Citrus Sinensis ID: 032329

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140---
Protein Sequence
MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPK
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHEEEEEEEEEcccccccccHHHHHHHHHHHHccccEEEEEEEcccccccEEcccccEEEEEEEccccccccccccEEEEcccccccccEEEEEEEEcccEEEEcccccccEEEccccEEEEEcccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHEEEEEEcHccccccccHHHHHHHHHHHHHcccEEEEEccccccccccccccccEEEEEEcccccccEEEEcEEEEEEcccccccEEEEEEEEEEcccEEccccccccEEEccccEEEEEcccccccc
Coil and Loop (DISEMBL)
MVSLSTWFRYIANKLEYSVSISwksytrgqindiELRDSVWKYLFQGKLtylygnkgdqmapvmgglGGTLLVrklpaadpkrvsvgdvvvmkdpeksdnYIVRRLAAIEGyemvstdekdepfvldkdecwvladnenmkpk
Flexible Loop (DISEMBL)
MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKlpaadpkrvsvgdvvvmkdpeksdnyiVRRLAAIEGYemvstdekdepfvlDKDEcwvladnenmkpk
Low Complexity Region (SEG)
MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPK
Disordered region (IsUnstruct)
***LSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLA********
Disordered Region (DISOPRED)
**S*STWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLA*NE*****
Disordered Region (DISEMBL)
MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPK
Disordered Region (DISPRO)
**SLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENM***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPK
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	143	2.2.26 [Sep-21-2011]
O74800	157	Mitochondrial inner membr	yes	no	0.650	0.592	0.272	0.0004

>sp|O74800|IMP1_SCHPO Mitochondrial inner membrane protease subunit 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=imp1 PE=3 SV=1

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 27/99 (27%), Positives = 45/99 (45%), Gaps = 6/99 (6%)

Query: 40  VWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSD 99
           + +YLFQ ++T      G  M P +   G  +L+ KL     +  SVGDVVV   P  S 
Sbjct: 21  IHEYLFQVQMT-----SGPSMMPTLNSGGEFVLLDKLHGRFARSCSVGDVVVSAKPSDSK 75

Query: 100 NYIVRRLAAIEGYEM-VSTDEKDEPFVLDKDECWVLADN 137
            ++ +R+  + G  + V     ++   +     W+  DN
Sbjct: 76  QHVCKRIIGMPGDTIYVDPTSSNKKITIPLGHVWLAGDN 114

Catalyzes the removal of transit peptides required for the targeting of proteins from the mitochondrial matrix, across the inner membrane, into the inter-membrane space.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)
EC: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: -

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	143
225438115	205	PREDICTED: mitochondrial inner membrane	0.993	0.692	0.781	4e-59
224082818	205	predicted protein [Populus trichocarpa]	1.0	0.697	0.776	5e-59
224066245	205	predicted protein [Populus trichocarpa]	1.0	0.697	0.748	2e-57
388510892	205	unknown [Lotus japonicus]	1.0	0.697	0.734	7e-56
297744155	244	unnamed protein product [Vitis vinifera]	0.993	0.581	0.613	2e-53
38344766	206	OSJNBa0068L06.9 [Oryza sativa Japonica G	1.0	0.694	0.701	3e-53
294463942	207	unknown [Picea sitchensis]	1.0	0.690	0.657	3e-52
357166900	206	PREDICTED: uncharacterized protein LOC10	1.0	0.694	0.673	4e-52
294461116	205	unknown [Picea sitchensis]	1.0	0.697	0.650	9e-52
449462419	205	PREDICTED: mitochondrial inner membrane	1.0	0.697	0.671	1e-51

>gi|225438115|ref|XP_002278029.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like [Vitis vinifera]

 Score =  232 bits (591), Expect = 4e-59,   Method: Compositional matrix adjust.
 Identities = 111/142 (78%), Positives = 126/142 (88%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
           MVSLSTW RYIA+KLEYS+SISWKSY  GQI+D E+ D VWK LFQGKLTYL+ NKG +M
Sbjct: 1   MVSLSTWCRYIAHKLEYSISISWKSYKGGQISDREVGDVVWKNLFQGKLTYLHWNKGGEM 60

Query: 61  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
           AP +G  GGTLLVRKLPAADP RV VGDVVV+KDPE+SDNY+VRRLAA+EGYEM STDEK
Sbjct: 61  APTIGEQGGTLLVRKLPAADPTRVFVGDVVVLKDPEESDNYLVRRLAAVEGYEMGSTDEK 120

Query: 121 DEPFVLDKDECWVLADNENMKP 142
           DEPFVL+KD+CWVL+DNE +KP
Sbjct: 121 DEPFVLEKDQCWVLSDNETLKP 142

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224082818|ref|XP_002306852.1| predicted protein [Populus trichocarpa] gi|222856301|gb|EEE93848.1| predicted protein [Populus trichocarpa]

 Score =  232 bits (591), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 111/143 (77%), Positives = 126/143 (88%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
           MVS+STWFRYIANKL+YSVS+S+KSY  G IND E+ DSVWK L QGKLT+L+ NKG +M
Sbjct: 1   MVSVSTWFRYIANKLDYSVSLSYKSYKGGLINDKEVVDSVWKNLLQGKLTFLHWNKGQEM 60

Query: 61  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
           AP +G  GGTLLVRKLP+ADP RV VGDVV++KDPEKSDN++VRRLAAIEGYEM STDEK
Sbjct: 61  APTIGDQGGTLLVRKLPSADPMRVFVGDVVLLKDPEKSDNFLVRRLAAIEGYEMASTDEK 120

Query: 121 DEPFVLDKDECWVLADNENMKPK 143
           DEPFVLDKDECWVLADNE +K K
Sbjct: 121 DEPFVLDKDECWVLADNEKLKAK 143

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224066245|ref|XP_002302044.1| predicted protein [Populus trichocarpa] gi|222843770|gb|EEE81317.1| predicted protein [Populus trichocarpa]

 Score =  226 bits (576), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 107/143 (74%), Positives = 125/143 (87%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
           M SLSTW RYIA+K EYS+S+S+KSY  G IN+ E+ D+VWK LFQGKLT+L+ NKG +M
Sbjct: 1   MASLSTWCRYIAHKFEYSLSLSYKSYKGGIINNKEVYDTVWKNLFQGKLTFLHWNKGQEM 60

Query: 61  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
           AP +G  GGTLLVRKLP ADP RV VGDVV++KDPEKSDN++VRRLAAIEGYEMVSTDEK
Sbjct: 61  APTIGDQGGTLLVRKLPTADPMRVFVGDVVLLKDPEKSDNFLVRRLAAIEGYEMVSTDEK 120

Query: 121 DEPFVLDKDECWVLADNENMKPK 143
           D+PFVLDKDECWVLADN+ +KPK
Sbjct: 121 DDPFVLDKDECWVLADNDKLKPK 143

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510892|gb|AFK43512.1| unknown [Lotus japonicus]

 Score =  221 bits (564), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 105/143 (73%), Positives = 121/143 (84%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
           MVSLSTWFRYI  KLEYSVS+SWK+Y RGQI + E+RD VWK  FQGKLTYL+ N+G++M
Sbjct: 1   MVSLSTWFRYIGYKLEYSVSLSWKNYKRGQIGEGEVRDLVWKNFFQGKLTYLHWNQGEEM 60

Query: 61  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
           AP + G   TLLVRKLP ADP RV VGDVVV+KDP K DNY+VRRLAA+EGYEM STDEK
Sbjct: 61  APTIAGKVATLLVRKLPNADPTRVFVGDVVVLKDPWKPDNYLVRRLAAVEGYEMASTDEK 120

Query: 121 DEPFVLDKDECWVLADNENMKPK 143
           DEPFVL+KD+CWV+A+NE  KPK
Sbjct: 121 DEPFVLEKDQCWVVAENEKFKPK 143

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744155|emb|CBI37125.3| unnamed protein product [Vitis vinifera]

 Score =  213 bits (543), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 111/181 (61%), Positives = 126/181 (69%), Gaps = 39/181 (21%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK------------------------------------ 24
           MVSLSTW RYIA+KLEYS+SISWK                                    
Sbjct: 1   MVSLSTWCRYIAHKLEYSISISWKDGLRKQIEEKLHFEERLKTDFALMEEALSKRKRGKT 60

Query: 25  ---SYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADP 81
              SY  GQI+D E+ D VWK LFQGKLTYL+ NKG +MAP +G  GGTLLVRKLPAADP
Sbjct: 61  CLWSYKGGQISDREVGDVVWKNLFQGKLTYLHWNKGGEMAPTIGEQGGTLLVRKLPAADP 120

Query: 82  KRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMK 141
            RV VGDVVV+KDPE+SDNY+VRRLAA+EGYEM STDEKDEPFVL+KD+CWVL+DNE +K
Sbjct: 121 TRVFVGDVVVLKDPEESDNYLVRRLAAVEGYEMGSTDEKDEPFVLEKDQCWVLSDNETLK 180

Query: 142 P 142
           P
Sbjct: 181 P 181

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|38344766|emb|CAE01583.2| OSJNBa0068L06.9 [Oryza sativa Japonica Group] gi|116317777|emb|CAH65755.1| OSIGBa0123D13.4 [Oryza sativa Indica Group] gi|125546927|gb|EAY92749.1| hypothetical protein OsI_14504 [Oryza sativa Indica Group] gi|125589074|gb|EAZ29424.1| hypothetical protein OsJ_13497 [Oryza sativa Japonica Group] gi|215697911|dbj|BAG92153.1| unnamed protein product [Oryza sativa Japonica Group] gi|215737534|dbj|BAG96664.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  212 bits (540), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 101/144 (70%), Positives = 119/144 (82%), Gaps = 1/144 (0%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKG-DQ 59
           MVSLSTWFRY A+K EYS+S+SWK Y  GQIN  +L D+VWK  FQGKLTY++ NKG + 
Sbjct: 1   MVSLSTWFRYAAHKFEYSISLSWKKYNVGQINSTQLTDAVWKNFFQGKLTYMHWNKGGEA 60

Query: 60  MAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDE 119
           MAP+    GGTLLVRKL    P +V VGDVV++KDPEKSD+ IVRRLAA+EGYEMVS DE
Sbjct: 61  MAPIESTTGGTLLVRKLVNLSPTQVFVGDVVLLKDPEKSDDLIVRRLAALEGYEMVSNDE 120

Query: 120 KDEPFVLDKDECWVLADNENMKPK 143
           KDEPFVLDKD+CWVLADN+++KPK
Sbjct: 121 KDEPFVLDKDQCWVLADNQSLKPK 144

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294463942|gb|ADE77492.1| unknown [Picea sitchensis]

 Score =  209 bits (533), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 94/143 (65%), Positives = 120/143 (83%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
           M SLSTW RYI +K+EYS+S+S K+Y  GQI D ++ ++VWK +FQGKLTY++ NKG++M
Sbjct: 1   MASLSTWLRYIVHKIEYSISLSSKNYQIGQITDKQVNENVWKNVFQGKLTYVHFNKGEEM 60

Query: 61  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
           AP + G GGTLLVR+LP ADPK+V VGDVV +KDP+  DN IVRRLAA+EG EMVSTDEK
Sbjct: 61  APTLSGQGGTLLVRRLPTADPKKVFVGDVVALKDPQNPDNCIVRRLAAVEGDEMVSTDEK 120

Query: 121 DEPFVLDKDECWVLADNENMKPK 143
           DEPFVL+ D+CWV++DNE++ PK
Sbjct: 121 DEPFVLENDQCWVVSDNESLSPK 143

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357166900|ref|XP_003580907.1| PREDICTED: uncharacterized protein LOC100823230 [Brachypodium distachyon]

 Score =  209 bits (531), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 97/144 (67%), Positives = 119/144 (82%), Gaps = 1/144 (0%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKG-DQ 59
           MVSLSTWFRY A+K EYS+S+SWK Y  GQIN  EL D++WK  FQGKLT+ +  KG + 
Sbjct: 1   MVSLSTWFRYAAHKFEYSISLSWKKYNVGQINSTELTDAIWKSFFQGKLTFAHWTKGGEA 60

Query: 60  MAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDE 119
           MAP++   GGT+LVRKL A  PK+V VGD+V++KDPEKSD+ IVRRLAA+EGYE+VSTDE
Sbjct: 61  MAPIVAATGGTVLVRKLAALTPKQVFVGDIVLLKDPEKSDDLIVRRLAALEGYEIVSTDE 120

Query: 120 KDEPFVLDKDECWVLADNENMKPK 143
           KDEPFVLDKD+CWVLA+N+ +K K
Sbjct: 121 KDEPFVLDKDQCWVLAENQVLKAK 144

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294461116|gb|ADE76124.1| unknown [Picea sitchensis]

 Score =  207 bits (528), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 93/143 (65%), Positives = 120/143 (83%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
           M SLSTW +YI +K+EYS+S+S K+Y  GQI D ++ ++VWK +FQGKLTY++ NKG++M
Sbjct: 1   MASLSTWLQYIVHKIEYSISLSSKNYQIGQITDKQVNENVWKNVFQGKLTYVHFNKGEEM 60

Query: 61  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
           AP + G GGTLLVR+LP ADPK+V VGDVV +KDP+  DN IVRRLAA+EG EMVSTDEK
Sbjct: 61  APTLSGQGGTLLVRRLPTADPKKVFVGDVVALKDPQNPDNCIVRRLAAVEGDEMVSTDEK 120

Query: 121 DEPFVLDKDECWVLADNENMKPK 143
           DEPFVL+ D+CWV++DNE++ PK
Sbjct: 121 DEPFVLENDQCWVVSDNESLSPK 143

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462419|ref|XP_004148938.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 2 [Cucumis sativus] gi|449507880|ref|XP_004163156.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 2 [Cucumis sativus]

 Score =  207 bits (526), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 96/143 (67%), Positives = 118/143 (82%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
           M S STW RYIANKLE+SVS+SWK+Y  G+I D E+  +VWK L QGKLTYL+  KG +M
Sbjct: 1   MASFSTWLRYIANKLEFSVSLSWKNYKGGRITDREVGHAVWKNLLQGKLTYLHWIKGQEM 60

Query: 61  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
           AP +G  GGTLLVRKLP AD   V +GDVVV+K+PEK +NY+VRRLAA+EG+EM+STDEK
Sbjct: 61  APTVGEAGGTLLVRKLPDADSTSVFIGDVVVVKEPEKPENYLVRRLAAVEGHEMLSTDEK 120

Query: 121 DEPFVLDKDECWVLADNENMKPK 143
           D+PF L+KD+CW+LADNE +KPK
Sbjct: 121 DQPFTLEKDQCWLLADNEKLKPK 143

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	143
TAIR|locus:2055856	205	AT2G31140 "AT2G31140" [Arabido	1.0	0.697	0.552	5.9e-41
TAIR|locus:2038535	206	AT1G06200 [Arabidopsis thalian	1.0	0.694	0.566	9.6e-41
POMBASE|SPBC2D10.07c	157	SPBC2D10.07c "mitochondrial in	0.650	0.592	0.272	5.3e-05

TAIR|locus:2055856 AT2G31140 "AT2G31140" [Arabidopsis thaliana (taxid:3702)]

 Score = 435 (158.2 bits), Expect = 5.9e-41, P = 5.9e-41
 Identities = 79/143 (55%), Positives = 111/143 (77%)

Query:     1 MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
             M S+STWFRY+A+KLEYS+++S KS+   +++D EL   + K LF GK+TYL+ +KG +M
Sbjct:     1 MASISTWFRYMAHKLEYSLTLSLKSHRSNKLSDRELIQIICKNLFYGKITYLHSDKGPEM 60

Query:    61 APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
             +P M     TLL+RK+P A+ + V +GD VV+KDP  SD Y+VRRLAA+EG+EMVS DEK
Sbjct:    61 SPTMTANENTLLIRKIPIANTRFVFIGDAVVLKDPNDSDKYLVRRLAAVEGFEMVSGDEK 120

Query:   121 DEPFVLDKDECWVLADNENMKPK 143
             +EPFVL+K++CWV A+N+ +K K
Sbjct:   121 EEPFVLEKNQCWVTAENQELKAK 143

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005774 "vacuolar membrane" evidence=IDA

TAIR|locus:2038535 AT1G06200 [Arabidopsis thaliana (taxid:3702)]

 Score = 433 (157.5 bits), Expect = 9.6e-41, P = 9.6e-41
 Identities = 81/143 (56%), Positives = 112/143 (78%)

Query:     1 MVSLSTWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQM 60
             M S++ + RY+A+KLEYS+++S K +TR +++D EL   V K LF G+++YL+ +KG +M
Sbjct:     1 MASITNYVRYMAHKLEYSLTLSLKKHTREKLSDRELFGVVMKNLFYGRISYLHSDKGKEM 60

Query:    61 APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 120
             AP MG    TLLVRKLP  D + + VGD VV+KDP +++ YIVRRLAA+EG EMVS+DEK
Sbjct:    61 APTMGTNESTLLVRKLPVVDTRYIFVGDAVVLKDPNETNKYIVRRLAALEGSEMVSSDEK 120

Query:   121 DEPFVLDKDECWVLADNENMKPK 143
             DEPFVL+KD+CWV+A+N+ MK K
Sbjct:   121 DEPFVLEKDQCWVVAENQEMKSK 143

GO:0005739 "mitochondrion" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

POMBASE|SPBC2D10.07c SPBC2D10.07c "mitochondrial inner membrane peptidase complex catalytic subunit (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 101 (40.6 bits), Expect = 5.3e-05, P = 5.3e-05
 Identities = 27/99 (27%), Positives = 45/99 (45%)

Query:    40 VWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSD 99
             + +YLFQ ++T      G  M P +   G  +L+ KL     +  SVGDVVV   P  S 
Sbjct:    21 IHEYLFQVQMT-----SGPSMMPTLNSGGEFVLLDKLHGRFARSCSVGDVVVSAKPSDSK 75

Query:   100 NYIVRRLAAIEGYEM-VSTDEKDEPFVLDKDECWVLADN 137
              ++ +R+  + G  + V     ++   +     W+  DN
Sbjct:    76 QHVCKRIIGMPGDTIYVDPTSSNKKITIPLGHVWLAGDN 114


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.317   0.135   0.407    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      143       143   0.00091  102 3  11 22  0.48    31
                                                     30  0.48    33


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  3
  No. of states in DFA:  592 (63 KB)
  Total size of DFA:  152 KB (2091 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  15.10u 0.09s 15.19t   Elapsed:  00:00:01
  Total cpu time:  15.10u 0.09s 15.19t   Elapsed:  00:00:01
  Start:  Sat May 11 01:49:14 2013   End:  Sat May 11 01:49:15 2013

GO:0004222 "metalloendopeptidase activity" evidence=ISS

GO:0005739 "mitochondrion" evidence=IDA

GO:0006508 "proteolysis" evidence=ISM

GO:0006627 "protein processing involved in protein targeting to mitochondrion" evidence=ISS

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

GO:0016021 "integral to membrane" evidence=IEA

GO:0042720 "mitochondrial inner membrane peptidase complex" 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

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: grail3.0002054501 hypothetical protein (206 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	143
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	7e-04
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	0.002

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

 Score = 36.0 bits (84), Expect = 7e-04
 Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 2/54 (3%)

Query: 56  KGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAI 109
            G  M P +   G  +LV KL     +    GDVVV K P      I++R+   
Sbjct: 6   PGGSMEPTLQP-GDLVLVNKLSY-GFREPKRGDVVVFKSPGDPGKPIIKRVIGY 57

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|233790 TIGR02227, sigpep_I_bact, signal peptidase I, bacterial type

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 17/43 (39%), Positives = 26/43 (60%), Gaps = 5/43 (11%)

Query: 71  LLVRKL--PAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEG 111
           +LV K     +DPKR   GD+VV KDP+ + N  ++R+  + G
Sbjct: 40  ILVNKFAYGTSDPKR---GDIVVFKDPDDNKNIYIKRVIGLPG 79

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	143
KOG0171	176	consensus Mitochondrial inner membrane protease, s	99.97
TIGR02227	163	sigpep_I_bact signal peptidase I, bacterial type.	99.96
KOG1568	174	consensus Mitochondrial inner membrane protease, s	99.96
PRK10861	324	signal peptidase I; Provisional	99.94
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.7
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.66
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.59
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	99.53
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.49
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	99.47
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.42
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.23
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	99.22
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.21
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	99.0
COG2932	214	Predicted transcriptional regulator [Transcription	98.8
PRK00215	205	LexA repressor; Validated	98.61
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	98.6
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	98.55
PRK12423	202	LexA repressor; Provisional	98.45
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	98.05
COG1974	201	LexA SOS-response transcriptional repressors (RecA	97.52
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	94.73
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	86.77
PF05382	145	Amidase_5: Bacteriophage peptidoglycan hydrolase ;	80.34

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

Probab=99.97  E-value=4.4e-31  Score=201.34  Aligned_cols=108  Identities=25%  Similarity=0.356  Sum_probs=95.3

Q ss_pred             HHHHHHHHHHHhhhccEEEEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcE
Q 032329           34 IELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYE  113 (143)
Q Consensus        34 ~~~~~~~~~~~~~~~v~~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~  113 (143)
                      .+....++.|++..|++++..++|+||+|||+++||+++.+|+++++ +++++||||++++|.++++.+||||+|+|||.
T Consensus        17 ~~~~~~~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f-~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD~   95 (176)
T KOG0171|consen   17 SEIAYAAFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRF-RKPQVGDIVIAKSPPDPKEHICKRIVAMEGDL   95 (176)
T ss_pred             HHHHHHHHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhh-cCCCCCCEEEEeCCCCchhhhhheeeccCCce
Confidence            34566788899999999999999999999999998999889999996 88999999999999999999999999999997


Q ss_pred             EEEcCCC----------CCCEEecCCcEEEEecCCCCCC
Q 032329          114 MVSTDEK----------DEPFVLDKDECWVLADNENMKP  142 (143)
Q Consensus       114 vv~~~~~----------~~~~~VP~g~~wVlGDNr~~S~  142 (143)
                      ++..+.+          ..++.||+||+||+|||++||.
T Consensus        96 v~v~~~~~~~n~~~e~~~~~i~VP~GhVfv~GDN~~nS~  134 (176)
T KOG0171|consen   96 VEVHDGPLVVNDLVEKFSTPIRVPEGHVFVEGDNRNNSL  134 (176)
T ss_pred             EEEecCCcccchhhhhccceeeccCceEEEecCCCCCcc
Confidence            5543211          2458999999999999999985

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=99.96  E-value=1.8e-28  Score=186.68  Aligned_cols=106  Identities=25%  Similarity=0.389  Sum_probs=91.2

Q ss_pred             HHHHHHHHHHhhhccEEEEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEE
Q 032329           35 ELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEM  114 (143)
Q Consensus        35 ~~~~~~~~~~~~~~v~~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~v  114 (143)
                      .+++++++++++.++++++.|+|+||+|||++| |+++++|+.+.. ..+++||||+|+.|.++++.+||||+|+|||+|
T Consensus         5 ~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~~G-d~vlv~k~~~~~-~~~~rGDiVvf~~~~~~~~~~iKRVig~pGd~v   82 (163)
T TIGR02227         5 LLIAILLALLIRTFVFFPYKIPGGSMEPTLKEG-DRILVNKFAYGT-SDPKRGDIVVFKDPDDNKNIYVKRVIGLPGDKV   82 (163)
T ss_pred             HHHHHHHHHHHHhhEEEEEEECCcccccchhCC-CEEEEEEeEcCC-CCCCCCcEEEEecCCCCCceeEEEEEecCCCEE
Confidence            455677888999999999999999999999998 999999987763 789999999999988788899999999999997


Q ss_pred             EEcC-----------CC-----------------CCCEEecCCcEEEEecCCCCCC
Q 032329          115 VSTD-----------EK-----------------DEPFVLDKDECWVLADNENMKP  142 (143)
Q Consensus       115 v~~~-----------~~-----------------~~~~~VP~g~~wVlGDNr~~S~  142 (143)
                      ...+           +.                 ..+.+||+||||||||||.+|.
T Consensus        83 ~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~  138 (163)
T TIGR02227        83 EFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSL  138 (163)
T ss_pred             EEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCc
Confidence            6521           10                 1246899999999999999884

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

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

Probab=99.96  E-value=7.8e-29  Score=188.73  Aligned_cols=121  Identities=37%  Similarity=0.599  Sum_probs=103.8

Q ss_pred             HHHHHHhhheeeeeeeeeeccCCCcchhHHHHHHHHHHHhhhccEEEEEeeCCCCcccccCCC-----cEEEEEeecCCC
Q 032329            6 TWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLG-----GTLLVRKLPAAD   80 (143)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~v~G~SM~PTl~~gg-----D~Vlv~k~~~~~   80 (143)
                      .|++|++++|++++..+-+....-+              +...++.+..+.|.||+|||+++.     |+||++|+....
T Consensus         1 ~~~~~~~~~~~ksl~~s~~~~v~~t--------------~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n   66 (174)
T KOG1568|consen    1 MWRRYIFKVFEKSLTGSLKWHVLLT--------------FSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKN   66 (174)
T ss_pred             CHHHHHHHHHHhceeeeeeeheeee--------------eeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeecccc
Confidence            4999999999988777666553222              344588899999999999999863     899999998763


Q ss_pred             CCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEcCCCCCCEEecCCcEEEEecCCCCC
Q 032329           81 PKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMK  141 (143)
Q Consensus        81 ~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~~~~~~~~~VP~g~~wVlGDNr~~S  141 (143)
                       ..+.|||||+|++|.++++++||||+|+|||++...+++.+++.||+|||||+|||..+|
T Consensus        67 -~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t~~~k~~~v~vpkghcWVegDn~~hs  126 (174)
T KOG1568|consen   67 -RKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVTEDEKEEPVVVPKGHCWVEGDNQKHS  126 (174)
T ss_pred             -ceeccCCEEEEeCCCChhheeeeeeecccccEeccCCCCCCceecCCCcEEEecCCcccc
Confidence             668899999999999999999999999999997666777889999999999999999776

>PRK10861 signal peptidase I; Provisional

Probab=99.94  E-value=6.3e-26  Score=189.71  Aligned_cols=79  Identities=18%  Similarity=0.187  Sum_probs=70.5

Q ss_pred             HHHHHHHHhhhccEEEEEeeCCCCcccccCCCcEEEEEeecCCC-----------CCCCCcCeEEEEecCCCCCceEEEE
Q 032329           37 RDSVWKYLFQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAAD-----------PKRVSVGDVVVMKDPEKSDNYIVRR  105 (143)
Q Consensus        37 ~~~~~~~~~~~~v~~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~-----------~~~~~rGDVVvf~~P~~~~~~~VKR  105 (143)
                      .+++++.+++.|+++++.|+|.||+|||..| |++||+|+.+..           ...++|||||||+.|.+++..+|||
T Consensus        69 ~~l~i~~~ir~fv~~~~~Ips~SM~PTL~~G-D~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~~~~~yIKR  147 (324)
T PRK10861         69 PVLAIVLIVRSFIYEPFQIPSGSMMPTLLIG-DFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKLDYIKR  147 (324)
T ss_pred             HHHhHHHHHHhhEEEEEEECCCcCcCcccCC-CEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCCCCCcEEEE
Confidence            3556778899999999999999999999998 999999998752           1468999999999999989999999


Q ss_pred             EEeeCCcEEEE
Q 032329          106 LAAIEGYEMVS  116 (143)
Q Consensus       106 ViglpGD~vv~  116 (143)
                      |||+|||+|..
T Consensus       148 VIGlPGD~I~~  158 (324)
T PRK10861        148 VVGLPGDKVTY  158 (324)
T ss_pred             eeecCCcEEEE
Confidence            99999999875

>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease

Probab=99.70  E-value=9.4e-17  Score=110.46  Aligned_cols=70  Identities=24%  Similarity=0.407  Sum_probs=58.5

Q ss_pred             EeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEcCCCCCCEEecCCcEEE
Q 032329           54 GNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWV  133 (143)
Q Consensus        54 ~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~~~~~~~~~VP~g~~wV  133 (143)
                      .|+|+||+|||++| |.|+++++... ...+++||+|+++.|.++++.++||+++++                 +|++|+
T Consensus         2 ~V~g~SM~P~l~~G-D~vlv~~~~~~-~~~~~~Gdivv~~~~~~~~~~~vkRv~~~~-----------------~~~~~l   62 (90)
T TIGR02754         2 KVTGVSMSPTLPPG-DRIIVVPWLKI-FRVPPIGNVVVVRHPLQPYGLIIKRLAAVD-----------------DNGLFL   62 (90)
T ss_pred             EeeCCCccCccCCC-CEEEEEEcccc-CCCCCCCeEEEEecCCCCcceEEEEeeEEc-----------------CCeEEE
Confidence            58999999999998 99999986433 244568999999998777789999999985                 356899


Q ss_pred             EecCCCCCC
Q 032329          134 LADNENMKP  142 (143)
Q Consensus       134 lGDNr~~S~  142 (143)
                      +|||+..|.
T Consensus        63 ~~dN~~~~~   71 (90)
T TIGR02754        63 LGDNPKAST   71 (90)
T ss_pred             eCCCCCCCC
Confidence            999998764

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=99.66  E-value=6.5e-16  Score=104.84  Aligned_cols=67  Identities=31%  Similarity=0.408  Sum_probs=57.6

Q ss_pred             EEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEcCCCCCCEEecCCcE
Q 032329           52 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDEC  131 (143)
Q Consensus        52 ~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~~~~~~~~~VP~g~~  131 (143)
                      ++.|.|+||+||+.+| |.+++++....+ ..+++||+|+|+.|.++++.++|||++                      |
T Consensus         2 ~~~v~g~SM~P~i~~g-d~v~v~~~~~~~-~~~~~GDiv~~~~~~~~~~~~vkRv~~----------------------~   57 (85)
T cd06530           2 PVVVPGGSMEPTLQPG-DLVLVNKLSYGF-REPKRGDVVVFKSPGDPGKPIIKRVIG----------------------Y   57 (85)
T ss_pred             eeEEcCCCCcCcccCC-CEEEEEEeeccc-CCCCCCCEEEEeCCCCCCCEEEEEEEE----------------------E
Confidence            5789999999999997 999999875331 369999999999987657899999999                      9


Q ss_pred             EEEecCCCCCC
Q 032329          132 WVLADNENMKP  142 (143)
Q Consensus       132 wVlGDNr~~S~  142 (143)
                      |+.|||+.+|.
T Consensus        58 ~~~gDn~~ns~   68 (85)
T cd06530          58 FVLGDNRNNSL   68 (85)
T ss_pred             EEeeCCCCCCC
Confidence            99999987764

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

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

Probab=99.59  E-value=3.8e-15  Score=111.19  Aligned_cols=100  Identities=16%  Similarity=0.164  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHh--hhccEEEEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCc
Q 032329           35 ELRDSVWKYLF--QGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGY  112 (143)
Q Consensus        35 ~~~~~~~~~~~--~~~v~~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD  112 (143)
                      .+.+++++.++  +.++++++.|+|+||+|||+.| |+++++|+.+.. ..++.+|++  ..|...+..++||+++++||
T Consensus        14 ~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~~G-D~v~v~k~~~~~-~~~~~~~~~--~~~~~~~~~~~kr~~~~~GD   89 (166)
T COG0681          14 LLIAIILALIIGVRTFVFEPVVVPSGSMEPTLNVG-DRVLVKKFSYGF-GKLKVPDII--VLPAVVEGDLIKRVIGLRGD   89 (166)
T ss_pred             HHHHHHHhheeeeEEEEEEEEEECCCccccccccC-CEEEEEeccccc-cCCccceee--ecCCCCCcceEEEeccCCCC
Confidence            34445555566  7999999999999999999997 999999998874 678888888  56667888999999999999


Q ss_pred             EEEEcCCCCC-CEEecCCcEEEEecCC
Q 032329          113 EMVSTDEKDE-PFVLDKDECWVLADNE  138 (143)
Q Consensus       113 ~vv~~~~~~~-~~~VP~g~~wVlGDNr  138 (143)
                      .++..++... ...+|+++.|+.++|.
T Consensus        90 ~i~~~~~~~~~~~~~~~~~~~~~~~~~  116 (166)
T COG0681          90 IVVFKDDRLYVVPIIPRVYGLVEKDNG  116 (166)
T ss_pred             EEEEECCEEEeecccCcchhhhhcccc
Confidence            9776542211 2345666666555543

>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type

Probab=99.53  E-value=7.4e-14  Score=106.53  Aligned_cols=53  Identities=25%  Similarity=0.387  Sum_probs=45.9

Q ss_pred             eeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCc
Q 032329           55 NKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGY  112 (143)
Q Consensus        55 v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD  112 (143)
                      |.|+||+|||++| |.+++++..   ..++++||||+|+.|.++ +.++|||+++.++
T Consensus        36 V~g~SM~Ptl~~G-D~vlv~~~~---~~~~~~GDIVvf~~~~~~-~~iihRVi~v~~~   88 (158)
T TIGR02228        36 VLSGSMEPTFNTG-DLILVTGAD---PNDIQVGDVITYKSPGFN-TPVTHRVIEINNS   88 (158)
T ss_pred             EcCCCCcCCccCC-CEEEEEecc---cCCCCCCCEEEEEECCCC-ccEEEEEEEEECC
Confidence            8999999999998 999999843   257999999999988644 7899999999754

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.

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.49  E-value=4.1e-13  Score=104.03  Aligned_cols=71  Identities=20%  Similarity=0.232  Sum_probs=52.9

Q ss_pred             cEEEEEeecCCCCCCCCcCeEEEEecCCCC-------------------CceEEEEEEeeCCcEEEEc-----C-----C
Q 032329           69 GTLLVRKLPAADPKRVSVGDVVVMKDPEKS-------------------DNYIVRRLAAIEGYEMVST-----D-----E  119 (143)
Q Consensus        69 D~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~-------------------~~~~VKRViglpGD~vv~~-----~-----~  119 (143)
                      +.+.+.++... ...+++||+|+|+.|.++                   ...++|||+|+|||+|...     +     +
T Consensus        37 ~pig~y~~~~~-~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~~v~iNg~~~~~  115 (176)
T PRK13838         37 EPLGLWRIEAL-DRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGGSVSIDGRPLPS  115 (176)
T ss_pred             CEEEEEEEecc-CCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECCEEEECCEEccc
Confidence            77778887654 368999999999987643                   1259999999999997642     1     1


Q ss_pred             C--------------CCCEEecCCcEEEEecCCCCC
Q 032329          120 K--------------DEPFVLDKDECWVLADNENMK  141 (143)
Q Consensus       120 ~--------------~~~~~VP~g~~wVlGDNr~~S  141 (143)
                      .              ....+||+|||||+|||. +|
T Consensus       116 ~~~~~~~~~g~~l~~~~~~~vp~g~~fvlgd~~-~S  150 (176)
T PRK13838        116 SSVRRRDGEGRPLTPFPGGVVPPGHLFLHSSFA-GS  150 (176)
T ss_pred             cccccccccCCcCCCCCccCcCCCeEEEECCCC-CC
Confidence            0              113479999999999984 55

>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification

Probab=99.47  E-value=3.1e-13  Score=88.11  Aligned_cols=68  Identities=21%  Similarity=0.331  Sum_probs=52.2

Q ss_pred             EeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEc-CCCCCCEEecC
Q 032329           54 GNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVST-DEKDEPFVLDK  128 (143)
Q Consensus        54 ~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~-~~~~~~~~VP~  128 (143)
                      +|.|+||+|+|.+| |.|++++.     ..++.||+|++..+.+. ..++||+++.+|+.+... +..++++.|++
T Consensus         1 ~V~GdSM~P~i~~G-d~v~v~~~-----~~~~~gdivv~~~~~~~-~~~iKrv~~~~~~~~~~~~~n~~~~~~i~~   69 (70)
T PF00717_consen    1 RVEGDSMEPTIKDG-DIVLVDPS-----SEPKDGDIVVVKIDGDE-ELYIKRVVGEPGGIILISSNNNYPPIYING   69 (70)
T ss_dssp             EEESSTTGGTSSTT-EEEEEEET-----S---TTSEEEEEETTEE-SEEEEEEEEETTEEEEE-SSTTSETEEEST
T ss_pred             CeECcCcccCeeCC-CEEEEEEc-----CCCccCeEEEEEECCce-eeEEEEEEEeCCCEEEEeccCCCCCEEeCC
Confidence            48999999999998 99999985     47899999999976432 389999999999996653 22466777765

; 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 ....

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.42  E-value=3.1e-12  Score=98.63  Aligned_cols=60  Identities=20%  Similarity=0.272  Sum_probs=47.5

Q ss_pred             CCCCcCeEEEEecCCCCC-------------------ceEEEEEEeeCCcEEEEcC------C-----------------
Q 032329           82 KRVSVGDVVVMKDPEKSD-------------------NYIVRRLAAIEGYEMVSTD------E-----------------  119 (143)
Q Consensus        82 ~~~~rGDVVvf~~P~~~~-------------------~~~VKRViglpGD~vv~~~------~-----------------  119 (143)
                      ..++|||+|+|+.|.++.                   ..++|||+|+|||+|...+      +                 
T Consensus        45 ~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRViglpGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~  124 (171)
T TIGR02771        45 KPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRP  124 (171)
T ss_pred             CCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEEEeCCCEEEEECCEEEECCEEcccccccccccCCCc
Confidence            579999999999886432                   2799999999999976521      0                 


Q ss_pred             --CCCCEEecCCcEEEEecCCCCCC
Q 032329          120 --KDEPFVLDKDECWVLADNENMKP  142 (143)
Q Consensus       120 --~~~~~~VP~g~~wVlGDNr~~S~  142 (143)
                        ...+.+||+| ||+||||+.+|-
T Consensus       125 l~~~~~~~vp~g-yf~lgdn~~~S~  148 (171)
T TIGR02771       125 LPPFPEGVIPPG-FFVVHDTSPTSF  148 (171)
T ss_pred             cccCCCcEECCC-EEEECCCCCCCC
Confidence              0135789999 999999999884

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

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

Probab=99.23  E-value=2.8e-12  Score=95.54  Aligned_cols=60  Identities=27%  Similarity=0.444  Sum_probs=14.1

Q ss_pred             CCCCcCeEEEEecCCC------------CCceEEEEEEeeCCcEEEEcCC-----------------------C-CCCEE
Q 032329           82 KRVSVGDVVVMKDPEK------------SDNYIVRRLAAIEGYEMVSTDE-----------------------K-DEPFV  125 (143)
Q Consensus        82 ~~~~rGDVVvf~~P~~------------~~~~~VKRViglpGD~vv~~~~-----------------------~-~~~~~  125 (143)
                      ..+++||+|+|..|..            .+..++|||+|+|||+|...++                       . ....+
T Consensus        20 ~~~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~~~~~d~~g~~l~~~~~~~~   99 (138)
T PF10502_consen   20 DKIERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGEPLATDSDGRPLPQFSGSGT   99 (138)
T ss_dssp             ---------------------------------------------------------------------S-T----TEEE
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCceE
Confidence            3489999999998752            2458899999999999765311                       0 13578


Q ss_pred             ecCCcEEEEecCCCCC
Q 032329          126 LDKDECWVLADNENMK  141 (143)
Q Consensus       126 VP~g~~wVlGDNr~~S  141 (143)
                      ||+|+|||+|||+.+|
T Consensus       100 vp~g~~~v~gd~~~~S  115 (138)
T PF10502_consen  100 VPEGEYFVLGDNRPNS  115 (138)
T ss_dssp             --TTEEEEE-SBTTS-
T ss_pred             eCCCEEEEecCCCCCc
Confidence            9999999999999887

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.

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

Probab=99.22  E-value=1.1e-10  Score=77.65  Aligned_cols=53  Identities=28%  Similarity=0.444  Sum_probs=45.0

Q ss_pred             EEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCC
Q 032329           52 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEG  111 (143)
Q Consensus        52 ~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpG  111 (143)
                      .+.++|+||+|++.+| |.+++++..    ..++.||+++++.+.  +..++||+...++
T Consensus         2 ~~~v~g~SM~P~i~~g-d~v~i~~~~----~~~~~G~iv~~~~~~--~~~~ikrl~~~~~   54 (84)
T cd06462           2 ALRVEGDSMEPTIPDG-DLVLVDKSS----YEPKRGDIVVFRLPG--GELTVKRVIGLPG   54 (84)
T ss_pred             eeEEcCCCccCcccCC-CEEEEEecC----CCCcCCEEEEEEcCC--CcEEEEEEEEECC
Confidence            4679999999999998 999999752    248999999999753  4799999999986

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

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.21  E-value=4.5e-11  Score=92.69  Aligned_cols=61  Identities=21%  Similarity=0.404  Sum_probs=46.2

Q ss_pred             CCCCcCeEEEEecCCCC-------------------CceEEEEEEeeCCcEEEEcCC-----------------------
Q 032329           82 KRVSVGDVVVMKDPEKS-------------------DNYIVRRLAAIEGYEMVSTDE-----------------------  119 (143)
Q Consensus        82 ~~~~rGDVVvf~~P~~~-------------------~~~~VKRViglpGD~vv~~~~-----------------------  119 (143)
                      ..+++||+|+|..|...                   ...++|||+|+|||+|...++                       
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            46899999999866421                   136899999999999765210                       


Q ss_pred             ----CCCCEEecCCcEEEEecCCCCCC
Q 032329          120 ----KDEPFVLDKDECWVLADNENMKP  142 (143)
Q Consensus       120 ----~~~~~~VP~g~~wVlGDNr~~S~  142 (143)
                          .....+||+|+|||+|||+.+|-
T Consensus       129 l~~~~~~~~~lp~g~~fvlgd~~~~S~  155 (178)
T PRK13884        129 LPRYQANSYTLGESELLLMSDVSATSF  155 (178)
T ss_pred             ccccCCCceEECCCEEEEECCCCCCCC
Confidence                01135899999999999999884

>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=99.00  E-value=5.7e-09  Score=69.28  Aligned_cols=68  Identities=25%  Similarity=0.315  Sum_probs=53.6

Q ss_pred             EEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE--cCCCCCCEEecC
Q 032329           52 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS--TDEKDEPFVLDK  128 (143)
Q Consensus        52 ~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~--~~~~~~~~~VP~  128 (143)
                      .+.++|+||+|++++| |.+++++.     ..++.||++++..+   ++.++||+...+++.+..  .++.+++..++.
T Consensus         2 ~~~v~g~sM~p~i~~g-d~lii~~~-----~~~~~g~i~~~~~~---~~~~ikr~~~~~~~~~~L~s~N~~~~~~~~~~   71 (81)
T cd06529           2 ALRVKGDSMEPTIPDG-DLVLVDPS-----DTPRDGDIVVARLD---GELTVKRLQRRGGGRLRLISDNPAYPPIEIDE   71 (81)
T ss_pred             EEEEECCCcCCccCCC-CEEEEcCC-----CCCCCCCEEEEEEC---CEEEEEEEEECCCCcEEEEeCCCCCCCEeeCh
Confidence            4679999999999998 99999874     45899999999964   378999999999655443  344566666664

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=98.80  E-value=3.7e-08  Score=77.50  Aligned_cols=56  Identities=25%  Similarity=0.305  Sum_probs=46.0

Q ss_pred             EEEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEE
Q 032329           51 YLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEM  114 (143)
Q Consensus        51 ~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~v  114 (143)
                      ..+.|.|+||+|++++| |.++|+.-     .+..+||.|++..  .+++.+|||+...+|-.+
T Consensus       124 ~~i~V~GDSMeP~~~~G-d~ilVd~~-----~~~~~gd~v~v~~--~g~~~~VK~l~~~~~~~~  179 (214)
T COG2932         124 FALRVTGDSMEPTYEDG-DTLLVDPG-----VNTRRGDRVYVET--DGGELYVKKLQREPGGLL  179 (214)
T ss_pred             EEEEEeCCcccccccCC-CEEEECCC-----CceeeCCEEEEEE--eCCeEEEEEEEEecCCeE
Confidence            46889999999999998 99999874     4567888666553  357899999999997765

>PRK00215 LexA repressor; Validated

Probab=98.61  E-value=5.5e-07  Score=70.17  Aligned_cols=78  Identities=23%  Similarity=0.296  Sum_probs=58.8

Q ss_pred             cEEEEEeeCCCCc-ccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEE-EcCCCCCCEEe
Q 032329           49 LTYLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMV-STDEKDEPFVL  126 (143)
Q Consensus        49 v~~~~~v~G~SM~-PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv-~~~~~~~~~~V  126 (143)
                      -.+.+.|.|+||. |++.+| |.+++++-     ..++.||+|++...   ++..|||+.-..|.... +.++.++++.+
T Consensus       117 ~~~~~~V~GdSM~~~~i~~G-d~v~v~~~-----~~~~~G~ivv~~~~---~~~~vKrl~~~~~~~~L~s~Np~y~~~~~  187 (205)
T PRK00215        117 EDFLLRVRGDSMIDAGILDG-DLVIVRKQ-----QTARNGQIVVALID---DEATVKRFRREGGHIRLEPENPAYEPIIV  187 (205)
T ss_pred             CeEEEEEccCCCCCCCcCCC-CEEEEeCC-----CCCCCCCEEEEEEC---CEEEEEEEEEeCCEEEEEcCCCCCCCEEe
Confidence            3457889999995 799998 99999863     45789999999863   37899999977554322 23556778888


Q ss_pred             cCCcEEEEe
Q 032329          127 DKDECWVLA  135 (143)
Q Consensus       127 P~g~~wVlG  135 (143)
                      +++.+-+.|
T Consensus       188 ~~~~~~IiG  196 (205)
T PRK00215        188 DPDRVTIEG  196 (205)
T ss_pred             CCCcEEEEE
Confidence            776666665

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=98.60  E-value=6.8e-07  Score=66.28  Aligned_cols=75  Identities=20%  Similarity=0.322  Sum_probs=53.6

Q ss_pred             EEEEeeCCCCc-ccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcE-EEEcCCCCCCEEecC
Q 032329           51 YLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYE-MVSTDEKDEPFVLDK  128 (143)
Q Consensus        51 ~~~~v~G~SM~-PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~-vv~~~~~~~~~~VP~  128 (143)
                      +...|+|+||. |++.+| |.+++++-     ..++.||+|++..   .++..+||+.--+ +. +.+.+..+.++.+.+
T Consensus        52 f~l~V~GdSM~~~~I~~G-D~liVd~~-----~~~~~Gdivv~~~---~g~~~vKrl~~~~-~~~L~s~N~~y~~i~i~~  121 (139)
T PRK10276         52 YFVKASGDSMIDAGISDG-DLLIVDSA-----ITASHGDIVIAAV---DGEFTVKKLQLRP-TVQLIPMNSAYSPITISS  121 (139)
T ss_pred             EEEEEecCCCCCCCCCCC-CEEEEECC-----CCCCCCCEEEEEE---CCEEEEEEEEECC-cEEEEcCCCCCCCEEcCC
Confidence            46889999998 689997 99999863     4578999999975   3568999998653 43 223345566777654


Q ss_pred             -CcEEEEe
Q 032329          129 -DECWVLA  135 (143)
Q Consensus       129 -g~~wVlG  135 (143)
                       +++=+.|
T Consensus       122 ~~~~~IiG  129 (139)
T PRK10276        122 EDTLDVFG  129 (139)
T ss_pred             CCcEEEEE
Confidence             3444443

>TIGR00498 lexA SOS regulatory protein LexA

Probab=98.55  E-value=8.4e-07  Score=68.82  Aligned_cols=78  Identities=21%  Similarity=0.275  Sum_probs=59.2

Q ss_pred             cEEEEEeeCCCCc-ccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEE-EcCCCCCCEEe
Q 032329           49 LTYLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMV-STDEKDEPFVL  126 (143)
Q Consensus        49 v~~~~~v~G~SM~-PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv-~~~~~~~~~~V  126 (143)
                      -...+.+.|+||. |++.+| |.+++++.     ..++.||+|++..   +++..|||+.--+|.... ..++.++++.+
T Consensus       110 ~~f~~~V~GdSM~~~~i~~G-d~v~v~~~-----~~~~~G~ivvv~~---~~~~~vKrl~~~~~~i~L~s~N~~y~~i~~  180 (199)
T TIGR00498       110 AVFLLKVMGDSMVDAGICDG-DLLIVRSQ-----KDARNGEIVAAMI---DGEVTVKRFYKDGTKVELKPENPEFDPIVL  180 (199)
T ss_pred             CEEEEEecCCCCCCCCCCCC-CEEEEecC-----CCCCCCCEEEEEE---CCEEEEEEEEEECCEEEEEcCCCCCcCCcC
Confidence            3458899999996 589997 99999863     4688999999986   467899999876544322 23556777888


Q ss_pred             cCCcEEEEe
Q 032329          127 DKDECWVLA  135 (143)
Q Consensus       127 P~g~~wVlG  135 (143)
                      +++.+-+.|
T Consensus       181 ~~~~~~IiG  189 (199)
T TIGR00498       181 NAEDVTILG  189 (199)
T ss_pred             CCCcEEEEE
Confidence            776777666

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.

>PRK12423 LexA repressor; Provisional

Probab=98.45  E-value=2.3e-06  Score=67.08  Aligned_cols=75  Identities=17%  Similarity=0.210  Sum_probs=55.0

Q ss_pred             EEEEeeCCCCc-ccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE--cCCCCCCEEec
Q 032329           51 YLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS--TDEKDEPFVLD  127 (143)
Q Consensus        51 ~~~~v~G~SM~-PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~--~~~~~~~~~VP  127 (143)
                      +...|.|+||. |+|.+| |.++|++-     ..++.||||++..   .++..+||+.-..+. +..  .+..++++.+.
T Consensus       115 f~l~V~GdSM~~~~i~~G-d~viv~~~-----~~~~~Gdivv~~~---~~~~~vKrl~~~~~~-~~L~s~N~~y~~i~~~  184 (202)
T PRK12423        115 YLLQVQGDSMIDDGILDG-DLVGVHRS-----PEARDGQIVVARL---DGEVTIKRLERSGDR-IRLLPRNPAYAPIVVA  184 (202)
T ss_pred             EEEEEecCcCCCCCcCCC-CEEEEeCC-----CcCCCCCEEEEEE---CCEEEEEEEEEeCCE-EEEEcCCCCCCCEEcC
Confidence            46899999997 799998 99999863     4678999999985   357899999877544 333  34556677765


Q ss_pred             C-CcEEEEe
Q 032329          128 K-DECWVLA  135 (143)
Q Consensus       128 ~-g~~wVlG  135 (143)
                      + ..+=+.|
T Consensus       185 ~~~~~~I~G  193 (202)
T PRK12423        185 PDQDFAIEG  193 (202)
T ss_pred             CCCcEEEEE
Confidence            4 3444443

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

Probab=98.05  E-value=5.8e-06  Score=63.27  Aligned_cols=55  Identities=22%  Similarity=0.247  Sum_probs=42.3

Q ss_pred             EEEeeCCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCC
Q 032329           52 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEG  111 (143)
Q Consensus        52 ~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpG  111 (143)
                      ++.|=+.||+|.++-| |.+++....   ....+.||||||+-+. .+-..|+||+.+-+
T Consensus        50 iVVVLSgSMePaF~RG-DlLfL~N~~---~~p~~vGdivVf~veg-R~IPiVHRviK~he  104 (180)
T KOG3342|consen   50 IVVVLSGSMEPAFHRG-DLLFLTNRN---EDPIRVGDIVVFKVEG-REIPIVHRVIKQHE  104 (180)
T ss_pred             EEEEEcCCcCcccccc-cEEEEecCC---CCcceeccEEEEEECC-ccCchhHHHHHHhc
Confidence            3456789999999997 999886543   2457899999999753 34468999997753

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

Probab=97.52  E-value=0.0013  Score=52.14  Aligned_cols=78  Identities=21%  Similarity=0.219  Sum_probs=57.4

Q ss_pred             cEEEEEeeCCCCcc-cccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE--cCCCCCCEE
Q 032329           49 LTYLYGNKGDQMAP-VMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS--TDEKDEPFV  125 (143)
Q Consensus        49 v~~~~~v~G~SM~P-Tl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~--~~~~~~~~~  125 (143)
                      -.+...|.|+||.. .+.+| |.|+|++     ....+.||||++.-+.  ++.-+||..--.+.. ..  .++.++++.
T Consensus       111 ~~f~L~V~GdSM~~~gi~dG-DlvvV~~-----~~~a~~GdiVvA~i~g--~e~TvKrl~~~g~~i-~L~p~Np~~~~i~  181 (201)
T COG1974         111 ATFFLRVSGDSMIDAGILDG-DLVVVDP-----TEDAENGDIVVALIDG--EEATVKRLYRDGNQI-LLKPENPAYPPIP  181 (201)
T ss_pred             ceEEEEecCCccccCcCCCC-CEEEEcC-----CCCCCCCCEEEEEcCC--CcEEEEEEEEeCCEE-EEEeCCCCCCCcc
Confidence            34578899999975 56665 9999986     3688999999998643  668999998765544 43  355677777


Q ss_pred             ecCCcEEEEe
Q 032329          126 LDKDECWVLA  135 (143)
Q Consensus       126 VP~g~~wVlG  135 (143)
                      +..+.|=++|
T Consensus       182 ~~~~~~~I~G  191 (201)
T COG1974         182 VDADSVTILG  191 (201)
T ss_pred             cCccceEEEE
Confidence            7665666655

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

Probab=94.73  E-value=0.026  Score=43.48  Aligned_cols=60  Identities=22%  Similarity=0.310  Sum_probs=42.6

Q ss_pred             CCCCcCeEEEEecCCC------------CCceEEEEEEeeCCcEEEEcC------C-----------C-------CCCEE
Q 032329           82 KRVSVGDVVVMKDPEK------------SDNYIVRRLAAIEGYEMVSTD------E-----------K-------DEPFV  125 (143)
Q Consensus        82 ~~~~rGDVVvf~~P~~------------~~~~~VKRViglpGD~vv~~~------~-----------~-------~~~~~  125 (143)
                      ..+++||+|++..|+.            ..-.++|||.|+|||+|...+      +           .       ..--.
T Consensus        52 ~Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~D~~GR~lp~~~gcR~  131 (173)
T COG4959          52 APVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPVDRVGRALPRWQGCRY  131 (173)
T ss_pred             CCcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeeccccccCCcCCcccCCce
Confidence            3469999999987763            234579999999999976421      1           0       01112


Q ss_pred             ecCCcEEEEecCCCCC
Q 032329          126 LDKDECWVLADNENMK  141 (143)
Q Consensus       126 VP~g~~wVlGDNr~~S  141 (143)
                      +-++++|+|+|.-+.|
T Consensus       132 l~~~el~lL~~~~~~S  147 (173)
T COG4959         132 LAPSELLLLTDRSSTS  147 (173)
T ss_pred             ecCCeEEEEeccCCcc
Confidence            7788999999987766

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

Probab=86.77  E-value=0.78  Score=33.64  Aligned_cols=12  Identities=50%  Similarity=0.581  Sum_probs=10.2

Q ss_pred             CCCcCeEEEEec
Q 032329           83 RVSVGDVVVMKD   94 (143)
Q Consensus        83 ~~~rGDVVvf~~   94 (143)
                      ...+||+|+|++
T Consensus        84 ~~~~GD~i~~~~   95 (166)
T COG0681          84 IGLRGDIVVFKD   95 (166)
T ss_pred             ccCCCCEEEEEC
Confidence            457899999997

>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3

Probab=80.34  E-value=8  Score=29.20  Aligned_cols=81  Identities=12%  Similarity=0.104  Sum_probs=50.4

Q ss_pred             hHHHHHHhhheeeeeeeeeeccCCCcchhHHHHHHHHHHHh-hhccEEEEEeeCCCCcccccCCCcEEEEEeecCCCCCC
Q 032329            5 STWFRYIANKLEYSVSISWKSYTRGQINDIELRDSVWKYLF-QGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKR   83 (143)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~~~~   83 (143)
                      =.||+-.++++.|+|+.++.....      -|...+...+. .++...-......+|...|... -...+..-.   ...
T Consensus         6 I~w~~~r~~~v~YSm~~R~G~~s~------DCSs~V~~ALr~aG~~~~g~~~nT~tl~~~L~~~-G~~~I~~~~---~~~   75 (145)
T PF05382_consen    6 INWMEARKGKVTYSMDSRNGPDSY------DCSSFVYQALRAAGFKIPGSAGNTETLHDWLKKN-GFKKISENV---DWN   75 (145)
T ss_pred             HHHHHHhcCCceEhhhhcCCCCcC------chHHHHHHHHHHcCCCCCCCccCHHHHHHHHhhC-CcEEeccCC---ccc
Confidence            369999999999998866665432      34444444332 2222222235678898888876 354453311   147


Q ss_pred             CCcCeEEEEecC
Q 032329           84 VSVGDVVVMKDP   95 (143)
Q Consensus        84 ~~rGDVVvf~~P   95 (143)
                      +|+|||++....
T Consensus        76 ~q~GDI~I~g~~   87 (145)
T PF05382_consen   76 LQRGDIFIWGRR   87 (145)
T ss_pred             ccCCCEEEEcCC
Confidence            899999998644

5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	143
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	99.94
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	99.18
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	99.08
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	98.96
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	98.95
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	98.82
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	98.66
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	97.06

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

Probab=99.94  E-value=5e-27  Score=187.45  Aligned_cols=71  Identities=20%  Similarity=0.224  Sum_probs=61.8

Q ss_pred             hhhccEEEEEeeCCCCcccccCCCcEEEEEeecCCC-----------CCCCCcCeEEEEecCCCCCceEEEEEEeeCCcE
Q 032329           45 FQGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAAD-----------PKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYE  113 (143)
Q Consensus        45 ~~~~v~~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~-----------~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~  113 (143)
                      ++.|+++++.|+|+||+|||++| |+|+|+|+.+..           ...+++||||+|+.|.+++..+||||+|+|||+
T Consensus         1 ir~fv~~~~~v~g~SM~Ptl~~G-D~vlv~k~~yg~r~P~~~~~l~~~~~~~rGDIvvf~~p~~~~~~~iKRViglpGD~   79 (248)
T 1b12_A            1 VRSFIYEPFQIPSGSMMPTLLIG-DFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDK   79 (248)
T ss_dssp             -CBCCEEEEECCSCTTTTTSCTT-EEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCE
T ss_pred             CeEEEEEEEEeccccccccccCC-CEEEEEecccCcccccccccccccCCCCCCcEEEEEeCCCCCceEEEEEEeeCCCE
Confidence            46789999999999999999998 999999976421           147899999999999888889999999999999


Q ss_pred             EEE
Q 032329          114 MVS  116 (143)
Q Consensus       114 vv~  116 (143)
                      |..
T Consensus        80 v~i   82 (248)
T 1b12_A           80 VTY   82 (248)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            764

>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=99.18  E-value=1.8e-10  Score=81.32  Aligned_cols=77  Identities=19%  Similarity=0.321  Sum_probs=58.0

Q ss_pred             EEEEEeeCCCCcc-cccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEcCCCCCCEEecC
Q 032329           50 TYLYGNKGDQMAP-VMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDK  128 (143)
Q Consensus        50 ~~~~~v~G~SM~P-Tl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~~~~~~~~~VP~  128 (143)
                      ...+.|.|+||+| ||.+| |.+++++.     ..++.||||++..+   ++.++||++..++=.+...+..++++.+++
T Consensus        27 ~~~~~v~GdSM~p~~i~~G-d~v~vd~~-----~~~~~gdivv~~~~---~~~~vKr~~~~~~~~L~s~N~~y~~~~i~~   97 (116)
T 1umu_A           27 TYFVKASGDSMIDGGISDG-DLLIVDSA-----ITASHGDIVIAAVD---GEFTVKKLQLRPTVQLIPMNSAYSPITISS   97 (116)
T ss_dssp             EEEEECCSSTTGGGTCCTT-CEEEEETT-----SCCCTTCEEEEEET---TEEEEEEEECSSSCEEECSSTTSCCEECCT
T ss_pred             EEEEEECCCCcCCCCCCCC-CEEEEEcC-----CCCCCCCEEEEEEC---CEEEEEEEEeCCcEEEECCCCCCCCEEcCC
Confidence            3578899999999 89998 99999874     35899999999863   478999999977222233455677888865


Q ss_pred             C-cEEEEe
Q 032329          129 D-ECWVLA  135 (143)
Q Consensus       129 g-~~wVlG  135 (143)
                      + .+-+.|
T Consensus        98 ~~~~~IiG  105 (116)
T 1umu_A           98 EDTLDVFG  105 (116)
T ss_dssp             TSCEEEEE
T ss_pred             CCeEEEEE
Confidence            3 444444

>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=99.08  E-value=1e-09  Score=77.16  Aligned_cols=69  Identities=16%  Similarity=0.246  Sum_probs=53.2

Q ss_pred             EEEEeeCCCCc------ccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE-cCCCCCC
Q 032329           51 YLYGNKGDQMA------PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS-TDEKDEP  123 (143)
Q Consensus        51 ~~~~v~G~SM~------PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~-~~~~~~~  123 (143)
                      ..+.|.|+||+      |||.+| |.+++++.     ..++.||||++..+.  ++.+|||++..+|..... .+..+.+
T Consensus        14 f~~~V~GdSM~~~~g~~p~i~~G-d~v~Vd~~-----~~~~~Gdivv~~~~~--~~~~vKrl~~~~~~~~L~s~N~~y~~   85 (109)
T 1kca_A           14 FWLEVEGNSMTAPTGSKPSFPDG-MLILVDPE-----QAVEPGDFCIARLGG--DEFTFKKLIRDSGQVFLQPLNPQYPM   85 (109)
T ss_dssp             EEEECCSSTTCCCTTCSSCCCTT-CEEEEETT-----SCCCTTCEEEEECST--TCEEEEEEEEETTEEEEECSSTTSCC
T ss_pred             EEEEEeCcCcCCCCCCCCeeCCC-CEEEEecC-----CcCCCCCEEEEEECC--CeEEEEEEEEeCCEEEEEECCCCCCC
Confidence            46789999999      999998 99999874     468999999998642  578999999876654222 3445666


Q ss_pred             EEec
Q 032329          124 FVLD  127 (143)
Q Consensus       124 ~~VP  127 (143)
                      +.++
T Consensus        86 ~~~~   89 (109)
T 1kca_A           86 IPCN   89 (109)
T ss_dssp             EECC
T ss_pred             EEcC
Confidence            6664

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

Probab=98.96  E-value=6.7e-09  Score=75.00  Aligned_cols=76  Identities=16%  Similarity=0.255  Sum_probs=56.8

Q ss_pred             EEEEeeCCCCc------ccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE-cCCCCCC
Q 032329           51 YLYGNKGDQMA------PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS-TDEKDEP  123 (143)
Q Consensus        51 ~~~~v~G~SM~------PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~-~~~~~~~  123 (143)
                      ..+.|.|+||.      |+|.+| |.+++++.     ..++.||+|++...  .++.++||++..+|..... .+..+.+
T Consensus        45 f~~~V~GdSM~~~~g~~p~i~~G-d~v~vd~~-----~~~~~Gdivv~~~~--~~~~~vKrl~~~~~~~~L~s~N~~y~~  116 (133)
T 2hnf_A           45 FWLEVEGNSMTTPTGSKTSFPDG-MLILVDPE-----QAVEPGDFCIARLG--GDEFTFAKLIRDSGQVFLQPLNPQYPM  116 (133)
T ss_dssp             EEEECCSSTTCCC---CCCCCTT-CEEEEETT-----SCCCTTSEEEEEET--TTEEEEEEEEEETTEEEEECSSTTSCC
T ss_pred             EEEEEeCCCcCCCcCCCCccCCC-CEEEEccC-----CCCCCCCEEEEEEC--CCEEEEEEEEEeCCeEEEEECCCCCCC
Confidence            47889999999      999998 99999973     46899999999864  2578999999876643222 3445666


Q ss_pred             EEecCCcEEEEe
Q 032329          124 FVLDKDECWVLA  135 (143)
Q Consensus       124 ~~VP~g~~wVlG  135 (143)
                      +.++ +++-+.|
T Consensus       117 ~~~~-~~~~IiG  127 (133)
T 2hnf_A          117 IPCN-ESCSVVG  127 (133)
T ss_dssp             EECS-TTEEEEE
T ss_pred             EEcC-CCCEEEE
Confidence            7665 4455554

>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=98.95  E-value=6.4e-09  Score=79.15  Aligned_cols=75  Identities=25%  Similarity=0.321  Sum_probs=58.3

Q ss_pred             EEEEeeCCCCccc-ccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEc--CCCCCCEEec
Q 032329           51 YLYGNKGDQMAPV-MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVST--DEKDEPFVLD  127 (143)
Q Consensus        51 ~~~~v~G~SM~PT-l~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~--~~~~~~~~VP  127 (143)
                      ..+.|.|+||.|+ |.+| |.+++++.     ..++.||||++..   +++..|||+. .+|+.+...  +..++++.++
T Consensus       111 ~~~~v~GdSM~p~~i~~G-d~v~vd~~-----~~~~~G~i~v~~~---~~~~~vKrl~-~~~~~~~l~s~N~~y~~~~~~  180 (202)
T 1jhf_A          111 FLLRVSGMSMKDIGIMDG-DLLAVHKT-----QDVRNGQVVVARI---DDEVTVKRLK-KQGNKVELLPENSEFKPIVVD  180 (202)
T ss_dssp             EEEECCSSTTGGGTCCTT-CEEEEEEC-----SCCCTTSEEEEEE---TTEEEEEEEE-EETTEEEEECSSTTCCCEEEE
T ss_pred             EEEEECCCCCCCCCCCCC-CEEEEecc-----CCcCCCeEEEEEE---CCEEEEEEEE-EeCCEEEEEECCCCCCCEEcc
Confidence            4788999999999 9998 99999874     4588999999986   3679999999 577775443  4567788887


Q ss_pred             C--CcEEEEe
Q 032329          128 K--DECWVLA  135 (143)
Q Consensus       128 ~--g~~wVlG  135 (143)
                      .  +++-+.|
T Consensus       181 ~~~~~~~IiG  190 (202)
T 1jhf_A          181 LRQQSFTIEG  190 (202)
T ss_dssp             TTTSCEEEEE
T ss_pred             CCCCceEEEE
Confidence            3  3455544

>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=98.82  E-value=2.3e-08  Score=76.20  Aligned_cols=77  Identities=14%  Similarity=0.214  Sum_probs=60.3

Q ss_pred             EEEEEeeCCCC-cccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE-cCCCCCCEEec
Q 032329           50 TYLYGNKGDQM-APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS-TDEKDEPFVLD  127 (143)
Q Consensus        50 ~~~~~v~G~SM-~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~-~~~~~~~~~VP  127 (143)
                      .+.+.|.|+|| +|++.+| |.+++++.     ..++.||||++..   +++..|||+.-.+|..... .+..++++.++
T Consensus       109 ~f~l~v~GdSM~~p~i~~G-D~viv~~~-----~~~~~G~ivv~~~---~~~~~vKr~~~~~~~~~L~~~N~~y~~i~i~  179 (196)
T 3k2z_A          109 HFLLKVKGESMIEEHICDG-DLVLVRRQ-----DWAQNGDIVAAMV---DGEVTLAKFYQRGDTVELRPANREMSSMFFR  179 (196)
T ss_dssp             EEEEECCSSTTGGGTCCTT-CEEEEEEC-----SCCCTTCEEEEEE---TTEEEEEEEEEETTEEEEECSCTTSCCEEEE
T ss_pred             EEEEEEeCCCcCCCCCCCC-CEEEEecc-----CcCCCCCEEEEEE---CCcEEEEEEEEECCEEEEEECCCCCCCEEec
Confidence            45789999999 6999998 99999984     4678999999985   2589999998876643222 35567888888


Q ss_pred             CCcEEEEe
Q 032329          128 KDECWVLA  135 (143)
Q Consensus       128 ~g~~wVlG  135 (143)
                      .+++-+.|
T Consensus       180 ~~~~~i~G  187 (196)
T 3k2z_A          180 AEKVKILG  187 (196)
T ss_dssp             GGGCEEEE
T ss_pred             CCCEEEEE
Confidence            77776666

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

Probab=98.66  E-value=5.5e-08  Score=75.00  Aligned_cols=76  Identities=17%  Similarity=0.301  Sum_probs=55.6

Q ss_pred             EEEEeeCCCCc------ccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE-cCCCCCC
Q 032329           51 YLYGNKGDQMA------PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS-TDEKDEP  123 (143)
Q Consensus        51 ~~~~v~G~SM~------PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~-~~~~~~~  123 (143)
                      ..+.|.|+||.      |+|.+| |.|+|++-     ..++.||+|++..  +.++..|||+...+|..+.. .++.+++
T Consensus       141 ~~l~V~GdSM~~~~g~~P~i~~G-d~v~vd~~-----~~~~~g~ivv~~~--~~~~~~vKrl~~~~~~~~L~s~N~~y~~  212 (236)
T 3bdn_A          141 FWLEVEGNSMTAPTGSKPSFPDG-MLILVDPE-----QAVEPGDFCIARL--GGDEFTFKKLIRGSGQVFLQPLNPQYPM  212 (236)
T ss_dssp             EEEECCSSSSCCCSSCSSCCCSS-CEEEECCS-----SCCCTTSEEEEES--TTTCCCCEEEECCSSSCEEECSSTTSCC
T ss_pred             EEEEEeCCCcCCCCCCCCcCCCC-CEEEECCC-----CCCCCCcEEEEEE--CCCeEEEEEEEEcCCcEEEEeCCCCCCC
Confidence            46789999999      999998 99999874     4688999999985  34578999999877765333 3445666


Q ss_pred             EEecCCcEEEEe
Q 032329          124 FVLDKDECWVLA  135 (143)
Q Consensus       124 ~~VP~g~~wVlG  135 (143)
                      +.++ +++-+.|
T Consensus       213 ~~~~-~~~~IiG  223 (236)
T 3bdn_A          213 IPCN-ESCSVVG  223 (236)
T ss_dssp             BC---CCCEEEE
T ss_pred             eecC-CCcEEEE
Confidence            6665 3444444

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

Probab=97.06  E-value=0.0026  Score=46.92  Aligned_cols=68  Identities=15%  Similarity=0.118  Sum_probs=47.8

Q ss_pred             CCCCcccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEcCCCCCCEEecCCcEEEEe
Q 032329           57 GDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLA  135 (143)
Q Consensus        57 G~SM~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~~~~~~~~~VP~g~~wVlG  135 (143)
                      +.+|...-.+| |.|+|++-      .+..|+|+++..   +++.+|||+.-.+|+.+...+.+. ++.++.+++-+.|
T Consensus       112 ~~~~~~v~~~G-d~v~Vd~~------~~~~g~i~vv~~---~g~~~vKrl~~~~~~~i~L~s~N~-~~~i~~~~i~IiG  179 (189)
T 2fjr_A          112 LTDGMAIRSEG-KIYFVDKQ------ASLSDGLWLVDI---KGAISIRELTKLPGRKLHVAGGKV-PFECGIDDIKTLG  179 (189)
T ss_dssp             CSSEEEEEETT-EEEEEETT------CCSCSEEEEEEE---TTEEEEEEEEEETTTEEEEESSSS-CEEEETTSSEEEE
T ss_pred             CCCeEEEeeCC-cEEEEEcC------CccCCCEEEEEe---CCeEEEEEEEECCCCEEEEEeCCC-CeEecccceEEEE
Confidence            45666655666 99999873      356799999985   357899999999887754433332 6777766655554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	143
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	99.94
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	98.83
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	98.82
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	98.79

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

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

Probab=99.94  E-value=5e-27  Score=183.47  Aligned_cols=70  Identities=20%  Similarity=0.227  Sum_probs=62.1

Q ss_pred             hhccEEEEEeeCCCCcccccCCCcEEEEEeecCCC-----------CCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEE
Q 032329           46 QGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAAD-----------PKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEM  114 (143)
Q Consensus        46 ~~~v~~~~~v~G~SM~PTl~~ggD~Vlv~k~~~~~-----------~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~v  114 (143)
                      ++|+++++.|++.||+|||..| |+|+|+|++|.+           ...+++||||+|+.|.++...+||||+|+|||+|
T Consensus         1 R~f~~~~f~IPs~SMePTL~~G-D~l~V~K~~Yg~r~P~~~~~~~~~~~~~rgdivvf~~p~~~~~~~ikR~ig~pGD~i   79 (247)
T d1b12a_           1 RSFIYEPFQIPSGSMMPTLLIG-DFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKV   79 (247)
T ss_dssp             CBCCEEEEECCSCTTTTTSCTT-EEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCEE
T ss_pred             CEEEEEEEEeCcccccchhccC-CEEEEEccccCccCCccCcccccccCcccCceeeecCCCCCCccccccccCCCCCeE
Confidence            4689999999999999999998 999999987642           1356999999999999999999999999999997


Q ss_pred             EE
Q 032329          115 VS  116 (143)
Q Consensus       115 v~  116 (143)
                      ..
T Consensus        80 ~~   81 (247)
T d1b12a_          80 TY   81 (247)
T ss_dssp             EE
T ss_pred             EE
Confidence            53

>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=98.83  E-value=2e-08  Score=70.49  Aligned_cols=76  Identities=24%  Similarity=0.282  Sum_probs=57.0

Q ss_pred             EEEEeeCCCCccc-ccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE-cCCCCCCEEec-
Q 032329           51 YLYGNKGDQMAPV-MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS-TDEKDEPFVLD-  127 (143)
Q Consensus        51 ~~~~v~G~SM~PT-l~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~-~~~~~~~~~VP-  127 (143)
                      +..+|.|+||.|+ +.+| |.+++++-     ..++.||||++..   +++..|||+.-.+|..... .+..+.++.++ 
T Consensus        39 f~lrV~GdSM~~~~i~~g-d~viv~~~-----~~~~~G~ivv~~~---~ge~~vKrl~~~~~~~~L~s~N~~y~pi~~~~  109 (126)
T d1jhfa2          39 FLLRVSGMSMKDIGIMDG-DLLAVHKT-----QDVRNGQVVVARI---DDEVTVKRLKKQGNKVELLPENSEFKPIVVDL  109 (126)
T ss_dssp             EEEECCSSTTGGGTCCTT-CEEEEEEC-----SCCCTTSEEEEEE---TTEEEEEEEEEETTEEEEECSSTTCCCEEEET
T ss_pred             EEEEEcCCcccCcccCCC-EEEEEecc-----ccccCCCEEEEEE---CCEEEEEEEEEcCCEEEEecCCcCCCCeEccC
Confidence            4678999999998 8887 99999873     5789999999996   3579999999876654222 34566777664 


Q ss_pred             -CCcEEEEe
Q 032329          128 -KDECWVLA  135 (143)
Q Consensus       128 -~g~~wVlG  135 (143)
                       +..+-+.|
T Consensus       110 ~~~~~~IiG  118 (126)
T d1jhfa2         110 RQQSFTIEG  118 (126)
T ss_dssp             TTSCEEEEE
T ss_pred             CCCcEEEEE
Confidence             34455544

>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=98.82  E-value=1.6e-08  Score=69.45  Aligned_cols=77  Identities=21%  Similarity=0.333  Sum_probs=58.7

Q ss_pred             EEEEEeeCCCC-cccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEEcCCCCCCEEecC
Q 032329           50 TYLYGNKGDQM-APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDK  128 (143)
Q Consensus        50 ~~~~~v~G~SM-~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~~~~~~~~~~VP~  128 (143)
                      .+..+|.|+|| .|.+.+| |.+++++.     ..++.||||++.-   +++..|||+.--++-.+...++.++++.+.+
T Consensus        20 ~f~~rV~GdSM~~~gI~~G-DlliVd~~-----~~~~~g~ivva~i---~ge~~vKrl~~~~~~~L~~~N~~y~~i~i~~   90 (105)
T d1umua_          20 TYFVKASGDSMIDGGISDG-DLLIVDSA-----ITASHGDIVIAAV---DGEFTVKKLQLRPTVQLIPMNSAYSPITISS   90 (105)
T ss_dssp             EEEEECCSSTTGGGTCCTT-CEEEEETT-----SCCCTTCEEEEEE---TTEEEEEEEECSSSCEEECSSTTSCCEECCT
T ss_pred             eEEEEEcCCccccCccCCC-CEEEEEcc-----cccccCcEEEEEE---CCEEEEEEEEECCcEEEECCCCCCCCEEcCC
Confidence            35788999999 5889997 99999984     5788999999996   4679999987543333334466788888865


Q ss_pred             -CcEEEEe
Q 032329          129 -DECWVLA  135 (143)
Q Consensus       129 -g~~wVlG  135 (143)
                       +++-+.|
T Consensus        91 ~~~~~I~G   98 (105)
T d1umua_          91 EDTLDVFG   98 (105)
T ss_dssp             TSCEEEEE
T ss_pred             CCCEEEEE
Confidence             4676666

>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=98.79  E-value=3.7e-08  Score=66.75  Aligned_cols=70  Identities=16%  Similarity=0.252  Sum_probs=53.0

Q ss_pred             EEEEeeCCCC------cccccCCCcEEEEEeecCCCCCCCCcCeEEEEecCCCCCceEEEEEEeeCCcEEEE-cCCCCCC
Q 032329           51 YLYGNKGDQM------APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS-TDEKDEP  123 (143)
Q Consensus        51 ~~~~v~G~SM------~PTl~~ggD~Vlv~k~~~~~~~~~~rGDVVvf~~P~~~~~~~VKRViglpGD~vv~-~~~~~~~  123 (143)
                      +...|.|+||      +|+|.+| |.|+|++-     ..++.||+|++..  +.++..+||+.-.+|..... .++.+++
T Consensus         6 F~l~V~GdSM~~~~~~ep~i~~G-d~viVd~~-----~~~~~g~ivva~~--~~~~~~vKr~~~~~~~~~L~s~N~~y~~   77 (101)
T d1f39a_           6 FWLEVEGNSMTAPTGSKPSFPDG-MLILVDPE-----QAVEPGDFCIARL--GGDEFTFKKLIRDSGQVFLQPLNPQYPM   77 (101)
T ss_dssp             EEEECCSSTTCCCTTCSSCCCTT-CEEEEETT-----SCCCTTCEEEEEC--TTSCEEEEEEEEETTEEEEECSSTTSCC
T ss_pred             EEEEEeCCccCCCcccCCCcCCC-CEEEEEec-----CccCCCCEEEEEE--CCCeEEEEEEEEcCCEEEEEECCCCCCC
Confidence            4678999999      8999998 99999873     5789999998875  34567899998776654322 3455667


Q ss_pred             EEecC
Q 032329          124 FVLDK  128 (143)
Q Consensus       124 ~~VP~  128 (143)
                      +.+.+
T Consensus        78 i~~~~   82 (101)
T d1f39a_          78 IPCNE   82 (101)
T ss_dssp             EECST
T ss_pred             CcCCC
Confidence            76654