 
Sbjct: 90  FHPTEALKQQNPSLNEAFIKRVIGLPGETVQVTGGRVLINGQPLEENYIQSPPDYQWGPE 149

Query: 270 TVPENSVFVMGDNRNNSYDSH 290
            VP +S  V+GDNRNNSYDSH
Sbjct: 150 KVPADSFLVLGDNRNNSYDSH 170

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 =  130 bits (327), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/147 (42%), Positives = 93/147 (63%), Gaps = 6/147 (4%)

Query: 144 WLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPC 203
           WL +     KT++ A+++++  R+FVAE RYIPS SM PT  + DR++ EK++Y  R P 
Sbjct: 21  WLEL----GKTMVTAVILAIGIRTFVAEARYIPSSSMEPTLQINDRLIIEKISYRLRDPE 76

Query: 204 SNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPS 263
             +IV+F     L+   +   D FIKR++   GD V V +G + VNG + +E+YI   P+
Sbjct: 77  RGEIVVFNPTDALKAKNF--HDAFIKRIIGLPGDEVRVSQGNVYVNGKMLDENYIAAPPA 134

Query: 264 YNMTPITVPENSVFVMGDNRNNSYDSH 290
           Y   P+ VP++   V+GDNRNNSYDSH
Sbjct: 135 YEYGPVKVPDDQYLVLGDNRNNSYDSH 161

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|O33021|LEP_MYCLE Probable signal peptidase I OS=Mycobacterium leprae (strain TN) GN=lepB PE=3 SV=1

 Score = 82.0 bits (201), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 60/178 (33%), Positives = 83/178 (46%), Gaps = 42/178 (23%)

Query: 155 VLAALVISLAF--RSFVAEPRYIPSLSMYPTFD-----VGDRIVAEKVTYYFRKPCSNDI 207
           +LA + I L +   +FVA P  IPS SM PT       VGDRI+ +K+TY F  P   D+
Sbjct: 58  ILAVIAIGLYYVMLTFVARPYLIPSESMEPTLHGCSGCVGDRIMVDKITYRFSSPQPGDV 117

Query: 208 VIFKSPP---------------------VLQEVGYT--DDDVFIKRVVAKEGDVVEVR-E 243
           ++FK PP                      L  VG+   D++  +KRV+A  G  V+ R +
Sbjct: 118 IVFKGPPSWNTMYKSIRSNNIVLRSVQNALSFVGFVPPDENDLVKRVIAVGGQTVQCRSD 177

Query: 244 GKLIVNGVVRNEDYILEAP-----------SYNMTPITVPENSVFVMGDNRNNSYDSH 290
             L VNG    E Y+                    P+TVP+  ++VMGDNR +S DS 
Sbjct: 178 TGLTVNGKPLKEPYLRPVTMNADLSFSPCLGSEFGPVTVPQGRLWVMGDNRIHSADSR 235

Mycobacterium leprae (taxid: 1769)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q10789|LEP_MYCTU Signal peptidase I OS=Mycobacterium tuberculosis GN=lepB PE=1 SV=1

 Score = 81.3 bits (199), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 60/183 (32%), Positives = 85/183 (46%), Gaps = 40/183 (21%)

Query: 152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFD-----VGDRIVAEKVTYYFRKPCSND 206
           A   + A+V+     +FVA P  IPS SM PT       VGDRI+ +K++Y F  P   D
Sbjct: 69  AVLAVIAVVLYYVMLTFVARPYLIPSESMEPTLHGCSTCVGDRIMVDKLSYRFGSPQPGD 128

Query: 207 IVIFKSPP---------------------VLQEVGYT--DDDVFIKRVVAKEGDVVEVR- 242
           +++F+ PP                      L  +G+   D++  +KRV+A  G  V+ R 
Sbjct: 129 VIVFRGPPSWNVGYKSIRSHNVAVRWVQNALSFIGFVPPDENDLVKRVIAVGGQTVQCRS 188

Query: 243 EGKLIVNGVVRNEDYI-----LEAPSY------NMTPITVPENSVFVMGDNRNNSYDSHG 291
           +  L VNG    E Y+     +  PS          P+TVP   V+VMGDNR +S DS  
Sbjct: 189 DTGLTVNGRPLKEPYLDPATMMADPSIYPCLGSEFGPVTVPPGRVWVMGDNRTHSADSRA 248

Query: 292 APP 294
             P
Sbjct: 249 HCP 251

Mycobacterium tuberculosis (taxid: 1773)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P71013|LEPT_BACSU Signal peptidase I T OS=Bacillus subtilis (strain 168) GN=sipT PE=1 SV=1

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 48/149 (32%), Positives = 74/149 (49%), Gaps = 18/149 (12%)

Query: 152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFK 211
            K ++ A++++L  R F+ EP  +   SMYPT   G+R+   K   Y  +    DIVI  
Sbjct: 24  GKAIVIAVLLALLIRHFLFEPYLVEGSSMYPTLHDGERLFVNKTVNYIGELKRGDIVIIN 83

Query: 212 SPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI----LEAPSYNMT 267
                   G T    ++KR++ K G+ V++++  L +NG    E Y+     EA    ++
Sbjct: 84  --------GETSKIHYVKRLIGKPGETVQMKDDTLYINGKKVAEPYLSKNKKEAEKLGVS 135

Query: 268 ------PITVPENSVFVMGDNRNNSYDSH 290
                 P+ VP+   FVMGDNR NS DS 
Sbjct: 136 LTGDFGPVKVPKGKYFVMGDNRLNSMDSR 164

Bacillus subtilis (strain 168) (taxid: 224308)

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 = 75.5 bits (184), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 73/150 (48%), Gaps = 21/150 (14%)

Query: 152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFK 211
           AK ++ A+V++L  R+F+  P  +   SMYPT    +R+       Y  +    DIV+  
Sbjct: 16  AKAIVIAVVLALLIRNFIFAPYVVDGDSMYPTLHNRERVFVNMTVKYIGEFDRGDIVVLN 75

Query: 212 SPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI-----------LE 260
                      DD  ++KR++   GD VE++  +L +NG   +E Y+            +
Sbjct: 76  G----------DDVHYVKRIIGLPGDTVEMKNDQLYINGKKVDEPYLAANKKRAKQDGFD 125

Query: 261 APSYNMTPITVPENSVFVMGDNRNNSYDSH 290
             + +  P+ VP+N  FVMGDNR NS DS 
Sbjct: 126 HLTDDFGPVKVPDNKYFVMGDNRRNSMDSR 155

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

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	313
225445220	334	PREDICTED: chloroplast processing peptid	0.805	0.754	0.657	4e-87
255546463	313	signal peptidase I, putative [Ricinus co	0.840	0.840	0.615	4e-81
449518835	331	PREDICTED: chloroplast processing peptid	0.869	0.821	0.615	1e-80
449467167	331	PREDICTED: chloroplast processing peptid	0.872	0.824	0.6	2e-80
356523807	293	PREDICTED: chloroplast processing peptid	0.760	0.812	0.563	2e-75
218190459	230	hypothetical protein OsI_06670 [Oryza sa	0.514	0.7	0.827	2e-72
356511359	291	PREDICTED: chloroplast processing peptid	0.693	0.745	0.677	6e-72
115445459	298	Os02g0267000 [Oryza sativa Japonica Grou	0.492	0.516	0.831	1e-70
9294054	310	unnamed protein product [Arabidopsis tha	0.690	0.696	0.665	3e-70
30687572	291	chloroplast processing peptidase [Arabid	0.690	0.742	0.665	4e-70

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

 Score =  327 bits (838), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 173/263 (65%), Positives = 200/263 (76%), Gaps = 11/263 (4%)

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 TSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDI 207
           TSDDAKTV AAL IS AFRSFVAEPR+IPSLSMYPTFDVGDRIVAEKV+YYFRKPC+NDI
Sbjct: 127 TSDDAKTVFAALAISFAFRSFVAEPRFIPSLSMYPTFDVGDRIVAEKVSYYFRKPCANDI 186

Query: 208 VIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMT 267
           VIFKSPPVLQEVGYTD+DVFIKR+VAKEGD VEVREGKLIVNGVVRNE++I E PSY+MT
Sbjct: 187 VIFKSPPVLQEVGYTDEDVFIKRIVAKEGDTVEVREGKLIVNGVVRNENFIFERPSYSMT 246

Query: 268 PITVPENSVFVMGDNRNNSYDSH 290
           PI VPEN+VFVMGDNRNNSYDSH
Sbjct: 247 PIRVPENAVFVMGDNRNNSYDSH 269

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 =  307 bits (786), Expect = 4e-81,   Method: Compositional matrix adjust.
 Identities = 179/291 (61%), Positives = 208/291 (71%), Gaps = 28/291 (9%)

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 MYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVV 239
           MYPTFDVGDR+VAEKV+YYFRKPC+ND+VIFKSPPVLQEVGYTD+DVFIKRVVAKEGD+V
Sbjct: 155 MYPTFDVGDRVVAEKVSYYFRKPCANDVVIFKSPPVLQEVGYTDNDVFIKRVVAKEGDIV 214

Query: 240 EVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           EVR GKL+VNGV RNE++ILE+PSY+MTPI VPENSVFVMGDNRNNSYDSH
Sbjct: 215 EVRAGKLLVNGVERNENFILESPSYDMTPIRVPENSVFVMGDNRNNSYDSH 265

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 =  306 bits (783), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 179/291 (61%), Positives = 211/291 (72%), Gaps = 19/291 (6%)

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 MYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVV 239
           MYPTFDVGDR+VAEKVTYYFRKPC+NDIVIFKSPPVLQEVGYTD+DVFIKR+VAKEGD V
Sbjct: 164 MYPTFDVGDRLVAEKVTYYFRKPCANDIVIFKSPPVLQEVGYTDEDVFIKRIVAKEGDTV 223

Query: 240 EVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           EVR+GKLIVNGV R+E +ILE PSY+MTP+ VPENSVFVMGDNRNNSYDSH
Sbjct: 224 EVRKGKLIVNGVERDEKFILEPPSYDMTPVQVPENSVFVMGDNRNNSYDSH 274

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 =  305 bits (781), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 174/290 (60%), Positives = 208/290 (71%), Gaps = 17/290 (5%)

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 YPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVE 240
           YPTFDVGDR+VAEKVTYYFRKPC+NDIVIFKSPPVLQEVGYTD+DVFIKR+VAKEGD VE
Sbjct: 165 YPTFDVGDRLVAEKVTYYFRKPCANDIVIFKSPPVLQEVGYTDEDVFIKRIVAKEGDTVE 224

Query: 241 VREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           VR+GKLIVNGV R+E +ILE PSY+MTP+ VPENSVFVMGDNRNNSYDSH
Sbjct: 225 VRKGKLIVNGVERDEKFILEPPSYDMTPVQVPENSVFVMGDNRNNSYDSH 274

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 =  288 bits (737), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 165/293 (56%), Positives = 191/293 (65%), Gaps = 55/293 (18%)

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 LSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGD 237
           LSMYPTFDVGDRIVAEKV+YYFRKPC++DIVIFKSPPVLQEVGY+DDDVFIKRVVAK GD
Sbjct: 130 LSMYPTFDVGDRIVAEKVSYYFRKPCASDIVIFKSPPVLQEVGYSDDDVFIKRVVAKAGD 189

Query: 238 VVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           +VEVR+G L+VNGV RNE+YILE P+Y M P  VPEN VFVMGDNRNNSYDSH
Sbjct: 190 IVEVRKGHLVVNGVERNEEYILEPPAYEMKPTRVPENYVFVMGDNRNNSYDSH 242

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218190459|gb|EEC72886.1| hypothetical protein OsI_06670 [Oryza sativa Indica Group]

 Score =  278 bits (712), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 134/162 (82%), Positives = 150/162 (92%), Gaps = 1/162 (0%)

Query: 130 DDEEAEG-QSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGD 188
           DDEE EG + G LP WL++T+DDAKTVLAA+ ISLAFRSFVAEPR+IPSLSM+PTFDVGD
Sbjct: 21  DDEEDEGTRKGLLPEWLSVTTDDAKTVLAAIAISLAFRSFVAEPRFIPSLSMFPTFDVGD 80

Query: 189 RIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIV 248
           RIVAEKVTYYFRKPC NDIVIFKSPPVLQEVGYTD+DVFIKR+VA+EGDVVEV +GKL+V
Sbjct: 81  RIVAEKVTYYFRKPCINDIVIFKSPPVLQEVGYTDNDVFIKRIVAREGDVVEVHKGKLVV 140

Query: 249 NGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           NG VRNE++ILE PSY+M P+ VPENSVFVMGDNRNNSYDSH
Sbjct: 141 NGEVRNEEFILEPPSYDMNPVQVPENSVFVMGDNRNNSYDSH 182

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511359|ref|XP_003524394.1| PREDICTED: chloroplast processing peptidase-like [Glycine max]

 Score =  277 bits (708), Expect = 6e-72,   Method: Compositional matrix adjust.
 Identities = 151/223 (67%), Positives = 174/223 (78%), Gaps = 6/223 (2%)

Query: 72  NPNFVNFQH--QNPRPLNPKNLLY--RLNCNKLKSSGEETKSVVNTGSGGGGGGDGGGGD 127
            PNF NF+      RPL      +  R+ C  L+ SGE+ K+V+ +   GGGGG  GGG 
Sbjct: 20  QPNFFNFRLPPLCHRPLGKSTATFHRRILCKALRDSGEDFKAVLKSDDSGGGGGGDGGGG 79

Query: 128 GSDDEEAEGQSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVG 187
           G  D  AE + G L  WLN TSDDAKTVLAAL ISLAFRSFVAEPR+IPSLSMYPT DVG
Sbjct: 80  GDRD--AEKEEGPLSEWLNFTSDDAKTVLAALAISLAFRSFVAEPRFIPSLSMYPTLDVG 137

Query: 188 DRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLI 247
           DRI+AEKV+YYFRKPC++DIVIFKSPPVLQEVGY++ DVFIKR+VAKEGD+VEVR+G L+
Sbjct: 138 DRIIAEKVSYYFRKPCASDIVIFKSPPVLQEVGYSNFDVFIKRMVAKEGDIVEVRKGHLV 197

Query: 248 VNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           VNGV +NE+YILE P+Y M P  VPEN VFVMGDNRNNSYDSH
Sbjct: 198 VNGVEKNEEYILEPPAYEMKPTRVPENYVFVMGDNRNNSYDSH 240

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115445459|ref|NP_001046509.1| Os02g0267000 [Oryza sativa Japonica Group] gi|50251480|dbj|BAD28619.1| putative signal peptidase I [Oryza sativa Japonica Group] gi|113536040|dbj|BAF08423.1| Os02g0267000 [Oryza sativa Japonica Group] gi|215695176|dbj|BAG90367.1| unnamed protein product [Oryza sativa Japonica Group] gi|222622573|gb|EEE56705.1| hypothetical protein OsJ_06181 [Oryza sativa Japonica Group]

 Score =  272 bits (696), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 128/154 (83%), Positives = 144/154 (93%)

Query: 137 QSGALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVT 196
           + G LP WL++T+DDAKTVLAA+ ISLAFRSFVAEPR+IPSLSM+PTFDVGDRIVAEKVT
Sbjct: 97  RKGLLPEWLSVTTDDAKTVLAAIAISLAFRSFVAEPRFIPSLSMFPTFDVGDRIVAEKVT 156

Query: 197 YYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNED 256
           YYFRKPC NDIVIFKSPPVLQEVGYTD+DVFIKR+VA+EGDVVEV +GKL+VNG VRNE+
Sbjct: 157 YYFRKPCINDIVIFKSPPVLQEVGYTDNDVFIKRIVAREGDVVEVHKGKLVVNGEVRNEE 216

Query: 257 YILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           +ILE PSY+M P+ VPENSVFVMGDNRNNSYDSH
Sbjct: 217 FILEPPSYDMNPVQVPENSVFVMGDNRNNSYDSH 250

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  271 bits (693), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 151/227 (66%), Positives = 169/227 (74%), Gaps = 11/227 (4%)

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 FDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVRE 243
           FDVGDR+VAEKV+YYFRKPC+NDIVIFKSPPVLQEVGYTD DVFIKR+VAKEGD+VEV  
Sbjct: 166 FDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHN 225

Query: 244 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           GKL+VNGV RNE +ILE P Y MTPI VPENSVFVMGDNRNNSYDSH
Sbjct: 226 GKLMVNGVARNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSH 272

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 =  271 bits (692), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 151/227 (66%), Positives = 169/227 (74%), Gaps = 11/227 (4%)

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 FDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVRE 243
           FDVGDR+VAEKV+YYFRKPC+NDIVIFKSPPVLQEVGYTD DVFIKR+VAKEGD+VEV  
Sbjct: 147 FDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHN 206

Query: 244 GKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           GKL+VNGV RNE +ILE P Y MTPI VPENSVFVMGDNRNNSYDSH
Sbjct: 207 GKLMVNGVARNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSH 253

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	313
TAIR|locus:2091717	291	PLSP1 "plastidic type i signal	0.763	0.821	0.581	5.1e-67
TAIR|locus:2064337	340	TPP "thylakoid processing pept	0.485	0.447	0.578	1.6e-45
TAIR|locus:2033108	367	Plsp2A "plastidic type I signa	0.485	0.414	0.602	2.7e-45
TIGR_CMR|GSU_1267	222	GSU_1267 "signal peptidase I"	0.460	0.648	0.358	2e-17
TIGR_CMR|CHY_1360	184	CHY_1360 "signal peptidase I"	0.456	0.777	0.301	1.3e-15
TIGR_CMR|DET_1192	192	DET_1192 "signal peptidase I"	0.421	0.687	0.352	2.6e-15
TIGR_CMR|BA_3977	183	BA_3977 "signal peptidase I S"	0.408	0.699	0.337	2.6e-14
TIGR_CMR|SO_2924	220	SO_2924 "signal peptidase I fa	0.338	0.481	0.345	2.6e-14
TIGR_CMR|BA_3099	183	BA_3099 "Signal peptidase I U"	0.408	0.699	0.324	4.9e-11
TIGR_CMR|VC_2462	298	VC_2462 "signal peptidase I" [	0.303	0.318	0.372	2.5e-10

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

 Score = 681 (244.8 bits), Expect = 5.1e-67, P = 5.1e-67
 Identities = 147/253 (58%), Positives = 173/253 (68%)

Query:    49 ILNLHPKSNPPQF--SRTRWPFV-SINPNFVNFQHQN----PRPLN---PKNLLYR-LNC 97
             +++LH  + P  F  S +   F+ + NPNF+ F  ++    P+ LN     NL  R L+C
Sbjct:     4 MISLHFSTPPLAFLKSDSNSRFLKNPNPNFIQFTPKSQLLFPQRLNFNTGTNLNRRTLSC 63

Query:    98 NKLKSSGEETKSVVNTXXXXXXXXXXXXXXXXXXXXXXXXXXALPGWLNITSDDAKTVLA 157
               +K S E TKS  +                             P WL+ TSDDA+TV  
Sbjct:    64 YGIKDSSETTKSAPSLDSGDGGGGDGGDDDKGEVEEKNRL---FPEWLDFTSDDAQTVFV 120

Query:   158 ALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQ 217
             A+ +SLAFR F+AEPRYIPSLSMYPTFDVGDR+VAEKV+YYFRKPC+NDIVIFKSPPVLQ
Sbjct:   121 AIAVSLAFRYFIAEPRYIPSLSMYPTFDVGDRLVAEKVSYYFRKPCANDIVIFKSPPVLQ 180

Query:   218 EVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVF 277
             EVGYTD DVFIKR+VAKEGD+VEV  GKL+VNGV RNE +ILE P Y MTPI VPENSVF
Sbjct:   181 EVGYTDADVFIKRIVAKEGDLVEVHNGKLMVNGVARNEKFILEPPGYEMTPIRVPENSVF 240

Query:   278 VMGDNRNNSYDSH 290
             VMGDNRNNSYDSH
Sbjct:   241 VMGDNRNNSYDSH 253

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 = 478 (173.3 bits), Expect = 1.6e-45, P = 1.6e-45
 Identities = 92/159 (57%), Positives = 119/159 (74%)

Query:   143 GWLN----ITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYY 198
             GW+N    + S+DAK    A+ +S+ FRS +AEP+ IPS SMYPT D GDR++AEKV+Y+
Sbjct:   144 GWVNKLLSVCSEDAKAAFTAVTVSILFRSALAEPKSIPSTSMYPTLDKGDRVMAEKVSYF 203

Query:   199 FRKPCSNDIVIFKSPPVL---QEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNE 255
             FRKP  +DIVIFK+PP+L    E GY+ +DVFIKR+VA EGD VEVR+GKL VN +V+ E
Sbjct:   204 FRKPEVSDIVIFKAPPILLEYPEYGYSSNDVFIKRIVASEGDWVEVRDGKLFVNDIVQEE 263

Query:   256 DYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPP 294
             D++LE  SY M P+ VP+  VFV+GDNRN S+DSH   P
Sbjct:   264 DFVLEPMSYEMEPMFVPKGYVFVLGDNRNKSFDSHNWGP 302

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

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

 Score = 476 (172.6 bits), Expect = 2.7e-45, P = 2.7e-45
 Identities = 94/156 (60%), Positives = 116/156 (74%)

Query:   143 GW----LNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYY 198
             GW    LNI S+DAK    A+ +SL FRS +AEP+ IPS SM PT DVGDR++AEKV+Y+
Sbjct:   174 GWVNKLLNICSEDAKAAFTAVTVSLLFRSALAEPKSIPSTSMLPTLDVGDRVIAEKVSYF 233

Query:   199 FRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI 258
             FRKP  +DIVIFK+PP+L E GY+  DVFIKR+VA EGD VEV +GKL+VN  V+ ED++
Sbjct:   234 FRKPEVSDIVIFKAPPILVEHGYSCADVFIKRIVASEGDWVEVCDGKLLVNDTVQAEDFV 293

Query:   259 LEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPP 294
             LE   Y M P+ VPE  VFV+GDNRN S+DSH   P
Sbjct:   294 LEPIDYEMEPMFVPEGYVFVLGDNRNKSFDSHNWGP 329

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

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

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 57/159 (35%), Positives = 87/159 (54%)

Query:   146 NITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSN 205
             +I  + A++++ A++++L  R+FV +   IPS SM  T  +GD I+  K  Y  + P  +
Sbjct:    25 HIVREYAESIIIAVILALIIRTFVVQAFKIPSGSMEDTLAIGDHILVSKFIYGTKIPFVD 84

Query:   206 DIVIFKSPPVLQEV---GYTDDDV--FIKRVVAKEGDVVEVREGKLIVNG--------VV 252
                +    P   +V    Y +D    FIKRV+   GD ++V + ++ +NG        V 
Sbjct:    85 GRYLKIRDPKRGDVIVFEYPEDPSKDFIKRVIGLPGDTIQVVQKQVFINGKPFSVPQEVH 144

Query:   253 RNEDYILEA--PSYNMTPITVPENSVFVMGDNRNNSYDS 289
             + +D I  A  P  N  P+TVPENS FVMGDNR+ SYDS
Sbjct:   145 KEKDVIPAAQNPRDNFGPVTVPENSYFVMGDNRDRSYDS 183

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

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

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 47/156 (30%), Positives = 80/156 (51%)

Query:   144 WLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPC 203
             W N   +     + A++++   ++F+ +  Y+P+ SM PT    DR+V  K  Y  +   
Sbjct:    15 WKNEIKEFISAAIWAVILAFIIKTFIFQLTYVPTGSMIPTILPNDRVVVLKFWYKIKPIE 74

Query:   204 SNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI---LE 260
                IV+F  PP        +   FIKRV+   G+ +E++   + +NG    E+Y+   +E
Sbjct:    75 RGQIVVF-DPP-----NSANSPPFIKRVIGLPGETLEIKNNTVYINGKPLKENYLPAKME 128

Query:   261 APSYNMTPITVPENSVFVMGDNRNNSYDSH--GAPP 294
                +   P  +P++++FVMGDNR +S DS   GA P
Sbjct:   129 MEPFG--PFKIPKDAIFVMGDNRQHSADSRYFGAVP 162

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

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

 Score = 193 (73.0 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 49/139 (35%), Positives = 72/139 (51%)

Query:   152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFK 211
             A  +L ALVI             +   SM PT     R++  K+ Y F +P   DI++F 
Sbjct:    20 AGIILVALVI-FGISKVTLSYSIVDGSSMDPTLKDEQRLLVNKLAYLFGEPQRGDIIVFP 78

Query:   212 SPPVLQEVGYTDDDVFIKRVVAKEGDVVEVRE-GKLIVNGVVRNEDYILEAPSYNMTPIT 270
              PP  ++  Y +D  FIKR++   GD VEV+E G + +N    +E Y++   ++  T + 
Sbjct:    79 -PP--EQYSYEND--FIKRIIGLPGDSVEVKEDGTVYINDQPLSEPYVVYPKAFPTTKVY 133

Query:   271 VPENSVFVMGDNRNNSYDS 289
             VPE   +VMGDNR  S DS
Sbjct:   134 VPEGQYYVMGDNRVVSLDS 152

GO:0009306 "protein secretion" evidence=ISS

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

 Score = 184 (69.8 bits), Expect = 2.6e-14, P = 2.6e-14
 Identities = 51/151 (33%), Positives = 75/151 (49%)

Query:   153 KTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKS 212
             K +L A+V++   R F   P  +  +SM  T    DR++  K+ Y+   P   DI++F++
Sbjct:    13 KAILIAVVLAGVIRQFFFAPILVDGVSMASTLHDRDRMIVNKIGYHIGDPKRFDIIVFRA 72

Query:   213 PPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDY-------ILEAP-SY 264
                      T+D  +IKR++   GD +E R  KL VNG    E Y       I + P +Y
Sbjct:    73 ---------TEDKDYIKRIIGLPGDEIEYRNDKLYVNGKAYEEPYLDKQKKQIADGPLTY 123

Query:   265 NMT------PITVPENSVFVMGDNRNNSYDS 289
             + T        TVPE  +FV+GDNR  S DS
Sbjct:   124 DFTLEEMTGKKTVPEGQLFVLGDNRRFSKDS 154

GO:0006508 "proteolysis" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|SO_2924 SO_2924 "signal peptidase I family protein" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 146 (56.5 bits), Expect = 2.6e-14, Sum P(2) = 2.6e-14
 Identities = 38/110 (34%), Positives = 59/110 (53%)

Query:   145 LNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCS 204
             + I   D  + L  + + L FRS VA+   +P+ SM PT   GDRI+  K+ Y  R P +
Sbjct:     5 IRILLKDYGSFLLFISLMLVFRSAVADWNTVPTGSMLPTIVEGDRILVNKMAYDVRVPFT 64

Query:   205 NDIVIFKSPPVLQEVGYTD----DDVFIKRVVAKEGDVVEVREGKLIVNG 250
             +  ++  + PV  ++   D    D   IKRV+A  GD V +R+ +L +NG
Sbjct:    65 HIALVKLADPVRGDIVVFDSKNADKRLIKRVIAVPGDTVMMRDNRLYLNG 114

GO:0006508 "proteolysis" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|BA_3099 BA_3099 "Signal peptidase I U" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 156 (60.0 bits), Expect = 4.9e-11, P = 4.9e-11
 Identities = 49/151 (32%), Positives = 69/151 (45%)

Query:   152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFK 211
             AKT+   LV+    R  +  P  +   SM PT +  +R++  K+ Y        DI++F 
Sbjct:    13 AKTIGFTLVLIAIIRGVLFTPSLVQGESMMPTLENNERVLVNKIGYSISGLERFDIIVFH 72

Query:   212 SPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILE----------A 261
                   + GY   D+ +KRV+   GD VE +   L VNG    E Y+ E           
Sbjct:    73 G-----KEGY---DL-VKRVIGLPGDTVEYKNDVLYVNGKAMEEPYLKEFKEKAAGRVLT 123

Query:   262 PSYNMTPIT----VPENSVFVMGDNRNNSYD 288
             P + +  IT    VPE  VFV+GDNR  S D
Sbjct:   124 PDFTLEQITGKTKVPEGQVFVLGDNREVSKD 154

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 = 137 (53.3 bits), Expect = 2.5e-10, Sum P(2) = 2.5e-10
 Identities = 44/118 (37%), Positives = 56/118 (47%)

Query:   140 ALPGWLNITSDDAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYF 199
             A P W+    +++ ++   +   L  RSF+ EP  IPS SM PT  VGD I+ EK  Y  
Sbjct:    55 AQPWWI----ENSVSIFPVIAFVLVLRSFIYEPFQIPSGSMMPTLLVGDFILVEKYAYGL 110

Query:   200 R------------KPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGK 245
             +            KP   DIV+FK P V  E+ Y      IKRVV   GD V    GK
Sbjct:   111 KDPVWRTQLVETGKPERGDIVVFKYP-VNPEIDY------IKRVVGMPGDTVRYSAGK 161

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8H0W1	PLSP1_ARATH	3, ., 4, ., 2, 1, ., 8, 9	0.6651	0.6900	0.7422	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

Your Input:
	GSVIVG00016732001	SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (334 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00019235001	SubName- Full=Chromosome chr7 scaffold_20, whole genome shotgun sequence; (603 aa)	•			•			•		0.586
	GSVIVG00021597001	SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (488 aa)	•			•			•		0.461
	GSVIVG00020896001	SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (681 aa)	•						•		0.448
	GSVIVG00024895001	SubName- Full=Chromosome chr4 scaffold_32, whole genome shotgun sequence; (414 aa)	•			•			•		0.440

---

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	313
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	4e-39
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	2e-17
COG0681	166	COG0681, LepB, Signal peptidase I [Intracellular t	3e-15
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	2e-13
cd06462	84	cd06462, Peptidase_S24_S26, The S24, S26 LexA/sign	1e-09
pfam00717	69	pfam00717, Peptidase_S24, Peptidase S24-like	4e-09
pfam10502	138	pfam10502, Peptidase_S26, Signal peptidase, peptid	8e-08
cd06529	81	cd06529, S24_LexA-like, Peptidase S24 LexA-like pr	4e-04

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

 Score =  135 bits (341), Expect = 4e-39
 Identities = 56/145 (38%), Positives = 80/145 (55%), Gaps = 15/145 (10%)

Query: 153 KTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKS 212
            ++L A++++L  R+FV  P  +P  SM PT   GDRI+  K  Y    P   DIV+FK 
Sbjct: 3   LSLLIAILLALLIRTFVFFPYKVPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKD 62

Query: 213 PPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYI--------LEAPSY 264
           P         + +++IKRV+   GD VE R+GKL +NG   +E Y+         E  + 
Sbjct: 63  PD-------DNKNIYIKRVIGLPGDKVEFRDGKLYINGKKIDEPYLKPNGFLDTSEFNTT 115

Query: 265 NMTPITVPENSVFVMGDNRNNSYDS 289
           +  P+TVP    FV+GDNR+NS DS
Sbjct: 116 DYGPVTVPPGHYFVLGDNRDNSLDS 140

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 = 75.3 bits (186), Expect = 2e-17
 Identities = 37/126 (29%), Positives = 47/126 (37%), Gaps = 51/126 (40%)

Query: 171 EPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKR 230
           EP  +P  SM PT   GD ++  K++Y FR+P   D+V+FKSP              IKR
Sbjct: 1   EPVVVPGGSMEPTLQPGDLVLVNKLSYGFREPKRGDVVVFKSPG-------DPGKPIIKR 53

Query: 231 VVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDS- 289
           V+                                            FV+GDNRNNS DS 
Sbjct: 54  VIG------------------------------------------YFVLGDNRNNSLDSR 71

Query: 290 -HGAPP 294
             G  P
Sbjct: 72  YWGPVP 77

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 = 72.0 bits (176), Expect = 3e-15
 Identities = 39/136 (28%), Positives = 61/136 (44%), Gaps = 12/136 (8%)

Query: 155 VLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPP 214
           +   L + +  R+FV EP  +PS SM PT +VGDR++ +K +Y F K    DI++  +  
Sbjct: 16  IAIILALIIGVRTFVFEPVVVPSGSMEPTLNVGDRVLVKKFSYGFGKLKVPDIIVLPAVV 75

Query: 215 VLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPE- 273
                    +   IKRV+   GD+V  ++ +L V  ++    Y L         + V   
Sbjct: 76  ---------EGDLIKRVIGLRGDIVVFKDDRLYVVPII-PRVYGLVEKDNGKHLVDVIVN 125

Query: 274 -NSVFVMGDNRNNSYD 288
            NS  V G      Y 
Sbjct: 126 ANSSRVFGIITKKDYI 141

Length = 166

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

 Score = 69.3 bits (170), Expect = 2e-13
 Identities = 44/126 (34%), Positives = 56/126 (44%), Gaps = 27/126 (21%)

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

Query: 188 DRIVAEKVTYYFRKPCSN------------DIVIFKSP--PVLQEVGYTDDDVFIKRVVA 233
           D I+ EK  Y  + P +             DIV+FK P  P L          +IKRVV 
Sbjct: 100 DFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKLD---------YIKRVVG 150

Query: 234 KEGDVV 239
             GD V
Sbjct: 151 LPGDKV 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 = 53.8 bits (130), Expect = 1e-09
 Identities = 28/129 (21%), Positives = 43/129 (33%), Gaps = 51/129 (39%)

Query: 174 YIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVA 233
            +   SM PT   GD ++ +K +Y  ++    DIV+F+ P           ++ +KRV+ 
Sbjct: 4   RVEGDSMEPTIPDGDLVLVDKSSYEPKR---GDIVVFRLP---------GGELTVKRVIG 51

Query: 234 KEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDS--HG 291
             G                                    E   F++GDN  NS DS   G
Sbjct: 52  LPG------------------------------------EGHYFLLGDN-PNSPDSRIDG 74

Query: 292 APPCQEYHR 300
            P       
Sbjct: 75  PPELDIVGV 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|216079 pfam00717, Peptidase_S24, Peptidase S24-like

 Score = 51.8 bits (125), Expect = 4e-09
 Identities = 17/81 (20%), Positives = 34/81 (41%), Gaps = 17/81 (20%)

Query: 174 YIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVA 233
            +   SM PT   GD ++ +K      +P   DIV+ +            ++  +KR++ 
Sbjct: 1   RVKGDSMEPTIPDGDLLLVDK----TSEPKRGDIVVARLD---------GEEATVKRLIG 47

Query: 234 KEGDVVEVRE----GKLIVNG 250
             GD++ +        + +NG
Sbjct: 48  LPGDIILLPSNPEYPPIYING 68

Length = 69

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

 Score = 49.9 bits (120), Expect = 8e-08
 Identities = 27/96 (28%), Positives = 42/96 (43%), Gaps = 15/96 (15%)

Query: 206 DIVIFKSPPVL----QEVGYTDDDV-FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILE 260
           D+V    P        E GY    V  +KRV+A  G  V +R+G + ++GV  +    LE
Sbjct: 26  DLVAVCPPEPAAFFAAERGYLPRGVPLLKRVLALPGQRVCIRDGLVTIDGVPVSA--ALE 83

Query: 261 A-------PSYNMTPITVPENSVFVMGDNRNNSYDS 289
                   P +      +PE  +F+M     +S+DS
Sbjct: 84  RDRKGRPLPPWQGCR-VLPEGELFLMSVTSPDSFDS 118

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|119397 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

 Score = 38.3 bits (90), Expect = 4e-04
 Identities = 14/64 (21%), Positives = 26/64 (40%), Gaps = 14/64 (21%)

Query: 179 SMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDV 238
           SM PT   GD ++ +        P   DIV+ +           D ++ +KR+  + G  
Sbjct: 9   SMEPTIPDGDLVLVDPS----DTPRDGDIVVAR----------LDGELTVKRLQRRGGGR 54

Query: 239 VEVR 242
           + + 
Sbjct: 55  LRLI 58

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 protein. In the presence of single-stranded DNA, the LexA, UmuD and MucA proteins interact with RecA, activating self cleavage, thus either derepressing transcription in the case of LexA or activating the lesion-bypass polymerase in the case of UmuD and MucA. The LexA proteins are 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. LexA sequence homologs are found in almost all of the bacterial genomes sequenced to date, covering a large number of phyla, suggesting both, an ancient origin and a widespread distribution of lexA and the SOS response. Length = 81

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	313
TIGR02227	163	sigpep_I_bact signal peptidase I, bacterial type.	100.0
PRK10861	324	signal peptidase I; Provisional	100.0
KOG0171	176	consensus Mitochondrial inner membrane protease, s	100.0
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.95
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.94
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.93
KOG1568	174	consensus Mitochondrial inner membrane protease, s	99.92
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.91
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.8
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.76
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	99.75
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.61
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	99.55
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	99.22
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	98.99
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	98.54
COG2932	214	Predicted transcriptional regulator [Transcription	98.28
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	98.05
PRK12423	202	LexA repressor; Provisional	97.92
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	97.87
PRK00215	205	LexA repressor; Validated	97.87
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	97.76
COG1974	201	LexA SOS-response transcriptional repressors (RecA	96.47
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	89.09

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=100.00  E-value=6.9e-41  Score=292.58  Aligned_cols=153  Identities=37%  Similarity=0.555  Sum_probs=136.5

Q ss_pred             HHHHHHHHHHHHHHHHceeEeEEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEE
Q 021373          152 AKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRV  231 (313)
Q Consensus       152 ~~~lvv~ili~lll~~fv~~~~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRV  231 (313)
                      +..++++++++++++.|+++.+.|+|+||+|||+.||+|+++|..+....+++||+|+|+.|.+       .++.+||||
T Consensus         2 ~~~~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~-------~~~~~iKRV   74 (163)
T TIGR02227         2 ILSLLIAILLALLIRTFVFFPYKIPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKDPDD-------NKNIYVKRV   74 (163)
T ss_pred             HHHHHHHHHHHHHHHhhEEEEEEECCcccccchhCCCEEEEEEeEcCCCCCCCCcEEEEecCCC-------CCceeEEEE
Confidence            3466677788889999999999999999999999999999999988778999999999998764       567899999


Q ss_pred             EeeCCCEEEEeCCEEEECCEEccccccccCCC--------CCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEE
Q 021373          232 VAKEGDVVEVREGKLIVNGVVRNEDYILEAPS--------YNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKIS  303 (313)
Q Consensus       232 iGlPGD~V~I~~g~lyINGk~l~e~y~~~~~~--------~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~Gk  303 (313)
                      +|+|||+|+++++.+||||+.+.++|......        ....+++||+|||||||||+++|+||||||+|++++|+||
T Consensus        75 ig~pGd~v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~G~V~~~~I~Gk  154 (163)
T TIGR02227        75 IGLPGDKVEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGK  154 (163)
T ss_pred             EecCCCEEEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCcccCCcCcCCHHHeEEE
Confidence            99999999999999999999999987654311        2234679999999999999999999999999999999999


Q ss_pred             EEEEeecC
Q 021373          304 ISLLASAK  311 (313)
Q Consensus       304 V~~~~~~~  311 (313)
                      |.+++|+.
T Consensus       155 ~~~~~~p~  162 (163)
T TIGR02227       155 VSFVFYPF  162 (163)
T ss_pred             EEEEECCC
Confidence            99999985

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=100.00  E-value=2.6e-36  Score=289.36  Aligned_cols=155  Identities=33%  Similarity=0.404  Sum_probs=130.0

Q ss_pred             HHHHHHHHHHHHHHHHHceeEeEEECCCCcccCCCCCCEEEEEeeeccC------------CCCCCCcEEEEeCCccccc
Q 021373          151 DAKTVLAALVISLAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYF------------RKPCSNDIVIFKSPPVLQE  218 (313)
Q Consensus       151 ~~~~lvv~ili~lll~~fv~~~~~V~g~SMePTL~~GD~VlV~K~~~~~------------~~p~rGDIVVF~~P~~~~~  218 (313)
                      ++..++++++++++++.|+++++.|+|+||+|||..||+|+|+|++|++            ..|+|||||||+.|.+   
T Consensus        63 ~~~~~~~~l~i~~~ir~fv~~~~~Ips~SM~PTL~~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~---  139 (324)
T PRK10861         63 TGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPED---  139 (324)
T ss_pred             HHHHHHHHHhHHHHHHhhEEEEEEECCCcCcCcccCCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCC---
Confidence            3456677778888999999999999999999999999999999999864            5789999999999875   


Q ss_pred             cccCCCccEEEEEEeeCCCEEEEe--CCEEEECCEEcccc----------------------------------------
Q 021373          219 VGYTDDDVFIKRVVAKEGDVVEVR--EGKLIVNGVVRNED----------------------------------------  256 (313)
Q Consensus       219 ~~~~~~~~lVKRViGlPGD~V~I~--~g~lyINGk~l~e~----------------------------------------  256 (313)
                          ++..+||||||+|||+|+++  ++.+||||+.+...                                        
T Consensus       140 ----~~~~yIKRVIGlPGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  215 (324)
T PRK10861        140 ----PKLDYIKRVVGLPGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLN  215 (324)
T ss_pred             ----CCCcEEEEeeecCCcEEEEEeCCCEEEEcCcccccccccccccccccccccccccccccccccccccccccccccc
Confidence                67789999999999999998  89999999742110                                        


Q ss_pred             -----------cccc----------CCC-------------CCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEE
Q 021373          257 -----------YILE----------APS-------------YNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKI  302 (313)
Q Consensus       257 -----------y~~~----------~~~-------------~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~G  302 (313)
                                 |...          .+.             ....+++||+|+|||||||+++|+||||||+||+++|+|
T Consensus       216 ~~~~~~~~~~~~~E~l~~~~h~i~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~yf~mgdnr~~S~DSRy~G~Vp~~~i~G  295 (324)
T PRK10861        216 ETKENGIRLSERKETLGDVTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANLVG  295 (324)
T ss_pred             ccccccccceeEEEecCCccceeeecCCcccccccccccCCCcCceEEECCCeEEEeCCCCCCCcccCcccccCHHHcEE
Confidence                       0000          000             013467999999999999999999999999999999999


Q ss_pred             EEEEEeecCC
Q 021373          303 SISLLASAKD  312 (313)
Q Consensus       303 kV~~~~~~~~  312 (313)
                      +|...++|-+
T Consensus       296 ~a~~i~~s~d  305 (324)
T PRK10861        296 KATAIWMSFE  305 (324)
T ss_pred             EEEEEEEEcC
Confidence            9999998853

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

Probab=100.00  E-value=4.2e-33  Score=241.64  Aligned_cols=140  Identities=42%  Similarity=0.576  Sum_probs=120.6

Q ss_pred             HHHHHHHHHHHHHceeEeEEECCCCcccCCCC-CCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEe
Q 021373          155 VLAALVISLAFRSFVAEPRYIPSLSMYPTFDV-GDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVA  233 (313)
Q Consensus       155 lvv~ili~lll~~fv~~~~~V~g~SMePTL~~-GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViG  233 (313)
                      .+.-.|+......|+.++..++|.||+|||++ ||+++.+|+.+.++++++||||++..|.+       .++.+||||+|
T Consensus        18 ~~~~~~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~-------~~~~~cKRIva   90 (176)
T KOG0171|consen   18 EIAYAAFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPD-------PKEHICKRIVA   90 (176)
T ss_pred             HHHHHHHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCC-------chhhhhheeec
Confidence            33444556666679999999999999998887 56666699999999999999999999986       67889999999


Q ss_pred             eCCCEEEEeCCEEEECCEEccccccccCCCCCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEeecC
Q 021373          234 KEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAK  311 (313)
Q Consensus       234 lPGD~V~I~~g~lyINGk~l~e~y~~~~~~~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~~~~  311 (313)
                      ++||.|++.++.+.+|+..  |.+.        .++.||+||+||+|||+.+|+|||+|||||..+|+||+++|+|+.
T Consensus        91 ~eGD~v~v~~~~~~~n~~~--e~~~--------~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~  158 (176)
T KOG0171|consen   91 MEGDLVEVHDGPLVVNDLV--EKFS--------TPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPP  158 (176)
T ss_pred             cCCceEEEecCCcccchhh--hhcc--------ceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCc
Confidence            9999999998888877643  2111        456899999999999999999999999999999999999999974

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.95  E-value=4.7e-27  Score=208.55  Aligned_cols=117  Identities=19%  Similarity=0.154  Sum_probs=92.9

Q ss_pred             EEEEeeeccCCCCCCCcEEEEeCCccccc-----ccc-CC------CccEEEEEEeeCCCEEEEeCCEEEECCEEccccc
Q 021373          190 IVAEKVTYYFRKPCSNDIVIFKSPPVLQE-----VGY-TD------DDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDY  257 (313)
Q Consensus       190 VlV~K~~~~~~~p~rGDIVVF~~P~~~~~-----~~~-~~------~~~lVKRViGlPGD~V~I~~g~lyINGk~l~e~y  257 (313)
                      +.++++.+....+++||+|+|+.|...+.     .+| ..      ...+||||+|+|||+|++++ .+||||+.+.++|
T Consensus        39 ig~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~-~v~iNg~~~~~~~  117 (176)
T PRK13838         39 LGLWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGG-SVSIDGRPLPSSS  117 (176)
T ss_pred             EEEEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECC-EEEECCEEccccc
Confidence            78888776567899999999998865321     111 11      24699999999999999985 8999999999987


Q ss_pred             cccCCCC-----CCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEe
Q 021373          258 ILEAPSY-----NMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLA  308 (313)
Q Consensus       258 ~~~~~~~-----~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~  308 (313)
                      .......     .....+||+|+|||||||. +|+||||||+|++++|+|+|...+
T Consensus       118 ~~~~~~~g~~l~~~~~~~vp~g~~fvlgd~~-~S~DSRy~G~V~~~~I~G~a~pi~  172 (176)
T PRK13838        118 VRRRDGEGRPLTPFPGGVVPPGHLFLHSSFA-GSYDSRYFGPVPASGLLGLARPVL  172 (176)
T ss_pred             cccccccCCcCCCCCccCcCCCeEEEECCCC-CCCcccccCcccHHHeEEEEEEEE
Confidence            6543221     1234589999999999985 899999999999999999998654

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.94  E-value=1.9e-25  Score=197.43  Aligned_cols=132  Identities=22%  Similarity=0.228  Sum_probs=97.1

Q ss_pred             HceeEeEEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccc-----cc-cCCC------ccEEEEEEee
Q 021373          167 SFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQE-----VG-YTDD------DVFIKRVVAK  234 (313)
Q Consensus       167 ~fv~~~~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~-----~~-~~~~------~~lVKRViGl  234 (313)
                      .|......-.++||-.    |-+. +.+.    ..++|||+|+|+.|.+...     .+ +..+      ..+||||+|+
T Consensus        21 ~~~~~~~~N~T~S~P~----g~Y~-~~~~----~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRVigl   91 (171)
T TIGR02771        21 LYCVGARINTTKSLPL----GLYW-TTSS----KPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGL   91 (171)
T ss_pred             cceeeEEEECCCCCcc----eEEE-eCCC----CCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEEEe
Confidence            3444444555666664    3333 3221    5899999999998864221     11 1122      3799999999


Q ss_pred             CCCEEEEeCCEEEECCEEccccccccCC--C---CCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEe
Q 021373          235 EGDVVEVREGKLIVNGVVRNEDYILEAP--S---YNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLA  308 (313)
Q Consensus       235 PGD~V~I~~g~lyINGk~l~e~y~~~~~--~---~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~  308 (313)
                      |||+|+++++.++|||+.+.+.+.....  +   ....+.+||+| ||+||||+.+|+||||||+|++++|+|||...+
T Consensus        92 pGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~~~~IiGk~~pl~  169 (171)
T TIGR02771        92 PGDRVTVRADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPISREQVIGRVKPLF  169 (171)
T ss_pred             CCCEEEEECCEEEECCEEcccccccccccCCCccccCCCcEECCC-EEEECCCCCCCCcccccceecHHHeEEEEEEeE
Confidence            9999999999999999998876544221  1   12246799999 999999999999999999999999999998543

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.

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.93  E-value=3.9e-25  Score=196.52  Aligned_cols=108  Identities=26%  Similarity=0.342  Sum_probs=85.0

Q ss_pred             CCCCCCcEEEEeCCccc-----ccccc------CCC-ccEEEEEEeeCCCEEEEeCCEEEECCEEccccccccCC--C--
Q 021373          200 RKPCSNDIVIFKSPPVL-----QEVGY------TDD-DVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAP--S--  263 (313)
Q Consensus       200 ~~p~rGDIVVF~~P~~~-----~~~~~------~~~-~~lVKRViGlPGD~V~I~~g~lyINGk~l~e~y~~~~~--~--  263 (313)
                      ..+++||+|+|+.|+..     .+.+|      +++ ..+||||+|+|||+|+++++.+||||+.+.+.......  +  
T Consensus        49 ~~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva~pGD~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~  128 (178)
T PRK13884         49 APVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLAAKGDAVSVTDDGVRVNGELLPLSKPILADGAGRP  128 (178)
T ss_pred             CCCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEeeCCcEEEEECCEEEECCEEccccccccccccCCc
Confidence            47899999999987642     11122      122 37999999999999999999999999998654322211  1  


Q ss_pred             ---CCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEE
Q 021373          264 ---YNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLL  307 (313)
Q Consensus       264 ---~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~  307 (313)
                         .....++||+|+|||||||+++|+||||||+|++++|+|+|.-.
T Consensus       129 l~~~~~~~~~lp~g~~fvlgd~~~~S~DSRYfG~V~~~~I~G~~~Pl  175 (178)
T PRK13884        129 LPRYQANSYTLGESELLLMSDVSATSFDGRYFGPINRSQIKTVIRPV  175 (178)
T ss_pred             ccccCCCceEECCCEEEEECCCCCCCCcccccCcccHHHEEEEEEEe
Confidence               22234699999999999999999999999999999999999754

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

Probab=99.92  E-value=2.6e-25  Score=192.90  Aligned_cols=120  Identities=32%  Similarity=0.399  Sum_probs=104.9

Q ss_pred             HHHHceeEeEEECCCCcccCCCCC------CEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCC
Q 021373          164 AFRSFVAEPRYIPSLSMYPTFDVG------DRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGD  237 (313)
Q Consensus       164 ll~~fv~~~~~V~g~SMePTL~~G------D~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD  237 (313)
                      .+...+.....|.|.||.|||+.+      |+|+++|+.-..+.+.|||+|+|.+|.+       .++++||||+|++||
T Consensus        25 t~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~-------p~~~~iKRv~alegd   97 (174)
T KOG1568|consen   25 TFSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPND-------PDKVIIKRVAALEGD   97 (174)
T ss_pred             eeeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCC-------hhheeeeeeeccccc
Confidence            344456778889999999999974      9999999875545688999999999987       889999999999999


Q ss_pred             EEEEeCCEEEECCEEccccccccCCCCCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEeec
Q 021373          238 VVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASA  310 (313)
Q Consensus       238 ~V~I~~g~lyINGk~l~e~y~~~~~~~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~~~  310 (313)
                      ++.-.                    .+....+.||+|||||.|||...|+|||.||||+...|.|||++..|+
T Consensus        98 ~~~t~--------------------~~k~~~v~vpkghcWVegDn~~hs~DSntFGPVS~gli~grai~ilwp  150 (174)
T KOG1568|consen   98 IMVTE--------------------DEKEEPVVVPKGHCWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWP  150 (174)
T ss_pred             EeccC--------------------CCCCCceecCCCcEEEecCCcccccccCccCCcchhheeeeEEEEEcC
Confidence            88742                    244566799999999999999999999999999999999999999996

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

Probab=99.91  E-value=8.4e-26  Score=193.06  Aligned_cols=108  Identities=34%  Similarity=0.455  Sum_probs=32.7

Q ss_pred             CCCCCcEEEEeCCcccccc----cc-CCCccEEEEEEeeCCCEEEEeCCEEEECCEEccccccccCCCCCC----CCEEe
Q 021373          201 KPCSNDIVIFKSPPVLQEV----GY-TDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNM----TPITV  271 (313)
Q Consensus       201 ~p~rGDIVVF~~P~~~~~~----~~-~~~~~lVKRViGlPGD~V~I~~g~lyINGk~l~e~y~~~~~~~~~----~~~~V  271 (313)
                      .+++||+|+|+.|......    +| ..+..++|||+|+|||+|+++++.++|||+.+.+.+..+..+..+    ..++|
T Consensus        21 ~~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~~~~~d~~g~~l~~~~~~~~v  100 (138)
T PF10502_consen   21 KIERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGEPLATDSDGRPLPQFSGSGTV  100 (138)
T ss_dssp             --------------------------------------------------------------------S-T----TEEE-
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCceEe
Confidence            4899999999999754321    22 456699999999999999999999999999888776654433322    46799


Q ss_pred             cCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEe
Q 021373          272 PENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLA  308 (313)
Q Consensus       272 P~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~  308 (313)
                      |+|+|||||||+.+|+||||||+|++++|+|+|...+
T Consensus       101 p~g~~~v~gd~~~~S~DSRy~G~V~~~~I~g~~~pl~  137 (138)
T PF10502_consen  101 PEGEYFVLGDNRPNSFDSRYFGPVPRSQIIGKARPLW  137 (138)
T ss_dssp             -TTEEEEE-SBTTS--SHHHH--EEGGGEEEEEEEEE
T ss_pred             CCCEEEEecCCCCCccccCEecccCHHHEEEEEEEEE
Confidence            9999999999999999999999999999999998754

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.

>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease

Probab=99.80  E-value=3.1e-19  Score=140.72  Aligned_cols=88  Identities=30%  Similarity=0.436  Sum_probs=76.0

Q ss_pred             EECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEeCCEEEECCEEc
Q 021373          174 YIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVR  253 (313)
Q Consensus       174 ~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~~g~lyINGk~l  253 (313)
                      .|.|+||+|||++||+|+|++.......+++||+|+|+.+.+       ++..++|||++++                  
T Consensus         2 ~V~g~SM~P~l~~GD~vlv~~~~~~~~~~~~Gdivv~~~~~~-------~~~~~vkRv~~~~------------------   56 (90)
T TIGR02754         2 KVTGVSMSPTLPPGDRIIVVPWLKIFRVPPIGNVVVVRHPLQ-------PYGLIIKRLAAVD------------------   56 (90)
T ss_pred             EeeCCCccCccCCCCEEEEEEccccCCCCCCCeEEEEecCCC-------CcceEEEEeeEEc------------------
Confidence            589999999999999999998543334556899999998753       4689999999874                  


Q ss_pred             cccccccCCCCCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEE
Q 021373          254 NEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISIS  305 (313)
Q Consensus       254 ~e~y~~~~~~~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~  305 (313)
                                         ++++|++|||+..|.|||++|+|+..+|+|+|+
T Consensus        57 -------------------~~~~~l~~dN~~~~~d~~~~g~v~~~~I~G~v~   89 (90)
T TIGR02754        57 -------------------DNGLFLLGDNPKASTDSRQLGPVPRSLLLGKVL   89 (90)
T ss_pred             -------------------CCeEEEeCCCCCCCCcccccCCCcHHHEEEEEE
Confidence                               356899999999999999999999999999986

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=99.76  E-value=4.5e-18  Score=132.31  Aligned_cols=84  Identities=43%  Similarity=0.637  Sum_probs=74.9

Q ss_pred             eEEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEeCCEEEECCE
Q 021373          172 PRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGV  251 (313)
Q Consensus       172 ~~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~~g~lyINGk  251 (313)
                      .+.|.|+||+|++..||+|++++....+..+++||+|+|+.+..       .+..++|||++                  
T Consensus         2 ~~~v~g~SM~P~i~~gd~v~v~~~~~~~~~~~~GDiv~~~~~~~-------~~~~~vkRv~~------------------   56 (85)
T cd06530           2 PVVVPGGSMEPTLQPGDLVLVNKLSYGFREPKRGDVVVFKSPGD-------PGKPIIKRVIG------------------   56 (85)
T ss_pred             eeEEcCCCCcCcccCCCEEEEEEeecccCCCCCCCEEEEeCCCC-------CCCEEEEEEEE------------------
Confidence            47899999999999999999998764434689999999998652       35789999998                  


Q ss_pred             EccccccccCCCCCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEE
Q 021373          252 VRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISI  304 (313)
Q Consensus       252 ~l~e~y~~~~~~~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV  304 (313)
                                              ||+.|||..+|.|||+||+|+.++|+|++
T Consensus        57 ------------------------~~~~gDn~~ns~d~~~~g~~~~~~i~G~~   85 (85)
T cd06530          57 ------------------------YFVLGDNRNNSLDSRYWGPVPEDDIVGKV   85 (85)
T ss_pred             ------------------------EEEeeCCCCCCCccCCcCCCcHHHeEEeC
Confidence                                    99999999899999999999999999985

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

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

Probab=99.75  E-value=7.6e-18  Score=145.24  Aligned_cols=108  Identities=15%  Similarity=0.182  Sum_probs=88.3

Q ss_pred             CCCCCcEEEEeCCccc----ccccc-CCCccEEEEEEeeCCCEEEEeCCEEEECCEEccccccccCCCCCCC----CEEe
Q 021373          201 KPCSNDIVIFKSPPVL----QEVGY-TDDDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMT----PITV  271 (313)
Q Consensus       201 ~p~rGDIVVF~~P~~~----~~~~~-~~~~~lVKRViGlPGD~V~I~~g~lyINGk~l~e~y~~~~~~~~~~----~~~V  271 (313)
                      .+++||+|+++.|...    ++.+| +....++|||.|+|||+|++.++.|.|||+.+......+..+..+.    .-.+
T Consensus        53 Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~D~~GR~lp~~~gcR~l  132 (173)
T COG4959          53 PVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPVDRVGRALPRWQGCRYL  132 (173)
T ss_pred             CcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeeccccccCCcCCcccCCcee
Confidence            4599999999999753    22344 5567899999999999999999999999999876555444443322    2248


Q ss_pred             cCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEe
Q 021373          272 PENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLA  308 (313)
Q Consensus       272 P~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~  308 (313)
                      .++|+|+|+|..+.||||||||+||.++|+|.+.-.+
T Consensus       133 ~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRPvw  169 (173)
T COG4959         133 APSELLLLTDRSSTSFDSRYFGPIPASQVIGVARPVW  169 (173)
T ss_pred             cCCeEEEEeccCCcccccceecccCHHHcceeeeeee
Confidence            9999999999999999999999999999999987654

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

Probab=99.61  E-value=7.4e-15  Score=126.23  Aligned_cols=135  Identities=28%  Similarity=0.373  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHHHHHHH--HHceeEeEEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCcc
Q 021373          149 SDDAKTVLAALVISLAF--RSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDV  226 (313)
Q Consensus       149 ~~~~~~lvv~ili~lll--~~fv~~~~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~  226 (313)
                      ..++..++.++++++++  +.|+++.+.|+|+||+|||+.||+|+++|..+....+..+|++.+.  .       ..+..
T Consensus         8 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~~GD~v~v~k~~~~~~~~~~~~~~~~~--~-------~~~~~   78 (166)
T COG0681           8 LELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLNVGDRVLVKKFSYGFGKLKVPDIIVLP--A-------VVEGD   78 (166)
T ss_pred             HHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccccCCEEEEEeccccccCCccceeeecC--C-------CCCcc
Confidence            45566777777777777  8999999999999999999999999999999988888889888332  2       26778


Q ss_pred             EEEEEEeeCCCEEEEeCCEEEECCEEccccccccCCCCCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEE
Q 021373          227 FIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISI  304 (313)
Q Consensus       227 lVKRViGlPGD~V~I~~g~lyINGk~l~e~y~~~~~~~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV  304 (313)
                      ++||+++++||.|.++++..|+ +..+.+.+.           .+..++.++.++....+.++|.++.......+.++
T Consensus        79 ~~kr~~~~~GD~i~~~~~~~~~-~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (166)
T COG0681          79 LIKRVIGLRGDIVVFKDDRLYV-VPIIPRVYG-----------LVEKDNGKHLVDVIVNANSSRVFGIITKKDYIKRV  144 (166)
T ss_pred             eEEEeccCCCCEEEEECCEEEe-ecccCcchh-----------hhhcccccccccccccccCccccccccccccccce
Confidence            9999999999999999999988 332322221           11111222445555566666666665555555555

>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type

Probab=99.55  E-value=6.4e-14  Score=122.61  Aligned_cols=85  Identities=26%  Similarity=0.310  Sum_probs=68.3

Q ss_pred             EECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEeCCEEEECCEEc
Q 021373          174 YIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVREGKLIVNGVVR  253 (313)
Q Consensus       174 ~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~~g~lyINGk~l  253 (313)
                      .|.|+||+||+++||.+++++...  .++++||+|+|+.|.        +...++|||+++.++     +      |   
T Consensus        35 ~V~g~SM~Ptl~~GD~vlv~~~~~--~~~~~GDIVvf~~~~--------~~~~iihRVi~v~~~-----~------g---   90 (158)
T TIGR02228        35 VVLSGSMEPTFNTGDLILVTGADP--NDIQVGDVITYKSPG--------FNTPVTHRVIEINNS-----G------G---   90 (158)
T ss_pred             EEcCCCCcCCccCCCEEEEEeccc--CCCCCCCEEEEEECC--------CCccEEEEEEEEECC-----C------C---
Confidence            399999999999999999998542  589999999999864        237899999998643     0      0   


Q ss_pred             cccccccCCCCCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEE
Q 021373          254 NEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISIS  305 (313)
Q Consensus       254 ~e~y~~~~~~~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~  305 (313)
                                         +-.|+..|||. ...|   .++|..++|+|++.
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                               01366779997 4556   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=99.22  E-value=2.6e-11  Score=90.45  Aligned_cols=57  Identities=30%  Similarity=0.526  Sum_probs=46.6

Q ss_pred             EECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEe
Q 021373          174 YIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVR  242 (313)
Q Consensus       174 ~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~  242 (313)
                      +|.|+||+|+|++||+|++++..    .++.||+|+|..+..        +..++|||++.+|+.+.+.
T Consensus         1 ~V~GdSM~P~i~~Gd~v~v~~~~----~~~~gdivv~~~~~~--------~~~~iKrv~~~~~~~~~~~   57 (70)
T PF00717_consen    1 RVEGDSMEPTIKDGDIVLVDPSS----EPKDGDIVVVKIDGD--------EELYIKRVVGEPGGIILIS   57 (70)
T ss_dssp             EEESSTTGGTSSTTEEEEEEETS-------TTSEEEEEETTE--------ESEEEEEEEEETTEEEEE-
T ss_pred             CeECcCcccCeeCCCEEEEEEcC----CCccCeEEEEEECCc--------eeeEEEEEEEeCCCEEEEe
Confidence            58899999999999999999864    889999999997431        1389999999999999987

; 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=98.99  E-value=3.7e-09  Score=80.50  Aligned_cols=53  Identities=32%  Similarity=0.544  Sum_probs=44.9

Q ss_pred             eEEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCC
Q 021373          172 PRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEG  236 (313)
Q Consensus       172 ~~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPG  236 (313)
                      .+.|.|+||+|++..||.|++++..   ..++.||+|++..+         ++..++||+...++
T Consensus         2 ~~~v~g~SM~P~i~~gd~v~i~~~~---~~~~~G~iv~~~~~---------~~~~~ikrl~~~~~   54 (84)
T cd06462           2 ALRVEGDSMEPTIPDGDLVLVDKSS---YEPKRGDIVVFRLP---------GGELTVKRVIGLPG   54 (84)
T ss_pred             eeEEcCCCccCcccCCCEEEEEecC---CCCcCCEEEEEEcC---------CCcEEEEEEEEECC
Confidence            3679999999999999999999864   24889999999973         23799999998876

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

>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=98.54  E-value=2.9e-07  Score=70.05  Aligned_cols=56  Identities=25%  Similarity=0.402  Sum_probs=48.6

Q ss_pred             EEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEe
Q 021373          173 RYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVR  242 (313)
Q Consensus       173 ~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~  242 (313)
                      ++|.|+||+|+++.||.|++++..    .++.||+|++..          +++.++||+...+++.+.+.
T Consensus         3 ~~v~g~sM~p~i~~gd~lii~~~~----~~~~g~i~~~~~----------~~~~~ikr~~~~~~~~~~L~   58 (81)
T cd06529           3 LRVKGDSMEPTIPDGDLVLVDPSD----TPRDGDIVVARL----------DGELTVKRLQRRGGGRLRLI   58 (81)
T ss_pred             EEEECCCcCCccCCCCEEEEcCCC----CCCCCCEEEEEE----------CCEEEEEEEEECCCCcEEEE
Confidence            689999999999999999999764    589999999997          45789999999987766664

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

>COG2932 Predicted transcriptional regulator [Transcription]

Probab=98.28  E-value=1.6e-06  Score=78.77  Aligned_cols=58  Identities=17%  Similarity=0.375  Sum_probs=46.8

Q ss_pred             eEEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEe
Q 021373          172 PRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVR  242 (313)
Q Consensus       172 ~~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~  242 (313)
                      .+.|.|+||+|++++||.|+|+.-.    ...+||.|++..-         +++.+|||+...+|-.+.+.
T Consensus       125 ~i~V~GDSMeP~~~~Gd~ilVd~~~----~~~~gd~v~v~~~---------g~~~~VK~l~~~~~~~~~l~  182 (214)
T COG2932         125 ALRVTGDSMEPTYEDGDTLLVDPGV----NTRRGDRVYVETD---------GGELYVKKLQREPGGLLRLV  182 (214)
T ss_pred             EEEEeCCcccccccCCCEEEECCCC----ceeeCCEEEEEEe---------CCeEEEEEEEEecCCeEEEE
Confidence            4789999999999999999998753    5667886665541         56899999999988877543

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=98.05  E-value=5.1e-05  Score=64.73  Aligned_cols=48  Identities=21%  Similarity=0.250  Sum_probs=40.3

Q ss_pred             eEEECCCCcc-cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEe
Q 021373          172 PRYIPSLSMY-PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVA  233 (313)
Q Consensus       172 ~~~V~g~SMe-PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViG  233 (313)
                      .++|.|+||. |++.+||+++|++-.    .++.||+|++..          ++...+||+.-
T Consensus        53 ~l~V~GdSM~~~~I~~GD~liVd~~~----~~~~Gdivv~~~----------~g~~~vKrl~~  101 (139)
T PRK10276         53 FVKASGDSMIDAGISDGDLLIVDSAI----TASHGDIVIAAV----------DGEFTVKKLQL  101 (139)
T ss_pred             EEEEecCCCCCCCCCCCCEEEEECCC----CCCCCCEEEEEE----------CCEEEEEEEEE
Confidence            4789999997 699999999999753    578899999875          56788999874

>PRK12423 LexA repressor; Provisional

Probab=97.92  E-value=9.3e-05  Score=66.91  Aligned_cols=49  Identities=22%  Similarity=0.215  Sum_probs=41.2

Q ss_pred             eEEECCCCcc-cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEee
Q 021373          172 PRYIPSLSMY-PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAK  234 (313)
Q Consensus       172 ~~~V~g~SMe-PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGl  234 (313)
                      .+.|.|+||. |+|.+||+|+|++.    ..++.||+|++..          ++..++||+.-.
T Consensus       116 ~l~V~GdSM~~~~i~~Gd~viv~~~----~~~~~Gdivv~~~----------~~~~~vKrl~~~  165 (202)
T PRK12423        116 LLQVQGDSMIDDGILDGDLVGVHRS----PEARDGQIVVARL----------DGEVTIKRLERS  165 (202)
T ss_pred             EEEEecCcCCCCCcCCCCEEEEeCC----CcCCCCCEEEEEE----------CCEEEEEEEEEe
Confidence            3789999997 79999999999974    3678899999986          567899998754

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

Probab=97.87  E-value=1.8e-05  Score=68.92  Aligned_cols=53  Identities=26%  Similarity=0.300  Sum_probs=41.8

Q ss_pred             eEEECCCCcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEee
Q 021373          172 PRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAK  234 (313)
Q Consensus       172 ~~~V~g~SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGl  234 (313)
                      .+.|-++||||.++.||.++......  ...+.||||||+.+.        .+...|+||+-+
T Consensus        50 iVVVLSgSMePaF~RGDlLfL~N~~~--~p~~vGdivVf~veg--------R~IPiVHRviK~  102 (180)
T KOG3342|consen   50 IVVVLSGSMEPAFHRGDLLFLTNRNE--DPIRVGDIVVFKVEG--------REIPIVHRVIKQ  102 (180)
T ss_pred             EEEEEcCCcCcccccccEEEEecCCC--CcceeccEEEEEECC--------ccCchhHHHHHH
Confidence            57788999999999999999975431  346789999999864        456788888754

>PRK00215 LexA repressor; Validated

Probab=97.87  E-value=0.00012  Score=65.77  Aligned_cols=56  Identities=21%  Similarity=0.245  Sum_probs=43.8

Q ss_pred             EeEEECCCCcc-cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEE
Q 021373          171 EPRYIPSLSMY-PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEV  241 (313)
Q Consensus       171 ~~~~V~g~SMe-PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I  241 (313)
                      ..++|.|+||. |++.+||+|+|++.    ..++.||+|++..          ++..+|||+.-. ++.+.+
T Consensus       119 ~~~~V~GdSM~~~~i~~Gd~v~v~~~----~~~~~G~ivv~~~----------~~~~~vKrl~~~-~~~~~L  175 (205)
T PRK00215        119 FLLRVRGDSMIDAGILDGDLVIVRKQ----QTARNGQIVVALI----------DDEATVKRFRRE-GGHIRL  175 (205)
T ss_pred             EEEEEccCCCCCCCcCCCCEEEEeCC----CCCCCCCEEEEEE----------CCEEEEEEEEEe-CCEEEE
Confidence            34789999995 79999999999874    3678899999986          457899999755 333433

>TIGR00498 lexA SOS regulatory protein LexA

Probab=97.76  E-value=0.00019  Score=64.17  Aligned_cols=57  Identities=23%  Similarity=0.231  Sum_probs=44.8

Q ss_pred             eEeEEECCCCcc-cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEE
Q 021373          170 AEPRYIPSLSMY-PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEV  241 (313)
Q Consensus       170 ~~~~~V~g~SMe-PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I  241 (313)
                      ...++|.|+||. |++.+||+|++++.    ..++.||+|++..          ++...|||+.-. |+.+.+
T Consensus       111 ~f~~~V~GdSM~~~~i~~Gd~v~v~~~----~~~~~G~ivvv~~----------~~~~~vKrl~~~-~~~i~L  168 (199)
T TIGR00498       111 VFLLKVMGDSMVDAGICDGDLLIVRSQ----KDARNGEIVAAMI----------DGEVTVKRFYKD-GTKVEL  168 (199)
T ss_pred             EEEEEecCCCCCCCCCCCCCEEEEecC----CCCCCCCEEEEEE----------CCEEEEEEEEEE-CCEEEE
Confidence            345889999996 68999999999865    3788999999986          567899998744 443433

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.

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

Probab=96.47  E-value=0.034  Score=50.81  Aligned_cols=55  Identities=20%  Similarity=0.241  Sum_probs=42.2

Q ss_pred             eEEECCCCcc-cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEE
Q 021373          172 PRYIPSLSMY-PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVE  240 (313)
Q Consensus       172 ~~~V~g~SMe-PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~  240 (313)
                      ..+|.|+||. +.+.+||.|+|++.    ...+.||||+....         ++...+||..-- |+.|.
T Consensus       114 ~L~V~GdSM~~~gi~dGDlvvV~~~----~~a~~GdiVvA~i~---------g~e~TvKrl~~~-g~~i~  169 (201)
T COG1974         114 FLRVSGDSMIDAGILDGDLVVVDPT----EDAENGDIVVALID---------GEEATVKRLYRD-GNQIL  169 (201)
T ss_pred             EEEecCCccccCcCCCCCEEEEcCC----CCCCCCCEEEEEcC---------CCcEEEEEEEEe-CCEEE
Confidence            3789999997 57888999999976    47889999999973         344788887644 33343

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

Probab=89.09  E-value=0.55  Score=39.95  Aligned_cols=29  Identities=31%  Similarity=0.487  Sum_probs=23.6

Q ss_pred             CccEEEEEEeeCCCEEEEeCCEEEECCEE
Q 021373          224 DDVFIKRVVAKEGDVVEVREGKLIVNGVV  252 (313)
Q Consensus       224 ~~~lVKRViGlPGD~V~I~~g~lyINGk~  252 (313)
                      ...++||+++++||.+...+..++++|+.
T Consensus       137 ~~~~~~~~~~~~gd~~~~~~~~~~~~g~~  165 (166)
T COG0681         137 KKDYIKRVIGLPGDNILYTDDDLPINGKP  165 (166)
T ss_pred             ccccccceEEeeccceeeccCceeecCCC
Confidence            35689999999999999985448888764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	313
1t7d_A	250	Crystal Structure Of Escherichia Coli Type I Signal		1e-05
1kn9_A	249	Crystal Structure Of A Bacterial Signal Peptidase A		2e-05
1b12_A	248	Crystal Structure Of Type 1 Signal Peptidase From E		2e-05

>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 = 34/91 (37%), Positives = 41/91 (45%), Gaps = 23/91 (25%)
Query: 163 LAFRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPC------------SNDIVIF 210
           +  RSF+ EP  IPS SM PT  +GD I+ EK  Y  + P               DIV+F
Sbjct: 1   MIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVF 60
Query: 211 KSP--PVLQEVGYTDDDVFIKRVVAKEGDVV 239
           K P  P L          +IKR V   GD V
Sbjct: 61  KYPEDPKLD---------YIKRAVGLPGDKV 82

>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 = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/88 (38%), Positives = 40/88 (45%), Gaps = 23/88 (26%)
Query: 166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPC------------SNDIVIFKSP 213
           RSF+ EP  IPS SM PT  +GD I+ EK  Y  + P               DIV+FK P
Sbjct: 3   RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 62
Query: 214 --PVLQEVGYTDDDVFIKRVVAKEGDVV 239
             P L          +IKR V   GD V
Sbjct: 63  EDPKLD---------YIKRAVGLPGDKV 81

>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 = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/88 (38%), Positives = 40/88 (45%), Gaps = 23/88 (26%)
Query: 166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPC------------SNDIVIFKSP 213
           RSF+ EP  IPS SM PT  +GD I+ EK  Y  + P               DIV+FK P
Sbjct: 2   RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 61
Query: 214 --PVLQEVGYTDDDVFIKRVVAKEGDVV 239
             P L          +IKR V   GD V
Sbjct: 62  EDPKLD---------YIKRAVGLPGDKV 80

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	313
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	100.0
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	98.83
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	98.78
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	98.73
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	98.3
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	98.27
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	98.22
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	90.89

>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=100.00  E-value=4.8e-37  Score=282.83  Aligned_cols=141  Identities=34%  Similarity=0.404  Sum_probs=119.3

Q ss_pred             HHHceeEeEEECCCCcccCCCCCCEEEEEeeeccC------------CCCCCCcEEEEeCCccccccccCCCccEEEEEE
Q 021373          165 FRSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYF------------RKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVV  232 (313)
Q Consensus       165 l~~fv~~~~~V~g~SMePTL~~GD~VlV~K~~~~~------------~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRVi  232 (313)
                      ++.|+++.+.|+|+||+|||++||+|+|+|..|++            ..+++||||||+.|.+       ++..+||||+
T Consensus         1 ir~fv~~~~~v~g~SM~Ptl~~GD~vlv~k~~yg~r~P~~~~~l~~~~~~~rGDIvvf~~p~~-------~~~~~iKRVi   73 (248)
T 1b12_A            1 VRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPED-------PKLDYIKRAV   73 (248)
T ss_dssp             -CBCCEEEEECCSCTTTTTSCTTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTC-------TTSEEEEEEE
T ss_pred             CeEEEEEEEEeccccccccccCCCEEEEEecccCcccccccccccccCCCCCCcEEEEEeCCC-------CCceEEEEEE
Confidence            46789999999999999999999999999988753            5799999999998864       5678999999


Q ss_pred             eeCCCEEEEeCC--EEEECC-----------EEccccccc----------------------------------------
Q 021373          233 AKEGDVVEVREG--KLIVNG-----------VVRNEDYIL----------------------------------------  259 (313)
Q Consensus       233 GlPGD~V~I~~g--~lyING-----------k~l~e~y~~----------------------------------------  259 (313)
                      |+|||+|+++++  .|||||           +.+.+.+..                                        
T Consensus        74 glpGD~v~i~~~~~~l~ING~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~~~~~~~~~~~~~e  153 (248)
T 1b12_A           74 GLPGDKVTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKE  153 (248)
T ss_dssp             ECTTCEEEEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEE
T ss_pred             eeCCCEEEEEcCceEEEECCccccccccccceeeeeeccccccccccccccccccccccccccccccccccchhhhhHHh
Confidence            999999999999  999999           655432110                                        


Q ss_pred             c----------CCC-------------CCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEeecCC
Q 021373          260 E----------APS-------------YNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAKD  312 (313)
Q Consensus       260 ~----------~~~-------------~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~~~~~  312 (313)
                      .          .+.             ....+++||+|+||||||||++|.||||||+||+++|+|||.+++||.+
T Consensus       154 ~l~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~VP~g~yFvmGDNR~nS~DSR~~G~Vp~~~IvGka~~i~~s~~  229 (248)
T 1b12_A          154 TLGDVTHRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFD  229 (248)
T ss_dssp             EETTEEEEEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC
T ss_pred             hhcCccceeEecCCccccccchhcccccccccEEeCCCcEEEecCCCcccCCCCcccccCHHHeEEEEEEEEEeCC
Confidence            0          011             0223679999999999999999999999999999999999999998864

>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=98.83  E-value=2.4e-08  Score=80.48  Aligned_cols=51  Identities=20%  Similarity=0.234  Sum_probs=43.1

Q ss_pred             eEEECCCCcc------cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeC
Q 021373          172 PRYIPSLSMY------PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKE  235 (313)
Q Consensus       172 ~~~V~g~SMe------PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlP  235 (313)
                      .++|.|+||+      |+|.+||+|+|++.    ..++.||+|++..+         ++..+|||++..+
T Consensus        15 ~~~V~GdSM~~~~g~~p~i~~Gd~v~Vd~~----~~~~~Gdivv~~~~---------~~~~~vKrl~~~~   71 (109)
T 1kca_A           15 WLEVEGNSMTAPTGSKPSFPDGMLILVDPE----QAVEPGDFCIARLG---------GDEFTFKKLIRDS   71 (109)
T ss_dssp             EEECCSSTTCCCTTCSSCCCTTCEEEEETT----SCCCTTCEEEEECS---------TTCEEEEEEEEET
T ss_pred             EEEEeCcCcCCCCCCCCeeCCCCEEEEecC----CcCCCCCEEEEEEC---------CCeEEEEEEEEeC
Confidence            4789999999      99999999999975    36899999999863         2478999998653

>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=98.78  E-value=2.2e-08  Score=81.09  Aligned_cols=51  Identities=20%  Similarity=0.225  Sum_probs=43.8

Q ss_pred             EeEEECCCCccc-CCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeC
Q 021373          171 EPRYIPSLSMYP-TFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKE  235 (313)
Q Consensus       171 ~~~~V~g~SMeP-TL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlP  235 (313)
                      ..++|.|+||+| +|++||.|+|++..    .++.||+|++..          ++..+|||++..+
T Consensus        28 ~~~~v~GdSM~p~~i~~Gd~v~vd~~~----~~~~gdivv~~~----------~~~~~vKr~~~~~   79 (116)
T 1umu_A           28 YFVKASGDSMIDGGISDGDLLIVDSAI----TASHGDIVIAAV----------DGEFTVKKLQLRP   79 (116)
T ss_dssp             EEEECCSSTTGGGTCCTTCEEEEETTS----CCCTTCEEEEEE----------TTEEEEEEEECSS
T ss_pred             EEEEECCCCcCCCCCCCCCEEEEEcCC----CCCCCCEEEEEE----------CCEEEEEEEEeCC
Confidence            357899999999 89999999999753    689999999986          4578999998754

>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=98.73  E-value=7.2e-08  Score=84.57  Aligned_cols=56  Identities=27%  Similarity=0.392  Sum_probs=47.0

Q ss_pred             eEEECCCCcccC-CCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEe
Q 021373          172 PRYIPSLSMYPT-FDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVR  242 (313)
Q Consensus       172 ~~~V~g~SMePT-L~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~  242 (313)
                      .++|.|+||+|+ |.+||.|+|++.    ..++.||+|++..          ++..+|||+. .+|+.+.+.
T Consensus       112 ~~~v~GdSM~p~~i~~Gd~v~vd~~----~~~~~G~i~v~~~----------~~~~~vKrl~-~~~~~~~l~  168 (202)
T 1jhf_A          112 LLRVSGMSMKDIGIMDGDLLAVHKT----QDVRNGQVVVARI----------DDEVTVKRLK-KQGNKVELL  168 (202)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEEEC----SCCCTTSEEEEEE----------TTEEEEEEEE-EETTEEEEE
T ss_pred             EEEECCCCCCCCCCCCCCEEEEecc----CCcCCCeEEEEEE----------CCEEEEEEEE-EeCCEEEEE
Confidence            578999999999 999999999875    3688999999986          5679999998 567666543

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

Probab=98.30  E-value=1.3e-06  Score=72.29  Aligned_cols=51  Identities=16%  Similarity=0.161  Sum_probs=43.0

Q ss_pred             eEEECCCCcc------cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeC
Q 021373          172 PRYIPSLSMY------PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKE  235 (313)
Q Consensus       172 ~~~V~g~SMe------PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlP  235 (313)
                      .++|.|+||+      |+|.+||+|+|++.    ..++.||+|++...         ++..+|||++-..
T Consensus        46 ~~~V~GdSM~~~~g~~p~i~~Gd~v~vd~~----~~~~~Gdivv~~~~---------~~~~~vKrl~~~~  102 (133)
T 2hnf_A           46 WLEVEGNSMTTPTGSKTSFPDGMLILVDPE----QAVEPGDFCIARLG---------GDEFTFAKLIRDS  102 (133)
T ss_dssp             EEECCSSTTCCC---CCCCCTTCEEEEETT----SCCCTTSEEEEEET---------TTEEEEEEEEEET
T ss_pred             EEEEeCCCcCCCcCCCCccCCCCEEEEccC----CCCCCCCEEEEEEC---------CCEEEEEEEEEeC
Confidence            4789999999      99999999999975    37899999999862         3478999998643

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

Probab=98.27  E-value=2.2e-06  Score=76.20  Aligned_cols=53  Identities=21%  Similarity=0.253  Sum_probs=44.0

Q ss_pred             eEEECCCCcc------cCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCC
Q 021373          172 PRYIPSLSMY------PTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGD  237 (313)
Q Consensus       172 ~~~V~g~SMe------PTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD  237 (313)
                      .++|.|+||+      |+|.+||+|+|++..    .++.||+|++...         ++..+|||+...+|.
T Consensus       142 ~l~V~GdSM~~~~g~~P~i~~Gd~v~vd~~~----~~~~g~ivv~~~~---------~~~~~vKrl~~~~~~  200 (236)
T 3bdn_A          142 WLEVEGNSMTAPTGSKPSFPDGMLILVDPEQ----AVEPGDFCIARLG---------GDEFTFKKLIRGSGQ  200 (236)
T ss_dssp             EEECCSSSSCCCSSCSSCCCSSCEEEECCSS----CCCTTSEEEEEST---------TTCCCCEEEECCSSS
T ss_pred             EEEEeCCCcCCCCCCCCcCCCCCEEEECCCC----CCCCCcEEEEEEC---------CCeEEEEEEEEcCCc
Confidence            4789999999      999999999998753    6889999999862         357899999865444

>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=98.22  E-value=5.1e-06  Score=72.80  Aligned_cols=51  Identities=18%  Similarity=0.131  Sum_probs=43.1

Q ss_pred             EeEEECCCCc-ccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeC
Q 021373          171 EPRYIPSLSM-YPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKE  235 (313)
Q Consensus       171 ~~~~V~g~SM-ePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlP  235 (313)
                      ..++|.|+|| +|++.+||+|+|++.    ..++.||+|++..          ++..+|||+.-.+
T Consensus       110 f~l~v~GdSM~~p~i~~GD~viv~~~----~~~~~G~ivv~~~----------~~~~~vKr~~~~~  161 (196)
T 3k2z_A          110 FLLKVKGESMIEEHICDGDLVLVRRQ----DWAQNGDIVAAMV----------DGEVTLAKFYQRG  161 (196)
T ss_dssp             EEEECCSSTTGGGTCCTTCEEEEEEC----SCCCTTCEEEEEE----------TTEEEEEEEEEET
T ss_pred             EEEEEeCCCcCCCCCCCCCEEEEecc----CcCCCCCEEEEEE----------CCcEEEEEEEEEC
Confidence            3578999999 699999999999975    3678999999986          5689999996543

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

Probab=90.89  E-value=0.29  Score=41.31  Aligned_cols=49  Identities=12%  Similarity=0.148  Sum_probs=36.4

Q ss_pred             CcccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeCCCEEEEe
Q 021373          179 SMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKEGDVVEVR  242 (313)
Q Consensus       179 SMePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlPGD~V~I~  242 (313)
                      +|...-.+||.|+|++.     .+..|+++++..          ++..+|||+.-.+|+.+.+.
T Consensus       114 ~~~~v~~~Gd~v~Vd~~-----~~~~g~i~vv~~----------~g~~~vKrl~~~~~~~i~L~  162 (189)
T 2fjr_A          114 DGMAIRSEGKIYFVDKQ-----ASLSDGLWLVDI----------KGAISIRELTKLPGRKLHVA  162 (189)
T ss_dssp             SEEEEEETTEEEEEETT-----CCSCSEEEEEEE----------TTEEEEEEEEEETTTEEEEE
T ss_pred             CeEEEeeCCcEEEEEcC-----CccCCCEEEEEe----------CCeEEEEEEEECCCCEEEEE
Confidence            33333389999999864     256799999986          56899999988777766553

---

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	313
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	4e-18
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	7e-05

>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 = 80.0 bits (196), Expect = 4e-18
 Identities = 33/131 (25%), Positives = 46/131 (35%), Gaps = 5/131 (3%)

Query: 166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTD-- 223
           RSF+ EP  IPS SM PT  +GD I+ EK  Y  + P     +I    P   ++      
Sbjct: 1   RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 60

Query: 224 ---DDVFIKRVVAKEGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMG 280
                 +IKR V   GD V        +              +  +T   V  +      
Sbjct: 61  EDPKLDYIKRAVGLPGDKVTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTF 120

Query: 281 DNRNNSYDSHG 291
             RN    + G
Sbjct: 121 SRRNGGEATSG 131

>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 = 41.1 bits (95), Expect = 7e-05
 Identities = 22/116 (18%), Positives = 37/116 (31%)

Query: 175 IPSLSMYPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAK 234
            P  S     +    +    V         +     ++     EV   +      R+  +
Sbjct: 91  QPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSER 150

Query: 235 EGDVVEVREGKLIVNGVVRNEDYILEAPSYNMTPITVPENSVFVMGDNRNNSYDSH 290
           +  + +V    L V           + P   +    VP    F+MGDNR+NS DS 
Sbjct: 151 KETLGDVTHRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSR 206

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	313
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	100.0
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	98.53
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	98.35
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	98.21

>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=100.00  E-value=1.4e-35  Score=268.14  Aligned_cols=139  Identities=34%  Similarity=0.406  Sum_probs=112.7

Q ss_pred             HHceeEeEEECCCCcccCCCCCCEEEEEeeeccCCC------------CCCCcEEEEeCCccccccccCCCccEEEEEEe
Q 021373          166 RSFVAEPRYIPSLSMYPTFDVGDRIVAEKVTYYFRK------------PCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVA  233 (313)
Q Consensus       166 ~~fv~~~~~V~g~SMePTL~~GD~VlV~K~~~~~~~------------p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViG  233 (313)
                      |.|+++++.|+++||+|||..||+|+|+|++|+++.            +++||+|+|..|.+       ....+||||+|
T Consensus         1 R~f~~~~f~IPs~SMePTL~~GD~l~V~K~~Yg~r~P~~~~~~~~~~~~~rgdivvf~~p~~-------~~~~~ikR~ig   73 (247)
T d1b12a_           1 RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPED-------PKLDYIKRAVG   73 (247)
T ss_dssp             CBCCEEEEECCSCTTTTTSCTTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTC-------TTSEEEEEEEE
T ss_pred             CEEEEEEEEeCcccccchhccCCEEEEEccccCccCCccCcccccccCcccCceeeecCCCC-------CCccccccccC
Confidence            468999999999999999999999999999987754            49999999999875       66789999999


Q ss_pred             eCCCEEEEeCCEEEECCEEcccc-------------------cc------------------------------------
Q 021373          234 KEGDVVEVREGKLIVNGVVRNED-------------------YI------------------------------------  258 (313)
Q Consensus       234 lPGD~V~I~~g~lyINGk~l~e~-------------------y~------------------------------------  258 (313)
                      +|||+|.+.+...+++++...+.                   +.                                    
T Consensus        74 ~pGD~i~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (247)
T d1b12a_          74 LPGDKVTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKET  153 (247)
T ss_dssp             CTTCEEEEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEE
T ss_pred             CCCCeEEEecccceEEecccccccceeecceeecccccCcccceeeeeeccCceeccceeeccccccccCceEeeeeeec
Confidence            99999999854433332211000                   00                                    


Q ss_pred             --------cc-------------CCCCCCCCEEecCCcEEEecCCCCCCCCCCCCCccCCCCeEEEEEEEeecC
Q 021373          259 --------LE-------------APSYNMTPITVPENSVFVMGDNRNNSYDSHGAPPCQEYHRKISISLLASAK  311 (313)
Q Consensus       259 --------~~-------------~~~~~~~~~~VP~g~yfVLGDNr~~S~DSRyfG~Vp~~~I~GkV~~~~~~~  311 (313)
                              ..             ..+.....++||+||||||||||++|.|||+||+||+++|+|||.+++||.
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Vp~~~yfvmGDNR~nS~DSR~wG~Vp~~~I~Gka~~i~~p~  227 (247)
T d1b12a_         154 LGDVTHRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSF  227 (247)
T ss_dssp             ETTEEEEEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEB
T ss_pred             cCCcceeEEecccchhcccccccCCccccceEEEeCCeEEEecCCCCCCccccccCcCCHHHeEEEEEEEEEEC
Confidence                    00             011234568999999999999999999999999999999999999999995

>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=98.53  E-value=3e-07  Score=71.30  Aligned_cols=50  Identities=20%  Similarity=0.236  Sum_probs=41.3

Q ss_pred             eEEECCCCc------ccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEee
Q 021373          172 PRYIPSLSM------YPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAK  234 (313)
Q Consensus       172 ~~~V~g~SM------ePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGl  234 (313)
                      ..+|.|+||      +|+|++||+|+|++.    ..++.||+|++...         ++..++||+.-.
T Consensus         7 ~l~V~GdSM~~~~~~ep~i~~Gd~viVd~~----~~~~~g~ivva~~~---------~~~~~vKr~~~~   62 (101)
T d1f39a_           7 WLEVEGNSMTAPTGSKPSFPDGMLILVDPE----QAVEPGDFCIARLG---------GDEFTFKKLIRD   62 (101)
T ss_dssp             EEECCSSTTCCCTTCSSCCCTTCEEEEETT----SCCCTTCEEEEECT---------TSCEEEEEEEEE
T ss_pred             EEEEeCCccCCCcccCCCcCCCCEEEEEec----CccCCCCEEEEEEC---------CCeEEEEEEEEc
Confidence            368999999      899999999999974    47899999988752         456789998754

>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=98.35  E-value=1.4e-06  Score=69.96  Aligned_cols=50  Identities=22%  Similarity=0.317  Sum_probs=43.5

Q ss_pred             eEEECCCCcccC-CCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEEeeC
Q 021373          172 PRYIPSLSMYPT-FDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVVAKE  235 (313)
Q Consensus       172 ~~~V~g~SMePT-L~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRViGlP  235 (313)
                      .++|.|+||+|+ +++||+|++++.    ..++.||+|++..          ++..+|||+.-..
T Consensus        40 ~lrV~GdSM~~~~i~~gd~viv~~~----~~~~~G~ivv~~~----------~ge~~vKrl~~~~   90 (126)
T d1jhfa2          40 LLRVSGMSMKDIGIMDGDLLAVHKT----QDVRNGQVVVARI----------DDEVTVKRLKKQG   90 (126)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEEEC----SCCCTTSEEEEEE----------TTEEEEEEEEEET
T ss_pred             EEEEcCCcccCcccCCCEEEEEecc----ccccCCCEEEEEE----------CCEEEEEEEEEcC
Confidence            478999999997 999999999975    4789999999997          6789999987543

>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=98.21  E-value=2.6e-06  Score=66.64  Aligned_cols=47  Identities=21%  Similarity=0.222  Sum_probs=41.5

Q ss_pred             eEEECCCCc-ccCCCCCCEEEEEeeeccCCCCCCCcEEEEeCCccccccccCCCccEEEEEE
Q 021373          172 PRYIPSLSM-YPTFDVGDRIVAEKVTYYFRKPCSNDIVIFKSPPVLQEVGYTDDDVFIKRVV  232 (313)
Q Consensus       172 ~~~V~g~SM-ePTL~~GD~VlV~K~~~~~~~p~rGDIVVF~~P~~~~~~~~~~~~~lVKRVi  232 (313)
                      .++|.|+|| .+.+.+||.++|++.    ..++.||+|++..          +++.+|||+.
T Consensus        22 ~~rV~GdSM~~~gI~~GDlliVd~~----~~~~~g~ivva~i----------~ge~~vKrl~   69 (105)
T d1umua_          22 FVKASGDSMIDGGISDGDLLIVDSA----ITASHGDIVIAAV----------DGEFTVKKLQ   69 (105)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEETT----SCCCTTCEEEEEE----------TTEEEEEEEE
T ss_pred             EEEEcCCccccCccCCCCEEEEEcc----cccccCcEEEEEE----------CCEEEEEEEE
Confidence            489999999 588999999999986    4789999999997          6789999985