Citrus Sinensis ID: 030087

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180---
Protein Sequence
MVSLSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMKNHKA
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHEEEEEEEEcEEEEEEEEEcccccccccccccEEEEEEcccccccccccccEEEEcccccccccEEEEEEEEcccEEEEcccccccEEEccccEEEEEcccccccccccccccccccccccEEEEEEEEEccccccccccccccccccccccccccccHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHccEEEEEEEEcccEEEEEEcccccccccccccccEEEEEEEccccccccccccEEEEEcccccccEEEEEEEEEcccEEEccccccccEEEccccEEEEEccccccccccccccccccccHHHEEEEEEEEEEcccccccccccHHHccccccEEEEEEcHHHHHHcccc
Coil and Loop (DISEMBL)
MVSLSTWFRYIANKLEYSVSISWKgkltylygnkgdqmapvmgglGGTLLVrklpaadpkrvsvgdvvvmkdpeksdnYIVRRLAAIEGyemvstdekdepfvldkdecwvladnenmkpkeandsrtfgpvpmrniVGRAIYCLRTavdhgpvqnsndsmrkdspvleVELDVDEMMKNHKA
Flexible Loop (DISEMBL)
MVSLSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKlpaadpkrvsvgdvvvmkdpeksdnyiVRRLAAIEGYemvstdekdepfvLDKDECWVLadnenmkpkeandsrtfgpvpMRNIVGRAIYCLRTAVDhgpvqnsndsmrkdspvleveldvdemmknhka
Low Complexity Region (SEG)
MVSLSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMKNHKA
Disordered region (IsUnstruct)
***LSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLA****************GPVPMRNIVGRAIYCLRTAVD*********************************
Disordered Region (DISOPRED)
**SLSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDS*RKDSPVLEVELD**********
Disordered Region (DISEMBL)
MVSLSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMKNHKA
Disordered Region (DISPRO)
**SLSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMKN***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVSLSTWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMKNHKA
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	183	2.2.26 [Sep-21-2011]
O74800	157	Mitochondrial inner membr	yes	no	0.579	0.675	0.288	1e-05
Q9CQU8	166	Mitochondrial inner membr	yes	no	0.530	0.584	0.269	0.0001
Q96LU5	166	Mitochondrial inner membr	yes	no	0.513	0.566	0.267	0.0003
Q28I39	167	Mitochondrial inner membr	yes	no	0.513	0.562	0.308	0.0005

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

 Score = 49.7 bits (117), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/111 (28%), Positives = 49/111 (44%), Gaps = 5/111 (4%)

Query: 33  NKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEM 92
             G  M P +   G  +L+ KL     +  SVGDVVV   P  S  ++ +R+  + G  +
Sbjct: 31  TSGPSMMPTLNSGGEFVLLDKLHGRFARSCSVGDVVVSAKPSDSKQHVCKRIIGMPGDTI 90

Query: 93  -VSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAI 142
            V     ++   +     W+  DN       + DSR +GPVPM  I  + I
Sbjct: 91  YVDPTSSNKKITIPLGHVWLAGDNI----AHSLDSRNYGPVPMGLIKAKVI 137

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: -

>sp|Q9CQU8|IMP1L_MOUSE Mitochondrial inner membrane protease subunit 1 OS=Mus musculus GN=Immp1l PE=2 SV=1

 Score = 46.2 bits (108), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 28/104 (26%), Positives = 50/104 (48%), Gaps = 7/104 (6%)

Query: 62  VSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKD---EPFVLDKDECWVLADNENM 118
           +  GD+V+ K P    + I +R+  +EG +++ST   D       +     W+  DN   
Sbjct: 63  IQRGDIVIAKSPSDPKSNICKRVIGLEGDKILSTSPSDVFKSRSYVPTGHVWLEGDNL-- 120

Query: 119 KPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMR 162
             + + DSR +GP+P   I GR  + +    D G +++S +  R
Sbjct: 121 --QNSTDSRYYGPIPYGLIRGRIFFKIWPFSDFGFLRDSPNGQR 162

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. Known to process the nuclear encoded protein DIABLO.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q96LU5|IMP1L_HUMAN Mitochondrial inner membrane protease subunit 1 OS=Homo sapiens GN=IMMP1L PE=2 SV=1

 Score = 44.7 bits (104), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/101 (26%), Positives = 48/101 (47%), Gaps = 7/101 (6%)

Query: 65  GDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKD---EPFVLDKDECWVLADNENMKPK 121
           GD+V+ K P    + I +R+  +EG ++++T   D       +     W+  DN     +
Sbjct: 66  GDIVIAKSPSDPKSNICKRVIGLEGDKILTTSPSDFFKSHSYVPMGHVWLEGDNL----Q 121

Query: 122 EANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMR 162
            + DSR +GP+P   I GR  + +    D G ++ S +  R
Sbjct: 122 NSTDSRCYGPIPYGLIRGRIFFKIWPLSDFGFLRASPNGHR 162

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. Known to process the nuclear encoded protein DIABLO.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q28I39|IMP1L_XENTR Mitochondrial inner membrane protease subunit 1 OS=Xenopus tropicalis GN=immp1l PE=2 SV=1

 Score = 43.9 bits (102), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 53/107 (49%), Gaps = 13/107 (12%)

Query: 65  GDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDE----KDEPFVLDKDECWVLADNENMKP 120
           GD++V K P+K    I +R+  +EG ++  +      K   +V  K   W+  DN +   
Sbjct: 66  GDIIVAKSPDKPSVNICKRVIGLEGDKVCMSSPSALLKRHTYV-PKGHVWLEGDNLD--- 121

Query: 121 KEANDSRTFGPVPMRNIVGRAIYCLRT--AVDHGPVQNSNDSMRKDS 165
             + DSR++GPVP   I GR   CLR       GP++ S +   +D+
Sbjct: 122 -NSTDSRSYGPVPYALIRGRI--CLRVWPLESFGPLKESPNGRIQDN 165

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.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

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	183
224082818	205	predicted protein [Populus trichocarpa]	1.0	0.892	0.717	5e-79
224066245	205	predicted protein [Populus trichocarpa]	1.0	0.892	0.712	2e-78
225438115	205	PREDICTED: mitochondrial inner membrane	1.0	0.892	0.707	4e-78
388510892	205	unknown [Lotus japonicus]	1.0	0.892	0.702	3e-75
449462419	205	PREDICTED: mitochondrial inner membrane	1.0	0.892	0.663	4e-74
449462417	211	PREDICTED: mitochondrial inner membrane	1.0	0.867	0.644	2e-72
297744155	244	unnamed protein product [Vitis vinifera]	1.0	0.75	0.581	8e-70
38344766	206	OSJNBa0068L06.9 [Oryza sativa Japonica G	0.994	0.883	0.648	5e-69
357166900	206	PREDICTED: uncharacterized protein LOC10	0.994	0.883	0.634	2e-68
294461116	205	unknown [Picea sitchensis]	1.0	0.892	0.609	5e-68

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

 Score =  298 bits (764), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 147/205 (71%), Positives = 166/205 (80%), Gaps = 22/205 (10%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKGDQM 38
           MVS+STWFRYIANKL+YSVS+S+K                      GKLT+L+ NKG +M
Sbjct: 1   MVSVSTWFRYIANKLDYSVSLSYKSYKGGLINDKEVVDSVWKNLLQGKLTFLHWNKGQEM 60

Query: 39  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 98
           AP +G  GGTLLVRKLP+ADP RV VGDVV++KDPEKSDN++VRRLAAIEGYEM STDEK
Sbjct: 61  APTIGDQGGTLLVRKLPSADPMRVFVGDVVLLKDPEKSDNFLVRRLAAIEGYEMASTDEK 120

Query: 99  DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSN 158
           DEPFVLDKDECWVLADNE +K KEANDSR FGP+ M NIVGR IYCL+TAVDHGPVQNS+
Sbjct: 121 DEPFVLDKDECWVLADNEKLKAKEANDSRKFGPISMSNIVGRVIYCLQTAVDHGPVQNSH 180

Query: 159 DSMRKDSPVLEVELDVDEMMKNHKA 183
            S RKDSPVLEVELDV+EM K+HKA
Sbjct: 181 FSSRKDSPVLEVELDVEEMAKHHKA 205

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 =  296 bits (759), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 146/205 (71%), Positives = 165/205 (80%), Gaps = 22/205 (10%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKGDQM 38
           M SLSTW RYIA+K EYS+S+S+K                      GKLT+L+ NKG +M
Sbjct: 1   MASLSTWCRYIAHKFEYSLSLSYKSYKGGIINNKEVYDTVWKNLFQGKLTFLHWNKGQEM 60

Query: 39  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 98
           AP +G  GGTLLVRKLP ADP RV VGDVV++KDPEKSDN++VRRLAAIEGYEMVSTDEK
Sbjct: 61  APTIGDQGGTLLVRKLPTADPMRVFVGDVVLLKDPEKSDNFLVRRLAAIEGYEMVSTDEK 120

Query: 99  DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSN 158
           D+PFVLDKDECWVLADN+ +KPKEANDSRTFG + M NIVGR IYCL+TAVDHGPVQNS+
Sbjct: 121 DDPFVLDKDECWVLADNDKLKPKEANDSRTFGSISMSNIVGRVIYCLQTAVDHGPVQNSH 180

Query: 159 DSMRKDSPVLEVELDVDEMMKNHKA 183
            SMRKDSPVLEVELDV+EM KNHKA
Sbjct: 181 FSMRKDSPVLEVELDVEEMAKNHKA 205

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  295 bits (756), Expect = 4e-78,   Method: Compositional matrix adjust.
 Identities = 145/205 (70%), Positives = 164/205 (80%), Gaps = 22/205 (10%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKGDQM 38
           MVSLSTW RYIA+KLEYS+SISWK                      GKLTYL+ NKG +M
Sbjct: 1   MVSLSTWCRYIAHKLEYSISISWKSYKGGQISDREVGDVVWKNLFQGKLTYLHWNKGGEM 60

Query: 39  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 98
           AP +G  GGTLLVRKLPAADP RV VGDVVV+KDPE+SDNY+VRRLAA+EGYEM STDEK
Sbjct: 61  APTIGEQGGTLLVRKLPAADPTRVFVGDVVVLKDPEESDNYLVRRLAAVEGYEMGSTDEK 120

Query: 99  DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSN 158
           DEPFVL+KD+CWVL+DNE +KP +ANDSR FGPVPM +IVGR IYCLRTAVDHG VQNS+
Sbjct: 121 DEPFVLEKDQCWVLSDNETLKPTQANDSRIFGPVPMSDIVGRVIYCLRTAVDHGRVQNSH 180

Query: 159 DSMRKDSPVLEVELDVDEMMKNHKA 183
            SMRKD+PVLE+ELDVDEM + HK 
Sbjct: 181 FSMRKDTPVLEIELDVDEMARRHKT 205

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  286 bits (731), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 144/205 (70%), Positives = 159/205 (77%), Gaps = 22/205 (10%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKGDQM 38
           MVSLSTWFRYI  KLEYSVS+SWK                      GKLTYL+ N+G++M
Sbjct: 1   MVSLSTWFRYIGYKLEYSVSLSWKNYKRGQIGEGEVRDLVWKNFFQGKLTYLHWNQGEEM 60

Query: 39  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 98
           AP + G   TLLVRKLP ADP RV VGDVVV+KDP K DNY+VRRLAA+EGYEM STDEK
Sbjct: 61  APTIAGKVATLLVRKLPNADPTRVFVGDVVVLKDPWKPDNYLVRRLAAVEGYEMASTDEK 120

Query: 99  DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSN 158
           DEPFVL+KD+CWV+A+NE  KPKEANDSRTFGPV M +IVGR IYCLR AVDHG VQNS+
Sbjct: 121 DEPFVLEKDQCWVVAENEKFKPKEANDSRTFGPVQMTDIVGRVIYCLRNAVDHGRVQNSH 180

Query: 159 DSMRKDSPVLEVELDVDEMMKNHKA 183
            SM KDSPVLEVELDVDEM KNHKA
Sbjct: 181 YSMPKDSPVLEVELDVDEMAKNHKA 205

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

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 =  282 bits (722), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 136/205 (66%), Positives = 161/205 (78%), Gaps = 22/205 (10%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKGDQM 38
           M S STW RYIANKLE+SVS+SWK                      GKLTYL+  KG +M
Sbjct: 1   MASFSTWLRYIANKLEFSVSLSWKNYKGGRITDREVGHAVWKNLLQGKLTYLHWIKGQEM 60

Query: 39  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 98
           AP +G  GGTLLVRKLP AD   V +GDVVV+K+PEK +NY+VRRLAA+EG+EM+STDEK
Sbjct: 61  APTVGEAGGTLLVRKLPDADSTSVFIGDVVVVKEPEKPENYLVRRLAAVEGHEMLSTDEK 120

Query: 99  DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSN 158
           D+PF L+KD+CW+LADNE +KPKEA DSRTFGPV M +IVGRAIYCLR+AVDHGPVQNS+
Sbjct: 121 DQPFTLEKDQCWLLADNEKLKPKEAYDSRTFGPVSMSDIVGRAIYCLRSAVDHGPVQNSD 180

Query: 159 DSMRKDSPVLEVELDVDEMMKNHKA 183
            SM++DSP+LE+ELDVDEM KNHKA
Sbjct: 181 FSMKRDSPILEIELDVDEMAKNHKA 205

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462417|ref|XP_004148937.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 1 [Cucumis sativus] gi|449507877|ref|XP_004163155.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 1 [Cucumis sativus]

 Score =  276 bits (707), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 136/211 (64%), Positives = 162/211 (76%), Gaps = 28/211 (13%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKGDQM 38
           M S STW RYIANKLE+SVS+SWK                      GKLTYL+  KG +M
Sbjct: 1   MASFSTWLRYIANKLEFSVSLSWKNYKGGRITDREVGHAVWKNLLQGKLTYLHWIKGQEM 60

Query: 39  APVMGGLGGTLLVRKLPAADP------KRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEM 92
           AP +G  GGTLLVRKLP AD       + V +GDVVV+K+PEK +NY+VRRLAA+EG+EM
Sbjct: 61  APTVGEAGGTLLVRKLPDADSTCFLVHRSVFIGDVVVVKEPEKPENYLVRRLAAVEGHEM 120

Query: 93  VSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHG 152
           +STDEKD+PF L+KD+CW+LADNE +KPKEA DSRTFGPV M +IVGRAIYCLR+AVDHG
Sbjct: 121 LSTDEKDQPFTLEKDQCWLLADNEKLKPKEAYDSRTFGPVSMSDIVGRAIYCLRSAVDHG 180

Query: 153 PVQNSNDSMRKDSPVLEVELDVDEMMKNHKA 183
           PVQNS+ SM++DSP+LE+ELDVDEM KNHKA
Sbjct: 181 PVQNSDFSMKRDSPILEIELDVDEMAKNHKA 211

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  268 bits (685), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 142/244 (58%), Positives = 160/244 (65%), Gaps = 61/244 (25%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWKGKL--------------------------------T 28
           MVSLSTW RYIA+KLEYS+SISWK  L                                T
Sbjct: 1   MVSLSTWCRYIAHKLEYSISISWKDGLRKQIEEKLHFEERLKTDFALMEEALSKRKRGKT 60

Query: 29  YLYGNKGDQ-----------------------------MAPVMGGLGGTLLVRKLPAADP 59
            L+  KG Q                             MAP +G  GGTLLVRKLPAADP
Sbjct: 61  CLWSYKGGQISDREVGDVVWKNLFQGKLTYLHWNKGGEMAPTIGEQGGTLLVRKLPAADP 120

Query: 60  KRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMK 119
            RV VGDVVV+KDPE+SDNY+VRRLAA+EGYEM STDEKDEPFVL+KD+CWVL+DNE +K
Sbjct: 121 TRVFVGDVVVLKDPEESDNYLVRRLAAVEGYEMGSTDEKDEPFVLEKDQCWVLSDNETLK 180

Query: 120 PKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMK 179
           P +ANDSR FGPVPM +IVGR IYCLRTAVDHG VQNS+ SMRKD+PVLE+ELDVDEM +
Sbjct: 181 PTQANDSRIFGPVPMSDIVGRVIYCLRTAVDHGRVQNSHFSMRKDTPVLEIELDVDEMAR 240

Query: 180 NHKA 183
            HK 
Sbjct: 241 RHKT 244

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 =  265 bits (678), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 133/205 (64%), Positives = 156/205 (76%), Gaps = 23/205 (11%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKG-DQ 37
           MVSLSTWFRY A+K EYS+S+SWK                      GKLTY++ NKG + 
Sbjct: 1   MVSLSTWFRYAAHKFEYSISLSWKKYNVGQINSTQLTDAVWKNFFQGKLTYMHWNKGGEA 60

Query: 38  MAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDE 97
           MAP+    GGTLLVRKL    P +V VGDVV++KDPEKSD+ IVRRLAA+EGYEMVS DE
Sbjct: 61  MAPIESTTGGTLLVRKLVNLSPTQVFVGDVVLLKDPEKSDDLIVRRLAALEGYEMVSNDE 120

Query: 98  KDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNS 157
           KDEPFVLDKD+CWVLADN+++KPKEA DSR FGPVPM +I+GR IY LRTAVDHGPV+NS
Sbjct: 121 KDEPFVLDKDQCWVLADNQSLKPKEARDSRLFGPVPMTDILGRVIYSLRTAVDHGPVENS 180

Query: 158 NDSMRKDSPVLEVELDVDEMMKNHK 182
             +M +DSPVL VELDV+EM KN+K
Sbjct: 181 RMAMNQDSPVLAVELDVEEMAKNNK 205

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  263 bits (673), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 130/205 (63%), Positives = 156/205 (76%), Gaps = 23/205 (11%)

Query: 1   MVSLSTWFRYIANKLEYSVSISWK----------------------GKLTYLYGNKG-DQ 37
           MVSLSTWFRY A+K EYS+S+SWK                      GKLT+ +  KG + 
Sbjct: 1   MVSLSTWFRYAAHKFEYSISLSWKKYNVGQINSTELTDAIWKSFFQGKLTFAHWTKGGEA 60

Query: 38  MAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDE 97
           MAP++   GGT+LVRKL A  PK+V VGD+V++KDPEKSD+ IVRRLAA+EGYE+VSTDE
Sbjct: 61  MAPIVAATGGTVLVRKLAALTPKQVFVGDIVLLKDPEKSDDLIVRRLAALEGYEIVSTDE 120

Query: 98  KDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNS 157
           KDEPFVLDKD+CWVLA+N+ +K KEA DSR FGPVPM +IVGR IY LRTAVDHGPV NS
Sbjct: 121 KDEPFVLDKDQCWVLAENQVLKAKEARDSRLFGPVPMTDIVGRVIYSLRTAVDHGPVDNS 180

Query: 158 NDSMRKDSPVLEVELDVDEMMKNHK 182
           N +M +DSPVL VELDV+E+ KN+K
Sbjct: 181 NIAMSQDSPVLAVELDVEELAKNNK 205

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 =  262 bits (669), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 125/205 (60%), Positives = 156/205 (76%), Gaps = 22/205 (10%)

Query: 1   MVSLSTWFRYIANKLEYSVSIS------------------WK----GKLTYLYGNKGDQM 38
           M SLSTW +YI +K+EYS+S+S                  WK    GKLTY++ NKG++M
Sbjct: 1   MASLSTWLQYIVHKIEYSISLSSKNYQIGQITDKQVNENVWKNVFQGKLTYVHFNKGEEM 60

Query: 39  APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK 98
           AP + G GGTLLVR+LP ADPK+V VGDVV +KDP+  DN IVRRLAA+EG EMVSTDEK
Sbjct: 61  APTLSGQGGTLLVRRLPTADPKKVFVGDVVALKDPQNPDNCIVRRLAAVEGDEMVSTDEK 120

Query: 99  DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSN 158
           DEPFVL+ D+CWV++DNE++ PKEA DSR FGPVPM +I+GR IYCLR++VDHGP++NS 
Sbjct: 121 DEPFVLENDQCWVVSDNESLSPKEAADSRLFGPVPMSDILGRVIYCLRSSVDHGPIRNSE 180

Query: 159 DSMRKDSPVLEVELDVDEMMKNHKA 183
            +M KDSPVL VELD+DEM ++ K 
Sbjct: 181 TAMHKDSPVLAVELDIDEMARSPKT 205

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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	183
TAIR|locus:2055856	205	AT2G31140 "AT2G31140" [Arabido	0.868	0.775	0.654	2.3e-62
TAIR|locus:2038535	206	AT1G06200 [Arabidopsis thalian	0.868	0.771	0.666	1.1e-60
TAIR|locus:2019357	169	AT1G29960 [Arabidopsis thalian	0.699	0.757	0.290	1.6e-08
TAIR|locus:1006230730	155	AT1G23465 [Arabidopsis thalian	0.633	0.748	0.297	1.6e-08
POMBASE|SPBC2D10.07c	157	SPBC2D10.07c "mitochondrial in	0.568	0.662	0.293	2.3e-07
TAIR|locus:2095249	154	AT3G08980 [Arabidopsis thalian	0.535	0.636	0.336	4.8e-07
TAIR|locus:2203688	168	AT1G53530 [Arabidopsis thalian	0.562	0.613	0.283	9.5e-06
MGI|MGI:1913791	166	Immp1l "IMP1 inner mitochondri	0.513	0.566	0.277	0.00011
UNIPROTKB|F1P533	163	IMMP1L "Uncharacterized protei	0.508	0.570	0.294	0.00019
CGD|CAL0002703	162	IMP2 [Candida albicans (taxid:	0.486	0.549	0.247	0.00068

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

 Score = 564 (203.6 bits), Expect = 2.3e-62, Sum P(2) = 2.3e-62
 Identities = 104/159 (65%), Positives = 130/159 (81%)

Query:    25 GKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRL 84
             GK+TYL+ +KG +M+P M     TLL+RK+P A+ + V +GD VV+KDP  SD Y+VRRL
Sbjct:    47 GKITYLHSDKGPEMSPTMTANENTLLIRKIPIANTRFVFIGDAVVLKDPNDSDKYLVRRL 106

Query:    85 AAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYC 144
             AA+EG+EMVS DEK+EPFVL+K++CWV A+N+ +K KEA DSRTFGPV   +IVGRAIYC
Sbjct:   107 AAVEGFEMVSGDEKEEPFVLEKNQCWVTAENQELKAKEAYDSRTFGPVSTADIVGRAIYC 166

Query:   145 LRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMKNHKA 183
             LRTAVDHGPV+NS  +M +DSP+L VELDVDEM KNHKA
Sbjct:   167 LRTAVDHGPVRNSQTAMGQDSPILAVELDVDEMAKNHKA 205

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 = 572 (206.4 bits), Expect = 1.1e-60, Sum P(2) = 1.1e-60
 Identities = 106/159 (66%), Positives = 131/159 (82%)

Query:    25 GKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRL 84
             G+++YL+ +KG +MAP MG    TLLVRKLP  D + + VGD VV+KDP +++ YIVRRL
Sbjct:    47 GRISYLHSDKGKEMAPTMGTNESTLLVRKLPVVDTRYIFVGDAVVLKDPNETNKYIVRRL 106

Query:    85 AAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYC 144
             AA+EG EMVS+DEKDEPFVL+KD+CWV+A+N+ MK KEA DSRTFGP+ M +IVGRAIYC
Sbjct:   107 AALEGSEMVSSDEKDEPFVLEKDQCWVVAENQEMKSKEAYDSRTFGPISMADIVGRAIYC 166

Query:   145 LRTAVDHGPVQNSNDSMRKDSPVLEVELDVDEMMKNHKA 183
             LRTAVDHGPV NS  +M +DSP+L VELDVDE+ K HKA
Sbjct:   167 LRTAVDHGPVSNSEFAMDEDSPILAVELDVDELAKGHKA 205

GO:0005739 "mitochondrion" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

TAIR|locus:2019357 AT1G29960 [Arabidopsis thaliana (taxid:3702)]

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 41/141 (29%), Positives = 67/141 (47%)

Query:    19 VSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDN 78
             V+ ++ G + Y YG     M P +   G  LL  ++     K  S GD+VV++ PE  + 
Sbjct:    32 VTTNYLGFMAYAYG---PSMTPTLHPSGNVLLAERISKRYQKP-SRGDIVVIRSPENPNK 87

Query:    79 YIVRRLAAIEG---YEMVSTDEKDEP--FVLDKDECWVLADNENMKPKEANDSRTFGPVP 133
               ++R+  IEG     ++ + + DE    V+ K   +V  D  +     + DSR FG VP
Sbjct:    88 TPIKRVIGIEGDCISFVIDSRKSDESQTIVVPKGHVFVQGDYTH----NSRDSRNFGTVP 143

Query:   134 MRNIVGRAIYCLRTAVDHGPV 154
                I GR ++ +    D GP+
Sbjct:   144 YGLIQGRVLWRVWPFQDFGPL 164

GO:0005886 "plasma membrane" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

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

GO:0016020 "membrane" evidence=IEA;ISS

GO:0048445 "carpel morphogenesis" evidence=RCA

TAIR|locus:1006230730 AT1G23465 [Arabidopsis thaliana (taxid:3702)]

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 39/131 (29%), Positives = 63/131 (48%)

Query:    19 VSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDN 78
             V+ ++ G + Y YG     M P +   G  LL  ++     K  S GD+VV++ PE  + 
Sbjct:    32 VTTNYLGFMAYAYG---PSMIPTLHPSGNMLLAERISKRYQKP-SRGDIVVIRSPENPNK 87

Query:    79 YIVRRLAAIEG------YEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPV 132
               ++R+  +EG       + V +DE  +  V+ K   +V  D  +     + DSR FGPV
Sbjct:    88 TPIKRVVGVEGDCISFVIDPVKSDES-QTIVVPKGHVFVQGDYTH----NSRDSRNFGPV 142

Query:   133 PMRNIVGRAIY 143
             P   I GR ++
Sbjct:   143 PYGLIQGRVLW 153

GO:0006508 "proteolysis" evidence=IEA

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

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IEA

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

 Score = 118 (46.6 bits), Expect = 2.3e-07, P = 2.3e-07
 Identities = 32/109 (29%), Positives = 49/109 (44%)

Query:    35 GDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEM-V 93
             G  M P +   G  +L+ KL     +  SVGDVVV   P  S  ++ +R+  + G  + V
Sbjct:    33 GPSMMPTLNSGGEFVLLDKLHGRFARSCSVGDVVVSAKPSDSKQHVCKRIIGMPGDTIYV 92

Query:    94 STDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAI 142
                  ++   +     W+  DN       + DSR +GPVPM  I  + I
Sbjct:    93 DPTSSNKKITIPLGHVWLAGDNI----AHSLDSRNYGPVPMGLIKAKVI 137

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

TAIR|locus:2095249 AT3G08980 [Arabidopsis thaliana (taxid:3702)]

 Score = 115 (45.5 bits), Expect = 4.8e-07, P = 4.8e-07
 Identities = 38/113 (33%), Positives = 55/113 (48%)

Query:    34 KGDQMAPVMGG-----LGGTLLVRKLPAADPKRVSVGDVVVMKDPEK-SDNYIVRRLAAI 87
             +GD M+P         L   +LV K    D K  + GDVVV   P    D YI +R+  +
Sbjct:    35 RGDSMSPTFNPQRNSYLDDYVLVDKFCLKDYK-FARGDVVVFSSPTHFGDRYI-KRIVGM 92

Query:    88 EGYEMVSTDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGR 140
              G E +S+    +   + +  CWV  DN+      + DSR+FGP+P+  I GR
Sbjct:    93 PG-EWISSSR--DVIRVPEGHCWVEGDNKT----SSLDSRSFGPIPLGLIQGR 138

GO:0005739 "mitochondrion" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

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

GO:0016020 "membrane" evidence=IEA;ISS

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

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

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

TAIR|locus:2203688 AT1G53530 [Arabidopsis thaliana (taxid:3702)]

 Score = 113 (44.8 bits), Expect = 9.5e-06, P = 9.5e-06
 Identities = 32/113 (28%), Positives = 51/113 (45%)

Query:    35 GDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMV- 93
             G  M P +   G  +L   L     K + +GDVV+++ P      + +R+  +EG  +  
Sbjct:    48 GPSMLPTLNLTGDVILAEHLSHRFGK-IGLGDVVLVRSPRDPKRMVTKRILGLEGDRLTF 106

Query:    94 STD----EKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAI 142
             S D    +     ++ K   W+  DN       + DSR FGPVP   I G+A+
Sbjct:   107 SADPLVGDASVSVLVPKGHVWIQGDNLYA----STDSRHFGPVPYSLIEGKAL 155

GO:0005739 "mitochondrion" evidence=ISM

GO:0005886 "plasma membrane" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

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

GO:0016020 "membrane" evidence=IEA;ISS

GO:0016021 "integral to membrane" evidence=IEA

MGI|MGI:1913791 Immp1l "IMP1 inner mitochondrial membrane peptidase-like (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 106 (42.4 bits), Expect = 0.00011, P = 0.00011
 Identities = 28/101 (27%), Positives = 49/101 (48%)

Query:    65 GDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKD---EPFVLDKDECWVLADNENMKPK 121
             GD+V+ K P    + I +R+  +EG +++ST   D       +     W+  DN     +
Sbjct:    66 GDIVIAKSPSDPKSNICKRVIGLEGDKILSTSPSDVFKSRSYVPTGHVWLEGDNL----Q 121

Query:   122 EANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMR 162
              + DSR +GP+P   I GR  + +    D G +++S +  R
Sbjct:   122 NSTDSRYYGPIPYGLIRGRIFFKIWPFSDFGFLRDSPNGQR 162

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008150 "biological_process" evidence=ND

GO:0008233 "peptidase activity" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0042720 "mitochondrial inner membrane peptidase complex" evidence=IEA

UNIPROTKB|F1P533 IMMP1L "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 104 (41.7 bits), Expect = 0.00019, P = 0.00019
 Identities = 30/102 (29%), Positives = 51/102 (50%)

Query:    65 GDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKD----EPFVLDKDECWVLADNENMKP 120
             GD+V++K P    + I +R+  +EG ++ +++  D      FV  K   W+  DN     
Sbjct:    63 GDIVIVKSPTDPKSNICKRVIGLEGDKVCTSNPSDFLKTHSFV-PKGHVWLEGDNL---- 117

Query:   121 KEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSMR 162
             + + DSR +GPVP   I GR  + +    D G ++ S +  R
Sbjct:   118 RNSTDSRCYGPVPYGLIRGRICFKIWPLNDFGFLRASPNGHR 159

GO:0006508 "proteolysis" evidence=IEA

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

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

GO:0042720 "mitochondrial inner membrane peptidase complex" evidence=IEA

CGD|CAL0002703 IMP2 [Candida albicans (taxid:5476)]

 Score = 100 (40.3 bits), Expect = 0.00068, P = 0.00068
 Identities = 24/97 (24%), Positives = 47/97 (48%)

Query:    49 LLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEP---FVLD 105
             +LV+K     P  +S GD+++ + PE  +  + +R+  I+G +++       P     + 
Sbjct:    54 VLVQKYNIKKPGSLSRGDIIMFRSPENPEKLLTKRVVGIQG-DIIRPKSPPYPKSEVKIP 112

Query:   106 KDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAI 142
             ++  WV  DN       + DS  FGPV    ++G+ +
Sbjct:   113 RNHFWVEGDNSF----HSIDSNKFGPVSQGLVIGKVV 145

GO:0042720 "mitochondrial inner membrane peptidase complex" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.21	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	183
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	6e-11
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	7e-11
TIGR02754	90	TIGR02754, sod_Ni_protease, nickel-type superoxide	2e-07
cd06462	84	cd06462, Peptidase_S24_S26, The S24, S26 LexA/sign	6e-05

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

 Score = 55.7 bits (135), Expect = 6e-11
 Identities = 32/108 (29%), Positives = 43/108 (39%), Gaps = 28/108 (25%)

Query: 34  KGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMV 93
            G  M P +   G  +LV KL     +    GDVVV K P      I++R+         
Sbjct: 6   PGGSMEPTLQP-GDLVLVNKLSY-GFREPKRGDVVVFKSPGDPGKPIIKRVIGY------ 57

Query: 94  STDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRA 141
                           +VL DN N     + DSR +GPVP  +IVG+ 
Sbjct: 58  ----------------FVLGDNRN----NSLDSRYWGPVPEDDIVGKV 85

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 = 57.6 bits (140), Expect = 7e-11
 Identities = 31/125 (24%), Positives = 49/125 (39%), Gaps = 37/125 (29%)

Query: 49  LLVRKL--PAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEG----------------- 89
           +LV K     +DPKR   GD+VV KDP+ + N  ++R+  + G                 
Sbjct: 40  ILVNKFAYGTSDPKR---GDIVVFKDPDDNKNIYIKRVIGLPGDKVEFRDGKLYINGKKI 96

Query: 90  -----YEMVSTDEKDEPFVLDK------DECWVLADNENMKPKEANDSRTFGPVPMRNIV 138
                      D  +                +VL DN +     + DSR FG VP+ +I+
Sbjct: 97  DEPYLKPNGFLDTSEFNTTDYGPVTVPPGHYFVLGDNRD----NSLDSRYFGFVPIDDII 152

Query: 139 GRAIY 143
           G+  +
Sbjct: 153 GKVSF 157

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|233997 TIGR02754, sod_Ni_protease, nickel-type superoxide dismutase maturation protease

 Score = 46.7 bits (111), Expect = 2e-07
 Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 23/107 (21%)

Query: 35  GDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVS 94
           G  M+P +   G  ++V        +   +G+VVV++ P +    I++RLAA+       
Sbjct: 5   GVSMSPTLPP-GDRIIVVPWLKIF-RVPPIGNVVVVRHPLQPYGLIIKRLAAV------- 55

Query: 95  TDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRA 141
                     D +  ++L DN    PK + DSR  GPVP   ++G+ 
Sbjct: 56  ----------DDNGLFLLGDN----PKASTDSRQLGPVPRSLLLGKV 88

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 pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad [Cellular processes, Detoxification, Protein fate, Protein modification and repair]. Length = 90

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

 Score = 39.6 bits (93), Expect = 6e-05
 Identities = 29/108 (26%), Positives = 41/108 (37%), Gaps = 29/108 (26%)

Query: 34  KGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMV 93
           +GD M P +   G  +LV K           GD+VV + P       V+R+  + G    
Sbjct: 6   EGDSMEPTIPD-GDLVLVDKSS----YEPKRGDIVVFRLPG--GELTVKRVIGLPG---- 54

Query: 94  STDEKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRA 141
                       +   ++L DN N       DSR  GP P  +IVG  
Sbjct: 55  ------------EGHYFLLGDNPNSP-----DSRIDGP-PELDIVGVV 84

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	183
TIGR02227	163	sigpep_I_bact signal peptidase I, bacterial type.	100.0
KOG0171	176	consensus Mitochondrial inner membrane protease, s	100.0
KOG1568	174	consensus Mitochondrial inner membrane protease, s	100.0
PRK10861	324	signal peptidase I; Provisional	100.0
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.89
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.88
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.88
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.87
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.85
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.81
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	99.74
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.56
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	99.53
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	99.27
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	99.22
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	98.95
COG2932	214	Predicted transcriptional regulator [Transcription	98.88
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	98.86
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	98.72
PRK00215	205	LexA repressor; Validated	98.62
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	98.6
PRK12423	202	LexA repressor; Provisional	98.6
COG1974	201	LexA SOS-response transcriptional repressors (RecA	97.8
PRK00364	95	groES co-chaperonin GroES; Reviewed	86.6
COG0234	96	GroS Co-chaperonin GroES (HSP10) [Posttranslationa	82.12
PRK14533	91	groES co-chaperonin GroES; Provisional	80.91

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=100.00  E-value=2.2e-37  Score=244.00  Aligned_cols=135  Identities=26%  Similarity=0.438  Sum_probs=115.7

Q ss_pred             HHHHHHHHHHHHHHHhhhceeEEEEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEE
Q 030087            7 WFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAA   86 (183)
Q Consensus         7 wl~~~~~~i~i~v~i~~~~~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia   86 (183)
                      |+..++.++++++  +++.|+++.+.|+|+||+|||+ .||+|+++|+.+ ...++++||+|+|+.|.+.++.++|||+|
T Consensus         1 ~~~~~~~~~~~~~--~i~~~~~~~~~v~g~SM~Ptl~-~Gd~vlv~k~~~-~~~~~~rGDiVvf~~~~~~~~~~iKRVig   76 (163)
T TIGR02227         1 LILSLLIAILLAL--LIRTFVFFPYKIPGGSMEPTLK-EGDRILVNKFAY-GTSDPKRGDIVVFKDPDDNKNIYVKRVIG   76 (163)
T ss_pred             CHHHHHHHHHHHH--HHHhhEEEEEEECCcccccchh-CCCEEEEEEeEc-CCCCCCCCcEEEEecCCCCCceeEEEEEe
Confidence            4555555554444  4588999999999999999999 899999999865 35789999999999987777899999999


Q ss_pred             EcCceEEecCCC----------------------------CCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeE
Q 030087           87 IEGYEMVSTDEK----------------------------DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIV  138 (183)
Q Consensus        87 ~pGD~V~~~~~~----------------------------~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~  138 (183)
                      +|||+|+++++.                            ..+++||+|+||++|||+.    +|.|||+||+|++++|+
T Consensus        77 ~pGd~v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~----~S~DSR~~G~V~~~~I~  152 (163)
T TIGR02227        77 LPGDKVEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRD----NSLDSRYFGFVPIDDII  152 (163)
T ss_pred             cCCCEEEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCC----CCcccCCcCcCCHHHeE
Confidence            999999986530                            1235899999999999998    89999999999999999


Q ss_pred             EEEEEEEecCC
Q 030087          139 GRAIYCLRTAV  149 (183)
Q Consensus       139 Gkv~~~~~p~~  149 (183)
                      ||+.+++||++
T Consensus       153 Gk~~~~~~p~~  163 (163)
T TIGR02227       153 GKVSFVFYPFD  163 (163)
T ss_pred             EEEEEEECCCC
Confidence            99999999974

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

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

Probab=100.00  E-value=6.8e-35  Score=226.87  Aligned_cols=136  Identities=26%  Similarity=0.399  Sum_probs=119.3

Q ss_pred             HHHHhhhceeEEEEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCC
Q 030087           18 SVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDE   97 (183)
Q Consensus        18 ~v~i~~~~~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~   97 (183)
                      +++.+...|++++..++|.||+|||++.||+++.+|+++ .++.+++||||++..|.++.+.++|||+|++||.+.+.++
T Consensus        23 ~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~-~f~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD~v~v~~~  101 (176)
T KOG0171|consen   23 AFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSY-RFRKPQVGDIVIAKSPPDPKEHICKRIVAMEGDLVEVHDG  101 (176)
T ss_pred             HHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhH-hhcCCCCCCEEEEeCCCCchhhhhheeeccCCceEEEecC
Confidence            344445679999999999999999997778787799987 5788999999999999999999999999999997776543


Q ss_pred             C----------CCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCCCCCcccCC
Q 030087           98 K----------DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSN  158 (183)
Q Consensus        98 ~----------~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~~~~~~~  158 (183)
                      .          ..+++||+||+||+|||++    +|.|||+|||+|...|+||+++++||+++.+...-..
T Consensus       102 ~~~~n~~~e~~~~~i~VP~GhVfv~GDN~~----nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~~~~~~  168 (176)
T KOG0171|consen  102 PLVVNDLVEKFSTPIRVPEGHVFVEGDNRN----NSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSGLILHW  168 (176)
T ss_pred             CcccchhhhhccceeeccCceEEEecCCCC----CcccccccCCCchhheeeeEEEEecCchhcceeeecc
Confidence            2          2457999999999999999    9999999999999999999999999999998776444

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

Probab=100.00  E-value=2.6e-33  Score=217.65  Aligned_cols=133  Identities=39%  Similarity=0.647  Sum_probs=119.9

Q ss_pred             hceeEEEEEEeCCCCcccccCC-----CcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCC
Q 030087           24 KGKLTYLYGNKGDQMAPVMGGL-----GGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEK   98 (183)
Q Consensus        24 ~~~~~~~~~V~g~SM~PtL~~~-----GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~   98 (183)
                      ...+.....|.|.||.|||+|.     .|+||+.|+... ...+.|||+|+|..|.++++.+||||+|++||.+...+..
T Consensus        27 ~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~-n~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t~~~k  105 (174)
T KOG1568|consen   27 SDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVK-NRKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVTEDEK  105 (174)
T ss_pred             eeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccc-cceeccCCEEEEeCCCChhheeeeeeecccccEeccCCCC
Confidence            3567788999999999999973     399999998652 3568999999999999999999999999999999998888


Q ss_pred             CCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCCCCCcccCCCCC
Q 030087           99 DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHGPVQNSNDSM  161 (183)
Q Consensus        99 ~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~~~~~~~~~~  161 (183)
                      .+++.||+|||||+|||..    .|+|||.||||+...|.|||+.++||+.|++.+.+.-.+.
T Consensus       106 ~~~v~vpkghcWVegDn~~----hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~~~~~~~  164 (174)
T KOG1568|consen  106 EEPVVVPKGHCWVEGDNQK----HSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLDKESPGR  164 (174)
T ss_pred             CCceecCCCcEEEecCCcc----cccccCccCCcchhheeeeEEEEEcChHHhhhhcccCCcc
Confidence            8999999999999999998    9999999999999999999999999999999887655443

>PRK10861 signal peptidase I; Provisional

Probab=100.00  E-value=1.1e-32  Score=237.46  Aligned_cols=127  Identities=22%  Similarity=0.352  Sum_probs=110.5

Q ss_pred             HHHhhhceeEEEEEEeCCCCcccccCCCcEEEEEecCCCC-----------CCCCCcCeEEEEecCCCCCccEEEEEEEE
Q 030087           19 VSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAAD-----------PKRVSVGDVVVMKDPEKSDNYIVRRLAAI   87 (183)
Q Consensus        19 v~i~~~~~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~-----------~~~~~rGDIVvf~~p~~~~~~~vKRVia~   87 (183)
                      ++++++.|+++++.|+|.||+|||. .||+|+++|++|..           ...++|||||+|+.|.+++..+||||+|+
T Consensus        73 i~~~ir~fv~~~~~Ips~SM~PTL~-~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~~~~~yIKRVIGl  151 (324)
T PRK10861         73 IVLIVRSFIYEPFQIPSGSMMPTLL-IGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKLDYIKRVVGL  151 (324)
T ss_pred             HHHHHHhhEEEEEEECCCcCcCccc-CCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCCCCCcEEEEeeec
Confidence            3445589999999999999999999 89999999998631           35799999999999988888999999999


Q ss_pred             cCceEEec--------CCC-------------------------------------------------------------
Q 030087           88 EGYEMVST--------DEK-------------------------------------------------------------   98 (183)
Q Consensus        88 pGD~V~~~--------~~~-------------------------------------------------------------   98 (183)
                      |||+|+++        ++.                                                             
T Consensus       152 PGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~l  231 (324)
T PRK10861        152 PGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLNETKENGIRLSERKETL  231 (324)
T ss_pred             CCcEEEEEeCCCEEEEcCccccccccccccccccccccccccccccccccccccccccccccccccccccccceeEEEec
Confidence            99999984        110                                                             


Q ss_pred             ---------------------------CCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCC
Q 030087           99 ---------------------------DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVD  150 (183)
Q Consensus        99 ---------------------------~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~  150 (183)
                                                 ..+++||+|+||++|||++    +|+||||||+||.++|+|+|.+++++++.
T Consensus       232 ~~~~h~i~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~yf~mgdnr~----~S~DSRy~G~Vp~~~i~G~a~~i~~s~d~  306 (324)
T PRK10861        232 GDVTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRD----NSADSRYWGFVPEANLVGKATAIWMSFEK  306 (324)
T ss_pred             CCccceeeecCCcccccccccccCCCcCceEEECCCeEEEeCCCCC----CCcccCcccccCHHHcEEEEEEEEEEcCC
Confidence                                       0123789999999999999    99999999999999999999999999863

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.89  E-value=1.9e-22  Score=160.98  Aligned_cols=91  Identities=26%  Similarity=0.357  Sum_probs=71.8

Q ss_pred             EEEEecCCCCCCCCCcCeEEEEecCCCC-------------------CccEEEEEEEEcCceEEecCC------------
Q 030087           49 LLVRKLPAADPKRVSVGDVVVMKDPEKS-------------------DNYIVRRLAAIEGYEMVSTDE------------   97 (183)
Q Consensus        49 Vlv~k~~~~~~~~~~rGDIVvf~~p~~~-------------------~~~~vKRVia~pGD~V~~~~~------------   97 (183)
                      +.+.++.+ ...++++||+|+|+.|...                   ...++|||+|+|||+|++.+.            
T Consensus        39 ig~y~~~~-~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~~v~iNg~~~~~~~  117 (176)
T PRK13838         39 LGLWRIEA-LDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGGSVSIDGRPLPSSS  117 (176)
T ss_pred             EEEEEEec-cCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECCEEEECCEEccccc
Confidence            44444432 2468999999999987643                   135999999999999998631            


Q ss_pred             ------C------CCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEE
Q 030087           98 ------K------DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCL  145 (183)
Q Consensus        98 ------~------~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~  145 (183)
                            .      ....+||+|+|||+|||.     +|+||||||+|++++|+|++.+++
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                  0      113479999999999984     699999999999999999998774

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.88  E-value=4e-22  Score=159.48  Aligned_cols=104  Identities=20%  Similarity=0.310  Sum_probs=79.7

Q ss_pred             eeEEEEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCC-------------------CccEEEEEEE
Q 030087           26 KLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKS-------------------DNYIVRRLAA   86 (183)
Q Consensus        26 ~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~-------------------~~~~vKRVia   86 (183)
                      +........++||-     .|=+.+ ..      ..+++||+|+|+.|...                   ...++|||+|
T Consensus        27 ~~~~~~~N~T~S~P-----~glY~~-~~------~~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva   94 (178)
T PRK13884         27 YAAGARVNTTKSIP-----VGLYWT-SS------APVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLA   94 (178)
T ss_pred             HhCcEEEECCCCCc-----ceEEEE-eC------CCCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEe
Confidence            34445566666765     443333 22      47999999999987631                   1379999999


Q ss_pred             EcCceEEecCC---------------------C------CCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEE
Q 030087           87 IEGYEMVSTDE---------------------K------DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVG  139 (183)
Q Consensus        87 ~pGD~V~~~~~---------------------~------~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~G  139 (183)
                      +|||+|++.++                     .      ...++||+|+||++|||+.    +|+||||||+|++++|+|
T Consensus        95 ~pGD~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~l~~~~~~~~~lp~g~~fvlgd~~~----~S~DSRYfG~V~~~~I~G  170 (178)
T PRK13884         95 AKGDAVSVTDDGVRVNGELLPLSKPILADGAGRPLPRYQANSYTLGESELLLMSDVSA----TSFDGRYFGPINRSQIKT  170 (178)
T ss_pred             eCCcEEEEECCEEEECCEEccccccccccccCCcccccCCCceEECCCEEEEECCCCC----CCCcccccCcccHHHEEE
Confidence            99999998642                     0      0124899999999999998    899999999999999999


Q ss_pred             EEEEEE
Q 030087          140 RAIYCL  145 (183)
Q Consensus       140 kv~~~~  145 (183)
                      ++.+++
T Consensus       171 ~~~Pl~  176 (178)
T PRK13884        171 VIRPVI  176 (178)
T ss_pred             EEEEeE
Confidence            998764

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.88  E-value=3.7e-22  Score=158.73  Aligned_cols=105  Identities=22%  Similarity=0.294  Sum_probs=82.1

Q ss_pred             ceeEEEEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCC-------------------ccEEEEEE
Q 030087           25 GKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSD-------------------NYIVRRLA   85 (183)
Q Consensus        25 ~~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~-------------------~~~vKRVi   85 (183)
                      .|........++||.     .|-+. +.+     ...++|||+|+|+.|..+.                   ..++|||+
T Consensus        21 ~~~~~~~~N~T~S~P-----~g~Y~-~~~-----~~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRVi   89 (171)
T TIGR02771        21 LYCVGARINTTKSLP-----LGLYW-TTS-----SKPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVL   89 (171)
T ss_pred             cceeeEEEECCCCCc-----ceEEE-eCC-----CCCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEE
Confidence            445555667777776     45444 322     2589999999999876432                   27999999


Q ss_pred             EEcCceEEecCC-------------------------CCCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEE
Q 030087           86 AIEGYEMVSTDE-------------------------KDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGR  140 (183)
Q Consensus        86 a~pGD~V~~~~~-------------------------~~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gk  140 (183)
                      |+|||+|+++++                         ...+++||+| ||++|||+.    +|+||||||+|++++|+||
T Consensus        90 glpGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~----~S~DSRy~G~V~~~~IiGk  164 (171)
T TIGR02771        90 GLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSP----TSFDSRYFGPISREQVIGR  164 (171)
T ss_pred             EeCCCEEEEECCEEEECCEEcccccccccccCCCccccCCCcEECCC-EEEECCCCC----CCCcccccceecHHHeEEE
Confidence            999999998642                         0125789999 999999999    9999999999999999999


Q ss_pred             EEEEE
Q 030087          141 AIYCL  145 (183)
Q Consensus       141 v~~~~  145 (183)
                      +.+++
T Consensus       165 ~~pl~  169 (171)
T TIGR02771       165 VKPLF  169 (171)
T ss_pred             EEEeE
Confidence            99764

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.

>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease

Probab=99.87  E-value=1.2e-21  Score=139.63  Aligned_cols=89  Identities=29%  Similarity=0.561  Sum_probs=77.2

Q ss_pred             EEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeEEE
Q 030087           32 GNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWV  111 (183)
Q Consensus        32 ~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~~v  111 (183)
                      .|.|+||+|||+ +||+|+++++.. ....+++||+|+|+.|.+++..++||+++++                 ++++|+
T Consensus         2 ~V~g~SM~P~l~-~GD~vlv~~~~~-~~~~~~~Gdivv~~~~~~~~~~~vkRv~~~~-----------------~~~~~l   62 (90)
T TIGR02754         2 KVTGVSMSPTLP-PGDRIIVVPWLK-IFRVPPIGNVVVVRHPLQPYGLIIKRLAAVD-----------------DNGLFL   62 (90)
T ss_pred             EeeCCCccCccC-CCCEEEEEEccc-cCCCCCCCeEEEEecCCCCcceEEEEeeEEc-----------------CCeEEE
Confidence            689999999999 899999998532 1244567999999998766789999999985                 458999


Q ss_pred             EeCCCCCCCCCCCCCCccccccCCCeEEEEEE
Q 030087          112 LADNENMKPKEANDSRTFGPVPMRNIVGRAIY  143 (183)
Q Consensus       112 lGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~  143 (183)
                      +|||+.    .|.|||++|+|+..+|+|+|++
T Consensus        63 ~~dN~~----~~~d~~~~g~v~~~~I~G~v~~   90 (90)
T TIGR02754        63 LGDNPK----ASTDSRQLGPVPRSLLLGKVLW   90 (90)
T ss_pred             eCCCCC----CCCcccccCCCcHHHEEEEEEC
Confidence            999998    8999999999999999999863

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.

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

Probab=99.85  E-value=2.9e-22  Score=154.20  Aligned_cols=81  Identities=33%  Similarity=0.525  Sum_probs=32.2

Q ss_pred             CCCcCeEEEEecCCC------------CCccEEEEEEEEcCceEEecCC------------------------CCCcccc
Q 030087           61 RVSVGDVVVMKDPEK------------SDNYIVRRLAAIEGYEMVSTDE------------------------KDEPFVL  104 (183)
Q Consensus        61 ~~~rGDIVvf~~p~~------------~~~~~vKRVia~pGD~V~~~~~------------------------~~~~~~v  104 (183)
                      .+++||+|+|+.|..            .+..++|||+|+|||+|+++++                        ...+++|
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            489999999999863            2457999999999999998753                        0135789


Q ss_pred             cCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEE
Q 030087          105 DKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCL  145 (183)
Q Consensus       105 p~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~  145 (183)
                      |+|+||++|||+.    +|+||||||+|++++|+|++.+++
T Consensus       101 p~g~~~v~gd~~~----~S~DSRy~G~V~~~~I~g~~~pl~  137 (138)
T PF10502_consen  101 PEGEYFVLGDNRP----NSFDSRYFGPVPRSQIIGKARPLW  137 (138)
T ss_dssp             -TTEEEEE-SBTT----S--SHHHH--EEGGGEEEEEEEEE
T ss_pred             CCCEEEEecCCCC----CccccCEecccCHHHEEEEEEEEE
Confidence            9999999999998    899999999999999999999875

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.

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

Probab=99.81  E-value=1.1e-19  Score=127.89  Aligned_cols=84  Identities=38%  Similarity=0.600  Sum_probs=74.3

Q ss_pred             EEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeE
Q 030087           30 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDEC  109 (183)
Q Consensus        30 ~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~  109 (183)
                      ++.|.|+||+|+++ .||++++++... ....+++||+|+|+.+...+..++|||++                      |
T Consensus         2 ~~~v~g~SM~P~i~-~gd~v~v~~~~~-~~~~~~~GDiv~~~~~~~~~~~~vkRv~~----------------------~   57 (85)
T cd06530           2 PVVVPGGSMEPTLQ-PGDLVLVNKLSY-GFREPKRGDVVVFKSPGDPGKPIIKRVIG----------------------Y   57 (85)
T ss_pred             eeEEcCCCCcCccc-CCCEEEEEEeec-ccCCCCCCCEEEEeCCCCCCCEEEEEEEE----------------------E
Confidence            57899999999999 899999998642 12369999999999987656789999997                      9


Q ss_pred             EEEeCCCCCCCCCCCCCCccccccCCCeEEEE
Q 030087          110 WVLADNENMKPKEANDSRTFGPVPMRNIVGRA  141 (183)
Q Consensus       110 ~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv  141 (183)
                      |+.|||+.    +|.|||+||+++.++|+|++
T Consensus        58 ~~~gDn~~----ns~d~~~~g~~~~~~i~G~~   85 (85)
T cd06530          58 FVLGDNRN----NSLDSRYWGPVPEDDIVGKV   85 (85)
T ss_pred             EEeeCCCC----CCCccCCcCCCcHHHeEEeC
Confidence            99999987    89999999999999999985

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

>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type

Probab=99.74  E-value=3.3e-17  Score=128.82  Aligned_cols=86  Identities=27%  Similarity=0.398  Sum_probs=70.2

Q ss_pred             EEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeEEE
Q 030087           32 GNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWV  111 (183)
Q Consensus        32 ~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~~v  111 (183)
                      .|.|+||+|||+ .||.+++++..   ..++++||+|+|++|..+ +.++|||+++.++.             .+-.|+.
T Consensus        35 ~V~g~SM~Ptl~-~GD~vlv~~~~---~~~~~~GDIVvf~~~~~~-~~iihRVi~v~~~~-------------g~~~~~t   96 (158)
T TIGR02228        35 VVLSGSMEPTFN-TGDLILVTGAD---PNDIQVGDVITYKSPGFN-TPVTHRVIEINNSG-------------GELGFIT   96 (158)
T ss_pred             EEcCCCCcCCcc-CCCEEEEEecc---cCCCCCCCEEEEEECCCC-ccEEEEEEEEECCC-------------CcEEEEE
Confidence            499999999999 89999999953   368999999999997654 78999999997430             0113777


Q ss_pred             EeCCCCCCCCCCCCCCccccccCCCeEEEEEE
Q 030087          112 LADNENMKPKEANDSRTFGPVPMRNIVGRAIY  143 (183)
Q Consensus       112 lGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~  143 (183)
                      .|||+.     ..|   .++|+.++|+|++..
T Consensus        97 kGDnN~-----~~D---~~~v~~~~IiG~v~~  120 (158)
T TIGR02228        97 KGDNNP-----APD---GEPVPSENVIGKYLG  120 (158)
T ss_pred             EecCCC-----CCC---cccCCHHHEEEEEEE
Confidence            799986     456   689999999999983

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.

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

Probab=99.56  E-value=4.9e-14  Score=109.54  Aligned_cols=129  Identities=18%  Similarity=0.233  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhceeEEEEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEE
Q 030087            5 STWFRYIANKLEYSVSISWKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRL   84 (183)
Q Consensus         5 ~~wl~~~~~~i~i~v~i~~~~~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRV   84 (183)
                      ..|+..++.++++++++.++.|+++++.|+|.||+|||+ .||+|+++|.++ ....+..++++  ..|......++||+
T Consensus         8 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~-~GD~v~v~k~~~-~~~~~~~~~~~--~~~~~~~~~~~kr~   83 (166)
T COG0681           8 LELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLN-VGDRVLVKKFSY-GFGKLKVPDII--VLPAVVEGDLIKRV   83 (166)
T ss_pred             HHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccc-cCCEEEEEeccc-cccCCccceee--ecCCCCCcceEEEe
Confidence            367777777666665544479999999999999999999 899999999986 35567888887  44445567899999


Q ss_pred             EEEcCceEEecCCCCC-cccccCCeEEEEe-------CCCCCCCCCCCCCCccccccCCCeEEEE
Q 030087           85 AAIEGYEMVSTDEKDE-PFVLDKDECWVLA-------DNENMKPKEANDSRTFGPVPMRNIVGRA  141 (183)
Q Consensus        85 ia~pGD~V~~~~~~~~-~~~vp~g~~~vlG-------Dn~~~~~~~S~DSR~~G~V~~~~I~Gkv  141 (183)
                      ++.+||.+.++++... ...+|++..++.+       +...    .+.+++.++.......+.++
T Consensus        84 ~~~~GD~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~  144 (166)
T COG0681          84 IGLRGDIVVFKDDRLYVVPIIPRVYGLVEKDNGKHLVDVIV----NANSSRVFGIITKKDYIKRV  144 (166)
T ss_pred             ccCCCCEEEEECCEEEeecccCcchhhhhcccccccccccc----cccCccccccccccccccce
Confidence            9999999999874322 2344555555444       3334    57777878777777777777

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

Probab=99.53  E-value=1.5e-14  Score=111.98  Aligned_cols=90  Identities=28%  Similarity=0.417  Sum_probs=72.7

Q ss_pred             EEEEEecCCCCCCCCCcCeEEEEecCCC------------CCccEEEEEEEEcCceEEecCC-----------------C
Q 030087           48 TLLVRKLPAADPKRVSVGDVVVMKDPEK------------SDNYIVRRLAAIEGYEMVSTDE-----------------K   98 (183)
Q Consensus        48 ~Vlv~k~~~~~~~~~~rGDIVvf~~p~~------------~~~~~vKRVia~pGD~V~~~~~-----------------~   98 (183)
                      ..-++|.+    ..+++||+|++++|.+            ...+++|||.|+|||+|++.+.                 .
T Consensus        44 lyrv~k~~----~Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~D~~  119 (173)
T COG4959          44 LYRVSKLS----APVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPVDRV  119 (173)
T ss_pred             EEEecccC----CCcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeecccccc
Confidence            56667653    3569999999999874            2357999999999999998641                 0


Q ss_pred             -------CCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEE
Q 030087           99 -------DEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCL  145 (183)
Q Consensus        99 -------~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~  145 (183)
                             .....+-++++|+++|...    .|+|||||||||.++|+|.+.+++
T Consensus       120 GR~lp~~~gcR~l~~~el~lL~~~~~----~SfDsRYfGpipas~vig~aRPvw  169 (173)
T COG4959         120 GRALPRWQGCRYLAPSELLLLTDRSS----TSFDSRYFGPIPASQVIGVARPVW  169 (173)
T ss_pred             CCcCCcccCCceecCCeEEEEeccCC----cccccceecccCHHHcceeeeeee
Confidence                   1223588899999999888    899999999999999999998774

>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification

Probab=99.27  E-value=2e-11  Score=82.22  Aligned_cols=57  Identities=25%  Similarity=0.365  Sum_probs=45.3

Q ss_pred             EEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEec
Q 030087           32 GNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVST   95 (183)
Q Consensus        32 ~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~   95 (183)
                      +|.|+||+|+|+ +||+|++++.     ..++.||+|+|..+... ..++||+++.+|+.+.+.
T Consensus         1 ~V~GdSM~P~i~-~Gd~v~v~~~-----~~~~~gdivv~~~~~~~-~~~iKrv~~~~~~~~~~~   57 (70)
T PF00717_consen    1 RVEGDSMEPTIK-DGDIVLVDPS-----SEPKDGDIVVVKIDGDE-ELYIKRVVGEPGGIILIS   57 (70)
T ss_dssp             EEESSTTGGTSS-TTEEEEEEET-----S---TTSEEEEEETTEE-SEEEEEEEEETTEEEEE-
T ss_pred             CeECcCcccCee-CCCEEEEEEc-----CCCccCeEEEEEECCce-eeEEEEEEEeCCCEEEEe
Confidence            589999999999 8999999986     47999999999985442 389999999998866554

; 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=99.22  E-value=9.9e-11  Score=80.77  Aligned_cols=83  Identities=35%  Similarity=0.559  Sum_probs=63.4

Q ss_pred             EEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeE
Q 030087           30 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDEC  109 (183)
Q Consensus        30 ~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~  109 (183)
                      .+.+.|+||+|+|+ .||.+++++..    ..++.||+|++..+.  +..++||+...++                ++++
T Consensus         2 ~~~v~g~SM~P~i~-~gd~v~i~~~~----~~~~~G~iv~~~~~~--~~~~ikrl~~~~~----------------~~~~   58 (84)
T cd06462           2 ALRVEGDSMEPTIP-DGDLVLVDKSS----YEPKRGDIVVFRLPG--GELTVKRVIGLPG----------------EGHY   58 (84)
T ss_pred             eeEEcCCCccCccc-CCCEEEEEecC----CCCcCCEEEEEEcCC--CcEEEEEEEEECC----------------CCEE
Confidence            47899999999999 89999999852    248999999999854  4789999998864                3689


Q ss_pred             EEEeCCCCCCCCCCCCCCccccccCCCeEEEE
Q 030087          110 WVLADNENMKPKEANDSRTFGPVPMRNIVGRA  141 (183)
Q Consensus       110 ~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv  141 (183)
                      ++.+||++     +.+.+..+. ....++|++
T Consensus        59 ~l~~~N~~-----~~~~~~~~~-~~~~i~g~v   84 (84)
T cd06462          59 FLLGDNPN-----SPDSRIDGP-PELDIVGVV   84 (84)
T ss_pred             EEECCCCC-----CCcccccCC-CHHHEEEeC
Confidence            99999954     444443322 455666653

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=98.95  E-value=6.8e-09  Score=71.42  Aligned_cols=62  Identities=29%  Similarity=0.390  Sum_probs=52.4

Q ss_pred             EEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeE
Q 030087           30 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDEC  109 (183)
Q Consensus        30 ~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~  109 (183)
                      .+++.|+||+|+++ +||.+++++.     ..++.||++++..+.   ..++||+...++                 +.+
T Consensus         2 ~~~v~g~sM~p~i~-~gd~lii~~~-----~~~~~g~i~~~~~~~---~~~ikr~~~~~~-----------------~~~   55 (81)
T cd06529           2 ALRVKGDSMEPTIP-DGDLVLVDPS-----DTPRDGDIVVARLDG---ELTVKRLQRRGG-----------------GRL   55 (81)
T ss_pred             EEEEECCCcCCccC-CCCEEEEcCC-----CCCCCCCEEEEEECC---EEEEEEEEECCC-----------------CcE
Confidence            47899999999999 8999999985     358999999999843   689999998753                 478


Q ss_pred             EEEeCCCC
Q 030087          110 WVLADNEN  117 (183)
Q Consensus       110 ~vlGDn~~  117 (183)
                      ++.++|+.
T Consensus        56 ~L~s~N~~   63 (81)
T cd06529          56 RLISDNPA   63 (81)
T ss_pred             EEEeCCCC
Confidence            88888875

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=98.88  E-value=2e-08  Score=82.02  Aligned_cols=90  Identities=22%  Similarity=0.285  Sum_probs=64.6

Q ss_pred             EEEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCe
Q 030087           29 YLYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDE  108 (183)
Q Consensus        29 ~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~  108 (183)
                      ..+.|.|+||+|++. +||.++|+.-     .+..+||.|++..-  .++.++||+...+                 .|.
T Consensus       124 ~~i~V~GDSMeP~~~-~Gd~ilVd~~-----~~~~~gd~v~v~~~--g~~~~VK~l~~~~-----------------~~~  178 (214)
T COG2932         124 FALRVTGDSMEPTYE-DGDTLLVDPG-----VNTRRGDRVYVETD--GGELYVKKLQREP-----------------GGL  178 (214)
T ss_pred             EEEEEeCCccccccc-CCCEEEECCC-----CceeeCCEEEEEEe--CCeEEEEEEEEec-----------------CCe
Confidence            678999999999999 8999999985     46777886655542  3578999999875                 457


Q ss_pred             EEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecC
Q 030087          109 CWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTA  148 (183)
Q Consensus       109 ~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~  148 (183)
                      +.+.++|+.+     .+.+.+..=..=+|||+|++....+
T Consensus       179 ~~l~S~N~~~-----~~~~~~~~~~~v~iIgrVv~~~~~~  213 (214)
T COG2932         179 LRLVSLNPDY-----YPDEIFSEDDDVEIIGRVVWVSRLL  213 (214)
T ss_pred             EEEEeCCCCC-----CcccccCccceEEEEEEEEEEeeec
Confidence            7789999873     1222221111125899999887653

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

Probab=98.86  E-value=1.8e-08  Score=78.28  Aligned_cols=90  Identities=23%  Similarity=0.307  Sum_probs=68.5

Q ss_pred             EEEEeCCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCe-
Q 030087           30 LYGNKGDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDE-  108 (183)
Q Consensus        30 ~~~V~g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~-  108 (183)
                      +..|-+.||+|.++ .||.++.....   ....+.||||+|+.+.. ..+++|||+..-+.              .+|+ 
T Consensus        50 iVVVLSgSMePaF~-RGDlLfL~N~~---~~p~~vGdivVf~vegR-~IPiVHRviK~he~--------------~~~~~  110 (180)
T KOG3342|consen   50 IVVVLSGSMEPAFH-RGDLLFLTNRN---EDPIRVGDIVVFKVEGR-EIPIVHRVIKQHEK--------------SNGHI  110 (180)
T ss_pred             EEEEEcCCcCcccc-cccEEEEecCC---CCcceeccEEEEEECCc-cCchhHHHHHHhcc--------------cCCcE
Confidence            58899999999999 89999988652   36788999999998644 46899999977542              2444 


Q ss_pred             -EEEEeCCCCCCCCCCCCCCc-c----ccccCCCeEEEEEEE
Q 030087          109 -CWVLADNENMKPKEANDSRT-F----GPVPMRNIVGRAIYC  144 (183)
Q Consensus       109 -~~vlGDn~~~~~~~S~DSR~-~----G~V~~~~I~Gkv~~~  144 (183)
                       +...|||+.      .|.|. |    -...++.|+|+|.--
T Consensus       111 ~~LTKGDNN~------~dD~~Ly~~gq~~L~r~~Ivg~~~G~  146 (180)
T KOG3342|consen  111 KFLTKGDNNA------VDDRGLYAQGQNWLERKDIVGRVRGY  146 (180)
T ss_pred             EEEecCCCCc------ccchhcccccccceeccceeeEEeec
Confidence             455599975      56563 2    247889999998753

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=98.72  E-value=2.1e-07  Score=71.42  Aligned_cols=86  Identities=20%  Similarity=0.294  Sum_probs=61.6

Q ss_pred             EEEEEEeCCCCc-ccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccC
Q 030087           28 TYLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDK  106 (183)
Q Consensus        28 ~~~~~V~g~SM~-PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~  106 (183)
                      .+..+|.|+||. |+|+ +||++++++-     .+++.||+|++..   .++..+||+...                   
T Consensus        51 ~f~l~V~GdSM~~~~I~-~GD~liVd~~-----~~~~~Gdivv~~~---~g~~~vKrl~~~-------------------  102 (139)
T PRK10276         51 TYFVKASGDSMIDAGIS-DGDLLIVDSA-----ITASHGDIVIAAV---DGEFTVKKLQLR-------------------  102 (139)
T ss_pred             EEEEEEecCCCCCCCCC-CCCEEEEECC-----CCCCCCCEEEEEE---CCEEEEEEEEEC-------------------
Confidence            456899999998 6899 8999999974     3578899999976   356789998742                   


Q ss_pred             CeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEec
Q 030087          107 DECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRT  147 (183)
Q Consensus       107 g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p  147 (183)
                      +++++..+|+.+      ....+-.-..=.|+|+|++.++.
T Consensus       103 ~~~~L~s~N~~y------~~i~i~~~~~~~IiG~V~~~~~~  137 (139)
T PRK10276        103 PTVQLIPMNSAY------SPITISSEDTLDVFGVVTHIVKA  137 (139)
T ss_pred             CcEEEEcCCCCC------CCEEcCCCCcEEEEEEEEEEEEe
Confidence            257788888752      11111111122799999988764

>PRK00215 LexA repressor; Validated

Probab=98.62  E-value=5.7e-07  Score=72.78  Aligned_cols=87  Identities=22%  Similarity=0.289  Sum_probs=64.1

Q ss_pred             eEEEEEEeCCCCc-ccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCccccc
Q 030087           27 LTYLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLD  105 (183)
Q Consensus        27 ~~~~~~V~g~SM~-PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp  105 (183)
                      -.+.++|.|+||. |++. +||++++++-     ..++.||+|++...   ++..+||+.-.                  
T Consensus       117 ~~~~~~V~GdSM~~~~i~-~Gd~v~v~~~-----~~~~~G~ivv~~~~---~~~~vKrl~~~------------------  169 (205)
T PRK00215        117 EDFLLRVRGDSMIDAGIL-DGDLVIVRKQ-----QTARNGQIVVALID---DEATVKRFRRE------------------  169 (205)
T ss_pred             CeEEEEEccCCCCCCCcC-CCCEEEEeCC-----CCCCCCCEEEEEEC---CEEEEEEEEEe------------------
Confidence            3566899999995 7999 8999999874     35788999999873   36899999853                  


Q ss_pred             CCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEec
Q 030087          106 KDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRT  147 (183)
Q Consensus       106 ~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p  147 (183)
                      .|.+++..+|+.+      +...+.. ..=.|+|+|+..++.
T Consensus       170 ~~~~~L~s~Np~y------~~~~~~~-~~~~IiG~Vv~~~r~  204 (205)
T PRK00215        170 GGHIRLEPENPAY------EPIIVDP-DRVTIEGKVVGLIRN  204 (205)
T ss_pred             CCEEEEEcCCCCC------CCEEeCC-CcEEEEEEEEEEEEc
Confidence            2478888999863      2221111 024799999988763

>TIGR00498 lexA SOS regulatory protein LexA

Probab=98.60  E-value=8.3e-07  Score=71.53  Aligned_cols=88  Identities=22%  Similarity=0.282  Sum_probs=65.7

Q ss_pred             eEEEEEEeCCCCc-ccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCccccc
Q 030087           27 LTYLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLD  105 (183)
Q Consensus        27 ~~~~~~V~g~SM~-PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp  105 (183)
                      -.+.++|.|+||. |.+. +||++++++.     ..++.||+|++..   .++..+||+.-.                  
T Consensus       110 ~~f~~~V~GdSM~~~~i~-~Gd~v~v~~~-----~~~~~G~ivvv~~---~~~~~vKrl~~~------------------  162 (199)
T TIGR00498       110 AVFLLKVMGDSMVDAGIC-DGDLLIVRSQ-----KDARNGEIVAAMI---DGEVTVKRFYKD------------------  162 (199)
T ss_pred             CEEEEEecCCCCCCCCCC-CCCEEEEecC-----CCCCCCCEEEEEE---CCEEEEEEEEEE------------------
Confidence            4567999999996 6899 8999999874     4788899999997   456899998753                  


Q ss_pred             CCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecC
Q 030087          106 KDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTA  148 (183)
Q Consensus       106 ~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~  148 (183)
                      .+.+++..+|+.+.+..-.+       ..=.|+|+|+..++.+
T Consensus       163 ~~~i~L~s~N~~y~~i~~~~-------~~~~IiG~Vv~~~r~~  198 (199)
T TIGR00498       163 GTKVELKPENPEFDPIVLNA-------EDVTILGKVVGVIRNF  198 (199)
T ss_pred             CCEEEEEcCCCCCcCCcCCC-------CcEEEEEEEEEEEEec
Confidence            24788889998632111111       1248999999988754

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=98.60  E-value=6.8e-07  Score=72.65  Aligned_cols=86  Identities=22%  Similarity=0.227  Sum_probs=63.7

Q ss_pred             EEEEEeCCCCc-ccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCC
Q 030087           29 YLYGNKGDQMA-PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKD  107 (183)
Q Consensus        29 ~~~~V~g~SM~-PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g  107 (183)
                      +...|.|+||. |+|. +||+|+|++-     ..++.||+|++..   .++..+||+.-.                  .+
T Consensus       115 f~l~V~GdSM~~~~i~-~Gd~viv~~~-----~~~~~Gdivv~~~---~~~~~vKrl~~~------------------~~  167 (202)
T PRK12423        115 YLLQVQGDSMIDDGIL-DGDLVGVHRS-----PEARDGQIVVARL---DGEVTIKRLERS------------------GD  167 (202)
T ss_pred             EEEEEecCcCCCCCcC-CCCEEEEeCC-----CcCCCCCEEEEEE---CCEEEEEEEEEe------------------CC
Confidence            46899999997 7999 8999999974     4678899999987   346899999753                  24


Q ss_pred             eEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEec
Q 030087          108 ECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRT  147 (183)
Q Consensus       108 ~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p  147 (183)
                      .+++..+|+.+      +...+-+-..=.|+|+++..++.
T Consensus       168 ~~~L~s~N~~y------~~i~~~~~~~~~I~Gvv~g~~r~  201 (202)
T PRK12423        168 RIRLLPRNPAY------APIVVAPDQDFAIEGVFCGLIRQ  201 (202)
T ss_pred             EEEEEcCCCCC------CCEEcCCCCcEEEEEEEEEEEEC
Confidence            78888998763      22221111123799999988764

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

Probab=97.80  E-value=0.00047  Score=56.33  Aligned_cols=89  Identities=19%  Similarity=0.227  Sum_probs=67.1

Q ss_pred             eEEEEEEeCCCCcc-cccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCccccc
Q 030087           27 LTYLYGNKGDQMAP-VMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLD  105 (183)
Q Consensus        27 ~~~~~~V~g~SM~P-tL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp  105 (183)
                      -.+..+|.|+||.. .+. +||.|+|++-     ...+.||+|+...++  ++.-+||..--                  
T Consensus       111 ~~f~L~V~GdSM~~~gi~-dGDlvvV~~~-----~~a~~GdiVvA~i~g--~e~TvKrl~~~------------------  164 (201)
T COG1974         111 ATFFLRVSGDSMIDAGIL-DGDLVVVDPT-----EDAENGDIVVALIDG--EEATVKRLYRD------------------  164 (201)
T ss_pred             ceEEEEecCCccccCcCC-CCCEEEEcCC-----CCCCCCCEEEEEcCC--CcEEEEEEEEe------------------
Confidence            46779999999975 555 7999999974     678999999999754  55889999853                  


Q ss_pred             CCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecC
Q 030087          106 KDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTA  148 (183)
Q Consensus       106 ~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~  148 (183)
                      .+.+++.--|+.      +.+..+..- .-.|+|+++.++|+.
T Consensus       165 g~~i~L~p~Np~------~~~i~~~~~-~~~I~G~vvgv~r~~  200 (201)
T COG1974         165 GNQILLKPENPA------YPPIPVDAD-SVTILGKVVGVIRDI  200 (201)
T ss_pred             CCEEEEEeCCCC------CCCcccCcc-ceEEEEEEEEEEecC
Confidence            247888888876      333333222 447999999999874

>PRK00364 groES co-chaperonin GroES; Reviewed

Probab=86.60  E-value=5.2  Score=28.68  Aligned_cols=92  Identities=12%  Similarity=0.171  Sum_probs=46.6

Q ss_pred             ccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeEEEEeCCCCCCCC
Q 030087           42 MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPK  121 (183)
Q Consensus        42 L~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~~vlGDn~~~~~~  121 (183)
                      |+|-||+||+.+..   ..+-..|-|++=.  ....+.....|+|+.-. ....++...+..+..|..-+..+.....  
T Consensus         3 i~Pl~drVLV~~~~---~e~~T~gGI~Lp~--~a~~k~~~G~VvaVG~G-~~~~~G~~~~~~vk~GD~Vlf~~~~g~e--   74 (95)
T PRK00364          3 LKPLGDRVLVKRLE---EEEKTAGGIVLPD--SAKEKPQEGEVVAVGPG-RRLDNGERVPLDVKVGDKVLFGKYAGTE--   74 (95)
T ss_pred             ceEcCCEEEEEEcc---cCccccceEEcCc--cccCCcceEEEEEECCC-eECCCCCEeecccCCCCEEEEcCCCCeE--
Confidence            55689999998863   2344456555522  12345567777777321 1112233334445555444443332100  


Q ss_pred             CCCCCCccccccCCCeEEEE
Q 030087          122 EANDSRTFGPVPMRNIVGRA  141 (183)
Q Consensus       122 ~S~DSR~~G~V~~~~I~Gkv  141 (183)
                      --+|...|=.++.++|+|++
T Consensus        75 v~~~~~~y~iv~~~DIlavi   94 (95)
T PRK00364         75 VKIDGEEYLILRESDILAIV   94 (95)
T ss_pred             EEECCEEEEEEEHHHEEEEe
Confidence            12344445567777777764

>COG0234 GroS Co-chaperonin GroES (HSP10) [Posttranslational modification, protein turnover, chaperones]

Probab=82.12  E-value=6.8  Score=28.37  Aligned_cols=74  Identities=18%  Similarity=0.297  Sum_probs=39.4

Q ss_pred             ccCCCcEEEEEecCC------------CCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeE
Q 030087           42 MGGLGGTLLVRKLPA------------ADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDEC  109 (183)
Q Consensus        42 L~~~GD~Vlv~k~~~------------~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~  109 (183)
                      |+|-||+|++.+.-.            ..-..+++|.+|++-.-...+.--....--..||+|.+.......+++...+|
T Consensus         3 ikPL~DRVlVk~~e~EekT~gGIvlpdsakeK~~~g~VvAVG~G~~~~~g~~~~~~VkvGD~Vlf~ky~G~evk~dgeey   82 (96)
T COG0234           3 IKPLGDRVLVKRVEEEEKTAGGIVLPDSAKEKPQEGEVVAVGPGRRDENGELVPLDVKVGDRVLFGKYAGTEVKIDGEEY   82 (96)
T ss_pred             ceecCCEEEEEEchhhccccCcEEecCccccCCcceEEEEEccceecCCCCEeccccccCCEEEECccCCcEEEECCEEE
Confidence            456789999988631            01245666777766531111110111111234777777765555566665666


Q ss_pred             EEEeCC
Q 030087          110 WVLADN  115 (183)
Q Consensus       110 ~vlGDn  115 (183)
                      .++.+.
T Consensus        83 lil~e~   88 (96)
T COG0234          83 LILSES   88 (96)
T ss_pred             EEechH
Confidence            666543

>PRK14533 groES co-chaperonin GroES; Provisional

Probab=80.91  E-value=12  Score=26.80  Aligned_cols=86  Identities=13%  Similarity=0.256  Sum_probs=43.7

Q ss_pred             ccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEc-CceEEecCCCCCcccccCCeEEEEeCCCCCCC
Q 030087           42 MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIE-GYEMVSTDEKDEPFVLDKDECWVLADNENMKP  120 (183)
Q Consensus        42 L~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~p-GD~V~~~~~~~~~~~vp~g~~~vlGDn~~~~~  120 (183)
                      |.|-||+||+.+..   ..+-..|-|++=..  ...+.....|+|+. |..       ..+..+..|..-+.++..... 
T Consensus         3 i~Pl~DRVLVk~~~---~e~~T~gGI~Lp~~--a~ek~~~G~VvavG~g~~-------~~~~~Vk~GD~Vl~~~y~g~e-   69 (91)
T PRK14533          3 VIPLGERLLIKPIK---EEKKTEGGIVLPDS--AKEKPMKAEVVAVGKLDD-------EEDFDIKVGDKVIFSKYAGTE-   69 (91)
T ss_pred             ceEcCCEEEEEEcc---ccceecccEEeccc--ccCCcceEEEEEECCCCc-------cccccccCCCEEEEccCCCeE-
Confidence            45689999998863   23344455555322  22344566666663 321       123344455444444333210 


Q ss_pred             CCCCCCCccccccCCCeEEEE
Q 030087          121 KEANDSRTFGPVPMRNIVGRA  141 (183)
Q Consensus       121 ~~S~DSR~~G~V~~~~I~Gkv  141 (183)
                       --+|...|=.++.++|+|++
T Consensus        70 -v~~~~~~y~iv~e~DILa~i   89 (91)
T PRK14533         70 -IKIDDEDYIIIDVNDILAKI   89 (91)
T ss_pred             -EEECCEEEEEEEhHhEEEEe
Confidence             12344445567777777764

---

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	183
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	100.0
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	99.41
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	99.28
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	99.07
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	99.04
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	98.95
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	98.79
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	97.21

>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=3.1e-34  Score=238.08  Aligned_cols=125  Identities=22%  Similarity=0.359  Sum_probs=107.0

Q ss_pred             hhceeEEEEEEeCCCCcccccCCCcEEEEEecCCC-----------CCCCCCcCeEEEEecCCCCCccEEEEEEEEcCce
Q 030087           23 WKGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAA-----------DPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYE   91 (183)
Q Consensus        23 ~~~~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~-----------~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~   91 (183)
                      ++.|+++++.|+|+||+|||+ .||+|+++|+.|.           ...++++||||+|+.|.+++..+||||+|+|||+
T Consensus         1 ir~fv~~~~~v~g~SM~Ptl~-~GD~vlv~k~~yg~r~P~~~~~l~~~~~~~rGDIvvf~~p~~~~~~~iKRViglpGD~   79 (248)
T 1b12_A            1 VRSFIYEPFQIPSGSMMPTLL-IGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDK   79 (248)
T ss_dssp             -CBCCEEEEECCSCTTTTTSC-TTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCE
T ss_pred             CeEEEEEEEEecccccccccc-CCCEEEEEecccCcccccccccccccCCCCCCcEEEEEeCCCCCceEEEEEEeeCCCE
Confidence            367999999999999999999 8999999997541           0257999999999998877789999999999999


Q ss_pred             EEecCC-------------------CC-----------------------------------------------------
Q 030087           92 MVSTDE-------------------KD-----------------------------------------------------   99 (183)
Q Consensus        92 V~~~~~-------------------~~-----------------------------------------------------   99 (183)
                      |++.++                   ..                                                     
T Consensus        80 v~i~~~~~~l~ING~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~~~~~~~~~~~~~e~l~~~~  159 (248)
T 1b12_A           80 VTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVT  159 (248)
T ss_dssp             EEEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEE
T ss_pred             EEEEcCceEEEECCccccccccccceeeeeeccccccccccccccccccccccccccccccccccchhhhhHHhhhcCcc
Confidence            987543                   00                                                     


Q ss_pred             ------------------------CcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCCCC
Q 030087          100 ------------------------EPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHG  152 (183)
Q Consensus       100 ------------------------~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  152 (183)
                                              .+++||+|+|||+||||.    +|.|||+||+||.++|+|||.+++||+++.+
T Consensus       160 ~~~~~~p~~~~~~~~~~~~~~~~~~~~~VP~g~yFvmGDNR~----nS~DSR~~G~Vp~~~IvGka~~i~~s~~~~~  232 (248)
T 1b12_A          160 HRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRD----NSADSRYWGFVPEANLVGRATAIWMSFDKQE  232 (248)
T ss_dssp             EEEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTT----SCCCHHHHCCEEGGGEEEEEEEEEEEBC---
T ss_pred             ceeEecCCccccccchhcccccccccEEeCCCcEEEecCCCc----ccCCCCcccccCHHHeEEEEEEEEEeCCccc
Confidence                                    024899999999999999    9999999999999999999999999988653

>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=99.41  E-value=2.1e-12  Score=94.10  Aligned_cols=91  Identities=18%  Similarity=0.267  Sum_probs=71.5

Q ss_pred             EEEEEEeCCCCc------ccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCc
Q 030087           28 TYLYGNKGDQMA------PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEP  101 (183)
Q Consensus        28 ~~~~~V~g~SM~------PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~  101 (183)
                      .+.++|.|+||+      |+|. +||+|++++.     .+++.||+|++..+.  ++.++||++..              
T Consensus        13 ~f~~~V~GdSM~~~~g~~p~i~-~Gd~v~Vd~~-----~~~~~Gdivv~~~~~--~~~~vKrl~~~--------------   70 (109)
T 1kca_A           13 AFWLEVEGNSMTAPTGSKPSFP-DGMLILVDPE-----QAVEPGDFCIARLGG--DEFTFKKLIRD--------------   70 (109)
T ss_dssp             CEEEECCSSTTCCCTTCSSCCC-TTCEEEEETT-----SCCCTTCEEEEECST--TCEEEEEEEEE--------------
T ss_pred             EEEEEEeCcCcCCCCCCCCeeC-CCCEEEEecC-----CcCCCCCEEEEEECC--CeEEEEEEEEe--------------
Confidence            346889999999      9999 8999999985     368999999998743  46899999874              


Q ss_pred             ccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCCCC
Q 030087          102 FVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHG  152 (183)
Q Consensus       102 ~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  152 (183)
                          .|.+++.+||+.+      ....+-  ..-+|+|+|+..+||+..||
T Consensus        71 ----~~~~~L~s~N~~y------~~~~~~--~~~~IiG~Vv~~~~~~~~~~  109 (109)
T 1kca_A           71 ----SGQVFLQPLNPQY------PMIPCN--ESCSVVGKVIASQWPEETFG  109 (109)
T ss_dssp             ----TTEEEEECSSTTS------CCEECC--TTCEEEEEEEEEECCGGGGC
T ss_pred             ----CCEEEEEECCCCC------CCEEcC--CCcEEEEEEEEEEeCHHHcC
Confidence                2578899999863      112111  34679999999999987664

>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=99.28  E-value=1.8e-11  Score=89.67  Aligned_cols=88  Identities=22%  Similarity=0.310  Sum_probs=64.7

Q ss_pred             EEEEEEeCCCCcc-cccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccC
Q 030087           28 TYLYGNKGDQMAP-VMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDK  106 (183)
Q Consensus        28 ~~~~~V~g~SM~P-tL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~  106 (183)
                      .+.++|.|+||+| +|+ +||.|++++.     .+++.||+|++..+   ++.++||+...                 + 
T Consensus        27 ~~~~~v~GdSM~p~~i~-~Gd~v~vd~~-----~~~~~gdivv~~~~---~~~~vKr~~~~-----------------~-   79 (116)
T 1umu_A           27 TYFVKASGDSMIDGGIS-DGDLLIVDSA-----ITASHGDIVIAAVD---GEFTVKKLQLR-----------------P-   79 (116)
T ss_dssp             EEEEECCSSTTGGGTCC-TTCEEEEETT-----SCCCTTCEEEEEET---TEEEEEEEECS-----------------S-
T ss_pred             EEEEEECCCCcCCCCCC-CCCEEEEEcC-----CCCCCCCEEEEEEC---CEEEEEEEEeC-----------------C-
Confidence            4578999999999 899 8999999985     35889999999873   46899999863                 2 


Q ss_pred             CeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCC
Q 030087          107 DECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAV  149 (183)
Q Consensus       107 g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~  149 (183)
                       .+++.+||+.+      ....+..-..-+|+|+|++.++.+.
T Consensus        80 -~~~L~s~N~~y------~~~~i~~~~~~~IiG~Vv~~~r~~r  115 (116)
T 1umu_A           80 -TVQLIPMNSAY------SPITISSEDTLDVFGVVIHVVKAAT  115 (116)
T ss_dssp             -SCEEECSSTTS------CCEECCTTSCEEEEEEEEEEEC---
T ss_pred             -cEEEECCCCCC------CCEEcCCCCeEEEEEEEEEEEEecC
Confidence             67888999762      1121111123479999999887653

>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=99.07  E-value=7.8e-10  Score=87.70  Aligned_cols=88  Identities=26%  Similarity=0.342  Sum_probs=65.3

Q ss_pred             EEEEEEeCCCCccc-ccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccC
Q 030087           28 TYLYGNKGDQMAPV-MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDK  106 (183)
Q Consensus        28 ~~~~~V~g~SM~Pt-L~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~  106 (183)
                      .+.++|.|+||+|+ |. +||.|++++.     ..++.||+|++..   +++..+||+. .+|                 
T Consensus       110 ~~~~~v~GdSM~p~~i~-~Gd~v~vd~~-----~~~~~G~i~v~~~---~~~~~vKrl~-~~~-----------------  162 (202)
T 1jhf_A          110 DFLLRVSGMSMKDIGIM-DGDLLAVHKT-----QDVRNGQVVVARI---DDEVTVKRLK-KQG-----------------  162 (202)
T ss_dssp             CEEEECCSSTTGGGTCC-TTCEEEEEEC-----SCCCTTSEEEEEE---TTEEEEEEEE-EET-----------------
T ss_pred             EEEEEECCCCCCCCCCC-CCCEEEEecc-----CCcCCCeEEEEEE---CCEEEEEEEE-EeC-----------------
Confidence            35789999999999 99 8999999884     3588899999987   3578999998 454                 


Q ss_pred             CeEEEEeCCCCCCCCCCCCCCcccc-ccCCCeEEEEEEEEecC
Q 030087          107 DECWVLADNENMKPKEANDSRTFGP-VPMRNIVGRAIYCLRTA  148 (183)
Q Consensus       107 g~~~vlGDn~~~~~~~S~DSR~~G~-V~~~~I~Gkv~~~~~p~  148 (183)
                      |.+++.+||+.+      ....+.. -..-.|+|+|++.++..
T Consensus       163 ~~~~l~s~N~~y------~~~~~~~~~~~~~IiG~Vv~~~r~~  199 (202)
T 1jhf_A          163 NKVELLPENSEF------KPIVVDLRQQSFTIEGLAVGVIRNG  199 (202)
T ss_dssp             TEEEEECSSTTC------CCEEEETTTSCEEEEEEEEEEEEC-
T ss_pred             CEEEEEECCCCC------CCEEccCCCCceEEEEEEEEEEEcc
Confidence            478888999752      1111110 01235999999988753

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

Probab=99.04  E-value=1.6e-09  Score=81.09  Aligned_cols=82  Identities=17%  Similarity=0.243  Sum_probs=63.2

Q ss_pred             EEEEEeCCCCc------ccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcc
Q 030087           29 YLYGNKGDQMA------PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPF  102 (183)
Q Consensus        29 ~~~~V~g~SM~------PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~  102 (183)
                      +.++|.|+||+      |+|. +||+|++++.     .+++.||+|++....  ++..+||++..               
T Consensus        45 f~~~V~GdSM~~~~g~~p~i~-~Gd~v~vd~~-----~~~~~Gdivv~~~~~--~~~~vKrl~~~---------------  101 (133)
T 2hnf_A           45 FWLEVEGNSMTTPTGSKTSFP-DGMLILVDPE-----QAVEPGDFCIARLGG--DEFTFAKLIRD---------------  101 (133)
T ss_dssp             EEEECCSSTTCCC---CCCCC-TTCEEEEETT-----SCCCTTSEEEEEETT--TEEEEEEEEEE---------------
T ss_pred             EEEEEeCCCcCCCcCCCCccC-CCCEEEEccC-----CCCCCCCEEEEEECC--CEEEEEEEEEe---------------
Confidence            56899999999      9999 8999999984     368899999998743  46899999864               


Q ss_pred             cccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEE
Q 030087          103 VLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYC  144 (183)
Q Consensus       103 ~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~  144 (183)
                         .|.+++.+||+.+      ....+.  ..-+|+|+|++.
T Consensus       102 ---~~~~~L~s~N~~y------~~~~~~--~~~~IiG~Vv~~  132 (133)
T 2hnf_A          102 ---SGQVFLQPLNPQY------PMIPCN--ESCSVVGKVIAS  132 (133)
T ss_dssp             ---TTEEEEECSSTTS------CCEECS--TTEEEEEEEEEE
T ss_pred             ---CCeEEEEECCCCC------CCEEcC--CCCEEEEEEEEE
Confidence               2478899999863      111111  345799999864

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

Probab=98.95  E-value=2.3e-09  Score=86.40  Aligned_cols=90  Identities=18%  Similarity=0.269  Sum_probs=68.6

Q ss_pred             EEEEEeCCCCc------ccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcc
Q 030087           29 YLYGNKGDQMA------PVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPF  102 (183)
Q Consensus        29 ~~~~V~g~SM~------PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~  102 (183)
                      +.+.|.|+||+      |+|. +||+|+|++.     ..++.||+|++...  .++..+||+...               
T Consensus       141 ~~l~V~GdSM~~~~g~~P~i~-~Gd~v~vd~~-----~~~~~g~ivv~~~~--~~~~~vKrl~~~---------------  197 (236)
T 3bdn_A          141 FWLEVEGNSMTAPTGSKPSFP-DGMLILVDPE-----QAVEPGDFCIARLG--GDEFTFKKLIRG---------------  197 (236)
T ss_dssp             EEEECCSSSSCCCSSCSSCCC-SSCEEEECCS-----SCCCTTSEEEEEST--TTCCCCEEEECC---------------
T ss_pred             EEEEEeCCCcCCCCCCCCcCC-CCCEEEECCC-----CCCCCCcEEEEEEC--CCeEEEEEEEEc---------------
Confidence            56899999999      9999 8999999874     36888999999872  346799999853               


Q ss_pred             cccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCCCC
Q 030087          103 VLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHG  152 (183)
Q Consensus       103 ~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  152 (183)
                         .|.+++.+||+.+.      ...+-  ..-.|+|+|+..+||...|+
T Consensus       198 ---~~~~~L~s~N~~y~------~~~~~--~~~~IiG~Vv~~~~~~~~~~  236 (236)
T 3bdn_A          198 ---SGQVFLQPLNPQYP------MIPCN--ESCSVVGKVIASQWPEETFG  236 (236)
T ss_dssp             ---SSSCEEECSSTTSC------CBC----CCCEEEEEEEECCCCSSSCC
T ss_pred             ---CCcEEEEeCCCCCC------CeecC--CCcEEEEEEEEEEcCHHhcC
Confidence               34677889997631      11111  34579999999999877664

>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=98.79  E-value=6e-08  Score=76.79  Aligned_cols=86  Identities=22%  Similarity=0.302  Sum_probs=65.5

Q ss_pred             EEEEEEeCCCC-cccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccC
Q 030087           28 TYLYGNKGDQM-APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDK  106 (183)
Q Consensus        28 ~~~~~V~g~SM-~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~  106 (183)
                      .+.++|.|+|| +|+|. +||+|++++.     ..++.||+|++...   ++..+||+...                  .
T Consensus       109 ~f~l~v~GdSM~~p~i~-~GD~viv~~~-----~~~~~G~ivv~~~~---~~~~vKr~~~~------------------~  161 (196)
T 3k2z_A          109 HFLLKVKGESMIEEHIC-DGDLVLVRRQ-----DWAQNGDIVAAMVD---GEVTLAKFYQR------------------G  161 (196)
T ss_dssp             EEEEECCSSTTGGGTCC-TTCEEEEEEC-----SCCCTTCEEEEEET---TEEEEEEEEEE------------------T
T ss_pred             EEEEEEeCCCcCCCCCC-CCCEEEEecc-----CcCCCCCEEEEEEC---CcEEEEEEEEE------------------C
Confidence            56789999999 69999 8999999985     36788999999873   47899999753                  3


Q ss_pred             CeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEec
Q 030087          107 DECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRT  147 (183)
Q Consensus       107 g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p  147 (183)
                      |.+++..+|+.+      ....+- -..-.|+|+|+..++.
T Consensus       162 ~~~~L~~~N~~y------~~i~i~-~~~~~i~G~Vv~~~r~  195 (196)
T 3k2z_A          162 DTVELRPANREM------SSMFFR-AEKVKILGKVVGVFRK  195 (196)
T ss_dssp             TEEEEECSCTTS------CCEEEE-GGGCEEEEEEEEEEEE
T ss_pred             CEEEEEECCCCC------CCEEec-CCCEEEEEEEEEEEEc
Confidence            578889999862      111111 1234799999998764

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

Probab=97.21  E-value=0.0013  Score=50.57  Aligned_cols=77  Identities=12%  Similarity=0.088  Sum_probs=53.5

Q ss_pred             CCCCcccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeEEEEeC
Q 030087           35 GDQMAPVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLAD  114 (183)
Q Consensus        35 g~SM~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~~vlGD  114 (183)
                      +++|...-. +||+|+|++-      .+..|+++++..   .++..+||+.-.+|                 |.+.+.+|
T Consensus       112 ~~~~~~v~~-~Gd~v~Vd~~------~~~~g~i~vv~~---~g~~~vKrl~~~~~-----------------~~i~L~s~  164 (189)
T 2fjr_A          112 LTDGMAIRS-EGKIYFVDKQ------ASLSDGLWLVDI---KGAISIRELTKLPG-----------------RKLHVAGG  164 (189)
T ss_dssp             CSSEEEEEE-TTEEEEEETT------CCSCSEEEEEEE---TTEEEEEEEEEETT-----------------TEEEEESS
T ss_pred             CCCeEEEee-CCcEEEEEcC------CccCCCEEEEEe---CCeEEEEEEEECCC-----------------CEEEEEeC
Confidence            345665556 8999999972      366799999987   35789999987654                 36777788


Q ss_pred             CCCCCCCCCCCCCccccccCCCeEEEEEEEEecC
Q 030087          115 NENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTA  148 (183)
Q Consensus       115 n~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~  148 (183)
                      |+.    ...+      ...=.|+|+|++.+...
T Consensus       165 N~~----~~i~------~~~i~IiG~Vv~~~r~~  188 (189)
T 2fjr_A          165 KVP----FECG------IDDIKTLGRVVGVYSEV  188 (189)
T ss_dssp             SSC----EEEE------TTSSEEEEEEEEEEEEC
T ss_pred             CCC----eEec------ccceEEEEEEEEEEEec
Confidence            753    1111      12336999999987654

---

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	183
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	3e-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 = 41.1 bits (95), Expect = 3e-05
 Identities = 13/47 (27%), Positives = 26/47 (55%), Gaps = 4/47 (8%)

Query: 97  EKDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIY 143
           ++   +++   + +++ DN +     + DSR +G VP  N+VGRA  
Sbjct: 180 QQLATWIVPPGQYFMMGDNRD----NSADSRYWGFVPEANLVGRATA 222

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	183
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	100.0
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	99.2
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	99.04
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	98.89
d1aono_	97	Chaperonin-10 (GroES) {Escherichia coli [TaxId: 56	84.94
d1we3o_	96	Chaperonin-10 (GroES) {Thermus thermophilus [TaxId	84.57
d1p3ha_	99	Chaperonin-10 (GroES) {Mycobacterium tuberculosis	80.62

>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=2.5e-34  Score=234.84  Aligned_cols=123  Identities=23%  Similarity=0.375  Sum_probs=106.9

Q ss_pred             hceeEEEEEEeCCCCcccccCCCcEEEEEecCCC-----------CCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceE
Q 030087           24 KGKLTYLYGNKGDQMAPVMGGLGGTLLVRKLPAA-----------DPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEM   92 (183)
Q Consensus        24 ~~~~~~~~~V~g~SM~PtL~~~GD~Vlv~k~~~~-----------~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V   92 (183)
                      |.|+++++.|++.||+|||. .||+|+|+|++|.           ....+++||+|+|..|.+....++|||+|+|||++
T Consensus         1 R~f~~~~f~IPs~SMePTL~-~GD~l~V~K~~Yg~r~P~~~~~~~~~~~~~rgdivvf~~p~~~~~~~ikR~ig~pGD~i   79 (247)
T d1b12a_           1 RSFIYEPFQIPSGSMMPTLL-IGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKV   79 (247)
T ss_dssp             CBCCEEEEECCSCTTTTTSC-TTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCEE
T ss_pred             CEEEEEEEEeCcccccchhc-cCCEEEEEccccCccCCccCcccccccCcccCceeeecCCCCCCccccccccCCCCCeE
Confidence            46899999999999999999 8999999998752           12457999999999999888899999999999999


Q ss_pred             EecCC---------------------------------------------------------------------------
Q 030087           93 VSTDE---------------------------------------------------------------------------   97 (183)
Q Consensus        93 ~~~~~---------------------------------------------------------------------------   97 (183)
                      ++.+.                                                                           
T Consensus        80 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (247)
T d1b12a_          80 TYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTH  159 (247)
T ss_dssp             EEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEEE
T ss_pred             EEecccceEEecccccccceeecceeecccccCcccceeeeeeccCceeccceeeccccccccCceEeeeeeeccCCcce
Confidence            86420                                                                           


Q ss_pred             ---------------------CCCcccccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCCC
Q 030087           98 ---------------------KDEPFVLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDH  151 (183)
Q Consensus        98 ---------------------~~~~~~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~  151 (183)
                                           ...+++||+|+||++||||.    +|.|||+||+||+++|+|||.+++||+++-
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Vp~~~yfvmGDNR~----nS~DSR~wG~Vp~~~I~Gka~~i~~p~~~~  230 (247)
T d1b12a_         160 RILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRD----NSADSRYWGFVPEANLVGRATAIWMSFDKQ  230 (247)
T ss_dssp             EEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTT----SCCCHHHHCCEEGGGEEEEEEEEEEEBC--
T ss_pred             eEEecccchhcccccccCCccccceEEEeCCeEEEecCCCC----CCccccccCcCCHHHeEEEEEEEEEECCCC
Confidence                                 01246899999999999999    999999999999999999999999998653

>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=99.20  E-value=1e-10  Score=82.42  Aligned_cols=90  Identities=18%  Similarity=0.268  Sum_probs=69.1

Q ss_pred             EEEEEeCCCC------cccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcc
Q 030087           29 YLYGNKGDQM------APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPF  102 (183)
Q Consensus        29 ~~~~V~g~SM------~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~  102 (183)
                      +..+|.|+||      +|+|+ +||+|+|++-     .+++.||+|++...  .++..+||+.-.               
T Consensus         6 F~l~V~GdSM~~~~~~ep~i~-~Gd~viVd~~-----~~~~~g~ivva~~~--~~~~~vKr~~~~---------------   62 (101)
T d1f39a_           6 FWLEVEGNSMTAPTGSKPSFP-DGMLILVDPE-----QAVEPGDFCIARLG--GDEFTFKKLIRD---------------   62 (101)
T ss_dssp             EEEECCSSTTCCCTTCSSCCC-TTCEEEEETT-----SCCCTTCEEEEECT--TSCEEEEEEEEE---------------
T ss_pred             EEEEEeCCccCCCcccCCCcC-CCCEEEEEec-----CccCCCCEEEEEEC--CCeEEEEEEEEc---------------
Confidence            4688999999      89999 8999999984     46888999988763  345789999753               


Q ss_pred             cccCCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEecCCCCC
Q 030087          103 VLDKDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLRTAVDHG  152 (183)
Q Consensus       103 ~vp~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  152 (183)
                         .|.+++..+|+.+      ....+.  ..-.|+|+|+..+||-..||
T Consensus        63 ---~~~~~L~s~N~~y------~~i~~~--~~~~IiG~Vv~s~~p~~~~~  101 (101)
T d1f39a_          63 ---SGQVFLQPLNPQY------PMIPCN--ESCSVVGKVIASQWPEETFG  101 (101)
T ss_dssp             ---TTEEEEECSSTTS------CCEECS--TTCEEEEEEEEEECCGGGGC
T ss_pred             ---CCEEEEEECCCCC------CCCcCC--CCcEEEEEEEEEECcHHHCC
Confidence               3588899999863      222221  24579999999999977665

>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=99.04  E-value=7.8e-10  Score=80.62  Aligned_cols=85  Identities=26%  Similarity=0.312  Sum_probs=64.4

Q ss_pred             EEEEEeCCCCccc-ccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCC
Q 030087           29 YLYGNKGDQMAPV-MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKD  107 (183)
Q Consensus        29 ~~~~V~g~SM~Pt-L~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g  107 (183)
                      +..+|.|+||+|+ +. +||++++++.     .+++.||+|++..   +++..+||+.-.                  .|
T Consensus        39 f~lrV~GdSM~~~~i~-~gd~viv~~~-----~~~~~G~ivv~~~---~ge~~vKrl~~~------------------~~   91 (126)
T d1jhfa2          39 FLLRVSGMSMKDIGIM-DGDLLAVHKT-----QDVRNGQVVVARI---DDEVTVKRLKKQ------------------GN   91 (126)
T ss_dssp             EEEECCSSTTGGGTCC-TTCEEEEEEC-----SCCCTTSEEEEEE---TTEEEEEEEEEE------------------TT
T ss_pred             EEEEEcCCcccCcccC-CCEEEEEecc-----ccccCCCEEEEEE---CCEEEEEEEEEc------------------CC
Confidence            5689999999998 88 8999999984     4788999999998   457899999864                  35


Q ss_pred             eEEEEeCCCCCCCCCCCCCCcccc-ccCCCeEEEEEEEEe
Q 030087          108 ECWVLADNENMKPKEANDSRTFGP-VPMRNIVGRAIYCLR  146 (183)
Q Consensus       108 ~~~vlGDn~~~~~~~S~DSR~~G~-V~~~~I~Gkv~~~~~  146 (183)
                      .+++..+|+.+      ....+.. =..=.|+|+|+..++
T Consensus        92 ~~~L~s~N~~y------~pi~~~~~~~~~~IiG~Vv~vir  125 (126)
T d1jhfa2          92 KVELLPENSEF------KPIVVDLRQQSFTIEGLAVGVIR  125 (126)
T ss_dssp             EEEEECSSTTC------CCEEEETTTSCEEEEEEEEEEEE
T ss_pred             EEEEecCCcCC------CCeEccCCCCcEEEEEEEEEEEC
Confidence            78999999862      1111110 011169999998875

>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=98.89  E-value=6.3e-09  Score=73.71  Aligned_cols=86  Identities=21%  Similarity=0.319  Sum_probs=63.9

Q ss_pred             eEEEEEEeCCCC-cccccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCccccc
Q 030087           27 LTYLYGNKGDQM-APVMGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLD  105 (183)
Q Consensus        27 ~~~~~~V~g~SM-~PtL~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp  105 (183)
                      -.+..+|.|+|| .|.|. +||.+++++.     .+++.|++|++..   +++..+||+..                   
T Consensus        19 ~~f~~rV~GdSM~~~gI~-~GDlliVd~~-----~~~~~g~ivva~i---~ge~~vKrl~~-------------------   70 (105)
T d1umua_          19 ATYFVKASGDSMIDGGIS-DGDLLIVDSA-----ITASHGDIVIAAV---DGEFTVKKLQL-------------------   70 (105)
T ss_dssp             GEEEEECCSSTTGGGTCC-TTCEEEEETT-----SCCCTTCEEEEEE---TTEEEEEEEEC-------------------
T ss_pred             ceEEEEEcCCccccCccC-CCCEEEEEcc-----cccccCcEEEEEE---CCEEEEEEEEE-------------------
Confidence            346799999999 58899 8999999985     4788999999998   46789999852                   


Q ss_pred             CCeEEEEeCCCCCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 030087          106 KDECWVLADNENMKPKEANDSRTFGPVPMRNIVGRAIYCLR  146 (183)
Q Consensus       106 ~g~~~vlGDn~~~~~~~S~DSR~~G~V~~~~I~Gkv~~~~~  146 (183)
                      +|..+++.+|+.      ++.....+=..=.|.|+|+..++
T Consensus        71 ~~~~~L~~~N~~------y~~i~i~~~~~~~I~GvVv~viR  105 (105)
T d1umua_          71 RPTVQLIPMNSA------YSPITISSEDTLDVFGVVIHVVK  105 (105)
T ss_dssp             SSSCEEECSSTT------SCCEECCTTSCEEEEEEEEEEEC
T ss_pred             CCcEEEECCCCC------CCCEEcCCCCCEEEEEEEEEEEC
Confidence            246677888876      33333222222359999988764

>d1aono_ b.35.1.1 (O:) Chaperonin-10 (GroES) {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: GroES-like
superfamily: GroES-like
family: GroES
domain: Chaperonin-10 (GroES)
species: Escherichia coli [TaxId: 562]

Probab=84.94  E-value=1  Score=29.47  Aligned_cols=93  Identities=13%  Similarity=0.177  Sum_probs=51.6

Q ss_pred             ccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeEEEEeCCCCCCCC
Q 030087           42 MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPK  121 (183)
Q Consensus        42 L~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~~vlGDn~~~~~~  121 (183)
                      |+|-||+|||.+..   ..+-..|-|++=.  ....+.....|+|+.-. ....++...+..+..|..-+.+++...+ .
T Consensus         3 ikPlgdrVLVk~~~---~e~kT~gGIiLp~--~~~~~~~~g~VvavG~g-~~~~~g~~~~~~vk~GD~Vl~~~~~g~~-~   75 (97)
T d1aono_           3 IRPLHDRVIVKRKE---VETKSAGGIVLTG--SAAAKSTRGEVLAVGNG-RILENGEVKPLDVKVGDIVIFNDGYGVK-S   75 (97)
T ss_dssp             EEECTTEEEEEECC---TTCTTTTSSCCCC--CCSCCCCEEEEEEECSB-CCTTSSCCCBCSCCTTCEEEECCCSSCE-E
T ss_pred             ceEcCCEEEEEEcc---cccEecceEEECC--ccccCceeEEEEEEeee-EEccCCcCccccCCCCCEEEEecccCce-E
Confidence            45689999999863   2344456666422  22234556777776311 1112233344556667666665542200 0


Q ss_pred             CCCCCCccccccCCCeEEEE
Q 030087          122 EANDSRTFGPVPMRNIVGRA  141 (183)
Q Consensus       122 ~S~DSR~~G~V~~~~I~Gkv  141 (183)
                      ...|...|=.++.++|+|++
T Consensus        76 ~~~dg~~y~ii~e~dIlavi   95 (97)
T d1aono_          76 EKIDNEEVLIMSESDILAIV   95 (97)
T ss_dssp             EESSSCEEEEEETTTEEEEE
T ss_pred             EEECCEEEEEEEHHHEEEEE
Confidence            23566666678888888875

>d1we3o_ b.35.1.1 (O:) Chaperonin-10 (GroES) {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: GroES-like
superfamily: GroES-like
family: GroES
domain: Chaperonin-10 (GroES)
species: Thermus thermophilus [TaxId: 274]

Probab=84.57  E-value=0.59  Score=30.73  Aligned_cols=25  Identities=20%  Similarity=0.506  Sum_probs=16.3

Q ss_pred             ccCCCcEEEEEecCCCCCCCCCcCeEEE
Q 030087           42 MGGLGGTLLVRKLPAADPKRVSVGDVVV   69 (183)
Q Consensus        42 L~~~GD~Vlv~k~~~~~~~~~~rGDIVv   69 (183)
                      |+|-||+||+.+..   ..+-..|-|++
T Consensus         4 ikPlgdrVLVk~~~---~~~kT~gGIiL   28 (96)
T d1we3o_           4 IKPLGDRVVVKRIE---EEPKTKGGIVL   28 (96)
T ss_dssp             EEECTTCEEEEECC---CCSSCTTCCCC
T ss_pred             ceEcCCEEEEEEcc---ccceecccEEe
Confidence            44579999999863   23334566665

>d1p3ha_ b.35.1.1 (A:) Chaperonin-10 (GroES) {Mycobacterium tuberculosis [TaxId: 1773]}

class: All beta proteins
fold: GroES-like
superfamily: GroES-like
family: GroES
domain: Chaperonin-10 (GroES)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=80.62  E-value=1.3  Score=29.18  Aligned_cols=93  Identities=10%  Similarity=0.140  Sum_probs=46.8

Q ss_pred             ccCCCcEEEEEecCCCCCCCCCcCeEEEEecCCCCCccEEEEEEEEcCceEEecCCCCCcccccCCeEEEEeCCCCCCCC
Q 030087           42 MGGLGGTLLVRKLPAADPKRVSVGDVVVMKDPEKSDNYIVRRLAAIEGYEMVSTDEKDEPFVLDKDECWVLADNENMKPK  121 (183)
Q Consensus        42 L~~~GD~Vlv~k~~~~~~~~~~rGDIVvf~~p~~~~~~~vKRVia~pGD~V~~~~~~~~~~~vp~g~~~vlGDn~~~~~~  121 (183)
                      |+|-||+||+.+..   ..+-..|-|++=.  ..........|+|+.-....-..+...+..+..|..-+.+.+....  
T Consensus         5 ikPlgdrVLVk~~~---~~~kT~gGIiLp~--~~~~~~~~G~VvavG~g~~~~~~~~~~~~~vk~GD~Vl~~~~~g~~--   77 (99)
T d1p3ha_           5 IKPLEDKILVQANE---AETTTASGLVIPD--TAKEKPQEGTVVAVGPGRWDEDGEKRIPLDVAEGDTVIYSKYGGTE--   77 (99)
T ss_dssp             EEECTTEEEEEECC---CCCBCTTSCBCCC--SSCCSEEEEEEEEECCCEECSSSSCEECCSCCTTCEEEEECTTCEE--
T ss_pred             ceEcCCEEEEEEcc---hhcccccceEecc--ccccCceEEEEEEECCceEcCCCCEecCCeeecCCEEEEcccCceE--
Confidence            45679999998863   2334456666522  1234566777777632211111111123344555555554443210  


Q ss_pred             CCCCCCccccccCCCeEEEE
Q 030087          122 EANDSRTFGPVPMRNIVGRA  141 (183)
Q Consensus       122 ~S~DSR~~G~V~~~~I~Gkv  141 (183)
                      -.+|...|=.+..++|+|++
T Consensus        78 v~~dg~~y~ii~e~dIlavi   97 (99)
T d1p3ha_          78 IKYNGEEYLILSARDVLAVV   97 (99)
T ss_dssp             EEETTEEEEEEEGGGEEEEE
T ss_pred             EEECCEEEEEEEHHHEEEEE
Confidence            12344444467777777765