Citrus Sinensis ID: 030877

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170
Protein Sequence
MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEccccccccccccccEEEEEEEEEcccccccccEEEEEccccccccEEEEEEEccccEEEEccccccccccccEEcccccEEEEccccccccccccccccccccEEEEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccEEcccccccccccccccEEEEEEEEEEccccccccEEEEcccccccccHEEEEEEccccEEEEEccEEEEcccccEEcccccEEEEcccccccccccccccccHHHEEEEEEEEEccHHHccccccccc
Coil and Loop (DISEMBL)
MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVntyvctpalaygpsmlptinltGDLVLAERISTrfnkvcpgdvvlvrspvvprriVTKRVigmegdrvsyvadpkssdkfetvvvpqghvwiegdniyesndsrkfgavpygliegrvflriwppkdfgslgrrae
Flexible Loop (DISEMBL)
MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTrfnkvcpgdvvlvrspvvprrivtkrvigmegdrvsyvadpkssdkFETVVVPQGHVWIEgdniyesndsrkFGAVPYGLIEGrvflriwppkdfgslgrrae
Low Complexity Region (SEG)
MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCpgdvvlvrspvvprrivTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
Disordered region (IsUnstruct)
******LSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPK**********
Disordered Region (DISOPRED)
*************AKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDF*SLG****
Disordered Region (DISEMBL)
MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
Disordered Region (DISPRO)
******LSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE
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	170	2.2.26 [Sep-21-2011]
Q9CQU8	166	Mitochondrial inner membr	yes	no	0.8	0.819	0.453	8e-29
Q96LU5	166	Mitochondrial inner membr	yes	no	0.8	0.819	0.453	1e-28
Q28I39	167	Mitochondrial inner membr	yes	no	0.805	0.820	0.428	1e-25
O74800	157	Mitochondrial inner membr	yes	no	0.805	0.872	0.422	4e-25
Q6AZD4	183	Mitochondrial inner membr	no	no	0.823	0.765	0.402	1e-17
P28627	190	Mitochondrial inner membr	yes	no	0.735	0.657	0.362	3e-16
P46972	177	Mitochondrial inner membr	no	no	0.864	0.830	0.312	1e-15
Q2KI92	177	Mitochondrial inner membr	yes	no	0.788	0.757	0.369	2e-15
Q9UST2	180	Mitochondrial inner membr	no	no	0.9	0.85	0.341	3e-15
Q96T52	175	Mitochondrial inner membr	no	no	0.788	0.765	0.363	4e-15

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

 Score =  126 bits (316), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 64/141 (45%), Positives = 86/141 (60%), Gaps = 5/141 (3%)

Query: 26  KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVV 85
           ++ C  H    YV    +  GPSM PTI    D+V AE +S  F  +  GD+V+ +SP  
Sbjct: 18  QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSD 76

Query: 86  PRRIVTKRVIGMEGDRVSYVADPKSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVP 144
           P+  + KRVIG+EGD++        SD F++   VP GHVW+EGDN+  S DSR +G +P
Sbjct: 77  PKSNICKRVIGLEGDKI---LSTSPSDVFKSRSYVPTGHVWLEGDNLQNSTDSRYYGPIP 133

Query: 145 YGLIEGRVFLRIWPPKDFGSL 165
           YGLI GR+F +IWP  DFG L
Sbjct: 134 YGLIRGRIFFKIWPFSDFGFL 154

Catalyzes the removal of transit peptides required for the targeting of proteins from the mitochondrial matrix, across the inner membrane, into the inter-membrane space. Known to process the nuclear encoded protein DIABLO.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: -

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

 Score =  125 bits (314), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 64/141 (45%), Positives = 87/141 (61%), Gaps = 5/141 (3%)

Query: 26  KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVV 85
           ++ C  H    YV    +  GPSM PTI    D+V AE +S  F  +  GD+V+ +SP  
Sbjct: 18  QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSD 76

Query: 86  PRRIVTKRVIGMEGDRVSYVADPKSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVP 144
           P+  + KRVIG+EGD++   +    SD F++   VP GHVW+EGDN+  S DSR +G +P
Sbjct: 77  PKSNICKRVIGLEGDKILTTS---PSDFFKSHSYVPMGHVWLEGDNLQNSTDSRCYGPIP 133

Query: 145 YGLIEGRVFLRIWPPKDFGSL 165
           YGLI GR+F +IWP  DFG L
Sbjct: 134 YGLIRGRIFFKIWPLSDFGFL 154

Catalyzes the removal of transit peptides required for the targeting of proteins from the mitochondrial matrix, across the inner membrane, into the inter-membrane space. Known to process the nuclear encoded protein DIABLO.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

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

 Score =  115 bits (289), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 60/140 (42%), Positives = 86/140 (61%), Gaps = 3/140 (2%)

Query: 26  KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVV 85
           ++ C  H    Y+    +  GPSM PTI    D++L + +S  F  +  GD+++ +SP  
Sbjct: 18  QYGCIAHCAFEYIGEVVICSGPSMEPTIR-NYDVLLCDNLSRHFFSIHKGDIIVAKSPDK 76

Query: 86  PRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPY 145
           P   + KRVIG+EGD+V  ++ P +  K  T V P+GHVW+EGDN+  S DSR +G VPY
Sbjct: 77  PSVNICKRVIGLEGDKVC-MSSPSALLKRHTYV-PKGHVWLEGDNLDNSTDSRSYGPVPY 134

Query: 146 GLIEGRVFLRIWPPKDFGSL 165
            LI GR+ LR+WP + FG L
Sbjct: 135 ALIRGRICLRVWPLESFGPL 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 =  114 bits (284), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 60/142 (42%), Positives = 87/142 (61%), Gaps = 5/142 (3%)

Query: 18  FEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCP-GD 76
           F   + V +    +H ++ Y+    +  GPSM+PT+N  G+ VL +++  RF + C  GD
Sbjct: 5   FRIPIAVVQIAAFVHQIHEYLFQVQMTSGPSMMPTLNSGGEFVLLDKLHGRFARSCSVGD 64

Query: 77  VVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESND 136
           VV+   P   ++ V KR+IGM GD + YV DP SS+K   + +P GHVW+ GDNI  S D
Sbjct: 65  VVVSAKPSDSKQHVCKRIIGMPGDTI-YV-DPTSSNK--KITIPLGHVWLAGDNIAHSLD 120

Query: 137 SRKFGAVPYGLIEGRVFLRIWP 158
           SR +G VP GLI+ +V  R+WP
Sbjct: 121 SRNYGPVPMGLIKAKVIARVWP 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 = 89.0 bits (219), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 64/159 (40%), Positives = 80/159 (50%), Gaps = 19/159 (11%)

Query: 13  FAKEGFEK---SLLVGKFFCCLHVVNTYVCTPALAY-----GPSMLPTINLTG----DLV 60
            A+ GF +      V  FF  + V  T      LAY     G SM P++N  G    D+V
Sbjct: 1   MAQTGFGRRYFKAFVSGFFVAVPV--TVTVLDRLAYVARVEGASMQPSLNPDGESSPDVV 58

Query: 61  LAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           L  R S R   V  GD+V V SP  P++ + KRVIG+EGD +  +       K   V VP
Sbjct: 59  LLNRWSVRNYHVQRGDIVSVLSPKNPQQKIIKRVIGIEGDFIKTLGY-----KNRYVRVP 113

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPP 159
            GH+WIEGD+   S DS  FG V  GL+ GR    IWPP
Sbjct: 114 DGHLWIEGDHHGHSFDSNAFGPVSLGLVHGRASHIIWPP 152

Catalyzes the removal of transit peptides required for the targeting of proteins from the mitochondrial matrix, across the inner membrane, into the inter-membrane space.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: -

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

 Score = 84.3 bits (207), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/135 (36%), Positives = 70/135 (51%), Gaps = 10/135 (7%)

Query: 28  FCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPR 87
            C LH+++ Y        G SMLPT++ T D V   +       +  GD ++   P  P 
Sbjct: 20  LCFLHIIHMYAYEFTETRGESMLPTLSATNDYVHVLKNFQNGRGIKMGDCIVALKPTDPN 79

Query: 88  RIVTKRVIGMEGDRV--------SYVADPK-SSDKFETVV-VPQGHVWIEGDNIYESNDS 137
             + KRV GM GD V        +YV D     ++F T + VP+GHVW+ GDN+  S DS
Sbjct: 80  HRICKRVTGMPGDLVLVDPSTIVNYVGDVLVDEERFGTYIKVPEGHVWVTGDNLSHSLDS 139

Query: 138 RKFGAVPYGLIEGRV 152
           R + A+P GLI G++
Sbjct: 140 RTYNALPMGLIMGKI 154

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: -

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

 Score = 82.4 bits (202), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 49/157 (31%), Positives = 78/157 (49%), Gaps = 10/157 (6%)

Query: 14  AKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTIN-----LTGDLVLAERISTR 68
           +K     +L+   +   L  +N  V   A   G SM PT+N     L  D VL  +   +
Sbjct: 7   SKRFLRNTLIAISWVPVLLTINNNVVHIAQVKGTSMQPTLNPQTETLATDWVLLWKFGVK 66

Query: 69  F-NKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE 127
             + +   D++L ++P  PR++  KRV G+  D +    D K       V +P+GH+W+E
Sbjct: 67  NPSNLSRDDIILFKAPTNPRKVYCKRVKGLPFDTI----DTKFPYPKPQVNLPRGHIWVE 122

Query: 128 GDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGS 164
           GDN + S DS  FG +  GL+ G+    +WPP  +G+
Sbjct: 123 GDNYFHSIDSNTFGPISSGLVIGKAITIVWPPSRWGT 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 = 54/146 (36%), Positives = 73/146 (50%), Gaps = 12/146 (8%)

Query: 27  FFCCLHVVNTY---VCTPALAYGPSMLPTINLTG----DLVLAERISTRFNKVCPGDVVL 79
           FF  + V  T+   V   A   G SM P++N  G    D+VL      R  +V  GD+V 
Sbjct: 19  FFVAVPVAVTFLDRVACVARVEGASMQPSLNPGGSQSSDVVLLNHWKVRNFEVQRGDIVS 78

Query: 80  VRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRK 139
           + SP  P + + KRVI +EGD V  +       K   V VP+GH+W+EGD+   S DS  
Sbjct: 79  LVSPKNPEQKIIKRVIALEGDIVKTMGH-----KNRYVKVPRGHIWVEGDHHGHSFDSNS 133

Query: 140 FGAVPYGLIEGRVFLRIWPPKDFGSL 165
           FG V  GL+       +WPPK +  L
Sbjct: 134 FGPVSLGLLHAHATHILWPPKRWQKL 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|Q9UST2|IMP2L_SCHPO Mitochondrial inner membrane protease subunit 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC336.13c PE=3 SV=1

 Score = 80.9 bits (198), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 57/167 (34%), Positives = 85/167 (50%), Gaps = 14/167 (8%)

Query: 3   VRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLA 62
           VRNQ     +F    F+  + +  +   L  V  +V +     G SM P  N   +++  
Sbjct: 6   VRNQ-----SFKSVFFKNLVGITLWVPVLMFVEQHVVSVGTIEGRSMKPAFNPETNMLQR 60

Query: 63  ERIST-RFNKVCP-GDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           +R+   ++NK    GDVV++RSP  P  ++ KRV+G+E D    +   +   K   V VP
Sbjct: 61  DRVLLWKWNKDYKRGDVVILRSPENPEELLVKRVLGVEYD----IMKTRPPKKLSLVPVP 116

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGR 167
           +GHVW+EGD  + S DS KFG V  GLI  +V   ++P   F   GR
Sbjct: 117 EGHVWVEGDEQFHSIDSNKFGPVSTGLITAKVIAILFP---FSRAGR 160

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

 Score = 80.9 bits (198), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 53/146 (36%), Positives = 73/146 (50%), Gaps = 12/146 (8%)

Query: 27  FFCCLHVVNTY---VCTPALAYGPSMLPTINLTG----DLVLAERISTRFNKVCPGDVVL 79
           FF  + V  T+   V   A   G SM P++N  G    D+VL      R  +V  GD+V 
Sbjct: 19  FFVAVPVAVTFLDRVACVARVEGASMQPSLNPGGSQSSDVVLLNHWKVRNFEVHRGDIVS 78

Query: 80  VRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRK 139
           + SP  P + + KRVI +EGD V  +       K   V VP+GH+W+EGD+   S DS  
Sbjct: 79  LVSPKNPEQKIIKRVIALEGDIVRTIGH-----KNRYVKVPRGHIWVEGDHHGHSFDSNS 133

Query: 140 FGAVPYGLIEGRVFLRIWPPKDFGSL 165
           FG V  GL+       +WPP+ +  L
Sbjct: 134 FGPVSLGLLHAHATHILWPPERWQKL 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: -

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	170
255557373	176	mitochondrial inner membrane protease su	0.905	0.875	0.709	2e-59
449433706	175	PREDICTED: mitochondrial inner membrane	0.958	0.931	0.644	3e-58
255562592	158	mitochondrial inner membrane protease su	0.888	0.955	0.682	5e-58
225461838	167	PREDICTED: mitochondrial inner membrane	0.970	0.988	0.606	2e-57
225463444	169	PREDICTED: mitochondrial inner membrane	0.964	0.970	0.636	5e-57
224096548	171	predicted protein [Populus trichocarpa]	0.994	0.988	0.617	5e-57
224083914	171	predicted protein [Populus trichocarpa]	0.994	0.988	0.6	8e-56
449438943	161	PREDICTED: mitochondrial inner membrane	0.917	0.968	0.576	2e-53
297740662	208	unnamed protein product [Vitis vinifera]	0.911	0.745	0.628	3e-52
224061365	164	predicted protein [Populus trichocarpa]	0.947	0.981	0.552	6e-52

>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 =  233 bits (593), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 110/155 (70%), Positives = 130/155 (83%), Gaps = 1/155 (0%)

Query: 1   MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLV 60
           M +RN L+ + +FAKE   +S+LV KF C LHV NTY+CT AL YGPSMLPT+NLTGDLV
Sbjct: 1   MSIRN-LAQWKSFAKEALNQSILVAKFLCFLHVTNTYLCTAALTYGPSMLPTLNLTGDLV 59

Query: 61  LAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           LAERIS RF KV PGD+VLVRSPV P+RIVTKRV+G+EGD V+YV DPK+SD   TVVVP
Sbjct: 60  LAERISPRFGKVGPGDIVLVRSPVNPKRIVTKRVMGVEGDSVTYVVDPKNSDASNTVVVP 119

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR 155
           +GH+WIEGDN+Y+SNDSRKFGAVPYGL+  +VF R
Sbjct: 120 KGHIWIEGDNVYDSNDSRKFGAVPYGLLHAKVFWR 154

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  229 bits (584), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 105/163 (64%), Positives = 127/163 (77%)

Query: 6   QLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERI 65
           +L+       E    ++ VGK FC LHV+NTY+CT    YGPSMLPT+NLTGD VLAER+
Sbjct: 6   KLARLKPIVNEALAGTIFVGKLFCGLHVINTYICTATFTYGPSMLPTLNLTGDFVLAERL 65

Query: 66  STRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVW 125
           STRF +V  GD+VLVRSP  PR++V KR+IGMEGD V+YV DPK+SD  ETVVVP+GHVW
Sbjct: 66  STRFGRVGVGDIVLVRSPENPRKVVGKRLIGMEGDSVTYVVDPKNSDWSETVVVPKGHVW 125

Query: 126 IEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRR 168
           IEGDNIY+S DSR FGAVPY L++G++F RIWPPK FG L +R
Sbjct: 126 IEGDNIYDSRDSRNFGAVPYSLLQGKIFWRIWPPKSFGQLEKR 168

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  228 bits (582), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 103/151 (68%), Positives = 127/151 (84%)

Query: 6   QLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERI 65
            L+ + +FAKE   +S+LV KF C LHV +TY+CT AL YGPSMLPT+NLTGDLVLAERI
Sbjct: 3   NLAQWKSFAKEALNQSILVAKFLCFLHVTDTYLCTAALTYGPSMLPTLNLTGDLVLAERI 62

Query: 66  STRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVW 125
           S RF KV PGD+VLVRSPV P+RIVTKRV+G+EGD V+Y+ DPK+SD   T++VP+GH+W
Sbjct: 63  SPRFGKVGPGDIVLVRSPVNPKRIVTKRVMGIEGDSVTYIVDPKNSDASNTIMVPKGHIW 122

Query: 126 IEGDNIYESNDSRKFGAVPYGLIEGRVFLRI 156
           IEGDN+Y+SNDSRKFGAVPYGL+  +VF R+
Sbjct: 123 IEGDNVYDSNDSRKFGAVPYGLLHAKVFWRV 153

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  226 bits (577), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 100/165 (60%), Positives = 132/165 (80%)

Query: 1   MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLV 60
           MG  ++LS + T A+E  E++ ++ KF C LHV NTY+CTP L YGPSMLPT NLTGD++
Sbjct: 1   MGALSKLSQWRTLAREAAERTAILAKFLCILHVTNTYICTPTLVYGPSMLPTFNLTGDVL 60

Query: 61  LAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           L E ++ R  KV PGDVVLVRSP  PR+ V+KR++GMEGDRV+++ DPK+S++ ++VV+P
Sbjct: 61  LVENLTVRMGKVRPGDVVLVRSPENPRKTVSKRILGMEGDRVTFMIDPKNSNRCQSVVIP 120

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 165
           +GHVWI+GDNIY S+DSR FG VPYGLI+G+VF R+WP   FGSL
Sbjct: 121 KGHVWIQGDNIYASHDSRNFGPVPYGLIQGKVFFRVWPLNGFGSL 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  225 bits (574), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 105/165 (63%), Positives = 129/165 (78%), Gaps = 1/165 (0%)

Query: 1   MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLV 60
           MGV N +  +    KE  +++    KF C LHV NTY+CT ALA+GPSMLPT+NL+GDL+
Sbjct: 1   MGVSN-VKQWSRIVKEALDRAFFTAKFLCLLHVSNTYLCTVALAHGPSMLPTLNLSGDLI 59

Query: 61  LAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           LA+R+S RF KV PGD+VLVRSP  PR+I+TKRV+GM GDRV++  DPK S + ETVVVP
Sbjct: 60  LADRLSVRFGKVGPGDIVLVRSPQNPRKIITKRVVGMGGDRVTFSVDPKDSRRCETVVVP 119

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 165
           +GHVWI GDNIY S DSR FGAVPYGL++G+VF RIWPP+ FG L
Sbjct: 120 EGHVWIAGDNIYASTDSRNFGAVPYGLLQGKVFWRIWPPQGFGLL 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 =  225 bits (574), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 105/170 (61%), Positives = 131/170 (77%), Gaps = 1/170 (0%)

Query: 1   MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLV 60
           M +RN L+ +   AKE F  S LV K  C LHV  TYV T A  YGPSMLPT N++GDL 
Sbjct: 1   MSLRN-LNEWTIIAKEAFNGSFLVAKALCFLHVTKTYVFTVASLYGPSMLPTFNISGDLA 59

Query: 61  LAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           LAE+IS +  KV  GD+VLV SPV PR+IVTKRV+G+EGD V+YV DPK+SD+ ET+VVP
Sbjct: 60  LAEKISHKLGKVGAGDIVLVTSPVEPRKIVTKRVVGVEGDSVTYVVDPKNSDRTETIVVP 119

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE 170
           +GH+W+EGDNIY+S DSR FGAV YGL++G++F +IWPPKDFG LG + +
Sbjct: 120 KGHIWVEGDNIYKSKDSRNFGAVSYGLLQGKMFWKIWPPKDFGPLGNKEQ 169

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  221 bits (563), Expect = 8e-56,   Method: Compositional matrix adjust.
 Identities = 102/170 (60%), Positives = 128/170 (75%), Gaps = 1/170 (0%)

Query: 1   MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLV 60
           M +RN L      AKE F K  LV K  C LHV NT+V T A  YGPSMLPT NLTGD  
Sbjct: 1   MSLRN-LKELTIIAKEAFSKMFLVAKSLCFLHVTNTHVFTVASLYGPSMLPTFNLTGDWA 59

Query: 61  LAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           LAER S +  KV  GD+V+++SPV PR+I+TKRVIG+EGD V+YV +PK+SD+ ET+VVP
Sbjct: 60  LAERFSHKLGKVGAGDIVILKSPVEPRKIMTKRVIGVEGDSVTYVVEPKNSDRTETIVVP 119

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRRAE 170
           +GH+W+EGDNIY S DSR FGAVPYGL+ G++  +IWPPKDFG +G++ +
Sbjct: 120 KGHIWVEGDNIYNSKDSRNFGAVPYGLLRGKMLWKIWPPKDFGYIGKKEQ 169

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 90/156 (57%), Positives = 125/156 (80%)

Query: 12  TFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNK 71
           +  KE  ++++++ KF C LHV N Y+C+P L YGPSMLPT+NLTGD++LAE +S R  +
Sbjct: 6   SVVKEAIDRTVIIAKFLCLLHVTNNYICSPTLVYGPSMLPTLNLTGDVLLAEHVSHRVGR 65

Query: 72  VCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNI 131
           V PGDVVLVRSP  PR+++TKR++G+EGD+V++  DP +S+++++ VVP+GHVWI+GDN+
Sbjct: 66  VGPGDVVLVRSPRNPRKMLTKRIVGVEGDKVNFYPDPANSNQYQSAVVPKGHVWIQGDNV 125

Query: 132 YESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGR 167
           Y S DSR FG VPYGLIEG+ FLR+WPP  FG L +
Sbjct: 126 YASRDSRHFGPVPYGLIEGKAFLRVWPPDCFGRLDQ 161

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297740662|emb|CBI30844.3| unnamed protein product [Vitis vinifera]

 Score =  209 bits (532), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 98/156 (62%), Positives = 122/156 (78%), Gaps = 1/156 (0%)

Query: 1   MGVRNQLSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLV 60
           MGV N +  +    KE  +++    KF C LHV NTY+CT ALA+GPSMLPT+NL+GDL+
Sbjct: 1   MGVSN-VKQWSRIVKEALDRAFFTAKFLCLLHVSNTYLCTVALAHGPSMLPTLNLSGDLI 59

Query: 61  LAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP 120
           LA+R+S RF KV PGD+VLVRSP  PR+I+TKRV+GM GDRV++  DPK S + ETVVVP
Sbjct: 60  LADRLSVRFGKVGPGDIVLVRSPQNPRKIITKRVVGMGGDRVTFSVDPKDSRRCETVVVP 119

Query: 121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRI 156
           +GHVWI GDNIY S DSR FGAVPYGL++G+VF R+
Sbjct: 120 EGHVWIAGDNIYASTDSRNFGAVPYGLLQGKVFWRV 155

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  208 bits (530), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 89/161 (55%), Positives = 125/161 (77%)

Query: 7   LSLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERIS 66
           ++ + + AKE F ++ LV KF   LH+ N Y+ +P L YGPSMLPT+NLTGD++L E +S
Sbjct: 4   MNAWKSIAKEAFSQTCLVAKFLGFLHLTNNYLISPTLVYGPSMLPTLNLTGDVLLVEHVS 63

Query: 67  TRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWI 126
            RF KV PGDVVLVRSP+ P ++VTKR++GMEGD+++++ DP  +D   TV+VP+GH+WI
Sbjct: 64  HRFQKVGPGDVVLVRSPLDPTKMVTKRIVGMEGDQINFLPDPSITDICRTVMVPKGHIWI 123

Query: 127 EGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGR 167
           +GDN+Y S DSR +G VPYGL++G++F R+WPP  FGS G+
Sbjct: 124 QGDNMYASCDSRHYGPVPYGLVQGKLFFRVWPPSSFGSFGQ 164

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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	170
TAIR|locus:2203688	168	AT1G53530 [Arabidopsis thalian	0.894	0.904	0.513	6.8e-40
TAIR|locus:2019357	169	AT1G29960 [Arabidopsis thalian	0.935	0.940	0.459	2.4e-35
TAIR|locus:1006230730	155	AT1G23465 [Arabidopsis thalian	0.876	0.961	0.442	2e-31
UNIPROTKB|E2QXR0	202	IMMP1L "Uncharacterized protei	0.817	0.688	0.421	8.7e-24
UNIPROTKB|Q96LU5	166	IMMP1L "Mitochondrial inner me	0.817	0.837	0.421	8.7e-24
MGI|MGI:1913791	166	Immp1l "IMP1 inner mitochondri	0.8	0.819	0.418	1.8e-23
RGD|1586505	166	LOC687395 "similar to CG9240-P	0.8	0.819	0.425	2.3e-23
ZFIN|ZDB-GENE-070522-4	189	immp1l "IMP1 inner mitochondri	0.8	0.719	0.425	2.3e-23
UNIPROTKB|F1SGP6	166	IMMP1L "Uncharacterized protei	0.823	0.843	0.417	2.9e-23
UNIPROTKB|F1P533	163	IMMP1L "Uncharacterized protei	0.8	0.834	0.411	2.1e-22

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

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 78/152 (51%), Positives = 102/152 (67%)

Query:    14 AKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVC 73
             AKE FE   +V KF C LHV + Y+ +    +GPSMLPT+NLTGD++LAE +S RF K+ 
Sbjct:    16 AKEAFENVSIVAKFLCLLHVTDRYIISTTHVHGPSMLPTLNLTGDVILAEHLSHRFGKIG 75

Query:    74 XXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYE 133
                              TKR++G+EGDR+++ ADP   D   +V+VP+GHVWI+GDN+Y 
Sbjct:    76 LGDVVLVRSPRDPKRMVTKRILGLEGDRLTFSADPLVGDASVSVLVPKGHVWIQGDNLYA 135

Query:   134 SNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL 165
             S DSR FG VPY LIEG+  LR+WPP+ FGSL
Sbjct:   136 STDSRHFGPVPYSLIEGKALLRVWPPEYFGSL 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 = 382 (139.5 bits), Expect = 2.4e-35, P = 2.4e-35
 Identities = 73/159 (45%), Positives = 103/159 (64%)

Query:     8 SLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERIST 67
             S + T ++E  +  +L+ K +C LHV   Y+   A AYGPSM PT++ +G+++LAERIS 
Sbjct:     7 SFWNTASREAMKSGVLLAKLYCFLHVTTNYLGFMAYAYGPSMTPTLHPSGNVLLAERISK 66

Query:    68 RFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE 127
             R+ K                    KRVIG+EGD +S+V D + SD+ +T+VVP+GHV+++
Sbjct:    67 RYQKPSRGDIVVIRSPENPNKTPIKRVIGIEGDCISFVIDSRKSDESQTIVVPKGHVFVQ 126

Query:   128 GDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLG 166
             GD  + S DSR FG VPYGLI+GRV  R+WP +DFG LG
Sbjct:   127 GDYTHNSRDSRNFGTVPYGLIQGRVLWRVWPFQDFGPLG 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 = 345 (126.5 bits), Expect = 2.0e-31, P = 2.0e-31
 Identities = 66/149 (44%), Positives = 95/149 (63%)

Query:     8 SLFVTFAKEGFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERIST 67
             S + T ++E  +  + V K +C LHV   Y+   A AYGPSM+PT++ +G+++LAERIS 
Sbjct:     7 SFWNTASREAMKSGMFVAKVYCFLHVTTNYLGFMAYAYGPSMIPTLHPSGNMLLAERISK 66

Query:    68 RFNKVCXXXXXXXXXXXXXXXXXTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE 127
             R+ K                    KRV+G+EGD +S+V DP  SD+ +T+VVP+GHV+++
Sbjct:    67 RYQKPSRGDIVVIRSPENPNKTPIKRVVGVEGDCISFVIDPVKSDESQTIVVPKGHVFVQ 126

Query:   128 GDNIYESNDSRKFGAVPYGLIEGRVFLRI 156
             GD  + S DSR FG VPYGLI+GRV  R+
Sbjct:   127 GDYTHNSRDSRNFGPVPYGLIQGRVLWRV 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|E2QXR0 IMMP1L "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 62/147 (42%), Positives = 80/147 (54%)

Query:    23 LVG---KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCXXXXXX 79
             LVG   ++ C  H    YV    +  GPSM PTI    D+V AE +S  F  +       
Sbjct:    48 LVGYTIQYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFYGIQRGDIVI 106

Query:    80 XXXXXXXXXXXTKRVIGMEGDRVSYVADPKSSDKFETV-VVPQGHVWIEGDNIYESNDSR 138
                         KRVIG+EGD++   + P  SD F++   VP GHVW+EGDN+  S DSR
Sbjct:   107 AKSPSDPKSNICKRVIGLEGDKI-LTSSP--SDFFKSHNYVPTGHVWLEGDNLQNSTDSR 163

Query:   139 KFGAVPYGLIEGRVFLRIWPPKDFGSL 165
              +G +PYGLI GR+F +IWP  DFG L
Sbjct:   164 YYGPIPYGLIRGRIFFKIWPLSDFGFL 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 = 273 (101.2 bits), Expect = 8.7e-24, P = 8.7e-24
 Identities = 62/147 (42%), Positives = 79/147 (53%)

Query:    23 LVG---KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCXXXXXX 79
             LVG   ++ C  H    YV    +  GPSM PTI    D+V AE +S  F  +       
Sbjct:    12 LVGYTIQYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFYGIQRGDIVI 70

Query:    80 XXXXXXXXXXXTKRVIGMEGDRVSYVADPKSSDKFET-VVVPQGHVWIEGDNIYESNDSR 138
                         KRVIG+EGD++     P  SD F++   VP GHVW+EGDN+  S DSR
Sbjct:    71 AKSPSDPKSNICKRVIGLEGDKI-LTTSP--SDFFKSHSYVPMGHVWLEGDNLQNSTDSR 127

Query:   139 KFGAVPYGLIEGRVFLRIWPPKDFGSL 165
              +G +PYGLI GR+F +IWP  DFG L
Sbjct:   128 CYGPIPYGLIRGRIFFKIWPLSDFGFL 154

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

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

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

GO:0006508 "proteolysis" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISS

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

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

 Score = 270 (100.1 bits), Expect = 1.8e-23, P = 1.8e-23
 Identities = 59/141 (41%), Positives = 77/141 (54%)

Query:    26 KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXX 85
             ++ C  H    YV    +  GPSM PTI    D+V AE +S  F  +             
Sbjct:    18 QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSD 76

Query:    86 XXXXXTKRVIGMEGDRVSYVADPKSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVP 144
                   KRVIG+EGD++   + P  SD F++   VP GHVW+EGDN+  S DSR +G +P
Sbjct:    77 PKSNICKRVIGLEGDKILSTS-P--SDVFKSRSYVPTGHVWLEGDNLQNSTDSRYYGPIP 133

Query:   145 YGLIEGRVFLRIWPPKDFGSL 165
             YGLI GR+F +IWP  DFG L
Sbjct:   134 YGLIRGRIFFKIWPFSDFGFL 154

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

GO:0008150 "biological_process" evidence=ND

GO:0008233 "peptidase activity" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

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

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 60/141 (42%), Positives = 77/141 (54%)

Query:    26 KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXX 85
             ++ C  H    YV    +  GPSM PTI    D+V AE +S  F  +             
Sbjct:    18 QYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NSDIVFAENLSRHFYGIQRGDIVIAKSPSD 76

Query:    86 XXXXXTKRVIGMEGDRVSYVADPKSSDKFETV-VVPQGHVWIEGDNIYESNDSRKFGAVP 144
                   KRVIG+EGD++  +AD    D F++   VP GHVW+EGDN+  S DSR +G VP
Sbjct:    77 PKSSICKRVIGLEGDKI--LAD-NPPDIFKSRNYVPTGHVWLEGDNLENSTDSRCYGPVP 133

Query:   145 YGLIEGRVFLRIWPPKDFGSL 165
             YGLI GR+F +IWP  DFG L
Sbjct:   134 YGLIRGRIFFKIWPFSDFGFL 154

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 60/141 (42%), Positives = 78/141 (55%)

Query:    26 KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXX 85
             ++ C  H    YV       GPSM PTI    D+V +ERIS    ++             
Sbjct:    43 QYGCIAHCAFEYVGEFVSCSGPSMEPTIT-NHDVVFSERISRHLYRIQKGDIIIAKSPSN 101

Query:    86 XXXXXTKRVIGMEGDRVSYVADPKSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVP 144
                   KRVIG+EGD+V   + P  SD F+T   VP+GHVW+EGDN+  S DSR +G +P
Sbjct:   102 PKMNICKRVIGLEGDKVC-TSGP--SDIFKTHTYVPRGHVWLEGDNLRNSTDSRSYGPIP 158

Query:   145 YGLIEGRVFLRIWPPKDFGSL 165
             Y LI GRV L++WPP+ FG L
Sbjct:   159 YALIRGRVCLKLWPPQSFGVL 179

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

GO:0016020 "membrane" evidence=IEA

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

GO:0008233 "peptidase activity" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

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

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

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 61/146 (41%), Positives = 76/146 (52%)

Query:    23 LVG---KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCXXXXXX 79
             LVG   ++ C  H    YV    +  GPSM PTI    D+V AE +S  F  +       
Sbjct:    12 LVGYTIQYGCIAHCAFEYVGGVVMCSGPSMEPTIQ-NPDIVFAENLSRHFYSIQRGDIVI 70

Query:    80 XXXXXXXXXXXTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRK 139
                         KRVIG+EGD++     P    K  + V P GHVW+EGDN+  S DSR 
Sbjct:    71 AKSPSDPKSNICKRVIGLEGDKI-LTNSPSGFFKGHSYV-PTGHVWLEGDNLQNSTDSRY 128

Query:   140 FGAVPYGLIEGRVFLRIWPPKDFGSL 165
             +G VPYGLI GR+F +IWP  DFG L
Sbjct:   129 YGPVPYGLIRGRIFFKIWPLSDFGFL 154

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

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

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

GO:0006508 "proteolysis" evidence=IEA

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

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 58/141 (41%), Positives = 78/141 (55%)

Query:    26 KFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCXXXXXXXXXXXX 85
             ++ C  H    Y+    +  GPSM PTI  + D+V +E +S  F  +             
Sbjct:    15 QYGCIAHCAFEYLGGIVVCSGPSMEPTIQ-SSDIVFSENLSRHFYSIRKGDIVIVKSPTD 73

Query:    86 XXXXXTKRVIGMEGDRVSYVADPKSSDKFET-VVVPQGHVWIEGDNIYESNDSRKFGAVP 144
                   KRVIG+EGD+V   ++P  SD  +T   VP+GHVW+EGDN+  S DSR +G VP
Sbjct:    74 PKSNICKRVIGLEGDKVC-TSNP--SDFLKTHSFVPKGHVWLEGDNLRNSTDSRCYGPVP 130

Query:   145 YGLIEGRVFLRIWPPKDFGSL 165
             YGLI GR+  +IWP  DFG L
Sbjct:   131 YGLIRGRICFKIWPLNDFGFL 151

GO:0006508 "proteolysis" evidence=IEA

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

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

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O74800	IMP1_SCHPO	3, ., 4, ., 2, 1, ., -	0.4225	0.8058	0.8726	yes	no
Q28I39	IMP1L_XENTR	3, ., 4, ., 2, 1, ., -	0.4285	0.8058	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:
	GSVIVG00027940001	SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (167 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00016542001	SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (136 aa)	•								0.440
	GSVIVG00015435001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (203 aa)	•		•				•		0.417
	GSVIVG00021597001	SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (488 aa)	•						•		0.407

---

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	170
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	3e-26
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	8e-20
cd06462	84	cd06462, Peptidase_S24_S26, The S24, S26 LexA/sign	1e-10
TIGR02754	90	TIGR02754, sod_Ni_protease, nickel-type superoxide	6e-10
COG0681	166	COG0681, LepB, Signal peptidase I [Intracellular t	1e-08
pfam00717	69	pfam00717, Peptidase_S24, Peptidase S24-like	7e-07
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	4e-06
pfam10502	138	pfam10502, Peptidase_S26, Signal peptidase, peptid	0.003

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

 Score = 97.3 bits (243), Expect = 3e-26
 Identities = 46/148 (31%), Positives = 65/148 (43%), Gaps = 24/148 (16%)

Query: 34  VNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKR 93
           + T+V  P    G SM PT+   GD +L  + +   +    GD+V+ + P   + I  KR
Sbjct: 15  IRTFVFFPYKVPGGSMEPTLK-EGDRILVNKFAYGTSDPKRGDIVVFKDPDDNKNIYIKR 73

Query: 94  VIGMEGDRV----------------SYVADPKSSD-------KFETVVVPQGHVWIEGDN 130
           VIG+ GD+V                 Y+      D        +  V VP GH ++ GDN
Sbjct: 74  VIGLPGDKVEFRDGKLYINGKKIDEPYLKPNGFLDTSEFNTTDYGPVTVPPGHYFVLGDN 133

Query: 131 IYESNDSRKFGAVPYGLIEGRVFLRIWP 158
              S DSR FG VP   I G+V    +P
Sbjct: 134 RDNSLDSRYFGFVPIDDIIGKVSFVFYP 161

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

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

 Score = 78.4 bits (194), Expect = 8e-20
 Identities = 37/107 (34%), Positives = 49/107 (45%), Gaps = 28/107 (26%)

Query: 46  GPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYV 105
           G SM PT+   GDLVL  ++S  F +   GDVV+ +SP  P + + KRVIG         
Sbjct: 7   GGSMEPTLQ-PGDLVLVNKLSYGFREPKRGDVVVFKSPGDPGKPIIKRVIG--------- 56

Query: 106 ADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRV 152
                              ++ GDN   S DSR +G VP   I G+V
Sbjct: 57  ------------------YFVLGDNRNNSLDSRYWGPVPEDDIVGKV 85

4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa) belong to this family and they process many proteins that enter the ER for retention or for export to the Golgi apparatus, secretory vesicles, plasma membranes or vacuole. An atypical member of the S26 SPase type I family is the TraF peptidase which has the remarkable activity of producing a cyclic protein of the Pseudomonas pilin system. The type I signal peptidases are unique serine proteases that utilize a serine/lysine catalytic dyad mechanism in place of the classical serine/histidine/aspartic acid catalytic triad mechanism. Length = 85

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

 Score = 54.6 bits (132), Expect = 1e-10
 Identities = 37/107 (34%), Positives = 46/107 (42%), Gaps = 29/107 (27%)

Query: 46  GPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYV 105
           G SM PTI   GDLVL ++ S        GD+V+ R P     +  KRVIG+ G      
Sbjct: 7   GDSMEPTIP-DGDLVLVDKSSYEPK---RGDIVVFRLP--GGELTVKRVIGLPG------ 54

Query: 106 ADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRV 152
                          +GH ++ GDN   S DSR  G  P   I G V
Sbjct: 55  ---------------EGHYFLLGDN-PNSPDSRIDGP-PELDIVGVV 84

The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the transport of proteins across membranes in all living organisms. All members in this superfamily are unique serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. Length = 84

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

 Score = 52.8 bits (127), Expect = 6e-10
 Identities = 30/107 (28%), Positives = 47/107 (43%), Gaps = 23/107 (21%)

Query: 46  GPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYV 105
           G SM PT+   GD ++       F     G+VV+VR P+ P  ++ KR+  ++       
Sbjct: 5   GVSMSPTLP-PGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGLIIKRLAAVD------- 56

Query: 106 ADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRV 152
                             +++ GDN   S DSR+ G VP  L+ G+V
Sbjct: 57  ---------------DNGLFLLGDNPKASTDSRQLGPVPRSLLLGKV 88

Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad [Cellular processes, Detoxification, Protein fate, Protein modification and repair]. Length = 90

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

 Score = 51.5 bits (123), Expect = 1e-08
 Identities = 32/108 (29%), Positives = 48/108 (44%), Gaps = 7/108 (6%)

Query: 33  VVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTK 92
            V T+V  P +    SM PT+N  GD VL ++ S  F K       ++  P V    + K
Sbjct: 25  GVRTFVFEPVVVPSGSMEPTLN-VGDRVLVKKFSYGFGK--LKVPDIIVLPAVVEGDLIK 81

Query: 93  RVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKF 140
           RVIG+ GD V +    K    +   ++P+ +  +E DN     D    
Sbjct: 82  RVIGLRGDIVVF----KDDRLYVVPIIPRVYGLVEKDNGKHLVDVIVN 125

Length = 166

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

 Score = 44.1 bits (105), Expect = 7e-07
 Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 7/64 (10%)

Query: 46  GPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYV 105
           G SM PTI   GDL+L ++ S        GD+V+ R       +  KR+IG+ GD +   
Sbjct: 4   GDSMEPTIP-DGDLLLVDKTSE----PKRGDIVVARLDGEEATV--KRLIGLPGDIILLP 56

Query: 106 ADPK 109
           ++P+
Sbjct: 57  SNPE 60

Length = 69

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

 Score = 45.0 bits (107), Expect = 4e-06
 Identities = 27/75 (36%), Positives = 39/75 (52%), Gaps = 19/75 (25%)

Query: 48  SMLPTINLTGDLVLAER--------------ISTRFNKVCPGDVVLVRSPVVPRRIVTKR 93
           SM+PT+ L GD +L E+              I T   K   GD+V+ + P  P+    KR
Sbjct: 91  SMMPTL-LIGDFILVEKFAYGIKDPITQTTLIETGHPK--RGDIVVFKYPEDPKLDYIKR 147

Query: 94  VIGMEGDRVSYVADP 108
           V+G+ GD+V+Y  DP
Sbjct: 148 VVGLPGDKVTY--DP 160

Length = 324

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

 Score = 36.1 bits (84), Expect = 0.003
 Identities = 29/108 (26%), Positives = 43/108 (39%), Gaps = 31/108 (28%)

Query: 75  GDVVLVRSP-----------VVPRRI-VTKRVIGMEGDRVSY-----------VADPKSS 111
           GD+V V  P            +PR + + KRV+ + G RV             V+     
Sbjct: 25  GDLVAVCPPEPAAFFAAERGYLPRGVPLLKRVLALPGQRVCIRDGLVTIDGVPVSAALER 84

Query: 112 DKFETV--------VVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGR 151
           D+            V+P+G +++      +S DSR FG VP   I GR
Sbjct: 85  DRKGRPLPPWQGCRVLPEGELFLMSVTSPDSFDSRYFGPVPASAIIGR 132

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	170
TIGR02227	163	sigpep_I_bact signal peptidase I, bacterial type.	100.0
KOG0171	176	consensus Mitochondrial inner membrane protease, s	100.0
PRK10861	324	signal peptidase I; Provisional	100.0
KOG1568	174	consensus Mitochondrial inner membrane protease, s	99.97
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.94
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.94
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.93
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.9
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.87
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.83
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	99.77
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	99.64
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.62
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	99.29
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	99.26
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	99.2
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	98.81
COG2932	214	Predicted transcriptional regulator [Transcription	98.74
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	98.42
PRK00215	205	LexA repressor; Validated	98.38
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	98.36
PRK12423	202	LexA repressor; Provisional	98.3
COG1974	201	LexA SOS-response transcriptional repressors (RecA	97.78
PF07039	130	DUF1325: SGF29 tudor-like domain; InterPro: IPR010	84.6
PF05257	124	CHAP: CHAP domain; InterPro: IPR007921 The CHAP (c	83.38
TIGR02594	129	conserved hypothetical protein TIGR02594. Members	82.82
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	80.62

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=100.00  E-value=4e-40  Score=247.39  Aligned_cols=139  Identities=33%  Similarity=0.498  Sum_probs=122.4

Q ss_pred             HHHHHHHHHHHHHHhhceEEeEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCC
Q 030877           21 SLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGD  100 (170)
Q Consensus        21 ~~~l~~~~~~~~~~~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD  100 (170)
                      +..++++++++++++.|+++.+.|+|+||+|||+ +||++++++..+...++++||+|+|+.|.++++.++|||+|+|||
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            4556677778888999999999999999999999 999999999887778999999999999877788999999999999


Q ss_pred             EEEEecC-----C----C----CC----------CCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 030877          101 RVSYVAD-----P----K----SS----------DKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIW  157 (170)
Q Consensus       101 ~v~i~~~-----~----~----~~----------~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~  157 (170)
                      +|.++++     +    .    ..          ....+.+||+|||||+|||+++|.|||+||+|++++|+|||.+++|
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            9998765     1    0    00          1234679999999999999999999999999999999999999999


Q ss_pred             CCC
Q 030877          158 PPK  160 (170)
Q Consensus       158 p~~  160 (170)
                      |++
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=4.9e-36  Score=219.70  Aligned_cols=144  Identities=41%  Similarity=0.703  Sum_probs=126.5

Q ss_pred             HHHHHHHHHHHHHhhceEEeEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCE
Q 030877           22 LLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDR  101 (170)
Q Consensus        22 ~~l~~~~~~~~~~~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~  101 (170)
                      ......++++++...|+.++....|.||+||+...||+++.+++++.++.+++||+|++..|.++.+.++|||+|+|||-
T Consensus        16 ~~~~~~~~f~h~t~~yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~~~~~~cKRIva~eGD~   95 (176)
T KOG0171|consen   16 CSEIAYAAFTHVTHEYLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPDPKEHICKRIVAMEGDL   95 (176)
T ss_pred             HHHHHHHHHHHHHHHHhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCCchhhhhheeeccCCce
Confidence            34455566777777899999999999999999867777777999999999999999999999999999999999999998


Q ss_pred             EEEecCCCCC-----CCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCcccC
Q 030877          102 VSYVADPKSS-----DKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSL  165 (170)
Q Consensus       102 v~i~~~~~~~-----~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~~~  165 (170)
                      +++.+++...     .+..++.||+||+||+|||+++|.|||+|||+|...|+||+++++||..+.+..
T Consensus        96 v~v~~~~~~~n~~~e~~~~~i~VP~GhVfv~GDN~~nS~DSr~yGplP~glI~gRvv~r~Wp~s~~~~~  164 (176)
T KOG0171|consen   96 VEVHDGPLVVNDLVEKFSTPIRVPEGHVFVEGDNRNNSLDSRNYGPLPMGLIQGRVVFRIWPPSRVSGL  164 (176)
T ss_pred             EEEecCCcccchhhhhccceeeccCceEEEecCCCCCcccccccCCCchhheeeeEEEEecCchhccee
Confidence            8888775432     223468999999999999999999999999999999999999999999987754

>PRK10861 signal peptidase I; Provisional

Probab=100.00  E-value=5.3e-35  Score=238.90  Aligned_cols=143  Identities=30%  Similarity=0.464  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHHHHHHHHhhceEEeEEEeCCCCcccCCCCCcEEEEEeccCCC------------CCCCCCcEEEEEcCC
Q 030877           17 GFEKSLLVGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRF------------NKVCPGDVVLVRSPV   84 (170)
Q Consensus        17 ~~~~~~~l~~~~~~~~~~~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~------------~~~~~GDiV~f~~p~   84 (170)
                      ++.++..++++++++++++.|+++++.|+|+||+|||. .||+++++|++|.+            .+|++||+|+|+.|.
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            66677777788888899999999999999999999999 99999999998753            579999999999998


Q ss_pred             CCCeeEEEEEEEeCCCEEEEe--cC-----CCC-----------------------------------------------
Q 030877           85 VPRRIVTKRVIGMEGDRVSYV--AD-----PKS-----------------------------------------------  110 (170)
Q Consensus        85 ~~~~~~vkRVva~~GD~v~i~--~~-----~~~-----------------------------------------------  110 (170)
                      +++..++|||+|+|||+|+++  ++     ++.                                               
T Consensus       139 ~~~~~yIKRVIGlPGD~I~~~~~~~~l~iNg~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (324)
T PRK10861        139 DPKLDYIKRVVGLPGDKVTYDPVSKEVTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFQVPLNETK  218 (324)
T ss_pred             CCCCcEEEEeeecCCcEEEEEeCCCEEEEcCccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            888899999999999999986  22     100                                               


Q ss_pred             ------C-----------------C--------------CcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 030877          111 ------S-----------------D--------------KFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVF  153 (170)
Q Consensus       111 ------~-----------------~--------------~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~  153 (170)
                            .                 .              ...+++||+|+||++|||+++|+||||||+|++++|+|+|.
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              01355999999999999999999999999999999999999


Q ss_pred             EEEeCCC
Q 030877          154 LRIWPPK  160 (170)
Q Consensus       154 ~~~~p~~  160 (170)
                      +++|+++
T Consensus       299 ~i~~s~d  305 (324)
T PRK10861        299 AIWMSFE  305 (324)
T ss_pred             EEEEEcC
Confidence            9999886

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

Probab=99.97  E-value=6.3e-32  Score=197.73  Aligned_cols=131  Identities=41%  Similarity=0.708  Sum_probs=114.4

Q ss_pred             HHhhceEEeEEEeCCCCcccCCC-----CCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecC
Q 030877           33 VVNTYVCTPALAYGPSMLPTINL-----TGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVAD  107 (170)
Q Consensus        33 ~~~~~~~~~~~v~~~SM~P~l~~-----~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~  107 (170)
                      -+...+.....+.|.||.|+++|     ..|++++.++.-.-..+.+||+|++..|.+++++++|||+|+|||.+.-   
T Consensus        25 t~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~p~~~~iKRv~alegd~~~t---  101 (174)
T KOG1568|consen   25 TFSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPNDPDKVIIKRVAALEGDIMVT---  101 (174)
T ss_pred             eeeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCChhheeeeeeecccccEecc---
Confidence            34445678899999999999996     2389999998753345889999999999999999999999999998874   


Q ss_pred             CCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCcccCCCC
Q 030877          108 PKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFGSLGRR  168 (170)
Q Consensus       108 ~~~~~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~~~~~~  168 (170)
                        ..+......+|+|||||.|||...|.|||.||||+...|+|+|++++||+.|++.+.++
T Consensus       102 --~~~k~~~v~vpkghcWVegDn~~hs~DSntFGPVS~gli~grai~ilwpP~R~~~~~~~  160 (174)
T KOG1568|consen  102 --EDEKEEPVVVPKGHCWVEGDNQKHSYDSNTFGPVSTGLIVGRAIYILWPPVRWQRLDKE  160 (174)
T ss_pred             --CCCCCCceecCCCcEEEecCCcccccccCccCCcchhheeeeEEEEEcChHHhhhhccc
Confidence              23456788999999999999999999999999999999999999999999999887653

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.94  E-value=1.1e-25  Score=170.00  Aligned_cols=121  Identities=29%  Similarity=0.380  Sum_probs=88.6

Q ss_pred             HHHHHHHHHHHhhceEEeEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCC----------------
Q 030877           24 VGKFFCCLHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPR----------------   87 (170)
Q Consensus        24 l~~~~~~~~~~~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~----------------   87 (170)
                      +++++..+.+...|........++||     |.|-+. ...    ..++++||+|+|+.|.++.                
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~N~T~S~-----P~g~Y~-~~~----~~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p   78 (171)
T TIGR02771         9 AGLALSGLTILGLYCVGARINTTKSL-----PLGLYW-TTS----SKPVERGDYVVFCPPDNPQFEEARERGYLREGLCP   78 (171)
T ss_pred             HHHHHHHHHhhhcceeeEEEECCCCC-----cceEEE-eCC----CCCCCCCcEEEEeCCCchhhhchhhcCcccccccC
Confidence            33333344444555555566777777     455555 322    2589999999999875321                


Q ss_pred             ---eeEEEEEEEeCCCEEEEecC-----CC---------------CCCCcceEEecCCeEEEEcCCCCCCCCCCcccccc
Q 030877           88 ---RIVTKRVIGMEGDRVSYVAD-----PK---------------SSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVP  144 (170)
Q Consensus        88 ---~~~vkRVva~~GD~v~i~~~-----~~---------------~~~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~  144 (170)
                         ..++|||+|+|||+|+++++     +.               ......+.+||+| ||++|||+++|+||||||+|+
T Consensus        79 ~~~~~~vKRViglpGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~G~V~  157 (171)
T TIGR02771        79 GGFGPLLKRVLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRPLPPFPEGVIPPG-FFVVHDTSPTSFDSRYFGPIS  157 (171)
T ss_pred             cCccceEEEEEEeCCCEEEEECCEEEECCEEcccccccccccCCCccccCCCcEECCC-EEEECCCCCCCCcccccceec
Confidence               27999999999999998754     10               0111237899999 999999999999999999999


Q ss_pred             CCCeEEEEEEE
Q 030877          145 YGLIEGRVFLR  155 (170)
Q Consensus       145 ~~~I~Gkv~~~  155 (170)
                      +++|+||+..+
T Consensus       158 ~~~IiGk~~pl  168 (171)
T TIGR02771       158 REQVIGRVKPL  168 (171)
T ss_pred             HHHeEEEEEEe
Confidence            99999999864

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

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.94  E-value=3e-25  Score=168.65  Aligned_cols=107  Identities=21%  Similarity=0.207  Sum_probs=80.6

Q ss_pred             EEeEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCC-------------------CeeEEEEEEEeCC
Q 030877           39 CTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVP-------------------RRIVTKRVIGMEG   99 (170)
Q Consensus        39 ~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~-------------------~~~~vkRVva~~G   99 (170)
                      .......++|+     |.|-+.+. .     .++++||+|+|+.|...                   ...++|||+|+||
T Consensus        29 ~~~~~N~T~S~-----P~glY~~~-~-----~~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva~pG   97 (178)
T PRK13884         29 AGARVNTTKSI-----PVGLYWTS-S-----APVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLAAKG   97 (178)
T ss_pred             CcEEEECCCCC-----cceEEEEe-C-----CCCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEeeCC
Confidence            34445555665     46666653 2     57999999999977521                   1379999999999


Q ss_pred             CEEEEecC-----CC-----------------CCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEE
Q 030877          100 DRVSYVAD-----PK-----------------SSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRI  156 (170)
Q Consensus       100 D~v~i~~~-----~~-----------------~~~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~  156 (170)
                      |+|+++++     +.                 .......+++|+|+||++|||+++|+||||||+|++++|+|++..++
T Consensus        98 D~V~~~~~~l~VNG~~v~~~~~~~~d~~g~~l~~~~~~~~~lp~g~~fvlgd~~~~S~DSRYfG~V~~~~I~G~~~Pl~  176 (178)
T PRK13884         98 DAVSVTDDGVRVNGELLPLSKPILADGAGRPLPRYQANSYTLGESELLLMSDVSATSFDGRYFGPINRSQIKTVIRPVI  176 (178)
T ss_pred             cEEEEECCEEEECCEEccccccccccccCCcccccCCCceEECCCEEEEECCCCCCCCcccccCcccHHHEEEEEEEeE
Confidence            99998765     10                 00112245899999999999999999999999999999999998753

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.93  E-value=1.9e-25  Score=169.24  Aligned_cols=86  Identities=29%  Similarity=0.381  Sum_probs=68.7

Q ss_pred             CCCCCCCcEEEEEcCCCC-------------------CeeEEEEEEEeCCCEEEEecC----CCC---------------
Q 030877           69 FNKVCPGDVVLVRSPVVP-------------------RRIVTKRVIGMEGDRVSYVAD----PKS---------------  110 (170)
Q Consensus        69 ~~~~~~GDiV~f~~p~~~-------------------~~~~vkRVva~~GD~v~i~~~----~~~---------------  110 (170)
                      .+++++||+|+|+.|.+.                   ...++|||+|+|||+|++++.    +..               
T Consensus        48 ~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~V~i~~~v~iNg~~~~~~~~~~~~~~g~~  127 (176)
T PRK13838         48 DRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQRVEIGGSVSIDGRPLPSSSVRRRDGEGRP  127 (176)
T ss_pred             CCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcEEEECCEEEECCEEccccccccccccCCc
Confidence            468999999999987542                   135999999999999998632    100               


Q ss_pred             CCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEE
Q 030877          111 SDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR  155 (170)
Q Consensus       111 ~~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~  155 (170)
                      .....+.+||+|+|||+|||. +|+||||||+|++++|+|+|..+
T Consensus       128 l~~~~~~~vp~g~~fvlgd~~-~S~DSRy~G~V~~~~I~G~a~pi  171 (176)
T PRK13838        128 LTPFPGGVVPPGHLFLHSSFA-GSYDSRYFGPVPASGLLGLARPV  171 (176)
T ss_pred             CCCCCccCcCCCeEEEECCCC-CCCcccccCcccHHHeEEEEEEE
Confidence            011224689999999999985 89999999999999999999875

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

Probab=99.90  E-value=1e-24  Score=159.55  Aligned_cols=86  Identities=31%  Similarity=0.434  Sum_probs=32.3

Q ss_pred             CCCCCCcEEEEEcCCC------------CCeeEEEEEEEeCCCEEEEecCC------------------CC-CCCcceEE
Q 030877           70 NKVCPGDVVLVRSPVV------------PRRIVTKRVIGMEGDRVSYVADP------------------KS-SDKFETVV  118 (170)
Q Consensus        70 ~~~~~GDiV~f~~p~~------------~~~~~vkRVva~~GD~v~i~~~~------------------~~-~~~~~~~~  118 (170)
                      ..+++||+|+|+.|..            .+..++|||+|+|||+|+++++.                  .. ....++.+
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            3589999999999852            24589999999999999987651                  11 11125899


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEE
Q 030877          119 VPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR  155 (170)
Q Consensus       119 ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~  155 (170)
                      ||+|+||++|||+++|+||||||+|++++|+|++..+
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            9999999999999999999999999999999999875

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=99.87  E-value=1.2e-21  Score=133.27  Aligned_cols=89  Identities=34%  Similarity=0.547  Sum_probs=77.7

Q ss_pred             EEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEEecCC
Q 030877           43 LAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQG  122 (170)
Q Consensus        43 ~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~ip~~  122 (170)
                      .|.|+||+|+|+ +||++++++.......+++||+|+|+.|.+++..++||++++++                      +
T Consensus         2 ~V~g~SM~P~l~-~GD~vlv~~~~~~~~~~~~Gdivv~~~~~~~~~~~vkRv~~~~~----------------------~   58 (90)
T TIGR02754         2 KVTGVSMSPTLP-PGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGLIIKRLAAVDD----------------------N   58 (90)
T ss_pred             EeeCCCccCccC-CCCEEEEEEccccCCCCCCCeEEEEecCCCCcceEEEEeeEEcC----------------------C
Confidence            689999999999 99999999854333456789999999887667899999999753                      5


Q ss_pred             eEEEEcCCCCCCCCCCccccccCCCeEEEEEE
Q 030877          123 HVWIEGDNIYESNDSRKFGAVPYGLIEGRVFL  154 (170)
Q Consensus       123 ~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~  154 (170)
                      ++|++|||+..|.|||++|+|+..+|+|+|+|
T Consensus        59 ~~~l~~dN~~~~~d~~~~g~v~~~~I~G~v~~   90 (90)
T TIGR02754        59 GLFLLGDNPKASTDSRQLGPVPRSLLLGKVLW   90 (90)
T ss_pred             eEEEeCCCCCCCCcccccCCCcHHHEEEEEEC
Confidence            79999999999999999999999999999864

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=99.83  E-value=3.1e-20  Score=124.78  Aligned_cols=84  Identities=45%  Similarity=0.680  Sum_probs=75.2

Q ss_pred             eEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEEec
Q 030877           41 PALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP  120 (170)
Q Consensus        41 ~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~ip  120 (170)
                      .+.+.|+||+|+++ .||++++++....+..+++||+|+|+.+.+++..++|||++                        
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 99999999876333379999999999986556889999988                        


Q ss_pred             CCeEEEEcCCCCCCCCCCccccccCCCeEEEE
Q 030877          121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGRV  152 (170)
Q Consensus       121 ~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv  152 (170)
                         ||++|||+++|.|||++|+++.++|+|++
T Consensus        57 ---~~~~gDn~~ns~d~~~~g~~~~~~i~G~~   85 (85)
T cd06530          57 ---YFVLGDNRNNSLDSRYWGPVPEDDIVGKV   85 (85)
T ss_pred             ---EEEeeCCCCCCCccCCcCCCcHHHeEEeC
Confidence               99999999999999999999999999985

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=99.77  E-value=8.9e-18  Score=125.35  Aligned_cols=115  Identities=27%  Similarity=0.279  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhceE--EeE-EEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCee
Q 030877           13 FAKEGFEKSLLVGKFFCCLHVVNTYVC--TPA-LAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRI   89 (170)
Q Consensus        13 ~~~~~~~~~~~l~~~~~~~~~~~~~~~--~~~-~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~   89 (170)
                      +.+++..+++++++++++...+.....  .++ .|.|+||+|+++ +||++++++..  ..++++||+|+|+.|.++ ..
T Consensus         2 ~~~~ii~~~~~~~l~~~~~~~l~~~~~~~~p~v~V~g~SM~Ptl~-~GD~vlv~~~~--~~~~~~GDIVvf~~~~~~-~~   77 (158)
T TIGR02228         2 KISNVIYFILIILLVILLLYGLVSKASGPDPVVVVLSGSMEPTFN-TGDLILVTGAD--PNDIQVGDVITYKSPGFN-TP   77 (158)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHheeeccCCCcEEEEcCCCCcCCcc-CCCEEEEEecc--cCCCCCCCEEEEEECCCC-cc
Confidence            355666666655555555555444333  233 499999999998 99999999854  368999999999988543 78


Q ss_pred             EEEEEEEeCCCEEEEecCCCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEE
Q 030877           90 VTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVF  153 (170)
Q Consensus        90 ~vkRVva~~GD~v~i~~~~~~~~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~  153 (170)
                      ++|||+++.++.                  .+..|++.|||.. ..|   .++++.++|+|++.
T Consensus        78 iihRVi~v~~~~------------------g~~~~~tkGDnN~-~~D---~~~v~~~~IiG~v~  119 (158)
T TIGR02228        78 VTHRVIEINNSG------------------GELGFITKGDNNP-APD---GEPVPSENVIGKYL  119 (158)
T ss_pred             EEEEEEEEECCC------------------CcEEEEEEecCCC-CCC---cccCCHHHEEEEEE
Confidence            999999987530                  1124888899963 345   78999999999998

This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.

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

Probab=99.64  E-value=6.5e-16  Score=112.58  Aligned_cols=88  Identities=26%  Similarity=0.353  Sum_probs=70.7

Q ss_pred             CCCCCcEEEEEcCCC------------CCeeEEEEEEEeCCCEEEEecC-----CC--------------CCCCcceEEe
Q 030877           71 KVCPGDVVLVRSPVV------------PRRIVTKRVIGMEGDRVSYVAD-----PK--------------SSDKFETVVV  119 (170)
Q Consensus        71 ~~~~GDiV~f~~p~~------------~~~~~vkRVva~~GD~v~i~~~-----~~--------------~~~~~~~~~i  119 (170)
                      ...+||+|+++.|..            +..+++|||.|+|||+|.+.++     ++              .-.-..+..+
T Consensus        53 Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I~I~G~~v~~sl~~D~~GR~lp~~~gcR~l  132 (173)
T COG4959          53 PVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGIAIDGKPVAASLPVDRVGRALPRWQGCRYL  132 (173)
T ss_pred             CcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceEEECCEEeeeeccccccCCcCCcccCCcee
Confidence            459999999999852            3567999999999999998654     10              1122345558


Q ss_pred             cCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 030877          120 PQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPP  159 (170)
Q Consensus       120 p~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~  159 (170)
                      .++|+|+++|..+.|+||||||||+.++|+|.+..+ |-.
T Consensus       133 ~~~el~lL~~~~~~SfDsRYfGpipas~vig~aRPv-wt~  171 (173)
T COG4959         133 APSELLLLTDRSSTSFDSRYFGPIPASQVIGVARPV-WTE  171 (173)
T ss_pred             cCCeEEEEeccCCcccccceecccCHHHcceeeeee-ecc
Confidence            999999999999999999999999999999998874 533

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

Probab=99.62  E-value=6.3e-15  Score=109.96  Aligned_cols=129  Identities=30%  Similarity=0.357  Sum_probs=98.8

Q ss_pred             HHHHHHHHHHHHHHHHHH--hhceEEeEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEE
Q 030877           17 GFEKSLLVGKFFCCLHVV--NTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRV   94 (170)
Q Consensus        17 ~~~~~~~l~~~~~~~~~~--~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRV   94 (170)
                      .+.++..++.++++++++  +.++++.+.|+|+||+||++ .||+++++++++.+..++.+|.+  ..|......++||+
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            344555566666666666  89999999999999999999 99999999999988889999988  44445578899999


Q ss_pred             EEeCCCEEEEecCCCCCCCcceEEecCCeEEEE-------cCCCCCCCCCCccccccCCCeEEEE
Q 030877           95 IGMEGDRVSYVADPKSSDKFETVVVPQGHVWIE-------GDNIYESNDSRKFGAVPYGLIEGRV  152 (170)
Q Consensus        95 va~~GD~v~i~~~~~~~~~~~~~~ip~~~y~vl-------gdn~~~s~DSR~~G~V~~~~I~Gkv  152 (170)
                      .+++||.+.++++....    ...+|++..++.       .+....+.+++.++.....+.+.++
T Consensus        84 ~~~~GD~i~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  144 (166)
T COG0681          84 IGLRGDIVVFKDDRLYV----VPIIPRVYGLVEKDNGKHLVDVIVNANSSRVFGIITKKDYIKRV  144 (166)
T ss_pred             ccCCCCEEEEECCEEEe----ecccCcchhhhhcccccccccccccccCccccccccccccccce
Confidence            99999999998652211    234455555544       4444577888888888888888887

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

Probab=99.29  E-value=1.6e-11  Score=89.48  Aligned_cols=124  Identities=21%  Similarity=0.295  Sum_probs=87.4

Q ss_pred             chhhhHHHHHHHHHHHHHHHHHHHHH---HHHHhhceEEeEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEE
Q 030877            5 NQLSLFVTFAKEGFEKSLLVGKFFCC---LHVVNTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVR   81 (170)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~   81 (170)
                      ++|+. +....++++...++.-+.++   +.++...-..+..|.++||+|.++ .||.++.....  ....+.||+|+|+
T Consensus        12 k~mn~-Rq~l~Q~ln~~mivssA~MiwK~l~vvt~seSPiVVVLSgSMePaF~-RGDlLfL~N~~--~~p~~vGdivVf~   87 (180)
T KOG3342|consen   12 KRMNI-RQLLYQVLNFAMIVSSAYMIWKGLMVVTGSESPIVVVLSGSMEPAFH-RGDLLFLTNRN--EDPIRVGDIVVFK   87 (180)
T ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHhhheeeeCCCCCEEEEEcCCcCcccc-cccEEEEecCC--CCcceeccEEEEE
Confidence            34443 66666666655555444443   333334445678999999999999 99999997533  2567999999999


Q ss_pred             cCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEEecCC--eEEEEcCCCCCCCCCCc-c----ccccCCCeEEEEEE
Q 030877           82 SPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQG--HVWIEGDNIYESNDSRK-F----GAVPYGLIEGRVFL  154 (170)
Q Consensus        82 ~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~ip~~--~y~vlgdn~~~s~DSR~-~----G~V~~~~I~Gkv~~  154 (170)
                      .+ ++..+++|||+.+-+.                   .+|  ++++.|||  |..|.|. |    -..++++|+|+|.-
T Consensus        88 ve-gR~IPiVHRviK~he~-------------------~~~~~~~LTKGDN--N~~dD~~Ly~~gq~~L~r~~Ivg~~~G  145 (180)
T KOG3342|consen   88 VE-GREIPIVHRVIKQHEK-------------------SNGHIKFLTKGDN--NAVDDRGLYAQGQNWLERKDIVGRVRG  145 (180)
T ss_pred             EC-CccCchhHHHHHHhcc-------------------cCCcEEEEecCCC--CcccchhcccccccceeccceeeEEee
Confidence            87 4578899999876542                   122  47778999  5566664 2    36899999999864

>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification

Probab=99.26  E-value=6e-11  Score=76.34  Aligned_cols=59  Identities=32%  Similarity=0.461  Sum_probs=47.4

Q ss_pred             EEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecC
Q 030877           43 LAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVAD  107 (170)
Q Consensus        43 ~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~  107 (170)
                      +|.|+||+|+++ +||++++++.    .+++.||+|++..+.+. ..++||+.+.+|+.+.+..+
T Consensus         1 ~V~GdSM~P~i~-~Gd~v~v~~~----~~~~~gdivv~~~~~~~-~~~iKrv~~~~~~~~~~~~~   59 (70)
T PF00717_consen    1 RVEGDSMEPTIK-DGDIVLVDPS----SEPKDGDIVVVKIDGDE-ELYIKRVVGEPGGIILISSN   59 (70)
T ss_dssp             EEESSTTGGTSS-TTEEEEEEET----S---TTSEEEEEETTEE-SEEEEEEEEETTEEEEE-SS
T ss_pred             CeECcCcccCee-CCCEEEEEEc----CCCccCeEEEEEECCce-eeEEEEEEEeCCCEEEEecc
Confidence            589999999998 9999999985    48999999999987421 38999999999998887644

; 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=99.20  E-value=2.4e-10  Score=75.60  Aligned_cols=82  Identities=44%  Similarity=0.595  Sum_probs=63.5

Q ss_pred             eEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEEec
Q 030877           41 PALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVP  120 (170)
Q Consensus        41 ~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~ip  120 (170)
                      .+.+.|+||+|++. +||++++++..   ..++.||++++..+.  +..++||+...++                     
T Consensus         2 ~~~v~g~SM~P~i~-~gd~v~i~~~~---~~~~~G~iv~~~~~~--~~~~ikrl~~~~~---------------------   54 (84)
T cd06462           2 ALRVEGDSMEPTIP-DGDLVLVDKSS---YEPKRGDIVVFRLPG--GELTVKRVIGLPG---------------------   54 (84)
T ss_pred             eeEEcCCCccCccc-CCCEEEEEecC---CCCcCCEEEEEEcCC--CcEEEEEEEEECC---------------------
Confidence            46899999999998 99999999854   248999999999863  5899999998764                     


Q ss_pred             CCeEEEEcCCCCCCCCCCccccccCCCeEEE
Q 030877          121 QGHVWIEGDNIYESNDSRKFGAVPYGLIEGR  151 (170)
Q Consensus       121 ~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gk  151 (170)
                      ++++++.+||+ ++.+.+..+. ....++|+
T Consensus        55 ~~~~~l~~~N~-~~~~~~~~~~-~~~~i~g~   83 (84)
T cd06462          55 EGHYFLLGDNP-NSPDSRIDGP-PELDIVGV   83 (84)
T ss_pred             CCEEEEECCCC-CCCcccccCC-CHHHEEEe
Confidence            36889999994 5555544433 55666665

The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr

>cd06529 S24_LexA-like Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell

Probab=98.81  E-value=8.9e-08  Score=62.93  Aligned_cols=56  Identities=34%  Similarity=0.462  Sum_probs=46.6

Q ss_pred             eEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEE
Q 030877           41 PALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSY  104 (170)
Q Consensus        41 ~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i  104 (170)
                      ..++.|+||+|.++ +||++++++..    .++.||+++++.+   +..++||+...+++++.+
T Consensus         2 ~~~v~g~sM~p~i~-~gd~lii~~~~----~~~~g~i~~~~~~---~~~~ikr~~~~~~~~~~L   57 (81)
T cd06529           2 ALRVKGDSMEPTIP-DGDLVLVDPSD----TPRDGDIVVARLD---GELTVKRLQRRGGGRLRL   57 (81)
T ss_pred             EEEEECCCcCCccC-CCCEEEEcCCC----CCCCCCEEEEEEC---CEEEEEEEEECCCCcEEE
Confidence            36899999999998 99999999853    5999999999976   378999999977554333

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

>COG2932 Predicted transcriptional regulator [Transcription]

Probab=98.74  E-value=1.4e-07  Score=73.54  Aligned_cols=89  Identities=24%  Similarity=0.160  Sum_probs=62.4

Q ss_pred             EeEEEeCCCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEEe
Q 030877           40 TPALAYGPSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVV  119 (170)
Q Consensus        40 ~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~i  119 (170)
                      ....|.|+||+|++. +||.++|++.    .+..+||.|++....  +..++||+.-.+|                    
T Consensus       124 ~~i~V~GDSMeP~~~-~Gd~ilVd~~----~~~~~gd~v~v~~~g--~~~~VK~l~~~~~--------------------  176 (214)
T COG2932         124 FALRVTGDSMEPTYE-DGDTLLVDPG----VNTRRGDRVYVETDG--GELYVKKLQREPG--------------------  176 (214)
T ss_pred             EEEEEeCCccccccc-CCCEEEECCC----CceeeCCEEEEEEeC--CeEEEEEEEEecC--------------------
Confidence            347999999999998 9999999984    467899977776532  6899999988766                    


Q ss_pred             cCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeC
Q 030877          120 PQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWP  158 (170)
Q Consensus       120 p~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p  158 (170)
                        |.+.+..+|++.. +.+.+-.=..=+|+|+|++..-+
T Consensus       177 --~~~~l~S~N~~~~-~~~~~~~~~~v~iIgrVv~~~~~  212 (214)
T COG2932         177 --GLLRLVSLNPDYY-PDEIFSEDDDVEIIGRVVWVSRL  212 (214)
T ss_pred             --CeEEEEeCCCCCC-cccccCccceEEEEEEEEEEeee
Confidence              4555777776432 22221111113589999987543

>TIGR00498 lexA SOS regulatory protein LexA

Probab=98.42  E-value=6.6e-06  Score=63.33  Aligned_cols=88  Identities=22%  Similarity=0.171  Sum_probs=62.4

Q ss_pred             eEEeEEEeCCCCc-ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcce
Q 030877           38 VCTPALAYGPSML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFET  116 (170)
Q Consensus        38 ~~~~~~v~~~SM~-P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~  116 (170)
                      -...+++.|+||. |.+. +||++++++.    ..++.||+|++...   +...+||+.-. |                 
T Consensus       110 ~~f~~~V~GdSM~~~~i~-~Gd~v~v~~~----~~~~~G~ivvv~~~---~~~~vKrl~~~-~-----------------  163 (199)
T TIGR00498       110 AVFLLKVMGDSMVDAGIC-DGDLLIVRSQ----KDARNGEIVAAMID---GEVTVKRFYKD-G-----------------  163 (199)
T ss_pred             CEEEEEecCCCCCCCCCC-CCCEEEEecC----CCCCCCCEEEEEEC---CEEEEEEEEEE-C-----------------
Confidence            3456899999996 6897 9999999874    47899999999973   67899998653 2                 


Q ss_pred             EEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 030877          117 VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPP  159 (170)
Q Consensus       117 ~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~  159 (170)
                           +.+++..+|+...  ...... ..-+|+|+|+..+..+
T Consensus       164 -----~~i~L~s~N~~y~--~i~~~~-~~~~IiG~Vv~~~r~~  198 (199)
T TIGR00498       164 -----TKVELKPENPEFD--PIVLNA-EDVTILGKVVGVIRNF  198 (199)
T ss_pred             -----CEEEEEcCCCCCc--CCcCCC-CcEEEEEEEEEEEEec
Confidence                 4566677776321  111110 1358999999887644

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.

>PRK00215 LexA repressor; Validated

Probab=98.38  E-value=7.9e-06  Score=63.21  Aligned_cols=86  Identities=24%  Similarity=0.232  Sum_probs=60.9

Q ss_pred             eEEeEEEeCCCCc-ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcce
Q 030877           38 VCTPALAYGPSML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFET  116 (170)
Q Consensus        38 ~~~~~~v~~~SM~-P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~  116 (170)
                      -....+|.|+||. |++. +||++++++.    ..++.||+|++..+   +...+||+.-.                   
T Consensus       117 ~~~~~~V~GdSM~~~~i~-~Gd~v~v~~~----~~~~~G~ivv~~~~---~~~~vKrl~~~-------------------  169 (205)
T PRK00215        117 EDFLLRVRGDSMIDAGIL-DGDLVIVRKQ----QTARNGQIVVALID---DEATVKRFRRE-------------------  169 (205)
T ss_pred             CeEEEEEccCCCCCCCcC-CCCEEEEeCC----CCCCCCCEEEEEEC---CEEEEEEEEEe-------------------
Confidence            3456889999995 7998 9999999873    36789999999875   37899999753                   


Q ss_pred             EEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 030877          117 VVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIW  157 (170)
Q Consensus       117 ~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~  157 (170)
                          +|.+++..+|+..  +...... ..-.|+|+|+..+-
T Consensus       170 ----~~~~~L~s~Np~y--~~~~~~~-~~~~IiG~Vv~~~r  203 (205)
T PRK00215        170 ----GGHIRLEPENPAY--EPIIVDP-DRVTIEGKVVGLIR  203 (205)
T ss_pred             ----CCEEEEEcCCCCC--CCEEeCC-CcEEEEEEEEEEEE
Confidence                2456667777532  1211111 03589999988754

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=98.36  E-value=1.1e-05  Score=58.99  Aligned_cols=50  Identities=24%  Similarity=0.334  Sum_probs=40.9

Q ss_pred             EEeEEEeCCCCc-ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEE
Q 030877           39 CTPALAYGPSML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIG   96 (170)
Q Consensus        39 ~~~~~v~~~SM~-P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva   96 (170)
                      ....++.|+||. |++. +||++++++.    .+++.||+|++...   +...+||+.-
T Consensus        51 ~f~l~V~GdSM~~~~I~-~GD~liVd~~----~~~~~Gdivv~~~~---g~~~vKrl~~  101 (139)
T PRK10276         51 TYFVKASGDSMIDAGIS-DGDLLIVDSA----ITASHGDIVIAAVD---GEFTVKKLQL  101 (139)
T ss_pred             EEEEEEecCCCCCCCCC-CCCEEEEECC----CCCCCCCEEEEEEC---CEEEEEEEEE
Confidence            345899999997 6898 9999999974    35789999998863   5678999864

>PRK12423 LexA repressor; Provisional

Probab=98.30  E-value=1.5e-05  Score=61.70  Aligned_cols=85  Identities=22%  Similarity=0.132  Sum_probs=59.7

Q ss_pred             EeEEEeCCCCc-ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEE
Q 030877           40 TPALAYGPSML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVV  118 (170)
Q Consensus        40 ~~~~v~~~SM~-P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~  118 (170)
                      ...+|.|+||. |++. +||++++++.    .+++.||+|++...   +...+||+.-..                    
T Consensus       115 f~l~V~GdSM~~~~i~-~Gd~viv~~~----~~~~~Gdivv~~~~---~~~~vKrl~~~~--------------------  166 (202)
T PRK12423        115 YLLQVQGDSMIDDGIL-DGDLVGVHRS----PEARDGQIVVARLD---GEVTIKRLERSG--------------------  166 (202)
T ss_pred             EEEEEecCcCCCCCcC-CCCEEEEeCC----CcCCCCCEEEEEEC---CEEEEEEEEEeC--------------------
Confidence            35799999997 7998 9999999873    47889999999874   468899986532                    


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 030877          119 VPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIW  157 (170)
Q Consensus       119 ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~  157 (170)
                         +.+++..+|+..  +...+-+-..-.|+|+++..+.
T Consensus       167 ---~~~~L~s~N~~y--~~i~~~~~~~~~I~Gvv~g~~r  200 (202)
T PRK12423        167 ---DRIRLLPRNPAY--APIVVAPDQDFAIEGVFCGLIR  200 (202)
T ss_pred             ---CEEEEEcCCCCC--CCEEcCCCCcEEEEEEEEEEEE
Confidence               356666777522  2222212123489999887653

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

Probab=97.78  E-value=0.00061  Score=52.83  Aligned_cols=88  Identities=22%  Similarity=0.162  Sum_probs=64.2

Q ss_pred             EEeEEEeCCCCc-ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceE
Q 030877           39 CTPALAYGPSML-PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETV  117 (170)
Q Consensus        39 ~~~~~v~~~SM~-P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~  117 (170)
                      ....+|.|+||. +.+. +||+++|++.    .+.+.||+|+...++  .+..+||..--                    
T Consensus       112 ~f~L~V~GdSM~~~gi~-dGDlvvV~~~----~~a~~GdiVvA~i~g--~e~TvKrl~~~--------------------  164 (201)
T COG1974         112 TFFLRVSGDSMIDAGIL-DGDLVVVDPT----EDAENGDIVVALIDG--EEATVKRLYRD--------------------  164 (201)
T ss_pred             eEEEEecCCccccCcCC-CCCEEEEcCC----CCCCCCCEEEEEcCC--CcEEEEEEEEe--------------------
Confidence            445799999995 6665 8999999974    589999999999864  56788998652                    


Q ss_pred             EecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 030877          118 VVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPP  159 (170)
Q Consensus       118 ~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~  159 (170)
                         .+.+++.-.|+.  +.+..+..- .-.|+|+++.++|+.
T Consensus       165 ---g~~i~L~p~Np~--~~~i~~~~~-~~~I~G~vvgv~r~~  200 (201)
T COG1974         165 ---GNQILLKPENPA--YPPIPVDAD-SVTILGKVVGVIRDI  200 (201)
T ss_pred             ---CCEEEEEeCCCC--CCCcccCcc-ceEEEEEEEEEEecC
Confidence               245677767752  222333222 458999999998874

>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes

Probab=84.60  E-value=6.7  Score=28.25  Aligned_cols=56  Identities=11%  Similarity=0.084  Sum_probs=41.0

Q ss_pred             CCCcEEEEEcC--CCCCeeEEEEEEEeCCCE--EEEecCCCCCCCcceEEecCCeEEEEcC
Q 030877           73 CPGDVVLVRSP--VVPRRIVTKRVIGMEGDR--VSYVADPKSSDKFETVVVPQGHVWIEGD  129 (170)
Q Consensus        73 ~~GDiV~f~~p--~~~~~~~vkRVva~~GD~--v~i~~~~~~~~~~~~~~ip~~~y~vlgd  129 (170)
                      ++||-|+++.+  ++.+.+++-+|+...+++  ..+.+..... ....++++..++..+-.
T Consensus         1 q~G~~VAak~~~~~~~~~WIla~Vv~~~~~~~rYeV~D~d~~~-~~~~~~~~~~~iIPLP~   60 (130)
T PF07039_consen    1 QPGDQVAAKVKQGNEEEEWILAEVVKYNSDGNRYEVEDPDPEE-EKKRYKLSRKQIIPLPK   60 (130)
T ss_dssp             -TT-EEEEEECTTTTTCEEEEEEEEEEETTTTEEEEEETTTCT-TTEEEEEEGGGEEEE-S
T ss_pred             CCCCEEEEEcCCCCCCCCEEEEEEEEEeCCCCEEEEecCCCCC-CCceEEeCHHHEEECCC
Confidence            57999999876  455789999999998885  7776543332 33488999999999977

It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.

>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=83.38  E-value=3.8  Score=28.64  Aligned_cols=38  Identities=18%  Similarity=0.205  Sum_probs=25.4

Q ss_pred             CCCCCCcEEEEEcCCCCCeeEEEEEEEe-CCCEEEEecC
Q 030877           70 NKVCPGDVVLVRSPVVPRRIVTKRVIGM-EGDRVSYVAD  107 (170)
Q Consensus        70 ~~~~~GDiV~f~~p~~~~~~~vkRVva~-~GD~v~i~~~  107 (170)
                      ..|++||+++|........-.|--|.++ .++++++.+.
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            6899999999964333344578888888 8888887644

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

>TIGR02594 conserved hypothetical protein TIGR02594

Probab=82.82  E-value=5.2  Score=28.72  Aligned_cols=55  Identities=16%  Similarity=0.116  Sum_probs=31.3

Q ss_pred             CCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeE
Q 030877           70 NKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIE  149 (170)
Q Consensus        70 ~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~  149 (170)
                      .++++||+|+|+..   +.-.|.-+++..+                    ..|.+.++|-|..+..   ..-..++++|+
T Consensus        72 ~~p~~GDiv~f~~~---~~~HVGi~~g~~~--------------------~~g~i~~lgGNq~~~V---~~~~~~~~~~~  125 (129)
T TIGR02594        72 SKPAYGCIAVKRRG---GGGHVGFVVGKDK--------------------QTGTIIVLGGNQGDRV---REALYSRSRIV  125 (129)
T ss_pred             CCCCccEEEEEECC---CCCEEEEEEeEcC--------------------CCCEEEEeeCCCCCeE---EEEEEecccEE
Confidence            47899999999853   2223444444322                    1357888888864433   22233555555


Q ss_pred             E
Q 030877          150 G  150 (170)
Q Consensus       150 G  150 (170)
                      |
T Consensus       126 ~  126 (129)
T TIGR02594       126 A  126 (129)
T ss_pred             E
Confidence            5

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

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

Probab=80.62  E-value=2.3  Score=31.01  Aligned_cols=13  Identities=23%  Similarity=0.371  Sum_probs=11.1

Q ss_pred             CCCCCcEEEEEcC
Q 030877           71 KVCPGDVVLVRSP   83 (170)
Q Consensus        71 ~~~~GDiV~f~~p   83 (170)
                      ...+||+|+|+.+
T Consensus        84 ~~~~GD~i~~~~~   96 (166)
T COG0681          84 IGLRGDIVVFKDD   96 (166)
T ss_pred             ccCCCCEEEEECC
Confidence            5789999999974

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	170
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	3e-06
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	1e-05

>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 = 44.9 bits (106), Expect = 3e-06
 Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 107 DPKSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIW 157
             +   +  T +VP G  ++ GDN   S DSR +G VP   + GR    IW
Sbjct: 176 YQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATA-IW 225

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

 Score = 42.9 bits (101), Expect = 1e-05
 Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 13/74 (17%)

Query: 48  SMLPTINLTGDLVLAERIS------------TRFNKVCPGDVVLVRSPVVPRRIVTKRVI 95
           SM+PT+ L GD +L E+ +                    GD+V+ + P  P+    KR +
Sbjct: 15  SMMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPEDPKLDYIKRAV 73

Query: 96  GMEGDRVSYVADPK 109
           G+ GD+V+Y    K
Sbjct: 74  GLPGDKVTYDPVSK 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	170
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	100.0
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	99.32
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	99.13
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	98.88
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	98.88
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	98.82
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	98.6
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	96.72

>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=8.5e-36  Score=236.36  Aligned_cols=128  Identities=31%  Similarity=0.492  Sum_probs=109.2

Q ss_pred             HhhceEEeEEEeCCCCcccCCCCCcEEEEEeccCC------------CCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCE
Q 030877           34 VNTYVCTPALAYGPSMLPTINLTGDLVLAERISTR------------FNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDR  101 (170)
Q Consensus        34 ~~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~------------~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~  101 (170)
                      ++.|+++.+.|.|+||+|||+ .||++++++..|.            ..++++||+|+|+.|.+++..++|||+|+|||+
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            457899999999999999999 9999999998653            258999999999998777889999999999999


Q ss_pred             EEEecC-------C-----------CCC--------C-------------------------------------------
Q 030877          102 VSYVAD-------P-----------KSS--------D-------------------------------------------  112 (170)
Q Consensus       102 v~i~~~-------~-----------~~~--------~-------------------------------------------  112 (170)
                      |.++++       +           ...        .                                           
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            998765       2           100        0                                           


Q ss_pred             ----------------------CcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCc
Q 030877          113 ----------------------KFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDF  162 (170)
Q Consensus       113 ----------------------~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~~~~  162 (170)
                                            ...+++||+|+|||||||+++|.|||+||+|++++|+|||++++||+++.
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                                  11256999999999999999999999999999999999999999988854

>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=99.32  E-value=1.9e-11  Score=84.87  Aligned_cols=90  Identities=26%  Similarity=0.348  Sum_probs=69.8

Q ss_pred             EeEEEeCCCCc------ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCC
Q 030877           40 TPALAYGPSML------PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDK  113 (170)
Q Consensus        40 ~~~~v~~~SM~------P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~  113 (170)
                      ...+|.|+||+      |++. +||++++++.    .+++.||+|++..+.  +...+||+...+               
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            35789999999      9998 9999999984    369999999998753  478999998743               


Q ss_pred             cceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCcc
Q 030877          114 FETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFG  163 (170)
Q Consensus       114 ~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  163 (170)
                              |.+++.+||+..  ......  ..-+|+|++++.+||+..|+
T Consensus        72 --------~~~~L~s~N~~y--~~~~~~--~~~~IiG~Vv~~~~~~~~~~  109 (109)
T 1kca_A           72 --------GQVFLQPLNPQY--PMIPCN--ESCSVVGKVIASQWPEETFG  109 (109)
T ss_dssp             --------TEEEEECSSTTS--CCEECC--TTCEEEEEEEEEECCGGGGC
T ss_pred             --------CEEEEEECCCCC--CCEEcC--CCcEEEEEEEEEEeCHHHcC
Confidence                    467788888632  111111  35689999999999987664

>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=99.13  E-value=3.6e-10  Score=78.95  Aligned_cols=87  Identities=18%  Similarity=0.131  Sum_probs=62.8

Q ss_pred             EEeEEEeCCCCcc-cCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceE
Q 030877           39 CTPALAYGPSMLP-TINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETV  117 (170)
Q Consensus        39 ~~~~~v~~~SM~P-~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~  117 (170)
                      ....+|.|+||+| +++ +||++++++.    .+++.||+|++..+   +...+||+...+                   
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 9999999984    36999999999875   478999998732                   


Q ss_pred             EecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCC
Q 030877          118 VVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPP  159 (170)
Q Consensus       118 ~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~  159 (170)
                           .+++.+||+.  +.......-..-+|+|++++.+..+
T Consensus        80 -----~~~L~s~N~~--y~~~~i~~~~~~~IiG~Vv~~~r~~  114 (116)
T 1umu_A           80 -----TVQLIPMNSA--YSPITISSEDTLDVFGVVIHVVKAA  114 (116)
T ss_dssp             -----SCEEECSSTT--SCCEECCTTSCEEEEEEEEEEEC--
T ss_pred             -----cEEEECCCCC--CCCEEcCCCCeEEEEEEEEEEEEec
Confidence                 4667777752  1111111112347999999987654

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

Probab=98.88  E-value=1.8e-08  Score=76.36  Aligned_cols=87  Identities=24%  Similarity=0.178  Sum_probs=61.7

Q ss_pred             EeEEEeCCCCccc-CCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEE
Q 030877           40 TPALAYGPSMLPT-INLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVV  118 (170)
Q Consensus        40 ~~~~v~~~SM~P~-l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~  118 (170)
                      ...+|.|+||+|+ +. +||++++++.    .+++.||+|++...   +...+||+. .+|+                  
T Consensus       111 ~~~~v~GdSM~p~~i~-~Gd~v~vd~~----~~~~~G~i~v~~~~---~~~~vKrl~-~~~~------------------  163 (202)
T 1jhf_A          111 FLLRVSGMSMKDIGIM-DGDLLAVHKT----QDVRNGQVVVARID---DEVTVKRLK-KQGN------------------  163 (202)
T ss_dssp             EEEECCSSTTGGGTCC-TTCEEEEEEC----SCCCTTSEEEEEET---TEEEEEEEE-EETT------------------
T ss_pred             EEEEECCCCCCCCCCC-CCCEEEEecc----CCcCCCeEEEEEEC---CEEEEEEEE-EeCC------------------
Confidence            4578899999999 98 9999999884    36899999999874   578999998 3554                  


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccc-cccCCCeEEEEEEEEeCC
Q 030877          119 VPQGHVWIEGDNIYESNDSRKFG-AVPYGLIEGRVFLRIWPP  159 (170)
Q Consensus       119 ip~~~y~vlgdn~~~s~DSR~~G-~V~~~~I~Gkv~~~~~p~  159 (170)
                          .+++.+||+..  ...... .-..-+|+|+|++.+..+
T Consensus       164 ----~~~l~s~N~~y--~~~~~~~~~~~~~IiG~Vv~~~r~~  199 (202)
T 1jhf_A          164 ----KVELLPENSEF--KPIVVDLRQQSFTIEGLAVGVIRNG  199 (202)
T ss_dssp             ----EEEEECSSTTC--CCEEEETTTSCEEEEEEEEEEEEC-
T ss_pred             ----EEEEEECCCCC--CCEEccCCCCceEEEEEEEEEEEcc
Confidence                55666676421  111111 012236999999987654

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

Probab=98.88  E-value=2e-08  Score=71.71  Aligned_cols=82  Identities=21%  Similarity=0.198  Sum_probs=61.5

Q ss_pred             EeEEEeCCCCc------ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCC
Q 030877           40 TPALAYGPSML------PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDK  113 (170)
Q Consensus        40 ~~~~v~~~SM~------P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~  113 (170)
                      ...+|.|+||+      |++. +||++++++.    .+++.||+|++..+.  +...+||+...+               
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            45789999999      9998 9999999984    478999999998753  578999997633               


Q ss_pred             cceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEE
Q 030877          114 FETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLR  155 (170)
Q Consensus       114 ~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~  155 (170)
                              |.+++.+||+..  ......  ..-+|+|+|++.
T Consensus       103 --------~~~~L~s~N~~y--~~~~~~--~~~~IiG~Vv~~  132 (133)
T 2hnf_A          103 --------GQVFLQPLNPQY--PMIPCN--ESCSVVGKVIAS  132 (133)
T ss_dssp             --------TEEEEECSSTTS--CCEECS--TTEEEEEEEEEE
T ss_pred             --------CeEEEEECCCCC--CCEEcC--CCCEEEEEEEEE
Confidence                    467777888632  111111  345799999874

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

Probab=98.82  E-value=1.2e-08  Score=78.76  Aligned_cols=90  Identities=26%  Similarity=0.352  Sum_probs=67.1

Q ss_pred             EeEEEeCCCCc------ccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCC
Q 030877           40 TPALAYGPSML------PTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDK  113 (170)
Q Consensus        40 ~~~~v~~~SM~------P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~  113 (170)
                      ...+|.|+||+      |++. +||++++++.    .+++.||+|++...  .+...+||+...+               
T Consensus       141 ~~l~V~GdSM~~~~g~~P~i~-~Gd~v~vd~~----~~~~~g~ivv~~~~--~~~~~vKrl~~~~---------------  198 (236)
T 3bdn_A          141 FWLEVEGNSMTAPTGSKPSFP-DGMLILVDPE----QAVEPGDFCIARLG--GDEFTFKKLIRGS---------------  198 (236)
T ss_dssp             EEEECCSSSSCCCSSCSSCCC-SSCEEEECCS----SCCCTTSEEEEEST--TTCCCCEEEECCS---------------
T ss_pred             EEEEEeCCCcCCCCCCCCcCC-CCCEEEECCC----CCCCCCcEEEEEEC--CCeEEEEEEEEcC---------------
Confidence            35689999999      9998 9999999874    37899999999863  2567899997643               


Q ss_pred             cceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCcc
Q 030877          114 FETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFG  163 (170)
Q Consensus       114 ~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  163 (170)
                              |.+++.+||+..  .....-  ..-.|+|+|++..||...|+
T Consensus       199 --------~~~~L~s~N~~y--~~~~~~--~~~~IiG~Vv~~~~~~~~~~  236 (236)
T 3bdn_A          199 --------GQVFLQPLNPQY--PMIPCN--ESCSVVGKVIASQWPEETFG  236 (236)
T ss_dssp             --------SSCEEECSSTTS--CCBC----CCCEEEEEEEECCCCSSSCC
T ss_pred             --------CcEEEEeCCCCC--CCeecC--CCcEEEEEEEEEEcCHHhcC
Confidence                    356677777521  111111  34579999999999988774

>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=98.60  E-value=5.8e-07  Score=67.92  Aligned_cols=85  Identities=24%  Similarity=0.136  Sum_probs=62.1

Q ss_pred             EEeEEEeCCCC-cccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceE
Q 030877           39 CTPALAYGPSM-LPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETV  117 (170)
Q Consensus        39 ~~~~~v~~~SM-~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~  117 (170)
                      ....+|.|+|| +|++. +||++++++.    ..++.||+|++...   +...+||+.-.+                   
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 9999999984    36899999999875   588999996532                   


Q ss_pred             EecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEe
Q 030877          118 VVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIW  157 (170)
Q Consensus       118 ~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~  157 (170)
                          |.+++..+|+..  .....- -..-.|+|+|++.+.
T Consensus       162 ----~~~~L~~~N~~y--~~i~i~-~~~~~i~G~Vv~~~r  194 (196)
T 3k2z_A          162 ----DTVELRPANREM--SSMFFR-AEKVKILGKVVGVFR  194 (196)
T ss_dssp             ----TEEEEECSCTTS--CCEEEE-GGGCEEEEEEEEEEE
T ss_pred             ----CEEEEEECCCCC--CCEEec-CCCEEEEEEEEEEEE
Confidence                466777777522  111111 123489999998764

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

Probab=96.72  E-value=0.0097  Score=43.73  Aligned_cols=75  Identities=13%  Similarity=0.159  Sum_probs=48.7

Q ss_pred             CCCcccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEEecCCeEEE
Q 030877           47 PSMLPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVVVPQGHVWI  126 (170)
Q Consensus        47 ~SM~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~ip~~~y~v  126 (170)
                      ++|...-. +||++++++.     .+..|+++++...   +...+||+.-.+|+                      .+.+
T Consensus       113 ~~~~~v~~-~Gd~v~Vd~~-----~~~~g~i~vv~~~---g~~~vKrl~~~~~~----------------------~i~L  161 (189)
T 2fjr_A          113 TDGMAIRS-EGKIYFVDKQ-----ASLSDGLWLVDIK---GAISIRELTKLPGR----------------------KLHV  161 (189)
T ss_dssp             SSEEEEEE-TTEEEEEETT-----CCSCSEEEEEEET---TEEEEEEEEEETTT----------------------EEEE
T ss_pred             CCeEEEee-CCcEEEEEcC-----CccCCCEEEEEeC---CeEEEEEEEECCCC----------------------EEEE
Confidence            34444444 8999999873     3677999999864   57899999876655                      4445


Q ss_pred             EcCCCCCCCCCCccccccCCCeEEEEEEEEeC
Q 030877          127 EGDNIYESNDSRKFGAVPYGLIEGRVFLRIWP  158 (170)
Q Consensus       127 lgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p  158 (170)
                      ..+|++.     ..- ...=.|+|+|++.+..
T Consensus       162 ~s~N~~~-----~i~-~~~i~IiG~Vv~~~r~  187 (189)
T 2fjr_A          162 AGGKVPF-----ECG-IDDIKTLGRVVGVYSE  187 (189)
T ss_dssp             ESSSSCE-----EEE-TTSSEEEEEEEEEEEE
T ss_pred             EeCCCCe-----Eec-ccceEEEEEEEEEEEe
Confidence            5555411     110 1334699999987643

---

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	170
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	2e-10
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	7e-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 = 55.4 bits (132), Expect = 2e-10
 Identities = 16/50 (32%), Positives = 23/50 (46%)

Query: 109 KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWP 158
           +   +  T +VP G  ++ GDN   S DSR +G VP   + GR       
Sbjct: 177 QPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMS 226

>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 = 36.5 bits (83), Expect = 7e-04
 Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 13/81 (16%)

Query: 36  TYVCTPALAYGPSMLPTINLTGDLVLAERISTRF------------NKVCPGDVVLVRSP 83
           +++  P      SM+PT+ L GD +L E+ +                    GD+V+ + P
Sbjct: 2   SFIYEPFQIPSGSMMPTL-LIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 60

Query: 84  VVPRRIVTKRVIGMEGDRVSY 104
             P+    KR +G+ GD+V+Y
Sbjct: 61  EDPKLDYIKRAVGLPGDKVTY 81

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	170
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	100.0
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	99.13
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	98.81
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	98.55
d2io8a2	191	Glutathionylspermidine synthase, amidase domain {E	82.2

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

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

Probab=100.00  E-value=5.4e-37  Score=240.43  Aligned_cols=126  Identities=29%  Similarity=0.492  Sum_probs=110.3

Q ss_pred             hhceEEeEEEeCCCCcccCCCCCcEEEEEeccCCCC------------CCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEE
Q 030877           35 NTYVCTPALAYGPSMLPTINLTGDLVLAERISTRFN------------KVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRV  102 (170)
Q Consensus        35 ~~~~~~~~~v~~~SM~P~l~~~Gd~v~v~~~~~~~~------------~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v  102 (170)
                      +.|+++++.|+|+||+|||+ .||+++|+|++|.++            .+++||+|+|+.|.++...++|||+|+|||++
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 999999999887654            45999999999998888899999999999999


Q ss_pred             EEecCC--------------------------------------------------------------------------
Q 030877          103 SYVADP--------------------------------------------------------------------------  108 (170)
Q Consensus       103 ~i~~~~--------------------------------------------------------------------------  108 (170)
                      .+.+..                                                                          
T Consensus        80 ~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (247)
T d1b12a_          80 TYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKETLGDVTH  159 (247)
T ss_dssp             EEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEEEETTEEE
T ss_pred             EEecccceEEecccccccceeecceeecccccCcccceeeeeeccCceeccceeeccccccccCceEeeeeeeccCCcce
Confidence            875320                                                                          


Q ss_pred             -----------------CCCCCcceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCC
Q 030877          109 -----------------KSSDKFETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKD  161 (170)
Q Consensus       109 -----------------~~~~~~~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~~~  161 (170)
                                       .......+++||+|||||||||+++|.|||+||+||+++|+|||++++||+++
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Vp~~~yfvmGDNR~nS~DSR~wG~Vp~~~I~Gka~~i~~p~~~  229 (247)
T d1b12a_         160 RILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYWGFVPEANLVGRATAIWMSFDK  229 (247)
T ss_dssp             EEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHHCCEEGGGEEEEEEEEEEEBC-
T ss_pred             eEEecccchhcccccccCCccccceEEEeCCeEEEecCCCCCCccccccCcCCHHHeEEEEEEEEEECCC
Confidence                             01123457899999999999999999999999999999999999999999764

>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=99.13  E-value=3.9e-10  Score=75.54  Aligned_cols=89  Identities=26%  Similarity=0.357  Sum_probs=67.0

Q ss_pred             eEEEeCCCC------cccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCc
Q 030877           41 PALAYGPSM------LPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKF  114 (170)
Q Consensus        41 ~~~v~~~SM------~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~  114 (170)
                      ..+|.|+||      +|++. +||++++++.    .+++.||+|++....  +...+||+.-.                 
T Consensus         7 ~l~V~GdSM~~~~~~ep~i~-~Gd~viVd~~----~~~~~g~ivva~~~~--~~~~vKr~~~~-----------------   62 (101)
T d1f39a_           7 WLEVEGNSMTAPTGSKPSFP-DGMLILVDPE----QAVEPGDFCIARLGG--DEFTFKKLIRD-----------------   62 (101)
T ss_dssp             EEECCSSTTCCCTTCSSCCC-TTCEEEEETT----SCCCTTCEEEEECTT--SCEEEEEEEEE-----------------
T ss_pred             EEEEeCCccCCCcccCCCcC-CCCEEEEEec----CccCCCCEEEEEECC--CeEEEEEEEEc-----------------
Confidence            468999999      79998 9999999984    478999999887643  45688999653                 


Q ss_pred             ceEEecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEEeCCCCcc
Q 030877          115 ETVVVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRIWPPKDFG  163 (170)
Q Consensus       115 ~~~~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~~p~~~~~  163 (170)
                            ++.+++..+|+..  ......  ..-+|+|+|+...||-..||
T Consensus        63 ------~~~~~L~s~N~~y--~~i~~~--~~~~IiG~Vv~s~~p~~~~~  101 (101)
T d1f39a_          63 ------SGQVFLQPLNPQY--PMIPCN--ESCSVVGKVIASQWPEETFG  101 (101)
T ss_dssp             ------TTEEEEECSSTTS--CCEECS--TTCEEEEEEEEEECCGGGGC
T ss_pred             ------CCEEEEEECCCCC--CCCcCC--CCcEEEEEEEEEECcHHHCC
Confidence                  3567777888632  122221  24589999999999987775

>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=98.81  E-value=2.3e-08  Score=69.20  Aligned_cols=85  Identities=24%  Similarity=0.144  Sum_probs=61.6

Q ss_pred             EeEEEeCCCCccc-CCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceEE
Q 030877           40 TPALAYGPSMLPT-INLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETVV  118 (170)
Q Consensus        40 ~~~~v~~~SM~P~-l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~~  118 (170)
                      ...+|.|+||+|+ +. +||++++++.    .+++.||+|++...   ++..+||+.-.                     
T Consensus        39 f~lrV~GdSM~~~~i~-~gd~viv~~~----~~~~~G~ivv~~~~---ge~~vKrl~~~---------------------   89 (126)
T d1jhfa2          39 FLLRVSGMSMKDIGIM-DGDLLAVHKT----QDVRNGQVVVARID---DEVTVKRLKKQ---------------------   89 (126)
T ss_dssp             EEEECCSSTTGGGTCC-TTCEEEEEEC----SCCCTTSEEEEEET---TEEEEEEEEEE---------------------
T ss_pred             EEEEEcCCcccCcccC-CCEEEEEecc----ccccCCCEEEEEEC---CEEEEEEEEEc---------------------
Confidence            3579999999997 87 9999999984    48999999999975   57899999763                     


Q ss_pred             ecCCeEEEEcCCCCCCCCCCccc-cccCCCeEEEEEEEEe
Q 030877          119 VPQGHVWIEGDNIYESNDSRKFG-AVPYGLIEGRVFLRIW  157 (170)
Q Consensus       119 ip~~~y~vlgdn~~~s~DSR~~G-~V~~~~I~Gkv~~~~~  157 (170)
                        +|.+++..+|+..+  ...+. .-..=.|+|+|+..+.
T Consensus        90 --~~~~~L~s~N~~y~--pi~~~~~~~~~~IiG~Vv~vir  125 (126)
T d1jhfa2          90 --GNKVELLPENSEFK--PIVVDLRQQSFTIEGLAVGVIR  125 (126)
T ss_dssp             --TTEEEEECSSTTCC--CEEEETTTSCEEEEEEEEEEEE
T ss_pred             --CCEEEEecCCcCCC--CeEccCCCCcEEEEEEEEEEEC
Confidence              35677778876321  11111 0011269999988753

>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=98.55  E-value=3.4e-07  Score=61.23  Aligned_cols=84  Identities=19%  Similarity=0.121  Sum_probs=59.7

Q ss_pred             EEeEEEeCCCC-cccCCCCCcEEEEEeccCCCCCCCCCcEEEEEcCCCCCeeEEEEEEEeCCCEEEEecCCCCCCCcceE
Q 030877           39 CTPALAYGPSM-LPTINLTGDLVLAERISTRFNKVCPGDVVLVRSPVVPRRIVTKRVIGMEGDRVSYVADPKSSDKFETV  117 (170)
Q Consensus        39 ~~~~~v~~~SM-~P~l~~~Gd~v~v~~~~~~~~~~~~GDiV~f~~p~~~~~~~vkRVva~~GD~v~i~~~~~~~~~~~~~  117 (170)
                      ....+|.|+|| .|.+. +||++++++.    .+++.||+|++...   ++..+||..- .                   
T Consensus        20 ~f~~rV~GdSM~~~gI~-~GDlliVd~~----~~~~~g~ivva~i~---ge~~vKrl~~-~-------------------   71 (105)
T d1umua_          20 TYFVKASGDSMIDGGIS-DGDLLIVDSA----ITASHGDIVIAAVD---GEFTVKKLQL-R-------------------   71 (105)
T ss_dssp             EEEEECCSSTTGGGTCC-TTCEEEEETT----SCCCTTCEEEEEET---TEEEEEEEEC-S-------------------
T ss_pred             eEEEEEcCCccccCccC-CCCEEEEEcc----cccccCcEEEEEEC---CEEEEEEEEE-C-------------------
Confidence            34689999999 58898 9999999985    47999999999985   5789999843 2                   


Q ss_pred             EecCCeEEEEcCCCCCCCCCCccccccCCCeEEEEEEEE
Q 030877          118 VVPQGHVWIEGDNIYESNDSRKFGAVPYGLIEGRVFLRI  156 (170)
Q Consensus       118 ~ip~~~y~vlgdn~~~s~DSR~~G~V~~~~I~Gkv~~~~  156 (170)
                          |..+++.+|+.  ++.....+-..-.|.|++...+
T Consensus        72 ----~~~~L~~~N~~--y~~i~i~~~~~~~I~GvVv~vi  104 (105)
T d1umua_          72 ----PTVQLIPMNSA--YSPITISSEDTLDVFGVVIHVV  104 (105)
T ss_dssp             ----SSCEEECSSTT--SCCEECCTTSCEEEEEEEEEEE
T ss_pred             ----CcEEEECCCCC--CCCEEcCCCCCEEEEEEEEEEE
Confidence                23455666652  2332222222335899998764

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

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

Probab=82.20  E-value=3.5  Score=28.87  Aligned_cols=60  Identities=10%  Similarity=0.119  Sum_probs=39.4

Q ss_pred             CCCCCCcEEEEEcC-CCCCeeEEEEEEEeCCCEEEEecCC---------CCCCCcceEEecCCeEEEEcC
Q 030877           70 NKVCPGDVVLVRSP-VVPRRIVTKRVIGMEGDRVSYVADP---------KSSDKFETVVVPQGHVWIEGD  129 (170)
Q Consensus        70 ~~~~~GDiV~f~~p-~~~~~~~vkRVva~~GD~v~i~~~~---------~~~~~~~~~~ip~~~y~vlgd  129 (170)
                      ..|++||++++... +....=.|..|+.+.+|+|.+-+..         ..-....+++..+|.|++..+
T Consensus       101 ~~P~~Gdllv~~~~~~~~~~GHVavV~~v~~~~v~i~EQN~~~~~w~~g~~ysR~l~l~~~~g~y~i~~~  170 (191)
T d2io8a2         101 RAPVAGALLIWDKGGEFKDTGHVAIITQLHGNKVRIAEQNVIHSPLPQGQQWTRELEMVVENGCYTLKDT  170 (191)
T ss_dssp             SCCCTTCEEEECSBTTBTTTCEEEEEEEECSSEEEEECSSSCCSCCCTTCCCSEEEEEEEETTEEEEECS
T ss_pred             CCCCCCcEEEECCCCCCCCceeEEEEEEeCCCEEEEEeccccCCCCCCCCCeeEEEEEEEECCEEEEEec
Confidence            46999999999743 2223347778899999999986442         111113455566777777643