Citrus Sinensis ID: 033291

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120--
Protein Sequence
MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
Secondary Structure (PSIPRED)
ccccccccccEEEEEccEEcccccccccEEEEEccccccccEEEEEEEccccEEEEccccccccccccEEcccccEEEEccccccccccccccccccccEEEEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccEEEEEEEEEEccccccccEEEEEccccccccEEEEEEEccccEEEEEcccEcccccccEEcccccEEEEcccccccccccccccccHHHEEEEEEEEEccHHHccccccccc
Coil and Loop (DISEMBL)
mlptinltGDLVLAERISTrfnkvcpgdvvlvrspvvprriVTKRVigmegdrvsyvadpkssdkfetvvvpqghvwiegdniyesndsrkfgavpygliegrvflriwppkdfgslgrrae
Flexible Loop (DISEMBL)
mlptinltgDLVLAERIStrfnkvcpgdvvlvrspvvprrivtkrvigmegdrvsyvadpkssdkFETVVVPQGHVWIEgdniyesndsrkFGAVPYGLIEGrvflriwppkdfgslgrrae
Low Complexity Region (SEG)
MLPTINLTGDLVLAERISTRFNKVCpgdvvlvrspvvprrivTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
Disordered region (IsUnstruct)
****INLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPK**********
Disordered Region (DISOPRED)
MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDF*SL*****
Disordered Region (DISEMBL)
MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
Disordered Region (DISPRO)
*LPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
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	122	2.2.26 [Sep-21-2011]
Q9CQU8	166	Mitochondrial inner membr	yes	no	0.926	0.680	0.483	4e-25
Q96LU5	166	Mitochondrial inner membr	yes	no	0.926	0.680	0.483	5e-25
Q28I39	167	Mitochondrial inner membr	yes	no	0.934	0.682	0.461	2e-22
O74800	157	Mitochondrial inner membr	yes	no	0.868	0.675	0.477	1e-21
Q6AZD4	183	Mitochondrial inner membr	no	no	0.868	0.579	0.443	7e-16
Q2KI92	177	Mitochondrial inner membr	yes	no	0.918	0.632	0.380	9e-14
Q96T52	175	Mitochondrial inner membr	no	no	0.918	0.64	0.371	2e-13
P46972	177	Mitochondrial inner membr	yes	no	0.918	0.632	0.336	3e-13
Q5PQ63	170	Mitochondrial inner membr	N/A	no	0.918	0.658	0.380	3e-13
Q8BPT6	175	Mitochondrial inner membr	no	no	0.918	0.64	0.371	4e-13

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

 Score =  113 bits (282), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 76/118 (64%), Gaps = 5/118 (4%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           M PTI    D+V AE +S  F  +  GD+V+ +SP  P+  + KRVIG+EGD++      
Sbjct: 41  MEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSDPKSNICKRVIGLEGDKI---LST 96

Query: 61  KSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
             SD F++   VP GHVW+EGDN+  S DSR +G +PYGLI GR+F +IWP  DFG L
Sbjct: 97  SPSDVFKSRSYVPTGHVWLEGDNLQNSTDSRYYGPIPYGLIRGRIFFKIWPFSDFGFL 154

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: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: -

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

 Score =  112 bits (281), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 77/118 (65%), Gaps = 5/118 (4%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           M PTI    D+V AE +S  F  +  GD+V+ +SP  P+  + KRVIG+EGD++   +  
Sbjct: 41  MEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSDPKSNICKRVIGLEGDKILTTS-- 97

Query: 61  KSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
             SD F++   VP GHVW+EGDN+  S DSR +G +PYGLI GR+F +IWP  DFG L
Sbjct: 98  -PSDFFKSHSYVPMGHVWLEGDNLQNSTDSRCYGPIPYGLIRGRIFFKIWPLSDFGFL 154

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 =  103 bits (258), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 54/117 (46%), Positives = 76/117 (64%), Gaps = 3/117 (2%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           M PTI    D++L + +S  F  +  GD+++ +SP  P   + KRVIG+EGD+V  ++ P
Sbjct: 41  MEPTIR-NYDVLLCDNLSRHFFSIHKGDIIVAKSPDKPSVNICKRVIGLEGDKVC-MSSP 98

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
            +  K  T V P+GHVW+EGDN+  S DSR +G VPY LI GR+ LR+WP + FG L
Sbjct: 99  SALLKRHTYV-PKGHVWLEGDNLDNSTDSRSYGPVPYALIRGRICLRVWPLESFGPL 154

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: -

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

 Score =  102 bits (253), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 53/111 (47%), Positives = 73/111 (65%), Gaps = 5/111 (4%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCP-GDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVAD 59
           M+PT+N  G+ VL +++  RF + C  GDVV+   P   ++ V KR+IGM GD + YV D
Sbjct: 36  MMPTLNSGGEFVLLDKLHGRFARSCSVGDVVVSAKPSDSKQHVCKRIIGMPGDTI-YV-D 93

Query: 60  PKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWP 110
           P SS+K   + +P GHVW+ GDNI  S DSR +G VP GLI+ +V  R+WP
Sbjct: 94  PTSSNK--KITIPLGHVWLAGDNIAHSLDSRNYGPVPMGLIKAKVIARVWP 142

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: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q6AZD4|IMP2L_DANRE Mitochondrial inner membrane protease subunit 2 OS=Danio rerio GN=immp2l PE=2 SV=1

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 51/115 (44%), Positives = 64/115 (55%), Gaps = 9/115 (7%)

Query: 1   MLPTINLTG----DLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSY 56
           M P++N  G    D+VL  R S R   V  GD+V V SP  P++ + KRVIG+EGD +  
Sbjct: 43  MQPSLNPDGESSPDVVLLNRWSVRNYHVQRGDIVSVLSPKNPQQKIIKRVIGIEGDFIKT 102

Query: 57  VADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPP 111
           +       K   V VP GH+WIEGD+   S DS  FG V  GL+ GR    IWPP
Sbjct: 103 LGY-----KNRYVRVPDGHLWIEGDHHGHSFDSNAFGPVSLGLVHGRASHIIWPP 152

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.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q2KI92|IMP2L_BOVIN Mitochondrial inner membrane protease subunit 2 OS=Bos taurus GN=IMMP2L PE=2 SV=1

 Score = 75.5 bits (184), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 46/121 (38%), Positives = 63/121 (52%), Gaps = 9/121 (7%)

Query: 1   MLPTINLTG----DLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSY 56
           M P++N  G    D+VL      R  +V  GD+V + SP  P + + KRVI +EGD V  
Sbjct: 44  MQPSLNPGGSQSSDVVLLNHWKVRNFEVQRGDIVSLVSPKNPEQKIIKRVIALEGDIVKT 103

Query: 57  VADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGS 116
           +       K   V VP+GH+W+EGD+   S DS  FG V  GL+       +WPPK +  
Sbjct: 104 MGH-----KNRYVKVPRGHIWVEGDHHGHSFDSNSFGPVSLGLLHAHATHILWPPKRWQK 158

Query: 117 L 117
           L
Sbjct: 159 L 159

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.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q96T52|IMP2L_HUMAN Mitochondrial inner membrane protease subunit 2 OS=Homo sapiens GN=IMMP2L PE=2 SV=1

 Score = 74.3 bits (181), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/121 (37%), Positives = 63/121 (52%), Gaps = 9/121 (7%)

Query: 1   MLPTINLTG----DLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSY 56
           M P++N  G    D+VL      R  +V  GD+V + SP  P + + KRVI +EGD V  
Sbjct: 44  MQPSLNPGGSQSSDVVLLNHWKVRNFEVHRGDIVSLVSPKNPEQKIIKRVIALEGDIVRT 103

Query: 57  VADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGS 116
           +       K   V VP+GH+W+EGD+   S DS  FG V  GL+       +WPP+ +  
Sbjct: 104 IGH-----KNRYVKVPRGHIWVEGDHHGHSFDSNSFGPVSLGLLHAHATHILWPPERWQK 158

Query: 117 L 117
           L
Sbjct: 159 L 159

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|P46972|IMP2_YEAST Mitochondrial inner membrane protease subunit 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=IMP2 PE=1 SV=1

 Score = 73.9 bits (180), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/122 (33%), Positives = 65/122 (53%), Gaps = 10/122 (8%)

Query: 1   MLPTIN-----LTGDLVLAERISTRF-NKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRV 54
           M PT+N     L  D VL  +   +  + +   D++L ++P  PR++  KRV G+  D +
Sbjct: 42  MQPTLNPQTETLATDWVLLWKFGVKNPSNLSRDDIILFKAPTNPRKVYCKRVKGLPFDTI 101

Query: 55  SYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDF 114
               D K       V +P+GH+W+EGDN + S DS  FG +  GL+ G+    +WPP  +
Sbjct: 102 ----DTKFPYPKPQVNLPRGHIWVEGDNYFHSIDSNTFGPISSGLVIGKAITIVWPPSRW 157

Query: 115 GS 116
           G+
Sbjct: 158 GT 159

Catalytic component of the mitochondrial inner membrane peptidase (IMP) complex. IMP catalyzes the removal of signal peptides required for the targeting of proteins from the mitochondrial matrix, across the inner membrane, into the inter-membrane space. The two catalytic IMP subunits seem to have non-overlapping substrate specificities. IMP2 substrates include nuclear encoded CYB2, mitochondrially encoded COX2 and cytochrome c1. Required for the stability of IMP1.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q5PQ63|IMP2L_XENLA Mitochondrial inner membrane protease subunit 2 OS=Xenopus laevis GN=immp2l PE=2 SV=1

 Score = 73.6 bits (179), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 46/121 (38%), Positives = 61/121 (50%), Gaps = 9/121 (7%)

Query: 1   MLPTINLTG----DLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSY 56
           M P++N       D+VL  R   R   V  GD+V + SP  P + + KRVI +EGD V  
Sbjct: 41  MQPSLNPDARGESDIVLLNRWRARNYDVQRGDIVSLVSPKNPEQKIIKRVIALEGDIVKT 100

Query: 57  VADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGS 116
           +       K   V VP+GHVW+EGD+   S DS  FG V  GL+       +WPP  +  
Sbjct: 101 LGH-----KNRYVKVPRGHVWVEGDHHGHSFDSNAFGPVSLGLLHSHATHILWPPNRWQK 155

Query: 117 L 117
           L
Sbjct: 156 L 156

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 laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

>sp|Q8BPT6|IMP2L_MOUSE Mitochondrial inner membrane protease subunit 2 OS=Mus musculus GN=Immp2l PE=2 SV=1

 Score = 73.6 bits (179), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 45/121 (37%), Positives = 63/121 (52%), Gaps = 9/121 (7%)

Query: 1   MLPTINLTG----DLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSY 56
           M P++N  G    D+VL      R  +V  GD+V + SP  P + + KRVI +EGD V  
Sbjct: 44  MQPSLNPGGSQSSDVVLLNHWKVRNFEVQRGDIVSLVSPKNPEQKIIKRVIALEGDIVRT 103

Query: 57  VADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGS 116
           +       K   V VP+GH+W+EGD+   S DS  FG V  GL+       +WPP+ +  
Sbjct: 104 IGH-----KNRLVKVPRGHMWVEGDHHGHSFDSNSFGPVSLGLLHAHATHILWPPERWQR 158

Query: 117 L 117
           L
Sbjct: 159 L 159

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: -

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	122
449433706	175	PREDICTED: mitochondrial inner membrane	0.983	0.685	0.716	1e-44
224096548	171	predicted protein [Populus trichocarpa]	1.0	0.713	0.655	4e-44
225463444	169	PREDICTED: mitochondrial inner membrane	0.959	0.692	0.700	4e-43
224083914	171	predicted protein [Populus trichocarpa]	1.0	0.713	0.631	7e-43
255557373	176	mitochondrial inner membrane protease su	0.877	0.607	0.766	1e-41
255562592	158	mitochondrial inner membrane protease su	0.885	0.683	0.731	1e-41
225461838	167	PREDICTED: mitochondrial inner membrane	0.959	0.700	0.641	3e-40
224061365	164	predicted protein [Populus trichocarpa]	0.975	0.725	0.596	3e-40
224061361	161	predicted protein [Populus trichocarpa]	0.975	0.739	0.596	3e-40
449438943	161	PREDICTED: mitochondrial inner membrane	0.959	0.726	0.623	1e-39

>gi|449433706|ref|XP_004134638.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 1 [Cucumis sativus] gi|449433708|ref|XP_004134639.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 2 [Cucumis sativus] gi|449505931|ref|XP_004162607.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 1 [Cucumis sativus] gi|449505935|ref|XP_004162608.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 2 [Cucumis sativus]

 Score =  183 bits (464), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 86/120 (71%), Positives = 102/120 (85%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT+NLTGD VLAER+STRF +V  GD+VLVRSP  PR++V KR+IGMEGD V+YV DP
Sbjct: 49  MLPTLNLTGDFVLAERLSTRFGRVGVGDIVLVRSPENPRKVVGKRLIGMEGDSVTYVVDP 108

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRR 120
           K+SD  ETVVVP+GHVWIEGDNIY+S DSR FGAVPY L++G++F RIWPPK FG L +R
Sbjct: 109 KNSDWSETVVVPKGHVWIEGDNIYDSRDSRNFGAVPYSLLQGKIFWRIWPPKSFGQLEKR 168

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224096548|ref|XP_002310653.1| predicted protein [Populus trichocarpa] gi|118482814|gb|ABK93323.1| unknown [Populus trichocarpa] gi|222853556|gb|EEE91103.1| predicted protein [Populus trichocarpa]

 Score =  181 bits (460), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 80/122 (65%), Positives = 103/122 (84%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT N++GDL LAE+IS +  KV  GD+VLV SPV PR+IVTKRV+G+EGD V+YV DP
Sbjct: 48  MLPTFNISGDLALAEKISHKLGKVGAGDIVLVTSPVEPRKIVTKRVVGVEGDSVTYVVDP 107

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRR 120
           K+SD+ ET+VVP+GH+W+EGDNIY+S DSR FGAV YGL++G++F +IWPPKDFG LG +
Sbjct: 108 KNSDRTETIVVPKGHIWVEGDNIYKSKDSRNFGAVSYGLLQGKMFWKIWPPKDFGPLGNK 167

Query: 121 AE 122
            +
Sbjct: 168 EQ 169

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463444|ref|XP_002275543.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 1 [Vitis vinifera] gi|359483846|ref|XP_003633025.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like isoform 2 [Vitis vinifera]

 Score =  178 bits (452), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 82/117 (70%), Positives = 99/117 (84%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT+NL+GDL+LA+R+S RF KV PGD+VLVRSP  PR+I+TKRV+GM GDRV++  DP
Sbjct: 48  MLPTLNLSGDLILADRLSVRFGKVGPGDIVLVRSPQNPRKIITKRVVGMGGDRVTFSVDP 107

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
           K S + ETVVVP+GHVWI GDNIY S DSR FGAVPYGL++G+VF RIWPP+ FG L
Sbjct: 108 KDSRRCETVVVPEGHVWIAGDNIYASTDSRNFGAVPYGLLQGKVFWRIWPPQGFGLL 164

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083914|ref|XP_002307171.1| predicted protein [Populus trichocarpa] gi|222856620|gb|EEE94167.1| predicted protein [Populus trichocarpa]

 Score =  177 bits (449), Expect = 7e-43,   Method: Compositional matrix adjust.
 Identities = 77/122 (63%), Positives = 101/122 (82%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT NLTGD  LAER S +  KV  GD+V+++SPV PR+I+TKRVIG+EGD V+YV +P
Sbjct: 48  MLPTFNLTGDWALAERFSHKLGKVGAGDIVILKSPVEPRKIMTKRVIGVEGDSVTYVVEP 107

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRR 120
           K+SD+ ET+VVP+GH+W+EGDNIY S DSR FGAVPYGL+ G++  +IWPPKDFG +G++
Sbjct: 108 KNSDRTETIVVPKGHIWVEGDNIYNSKDSRNFGAVPYGLLRGKMLWKIWPPKDFGYIGKK 167

Query: 121 AE 122
            +
Sbjct: 168 EQ 169

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557373|ref|XP_002519717.1| mitochondrial inner membrane protease subunit, putative [Ricinus communis] gi|223541134|gb|EEF42690.1| mitochondrial inner membrane protease subunit, putative [Ricinus communis]

 Score =  173 bits (439), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 82/107 (76%), Positives = 95/107 (88%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT+NLTGDLVLAERIS RF KV PGD+VLVRSPV P+RIVTKRV+G+EGD V+YV DP
Sbjct: 48  MLPTLNLTGDLVLAERISPRFGKVGPGDIVLVRSPVNPKRIVTKRVMGVEGDSVTYVVDP 107

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR 107
           K+SD   TVVVP+GH+WIEGDN+Y+SNDSRKFGAVPYGL+  +VF R
Sbjct: 108 KNSDASNTVVVPKGHIWIEGDNVYDSNDSRKFGAVPYGLLHAKVFWR 154

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255562592|ref|XP_002522302.1| mitochondrial inner membrane protease subunit, putative [Ricinus communis] gi|223538555|gb|EEF40160.1| mitochondrial inner membrane protease subunit, putative [Ricinus communis]

 Score =  173 bits (439), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 79/108 (73%), Positives = 96/108 (88%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT+NLTGDLVLAERIS RF KV PGD+VLVRSPV P+RIVTKRV+G+EGD V+Y+ DP
Sbjct: 46  MLPTLNLTGDLVLAERISPRFGKVGPGDIVLVRSPVNPKRIVTKRVMGIEGDSVTYIVDP 105

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRI 108
           K+SD   T++VP+GH+WIEGDN+Y+SNDSRKFGAVPYGL+  +VF R+
Sbjct: 106 KNSDASNTIMVPKGHIWIEGDNVYDSNDSRKFGAVPYGLLHAKVFWRV 153

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225461838|ref|XP_002283744.1| PREDICTED: mitochondrial inner membrane protease subunit 1 [Vitis vinifera] gi|302142795|emb|CBI20090.3| unnamed protein product [Vitis vinifera]

 Score =  169 bits (427), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 75/117 (64%), Positives = 98/117 (83%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT NLTGD++L E ++ R  KV PGDVVLVRSP  PR+ V+KR++GMEGDRV+++ DP
Sbjct: 49  MLPTFNLTGDVLLVENLTVRMGKVRPGDVVLVRSPENPRKTVSKRILGMEGDRVTFMIDP 108

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
           K+S++ ++VV+P+GHVWI+GDNIY S+DSR FG VPYGLI+G+VF R+WP   FGSL
Sbjct: 109 KNSNRCQSVVIPKGHVWIQGDNIYASHDSRNFGPVPYGLIQGKVFFRVWPLNGFGSL 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061365|ref|XP_002300443.1| predicted protein [Populus trichocarpa] gi|222847701|gb|EEE85248.1| predicted protein [Populus trichocarpa]

 Score =  168 bits (426), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 71/119 (59%), Positives = 98/119 (82%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT+NLTGD++L E +S RF KV PGDVVLVRSP+ P ++VTKR++GMEGD+++++ DP
Sbjct: 46  MLPTLNLTGDVLLVEHVSHRFQKVGPGDVVLVRSPLDPTKMVTKRIVGMEGDQINFLPDP 105

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGR 119
             +D   TV+VP+GH+WI+GDN+Y S DSR +G VPYGL++G++F R+WPP  FGS G+
Sbjct: 106 SITDICRTVMVPKGHIWIQGDNMYASCDSRHYGPVPYGLVQGKLFFRVWPPSSFGSFGQ 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224061361|ref|XP_002300441.1| predicted protein [Populus trichocarpa] gi|222847699|gb|EEE85246.1| predicted protein [Populus trichocarpa]

 Score =  168 bits (426), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 71/119 (59%), Positives = 98/119 (82%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT+NLTGD++L E +S RF KV PGDVVLVRSP+ P ++VTKR++GMEGD+++++ DP
Sbjct: 43  MLPTLNLTGDVLLVEHVSHRFQKVGPGDVVLVRSPLDPTKMVTKRIVGMEGDQINFLPDP 102

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGR 119
             +D   TV+VP+GH+WI+GDN+Y S DSR +G VPYGL++G++F R+WPP  FGS G+
Sbjct: 103 SITDICRTVMVPKGHIWIQGDNMYASCDSRHYGPVPYGLVQGKLFFRVWPPSSFGSFGQ 161

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438943|ref|XP_004137247.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like [Cucumis sativus] gi|449483132|ref|XP_004156501.1| PREDICTED: mitochondrial inner membrane protease subunit 1-like [Cucumis sativus]

 Score =  166 bits (421), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 73/117 (62%), Positives = 98/117 (83%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           MLPT+NLTGD++LAE +S R  +V PGDVVLVRSP  PR+++TKR++G+EGD+V++  DP
Sbjct: 43  MLPTLNLTGDVLLAEHVSHRVGRVGPGDVVLVRSPRNPRKMLTKRIVGVEGDKVNFYPDP 102

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
            +S+++++ VVP+GHVWI+GDN+Y S DSR FG VPYGLIEG+ FLR+WPP  FG L
Sbjct: 103 ANSNQYQSAVVPKGHVWIQGDNVYASRDSRHFGPVPYGLIEGKAFLRVWPPDCFGRL 159

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	122
TAIR|locus:2203688	168	AT1G53530 [Arabidopsis thalian	0.959	0.696	0.529	1.1e-30
TAIR|locus:2019357	169	AT1G29960 [Arabidopsis thalian	0.967	0.698	0.483	1.5e-26
TAIR|locus:1006230730	155	AT1G23465 [Arabidopsis thalian	0.885	0.696	0.462	1e-22
ZFIN|ZDB-GENE-070522-4	189	immp1l "IMP1 inner mitochondri	0.926	0.597	0.449	1.7e-20
UNIPROTKB|E2QXR0	202	IMMP1L "Uncharacterized protei	0.926	0.559	0.440	2.7e-20
UNIPROTKB|Q96LU5	166	IMMP1L "Mitochondrial inner me	0.926	0.680	0.440	2.7e-20
MGI|MGI:1913791	166	Immp1l "IMP1 inner mitochondri	0.926	0.680	0.440	4.4e-20
RGD|1586505	166	LOC687395 "similar to CG9240-P	0.926	0.680	0.449	5.7e-20
UNIPROTKB|F1SGP6	166	IMMP1L "Uncharacterized protei	0.934	0.686	0.435	9.2e-20
UNIPROTKB|F1P533	163	IMMP1L "Uncharacterized protei	0.926	0.693	0.440	1.5e-19

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

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 62/117 (52%), Positives = 81/117 (69%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             MLPT+NLTGD++LAE +S RF K+                  TKR++G+EGDR+++ ADP
Sbjct:    51 MLPTLNLTGDVILAEHLSHRFGKIGLGDVVLVRSPRDPKRMVTKRILGLEGDRLTFSADP 110

Query:    61 KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
                D   +V+VP+GHVWI+GDN+Y S DSR FG VPY LIEG+  LR+WPP+ FGSL
Sbjct:   111 LVGDASVSVLVPKGHVWIQGDNLYASTDSRHFGPVPYSLIEGKALLRVWPPEYFGSL 167

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

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

 Score = 299 (110.3 bits), Expect = 1.5e-26, P = 1.5e-26
 Identities = 57/118 (48%), Positives = 79/118 (66%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PT++ +G+++LAERIS R+ K                    KRVIG+EGD +S+V D 
Sbjct:    48 MTPTLHPSGNVLLAERISKRYQKPSRGDIVVIRSPENPNKTPIKRVIGIEGDCISFVIDS 107

Query:    61 KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLG 118
             + SD+ +T+VVP+GHV+++GD  + S DSR FG VPYGLI+GRV  R+WP +DFG LG
Sbjct:   108 RKSDESQTIVVPKGHVFVQGDYTHNSRDSRNFGTVPYGLIQGRVLWRVWPFQDFGPLG 165

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 = 263 (97.6 bits), Expect = 1.0e-22, P = 1.0e-22
 Identities = 50/108 (46%), Positives = 72/108 (66%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M+PT++ +G+++LAERIS R+ K                    KRV+G+EGD +S+V DP
Sbjct:    48 MIPTLHPSGNMLLAERISKRYQKPSRGDIVVIRSPENPNKTPIKRVVGVEGDCISFVIDP 107

Query:    61 KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRI 108
               SD+ +T+VVP+GHV+++GD  + S DSR FG VPYGLI+GRV  R+
Sbjct:   108 VKSDESQTIVVPKGHVFVQGDYTHNSRDSRNFGPVPYGLIQGRVLWRV 155

GO:0006508 "proteolysis" evidence=IEA

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

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IEA

ZFIN|ZDB-GENE-070522-4 immp1l "IMP1 inner mitochondrial membrane peptidase-like (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 242 (90.2 bits), Expect = 1.7e-20, P = 1.7e-20
 Identities = 53/118 (44%), Positives = 69/118 (58%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PTI    D+V +ERIS    ++                   KRVIG+EGD+V   + P
Sbjct:    66 MEPTIT-NHDVVFSERISRHLYRIQKGDIIIAKSPSNPKMNICKRVIGLEGDKVC-TSGP 123

Query:    61 KSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
               SD F+T   VP+GHVW+EGDN+  S DSR +G +PY LI GRV L++WPP+ FG L
Sbjct:   124 --SDIFKTHTYVPRGHVWLEGDNLRNSTDSRSYGPIPYALIRGRVCLKLWPPQSFGVL 179

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

GO:0016020 "membrane" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

UNIPROTKB|E2QXR0 IMMP1L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 240 (89.5 bits), Expect = 2.7e-20, P = 2.7e-20
 Identities = 52/118 (44%), Positives = 67/118 (56%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PTI    D+V AE +S  F  +                   KRVIG+EGD++   + P
Sbjct:    77 MEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSDPKSNICKRVIGLEGDKI-LTSSP 134

Query:    61 KSSDKFETV-VVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
               SD F++   VP GHVW+EGDN+  S DSR +G +PYGLI GR+F +IWP  DFG L
Sbjct:   135 --SDFFKSHNYVPTGHVWLEGDNLQNSTDSRYYGPIPYGLIRGRIFFKIWPLSDFGFL 190

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

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

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

GO:0006508 "proteolysis" evidence=IEA

UNIPROTKB|Q96LU5 IMMP1L "Mitochondrial inner membrane protease subunit 1" [Homo sapiens (taxid:9606)]

 Score = 240 (89.5 bits), Expect = 2.7e-20, P = 2.7e-20
 Identities = 52/118 (44%), Positives = 66/118 (55%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PTI    D+V AE +S  F  +                   KRVIG+EGD++     P
Sbjct:    41 MEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSDPKSNICKRVIGLEGDKI-LTTSP 98

Query:    61 KSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
               SD F++   VP GHVW+EGDN+  S DSR +G +PYGLI GR+F +IWP  DFG L
Sbjct:    99 --SDFFKSHSYVPMGHVWLEGDNLQNSTDSRCYGPIPYGLIRGRIFFKIWPLSDFGFL 154

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

GO:0006508 "proteolysis" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISS

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

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

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 52/118 (44%), Positives = 67/118 (56%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PTI    D+V AE +S  F  +                   KRVIG+EGD++   + P
Sbjct:    41 MEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSDPKSNICKRVIGLEGDKILSTS-P 98

Query:    61 KSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
               SD F++   VP GHVW+EGDN+  S DSR +G +PYGLI GR+F +IWP  DFG L
Sbjct:    99 --SDVFKSRSYVPTGHVWLEGDNLQNSTDSRYYGPIPYGLIRGRIFFKIWPFSDFGFL 154

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

RGD|1586505 LOC687395 "similar to CG9240-PA" [Rattus norvegicus (taxid:10116)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 53/118 (44%), Positives = 67/118 (56%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PTI    D+V AE +S  F  +                   KRVIG+EGD++  +AD 
Sbjct:    41 MEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSDPKSSICKRVIGLEGDKI--LAD- 96

Query:    61 KSSDKFETV-VVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
                D F++   VP GHVW+EGDN+  S DSR +G VPYGLI GR+F +IWP  DFG L
Sbjct:    97 NPPDIFKSRNYVPTGHVWLEGDNLENSTDSRCYGPVPYGLIRGRIFFKIWPFSDFGFL 154

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|F1SGP6 IMMP1L "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 51/117 (43%), Positives = 63/117 (53%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PTI    D+V AE +S  F  +                   KRVIG+EGD++     P
Sbjct:    41 MEPTIQ-NPDIVFAENLSRHFYSIQRGDIVIAKSPSDPKSNICKRVIGLEGDKI-LTNSP 98

Query:    61 KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
                 K  + V P GHVW+EGDN+  S DSR +G VPYGLI GR+F +IWP  DFG L
Sbjct:    99 SGFFKGHSYV-PTGHVWLEGDNLQNSTDSRYYGPVPYGLIRGRIFFKIWPLSDFGFL 154

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

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

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

GO:0006508 "proteolysis" evidence=IEA

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

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 52/118 (44%), Positives = 68/118 (57%)

Query:     1 MLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADP 60
             M PTI  + D+V +E +S  F  +                   KRVIG+EGD+V   ++P
Sbjct:    38 MEPTIQ-SSDIVFSENLSRHFYSIRKGDIVIVKSPTDPKSNICKRVIGLEGDKVC-TSNP 95

Query:    61 KSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 117
               SD  +T   VP+GHVW+EGDN+  S DSR +G VPYGLI GR+  +IWP  DFG L
Sbjct:    96 --SDFLKTHSFVPKGHVWLEGDNLRNSTDSRCYGPVPYGLIRGRICFKIWPLNDFGFL 151

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

---

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

Your Input: estExt_fgenesh4_pg.C_LG_VII0721 SubName- Full=Putative uncharacterized protein; (171 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	122
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	2e-23
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	9e-17
TIGR02754	90	TIGR02754, sod_Ni_protease, nickel-type superoxide	2e-07
cd06462	84	cd06462, Peptidase_S24_S26, The S24, S26 LexA/sign	2e-07
COG0681	166	COG0681, LepB, Signal peptidase I [Intracellular t	1e-06
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	2e-05
pfam00717	69	pfam00717, Peptidase_S24, Peptidase S24-like	3e-04

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

 Score = 88.5 bits (220), Expect = 2e-23
 Identities = 41/133 (30%), Positives = 58/133 (43%), Gaps = 24/133 (18%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRV------ 54
           M PT+   GD +L  + +   +    GD+V+ + P   + I  KRVIG+ GD+V      
Sbjct: 30  MEPTLK-EGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYIKRVIGLPGDKVEFRDGK 88

Query: 55  ----------SYVADPKSSD-------KFETVVVPQGHVWIEGDNIYESNDSRKFGAVPY 97
                      Y+      D        +  V VP GH ++ GDN   S DSR FG VP 
Sbjct: 89  LYINGKKIDEPYLKPNGFLDTSEFNTTDYGPVTVPPGHYFVLGDNRDNSLDSRYFGFVPI 148

Query: 98  GLIEGRVFLRIWP 110
             I G+V    +P
Sbjct: 149 DDIIGKVSFVFYP 161

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

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

 Score = 69.2 bits (170), Expect = 9e-17
 Identities = 35/104 (33%), Positives = 47/104 (45%), Gaps = 28/104 (26%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           M PT+   GDLVL  ++S  F +   GDVV+ +SP  P + + KRVIG            
Sbjct: 10  MEPTLQ-PGDLVLVNKLSYGFREPKRGDVVVFKSPGDPGKPIIKRVIG------------ 56

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRV 104
                           ++ GDN   S DSR +G VP   I G+V
Sbjct: 57  ---------------YFVLGDNRNNSLDSRYWGPVPEDDIVGKV 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|233997 TIGR02754, sod_Ni_protease, nickel-type superoxide dismutase maturation protease

 Score = 45.1 bits (107), Expect = 2e-07
 Identities = 28/104 (26%), Positives = 45/104 (43%), Gaps = 23/104 (22%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           M PT+   GD ++       F     G+VV+VR P+ P  ++ KR+  ++          
Sbjct: 8   MSPTLP-PGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGLIIKRLAAVD---------- 56

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRV 104
                          +++ GDN   S DSR+ G VP  L+ G+V
Sbjct: 57  ------------DNGLFLLGDNPKASTDSRQLGPVPRSLLLGKV 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 = 44.6 bits (106), Expect = 2e-07
 Identities = 35/104 (33%), Positives = 44/104 (42%), Gaps = 29/104 (27%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           M PTI   GDLVL ++ S        GD+V+ R P     +  KRVIG+ G         
Sbjct: 10  MEPTIP-DGDLVLVDKSSYEPK---RGDIVVFRLP--GGELTVKRVIGLPG--------- 54

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRV 104
                       +GH ++ GDN   S DSR  G  P   I G V
Sbjct: 55  ------------EGHYFLLGDN-PNSPDSRIDGP-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

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

 Score = 44.6 bits (105), Expect = 1e-06
 Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 7/92 (7%)

Query: 1   MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
           M PT+N  GD VL ++ S  F K       ++  P V    + KRVIG+ GD V +    
Sbjct: 41  MEPTLN-VGDRVLVKKFSYGFGK--LKVPDIIVLPAVVEGDLIKRVIGLRGDIVVF---- 93

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKF 92
           K    +   ++P+ +  +E DN     D    
Sbjct: 94  KDDRLYVVPIIPRVYGLVEKDNGKHLVDVIVN 125

Length = 166

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

 Score = 42.0 bits (99), Expect = 2e-05
 Identities = 26/74 (35%), Positives = 38/74 (51%), Gaps = 19/74 (25%)

Query: 1   MLPTINLTGDLVLAER--------------ISTRFNKVCPGDVVLVRSPVVPRRIVTKRV 46
           M+PT+ L GD +L E+              I T   K   GD+V+ + P  P+    KRV
Sbjct: 92  MMPTL-LIGDFILVEKFAYGIKDPITQTTLIETGHPK--RGDIVVFKYPEDPKLDYIKRV 148

Query: 47  IGMEGDRVSYVADP 60
           +G+ GD+V+Y  DP
Sbjct: 149 VGLPGDKVTY--DP 160

Length = 324

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

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 7/61 (11%)

Query: 1  MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP 60
          M PTI   GDL+L ++ S        GD+V+ R       +  KR+IG+ GD +   ++P
Sbjct: 7  MEPTIP-DGDLLLVDKTSE----PKRGDIVVARLDGEEATV--KRLIGLPGDIILLPSNP 59

Query: 61 K 61
          +
Sbjct: 60 E 60

Length = 69

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	122
TIGR02227	163	sigpep_I_bact signal peptidase I, bacterial type.	100.0
KOG0171	176	consensus Mitochondrial inner membrane protease, s	100.0
PRK10861	324	signal peptidase I; Provisional	100.0
KOG1568	174	consensus Mitochondrial inner membrane protease, s	99.98
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.94
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.93
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.92
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.92
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.87
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.82
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	99.76
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	99.49
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.16
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	99.11
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	98.99
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	98.52
COG2932	214	Predicted transcriptional regulator [Transcription	98.2
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	98.13
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	97.94
PRK00215	205	LexA repressor; Validated	97.85
PRK12423	202	LexA repressor; Provisional	97.82
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	97.72
COG1974	201	LexA SOS-response transcriptional repressors (RecA	96.83
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	89.25
PF05257	124	CHAP: CHAP domain; InterPro: IPR007921 The CHAP (c	85.37
TIGR02594	129	conserved hypothetical protein TIGR02594. Members	84.21
cd04712	130	BAH_DCM_I BAH, or Bromo Adjacent Homology domain,	83.99

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=100.00  E-value=1.4e-37  Score=220.01  Aligned_cols=111  Identities=36%  Similarity=0.591  Sum_probs=98.5

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCC---------C---C-----
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPK---------S---S-----   63 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~---------~---~-----   63 (122)
                      |+|||+ +||+|+++|+.+...++++||+|+|+.|...++.++|||+|+|||+|+++++..         .   .     
T Consensus        30 M~Ptl~-~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~~~~~~iKRVig~pGd~v~i~~~~l~vNg~~~~~~~~~~~~~~~  108 (163)
T TIGR02227        30 MEPTLK-EGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYVKRVIGLPGDKVEFRDGKLYINGKKIDEPYLKPNGSLD  108 (163)
T ss_pred             cccchh-CCCEEEEEEeEcCCCCCCCCcEEEEecCCCCCceeEEEEEecCCCEEEEECCEEEECCEECcccccccccccc
Confidence            999999 999999999987778999999999999877778999999999999999976411         0   0     


Q ss_pred             ------CCCceEEeeCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEEEeCCC
Q 033291           64 ------DKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPK  112 (122)
Q Consensus        64 ------~~~~~~~vp~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~  112 (122)
                            ....+.+||+|+|||+|||+.+|+||||||+|++++|+|||++++||++
T Consensus       109 ~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~G~V~~~~I~Gk~~~~~~p~~  163 (163)
T TIGR02227       109 TSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGKVSFVFYPFD  163 (163)
T ss_pred             cccccccccCceEECCCCEEEECCCCCCCcccCCcCcCCHHHeEEEEEEEECCCC
Confidence                  1124578999999999999999999999999999999999999999985

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=3.4e-37  Score=215.04  Aligned_cols=118  Identities=45%  Similarity=0.785  Sum_probs=105.9

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCC-----CCceEEeeCCe
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSD-----KFETVVVPQGH   75 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~-----~~~~~~vp~~~   75 (122)
                      |+|||+..||+|+..|+++.++++++||||++..|.++++.++|||+|+|||-+++..++...+     ....+.||+||
T Consensus        43 M~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD~v~v~~~~~~~n~~~e~~~~~i~VP~Gh  122 (176)
T KOG0171|consen   43 MEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPDPKEHICKRIVAMEGDLVEVHDGPLVVNDLVEKFSTPIRVPEGH  122 (176)
T ss_pred             cCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCCchhhhhheeeccCCceEEEecCCcccchhhhhccceeeccCce
Confidence            9999996677777799999999999999999999999999999999999999998887765322     22457999999


Q ss_pred             EEEeeCCCCCCCCCCceecccCCCeeEEEEEEEeCCCCccCCC
Q 033291           76 VWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLG  118 (122)
Q Consensus        76 ~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~~~~  118 (122)
                      +||+|||+.+|+|||+|||||...|+||+++++||++++....
T Consensus       123 Vfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~~~  165 (176)
T KOG0171|consen  123 VFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSGLI  165 (176)
T ss_pred             EEEecCCCCCcccccccCCCchhheeeeEEEEecCchhcceee
Confidence            9999999999999999999999999999999999999887653

>PRK10861 signal peptidase I; Provisional

Probab=100.00  E-value=5.4e-33  Score=214.13  Aligned_cols=111  Identities=33%  Similarity=0.548  Sum_probs=96.2

Q ss_pred             CccccCCCCCEEEEEeccCCC------------CCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEe--cC-----CC
Q 033291            1 MLPTINLTGDLVLAERISTRF------------NKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYV--AD-----PK   61 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~------------~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~--~~-----~~   61 (122)
                      |+|||. .||+|+|+|++|..            ++++|||||+|+.|.+++..+||||+|+|||+|+++  ++     +.
T Consensus        92 M~PTL~-~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~~~~~yIKRVIGlPGD~I~~~~~~~~l~iNg~  170 (324)
T PRK10861         92 MMPTLL-IGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKLDYIKRVVGLPGDKVTYDPVSKEVTIQPG  170 (324)
T ss_pred             CcCccc-CCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCCCCCcEEEEeeecCCcEEEEEeCCCEEEEcCc
Confidence            999999 99999999998753            579999999999998888899999999999999996  21     10


Q ss_pred             ------------------------C---------------------------------------------C-C--C----
Q 033291           62 ------------------------S---------------------------------------------S-D--K----   65 (122)
Q Consensus        62 ------------------------~---------------------------------------------~-~--~----   65 (122)
                                              .                                             . .  .    
T Consensus       171 ~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~l~~~~h~i~~~~~~~~~~~~  250 (324)
T PRK10861        171 CSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLNETKENGIRLSERKETLGDVTHRILTVPGAQDQVGM  250 (324)
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccceeEEEecCCccceeeecCCccccccc
Confidence                                    0                                             0 0  0    


Q ss_pred             --------CceEEeeCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEEEeCCC
Q 033291           66 --------FETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPK  112 (122)
Q Consensus        66 --------~~~~~vp~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~  112 (122)
                              ...++||+|+||++|||+++|+||||||+||+++|+|+|..++|+++
T Consensus       251 ~~~~~~~~~~~~~vp~g~yf~mgdnr~~S~DSRy~G~Vp~~~i~G~a~~i~~s~d  305 (324)
T PRK10861        251 YYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGKATAIWMSFE  305 (324)
T ss_pred             ccccCCCcCceEEECCCeEEEeCCCCCCCcccCcccccCHHHcEEEEEEEEEEcC
Confidence                    13459999999999999999999999999999999999999999886

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

Probab=99.98  E-value=1.5e-32  Score=191.52  Aligned_cols=114  Identities=44%  Similarity=0.760  Sum_probs=101.8

Q ss_pred             CccccCCC-----CCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCe
Q 033291            1 MLPTINLT-----GDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGH   75 (122)
Q Consensus         1 M~Ptl~~~-----Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~   75 (122)
                      |+|||+|.     .|+||++|+......+.+||+|+|.+|.++++.+||||+|++||.+.-.     ......+.||+||
T Consensus        41 mqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t~-----~~k~~~v~vpkgh  115 (174)
T KOG1568|consen   41 MQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVTE-----DEKEEPVVVPKGH  115 (174)
T ss_pred             CCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCChhheeeeeeecccccEeccC-----CCCCCceecCCCc
Confidence            88999831     2999999988655669999999999999999999999999999988752     2235789999999


Q ss_pred             EEEeeCCCCCCCCCCceecccCCCeeEEEEEEEeCCCCccCCCC
Q 033291           76 VWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGR  119 (122)
Q Consensus        76 ~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~~~~~  119 (122)
                      |||.|||..+|+|||.||||+...|.|||+.++||+.||+++.+
T Consensus       116 cWVegDn~~hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~~  159 (174)
T KOG1568|consen  116 CWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLDK  159 (174)
T ss_pred             EEEecCCcccccccCccCCcchhheeeeEEEEEcChHHhhhhcc
Confidence            99999999999999999999999999999999999999998864

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.94  E-value=2.4e-26  Score=164.53  Aligned_cols=99  Identities=28%  Similarity=0.346  Sum_probs=78.9

Q ss_pred             CCCEEEEEeccCCCCCCCCCcEEEEEcCCCC-------------------CceeEEEEEEcCCCEEEEec----CCCC--
Q 033291            8 TGDLVLAERISTRFNKVCPGDVVLVRSPVVP-------------------RRIVTKRVIGMEGDRVSYVA----DPKS--   62 (122)
Q Consensus         8 ~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~-------------------~~~~iKRV~a~pGd~v~~~~----~~~~--   62 (122)
                      +.+.+.+.++.+..+.+++||+|+|+.|...                   ...++|||+|+|||+|++.+    |+..  
T Consensus        35 ~S~pig~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~~v~iNg~~~~  114 (176)
T PRK13838         35 PSEPLGLWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGGSVSIDGRPLP  114 (176)
T ss_pred             CCCEEEEEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECCEEEECCEEcc
Confidence            5677888887666678999999999987542                   13599999999999999873    1110  


Q ss_pred             -------------CCCCceEEeeCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEE
Q 033291           63 -------------SDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR  107 (122)
Q Consensus        63 -------------~~~~~~~~vp~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~  107 (122)
                                   .......+||+|+|||+|||. +|+||||||+|++++|+|+|..+
T Consensus       115 ~~~~~~~~~~g~~l~~~~~~~vp~g~~fvlgd~~-~S~DSRy~G~V~~~~I~G~a~pi  171 (176)
T PRK13838        115 SSSVRRRDGEGRPLTPFPGGVVPPGHLFLHSSFA-GSYDSRYFGPVPASGLLGLARPV  171 (176)
T ss_pred             ccccccccccCCcCCCCCccCcCCCeEEEECCCC-CCCcccccCcccHHHeEEEEEEE
Confidence                         001224689999999999985 89999999999999999999863

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

Probab=99.93  E-value=1e-26  Score=160.61  Aligned_cols=86  Identities=31%  Similarity=0.402  Sum_probs=32.7

Q ss_pred             CCCCCcEEEEEcCCC------------CCceeEEEEEEcCCCEEEEecCCC------------------C-CCCCceEEe
Q 033291           23 KVCPGDVVLVRSPVV------------PRRIVTKRVIGMEGDRVSYVADPK------------------S-SDKFETVVV   71 (122)
Q Consensus        23 ~~~~GDiVv~~~p~~------------~~~~~iKRV~a~pGd~v~~~~~~~------------------~-~~~~~~~~v   71 (122)
                      .+++||+|+|+.|..            .+..++|||+|+|||+|++++++.                  . .....+.+|
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            489999999999852            245899999999999999986521                  0 111258999


Q ss_pred             eCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEEE
Q 033291           72 PQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRI  108 (122)
Q Consensus        72 p~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~  108 (122)
                      |+|+|||+|||+.+|+||||||+|++++|+|+|..++
T Consensus       101 p~g~~~v~gd~~~~S~DSRy~G~V~~~~I~g~~~pl~  137 (138)
T PF10502_consen  101 PEGEYFVLGDNRPNSFDSRYFGPVPRSQIIGKARPLW  137 (138)
T ss_dssp             -TTEEEEE-SBTTS--SHHHH--EEGGGEEEEEEEEE
T ss_pred             CCCEEEEecCCCCCccccCEecccCHHHEEEEEEEEE
Confidence            9999999999999999999999999999999998843

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.

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.92  E-value=2.6e-25  Score=158.58  Aligned_cols=85  Identities=35%  Similarity=0.470  Sum_probs=70.2

Q ss_pred             CCCCCCcEEEEEcCCCCC-------------------ceeEEEEEEcCCCEEEEecCCC-------C-------------
Q 033291           22 NKVCPGDVVLVRSPVVPR-------------------RIVTKRVIGMEGDRVSYVADPK-------S-------------   62 (122)
Q Consensus        22 ~~~~~GDiVv~~~p~~~~-------------------~~~iKRV~a~pGd~v~~~~~~~-------~-------------   62 (122)
                      ..++|||+|+|+.|..+.                   ..++|||+|+|||+|+++++..       .             
T Consensus        45 ~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRViglpGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~  124 (171)
T TIGR02771        45 KPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRP  124 (171)
T ss_pred             CCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEEEeCCCEEEEECCEEEECCEEcccccccccccCCCc
Confidence            589999999999875321                   2799999999999999976411       0             


Q ss_pred             CCCCceEEeeCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEE
Q 033291           63 SDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR  107 (122)
Q Consensus        63 ~~~~~~~~vp~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~  107 (122)
                      .....+.+||+| ||++|||+++|+||||||+|++++|+|||..+
T Consensus       125 l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~~~~IiGk~~pl  168 (171)
T TIGR02771       125 LPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPISREQVIGRVKPL  168 (171)
T ss_pred             cccCCCcEECCC-EEEECCCCCCCCcccccceecHHHeEEEEEEe
Confidence            011236899999 99999999999999999999999999999863

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

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.92  E-value=1.4e-24  Score=155.64  Aligned_cols=86  Identities=23%  Similarity=0.225  Sum_probs=70.1

Q ss_pred             CCCCCCcEEEEEcCCCC-------------------CceeEEEEEEcCCCEEEEecCCC-----C---------------
Q 033291           22 NKVCPGDVVLVRSPVVP-------------------RRIVTKRVIGMEGDRVSYVADPK-----S---------------   62 (122)
Q Consensus        22 ~~~~~GDiVv~~~p~~~-------------------~~~~iKRV~a~pGd~v~~~~~~~-----~---------------   62 (122)
                      ..+++||+|+|++|...                   ...++|||+|+|||+|+++++..     .               
T Consensus        49 ~~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva~pGD~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~  128 (178)
T PRK13884         49 APVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLAAKGDAVSVTDDGVRVNGELLPLSKPILADGAGRP  128 (178)
T ss_pred             CCCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEeeCCcEEEEECCEEEECCEEccccccccccccCCc
Confidence            47999999999987521                   13799999999999999976411     0               


Q ss_pred             --CCCCceEEeeCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEE
Q 033291           63 --SDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR  107 (122)
Q Consensus        63 --~~~~~~~~vp~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~  107 (122)
                        ......++||+|+|||+|||+++|+||||||+|++++|+|++..+
T Consensus       129 l~~~~~~~~~lp~g~~fvlgd~~~~S~DSRYfG~V~~~~I~G~~~Pl  175 (178)
T PRK13884        129 LPRYQANSYTLGESELLLMSDVSATSFDGRYFGPINRSQIKTVIRPV  175 (178)
T ss_pred             ccccCCCceEECCCEEEEECCCCCCCCcccccCcccHHHEEEEEEEe
Confidence              001224699999999999999999999999999999999999864

>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease

Probab=99.87  E-value=6.6e-22  Score=126.97  Aligned_cols=83  Identities=34%  Similarity=0.574  Sum_probs=72.2

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      |+|||+ +||.|+|+++......+++||+|+|+.|..+++.++||++++++                      +++|+++
T Consensus         8 M~P~l~-~GD~vlv~~~~~~~~~~~~Gdivv~~~~~~~~~~~vkRv~~~~~----------------------~~~~l~~   64 (90)
T TIGR02754         8 MSPTLP-PGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGLIIKRLAAVDD----------------------NGLFLLG   64 (90)
T ss_pred             ccCccC-CCCEEEEEEccccCCCCCCCeEEEEecCCCCcceEEEEeeEEcC----------------------CeEEEeC
Confidence            999999 99999999865434556789999999887667899999998753                      4689999


Q ss_pred             CCCCCCCCCCceecccCCCeeEEEEE
Q 033291           81 DNIYESNDSRKFGAVPYGLIEGRVFL  106 (122)
Q Consensus        81 dn~~~S~DSR~~G~V~~~~I~Gkv~~  106 (122)
                      ||+..|.|||++|+|+..+|+|+|+|
T Consensus        65 dN~~~~~d~~~~g~v~~~~I~G~v~~   90 (90)
T TIGR02754        65 DNPKASTDSRQLGPVPRSLLLGKVLW   90 (90)
T ss_pred             CCCCCCCcccccCCCcHHHEEEEEEC
Confidence            99999999999999999999999964

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

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

Probab=99.82  E-value=6.7e-20  Score=116.21  Aligned_cols=76  Identities=46%  Similarity=0.691  Sum_probs=68.4

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      |+||+. +||++++++.......+++||+|+|+.+..++..++|||++                           ||+.|
T Consensus        10 M~P~i~-~gd~v~v~~~~~~~~~~~~GDiv~~~~~~~~~~~~vkRv~~---------------------------~~~~g   61 (85)
T cd06530          10 MEPTLQ-PGDLVLVNKLSYGFREPKRGDVVVFKSPGDPGKPIIKRVIG---------------------------YFVLG   61 (85)
T ss_pred             CcCccc-CCCEEEEEEeecccCCCCCCCEEEEeCCCCCCCEEEEEEEE---------------------------EEEee
Confidence            999998 99999999876433479999999999986556889999988                           89999


Q ss_pred             CCCCCCCCCCceecccCCCeeEEE
Q 033291           81 DNIYESNDSRKFGAVPYGLIEGRV  104 (122)
Q Consensus        81 dn~~~S~DSR~~G~V~~~~I~Gkv  104 (122)
                      ||..+|.|||+||+++.++|+|++
T Consensus        62 Dn~~ns~d~~~~g~~~~~~i~G~~   85 (85)
T cd06530          62 DNRNNSLDSRYWGPVPEDDIVGKV   85 (85)
T ss_pred             CCCCCCCccCCcCCCcHHHeEEeC
Confidence            999899999999999999999985

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

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

Probab=99.76  E-value=5.3e-19  Score=122.66  Aligned_cols=86  Identities=26%  Similarity=0.362  Sum_probs=71.2

Q ss_pred             CCCCCcEEEEEcCCC------------CCceeEEEEEEcCCCEEEEecCCC-------------------CCCCCceEEe
Q 033291           23 KVCPGDVVLVRSPVV------------PRRIVTKRVIGMEGDRVSYVADPK-------------------SSDKFETVVV   71 (122)
Q Consensus        23 ~~~~GDiVv~~~p~~------------~~~~~iKRV~a~pGd~v~~~~~~~-------------------~~~~~~~~~v   71 (122)
                      .+.+||+|++++|..            ...+++|||.|+|||+|++..+..                   ...-..+..+
T Consensus        53 Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~D~~GR~lp~~~gcR~l  132 (173)
T COG4959          53 PVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPVDRVGRALPRWQGCRYL  132 (173)
T ss_pred             CcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeeccccccCCcCCcccCCcee
Confidence            469999999999853            356789999999999999876421                   1122345559


Q ss_pred             eCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEEEe
Q 033291           72 PQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIW  109 (122)
Q Consensus        72 p~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~  109 (122)
                      -++|+|+|+|..+.|+|||||||||.++|+|.+.. +|
T Consensus       133 ~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRP-vw  169 (173)
T COG4959         133 APSELLLLTDRSSTSFDSRYFGPIPASQVIGVARP-VW  169 (173)
T ss_pred             cCCeEEEEeccCCcccccceecccCHHHcceeeee-ee
Confidence            99999999999999999999999999999999987 44

>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type

Probab=99.49  E-value=1.6e-13  Score=96.84  Aligned_cols=79  Identities=34%  Similarity=0.430  Sum_probs=64.1

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      |+|||+ +||.+++++..  ..++++||+|+|+.|..+ ..++|||+++.++.                  .+..|+..|
T Consensus        41 M~Ptl~-~GD~vlv~~~~--~~~~~~GDIVvf~~~~~~-~~iihRVi~v~~~~------------------g~~~~~tkG   98 (158)
T TIGR02228        41 MEPTFN-TGDLILVTGAD--PNDIQVGDVITYKSPGFN-TPVTHRVIEINNSG------------------GELGFITKG   98 (158)
T ss_pred             CcCCcc-CCCEEEEEecc--cCCCCCCCEEEEEECCCC-ccEEEEEEEEECCC------------------CcEEEEEEe
Confidence            999999 99999999854  368999999999988543 78999999986431                  012377889


Q ss_pred             CCCCCCCCCCceecccCCCeeEEEE
Q 033291           81 DNIYESNDSRKFGAVPYGLIEGRVF  105 (122)
Q Consensus        81 dn~~~S~DSR~~G~V~~~~I~Gkv~  105 (122)
                      ||. .+.|   .++|+.++|+|++.
T Consensus        99 DnN-~~~D---~~~v~~~~IiG~v~  119 (158)
T TIGR02228        99 DNN-PAPD---GEPVPSENVIGKYL  119 (158)
T ss_pred             cCC-CCCC---cccCCHHHEEEEEE
Confidence            997 4556   78999999999998

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=99.16  E-value=1.3e-10  Score=81.07  Aligned_cols=97  Identities=35%  Similarity=0.458  Sum_probs=74.4

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEe-
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE-   79 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~-   79 (122)
                      |+|||+ .||+++++|+++....+..++++  ..|......++||+++++||.+.++++....    ...+|++..++. 
T Consensus        41 M~Ptl~-~GD~v~v~k~~~~~~~~~~~~~~--~~~~~~~~~~~kr~~~~~GD~i~~~~~~~~~----~~~~~~~~~~~~~  113 (166)
T COG0681          41 MEPTLN-VGDRVLVKKFSYGFGKLKVPDII--VLPAVVEGDLIKRVIGLRGDIVVFKDDRLYV----VPIIPRVYGLVEK  113 (166)
T ss_pred             cccccc-cCCEEEEEeccccccCCccceee--ecCCCCCcceEEEeccCCCCEEEEECCEEEe----ecccCcchhhhhc
Confidence            999999 99999999999988889999998  4444557889999999999999998643211    233455555444 


Q ss_pred             ------eCCCCCCCCCCceecccCCCeeEEE
Q 033291           80 ------GDNIYESNDSRKFGAVPYGLIEGRV  104 (122)
Q Consensus        80 ------gdn~~~S~DSR~~G~V~~~~I~Gkv  104 (122)
                            .+....+.+++.++.......+.++
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (166)
T COG0681         114 DNGKHLVDVIVNANSSRVFGIITKKDYIKRV  144 (166)
T ss_pred             ccccccccccccccCccccccccccccccce
Confidence                  4444567788888888888888877

>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification

Probab=99.11  E-value=5e-10  Score=67.94  Aligned_cols=54  Identities=33%  Similarity=0.486  Sum_probs=43.1

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCC
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADP   60 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~   60 (122)
                      |+|+|+ +||+|++++..    .++.||+|+|..+... ..++||+.+.+|+.+.+..+.
T Consensus         7 M~P~i~-~Gd~v~v~~~~----~~~~gdivv~~~~~~~-~~~iKrv~~~~~~~~~~~~~n   60 (70)
T PF00717_consen    7 MEPTIK-DGDIVLVDPSS----EPKDGDIVVVKIDGDE-ELYIKRVVGEPGGIILISSNN   60 (70)
T ss_dssp             TGGTSS-TTEEEEEEETS-------TTSEEEEEETTEE-SEEEEEEEEETTEEEEE-SST
T ss_pred             cccCee-CCCEEEEEEcC----CCccCeEEEEEECCce-eeEEEEEEEeCCCEEEEeccC
Confidence            999999 99999999864    8999999999987431 389999999999999887543

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

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

Probab=98.99  E-value=3.9e-09  Score=65.61  Aligned_cols=74  Identities=46%  Similarity=0.648  Sum_probs=55.7

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      |+|+|. +||.+++++..   ..++.||+|++..+.  +..++||+...++                     ++.+++.+
T Consensus        10 M~P~i~-~gd~v~i~~~~---~~~~~G~iv~~~~~~--~~~~ikrl~~~~~---------------------~~~~~l~~   62 (84)
T cd06462          10 MEPTIP-DGDLVLVDKSS---YEPKRGDIVVFRLPG--GELTVKRVIGLPG---------------------EGHYFLLG   62 (84)
T ss_pred             ccCccc-CCCEEEEEecC---CCCcCCEEEEEEcCC--CcEEEEEEEEECC---------------------CCEEEEEC
Confidence            999998 99999999854   249999999999863  4899999998875                     24678889


Q ss_pred             CCCCCCCCCCceecccCCCeeEE
Q 033291           81 DNIYESNDSRKFGAVPYGLIEGR  103 (122)
Q Consensus        81 dn~~~S~DSR~~G~V~~~~I~Gk  103 (122)
                      ||. ++.+.+..+. ....++|+
T Consensus        63 ~N~-~~~~~~~~~~-~~~~i~g~   83 (84)
T cd06462          63 DNP-NSPDSRIDGP-PELDIVGV   83 (84)
T ss_pred             CCC-CCCcccccCC-CHHHEEEe
Confidence            984 4445544333 55566665

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=98.52  E-value=1.5e-06  Score=53.74  Aligned_cols=49  Identities=35%  Similarity=0.529  Sum_probs=41.2

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEe
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYV   57 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~   57 (122)
                      |+|+++ +||.+++++..    .++.||++++..+   +..++||+...+++.+.+.
T Consensus        10 M~p~i~-~gd~lii~~~~----~~~~g~i~~~~~~---~~~~ikr~~~~~~~~~~L~   58 (81)
T cd06529          10 MEPTIP-DGDLVLVDPSD----TPRDGDIVVARLD---GELTVKRLQRRGGGRLRLI   58 (81)
T ss_pred             cCCccC-CCCEEEEcCCC----CCCCCCEEEEEEC---CEEEEEEEEECCCCcEEEE
Confidence            999998 99999999753    5999999999986   4789999999886655544

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=98.20  E-value=1.3e-05  Score=58.67  Aligned_cols=78  Identities=23%  Similarity=0.177  Sum_probs=52.2

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      |+|+++ +||.++|+.-.    +..+||.|++..-  .+..+|||+.-.+|-.                      +.+.+
T Consensus       133 MeP~~~-~Gd~ilVd~~~----~~~~gd~v~v~~~--g~~~~VK~l~~~~~~~----------------------~~l~S  183 (214)
T COG2932         133 MEPTYE-DGDTLLVDPGV----NTRRGDRVYVETD--GGELYVKKLQREPGGL----------------------LRLVS  183 (214)
T ss_pred             cccccc-CCCEEEECCCC----ceeeCCEEEEEEe--CCeEEEEEEEEecCCe----------------------EEEEe
Confidence            999999 99999999743    6788896666643  2689999998877654                      44667


Q ss_pred             CCCCCCCCCCceecccCCCeeEEEEEEE
Q 033291           81 DNIYESNDSRKFGAVPYGLIEGRVFLRI  108 (122)
Q Consensus        81 dn~~~S~DSR~~G~V~~~~I~Gkv~~~~  108 (122)
                      +|+...- ...+-.=..=.|+|+|++..
T Consensus       184 ~N~~~~~-~~~~~~~~~v~iIgrVv~~~  210 (214)
T COG2932         184 LNPDYYP-DEIFSEDDDVEIIGRVVWVS  210 (214)
T ss_pred             CCCCCCc-ccccCccceEEEEEEEEEEe
Confidence            7764321 11111111134899998854

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

Probab=98.13  E-value=4e-06  Score=58.69  Aligned_cols=87  Identities=24%  Similarity=0.268  Sum_probs=60.1

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      |||+++ .||.++.....  ....+.||||+|+.+. ..-+++.||+-+-+.+     +            .+=.++.-|
T Consensus        58 MePaF~-RGDlLfL~N~~--~~p~~vGdivVf~veg-R~IPiVHRviK~he~~-----~------------~~~~~LTKG  116 (180)
T KOG3342|consen   58 MEPAFH-RGDLLFLTNRN--EDPIRVGDIVVFKVEG-REIPIVHRVIKQHEKS-----N------------GHIKFLTKG  116 (180)
T ss_pred             cCcccc-cccEEEEecCC--CCcceeccEEEEEECC-ccCchhHHHHHHhccc-----C------------CcEEEEecC
Confidence            999999 99999987533  2467999999999863 3578899987654320     0            001255667


Q ss_pred             CCCCCCCCCCc-----eecccCCCeeEEEEEEEeCC
Q 033291           81 DNIYESNDSRK-----FGAVPYGLIEGRVFLRIWPP  111 (122)
Q Consensus        81 dn~~~S~DSR~-----~G~V~~~~I~Gkv~~~~~p~  111 (122)
                      ||.  ..|-|.     .-...+++|+|+|.- +.|.
T Consensus       117 DNN--~~dD~~Ly~~gq~~L~r~~Ivg~~~G-~~Py  149 (180)
T KOG3342|consen  117 DNN--AVDDRGLYAQGQNWLERKDIVGRVRG-YLPY  149 (180)
T ss_pred             CCC--cccchhcccccccceeccceeeEEee-cccc
Confidence            884  455553     245888999999976 5553

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=97.94  E-value=0.00016  Score=49.70  Aligned_cols=40  Identities=23%  Similarity=0.422  Sum_probs=32.3

Q ss_pred             Cc-cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEE
Q 033291            1 ML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIG   48 (122)
Q Consensus         1 M~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a   48 (122)
                      |+ |+|. +||.++|++-.    .++.||+|++...   ++..+||+.-
T Consensus        61 M~~~~I~-~GD~liVd~~~----~~~~Gdivv~~~~---g~~~vKrl~~  101 (139)
T PRK10276         61 MIDAGIS-DGDLLIVDSAI----TASHGDIVIAAVD---GEFTVKKLQL  101 (139)
T ss_pred             CCCCCCC-CCCEEEEECCC----CCCCCCEEEEEEC---CEEEEEEEEE
Confidence            76 6898 99999999642    5789999999863   5678999864

>PRK00215 LexA repressor; Validated

Probab=97.85  E-value=0.00019  Score=52.07  Aligned_cols=74  Identities=27%  Similarity=0.331  Sum_probs=50.7

Q ss_pred             Cc-cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEe
Q 033291            1 ML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE   79 (122)
Q Consensus         1 M~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~   79 (122)
                      |. |++. +||.++|++-    ..++.||+|++...   ++..+||+.-. +                      |.+++.
T Consensus       128 M~~~~i~-~Gd~v~v~~~----~~~~~G~ivv~~~~---~~~~vKrl~~~-~----------------------~~~~L~  176 (205)
T PRK00215        128 MIDAGIL-DGDLVIVRKQ----QTARNGQIVVALID---DEATVKRFRRE-G----------------------GHIRLE  176 (205)
T ss_pred             CCCCCcC-CCCEEEEeCC----CCCCCCCEEEEEEC---CEEEEEEEEEe-C----------------------CEEEEE
Confidence            84 7898 9999999973    36789999999875   47899998653 2                      345566


Q ss_pred             eCCCCCCCCCCceecccCCCeeEEEEEEE
Q 033291           80 GDNIYESNDSRKFGAVPYGLIEGRVFLRI  108 (122)
Q Consensus        80 gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~  108 (122)
                      .+|+..  +......= .-.|+|+|+..+
T Consensus       177 s~Np~y--~~~~~~~~-~~~IiG~Vv~~~  202 (205)
T PRK00215        177 PENPAY--EPIIVDPD-RVTIEGKVVGLI  202 (205)
T ss_pred             cCCCCC--CCEEeCCC-cEEEEEEEEEEE
Confidence            676532  22221110 357999998754

>PRK12423 LexA repressor; Provisional

Probab=97.82  E-value=0.00024  Score=51.75  Aligned_cols=75  Identities=24%  Similarity=0.197  Sum_probs=51.2

Q ss_pred             Cc-cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEe
Q 033291            1 ML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE   79 (122)
Q Consensus         1 M~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~   79 (122)
                      |. |+|. +||.|+|++-    ..++.||+|++...   ++..+||+.-. +                      +.+++.
T Consensus       124 M~~~~i~-~Gd~viv~~~----~~~~~Gdivv~~~~---~~~~vKrl~~~-~----------------------~~~~L~  172 (202)
T PRK12423        124 MIDDGIL-DGDLVGVHRS----PEARDGQIVVARLD---GEVTIKRLERS-G----------------------DRIRLL  172 (202)
T ss_pred             CCCCCcC-CCCEEEEeCC----CcCCCCCEEEEEEC---CEEEEEEEEEe-C----------------------CEEEEE
Confidence            76 7998 9999999973    37889999999863   57889998643 2                      235666


Q ss_pred             eCCCCCCCCCCceecccCCCeeEEEEEEE
Q 033291           80 GDNIYESNDSRKFGAVPYGLIEGRVFLRI  108 (122)
Q Consensus        80 gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~  108 (122)
                      .+|+.  ++...+-+-..-.|+|+++..+
T Consensus       173 s~N~~--y~~i~~~~~~~~~I~Gvv~g~~  199 (202)
T PRK12423        173 PRNPA--YAPIVVAPDQDFAIEGVFCGLI  199 (202)
T ss_pred             cCCCC--CCCEEcCCCCcEEEEEEEEEEE
Confidence            77752  2222222222347999998754

>TIGR00498 lexA SOS regulatory protein LexA

Probab=97.72  E-value=0.00047  Score=49.73  Aligned_cols=76  Identities=22%  Similarity=0.212  Sum_probs=51.7

Q ss_pred             Cc-cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEe
Q 033291            1 ML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE   79 (122)
Q Consensus         1 M~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~   79 (122)
                      |. |++. +||.+++++.    ..++.||+|++...   ++..+||+.-. |                      +.+++.
T Consensus       121 M~~~~i~-~Gd~v~v~~~----~~~~~G~ivvv~~~---~~~~vKrl~~~-~----------------------~~i~L~  169 (199)
T TIGR00498       121 MVDAGIC-DGDLLIVRSQ----KDARNGEIVAAMID---GEVTVKRFYKD-G----------------------TKVELK  169 (199)
T ss_pred             CCCCCCC-CCCEEEEecC----CCCCCCCEEEEEEC---CEEEEEEEEEE-C----------------------CEEEEE
Confidence            75 5798 9999999964    37899999999972   57899998643 2                      345666


Q ss_pred             eCCCCCCCCCCceecccCCCeeEEEEEEEeC
Q 033291           80 GDNIYESNDSRKFGAVPYGLIEGRVFLRIWP  110 (122)
Q Consensus        80 gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p  110 (122)
                      .+|+...  ...... ..-.|+|+|+..+..
T Consensus       170 s~N~~y~--~i~~~~-~~~~IiG~Vv~~~r~  197 (199)
T TIGR00498       170 PENPEFD--PIVLNA-EDVTILGKVVGVIRN  197 (199)
T ss_pred             cCCCCCc--CCcCCC-CcEEEEEEEEEEEEe
Confidence            7776321  111100 135899999987654

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

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

Probab=96.83  E-value=0.021  Score=41.85  Aligned_cols=76  Identities=21%  Similarity=0.171  Sum_probs=52.9

Q ss_pred             cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEeeCC
Q 033291            3 PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDN   82 (122)
Q Consensus         3 Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~gdn   82 (122)
                      +.+. +||+|+|++-    .....||||+...+.  .+.-+||..--                       .+.+++..-|
T Consensus       125 ~gi~-dGDlvvV~~~----~~a~~GdiVvA~i~g--~e~TvKrl~~~-----------------------g~~i~L~p~N  174 (201)
T COG1974         125 AGIL-DGDLVVVDPT----EDAENGDIVVALIDG--EEATVKRLYRD-----------------------GNQILLKPEN  174 (201)
T ss_pred             CcCC-CCCEEEEcCC----CCCCCCCEEEEEcCC--CcEEEEEEEEe-----------------------CCEEEEEeCC
Confidence            4555 7999999864    478999999998764  45778887442                       2447777777


Q ss_pred             CCCCCCCCceecccCCCeeEEEEEEEeCC
Q 033291           83 IYESNDSRKFGAVPYGLIEGRVFLRIWPP  111 (122)
Q Consensus        83 ~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~  111 (122)
                      +.  +.+..+..- .-.|+|+++..+|+.
T Consensus       175 p~--~~~i~~~~~-~~~I~G~vvgv~r~~  200 (201)
T COG1974         175 PA--YPPIPVDAD-SVTILGKVVGVIRDI  200 (201)
T ss_pred             CC--CCCcccCcc-ceEEEEEEEEEEecC
Confidence            63  233444333 568999999988874

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

Probab=89.25  E-value=0.53  Score=32.29  Aligned_cols=13  Identities=23%  Similarity=0.371  Sum_probs=11.0

Q ss_pred             CCCCCcEEEEEcC
Q 033291           23 KVCPGDVVLVRSP   35 (122)
Q Consensus        23 ~~~~GDiVv~~~p   35 (122)
                      ...+||+|+|+.+
T Consensus        84 ~~~~GD~i~~~~~   96 (166)
T COG0681          84 IGLRGDIVVFKDD   96 (166)
T ss_pred             ccCCCCEEEEECC
Confidence            4679999999983

>PF05257 CHAP: CHAP domain; InterPro: IPR007921 The CHAP (cysteine, histidine-dependent amidohydrolases/peptidases) domain is a region between 110 and 140 amino acids that is found in proteins from bacteria, bacteriophages, archaea and eukaryotes of the Trypanosomidae family

Probab=85.37  E-value=3.2  Score=27.34  Aligned_cols=39  Identities=18%  Similarity=0.192  Sum_probs=25.9

Q ss_pred             CCCCCCcEEEEEcCCCCCceeEEEEEEc-CCCEEEEecCC
Q 033291           22 NKVCPGDVVLVRSPVVPRRIVTKRVIGM-EGDRVSYVADP   60 (122)
Q Consensus        22 ~~~~~GDiVv~~~p~~~~~~~iKRV~a~-pGd~v~~~~~~   60 (122)
                      ..|+.||||+|.......--.+.=|.+. .+++|.+.+..
T Consensus        61 ~~P~~Gdivv~~~~~~~~~GHVaIV~~v~~~~~i~v~e~N  100 (124)
T PF05257_consen   61 STPQPGDIVVWDSGSGGGYGHVAIVESVNDGGTITVIEQN  100 (124)
T ss_dssp             S---TTEEEEEEECTTTTT-EEEEEEEE-TTSEEEEEECS
T ss_pred             cccccceEEEeccCCCCCCCeEEEEEEECCCCEEEEEECC
Confidence            5899999999963333344578888888 88899887543

Many of these proteins are uncharacterised, but it has been proposed that they may function mainly in peptidoglycan hydrolysis. The CHAP domain is found in a wide range of protein architectures; it is commonly associated with bacterial type SH3 domains and with several families of amidase domains. It has been suggested that CHAP domain containing proteins utilise a catalytic cysteine residue in a nucleophilic-attack mechanism [, ]. The CHAP domain contains two invariant residues, a cysteine and a histidine. These residues form part of the putative active site of CHAP domain containing proteins. Secondary structure predictions show that the CHAP domain belongs to the alpha + beta structural class, with the N-terminal half largely containing predicted alpha helices and the C-terminal half principally composed of predicted beta strands [, ]. Some proteins known to contain a CHAP domain are listed below: Bacterial and trypanosomal glutathionylspermidine amidases. A variety of bacterial autolysins. A Nocardia aerocolonigenes putative esterase. Streptococcus pneumoniae choline-binding protein D. Methanosarcina mazei protein MM2478, a putative chloride channel. Several phage-encoded peptidoglycan hydrolases. Cysteine peptidases belonging to MEROPS peptidase family C51 (D-alanyl-glycyl endopeptidase, clan CA). ; PDB: 2LRJ_A 2VPM_B 2VOB_B 2VPS_A 2K3A_A 2IO9_A 2IO8_A 2IOB_A 2IOA_B 2IO7_B ....

>TIGR02594 conserved hypothetical protein TIGR02594

Probab=84.21  E-value=7.1  Score=26.48  Aligned_cols=13  Identities=23%  Similarity=0.281  Sum_probs=11.1

Q ss_pred             CCCCCCcEEEEEc
Q 033291           22 NKVCPGDVVLVRS   34 (122)
Q Consensus        22 ~~~~~GDiVv~~~   34 (122)
                      ..++.||||+|+.
T Consensus        72 ~~p~~GDiv~f~~   84 (129)
T TIGR02594        72 SKPAYGCIAVKRR   84 (129)
T ss_pred             CCCCccEEEEEEC
Confidence            4689999999985

Members of this protein family known so far are restricted to the bacteria, and for the most to the proteobacteria. The function is unknown.

>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1

Probab=83.99  E-value=11  Score=25.58  Aligned_cols=83  Identities=13%  Similarity=0.039  Sum_probs=43.6

Q ss_pred             CCCCCCcEEEEEcCCCC----------CceeEEEEEEcCCC---EEEEecC--CCCCCC-CceEEeeCCeEEEeeCCCCC
Q 033291           22 NKVCPGDVVLVRSPVVP----------RRIVTKRVIGMEGD---RVSYVAD--PKSSDK-FETVVVPQGHVWIEGDNIYE   85 (122)
Q Consensus        22 ~~~~~GDiVv~~~p~~~----------~~~~iKRV~a~pGd---~v~~~~~--~~~~~~-~~~~~vp~~~~~v~gdn~~~   85 (122)
                      ..++.||+|+++.++..          ...+|-||..+--+   .-.+...  -...+. ... .-.+.++|+.......
T Consensus         4 ~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e~~~g~~~~h~~W~yrp~eTv~g~-~~~~~ElFLSd~c~~~   82 (130)
T cd04712           4 LTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKKGSDGSKMFHGRWLYRGCDTVLGN-YANERELFLTNECTCL   82 (130)
T ss_pred             CEEeCCCEEEEcCCCCCccccccccccccceEEEEEEeeecCCCceEEEEEEEEcchhccccc-cCCCceEEEecccccc
Confidence            35778999999876543          24577777665332   1111100  000000 111 4556778775333222


Q ss_pred             CCCCCceecccCCCeeEEEEEEEeCC
Q 033291           86 SNDSRKFGAVPYGLIEGRVFLRIWPP  111 (122)
Q Consensus        86 S~DSR~~G~V~~~~I~Gkv~~~~~p~  111 (122)
                      +.++.      .+.|+||+..-+.+.
T Consensus        83 ~~~~~------~~~I~~k~~V~~~~~  102 (130)
T cd04712          83 ELDLL------STEIKGVHKVDWSGT  102 (130)
T ss_pred             ccccc------cceeEEEEEEEEecC
Confidence            22222      569999998876654

DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.

---

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

ID	Length	Definition	E-value
Query	122
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	3e-06
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	1e-04

>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* Length = 248

 Score = 43.7 bits (103), Expect = 3e-06
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 59  DPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIW 109
             +   +  T +VP G  ++ GDN   S DSR +G VP   + GR    IW
Sbjct: 176 YQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATA-IW 225

>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* Length = 248

 Score = 38.7 bits (90), Expect = 1e-04
 Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 13/73 (17%)

Query: 1  MLPTINLTGDLVLAERIS------------TRFNKVCPGDVVLVRSPVVPRRIVTKRVIG 48
          M+PT+ L GD +L E+ +                    GD+V+ + P  P+    KR +G
Sbjct: 16 MMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVG 74

Query: 49 MEGDRVSYVADPK 61
          + GD+V+Y    K
Sbjct: 75 LPGDKVTYDPVSK 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	122
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	100.0
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	99.18
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	98.97
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	98.61
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	98.56
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	98.54
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	97.93
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	96.84
1w4s_A	174	Polybromo, polybromo 1 protein; BAH, bromo-associa	90.63
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	88.82

>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=3.9e-36  Score=223.56  Aligned_cols=113  Identities=33%  Similarity=0.517  Sum_probs=96.4

Q ss_pred             CccccCCCCCEEEEEeccCC------------CCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecC-------C-
Q 033291            1 MLPTINLTGDLVLAERISTR------------FNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVAD-------P-   60 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~------------~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~-------~-   60 (122)
                      |+|||+ .||+|+|+|+.|.            ..++++||||+|+.|.+++..+||||+|+|||+|+++++       + 
T Consensus        16 M~Ptl~-~GD~vlv~k~~yg~r~P~~~~~l~~~~~~~rGDIvvf~~p~~~~~~~iKRViglpGD~v~i~~~~~~l~ING~   94 (248)
T 1b12_A           16 MMPTLL-IGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKVTYDPVSKELTIQPG   94 (248)
T ss_dssp             TTTTSC-TTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCEEEEETTTTEEEEETT
T ss_pred             cccccc-CCCEEEEEecccCcccccccccccccCCCCCCcEEEEEeCCCCCceEEEEEEeeCCCEEEEEcCceEEEECCc
Confidence            999999 9999999998764            358999999999998777789999999999999998765       1 


Q ss_pred             ----------CCC--------C----------------------------------------------------------
Q 033291           61 ----------KSS--------D----------------------------------------------------------   64 (122)
Q Consensus        61 ----------~~~--------~----------------------------------------------------------   64 (122)
                                ...        .                                                          
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~~~~~~~~~~~~~e~l~~~~~~~~~~p~~~~~~~~  174 (248)
T 1b12_A           95 CSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTHRILTVPIAQDQVGM  174 (248)
T ss_dssp             CCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEEEEEEECTTCCCCGGG
T ss_pred             cccccccccceeeeeeccccccccccccccccccccccccccccccccccchhhhhHHhhhcCccceeEecCCccccccc
Confidence                      100        0                                                          


Q ss_pred             -------CCceEEeeCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEEEeCCCCc
Q 033291           65 -------KFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDF  114 (122)
Q Consensus        65 -------~~~~~~vp~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~  114 (122)
                             ....++||+|+|||||||+++|.||||||+||+++|+|||++++||+++.
T Consensus       175 ~~~~~~~~~~~~~VP~g~yFvmGDNR~nS~DSR~~G~Vp~~~IvGka~~i~~s~~~~  231 (248)
T 1b12_A          175 YYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFDKQ  231 (248)
T ss_dssp             SCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC--
T ss_pred             hhcccccccccEEeCCCcEEEecCCCcccCCCCcccccCHHHeEEEEEEEEEeCCcc
Confidence                   01246899999999999999999999999999999999999999998864

>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=99.18  E-value=2e-10  Score=75.12  Aligned_cols=79  Identities=25%  Similarity=0.406  Sum_probs=59.8

Q ss_pred             cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEeeCC
Q 033291            3 PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDN   82 (122)
Q Consensus         3 Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~gdn   82 (122)
                      |+|. +||.|+|++..    .++.||+|++..+.  ++.++||+...+                       |.+++.+||
T Consensus        31 p~i~-~Gd~v~Vd~~~----~~~~Gdivv~~~~~--~~~~vKrl~~~~-----------------------~~~~L~s~N   80 (109)
T 1kca_A           31 PSFP-DGMLILVDPEQ----AVEPGDFCIARLGG--DEFTFKKLIRDS-----------------------GQVFLQPLN   80 (109)
T ss_dssp             SCCC-TTCEEEEETTS----CCCTTCEEEEECST--TCEEEEEEEEET-----------------------TEEEEECSS
T ss_pred             CeeC-CCCEEEEecCC----cCCCCCEEEEEECC--CeEEEEEEEEeC-----------------------CEEEEEECC
Confidence            9998 99999999743    69999999999753  478999997643                       346777888


Q ss_pred             CCCCCCCCceecccCCCeeEEEEEEEeCCCCcc
Q 033291           83 IYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFG  115 (122)
Q Consensus        83 ~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  115 (122)
                      +..  ....+-  ..-.|+|+|++.+||+..|+
T Consensus        81 ~~y--~~~~~~--~~~~IiG~Vv~~~~~~~~~~  109 (109)
T 1kca_A           81 PQY--PMIPCN--ESCSVVGKVIASQWPEETFG  109 (109)
T ss_dssp             TTS--CCEECC--TTCEEEEEEEEEECCGGGGC
T ss_pred             CCC--CCEEcC--CCcEEEEEEEEEEeCHHHcC
Confidence            632  122221  45789999999999987664

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

Probab=98.97  E-value=3.5e-09  Score=69.56  Aligned_cols=77  Identities=17%  Similarity=0.151  Sum_probs=54.5

Q ss_pred             Ccc-ccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEe
Q 033291            1 MLP-TINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE   79 (122)
Q Consensus         1 M~P-tl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~   79 (122)
                      |+| +|+ +||.|++++..    .++.||+|++..+   +...+||+...+                        .+++.
T Consensus        37 M~p~~i~-~Gd~v~vd~~~----~~~~gdivv~~~~---~~~~vKr~~~~~------------------------~~~L~   84 (116)
T 1umu_A           37 MIDGGIS-DGDLLIVDSAI----TASHGDIVIAAVD---GEFTVKKLQLRP------------------------TVQLI   84 (116)
T ss_dssp             TGGGTCC-TTCEEEEETTS----CCCTTCEEEEEET---TEEEEEEEECSS------------------------SCEEE
T ss_pred             cCCCCCC-CCCEEEEEcCC----CCCCCCEEEEEEC---CEEEEEEEEeCC------------------------cEEEE
Confidence            999 898 99999999743    6999999999975   478999998743                        25577


Q ss_pred             eCCCCCCCCCCceecccCCCeeEEEEEEEeCC
Q 033291           80 GDNIYESNDSRKFGAVPYGLIEGRVFLRIWPP  111 (122)
Q Consensus        80 gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~  111 (122)
                      +||+.  +....+..-..-.|+|+|++.+..+
T Consensus        85 s~N~~--y~~~~i~~~~~~~IiG~Vv~~~r~~  114 (116)
T 1umu_A           85 PMNSA--YSPITISSEDTLDVFGVVIHVVKAA  114 (116)
T ss_dssp             CSSTT--SCCEECCTTSCEEEEEEEEEEEC--
T ss_pred             CCCCC--CCCEEcCCCCeEEEEEEEEEEEEec
Confidence            88863  2222221112347999999876644

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

Probab=98.61  E-value=2.9e-07  Score=61.74  Aligned_cols=70  Identities=20%  Similarity=0.246  Sum_probs=50.7

Q ss_pred             cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEeeCC
Q 033291            3 PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDN   82 (122)
Q Consensus         3 Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~gdn   82 (122)
                      |+|. +||.|+|++.    ..++.||+|++....  ++..+||+...+                       |.+++.++|
T Consensus        62 p~i~-~Gd~v~vd~~----~~~~~Gdivv~~~~~--~~~~vKrl~~~~-----------------------~~~~L~s~N  111 (133)
T 2hnf_A           62 TSFP-DGMLILVDPE----QAVEPGDFCIARLGG--DEFTFAKLIRDS-----------------------GQVFLQPLN  111 (133)
T ss_dssp             CCCC-TTCEEEEETT----SCCCTTSEEEEEETT--TEEEEEEEEEET-----------------------TEEEEECSS
T ss_pred             CccC-CCCEEEEccC----CCCCCCCEEEEEECC--CEEEEEEEEEeC-----------------------CeEEEEECC
Confidence            9998 9999999974    379999999998753  478999997543                       346677777


Q ss_pred             CCCCCCCCceecccCCCeeEEEEE
Q 033291           83 IYESNDSRKFGAVPYGLIEGRVFL  106 (122)
Q Consensus        83 ~~~S~DSR~~G~V~~~~I~Gkv~~  106 (122)
                      +..  .....-  ..-.|+|+|++
T Consensus       112 ~~y--~~~~~~--~~~~IiG~Vv~  131 (133)
T 2hnf_A          112 PQY--PMIPCN--ESCSVVGKVIA  131 (133)
T ss_dssp             TTS--CCEECS--TTEEEEEEEEE
T ss_pred             CCC--CCEEcC--CCCEEEEEEEE
Confidence            632  122111  34579999986

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

Probab=98.56  E-value=1.9e-07  Score=67.36  Aligned_cols=79  Identities=25%  Similarity=0.411  Sum_probs=56.5

Q ss_pred             cccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEeeCC
Q 033291            3 PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDN   82 (122)
Q Consensus         3 Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~gdn   82 (122)
                      |+|. +||.|+|++-.    .+..||+|++...  .+...+||+...+|                       .+++.+||
T Consensus       158 P~i~-~Gd~v~vd~~~----~~~~g~ivv~~~~--~~~~~vKrl~~~~~-----------------------~~~L~s~N  207 (236)
T 3bdn_A          158 PSFP-DGMLILVDPEQ----AVEPGDFCIARLG--GDEFTFKKLIRGSG-----------------------QVFLQPLN  207 (236)
T ss_dssp             SCCC-SSCEEEECCSS----CCCTTSEEEEEST--TTCCCCEEEECCSS-----------------------SCEEECSS
T ss_pred             CcCC-CCCEEEECCCC----CCCCCcEEEEEEC--CCeEEEEEEEEcCC-----------------------cEEEEeCC
Confidence            9998 99999998743    7899999999973  24789999976443                       35566777


Q ss_pred             CCCCCCCCceecccCCCeeEEEEEEEeCCCCcc
Q 033291           83 IYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFG  115 (122)
Q Consensus        83 ~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  115 (122)
                      +..  ....+-  ..-.|+|+|++.+||...|+
T Consensus       208 ~~y--~~~~~~--~~~~IiG~Vv~~~~~~~~~~  236 (236)
T 3bdn_A          208 PQY--PMIPCN--ESCSVVGKVIASQWPEETFG  236 (236)
T ss_dssp             TTS--CCBC----CCCEEEEEEEECCCCSSSCC
T ss_pred             CCC--CCeecC--CCcEEEEEEEEEEcCHHhcC
Confidence            532  111111  34579999999999886653

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

Probab=98.54  E-value=7.1e-07  Score=63.25  Aligned_cols=77  Identities=25%  Similarity=0.232  Sum_probs=53.8

Q ss_pred             Cccc-cCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEe
Q 033291            1 MLPT-INLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE   79 (122)
Q Consensus         1 M~Pt-l~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~   79 (122)
                      |+|+ |. +||.|+|++.    ..++.||+|++...   +...+||+. .+|+.                      +++.
T Consensus       120 M~p~~i~-~Gd~v~vd~~----~~~~~G~i~v~~~~---~~~~vKrl~-~~~~~----------------------~~l~  168 (202)
T 1jhf_A          120 MKDIGIM-DGDLLAVHKT----QDVRNGQVVVARID---DEVTVKRLK-KQGNK----------------------VELL  168 (202)
T ss_dssp             TGGGTCC-TTCEEEEEEC----SCCCTTSEEEEEET---TEEEEEEEE-EETTE----------------------EEEE
T ss_pred             CCCCCCC-CCCEEEEecc----CCcCCCeEEEEEEC---CEEEEEEEE-EeCCE----------------------EEEE
Confidence            9999 98 9999999974    36899999999973   578999997 45554                      5556


Q ss_pred             eCCCCCCCCCCceec-ccCCCeeEEEEEEEeC
Q 033291           80 GDNIYESNDSRKFGA-VPYGLIEGRVFLRIWP  110 (122)
Q Consensus        80 gdn~~~S~DSR~~G~-V~~~~I~Gkv~~~~~p  110 (122)
                      +||+.  +....+.. -..-.|+|+|++.+..
T Consensus       169 s~N~~--y~~~~~~~~~~~~~IiG~Vv~~~r~  198 (202)
T 1jhf_A          169 PENSE--FKPIVVDLRQQSFTIEGLAVGVIRN  198 (202)
T ss_dssp             CSSTT--CCCEEEETTTSCEEEEEEEEEEEEC
T ss_pred             ECCCC--CCCEEccCCCCceEEEEEEEEEEEc
Confidence            67752  12221110 1233599999987653

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

Probab=97.93  E-value=5.9e-05  Score=53.27  Aligned_cols=74  Identities=23%  Similarity=0.167  Sum_probs=51.8

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      .+|++. +||.|+|++.    ..++.||+|++...   ++..+||+.-.+                       |.+++..
T Consensus       120 ~~p~i~-~GD~viv~~~----~~~~~G~ivv~~~~---~~~~vKr~~~~~-----------------------~~~~L~~  168 (196)
T 3k2z_A          120 IEEHIC-DGDLVLVRRQ----DWAQNGDIVAAMVD---GEVTLAKFYQRG-----------------------DTVELRP  168 (196)
T ss_dssp             GGGTCC-TTCEEEEEEC----SCCCTTCEEEEEET---TEEEEEEEEEET-----------------------TEEEEEC
T ss_pred             CCCCCC-CCCEEEEecc----CcCCCCCEEEEEEC---CcEEEEEEEEEC-----------------------CEEEEEE
Confidence            069998 9999999974    36899999999875   589999995432                       3466667


Q ss_pred             CCCCCCCCCCceecccCCCeeEEEEEEE
Q 033291           81 DNIYESNDSRKFGAVPYGLIEGRVFLRI  108 (122)
Q Consensus        81 dn~~~S~DSR~~G~V~~~~I~Gkv~~~~  108 (122)
                      +|+..  .....- -..-.|+|+|++.+
T Consensus       169 ~N~~y--~~i~i~-~~~~~i~G~Vv~~~  193 (196)
T 3k2z_A          169 ANREM--SSMFFR-AEKVKILGKVVGVF  193 (196)
T ss_dssp             SCTTS--CCEEEE-GGGCEEEEEEEEEE
T ss_pred             CCCCC--CCEEec-CCCEEEEEEEEEEE
Confidence            77532  122211 12347999998865

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

Probab=96.84  E-value=0.013  Score=40.35  Aligned_cols=41  Identities=12%  Similarity=0.259  Sum_probs=31.9

Q ss_pred             CCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEE
Q 033291            8 TGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSY   56 (122)
Q Consensus         8 ~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~   56 (122)
                      +||.|+|++-     .+..|+++++...   +...+||+.-.+|+.+.+
T Consensus       121 ~Gd~v~Vd~~-----~~~~g~i~vv~~~---g~~~vKrl~~~~~~~i~L  161 (189)
T 2fjr_A          121 EGKIYFVDKQ-----ASLSDGLWLVDIK---GAISIRELTKLPGRKLHV  161 (189)
T ss_dssp             TTEEEEEETT-----CCSCSEEEEEEET---TEEEEEEEEEETTTEEEE
T ss_pred             CCcEEEEEcC-----CccCCCEEEEEeC---CeEEEEEEEECCCCEEEE
Confidence            7999999963     3677999999874   578999998777665544

>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=88.82  E-value=2.8  Score=28.81  Aligned_cols=12  Identities=58%  Similarity=1.190  Sum_probs=9.1

Q ss_pred             CCCCCcEEEEEc
Q 033291           23 KVCPGDVVLVRS   34 (122)
Q Consensus        23 ~~~~GDiVv~~~   34 (122)
                      .+..||+|+++.
T Consensus       123 ~i~~GD~viv~~  134 (196)
T 3k2z_A          123 HICDGDLVLVRR  134 (196)
T ss_dssp             TCCTTCEEEEEE
T ss_pred             CCCCCCEEEEec
Confidence            577888888875

---

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	122
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	3e-10

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

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

 Score = 53.4 bits (127), Expect = 3e-10
 Identities = 16/50 (32%), Positives = 23/50 (46%)

Query: 61  KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWP 110
           +   +  T +VP G  ++ GDN   S DSR +G VP   + GR       
Sbjct: 177 QPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMS 226

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	122
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	100.0
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	98.78
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	98.35
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	98.17
d2io8a2	191	Glutathionylspermidine synthase, amidase domain {E	83.39

>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=5.1e-37  Score=225.17  Aligned_cols=112  Identities=32%  Similarity=0.528  Sum_probs=97.4

Q ss_pred             CccccCCCCCEEEEEeccCCCC------------CCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCC-------
Q 033291            1 MLPTINLTGDLVLAERISTRFN------------KVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPK-------   61 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~------------~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~-------   61 (122)
                      |+|||. .||+|+|+|++|.++            .+++||+|+|..|.++...++|||+|+|||+|.+.....       
T Consensus        15 MePTL~-~GD~l~V~K~~Yg~r~P~~~~~~~~~~~~~rgdivvf~~p~~~~~~~ikR~ig~pGD~i~~~~~~~~i~~~~~   93 (247)
T d1b12a_          15 MMPTLL-IGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKVTYDPVSKELTIQPG   93 (247)
T ss_dssp             TTTTSC-TTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCEEEEETTTTEEEEETT
T ss_pred             ccchhc-cCCEEEEEccccCccCCccCcccccccCcccCceeeecCCCCCCccccccccCCCCCeEEEecccceEEeccc
Confidence            999999 999999999988654            459999999999988888999999999999998853100       


Q ss_pred             --------------------------------------------------------------------------------
Q 033291           62 --------------------------------------------------------------------------------   61 (122)
Q Consensus        62 --------------------------------------------------------------------------------   61 (122)
                                                                                                      
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  173 (247)
T d1b12a_          94 CSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTHRILTVPIAQDQVGM  173 (247)
T ss_dssp             CCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEEEEEEECTTCCCCGGG
T ss_pred             ccccceeecceeecccccCcccceeeeeeccCceeccceeeccccccccCceEeeeeeeccCCcceeEEecccchhcccc
Confidence                                                                                            


Q ss_pred             ----CCCCCceEEeeCCeEEEeeCCCCCCCCCCceecccCCCeeEEEEEEEeCCCC
Q 033291           62 ----SSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKD  113 (122)
Q Consensus        62 ----~~~~~~~~~vp~~~~~v~gdn~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~  113 (122)
                          .......++||+|+|||||||+++|.|||+||+||+++|+|||++++||+++
T Consensus       174 ~~~~~~~~~~~~~Vp~~~yfvmGDNR~nS~DSR~wG~Vp~~~I~Gka~~i~~p~~~  229 (247)
T d1b12a_         174 YYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFDK  229 (247)
T ss_dssp             SCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC-
T ss_pred             cccCCccccceEEEeCCeEEEecCCCCCCccccccCcCCHHHeEEEEEEEEEECCC
Confidence                0112346899999999999999999999999999999999999999999874

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

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

Probab=98.78  E-value=3e-08  Score=62.36  Aligned_cols=80  Identities=25%  Similarity=0.394  Sum_probs=58.3

Q ss_pred             ccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEeeC
Q 033291            2 LPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGD   81 (122)
Q Consensus         2 ~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~gd   81 (122)
                      +|+|. +||.|+|++-    .+++.||+|++....  ++..+||+.-.+                       +.+++.++
T Consensus        22 ep~i~-~Gd~viVd~~----~~~~~g~ivva~~~~--~~~~vKr~~~~~-----------------------~~~~L~s~   71 (101)
T d1f39a_          22 KPSFP-DGMLILVDPE----QAVEPGDFCIARLGG--DEFTFKKLIRDS-----------------------GQVFLQPL   71 (101)
T ss_dssp             SSCCC-TTCEEEEETT----SCCCTTCEEEEECTT--SCEEEEEEEEET-----------------------TEEEEECS
T ss_pred             CCCcC-CCCEEEEEec----CccCCCCEEEEEECC--CeEEEEEEEEcC-----------------------CEEEEEEC
Confidence            79998 9999999974    479999999988642  457899986432                       44667777


Q ss_pred             CCCCCCCCCceecccCCCeeEEEEEEEeCCCCcc
Q 033291           82 NIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFG  115 (122)
Q Consensus        82 n~~~S~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  115 (122)
                      |+..  ......  ..-.|+|+|+..+||-.-||
T Consensus        72 N~~y--~~i~~~--~~~~IiG~Vv~s~~p~~~~~  101 (101)
T d1f39a_          72 NPQY--PMIPCN--ESCSVVGKVIASQWPEETFG  101 (101)
T ss_dssp             STTS--CCEECS--TTCEEEEEEEEEECCGGGGC
T ss_pred             CCCC--CCCcCC--CCcEEEEEEEEEECcHHHCC
Confidence            7632  222221  34589999999999976654

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

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

Probab=98.35  E-value=2.9e-06  Score=54.84  Aligned_cols=75  Identities=24%  Similarity=0.185  Sum_probs=53.1

Q ss_pred             Cccc-cCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEe
Q 033291            1 MLPT-INLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE   79 (122)
Q Consensus         1 M~Pt-l~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~   79 (122)
                      |+|+ +. +||+|++++-    .+++.||+|++...   ++..+||+.-.+                       |.+++.
T Consensus        48 M~~~~i~-~gd~viv~~~----~~~~~G~ivv~~~~---ge~~vKrl~~~~-----------------------~~~~L~   96 (126)
T d1jhfa2          48 MKDIGIM-DGDLLAVHKT----QDVRNGQVVVARID---DEVTVKRLKKQG-----------------------NKVELL   96 (126)
T ss_dssp             TGGGTCC-TTCEEEEEEC----SCCCTTSEEEEEET---TEEEEEEEEEET-----------------------TEEEEE
T ss_pred             ccCcccC-CCEEEEEecc----ccccCCCEEEEEEC---CEEEEEEEEEcC-----------------------CEEEEe
Confidence            9998 87 9999999974    47999999999975   578999996532                       446777


Q ss_pred             eCCCCCCCCCCceec-ccCCCeeEEEEEEE
Q 033291           80 GDNIYESNDSRKFGA-VPYGLIEGRVFLRI  108 (122)
Q Consensus        80 gdn~~~S~DSR~~G~-V~~~~I~Gkv~~~~  108 (122)
                      ++|+..  ....+.. =..=.|+|+|+..+
T Consensus        97 s~N~~y--~pi~~~~~~~~~~IiG~Vv~vi  124 (126)
T d1jhfa2          97 PENSEF--KPIVVDLRQQSFTIEGLAVGVI  124 (126)
T ss_dssp             CSSTTC--CCEEEETTTSCEEEEEEEEEEE
T ss_pred             cCCcCC--CCeEccCCCCcEEEEEEEEEEE
Confidence            887632  2222211 01126999998764

>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=98.17  E-value=7.3e-06  Score=51.54  Aligned_cols=74  Identities=16%  Similarity=0.127  Sum_probs=51.1

Q ss_pred             CccccCCCCCEEEEEeccCCCCCCCCCcEEEEEcCCCCCceeEEEEEEcCCCEEEEecCCCCCCCCceEEeeCCeEEEee
Q 033291            1 MLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEG   80 (122)
Q Consensus         1 M~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVv~~~p~~~~~~~iKRV~a~pGd~v~~~~~~~~~~~~~~~~vp~~~~~v~g   80 (122)
                      +.|.+. +||.++|++.    .+++.||+|++...   ++..+||+.- .                       +..+++.
T Consensus        31 ~~~gI~-~GDlliVd~~----~~~~~g~ivva~i~---ge~~vKrl~~-~-----------------------~~~~L~~   78 (105)
T d1umua_          31 IDGGIS-DGDLLIVDSA----ITASHGDIVIAAVD---GEFTVKKLQL-R-----------------------PTVQLIP   78 (105)
T ss_dssp             GGGTCC-TTCEEEEETT----SCCCTTCEEEEEET---TEEEEEEEEC-S-----------------------SSCEEEC
T ss_pred             ccCccC-CCCEEEEEcc----cccccCcEEEEEEC---CEEEEEEEEE-C-----------------------CcEEEEC
Confidence            057798 9999999985    37999999999985   6789999842 1                       2345667


Q ss_pred             CCCCCCCCCCceecccCCCeeEEEEEEE
Q 033291           81 DNIYESNDSRKFGAVPYGLIEGRVFLRI  108 (122)
Q Consensus        81 dn~~~S~DSR~~G~V~~~~I~Gkv~~~~  108 (122)
                      +|+.  ++.....+=..-.|.|+|+..+
T Consensus        79 ~N~~--y~~i~i~~~~~~~I~GvVv~vi  104 (105)
T d1umua_          79 MNSA--YSPITISSEDTLDVFGVVIHVV  104 (105)
T ss_dssp             SSTT--SCCEECCTTSCEEEEEEEEEEE
T ss_pred             CCCC--CCCEEcCCCCCEEEEEEEEEEE
Confidence            7752  3444333333345889988754

>d2io8a2 d.3.1.15 (A:10-200) Glutathionylspermidine synthase, amidase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Cysteine proteinases
superfamily: Cysteine proteinases
family: CHAP domain
domain: Glutathionylspermidine synthase, amidase domain
species: Escherichia coli [TaxId: 562]

Probab=83.39  E-value=3.3  Score=27.40  Aligned_cols=58  Identities=10%  Similarity=0.104  Sum_probs=38.4

Q ss_pred             CCCCCCcEEEEEcC-CCCCceeEEEEEEcCCCEEEEecCCC---------CCCCCceEEeeCCeEEEe
Q 033291           22 NKVCPGDVVLVRSP-VVPRRIVTKRVIGMEGDRVSYVADPK---------SSDKFETVVVPQGHVWIE   79 (122)
Q Consensus        22 ~~~~~GDiVv~~~p-~~~~~~~iKRV~a~pGd~v~~~~~~~---------~~~~~~~~~vp~~~~~v~   79 (122)
                      ..|+.|||+++... ....-=.|.-|+.+-+++|.+.++.-         ........+..+|.|++.
T Consensus       101 ~~P~~Gdllv~~~~~~~~~~GHVavV~~v~~~~v~i~EQN~~~~~w~~g~~ysR~l~l~~~~g~y~i~  168 (191)
T d2io8a2         101 RAPVAGALLIWDKGGEFKDTGHVAIITQLHGNKVRIAEQNVIHSPLPQGQQWTRELEMVVENGCYTLK  168 (191)
T ss_dssp             SCCCTTCEEEECSBTTBTTTCEEEEEEEECSSEEEEECSSSCCSCCCTTCCCSEEEEEEEETTEEEEE
T ss_pred             CCCCCCcEEEECCCCCCCCceeEEEEEEeCCCEEEEEeccccCCCCCCCCCeeEEEEEEEECCEEEEE
Confidence            56999999999742 22223478888999999999976432         111123455566777776