Citrus Sinensis ID: 031448

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------16
Protein Sequence
MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEcccccccccccccEEEEEEEEEcccccccccEEEEEccccccccEEEEEccccccEEEEcccccccccccEEEccccEEEEccccccccccccccccccccEEEEEEEEEcccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccEEcccccccccccccccEEEEEEEEEEccccccccEEEEcccccccccHEEEEEEccccEEEEEccccccccccEEcccccEEEEcccccccccccEcccccHHHEEEEEEEEEEcHHHccccc
Coil and Loop (DISEMBL)
MRRWGLLAKEALTQTLTFARFFCLFHVtnhylwsptlvfgpsmlptlnltgDVILAEYVshrvgrlgpgdivfvrspvdpnkivtkrivgvegdrvtyfkprngdschtvvvpkghvwiqgdnlyasrdsrqfgpvpygliegkaffrvwppnsfgslg
Flexible Loop (DISEMBL)
MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVgrlgpgdivfvrspvdpnkivtkrivgvegdrvtyfkprngdschtvvvPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPpnsfgslg
Low Complexity Region (SEG)
MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG
Disordered region (IsUnstruct)
***WGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWP********
Disordered Region (DISOPRED)
********KEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG
Disordered Region (DISEMBL)
MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG
Disordered Region (DISPRO)
MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG
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	159	2.2.26 [Sep-21-2011]
Q96LU5	166	Mitochondrial inner membr	yes	no	0.861	0.825	0.417	1e-27
Q9CQU8	166	Mitochondrial inner membr	yes	no	0.949	0.909	0.396	9e-27
Q28I39	167	Mitochondrial inner membr	yes	no	0.861	0.820	0.431	7e-26
O74800	157	Mitochondrial inner membr	yes	no	0.836	0.847	0.386	5e-22
Q6AZD4	183	Mitochondrial inner membr	no	no	0.716	0.622	0.418	2e-16
P46972	177	Mitochondrial inner membr	yes	no	0.899	0.807	0.318	6e-16
Q2KI92	177	Mitochondrial inner membr	yes	no	0.735	0.661	0.384	2e-15
Q96T52	175	Mitochondrial inner membr	no	no	0.735	0.668	0.384	4e-15
Q8BPT6	175	Mitochondrial inner membr	no	no	0.735	0.668	0.384	4e-15
P28627	190	Mitochondrial inner membr	no	no	0.817	0.684	0.356	5e-15

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

 Score =  122 bits (305), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/139 (41%), Positives = 85/139 (61%), Gaps = 2/139 (1%)

Query: 20  RFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVD 79
           ++ C+ H    Y+    +  GPSM PT+    D++ AE +S     +  GDIV  +SP D
Sbjct: 18  QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSD 76

Query: 80  PNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYG 139
           P   + KR++G+EGD++    P +    H+ V P GHVW++GDNL  S DSR +GP+PYG
Sbjct: 77  PKSNICKRVIGLEGDKILTTSPSDFFKSHSYV-PMGHVWLEGDNLQNSTDSRCYGPIPYG 135

Query: 140 LIEGKAFFRVWPPNSFGSL 158
           LI G+ FF++WP + FG L
Sbjct: 136 LIRGRIFFKIWPLSDFGFL 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: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: -

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

 Score =  119 bits (297), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 61/154 (39%), Positives = 89/154 (57%), Gaps = 3/154 (1%)

Query: 5   GLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVG 64
           G+L K       T  ++ C+ H    Y+    +  GPSM PT+    D++ AE +S    
Sbjct: 4   GVLGKAFRLAGYTI-QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFY 61

Query: 65  RLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNL 124
            +  GDIV  +SP DP   + KR++G+EGD++    P +     + V P GHVW++GDNL
Sbjct: 62  GIQRGDIVIAKSPSDPKSNICKRVIGLEGDKILSTSPSDVFKSRSYV-PTGHVWLEGDNL 120

Query: 125 YASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
             S DSR +GP+PYGLI G+ FF++WP + FG L
Sbjct: 121 QNSTDSRYYGPIPYGLIRGRIFFKIWPFSDFGFL 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: 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 =  116 bits (290), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 60/139 (43%), Positives = 82/139 (58%), Gaps = 2/139 (1%)

Query: 20  RFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVD 79
           ++ C+ H    Y+    +  GPSM PT+    DV+L + +S     +  GDI+  +SP  
Sbjct: 18  QYGCIAHCAFEYIGEVVICSGPSMEPTIR-NYDVLLCDNLSRHFFSIHKGDIIVAKSPDK 76

Query: 80  PNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYG 139
           P+  + KR++G+EGD+V    P      HT V PKGHVW++GDNL  S DSR +GPVPY 
Sbjct: 77  PSVNICKRVIGLEGDKVCMSSPSALLKRHTYV-PKGHVWLEGDNLDNSTDSRSYGPVPYA 135

Query: 140 LIEGKAFFRVWPPNSFGSL 158
           LI G+   RVWP  SFG L
Sbjct: 136 LIRGRICLRVWPLESFGPL 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 =  103 bits (257), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 53/137 (38%), Positives = 76/137 (55%), Gaps = 4/137 (2%)

Query: 16  LTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGR-LGPGDIVFV 74
           +   +     H  + YL+   +  GPSM+PTLN  G+ +L + +  R  R    GD+V  
Sbjct: 9   IAVVQIAAFVHQIHEYLFQVQMTSGPSMMPTLNSGGEFVLLDKLHGRFARSCSVGDVVVS 68

Query: 75  RSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFG 134
             P D  + V KRI+G+ GD + Y  P + +    + +P GHVW+ GDN+  S DSR +G
Sbjct: 69  AKPSDSKQHVCKRIIGMPGDTI-YVDPTSSNK--KITIPLGHVWLAGDNIAHSLDSRNYG 125

Query: 135 PVPYGLIEGKAFFRVWP 151
           PVP GLI+ K   RVWP
Sbjct: 126 PVPMGLIKAKVIARVWP 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 = 84.7 bits (208), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 51/122 (41%), Positives = 70/122 (57%), Gaps = 8/122 (6%)

Query: 38  VFGPSMLPTLNLTG----DVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEG 93
           V G SM P+LN  G    DV+L    S R   +  GDIV V SP +P + + KR++G+EG
Sbjct: 38  VEGASMQPSLNPDGESSPDVVLLNRWSVRNYHVQRGDIVSVLSPKNPQQKIIKRVIGIEG 97

Query: 94  DRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPN 153
           D +     +N      V VP GH+WI+GD+   S DS  FGPV  GL+ G+A   +WPP+
Sbjct: 98  DFIKTLGYKN----RYVRVPDGHLWIEGDHHGHSFDSNAFGPVSLGLVHGRASHIIWPPS 153

Query: 154 SF 155
            +
Sbjct: 154 RW 155

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

 Score = 83.2 bits (204), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 51/160 (31%), Positives = 80/160 (50%), Gaps = 17/160 (10%)

Query: 8   AKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYV------SH 61
           +K  L  TL    +  +    N+ +     V G SM PTLN   + +  ++V        
Sbjct: 7   SKRFLRNTLIAISWVPVLLTINNNVVHIAQVKGTSMQPTLNPQTETLATDWVLLWKFGVK 66

Query: 62  RVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVT----YFKPRNGDSCHTVVVPKGHV 117
               L   DI+  ++P +P K+  KR+ G+  D +     Y KP+       V +P+GH+
Sbjct: 67  NPSNLSRDDIILFKAPTNPRKVYCKRVKGLPFDTIDTKFPYPKPQ-------VNLPRGHI 119

Query: 118 WIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGS 157
           W++GDN + S DS  FGP+  GL+ GKA   VWPP+ +G+
Sbjct: 120 WVEGDNYFHSIDSNTFGPISSGLVIGKAITIVWPPSRWGT 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|Q2KI92|IMP2L_BOVIN Mitochondrial inner membrane protease subunit 2 OS=Bos taurus GN=IMMP2L PE=2 SV=1

 Score = 81.6 bits (200), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/125 (38%), Positives = 68/125 (54%), Gaps = 8/125 (6%)

Query: 38  VFGPSMLPTLNLTG----DVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEG 93
           V G SM P+LN  G    DV+L  +   R   +  GDIV + SP +P + + KR++ +EG
Sbjct: 39  VEGASMQPSLNPGGSQSSDVVLLNHWKVRNFEVQRGDIVSLVSPKNPEQKIIKRVIALEG 98

Query: 94  DRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPN 153
           D V     +N      V VP+GH+W++GD+   S DS  FGPV  GL+   A   +WPP 
Sbjct: 99  DIVKTMGHKN----RYVKVPRGHIWVEGDHHGHSFDSNSFGPVSLGLLHAHATHILWPPK 154

Query: 154 SFGSL 158
            +  L
Sbjct: 155 RWQKL 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 = 80.5 bits (197), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 48/125 (38%), Positives = 68/125 (54%), Gaps = 8/125 (6%)

Query: 38  VFGPSMLPTLNLTG----DVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEG 93
           V G SM P+LN  G    DV+L  +   R   +  GDIV + SP +P + + KR++ +EG
Sbjct: 39  VEGASMQPSLNPGGSQSSDVVLLNHWKVRNFEVHRGDIVSLVSPKNPEQKIIKRVIALEG 98

Query: 94  DRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPN 153
           D V     +N      V VP+GH+W++GD+   S DS  FGPV  GL+   A   +WPP 
Sbjct: 99  DIVRTIGHKN----RYVKVPRGHIWVEGDHHGHSFDSNSFGPVSLGLLHAHATHILWPPE 154

Query: 154 SFGSL 158
            +  L
Sbjct: 155 RWQKL 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|Q8BPT6|IMP2L_MOUSE Mitochondrial inner membrane protease subunit 2 OS=Mus musculus GN=Immp2l PE=2 SV=1

 Score = 80.5 bits (197), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 48/125 (38%), Positives = 68/125 (54%), Gaps = 8/125 (6%)

Query: 38  VFGPSMLPTLNLTG----DVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEG 93
           V G SM P+LN  G    DV+L  +   R   +  GDIV + SP +P + + KR++ +EG
Sbjct: 39  VEGSSMQPSLNPGGSQSSDVVLLNHWKVRNFEVQRGDIVSLVSPKNPEQKIIKRVIALEG 98

Query: 94  DRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPN 153
           D V     +N      V VP+GH+W++GD+   S DS  FGPV  GL+   A   +WPP 
Sbjct: 99  DIVRTIGHKN----RLVKVPRGHMWVEGDHHGHSFDSNSFGPVSLGLLHAHATHILWPPE 154

Query: 154 SFGSL 158
            +  L
Sbjct: 155 RWQRL 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: -

>sp|P28627|IMP1_YEAST Mitochondrial inner membrane protease subunit 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=IMP1 PE=1 SV=3

 Score = 80.5 bits (197), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 52/146 (35%), Positives = 75/146 (51%), Gaps = 16/146 (10%)

Query: 13  TQTLTFA-RFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVI--LAEYVSHRVGRLGPG 69
           ++T ++A R  C  H+ + Y +  T   G SMLPTL+ T D +  L  + + R  ++G  
Sbjct: 10  SKTFSYAIRSLCFLHIIHMYAYEFTETRGESMLPTLSATNDYVHVLKNFQNGRGIKMG-- 67

Query: 70  DIVFVRSPVDPNKIVTKRIVGVEGDRV----TYFKPRNGDSC-------HTVVVPKGHVW 118
           D +    P DPN  + KR+ G+ GD V    +      GD           + VP+GHVW
Sbjct: 68  DCIVALKPTDPNHRICKRVTGMPGDLVLVDPSTIVNYVGDVLVDEERFGTYIKVPEGHVW 127

Query: 119 IQGDNLYASRDSRQFGPVPYGLIEGK 144
           + GDNL  S DSR +  +P GLI GK
Sbjct: 128 VTGDNLSHSLDSRTYNALPMGLIMGK 153

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. IMP1 substrates include nuclear encoded CYB2, mitochondrially encoded COX2, NADH-cytochrome b5 reductase and GUT2.

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

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	159
449438943	161	PREDICTED: mitochondrial inner membrane	0.993	0.981	0.691	4e-60
224061365	164	predicted protein [Populus trichocarpa]	1.0	0.969	0.656	9e-58
224061361	161	predicted protein [Populus trichocarpa]	1.0	0.987	0.656	9e-58
225461838	167	PREDICTED: mitochondrial inner membrane	0.993	0.946	0.628	8e-56
388519663	166	unknown [Medicago truncatula]	0.993	0.951	0.620	4e-54
30695525	168	peptidase-S24/S26 domain-containing prot	0.993	0.940	0.647	2e-53
297847748	168	signal peptidase I family protein [Arabi	0.993	0.940	0.641	2e-53
225463444	169	PREDICTED: mitochondrial inner membrane	0.993	0.934	0.591	5e-50
224096548	171	predicted protein [Populus trichocarpa]	1.0	0.929	0.543	6e-50
255557373	176	mitochondrial inner membrane protease su	0.955	0.863	0.607	1e-49

>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 =  235 bits (600), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 110/159 (69%), Positives = 133/159 (83%), Gaps = 1/159 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           M +W  + KEA+ +T+  A+F CL HVTN+Y+ SPTLV+GPSMLPTLNLTGDV+LAE+VS
Sbjct: 1   MGQWRSVVKEAIDRTVIIAKFLCLLHVTNNYICSPTLVYGPSMLPTLNLTGDVLLAEHVS 60

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYF-KPRNGDSCHTVVVPKGHVWI 119
           HRVGR+GPGD+V VRSP +P K++TKRIVGVEGD+V ++  P N +   + VVPKGHVWI
Sbjct: 61  HRVGRVGPGDVVLVRSPRNPRKMLTKRIVGVEGDKVNFYPDPANSNQYQSAVVPKGHVWI 120

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
           QGDN+YASRDSR FGPVPYGLIEGKAF RVWPP+ FG L
Sbjct: 121 QGDNVYASRDSRHFGPVPYGLIEGKAFLRVWPPDCFGRL 159

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  228 bits (580), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 105/160 (65%), Positives = 129/160 (80%), Gaps = 1/160 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           M  W  +AKEA +QT   A+F    H+TN+YL SPTLV+GPSMLPTLNLTGDV+L E+VS
Sbjct: 4   MNAWKSIAKEAFSQTCLVAKFLGFLHLTNNYLISPTLVYGPSMLPTLNLTGDVLLVEHVS 63

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYF-KPRNGDSCHTVVVPKGHVWI 119
           HR  ++GPGD+V VRSP+DP K+VTKRIVG+EGD++ +   P   D C TV+VPKGH+WI
Sbjct: 64  HRFQKVGPGDVVLVRSPLDPTKMVTKRIVGMEGDQINFLPDPSITDICRTVMVPKGHIWI 123

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG 159
           QGDN+YAS DSR +GPVPYGL++GK FFRVWPP+SFGS G
Sbjct: 124 QGDNMYASCDSRHYGPVPYGLVQGKLFFRVWPPSSFGSFG 163

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 =  228 bits (580), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 105/160 (65%), Positives = 129/160 (80%), Gaps = 1/160 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           M  W  +AKEA +QT   A+F    H+TN+YL SPTLV+GPSMLPTLNLTGDV+L E+VS
Sbjct: 1   MNAWKSIAKEAFSQTCLVAKFLGFLHLTNNYLISPTLVYGPSMLPTLNLTGDVLLVEHVS 60

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYF-KPRNGDSCHTVVVPKGHVWI 119
           HR  ++GPGD+V VRSP+DP K+VTKRIVG+EGD++ +   P   D C TV+VPKGH+WI
Sbjct: 61  HRFQKVGPGDVVLVRSPLDPTKMVTKRIVGMEGDQINFLPDPSITDICRTVMVPKGHIWI 120

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG 159
           QGDN+YAS DSR +GPVPYGL++GK FFRVWPP+SFGS G
Sbjct: 121 QGDNMYASCDSRHYGPVPYGLVQGKLFFRVWPPSSFGSFG 160

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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 =  221 bits (563), Expect = 8e-56,   Method: Compositional matrix adjust.
 Identities = 100/159 (62%), Positives = 127/159 (79%), Gaps = 1/159 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           + +W  LA+EA  +T   A+F C+ HVTN Y+ +PTLV+GPSMLPT NLTGDV+L E ++
Sbjct: 7   LSQWRTLAREAAERTAILAKFLCILHVTNTYICTPTLVYGPSMLPTFNLTGDVLLVENLT 66

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYF-KPRNGDSCHTVVVPKGHVWI 119
            R+G++ PGD+V VRSP +P K V+KRI+G+EGDRVT+   P+N + C +VV+PKGHVWI
Sbjct: 67  VRMGKVRPGDVVLVRSPENPRKTVSKRILGMEGDRVTFMIDPKNSNRCQSVVIPKGHVWI 126

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
           QGDN+YAS DSR FGPVPYGLI+GK FFRVWP N FGSL
Sbjct: 127 QGDNIYASHDSRNFGPVPYGLIQGKVFFRVWPLNGFGSL 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388519663|gb|AFK47893.1| unknown [Medicago truncatula]

 Score =  215 bits (548), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 98/158 (62%), Positives = 123/158 (77%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           + +W  +AKEAL ++   A+F C  H T +YL SPT  +GPSMLPTLN+ GDV+L E+VS
Sbjct: 7   IAQWKSVAKEALDRSAIIAKFLCYLHFTGNYLCSPTHAYGPSMLPTLNIAGDVVLVEHVS 66

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQ 120
            R+G++G GD+V V+SP++PN+ +TKR+V +EGD VTYF P N +     VVPKGHVWIQ
Sbjct: 67  PRIGKVGHGDLVLVKSPLNPNRNLTKRVVAMEGDTVTYFDPLNSEDSRIAVVPKGHVWIQ 126

Query: 121 GDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
           GDN+YASRDSR FGPVPYGLI GK FFRVWPP+SFG L
Sbjct: 127 GDNVYASRDSRHFGPVPYGLIRGKVFFRVWPPSSFGRL 164

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30695525|ref|NP_175758.2| peptidase-S24/S26 domain-containing protein [Arabidopsis thaliana] gi|44681348|gb|AAS47614.1| At1g53530 [Arabidopsis thaliana] gi|45773848|gb|AAS76728.1| At1g53530 [Arabidopsis thaliana] gi|110738199|dbj|BAF01030.1| hypothetical protein [Arabidopsis thaliana] gi|332194831|gb|AEE32952.1| peptidase-S24/S26 domain-containing protein [Arabidopsis thaliana]

 Score =  213 bits (543), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 103/159 (64%), Positives = 123/159 (77%), Gaps = 1/159 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           +++W   AKEA       A+F CL HVT+ Y+ S T V GPSMLPTLNLTGDVILAE++S
Sbjct: 9   LKQWRGTAKEAFENVSIVAKFLCLLHVTDRYIISTTHVHGPSMLPTLNLTGDVILAEHLS 68

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTY-FKPRNGDSCHTVVVPKGHVWI 119
           HR G++G GD+V VRSP DP ++VTKRI+G+EGDR+T+   P  GD+  +V+VPKGHVWI
Sbjct: 69  HRFGKIGLGDVVLVRSPRDPKRMVTKRILGLEGDRLTFSADPLVGDASVSVLVPKGHVWI 128

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
           QGDNLYAS DSR FGPVPY LIEGKA  RVWPP  FGSL
Sbjct: 129 QGDNLYASTDSRHFGPVPYSLIEGKALLRVWPPEYFGSL 167

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297847748|ref|XP_002891755.1| signal peptidase I family protein [Arabidopsis lyrata subsp. lyrata] gi|297337597|gb|EFH68014.1| signal peptidase I family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 102/159 (64%), Positives = 123/159 (77%), Gaps = 1/159 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           +++W   AKEA       A+F CL HVT+ Y+ S T V GPSMLPTLNLTGDVILAE++S
Sbjct: 9   LKQWRGTAKEAFENVSIVAKFLCLLHVTDRYIISTTHVHGPSMLPTLNLTGDVILAEHLS 68

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTY-FKPRNGDSCHTVVVPKGHVWI 119
           HR G++G GD+V VRSP DP ++VTKRI+G+EGDR+T+   P  GD+  +V+VPKGHVWI
Sbjct: 69  HRFGKIGLGDVVLVRSPRDPKRMVTKRILGLEGDRLTFSADPLVGDASVSVLVPKGHVWI 128

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
           QGDNLYAS DSR FGP+PY LIEGKA  RVWPP  FGSL
Sbjct: 129 QGDNLYASTDSRHFGPIPYSLIEGKALLRVWPPEYFGSL 167

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  202 bits (513), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 94/159 (59%), Positives = 121/159 (76%), Gaps = 1/159 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           +++W  + KEAL +    A+F CL HV+N YL +  L  GPSMLPTLNL+GD+ILA+ +S
Sbjct: 6   VKQWSRIVKEALDRAFFTAKFLCLLHVSNTYLCTVALAHGPSMLPTLNLSGDLILADRLS 65

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTY-FKPRNGDSCHTVVVPKGHVWI 119
            R G++GPGDIV VRSP +P KI+TKR+VG+ GDRVT+   P++   C TVVVP+GHVWI
Sbjct: 66  VRFGKVGPGDIVLVRSPQNPRKIITKRVVGMGGDRVTFSVDPKDSRRCETVVVPEGHVWI 125

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
            GDN+YAS DSR FG VPYGL++GK F+R+WPP  FG L
Sbjct: 126 AGDNIYASTDSRNFGAVPYGLLQGKVFWRIWPPQGFGLL 164

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  201 bits (512), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 87/160 (54%), Positives = 119/160 (74%), Gaps = 1/160 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           +  W ++AKEA   +   A+  C  HVT  Y+++   ++GPSMLPT N++GD+ LAE +S
Sbjct: 6   LNEWTIIAKEAFNGSFLVAKALCFLHVTKTYVFTVASLYGPSMLPTFNISGDLALAEKIS 65

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTY-FKPRNGDSCHTVVVPKGHVWI 119
           H++G++G GDIV V SPV+P KIVTKR+VGVEGD VTY   P+N D   T+VVPKGH+W+
Sbjct: 66  HKLGKVGAGDIVLVTSPVEPRKIVTKRVVGVEGDSVTYVVDPKNSDRTETIVVPKGHIWV 125

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG 159
           +GDN+Y S+DSR FG V YGL++GK F+++WPP  FG LG
Sbjct: 126 EGDNIYKSKDSRNFGAVSYGLLQGKMFWKIWPPKDFGPLG 165

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 =  201 bits (510), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 93/153 (60%), Positives = 118/153 (77%), Gaps = 1/153 (0%)

Query: 1   MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
           + +W   AKEAL Q++  A+F C  HVTN YL +  L +GPSMLPTLNLTGD++LAE +S
Sbjct: 6   LAQWKSFAKEALNQSILVAKFLCFLHVTNTYLCTAALTYGPSMLPTLNLTGDLVLAERIS 65

Query: 61  HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTY-FKPRNGDSCHTVVVPKGHVWI 119
            R G++GPGDIV VRSPV+P +IVTKR++GVEGD VTY   P+N D+ +TVVVPKGH+WI
Sbjct: 66  PRFGKVGPGDIVLVRSPVNPKRIVTKRVMGVEGDSVTYVVDPKNSDASNTVVVPKGHIWI 125

Query: 120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPP 152
           +GDN+Y S DSR+FG VPYGL+  K F+R   P
Sbjct: 126 EGDNVYDSNDSRKFGAVPYGLLHAKVFWRKGDP 158

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	159
TAIR|locus:2203688	168	AT1G53530 [Arabidopsis thalian	0.993	0.940	0.647	2.7e-52
TAIR|locus:2019357	169	AT1G29960 [Arabidopsis thalian	0.981	0.923	0.477	2.6e-38
TAIR|locus:1006230730	155	AT1G23465 [Arabidopsis thalian	0.918	0.941	0.482	1.9e-35
UNIPROTKB|F1P533	163	IMMP1L "Uncharacterized protei	0.918	0.895	0.440	3.8e-30
UNIPROTKB|E2QXR0	202	IMMP1L "Uncharacterized protei	0.949	0.747	0.402	1.2e-28
UNIPROTKB|Q96LU5	166	IMMP1L "Mitochondrial inner me	0.949	0.909	0.402	1.5e-28
UNIPROTKB|F1SGP6	166	IMMP1L "Uncharacterized protei	0.949	0.909	0.409	2.4e-28
MGI|MGI:1913791	166	Immp1l "IMP1 inner mitochondri	0.949	0.909	0.396	6.4e-28
ZFIN|ZDB-GENE-070522-4	189	immp1l "IMP1 inner mitochondri	0.861	0.724	0.417	8.2e-28
RGD|1586505	166	LOC687395 "similar to CG9240-P	0.949	0.909	0.402	2.2e-27

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

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 103/159 (64%), Positives = 123/159 (77%)

Query:     1 MRRWGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVS 60
             +++W   AKEA       A+F CL HVT+ Y+ S T V GPSMLPTLNLTGDVILAE++S
Sbjct:     9 LKQWRGTAKEAFENVSIVAKFLCLLHVTDRYIISTTHVHGPSMLPTLNLTGDVILAEHLS 68

Query:    61 HRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFK-PRNGDSCHTVVVPKGHVWI 119
             HR G++G GD+V VRSP DP ++VTKRI+G+EGDR+T+   P  GD+  +V+VPKGHVWI
Sbjct:    69 HRFGKIGLGDVVLVRSPRDPKRMVTKRILGLEGDRLTFSADPLVGDASVSVLVPKGHVWI 128

Query:   120 QGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
             QGDNLYAS DSR FGPVPY LIEGKA  RVWPP  FGSL
Sbjct:   129 QGDNLYASTDSRHFGPVPYSLIEGKALLRVWPPEYFGSL 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 = 410 (149.4 bits), Expect = 2.6e-38, P = 2.6e-38
 Identities = 75/157 (47%), Positives = 104/157 (66%)

Query:     4 WGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRV 63
             W   ++EA+   +  A+ +C  HVT +YL      +GPSM PTL+ +G+V+LAE +S R 
Sbjct:     9 WNTASREAMKSGVLLAKLYCFLHVTTNYLGFMAYAYGPSMTPTLHPSGNVLLAERISKRY 68

Query:    64 GRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTY-FKPRNGDSCHTVVVPKGHVWIQGD 122
              +   GDIV +RSP +PNK   KR++G+EGD +++    R  D   T+VVPKGHV++QGD
Sbjct:    69 QKPSRGDIVVIRSPENPNKTPIKRVIGIEGDCISFVIDSRKSDESQTIVVPKGHVFVQGD 128

Query:   123 NLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG 159
               + SRDSR FG VPYGLI+G+  +RVWP   FG LG
Sbjct:   129 YTHNSRDSRNFGTVPYGLIQGRVLWRVWPFQDFGPLG 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 = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 71/147 (48%), Positives = 100/147 (68%)

Query:     4 WGLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRV 63
             W   ++EA+   +  A+ +C  HVT +YL      +GPSM+PTL+ +G+++LAE +S R 
Sbjct:     9 WNTASREAMKSGMFVAKVYCFLHVTTNYLGFMAYAYGPSMIPTLHPSGNMLLAERISKRY 68

Query:    64 GRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTY-FKPRNGDSCHTVVVPKGHVWIQGD 122
              +   GDIV +RSP +PNK   KR+VGVEGD +++   P   D   T+VVPKGHV++QGD
Sbjct:    69 QKPSRGDIVVIRSPENPNKTPIKRVVGVEGDCISFVIDPVKSDESQTIVVPKGHVFVQGD 128

Query:   123 NLYASRDSRQFGPVPYGLIEGKAFFRV 149
               + SRDSR FGPVPYGLI+G+  +RV
Sbjct:   129 YTHNSRDSRNFGPVPYGLIQGRVLWRV 155

GO:0006508 "proteolysis" evidence=IEA

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

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IEA

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

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 67/152 (44%), Positives = 93/152 (61%)

Query:    11 ALTQTLTF----ARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRL 66
             AL +TL F     ++ C+ H    YL    +  GPSM PT+  + D++ +E +S     +
Sbjct:     2 ALGKTLRFLGYTVQYGCIAHCAFEYLGGIVVCSGPSMEPTIQ-SSDIVFSENLSRHFYSI 60

Query:    67 GPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYA 126
               GDIV V+SP DP   + KR++G+EGD+V    P +    H+ V PKGHVW++GDNL  
Sbjct:    61 RKGDIVIVKSPTDPKSNICKRVIGLEGDKVCTSNPSDFLKTHSFV-PKGHVWLEGDNLRN 119

Query:   127 SRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
             S DSR +GPVPYGLI G+  F++WP N FG L
Sbjct:   120 STDSRCYGPVPYGLIRGRICFKIWPLNDFGFL 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

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

 Score = 319 (117.4 bits), Expect = 1.2e-28, P = 1.2e-28
 Identities = 62/154 (40%), Positives = 89/154 (57%)

Query:     5 GLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVG 64
             G+L K       T  ++ C+ H    Y+    +  GPSM PT+    D++ AE +S    
Sbjct:    40 GVLGKTFRLVGYTI-QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFY 97

Query:    65 RLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNL 124
              +  GDIV  +SP DP   + KR++G+EGD++    P +    H  V P GHVW++GDNL
Sbjct:    98 GIQRGDIVIAKSPSDPKSNICKRVIGLEGDKILTSSPSDFFKSHNYV-PTGHVWLEGDNL 156

Query:   125 YASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
               S DSR +GP+PYGLI G+ FF++WP + FG L
Sbjct:   157 QNSTDSRYYGPIPYGLIRGRIFFKIWPLSDFGFL 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 = 318 (117.0 bits), Expect = 1.5e-28, P = 1.5e-28
 Identities = 62/154 (40%), Positives = 90/154 (58%)

Query:     5 GLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVG 64
             G+L K       T  ++ C+ H    Y+    +  GPSM PT+    D++ AE +S    
Sbjct:     4 GVLGKTFRLVGYTI-QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFY 61

Query:    65 RLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNL 124
              +  GDIV  +SP DP   + KR++G+EGD++    P +    H+ V P GHVW++GDNL
Sbjct:    62 GIQRGDIVIAKSPSDPKSNICKRVIGLEGDKILTTSPSDFFKSHSYV-PMGHVWLEGDNL 120

Query:   125 YASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
               S DSR +GP+PYGLI G+ FF++WP + FG L
Sbjct:   121 QNSTDSRCYGPIPYGLIRGRIFFKIWPLSDFGFL 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

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

 Score = 316 (116.3 bits), Expect = 2.4e-28, P = 2.4e-28
 Identities = 63/154 (40%), Positives = 89/154 (57%)

Query:     5 GLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVG 64
             G+L K       T  ++ C+ H    Y+    +  GPSM PT+    D++ AE +S    
Sbjct:     4 GVLGKTFRLVGYTI-QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NPDIVFAENLSRHFY 61

Query:    65 RLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNL 124
              +  GDIV  +SP DP   + KR++G+EGD++    P      H+ V P GHVW++GDNL
Sbjct:    62 SIQRGDIVIAKSPSDPKSNICKRVIGLEGDKILTNSPSGFFKGHSYV-PTGHVWLEGDNL 120

Query:   125 YASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
               S DSR +GPVPYGLI G+ FF++WP + FG L
Sbjct:   121 QNSTDSRYYGPVPYGLIRGRIFFKIWPLSDFGFL 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

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

 Score = 312 (114.9 bits), Expect = 6.4e-28, P = 6.4e-28
 Identities = 61/154 (39%), Positives = 89/154 (57%)

Query:     5 GLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVG 64
             G+L K       T  ++ C+ H    Y+    +  GPSM PT+    D++ AE +S    
Sbjct:     4 GVLGKAFRLAGYTI-QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFY 61

Query:    65 RLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNL 124
              +  GDIV  +SP DP   + KR++G+EGD++    P +     + V P GHVW++GDNL
Sbjct:    62 GIQRGDIVIAKSPSDPKSNICKRVIGLEGDKILSTSPSDVFKSRSYV-PTGHVWLEGDNL 120

Query:   125 YASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
               S DSR +GP+PYGLI G+ FF++WP + FG L
Sbjct:   121 QNSTDSRYYGPIPYGLIRGRIFFKIWPFSDFGFL 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

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

 Score = 311 (114.5 bits), Expect = 8.2e-28, P = 8.2e-28
 Identities = 58/139 (41%), Positives = 85/139 (61%)

Query:    20 RFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVD 79
             ++ C+ H    Y+       GPSM PT+    DV+ +E +S  + R+  GDI+  +SP +
Sbjct:    43 QYGCIAHCAFEYVGEFVSCSGPSMEPTIT-NHDVVFSERISRHLYRIQKGDIIIAKSPSN 101

Query:    80 PNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYG 139
             P   + KR++G+EGD+V    P +    HT V P+GHVW++GDNL  S DSR +GP+PY 
Sbjct:   102 PKMNICKRVIGLEGDKVCTSGPSDIFKTHTYV-PRGHVWLEGDNLRNSTDSRSYGPIPYA 160

Query:   140 LIEGKAFFRVWPPNSFGSL 158
             LI G+   ++WPP SFG L
Sbjct:   161 LIRGRVCLKLWPPQSFGVL 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

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

 Score = 307 (113.1 bits), Expect = 2.2e-27, P = 2.2e-27
 Identities = 62/154 (40%), Positives = 88/154 (57%)

Query:     5 GLLAKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVG 64
             G+L K       T  ++ C+ H    Y+    +  GPSM PT+    D++ AE +S    
Sbjct:     4 GVLGKAFRLAGYTI-QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFY 61

Query:    65 RLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNL 124
              +  GDIV  +SP DP   + KR++G+EGD++    P +       V P GHVW++GDNL
Sbjct:    62 GIQRGDIVIAKSPSDPKSSICKRVIGLEGDKILADNPPDIFKSRNYV-PTGHVWLEGDNL 120

Query:   125 YASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSL 158
               S DSR +GPVPYGLI G+ FF++WP + FG L
Sbjct:   121 ENSTDSRCYGPVPYGLIRGRIFFKIWPFSDFGFL 154

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O74800	IMP1_SCHPO	3, ., 4, ., 2, 1, ., -	0.3868	0.8364	0.8471	yes	no
Q96LU5	IMP1L_HUMAN	3, ., 4, ., 2, 1, ., -	0.4172	0.8616	0.8253	yes	no
Q9CQU8	IMP1L_MOUSE	3, ., 4, ., 2, 1, ., -	0.3961	0.9496	0.9096	yes	no
P46972	IMP2_YEAST	3, ., 4, ., 2, 1, ., -	0.3187	0.8993	0.8079	yes	no
Q28I39	IMP1L_XENTR	3, ., 4, ., 2, 1, ., -	0.4316	0.8616	0.8203	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.21	0.691
3rd Layer	3.4.21.89	LOW CONFIDENCE prediction!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_Genewise1_v1.C_LG_I5063 hypothetical protein (162 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	159
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	5e-28
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	2e-22
cd06462	84	cd06462, Peptidase_S24_S26, The S24, S26 LexA/sign	8e-12
TIGR02754	90	TIGR02754, sod_Ni_protease, nickel-type superoxide	1e-11
COG0681	166	COG0681, LepB, Signal peptidase I [Intracellular t	5e-09
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	9e-07
pfam00717	69	pfam00717, Peptidase_S24, Peptidase S24-like	2e-05
pfam10502	138	pfam10502, Peptidase_S26, Signal peptidase, peptid	3e-05
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	0.001

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

 Score =  101 bits (254), Expect = 5e-28
 Identities = 47/147 (31%), Positives = 61/147 (41%), Gaps = 25/147 (17%)

Query: 31  YLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVG 90
           +++ P  V G SM PTL   GD IL    ++       GDIV  + P D   I  KR++G
Sbjct: 18  FVFFPYKVPGGSMEPTLK-EGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYIKRVIG 76

Query: 91  VEGDRV------------------------TYFKPRNGDSCHTVVVPKGHVWIQGDNLYA 126
           + GD+V                              N      V VP GH ++ GDN   
Sbjct: 77  LPGDKVEFRDGKLYINGKKIDEPYLKPNGFLDTSEFNTTDYGPVTVPPGHYFVLGDNRDN 136

Query: 127 SRDSRQFGPVPYGLIEGKAFFRVWPPN 153
           S DSR FG VP   I GK  F  +P +
Sbjct: 137 SLDSRYFGFVPIDDIIGKVSFVFYPFD 163

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 = 84.6 bits (210), Expect = 2e-22
 Identities = 37/112 (33%), Positives = 50/112 (44%), Gaps = 27/112 (24%)

Query: 34  SPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEG 93
            P +V G SM PTL   GD++L   +S+       GD+V  +SP DP K + KR++G   
Sbjct: 1   EPVVVPGGSMEPTLQ-PGDLVLVNKLSYGFREPKRGDVVVFKSPGDPGKPIIKRVIGY-- 57

Query: 94  DRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKA 145
                                   ++ GDN   S DSR +GPVP   I GK 
Sbjct: 58  ------------------------FVLGDNRNNSLDSRYWGPVPEDDIVGKV 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|119396 cd06462, Peptidase_S24_S26, The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families

 Score = 57.3 bits (139), Expect = 8e-12
 Identities = 34/108 (31%), Positives = 45/108 (41%), Gaps = 28/108 (25%)

Query: 38  VFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVT 97
           V G SM PT+   GD++L   V         GDIV  R P    ++  KR++G+ G    
Sbjct: 5   VEGDSMEPTIP-DGDLVL---VDKSSYEPKRGDIVVFRLPGG--ELTVKRVIGLPG---- 54

Query: 98  YFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKA 145
                           +GH ++ GDN   S DSR  GP P   I G  
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|233997 TIGR02754, sod_Ni_protease, nickel-type superoxide dismutase maturation protease

 Score = 57.5 bits (139), Expect = 1e-11
 Identities = 37/108 (34%), Positives = 49/108 (45%), Gaps = 22/108 (20%)

Query: 38  VFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVT 97
           V G SM PTL   GD I+             G++V VR P+ P  ++ KR+  V+     
Sbjct: 3   VTGVSMSPTLP-PGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGLIIKRLAAVD----- 56

Query: 98  YFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKA 145
                NG            +++ GDN  AS DSRQ GPVP  L+ GK 
Sbjct: 57  ----DNG------------LFLLGDNPKASTDSRQLGPVPRSLLLGKV 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|223753 COG0681, LepB, Signal peptidase I [Intracellular trafficking and secretion]

 Score = 51.9 bits (124), Expect = 5e-09
 Identities = 30/117 (25%), Positives = 53/117 (45%), Gaps = 6/117 (5%)

Query: 15  TLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFV 74
           +L  A    L      +++ P +V   SM PTLN  GD +L +  S+  G+L   DI+  
Sbjct: 13  SLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLN-VGDRVLVKKFSYGFGKLKVPDII-- 69

Query: 75  RSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSR 131
             P      + KR++G+ GD V +   ++       ++P+ +  ++ DN     D  
Sbjct: 70  VLPAVVEGDLIKRVIGLRGDIVVF---KDDRLYVVPIIPRVYGLVEKDNGKHLVDVI 123

Length = 166

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

 Score = 46.6 bits (111), Expect = 9e-07
 Identities = 28/69 (40%), Positives = 35/69 (50%), Gaps = 13/69 (18%)

Query: 42  SMLPTLNLTGDVILAEYVSH------------RVGRLGPGDIVFVRSPVDPNKIVTKRIV 89
           SM+PTL L GD IL E  ++              G    GDIV  + P DP     KR+V
Sbjct: 91  SMMPTL-LIGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPEDPKLDYIKRVV 149

Query: 90  GVEGDRVTY 98
           G+ GD+VTY
Sbjct: 150 GLPGDKVTY 158

Length = 324

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

 Score = 39.9 bits (94), Expect = 2e-05
 Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 7/59 (11%)

Query: 38 VFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRV 96
          V G SM PT+   GD++L +    +      GDIV  R   +   +  KR++G+ GD +
Sbjct: 2  VKGDSMEPTIP-DGDLLLVD----KTSEPKRGDIVVARLDGEEATV--KRLIGLPGDII 53

Length = 69

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

 Score = 41.1 bits (97), Expect = 3e-05
 Identities = 31/134 (23%), Positives = 47/134 (35%), Gaps = 36/134 (26%)

Query: 46  TLNLTGDVILAEYVSHRVGRLGPGDIVFVRSP------------VDPNKIVTKRIVGVEG 93
             N +  V +  Y    + R   GD+V V  P            +     + KR++ + G
Sbjct: 2   RWNASASVPVGLYRIEPLDRPEVGDLVAVCPPEPAAFFAAERGYLPRGVPLLKRVLALPG 61

Query: 94  DRVTYFK--------------PRNGDS--------CHTVVVPKGHVWIQGDNLYASRDSR 131
            RV                   R+           C   V+P+G +++       S DSR
Sbjct: 62  QRVCIRDGLVTIDGVPVSAALERDRKGRPLPPWQGCR--VLPEGELFLMSVTSPDSFDSR 119

Query: 132 QFGPVPYGLIEGKA 145
            FGPVP   I G+A
Sbjct: 120 YFGPVPASAIIGRA 133

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

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

 Score = 37.7 bits (88), Expect = 0.001
 Identities = 27/64 (42%), Positives = 35/64 (54%), Gaps = 2/64 (3%)

Query: 84  VTKRIVGVEG--DRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLI 141
           VT RI+ V G  D+V  +  + G    T VVP G  ++ GDN   S DSR +G VP   +
Sbjct: 234 VTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANL 293

Query: 142 EGKA 145
            GKA
Sbjct: 294 VGKA 297

Length = 324

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	159
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	100.0
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.94
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.94
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.94
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.91
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.9
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.86
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	99.83
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.68
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	99.67
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	99.33
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	99.3
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	99.29
COG2932	214	Predicted transcriptional regulator [Transcription	99.01
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	98.96
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	98.6
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	98.51
PRK12423	202	LexA repressor; Provisional	98.48
PRK00215	205	LexA repressor; Validated	98.48
COG1974	201	LexA SOS-response transcriptional repressors (RecA	97.89
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	86.46
PF05257	124	CHAP: CHAP domain; InterPro: IPR007921 The CHAP (c	84.34

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=100.00  E-value=8.2e-42  Score=248.05  Aligned_cols=138  Identities=34%  Similarity=0.511  Sum_probs=122.0

Q ss_pred             HHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448           15 TLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGD   94 (159)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd   94 (159)
                      +..++++++++++++.|+++.+.|.|+||+|||+ +||++++++..+...++++||+|+|+.|.+.++.++|||+|+|||
T Consensus         2 ~~~~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~-~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~~~~~~iKRVig~pGd   80 (163)
T TIGR02227         2 ILSLLIAILLALLIRTFVFFPYKIPGGSMEPTLK-EGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYVKRVIGLPGD   80 (163)
T ss_pred             HHHHHHHHHHHHHHHhhEEEEEEECCcccccchh-CCCEEEEEEeEcCCCCCCCCcEEEEecCCCCCceeEEEEEecCCC
Confidence            4566667778888999999999999999999999 999999999877668999999999999877788999999999999


Q ss_pred             EEEEeCCC----------C---C-----------CCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 031448           95 RVTYFKPR----------N---G-----------DSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVW  150 (159)
Q Consensus        95 ~v~i~~~~----------~---~-----------~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~  150 (159)
                      +|+++++.          .   .           ....+.+||+|+|||+|||+.+|.|||+||+|++++|+|||.+++|
T Consensus        81 ~v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~G~V~~~~I~Gk~~~~~~  160 (163)
T TIGR02227        81 KVEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYFGFVPIDDIIGKVSFVFY  160 (163)
T ss_pred             EEEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCcccCCcCcCCHHHeEEEEEEEEC
Confidence            99998631          0   0           1124578999999999999999999999999999999999999999


Q ss_pred             CCC
Q 031448          151 PPN  153 (159)
Q Consensus       151 p~~  153 (159)
                      |++
T Consensus       161 p~~  163 (163)
T TIGR02227       161 PFD  163 (163)
T ss_pred             CCC
Confidence            985

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=2.7e-38  Score=223.18  Aligned_cols=143  Identities=42%  Similarity=0.701  Sum_probs=124.0

Q ss_pred             HHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448           15 TLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGD   94 (159)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd   94 (159)
                      .......+++++....|+.++..++|.||+||++..||+++.+++++.++.+++||||++..|.++++.++|||+|+|||
T Consensus        15 ~~~~~~~~~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD   94 (176)
T KOG0171|consen   15 FCSEIAYAAFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPDPKEHICKRIVAMEGD   94 (176)
T ss_pred             hHHHHHHHHHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCCchhhhhheeeccCCc
Confidence            33445556667777789999999999999999985677777799999999999999999999999999999999999999


Q ss_pred             EEEEeCCCC------CCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCCcc
Q 031448           95 RVTYFKPRN------GDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGS  157 (159)
Q Consensus        95 ~v~i~~~~~------~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~~~  157 (159)
                      -+++.+...      ..+..+..||+||+||+|||+++|.|||+|||+|...|+||+.+++||.++.+.
T Consensus        95 ~v~v~~~~~~~n~~~e~~~~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~  163 (176)
T KOG0171|consen   95 LVEVHDGPLVVNDLVEKFSTPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSG  163 (176)
T ss_pred             eEEEecCCcccchhhhhccceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCchhcce
Confidence            888875332      223356899999999999999999999999999999999999999999988764

>PRK10861 signal peptidase I; Provisional

Probab=100.00  E-value=5.5e-37  Score=241.81  Aligned_cols=142  Identities=34%  Similarity=0.466  Sum_probs=123.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccC------------CCCCCCCeEEEEecCC
Q 031448           11 ALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHR------------VGRLGPGDIVFVRSPV   78 (159)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~------------~~~~~~GDiVvf~~p~   78 (159)
                      ++.++..++.+++++++++.|+++++.|+|+||+|||. .||+++++|+++.            ..+++|||||+|+.|.
T Consensus        60 ~~~~~~~~~~~l~i~~~ir~fv~~~~~Ips~SM~PTL~-~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~  138 (324)
T PRK10861         60 WLETGASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLL-IGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPE  138 (324)
T ss_pred             HHHHHHHHHHHHhHHHHHHhhEEEEEEECCCcCcCccc-CCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCC
Confidence            56677777788888899999999999999999999999 9999999998764            2579999999999998


Q ss_pred             CCCceEEEEEEEeCCCEEEEe--C------CCC-----------------------------------------------
Q 031448           79 DPNKIVTKRIVGVEGDRVTYF--K------PRN-----------------------------------------------  103 (159)
Q Consensus        79 ~~~~~~vkRVi~~pGd~v~i~--~------~~~-----------------------------------------------  103 (159)
                      +++..+||||+|+|||+|+++  +      +..                                               
T Consensus       139 ~~~~~yIKRVIGlPGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (324)
T PRK10861        139 DPKLDYIKRVVGLPGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLNETK  218 (324)
T ss_pred             CCCCcEEEEeeecCCcEEEEEeCCCEEEEcCccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            888899999999999999986  2      100                                               


Q ss_pred             ------C-----------------C--C------------cceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 031448          104 ------G-----------------D--S------------CHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAF  146 (159)
Q Consensus       104 ------~-----------------~--~------------~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~  146 (159)
                            .                 .  .            ..+++||+|+||++|||+++|.||||||+|++++|+|+|.
T Consensus       219 ~~~~~~~~~~E~l~~~~h~i~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~yf~mgdnr~~S~DSRy~G~Vp~~~i~G~a~  298 (324)
T PRK10861        219 ENGIRLSERKETLGDVTHRILTVPGAQDQVGMYYQQPGQPLATWVVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGKAT  298 (324)
T ss_pred             cccccceeEEEecCCccceeeecCCcccccccccccCCCcCceEEECCCeEEEeCCCCCCCcccCcccccCHHHcEEEEE
Confidence                  0                 0  0            1355899999999999999999999999999999999999


Q ss_pred             EEEeCCC
Q 031448          147 FRVWPPN  153 (159)
Q Consensus       147 ~~~~p~~  153 (159)
                      .++|+++
T Consensus       299 ~i~~s~d  305 (324)
T PRK10861        299 AIWMSFE  305 (324)
T ss_pred             EEEEEcC
Confidence            9999876

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

Probab=100.00  E-value=1e-33  Score=199.69  Aligned_cols=130  Identities=39%  Similarity=0.690  Sum_probs=114.2

Q ss_pred             HHHhhceEEeEEEeCCCCccccCC-----CCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeC
Q 031448           26 HVTNHYLWSPTLVFGPSMLPTLNL-----TGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFK  100 (159)
Q Consensus        26 ~~~~~~~~~~~~v~~~SM~Ptl~~-----~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~  100 (159)
                      ..+...+.....+.|.||.|+++|     ..|+|++.++.-...++.+||+|+|.+|++++++++|||+|+|||.+...+
T Consensus        24 ~t~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t~~  103 (174)
T KOG1568|consen   24 LTFSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVTED  103 (174)
T ss_pred             eeeeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCChhheeeeeeecccccEeccCC
Confidence            344455778899999999999996     239999999875445689999999999999999999999999999987733


Q ss_pred             CCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCCccCC
Q 031448          101 PRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFGSLG  159 (159)
Q Consensus       101 ~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~~~~~  159 (159)
                          .....+.+|+|||||.|||...|.|||.||||+...|+|+|++++||+.+++.++
T Consensus       104 ----~k~~~v~vpkghcWVegDn~~hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~  158 (174)
T KOG1568|consen  104 ----EKEEPVVVPKGHCWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLD  158 (174)
T ss_pred             ----CCCCceecCCCcEEEecCCcccccccCccCCcchhheeeeEEEEEcChHHhhhhc
Confidence                3357889999999999999999999999999999999999999999999988763

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.94  E-value=9.2e-26  Score=165.18  Aligned_cols=91  Identities=29%  Similarity=0.344  Sum_probs=70.5

Q ss_pred             EEecccCCCCCCCCeEEEEecCCCC-------------------CceEEEEEEEeCCCEEEEeC-----CCC--------
Q 031448           56 AEYVSHRVGRLGPGDIVFVRSPVDP-------------------NKIVTKRIVGVEGDRVTYFK-----PRN--------  103 (159)
Q Consensus        56 v~~~~~~~~~~~~GDiVvf~~p~~~-------------------~~~~vkRVi~~pGd~v~i~~-----~~~--------  103 (159)
                      +.++.....++++||+|+|+.|.+.                   ...++|||+|+|||+|++++     +..        
T Consensus        41 ~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~~v~iNg~~~~~~~~~~  120 (176)
T PRK13838         41 LWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGGSVSIDGRPLPSSSVRR  120 (176)
T ss_pred             EEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECCEEEECCEEcccccccc
Confidence            3343333478999999999987542                   13599999999999999874     110        


Q ss_pred             -------CCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEE
Q 031448          104 -------GDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFF  147 (159)
Q Consensus       104 -------~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~  147 (159)
                             .......++|+|+|||+|||. +|+||||||+|++++|+|+|.-
T Consensus       121 ~~~~g~~l~~~~~~~vp~g~~fvlgd~~-~S~DSRy~G~V~~~~I~G~a~p  170 (176)
T PRK13838        121 RDGEGRPLTPFPGGVVPPGHLFLHSSFA-GSYDSRYFGPVPASGLLGLARP  170 (176)
T ss_pred             ccccCCcCCCCCccCcCCCeEEEECCCC-CCCcccccCcccHHHeEEEEEE
Confidence                   001224689999999999985 8999999999999999999974

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.94  E-value=1.8e-25  Score=163.99  Aligned_cols=128  Identities=16%  Similarity=0.133  Sum_probs=86.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCC-------
Q 031448            8 AKEALTQTLTFARFFCLFHVTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDP-------   80 (159)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~-------   80 (159)
                      +|++..+++.+.++++++..+. +........++|+     |.|=+.+ ..     .++++||+|+|+.|+..       
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~N~T~S~-----P~glY~~-~~-----~~~~~Gd~V~f~~p~~~~~~~a~~   72 (178)
T PRK13884          5 LKRITAGVAVAGLAALLLAALG-YAAGARVNTTKSI-----PVGLYWT-SS-----APVEKGAYVLFCPPQRGVFDDAKE   72 (178)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HhCcEEEECCCCC-----cceEEEE-eC-----CCCCCCCEEEEeCCchHHHHHHHh
Confidence            4445544444444433333222 2222333344554     3455554 22     58999999999976521       


Q ss_pred             ------------CceEEEEEEEeCCCEEEEeCCC--------------C---------CCCcceEEecCCeEEEEcCCCC
Q 031448           81 ------------NKIVTKRIVGVEGDRVTYFKPR--------------N---------GDSCHTVVVPKGHVWIQGDNLY  125 (159)
Q Consensus        81 ------------~~~~vkRVi~~pGd~v~i~~~~--------------~---------~~~~~~~~vp~~~~~v~gdn~~  125 (159)
                                  ..+++|||+|+|||+|+++++.              .         ......+++|+|+||++|||++
T Consensus        73 rgyl~~g~~p~~~~~liKRVva~pGD~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~l~~~~~~~~~lp~g~~fvlgd~~~  152 (178)
T PRK13884         73 RGYIGAGFCPGGYGYMMKRVLAAKGDAVSVTDDGVRVNGELLPLSKPILADGAGRPLPRYQANSYTLGESELLLMSDVSA  152 (178)
T ss_pred             CCccccCcCCCCCCceEEEEEeeCCcEEEEECCEEEECCEEccccccccccccCCcccccCCCceEECCCEEEEECCCCC
Confidence                        1379999999999999998631              0         0011245899999999999999


Q ss_pred             CCCCCCccccccCCCeEEEEEE
Q 031448          126 ASRDSRQFGPVPYGLIEGKAFF  147 (159)
Q Consensus       126 ~s~DSR~~G~V~~~~I~G~v~~  147 (159)
                      +|+||||||+|++++|+|++.-
T Consensus       153 ~S~DSRYfG~V~~~~I~G~~~P  174 (178)
T PRK13884        153 TSFDGRYFGPINRSQIKTVIRP  174 (178)
T ss_pred             CCCcccccCcccHHHEEEEEEE
Confidence            9999999999999999999874

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.94  E-value=1.1e-25  Score=164.28  Aligned_cols=110  Identities=25%  Similarity=0.315  Sum_probs=82.5

Q ss_pred             HHhhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCC-------------------ceEEEE
Q 031448           27 VTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPN-------------------KIVTKR   87 (159)
Q Consensus        27 ~~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~-------------------~~~vkR   87 (159)
                      +...|........++||     |.|-+. ..+    ..+++|||+|+|+.|.+..                   ..++||
T Consensus        18 ~~~~~~~~~~~N~T~S~-----P~g~Y~-~~~----~~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKR   87 (171)
T TIGR02771        18 ILGLYCVGARINTTKSL-----PLGLYW-TTS----SKPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKR   87 (171)
T ss_pred             hhhcceeeEEEECCCCC-----cceEEE-eCC----CCCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEE
Confidence            34445544555666666     345555 322    2589999999999875332                   279999


Q ss_pred             EEEeCCCEEEEeCCC--------C-------------CCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 031448           88 IVGVEGDRVTYFKPR--------N-------------GDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAF  146 (159)
Q Consensus        88 Vi~~pGd~v~i~~~~--------~-------------~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~  146 (159)
                      |+|+|||+|+++++.        .             .....+.++|+| ||++|||+++|.||||||+|++++|+|||.
T Consensus        88 ViglpGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~~~~IiGk~~  166 (171)
T TIGR02771        88 VLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPISREQVIGRVK  166 (171)
T ss_pred             EEEeCCCEEEEECCEEEECCEEcccccccccccCCCccccCCCcEECCC-EEEECCCCCCCCcccccceecHHHeEEEEE
Confidence            999999999997621        0             011236889999 999999999999999999999999999997


Q ss_pred             E
Q 031448          147 F  147 (159)
Q Consensus       147 ~  147 (159)
                      -
T Consensus       167 p  167 (171)
T TIGR02771       167 P  167 (171)
T ss_pred             E
Confidence            4

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

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

Probab=99.91  E-value=4.1e-25  Score=156.20  Aligned_cols=85  Identities=34%  Similarity=0.468  Sum_probs=31.9

Q ss_pred             CCCCCCeEEEEecCCC------------CCceEEEEEEEeCCCEEEEeCCC--------------------CCCCcceEE
Q 031448           64 GRLGPGDIVFVRSPVD------------PNKIVTKRIVGVEGDRVTYFKPR--------------------NGDSCHTVV  111 (159)
Q Consensus        64 ~~~~~GDiVvf~~p~~------------~~~~~vkRVi~~pGd~v~i~~~~--------------------~~~~~~~~~  111 (159)
                      ..+++||+|+|+.|+.            .+..++|||+|+|||+|++++..                    ......+.+
T Consensus        20 ~~~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~~~~~d~~g~~l~~~~~~~~   99 (138)
T PF10502_consen   20 DKIERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGEPLATDSDGRPLPQFSGSGT   99 (138)
T ss_dssp             ---------------------------------------------------------------------S-T----TEEE
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCceE
Confidence            3589999999998852            24589999999999999998632                    111225899


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEE
Q 031448          112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFR  148 (159)
Q Consensus       112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~  148 (159)
                      ||+|+|||+|||+.+|+||||||+|++++|+|+|.-.
T Consensus       100 vp~g~~~v~gd~~~~S~DSRy~G~V~~~~I~g~~~pl  136 (138)
T PF10502_consen  100 VPEGEYFVLGDNRPNSFDSRYFGPVPRSQIIGKARPL  136 (138)
T ss_dssp             --TTEEEEE-SBTTS--SHHHH--EEGGGEEEEEEEE
T ss_pred             eCCCEEEEecCCCCCccccCEecccCHHHEEEEEEEE
Confidence            9999999999999999999999999999999999864

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

>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease

Probab=99.90  E-value=1.4e-23  Score=138.12  Aligned_cols=89  Identities=39%  Similarity=0.595  Sum_probs=77.9

Q ss_pred             EEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecCCe
Q 031448           37 LVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGH  116 (159)
Q Consensus        37 ~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~  116 (159)
                      .|.|+||+|+|+ +||++++++.......+++||+|+|+.|.++++.++||++++++                     ++
T Consensus         2 ~V~g~SM~P~l~-~GD~vlv~~~~~~~~~~~~Gdivv~~~~~~~~~~~vkRv~~~~~---------------------~~   59 (90)
T TIGR02754         2 KVTGVSMSPTLP-PGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGLIIKRLAAVDD---------------------NG   59 (90)
T ss_pred             EeeCCCccCccC-CCCEEEEEEccccCCCCCCCeEEEEecCCCCcceEEEEeeEEcC---------------------Ce
Confidence            689999999999 99999999854333456789999999887667899999999764                     48


Q ss_pred             EEEEcCCCCCCCCCCccccccCCCeEEEEEE
Q 031448          117 VWIQGDNLYASRDSRQFGPVPYGLIEGKAFF  147 (159)
Q Consensus       117 ~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~  147 (159)
                      +|++|||+.+|.|||++|+|+..+|+|+|+|
T Consensus        60 ~~l~~dN~~~~~d~~~~g~v~~~~I~G~v~~   90 (90)
T TIGR02754        60 LFLLGDNPKASTDSRQLGPVPRSLLLGKVLW   90 (90)
T ss_pred             EEEeCCCCCCCCcccccCCCcHHHEEEEEEC
Confidence            9999999999999999999999999999864

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=99.86  E-value=1.7e-21  Score=126.83  Aligned_cols=84  Identities=44%  Similarity=0.678  Sum_probs=75.0

Q ss_pred             eEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecC
Q 031448           35 PTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPK  114 (159)
Q Consensus        35 ~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~  114 (159)
                      .+.+.|+||+|++. .||++++++.......+++||+|+|+.+.+++..++|||++                        
T Consensus         2 ~~~v~g~SM~P~i~-~gd~v~v~~~~~~~~~~~~GDiv~~~~~~~~~~~~vkRv~~------------------------   56 (85)
T cd06530           2 PVVVPGGSMEPTLQ-PGDLVLVNKLSYGFREPKRGDVVVFKSPGDPGKPIIKRVIG------------------------   56 (85)
T ss_pred             eeEEcCCCCcCccc-CCCEEEEEEeecccCCCCCCCEEEEeCCCCCCCEEEEEEEE------------------------
Confidence            57899999999998 99999999865333479999999999876556899999987                        


Q ss_pred             CeEEEEcCCCCCCCCCCccccccCCCeEEEE
Q 031448          115 GHVWIQGDNLYASRDSRQFGPVPYGLIEGKA  145 (159)
Q Consensus       115 ~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v  145 (159)
                        ||+.|||+.+|.|||++|+++.++|+|++
T Consensus        57 --~~~~gDn~~ns~d~~~~g~~~~~~i~G~~   85 (85)
T cd06530          57 --YFVLGDNRNNSLDSRYWGPVPEDDIVGKV   85 (85)
T ss_pred             --EEEeeCCCCCCCccCCcCCCcHHHeEEeC
Confidence              99999999899999999999999999985

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

>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type

Probab=99.83  E-value=9.7e-20  Score=131.26  Aligned_cols=115  Identities=25%  Similarity=0.272  Sum_probs=86.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhceE---EeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCce
Q 031448            7 LAKEALTQTLTFARFFCLFHVTNHYLW---SPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKI   83 (159)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~   83 (159)
                      +.++++.+++.++++++++..+....+   ..+.|.|+||+||++ +||++++++...  .++++||+|+|+.|.++ ..
T Consensus         2 ~~~~ii~~~~~~~l~~~~~~~l~~~~~~~~p~v~V~g~SM~Ptl~-~GD~vlv~~~~~--~~~~~GDIVvf~~~~~~-~~   77 (158)
T TIGR02228         2 KISNVIYFILIILLVILLLYGLVSKASGPDPVVVVLSGSMEPTFN-TGDLILVTGADP--NDIQVGDVITYKSPGFN-TP   77 (158)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHheeeccCCCcEEEEcCCCCcCCcc-CCCEEEEEeccc--CCCCCCCEEEEEECCCC-cc
Confidence            456777777666666666555443333   233499999999998 999999998543  68999999999987643 78


Q ss_pred             EEEEEEEeCCCEEEEeCCCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 031448           84 VTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAF  146 (159)
Q Consensus        84 ~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~  146 (159)
                      ++|||+++.++.                 .+..|++.|||+ ...|   .++|+.++|+|++.
T Consensus        78 iihRVi~v~~~~-----------------g~~~~~tkGDnN-~~~D---~~~v~~~~IiG~v~  119 (158)
T TIGR02228        78 VTHRVIEINNSG-----------------GELGFITKGDNN-PAPD---GEPVPSENVIGKYL  119 (158)
T ss_pred             EEEEEEEEECCC-----------------CcEEEEEEecCC-CCCC---cccCCHHHEEEEEE
Confidence            999999987430                 012488889997 4556   58999999999998

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=99.68  E-value=5e-16  Score=112.32  Aligned_cols=129  Identities=25%  Similarity=0.326  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHHHHHHH--hhceEEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEE
Q 031448           11 ALTQTLTFARFFCLFHVT--NHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRI   88 (159)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRV   88 (159)
                      ...+...++.++++++++  +.++++.+.|.|+||+||++ .||++++++.++....+..+|++  ..|......++||+
T Consensus         7 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~-~GD~v~v~k~~~~~~~~~~~~~~--~~~~~~~~~~~kr~   83 (166)
T COG0681           7 FLELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLN-VGDRVLVKKFSYGFGKLKVPDII--VLPAVVEGDLIKRV   83 (166)
T ss_pred             HHHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccc-cCCEEEEEeccccccCCccceee--ecCCCCCcceEEEe
Confidence            445666666666666666  89999999999999999999 99999999999887889999998  44455678899999


Q ss_pred             EEeCCCEEEEeCCCCCCCcceEEecCCeEEEEc-------CCCCCCCCCCccccccCCCeEEEE
Q 031448           89 VGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQG-------DNLYASRDSRQFGPVPYGLIEGKA  145 (159)
Q Consensus        89 i~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~g-------dn~~~s~DSR~~G~V~~~~I~G~v  145 (159)
                      ++++||.+.++++....   ...+|++..++.+       +....+.+++.++.......+.++
T Consensus        84 ~~~~GD~i~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (166)
T COG0681          84 IGLRGDIVVFKDDRLYV---VPIIPRVYGLVEKDNGKHLVDVIVNANSSRVFGIITKKDYIKRV  144 (166)
T ss_pred             ccCCCCEEEEECCEEEe---ecccCcchhhhhcccccccccccccccCccccccccccccccce
Confidence            99999999998744211   2334555555444       444466677777777777777766

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

Probab=99.67  E-value=3.3e-16  Score=110.01  Aligned_cols=109  Identities=26%  Similarity=0.324  Sum_probs=79.4

Q ss_pred             EeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCC------------CCceEEEEEEEeCCCEEEEeCC
Q 031448           34 SPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVD------------PNKIVTKRIVGVEGDRVTYFKP  101 (159)
Q Consensus        34 ~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~------------~~~~~vkRVi~~pGd~v~i~~~  101 (159)
                      ..++++.+...|    -| +..+.|..   ..+.+||+|+++.|..            ...+++|||.|+|||+|++.++
T Consensus        30 p~l~~N~S~S~p----lG-lyrv~k~~---~Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~  101 (173)
T COG4959          30 PGLRVNASASAP----LG-LYRVSKLS---APVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQ  101 (173)
T ss_pred             cceEeccCCCcc----ee-EEEecccC---CCcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecc
Confidence            345555444444    23 33445533   4569999999998852            3467999999999999999863


Q ss_pred             C--------------------CCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeC
Q 031448          102 R--------------------NGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWP  151 (159)
Q Consensus       102 ~--------------------~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p  151 (159)
                      .                    ......+-.+-++|+|+++|..+.|+||||||||+.++|+|.+.- +|-
T Consensus       102 ~I~I~G~~v~~sl~~D~~GR~lp~~~gcR~l~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRP-vwt  170 (173)
T COG4959         102 GIAIDGKPVAASLPVDRVGRALPRWQGCRYLAPSELLLLTDRSSTSFDSRYFGPIPASQVIGVARP-VWT  170 (173)
T ss_pred             eEEECCEEeeeeccccccCCcCCcccCCceecCCeEEEEeccCCcccccceecccCHHHcceeeee-eec
Confidence            2                    111223444889999999999999999999999999999999875 443

>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification

Probab=99.33  E-value=1.2e-11  Score=77.18  Aligned_cols=57  Identities=35%  Similarity=0.494  Sum_probs=45.3

Q ss_pred             EEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEe
Q 031448           37 LVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYF   99 (159)
Q Consensus        37 ~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~   99 (159)
                      +|.|+||+|++. +||++++++.    .+++.||+|++..+.+. ..++||+.+.+|+.+.+.
T Consensus         1 ~V~GdSM~P~i~-~Gd~v~v~~~----~~~~~gdivv~~~~~~~-~~~iKrv~~~~~~~~~~~   57 (70)
T PF00717_consen    1 RVEGDSMEPTIK-DGDIVLVDPS----SEPKDGDIVVVKIDGDE-ELYIKRVVGEPGGIILIS   57 (70)
T ss_dssp             EEESSTTGGTSS-TTEEEEEEET----S---TTSEEEEEETTEE-SEEEEEEEEETTEEEEE-
T ss_pred             CeECcCcccCee-CCCEEEEEEc----CCCccCeEEEEEECCce-eeEEEEEEEeCCCEEEEe
Confidence            588999999998 9999999984    48999999999985421 389999999999877664

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

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

Probab=99.30  E-value=3.9e-11  Score=76.99  Aligned_cols=83  Identities=41%  Similarity=0.584  Sum_probs=63.8

Q ss_pred             eEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecC
Q 031448           35 PTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPK  114 (159)
Q Consensus        35 ~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~  114 (159)
                      .+.+.|+||+|++. .||++++++..   ..++.||++++..+.  +..++||+...++                    +
T Consensus         2 ~~~v~g~SM~P~i~-~gd~v~i~~~~---~~~~~G~iv~~~~~~--~~~~ikrl~~~~~--------------------~   55 (84)
T cd06462           2 ALRVEGDSMEPTIP-DGDLVLVDKSS---YEPKRGDIVVFRLPG--GELTVKRVIGLPG--------------------E   55 (84)
T ss_pred             eeEEcCCCccCccc-CCCEEEEEecC---CCCcCCEEEEEEcCC--CcEEEEEEEEECC--------------------C
Confidence            46899999999998 99999999843   248999999999843  5899999998764                    2


Q ss_pred             CeEEEEcCCCCCCCCCCccccccCCCeEEEE
Q 031448          115 GHVWIQGDNLYASRDSRQFGPVPYGLIEGKA  145 (159)
Q Consensus       115 ~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v  145 (159)
                      +++++.+||+ ++.+.+..+. ....++|++
T Consensus        56 ~~~~l~~~N~-~~~~~~~~~~-~~~~i~g~v   84 (84)
T cd06462          56 GHYFLLGDNP-NSPDSRIDGP-PELDIVGVV   84 (84)
T ss_pred             CEEEEECCCC-CCCcccccCC-CHHHEEEeC
Confidence            4899999994 5555544332 556677653

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

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

Probab=99.29  E-value=3.2e-11  Score=84.79  Aligned_cols=118  Identities=20%  Similarity=0.218  Sum_probs=79.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhce-------EEeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCC
Q 031448            8 AKEALTQTLTFARFFCLFHVTNHYL-------WSPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDP   80 (159)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~   80 (159)
                      .|+.+.-++-+++++..++.+..-.       ...+.|-++||+|.++ .||.++.....  ....+.||+|+|+.+ +.
T Consensus        16 ~Rq~l~Q~ln~~mivssA~MiwK~l~vvt~seSPiVVVLSgSMePaF~-RGDlLfL~N~~--~~p~~vGdivVf~ve-gR   91 (180)
T KOG3342|consen   16 IRQLLYQVLNFAMIVSSAYMIWKGLMVVTGSESPIVVVLSGSMEPAFH-RGDLLFLTNRN--EDPIRVGDIVVFKVE-GR   91 (180)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhheeeeCCCCCEEEEEcCCcCcccc-cccEEEEecCC--CCcceeccEEEEEEC-Cc
Confidence            3444444444444444444333322       3678999999999999 99999986533  256899999999985 35


Q ss_pred             CceEEEEEEEeCCCEEEEeCCCCCCCcceEEecCCeEEEEcCCCCCCCCCCc-c----ccccCCCeEEEEEE
Q 031448           81 NKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQ-F----GPVPYGLIEGKAFF  147 (159)
Q Consensus        81 ~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~-~----G~V~~~~I~G~v~~  147 (159)
                      .-+.+|||+.+-+-                .-.+-++.+.|||+  ..|.|. |    -..++++|+|+|.-
T Consensus        92 ~IPiVHRviK~he~----------------~~~~~~~LTKGDNN--~~dD~~Ly~~gq~~L~r~~Ivg~~~G  145 (180)
T KOG3342|consen   92 EIPIVHRVIKQHEK----------------SNGHIKFLTKGDNN--AVDDRGLYAQGQNWLERKDIVGRVRG  145 (180)
T ss_pred             cCchhHHHHHHhcc----------------cCCcEEEEecCCCC--cccchhcccccccceeccceeeEEee
Confidence            67899999986431                00112578889994  445553 2    24888999999864

>COG2932 Predicted transcriptional regulator [Transcription]

Probab=99.01  E-value=5.3e-09  Score=79.01  Aligned_cols=89  Identities=25%  Similarity=0.243  Sum_probs=63.6

Q ss_pred             EeEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEec
Q 031448           34 SPTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVP  113 (159)
Q Consensus        34 ~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp  113 (159)
                      ....|.|+||+|+++ +||.++|++-    .+..+||.+++..  .+++.++||+...+|                    
T Consensus       124 ~~i~V~GDSMeP~~~-~Gd~ilVd~~----~~~~~gd~v~v~~--~g~~~~VK~l~~~~~--------------------  176 (214)
T COG2932         124 FALRVTGDSMEPTYE-DGDTLLVDPG----VNTRRGDRVYVET--DGGELYVKKLQREPG--------------------  176 (214)
T ss_pred             EEEEEeCCccccccc-CCCEEEECCC----CceeeCCEEEEEE--eCCeEEEEEEEEecC--------------------
Confidence            457999999999999 9999999873    4778888666655  246899999998776                    


Q ss_pred             CCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeC
Q 031448          114 KGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWP  151 (159)
Q Consensus       114 ~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p  151 (159)
                       +.+.+.++|+....|-- +-.-..=.|+|+|++..-+
T Consensus       177 -~~~~l~S~N~~~~~~~~-~~~~~~v~iIgrVv~~~~~  212 (214)
T COG2932         177 -GLLRLVSLNPDYYPDEI-FSEDDDVEIIGRVVWVSRL  212 (214)
T ss_pred             -CeEEEEeCCCCCCcccc-cCccceEEEEEEEEEEeee
Confidence             45668888874433322 1111113589999986644

>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=98.96  E-value=1.2e-08  Score=65.04  Aligned_cols=52  Identities=33%  Similarity=0.454  Sum_probs=44.4

Q ss_pred             eEEEeCCCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCC
Q 031448           35 PTLVFGPSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGD   94 (159)
Q Consensus        35 ~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd   94 (159)
                      ...+.|+||+|+++ +||++++++.    ..++.||++++..+   +..++||+...+++
T Consensus         2 ~~~v~g~sM~p~i~-~gd~lii~~~----~~~~~g~i~~~~~~---~~~~ikr~~~~~~~   53 (81)
T cd06529           2 ALRVKGDSMEPTIP-DGDLVLVDPS----DTPRDGDIVVARLD---GELTVKRLQRRGGG   53 (81)
T ss_pred             EEEEECCCcCCccC-CCCEEEEcCC----CCCCCCCEEEEEEC---CEEEEEEEEECCCC
Confidence            36899999999998 9999999874    35999999999974   37899999987753

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

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=98.60  E-value=1.5e-06  Score=61.37  Aligned_cols=85  Identities=16%  Similarity=0.070  Sum_probs=59.0

Q ss_pred             EEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448           33 WSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV  111 (159)
Q Consensus        33 ~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~  111 (159)
                      ....+|.|+||. |++. +||++++++-    .+++.||+|++..   .++..+||+...                    
T Consensus        51 ~f~l~V~GdSM~~~~I~-~GD~liVd~~----~~~~~Gdivv~~~---~g~~~vKrl~~~--------------------  102 (139)
T PRK10276         51 TYFVKASGDSMIDAGIS-DGDLLIVDSA----ITASHGDIVIAAV---DGEFTVKKLQLR--------------------  102 (139)
T ss_pred             EEEEEEecCCCCCCCCC-CCCEEEEECC----CCCCCCCEEEEEE---CCEEEEEEEEEC--------------------
Confidence            345899999998 6898 9999999863    3678999999976   346789998742                    


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 031448          112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVW  150 (159)
Q Consensus       112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~  150 (159)
                         +++++..+|+..  .....-.-+.=.|+|+|.+.+-
T Consensus       103 ---~~~~L~s~N~~y--~~i~i~~~~~~~IiG~V~~~~~  136 (139)
T PRK10276        103 ---PTVQLIPMNSAY--SPITISSEDTLDVFGVVTHIVK  136 (139)
T ss_pred             ---CcEEEEcCCCCC--CCEEcCCCCcEEEEEEEEEEEE
Confidence               146777887632  1111111112379999988664

>TIGR00498 lexA SOS regulatory protein LexA

Probab=98.51  E-value=3.2e-06  Score=63.01  Aligned_cols=88  Identities=18%  Similarity=0.109  Sum_probs=64.0

Q ss_pred             eEEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceE
Q 031448           32 LWSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTV  110 (159)
Q Consensus        32 ~~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~  110 (159)
                      -...+.+.|+||. |.+. +||++++++.    ..++.||+|++..   .++..+||+.-..                  
T Consensus       110 ~~f~~~V~GdSM~~~~i~-~Gd~v~v~~~----~~~~~G~ivvv~~---~~~~~vKrl~~~~------------------  163 (199)
T TIGR00498       110 AVFLLKVMGDSMVDAGIC-DGDLLIVRSQ----KDARNGEIVAAMI---DGEVTVKRFYKDG------------------  163 (199)
T ss_pred             CEEEEEecCCCCCCCCCC-CCCEEEEecC----CCCCCCCEEEEEE---CCEEEEEEEEEEC------------------
Confidence            3457899999996 5797 9999999863    4789999999997   4578999987542                  


Q ss_pred             EecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 031448          111 VVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPP  152 (159)
Q Consensus       111 ~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~  152 (159)
                          +.+++..+|+... + .... -..-.|+|+|+..+..+
T Consensus       164 ----~~i~L~s~N~~y~-~-i~~~-~~~~~IiG~Vv~~~r~~  198 (199)
T TIGR00498       164 ----TKVELKPENPEFD-P-IVLN-AEDVTILGKVVGVIRNF  198 (199)
T ss_pred             ----CEEEEEcCCCCCc-C-CcCC-CCcEEEEEEEEEEEEec
Confidence                3677888887432 1 1110 11358999999877654

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

>PRK12423 LexA repressor; Provisional

Probab=98.48  E-value=3.1e-06  Score=63.42  Aligned_cols=84  Identities=20%  Similarity=0.142  Sum_probs=60.7

Q ss_pred             EeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEe
Q 031448           34 SPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVV  112 (159)
Q Consensus        34 ~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~v  112 (159)
                      ....|.|+||. |++. +||++++++-    .+++.||+|++..   .++..+||+.-..                    
T Consensus       115 f~l~V~GdSM~~~~i~-~Gd~viv~~~----~~~~~Gdivv~~~---~~~~~vKrl~~~~--------------------  166 (202)
T PRK12423        115 YLLQVQGDSMIDDGIL-DGDLVGVHRS----PEARDGQIVVARL---DGEVTIKRLERSG--------------------  166 (202)
T ss_pred             EEEEEecCcCCCCCcC-CCCEEEEeCC----CcCCCCCEEEEEE---CCEEEEEEEEEeC--------------------
Confidence            35799999997 7998 9999999862    4788999999986   3478899987543                    


Q ss_pred             cCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEE
Q 031448          113 PKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRV  149 (159)
Q Consensus       113 p~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~  149 (159)
                        +.+++..+|+..  +...+-+-..-.|+|++...+
T Consensus       167 --~~~~L~s~N~~y--~~i~~~~~~~~~I~Gvv~g~~  199 (202)
T PRK12423        167 --DRIRLLPRNPAY--APIVVAPDQDFAIEGVFCGLI  199 (202)
T ss_pred             --CEEEEEcCCCCC--CCEEcCCCCcEEEEEEEEEEE
Confidence              367788888632  222221222348999998654

>PRK00215 LexA repressor; Validated

Probab=98.48  E-value=3.8e-06  Score=62.91  Aligned_cols=85  Identities=22%  Similarity=0.223  Sum_probs=61.5

Q ss_pred             EEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448           33 WSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV  111 (159)
Q Consensus        33 ~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~  111 (159)
                      .....|.|+||. |++. +||++++++-    ..++.||+|++...   ++..+||+.-..                   
T Consensus       118 ~~~~~V~GdSM~~~~i~-~Gd~v~v~~~----~~~~~G~ivv~~~~---~~~~vKrl~~~~-------------------  170 (205)
T PRK00215        118 DFLLRVRGDSMIDAGIL-DGDLVIVRKQ----QTARNGQIVVALID---DEATVKRFRREG-------------------  170 (205)
T ss_pred             eEEEEEccCCCCCCCcC-CCCEEEEeCC----CCCCCCCEEEEEEC---CEEEEEEEEEeC-------------------
Confidence            456889999995 7898 9999999862    36789999999873   378999997642                   


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 031448          112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVW  150 (159)
Q Consensus       112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~  150 (159)
                         +.+++..+|+..  +.....+ ..-.|+|+|...+-
T Consensus       171 ---~~~~L~s~Np~y--~~~~~~~-~~~~IiG~Vv~~~r  203 (205)
T PRK00215        171 ---GHIRLEPENPAY--EPIIVDP-DRVTIEGKVVGLIR  203 (205)
T ss_pred             ---CEEEEEcCCCCC--CCEEeCC-CcEEEEEEEEEEEE
Confidence               367788888642  2221111 13589999987654

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

Probab=97.89  E-value=0.00039  Score=52.09  Aligned_cols=88  Identities=18%  Similarity=0.116  Sum_probs=64.5

Q ss_pred             EEeEEEeCCCCc-cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448           33 WSPTLVFGPSML-PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV  111 (159)
Q Consensus        33 ~~~~~v~~~SM~-Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~  111 (159)
                      ....+|.|+||. +.+. +||+++|++-    .....||+|+...++  ++.-+||..--.                   
T Consensus       112 ~f~L~V~GdSM~~~gi~-dGDlvvV~~~----~~a~~GdiVvA~i~g--~e~TvKrl~~~g-------------------  165 (201)
T COG1974         112 TFFLRVSGDSMIDAGIL-DGDLVVVDPT----EDAENGDIVVALIDG--EEATVKRLYRDG-------------------  165 (201)
T ss_pred             eEEEEecCCccccCcCC-CCCEEEEcCC----CCCCCCCEEEEEcCC--CcEEEEEEEEeC-------------------
Confidence            346799999995 6776 8999999873    589999999998743  668899987633                   


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 031448          112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPP  152 (159)
Q Consensus       112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~  152 (159)
                         +.+++.--|+..+  +..+..= .-.|+|++...+|+.
T Consensus       166 ---~~i~L~p~Np~~~--~i~~~~~-~~~I~G~vvgv~r~~  200 (201)
T COG1974         166 ---NQILLKPENPAYP--PIPVDAD-SVTILGKVVGVIRDI  200 (201)
T ss_pred             ---CEEEEEeCCCCCC--CcccCcc-ceEEEEEEEEEEecC
Confidence               3677888876332  2221111 457999999988874

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

Probab=86.46  E-value=0.99  Score=31.98  Aligned_cols=13  Identities=31%  Similarity=0.174  Sum_probs=11.1

Q ss_pred             CCCCCCeEEEEec
Q 031448           64 GRLGPGDIVFVRS   76 (159)
Q Consensus        64 ~~~~~GDiVvf~~   76 (159)
                      ....+||+|+|+.
T Consensus        83 ~~~~~GD~i~~~~   95 (166)
T COG0681          83 VIGLRGDIVVFKD   95 (166)
T ss_pred             eccCCCCEEEEEC
Confidence            3678999999997

>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=84.34  E-value=3.6  Score=27.90  Aligned_cols=38  Identities=24%  Similarity=0.249  Sum_probs=24.9

Q ss_pred             CCCCCCeEEEEecCCCCCceEEEEEEEe-CCCEEEEeCC
Q 031448           64 GRLGPGDIVFVRSPVDPNKIVTKRIVGV-EGDRVTYFKP  101 (159)
Q Consensus        64 ~~~~~GDiVvf~~p~~~~~~~vkRVi~~-pGd~v~i~~~  101 (159)
                      ..|+.|||++|........-.+--|.++ .+++|++.+.
T Consensus        61 ~~P~~Gdivv~~~~~~~~~GHVaIV~~v~~~~~i~v~e~   99 (124)
T PF05257_consen   61 STPQPGDIVVWDSGSGGGYGHVAIVESVNDGGTITVIEQ   99 (124)
T ss_dssp             S---TTEEEEEEECTTTTT-EEEEEEEE-TTSEEEEEEC
T ss_pred             cccccceEEEeccCCCCCCCeEEEEEEECCCCEEEEEEC
Confidence            6899999999953333334478888888 8888887643

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 ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	159
1t7d_A	250	Crystal Structure Of Escherichia Coli Type I Signal		3e-05
1b12_A	248	Crystal Structure Of Type 1 Signal Peptidase From E		5e-05
1kn9_A	249	Crystal Structure Of A Bacterial Signal Peptidase A		5e-05

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 29/84 (34%), Positives = 40/84 (47%), Gaps = 13/84 (15%)
Query: 27 VTNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSH------------RVGRLGPGDIVFV 74
          +   +++ P  +   SM+PTL L GD IL E  ++              G    GDIV  
Sbjct: 2  IVRSFIYEPFQIPSGSMMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVF 60
Query: 75 RSPVDPNKIVTKRIVGVEGDRVTY 98
          + P DP     KR VG+ GD+VTY
Sbjct: 61 KYPEDPKLDYIKRAVGLPGDKVTY 84

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 39/80 (48%), Gaps = 13/80 (16%)
Query: 31 YLWSPTLVFGPSMLPTLNLTGDVILAEYVSH------------RVGRLGPGDIVFVRSPV 78
          +++ P  +   SM+PTL L GD IL E  ++              G    GDIV  + P 
Sbjct: 4  FIYEPFQIPSGSMMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPE 62
Query: 79 DPNKIVTKRIVGVEGDRVTY 98
          DP     KR VG+ GD+VTY
Sbjct: 63 DPKLDYIKRAVGLPGDKVTY 82

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 39/80 (48%), Gaps = 13/80 (16%)
Query: 31 YLWSPTLVFGPSMLPTLNLTGDVILAEYVSH------------RVGRLGPGDIVFVRSPV 78
          +++ P  +   SM+PTL L GD IL E  ++              G    GDIV  + P 
Sbjct: 5  FIYEPFQIPSGSMMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPE 63
Query: 79 DPNKIVTKRIVGVEGDRVTY 98
          DP     KR VG+ GD+VTY
Sbjct: 64 DPKLDYIKRAVGLPGDKVTY 83

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	159
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	8e-10
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	4e-06

>1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase, signal peptid processing, protein translocation; HET: 1PN; 1.95A {Escherichia coli} SCOP: b.87.1.2 PDB: 3s04_A* 1t7d_A* 3iiq_A* 1kn9_A* Length = 248

 Score = 54.5 bits (131), Expect = 8e-10
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 1/71 (1%)

Query: 80  PNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYG 139
            +       V +  D+V  +  + G    T +VP G  ++ GDN   S DSR +G VP  
Sbjct: 156 GDVTHRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEA 215

Query: 140 LIEGKAFFRVW 150
            + G+A   +W
Sbjct: 216 NLVGRATA-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 = 44.1 bits (104), Expect = 4e-06
 Identities = 30/81 (37%), Positives = 38/81 (46%), Gaps = 19/81 (23%)

Query: 36 TLVFGP------SMLPTLNLTGDVILAE----------YVSHRVGRLGP--GDIVFVRSP 77
          + ++ P      SM+PTL L GD IL E          Y    +    P  GDIV  + P
Sbjct: 3  SFIYEPFQIPSGSMMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 61

Query: 78 VDPNKIVTKRIVGVEGDRVTY 98
           DP     KR VG+ GD+VTY
Sbjct: 62 EDPKLDYIKRAVGLPGDKVTY 82

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	159
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	100.0
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	99.43
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	99.23
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	99.05
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	99.01
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	98.98
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	98.72
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	97.3

>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=8.4e-38  Score=239.72  Aligned_cols=127  Identities=35%  Similarity=0.472  Sum_probs=108.3

Q ss_pred             HhhceEEeEEEeCCCCccccCCCCcEEEEEecccC------------CCCCCCCeEEEEecCCCCCceEEEEEEEeCCCE
Q 031448           28 TNHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHR------------VGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDR   95 (159)
Q Consensus        28 ~~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~------------~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~   95 (159)
                      ++.|+++.+.|.|+||+|||+ .||++++++..+.            ..++++||||+|+.|.+++..++|||+|+|||+
T Consensus         1 ir~fv~~~~~v~g~SM~Ptl~-~GD~vlv~k~~yg~r~P~~~~~l~~~~~~~rGDIvvf~~p~~~~~~~iKRViglpGD~   79 (248)
T 1b12_A            1 VRSFIYEPFQIPSGSMMPTLL-IGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDK   79 (248)
T ss_dssp             -CBCCEEEEECCSCTTTTTSC-TTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCE
T ss_pred             CeEEEEEEEEecccccccccc-CCCEEEEEecccCcccccccccccccCCCCCCcEEEEEeCCCCCceEEEEEEeeCCCE
Confidence            467899999999999999999 9999999997642            258999999999998777889999999999999


Q ss_pred             EEEeCC-------------------CCC--------C-------------------------------------------
Q 031448           96 VTYFKP-------------------RNG--------D-------------------------------------------  105 (159)
Q Consensus        96 v~i~~~-------------------~~~--------~-------------------------------------------  105 (159)
                      |++++.                   ...        .                                           
T Consensus        80 v~i~~~~~~l~ING~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~~~~~~~~~~~~~e~l~~~~  159 (248)
T 1b12_A           80 VTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVT  159 (248)
T ss_dssp             EEEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEE
T ss_pred             EEEEcCceEEEECCccccccccccceeeeeeccccccccccccccccccccccccccccccccccchhhhhHHhhhcCcc
Confidence            998754                   100        0                                           


Q ss_pred             ----------------------CcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCC
Q 031448          106 ----------------------SCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSF  155 (159)
Q Consensus       106 ----------------------~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~  155 (159)
                                            ...+++||+|+|||+|||+.+|.|||+||+||+++|+|||.+++||+++.
T Consensus       160 ~~~~~~p~~~~~~~~~~~~~~~~~~~~~VP~g~yFvmGDNR~nS~DSR~~G~Vp~~~IvGka~~i~~s~~~~  231 (248)
T 1b12_A          160 HRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFDKQ  231 (248)
T ss_dssp             EEEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC--
T ss_pred             ceeEecCCccccccchhcccccccccEEeCCCcEEEecCCCcccCCCCcccccCHHHeEEEEEEEEEeCCcc
Confidence                                  01256899999999999999999999999999999999999999887743

>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=99.43  E-value=2e-12  Score=86.88  Aligned_cols=90  Identities=26%  Similarity=0.339  Sum_probs=70.9

Q ss_pred             EeEEEeCCCCc------cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCc
Q 031448           34 SPTLVFGPSML------PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSC  107 (159)
Q Consensus        34 ~~~~v~~~SM~------Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~  107 (159)
                      ....|.|+||+      |++. +||++++++.    .+++.||+|++..+.  ++..+||+...+               
T Consensus        14 f~~~V~GdSM~~~~g~~p~i~-~Gd~v~Vd~~----~~~~~Gdivv~~~~~--~~~~vKrl~~~~---------------   71 (109)
T 1kca_A           14 FWLEVEGNSMTAPTGSKPSFP-DGMLILVDPE----QAVEPGDFCIARLGG--DEFTFKKLIRDS---------------   71 (109)
T ss_dssp             EEEECCSSTTCCCTTCSSCCC-TTCEEEEETT----SCCCTTCEEEEECST--TCEEEEEEEEET---------------
T ss_pred             EEEEEeCcCcCCCCCCCCeeC-CCCEEEEecC----CcCCCCCEEEEEECC--CeEEEEEEEEeC---------------
Confidence            36789999999      9998 9999999873    369999999998743  478999998754               


Q ss_pred             ceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCCc
Q 031448          108 HTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFG  156 (159)
Q Consensus       108 ~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~~  156 (159)
                             |.+++.+||+... + ...  -..-.|+|+|.+.+||...||
T Consensus        72 -------~~~~L~s~N~~y~-~-~~~--~~~~~IiG~Vv~~~~~~~~~~  109 (109)
T 1kca_A           72 -------GQVFLQPLNPQYP-M-IPC--NESCSVVGKVIASQWPEETFG  109 (109)
T ss_dssp             -------TEEEEECSSTTSC-C-EEC--CTTCEEEEEEEEEECCGGGGC
T ss_pred             -------CEEEEEECCCCCC-C-EEc--CCCcEEEEEEEEEEeCHHHcC
Confidence                   3788999997322 1 211  145789999999999987765

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

Probab=99.23  E-value=8e-11  Score=79.65  Aligned_cols=88  Identities=17%  Similarity=0.092  Sum_probs=63.4

Q ss_pred             EEeEEEeCCCCcc-ccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448           33 WSPTLVFGPSMLP-TLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV  111 (159)
Q Consensus        33 ~~~~~v~~~SM~P-tl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~  111 (159)
                      .....|.|+||+| +++ +||++++++.    .+++.||+|++..+   ++..+||+...+                   
T Consensus        27 ~~~~~v~GdSM~p~~i~-~Gd~v~vd~~----~~~~~gdivv~~~~---~~~~vKr~~~~~-------------------   79 (116)
T 1umu_A           27 TYFVKASGDSMIDGGIS-DGDLLIVDSA----ITASHGDIVIAAVD---GEFTVKKLQLRP-------------------   79 (116)
T ss_dssp             EEEEECCSSTTGGGTCC-TTCEEEEETT----SCCCTTCEEEEEET---TEEEEEEEECSS-------------------
T ss_pred             EEEEEECCCCcCCCCCC-CCCEEEEEcC----CCCCCCCEEEEEEC---CEEEEEEEEeCC-------------------
Confidence            4568899999999 898 9999999873    36899999999873   478999998632                   


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCC
Q 031448          112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPN  153 (159)
Q Consensus       112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~  153 (159)
                          .+++.+||+...  ......-..-.|+|+|.+.+..+.
T Consensus        80 ----~~~L~s~N~~y~--~~~i~~~~~~~IiG~Vv~~~r~~r  115 (116)
T 1umu_A           80 ----TVQLIPMNSAYS--PITISSEDTLDVFGVVIHVVKAAT  115 (116)
T ss_dssp             ----SCEEECSSTTSC--CEECCTTSCEEEEEEEEEEEC---
T ss_pred             ----cEEEECCCCCCC--CEEcCCCCeEEEEEEEEEEEEecC
Confidence                577888986322  111111123479999999877654

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

Probab=99.05  E-value=2.1e-09  Score=74.33  Aligned_cols=82  Identities=21%  Similarity=0.193  Sum_probs=62.5

Q ss_pred             EeEEEeCCCCc------cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCc
Q 031448           34 SPTLVFGPSML------PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSC  107 (159)
Q Consensus        34 ~~~~v~~~SM~------Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~  107 (159)
                      ....|.|+||+      |++. +||++++++.    .+++.||+|++..+.  ++..+||+...+               
T Consensus        45 f~~~V~GdSM~~~~g~~p~i~-~Gd~v~vd~~----~~~~~Gdivv~~~~~--~~~~vKrl~~~~---------------  102 (133)
T 2hnf_A           45 FWLEVEGNSMTTPTGSKTSFP-DGMLILVDPE----QAVEPGDFCIARLGG--DEFTFAKLIRDS---------------  102 (133)
T ss_dssp             EEEECCSSTTCCC---CCCCC-TTCEEEEETT----SCCCTTSEEEEEETT--TEEEEEEEEEET---------------
T ss_pred             EEEEEeCCCcCCCcCCCCccC-CCCEEEEccC----CCCCCCCEEEEEECC--CEEEEEEEEEeC---------------
Confidence            46789999999      9998 9999999873    478999999998742  578999998643               


Q ss_pred             ceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEE
Q 031448          108 HTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFR  148 (159)
Q Consensus       108 ~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~  148 (159)
                             |.+++.+||+... + ....  ..-.|+|+|++.
T Consensus       103 -------~~~~L~s~N~~y~-~-~~~~--~~~~IiG~Vv~~  132 (133)
T 2hnf_A          103 -------GQVFLQPLNPQYP-M-IPCN--ESCSVVGKVIAS  132 (133)
T ss_dssp             -------TEEEEECSSTTSC-C-EECS--TTEEEEEEEEEE
T ss_pred             -------CeEEEEECCCCCC-C-EEcC--CCCEEEEEEEEE
Confidence                   3688889987322 2 1111  455799999873

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

Probab=99.01  E-value=3.7e-09  Score=77.74  Aligned_cols=88  Identities=20%  Similarity=0.174  Sum_probs=63.1

Q ss_pred             EeEEEeCCCCccc-cCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEe
Q 031448           34 SPTLVFGPSMLPT-LNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVV  112 (159)
Q Consensus        34 ~~~~v~~~SM~Pt-l~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~v  112 (159)
                      ....|.|+||+|+ +. +||++++++.    .+++.||+|++..   +++..+||+. .+|+                  
T Consensus       111 ~~~~v~GdSM~p~~i~-~Gd~v~vd~~----~~~~~G~i~v~~~---~~~~~vKrl~-~~~~------------------  163 (202)
T 1jhf_A          111 FLLRVSGMSMKDIGIM-DGDLLAVHKT----QDVRNGQVVVARI---DDEVTVKRLK-KQGN------------------  163 (202)
T ss_dssp             EEEECCSSTTGGGTCC-TTCEEEEEEC----SCCCTTSEEEEEE---TTEEEEEEEE-EETT------------------
T ss_pred             EEEEECCCCCCCCCCC-CCCEEEEecc----CCcCCCeEEEEEE---CCEEEEEEEE-EeCC------------------
Confidence            4678999999999 98 9999999873    3689999999986   3578999998 4544                  


Q ss_pred             cCCeEEEEcCCCCCCCCCCccc-cccCCCeEEEEEEEEeCCC
Q 031448          113 PKGHVWIQGDNLYASRDSRQFG-PVPYGLIEGKAFFRVWPPN  153 (159)
Q Consensus       113 p~~~~~v~gdn~~~s~DSR~~G-~V~~~~I~G~v~~~~~p~~  153 (159)
                         .+++.+||+...  ...+. .-..-.|+|+|++.+..++
T Consensus       164 ---~~~l~s~N~~y~--~~~~~~~~~~~~IiG~Vv~~~r~~~  200 (202)
T 1jhf_A          164 ---KVELLPENSEFK--PIVVDLRQQSFTIEGLAVGVIRNGD  200 (202)
T ss_dssp             ---EEEEECSSTTCC--CEEEETTTSCEEEEEEEEEEEEC--
T ss_pred             ---EEEEEECCCCCC--CEEccCCCCceEEEEEEEEEEEccc
Confidence               677788886321  11111 0122359999998876543

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

Probab=98.98  E-value=1.9e-09  Score=80.80  Aligned_cols=90  Identities=26%  Similarity=0.355  Sum_probs=68.6

Q ss_pred             EeEEEeCCCCc------cccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCc
Q 031448           34 SPTLVFGPSML------PTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSC  107 (159)
Q Consensus        34 ~~~~v~~~SM~------Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~  107 (159)
                      ....|.|+||+      |++. +||++++++-    .+++.||+|++..  +.++..+||+...+|              
T Consensus       141 ~~l~V~GdSM~~~~g~~P~i~-~Gd~v~vd~~----~~~~~g~ivv~~~--~~~~~~vKrl~~~~~--------------  199 (236)
T 3bdn_A          141 FWLEVEGNSMTAPTGSKPSFP-DGMLILVDPE----QAVEPGDFCIARL--GGDEFTFKKLIRGSG--------------  199 (236)
T ss_dssp             EEEECCSSSSCCCSSCSSCCC-SSCEEEECCS----SCCCTTSEEEEES--TTTCCCCEEEECCSS--------------
T ss_pred             EEEEEeCCCcCCCCCCCCcCC-CCCEEEECCC----CCCCCCcEEEEEE--CCCeEEEEEEEEcCC--------------
Confidence            35789999999      9998 9999999873    3789999999986  235789999986443              


Q ss_pred             ceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCCc
Q 031448          108 HTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFG  156 (159)
Q Consensus       108 ~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~~  156 (159)
                              .+++.+||+.. .+ ...-  ..-.|+|+|++..||.+.|+
T Consensus       200 --------~~~L~s~N~~y-~~-~~~~--~~~~IiG~Vv~~~~~~~~~~  236 (236)
T 3bdn_A          200 --------QVFLQPLNPQY-PM-IPCN--ESCSVVGKVIASQWPEETFG  236 (236)
T ss_dssp             --------SCEEECSSTTS-CC-BC----CCCEEEEEEEECCCCSSSCC
T ss_pred             --------cEEEEeCCCCC-CC-eecC--CCcEEEEEEEEEEcCHHhcC
Confidence                    57788888632 12 1111  44679999999999988775

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

Probab=98.72  E-value=2.5e-07  Score=67.75  Aligned_cols=85  Identities=22%  Similarity=0.115  Sum_probs=63.6

Q ss_pred             EEeEEEeCCCC-ccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEE
Q 031448           33 WSPTLVFGPSM-LPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVV  111 (159)
Q Consensus        33 ~~~~~v~~~SM-~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~  111 (159)
                      .....|.|+|| +|++. +||++++++-    ..++.||+|++...   ++..+||+.-.+                   
T Consensus       109 ~f~l~v~GdSM~~p~i~-~GD~viv~~~----~~~~~G~ivv~~~~---~~~~vKr~~~~~-------------------  161 (196)
T 3k2z_A          109 HFLLKVKGESMIEEHIC-DGDLVLVRRQ----DWAQNGDIVAAMVD---GEVTLAKFYQRG-------------------  161 (196)
T ss_dssp             EEEEECCSSTTGGGTCC-TTCEEEEEEC----SCCCTTCEEEEEET---TEEEEEEEEEET-------------------
T ss_pred             EEEEEEeCCCcCCCCCC-CCCEEEEecc----CcCCCCCEEEEEEC---CcEEEEEEEEEC-------------------
Confidence            45679999999 69998 9999999973    47899999999863   489999997643                   


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 031448          112 VPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVW  150 (159)
Q Consensus       112 vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~  150 (159)
                         |.+++..+|+...  .... +-..-.|+|+|++.+.
T Consensus       162 ---~~~~L~~~N~~y~--~i~i-~~~~~~i~G~Vv~~~r  194 (196)
T 3k2z_A          162 ---DTVELRPANREMS--SMFF-RAEKVKILGKVVGVFR  194 (196)
T ss_dssp             ---TEEEEECSCTTSC--CEEE-EGGGCEEEEEEEEEEE
T ss_pred             ---CEEEEEECCCCCC--CEEe-cCCCEEEEEEEEEEEE
Confidence               4788888886332  1111 1134589999998664

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

Probab=97.30  E-value=0.0019  Score=46.25  Aligned_cols=76  Identities=9%  Similarity=0.091  Sum_probs=51.1

Q ss_pred             CCCccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEecCCeEEEE
Q 031448           41 PSMLPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVVPKGHVWIQ  120 (159)
Q Consensus        41 ~SM~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~vp~~~~~v~  120 (159)
                      ++|...-. +||++++++-     .+..|+++++..   +++..+||+.-.+|+                     .+.+.
T Consensus       113 ~~~~~v~~-~Gd~v~Vd~~-----~~~~g~i~vv~~---~g~~~vKrl~~~~~~---------------------~i~L~  162 (189)
T 2fjr_A          113 TDGMAIRS-EGKIYFVDKQ-----ASLSDGLWLVDI---KGAISIRELTKLPGR---------------------KLHVA  162 (189)
T ss_dssp             SSEEEEEE-TTEEEEEETT-----CCSCSEEEEEEE---TTEEEEEEEEEETTT---------------------EEEEE
T ss_pred             CCeEEEee-CCcEEEEEcC-----CccCCCEEEEEe---CCeEEEEEEEECCCC---------------------EEEEE
Confidence            34544344 8999999872     477899999986   347899999876654                     56667


Q ss_pred             cCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 031448          121 GDNLYASRDSRQFGPVPYGLIEGKAFFRVWPP  152 (159)
Q Consensus       121 gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~  152 (159)
                      +||++     ...- ...=.|+|+|++.+-.+
T Consensus       163 s~N~~-----~~i~-~~~i~IiG~Vv~~~r~~  188 (189)
T 2fjr_A          163 GGKVP-----FECG-IDDIKTLGRVVGVYSEV  188 (189)
T ss_dssp             SSSSC-----EEEE-TTSSEEEEEEEEEEEEC
T ss_pred             eCCCC-----eEec-ccceEEEEEEEEEEEec
Confidence            77751     1111 13346999999876443

---

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	159
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	4e-13
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	1e-04

>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 = 62.7 bits (151), Expect = 4e-13
 Identities = 19/61 (31%), Positives = 29/61 (47%)

Query: 94  DRVTYFKPRNGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPN 153
           D+V  +  + G    T +VP G  ++ GDN   S DSR +G VP   + G+A       +
Sbjct: 169 DQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFD 228

Query: 154 S 154
            
Sbjct: 229 K 229

>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 = 38.4 bits (88), Expect = 1e-04
 Identities = 29/81 (35%), Positives = 40/81 (49%), Gaps = 13/81 (16%)

Query: 31 YLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRV------------GRLGPGDIVFVRSPV 78
          +++ P  +   SM+PTL L GD IL E  ++ +            G    GDIV  + P 
Sbjct: 3  FIYEPFQIPSGSMMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPE 61

Query: 79 DPNKIVTKRIVGVEGDRVTYF 99
          DP     KR VG+ GD+VTY 
Sbjct: 62 DPKLDYIKRAVGLPGDKVTYD 82

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	159
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	100.0
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	99.24
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	98.95
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	98.71

>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=7.9e-39  Score=243.01  Aligned_cols=124  Identities=36%  Similarity=0.520  Sum_probs=109.2

Q ss_pred             hhceEEeEEEeCCCCccccCCCCcEEEEEecccCC------------CCCCCCeEEEEecCCCCCceEEEEEEEeCCCEE
Q 031448           29 NHYLWSPTLVFGPSMLPTLNLTGDVILAEYVSHRV------------GRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRV   96 (159)
Q Consensus        29 ~~~~~~~~~v~~~SM~Ptl~~~Gd~vlv~~~~~~~------------~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v   96 (159)
                      +.|+++++.|+|+||+|||. .||+++++|+++..            ..+++||+|+|..|.++...++|||+|+|||++
T Consensus         1 R~f~~~~f~IPs~SMePTL~-~GD~l~V~K~~Yg~r~P~~~~~~~~~~~~~rgdivvf~~p~~~~~~~ikR~ig~pGD~i   79 (247)
T d1b12a_           1 RSFIYEPFQIPSGSMMPTLL-IGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAVGLPGDKV   79 (247)
T ss_dssp             CBCCEEEEECCSCTTTTTSC-TTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTCTTSEEEEEEEECTTCEE
T ss_pred             CEEEEEEEEeCcccccchhc-cCCEEEEEccccCccCCccCcccccccCcccCceeeecCCCCCCccccccccCCCCCeE
Confidence            46899999999999999999 99999999987643            356999999999999888899999999999999


Q ss_pred             EEeCCC--------------------------------------------------------------------------
Q 031448           97 TYFKPR--------------------------------------------------------------------------  102 (159)
Q Consensus        97 ~i~~~~--------------------------------------------------------------------------  102 (159)
                      ++.+..                                                                          
T Consensus        80 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (247)
T d1b12a_          80 TYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTH  159 (247)
T ss_dssp             EEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEEE
T ss_pred             EEecccceEEecccccccceeecceeecccccCcccceeeeeeccCceeccceeeccccccccCceEeeeeeeccCCcce
Confidence            886310                                                                          


Q ss_pred             ------------------CCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCC
Q 031448          103 ------------------NGDSCHTVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPN  153 (159)
Q Consensus       103 ------------------~~~~~~~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~  153 (159)
                                        ......+++||+|+|||||||+.+|.|||+||+||+++|+|||.+++||++
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Vp~~~yfvmGDNR~nS~DSR~wG~Vp~~~I~Gka~~i~~p~~  228 (247)
T d1b12a_         160 RILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFD  228 (247)
T ss_dssp             EEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC
T ss_pred             eEEecccchhcccccccCCccccceEEEeCCeEEEecCCCCCCccccccCcCCHHHeEEEEEEEEEECC
Confidence                              012235789999999999999999999999999999999999999999965

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

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

Probab=99.24  E-value=7.2e-11  Score=76.59  Aligned_cols=89  Identities=26%  Similarity=0.373  Sum_probs=68.5

Q ss_pred             eEEEeCCCC------ccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcc
Q 031448           35 PTLVFGPSM------LPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCH  108 (159)
Q Consensus        35 ~~~v~~~SM------~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~  108 (159)
                      ..+|.|+||      +|+++ +||++++++-    .+++.||+|++...  .++..+||+.-.+                
T Consensus         7 ~l~V~GdSM~~~~~~ep~i~-~Gd~viVd~~----~~~~~g~ivva~~~--~~~~~vKr~~~~~----------------   63 (101)
T d1f39a_           7 WLEVEGNSMTAPTGSKPSFP-DGMLILVDPE----QAVEPGDFCIARLG--GDEFTFKKLIRDS----------------   63 (101)
T ss_dssp             EEECCSSTTCCCTTCSSCCC-TTCEEEEETT----SCCCTTCEEEEECT--TSCEEEEEEEEET----------------
T ss_pred             EEEEeCCccCCCcccCCCcC-CCCEEEEEec----CccCCCCEEEEEEC--CCeEEEEEEEEcC----------------
Confidence            468999999      79998 9999999873    58899999988763  4467899997643                


Q ss_pred             eEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCCc
Q 031448          109 TVVVPKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRVWPPNSFG  156 (159)
Q Consensus       109 ~~~vp~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~~p~~~~~  156 (159)
                            +++++.++|+.+.  .....  ..-.|+|+|+..+||-+-+|
T Consensus        64 ------~~~~L~s~N~~y~--~i~~~--~~~~IiG~Vv~s~~p~~~~~  101 (101)
T d1f39a_          64 ------GQVFLQPLNPQYP--MIPCN--ESCSVVGKVIASQWPEETFG  101 (101)
T ss_dssp             ------TEEEEECSSTTSC--CEECS--TTCEEEEEEEEEECCGGGGC
T ss_pred             ------CEEEEEECCCCCC--CCcCC--CCcEEEEEEEEEECcHHHCC
Confidence                  4788889987432  22221  34689999999999987765

>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=98.95  E-value=4.8e-09  Score=70.34  Aligned_cols=84  Identities=20%  Similarity=0.138  Sum_probs=62.5

Q ss_pred             EeEEEeCCCCccc-cCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEe
Q 031448           34 SPTLVFGPSMLPT-LNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVV  112 (159)
Q Consensus        34 ~~~~v~~~SM~Pt-l~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~v  112 (159)
                      ...+|.|+||+|+ ++ +||++++++-    .+++.||+|++..   +++..+||+.-.+                    
T Consensus        39 f~lrV~GdSM~~~~i~-~gd~viv~~~----~~~~~G~ivv~~~---~ge~~vKrl~~~~--------------------   90 (126)
T d1jhfa2          39 FLLRVSGMSMKDIGIM-DGDLLAVHKT----QDVRNGQVVVARI---DDEVTVKRLKKQG--------------------   90 (126)
T ss_dssp             EEEECCSSTTGGGTCC-TTCEEEEEEC----SCCCTTSEEEEEE---TTEEEEEEEEEET--------------------
T ss_pred             EEEEEcCCcccCcccC-CCEEEEEecc----ccccCCCEEEEEE---CCEEEEEEEEEcC--------------------
Confidence            4679999999997 87 9999999873    5899999999997   3578999998654                    


Q ss_pred             cCCeEEEEcCCCCCCCCCCccc-cccCCCeEEEEEEEE
Q 031448          113 PKGHVWIQGDNLYASRDSRQFG-PVPYGLIEGKAFFRV  149 (159)
Q Consensus       113 p~~~~~v~gdn~~~s~DSR~~G-~V~~~~I~G~v~~~~  149 (159)
                        +.+++.++|+....  ..+. .=..=.|+|+|...+
T Consensus        91 --~~~~L~s~N~~y~p--i~~~~~~~~~~IiG~Vv~vi  124 (126)
T d1jhfa2          91 --NKVELLPENSEFKP--IVVDLRQQSFTIEGLAVGVI  124 (126)
T ss_dssp             --TEEEEECSSTTCCC--EEEETTTSCEEEEEEEEEEE
T ss_pred             --CEEEEecCCcCCCC--eEccCCCCcEEEEEEEEEEE
Confidence              37888899874321  1110 001126999998765

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

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

Probab=98.71  E-value=7.6e-08  Score=62.37  Aligned_cols=83  Identities=17%  Similarity=0.089  Sum_probs=60.3

Q ss_pred             EeEEEeCCCC-ccccCCCCcEEEEEecccCCCCCCCCeEEEEecCCCCCceEEEEEEEeCCCEEEEeCCCCCCCcceEEe
Q 031448           34 SPTLVFGPSM-LPTLNLTGDVILAEYVSHRVGRLGPGDIVFVRSPVDPNKIVTKRIVGVEGDRVTYFKPRNGDSCHTVVV  112 (159)
Q Consensus        34 ~~~~v~~~SM-~Ptl~~~Gd~vlv~~~~~~~~~~~~GDiVvf~~p~~~~~~~vkRVi~~pGd~v~i~~~~~~~~~~~~~v  112 (159)
                      ...+|.|+|| .|.+. +||++++++-    .+++.||+|++..   +++..+||... .                    
T Consensus        21 f~~rV~GdSM~~~gI~-~GDlliVd~~----~~~~~g~ivva~i---~ge~~vKrl~~-~--------------------   71 (105)
T d1umua_          21 YFVKASGDSMIDGGIS-DGDLLIVDSA----ITASHGDIVIAAV---DGEFTVKKLQL-R--------------------   71 (105)
T ss_dssp             EEEECCSSTTGGGTCC-TTCEEEEETT----SCCCTTCEEEEEE---TTEEEEEEEEC-S--------------------
T ss_pred             EEEEEcCCccccCccC-CCCEEEEEcc----cccccCcEEEEEE---CCEEEEEEEEE-C--------------------
Confidence            4689999999 58898 9999999983    5899999999997   45789999853 2                    


Q ss_pred             cCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEE
Q 031448          113 PKGHVWIQGDNLYASRDSRQFGPVPYGLIEGKAFFRV  149 (159)
Q Consensus       113 p~~~~~v~gdn~~~s~DSR~~G~V~~~~I~G~v~~~~  149 (159)
                        ++.+++.+|+..  +.....+-..-.|.|+|...+
T Consensus        72 --~~~~L~~~N~~y--~~i~i~~~~~~~I~GvVv~vi  104 (105)
T d1umua_          72 --PTVQLIPMNSAY--SPITISSEDTLDVFGVVIHVV  104 (105)
T ss_dssp             --SSCEEECSSTTS--CCEECCTTSCEEEEEEEEEEE
T ss_pred             --CcEEEECCCCCC--CCEEcCCCCCEEEEEEEEEEE
Confidence              245677887632  333222222335999998754