Query 045607
Match_columns 143
No_of_seqs 34 out of 36
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 03:42:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045607.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045607hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0443 Actin regulatory prote 66.4 4.4 9.5E-05 40.0 2.4 37 2-46 19-55 (827)
2 PF13229 Beta_helix: Right han 63.3 20 0.00044 24.6 4.7 29 9-37 36-66 (158)
3 PF11356 Pilus_PilP: Type IV p 48.8 31 0.00066 23.3 3.6 38 91-128 44-83 (87)
4 PF03212 Pertactin: Pertactin; 45.2 61 0.0013 24.1 5.0 18 52-69 76-93 (121)
5 PF03639 Glyco_hydro_81: Glyco 41.8 1.4E+02 0.0031 28.4 8.0 74 52-138 147-226 (695)
6 COG4466 Veg Uncharacterized pr 35.5 64 0.0014 23.8 3.7 32 39-70 21-62 (80)
7 PF14289 DUF4369: Domain of un 35.1 91 0.002 20.7 4.2 38 45-84 15-53 (106)
8 COG5434 PGU1 Endopygalactoruna 32.6 1.2E+02 0.0027 28.6 6.0 55 36-92 308-382 (542)
9 PF14199 DUF4317: Domain of un 32.4 27 0.00059 31.3 1.6 15 4-18 18-32 (371)
10 PF05048 NosD: Periplasmic cop 28.9 2.8E+02 0.006 21.5 9.7 86 7-97 46-139 (236)
11 PF01200 Ribosomal_S28e: Ribos 24.0 60 0.0013 23.2 1.8 29 34-65 33-63 (69)
12 PF07581 Glug: The GLUG motif; 23.2 30 0.00066 20.2 0.2 9 7-15 16-24 (28)
13 PF08378 NERD: Nuclease-relate 21.5 2.4E+02 0.0051 19.2 4.4 41 63-104 33-73 (115)
14 COG3354 FlaG Putative archaeal 21.0 2.9E+02 0.0063 22.6 5.4 39 52-102 78-116 (154)
15 cd01344 PL2_Passenger_AT Perta 20.7 4.6E+02 0.0099 21.3 6.5 75 24-105 78-183 (188)
No 1
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=66.38 E-value=4.4 Score=39.97 Aligned_cols=37 Identities=41% Similarity=0.546 Sum_probs=27.7
Q ss_pred CCCceeeEeeeeecccceeeeCceEEEEEceEEeecceEEEEeec
Q 045607 2 PGNTQTRIVNSYMDCTGIVAEDPVQLHISSNFFLGDAFIVLKSIN 46 (143)
Q Consensus 2 pg~tqTRI~NcYlDyt~IV~EDPvql~Is~~fFLGDanIvLks~~ 46 (143)
||+-.=||+|-=| -||.-.=-+.||.|||||||+.+.
T Consensus 19 pGl~IWRIe~f~l--------v~VP~s~~G~Fy~GdaYIvL~t~~ 55 (827)
T KOG0443|consen 19 PGLEIWRIENFEL--------VPVPKSSHGKFYTGDAYIVLKTTL 55 (827)
T ss_pred CceEEEEeccCee--------eecchhccCceecCceEEEEehhh
Confidence 6777778877433 255555668999999999999655
No 2
>PF13229 Beta_helix: Right handed beta helix region; PDB: 2INV_C 2INU_C 1RU4_A.
Probab=63.34 E-value=20 Score=24.61 Aligned_cols=29 Identities=24% Similarity=0.264 Sum_probs=11.4
Q ss_pred Eeeeeecc--cceeeeCceEEEEEceEEeec
Q 045607 9 IVNSYMDC--TGIVAEDPVQLHISSNFFLGD 37 (143)
Q Consensus 9 I~NcYlDy--t~IV~EDPvql~Is~~fFLGD 37 (143)
|.||.+.. ++|-+++.-.+.++++.|-+-
T Consensus 36 i~n~~i~~~~~gi~~~~~~~~~i~~~~~~~~ 66 (158)
T PF13229_consen 36 IENCTISNGGYGIYVSGGSNVTISNNTISDN 66 (158)
T ss_dssp EES-EEESSTTSEEEECCES-EEES-EEES-
T ss_pred EECeEEECCCcEEEEecCCCeEEECeEEEEc
Confidence 44444433 444444444444444444443
No 3
>PF11356 Pilus_PilP: Type IV pilus biogenesis; InterPro: IPR022753 Type IV pili are required for auto-agglutination, twitching motility, biofilm formation, adherence and DNA uptake during transformation []. PilP is an inner membrane protein, required for pilus expression and transformation []. PilP interacts with PilQ which suggests that the two proteins may have coordinated activity in functions such as pilus extrusion/retraction []. ; PDB: 3OSS_C 2LNV_A.
Probab=48.83 E-value=31 Score=23.26 Aligned_cols=38 Identities=21% Similarity=0.380 Sum_probs=27.1
Q ss_pred eeeeccccceEEeeCCCCc--cceeeeecCCEEEEEeCCe
Q 045607 91 RASMQGNGNHGRASGSSFP--NHALRNVSENRVVIESDVA 128 (143)
Q Consensus 91 k~s~~gnGt~W~~~~~~Fp--~ha~rnVs~N~VVVetd~~ 128 (143)
.+...|+...+|..|...| ...|+.|..++|+++.+-.
T Consensus 44 ii~~~~~~~~~~~~Gd~i~~~g~~v~~I~~d~Vvl~~~G~ 83 (87)
T PF11356_consen 44 IIRPSGGEQRTYRVGDTIPGSGWTVKSISPDRVVLERNGR 83 (87)
T ss_dssp EEE-CTTEEEEE-TTEE-SSSSEEEEEEETTEEEEEETTE
T ss_pred EEEeCCCcEEEEECcCEeCCCCEEEEEEeCCEEEEeeCCE
Confidence 3333455566799998888 8999999999999987643
No 4
>PF03212 Pertactin: Pertactin; InterPro: IPR004899 Bordetella pertussis is a Gram-negative, aerobic coccobacillus that causes pertussis (whooping cough), especially in young children []. Once present in the lungs, the bacterium attaches to ciliated pulmonary epithelial cells via a collection of outer membrane proteins, all of which are virulence factors. Pertactin, or P69 protein, is one of these virulence factors. Pertactin and filamentous haemagglutinin have been identified as Bordetella adhesins []. Both proteins contain an arg-gly-asp (RGD) motif that promotes binding to integrins, known to be important in cell mobility and development. The production of most Bordetella virulence factors (including pertactin) is controlled by a two-component signal transduction system, comprising the BvgA regulator and the BvgS sensor []. Pertactin shares a high level of similarity with other Bordetella adhesins, such as BrkA. The protein is first produced as a 93kDa precursor. Upon secretion into the extracellular environment, a 30kDa domain at the C terminus remains in the outer membrane, while the mature 60.4kDa pertactin molecule is released []. The crystal structure of mature pertactin has been determined to 2.5A resolution by means of X-ray diffraction. The fold is characterised by a 16-stranded parallel beta-helix, with a V-shaped cross-section. Several between-strand amino-acid repeats form internal and external ladders. The helical structure is interrupted by several protruding loops that contain motifs associated with the activity of the protein. One such sequence - [GGXXP]5 - appears directly after the RGD motif, and may mediate interaction with epithelial cells. The C-terminal region of P.69 pertactin contains a [PQP]5 motif loop, which contains the major immunoprotective epitope []. The superfamily also includes immunoglobulin A1 protease and adhesion penetration protein HAP.; PDB: 3H09_B 2IOU_H 1DAB_A 3ML3_A 3SYJ_A.
Probab=45.20 E-value=61 Score=24.09 Aligned_cols=18 Identities=22% Similarity=0.597 Sum_probs=12.0
Q ss_pred CCCceEEEeccCCCCcce
Q 045607 52 NNGVEIVKLDQSNGAFKQ 69 (143)
Q Consensus 52 ~~gv~IV~LD~s~G~F~~ 69 (143)
+.++.+|+...+++.|+-
T Consensus 76 ~~~i~LV~~~~~~a~F~L 93 (121)
T PF03212_consen 76 NEGIKLVEANGGDATFTL 93 (121)
T ss_dssp SS-EEEEEESSCCCEEEE
T ss_pred ceeEEEEEEcCCCceEEE
Confidence 335777877777777765
No 5
>PF03639 Glyco_hydro_81: Glycosyl hydrolase family 81 ; InterPro: IPR005200 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is a family of eukaryotic beta-1,3-glucanases belonging to glycoside hydrolase family 81 (GH81 from CAZY).; GO: 0033903 endo-1,3(4)-beta-glucanase activity, 0016998 cell wall macromolecule catabolic process
Probab=41.79 E-value=1.4e+02 Score=28.37 Aligned_cols=74 Identities=20% Similarity=0.227 Sum_probs=46.2
Q ss_pred CCCceEEEeccCCCCcceeeEEEEecccccceeeeeeee--eeeeccccceE--EeeCC-CCccceeeeecCCEEEEEeC
Q 045607 52 NNGVEIVKLDQSNGAFKQIDKVFVDRNTVQGMNTRATIA--RASMQGNGNHG--RASGS-SFPNHALRNVSENRVVIESD 126 (143)
Q Consensus 52 ~~gv~IV~LD~s~G~F~~IdqvvVD~N~~~GM~lksTva--k~s~~gnGt~W--~~~~~-~Fp~ha~rnVs~N~VVVetd 126 (143)
.+..|.|+ |.-.|++|..+ ...+.++... |+++ .||.+| |+.++ ....-.++-...+ .++++
T Consensus 147 ~~ltP~i~---S~v~f~si~~~-------~~~~~~~~~~Ky~v~L-~ng~tWllY~s~~~~~~~~~L~~~~~~--~i~~~ 213 (695)
T PF03639_consen 147 DGLTPVIQ---SGVGFRSINGE-------TSISGNSGITKYRVSL-NNGQTWLLYASSPSSSQPFTLTLDGNN--TIVAS 213 (695)
T ss_pred ecceeEee---cceEEEEEecc-------cccCCCCCceEEEEEE-CCCCEEEEEEECCCCCCceeEEecCCc--eEEcc
Confidence 45566666 44567666432 1222222333 5555 899999 77775 4544566655555 47799
Q ss_pred CeeceE-EEEEEe
Q 045607 127 VAVPAS-VFVTVD 138 (143)
Q Consensus 127 ~~V~~~-V~v~Vd 138 (143)
.+.+|. +.|.+-
T Consensus 214 ~~f~G~~iqVA~l 226 (695)
T PF03639_consen 214 SPFSGVVIQVAKL 226 (695)
T ss_pred CCcceeEEEEEeC
Confidence 999999 898873
No 6
>COG4466 Veg Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.51 E-value=64 Score=23.82 Aligned_cols=32 Identities=38% Similarity=0.601 Sum_probs=24.9
Q ss_pred eEEEEeecceEE-----c-----CCCceEEEeccCCCCccee
Q 045607 39 FIVLKSINGVAK-----G-----NNGVEIVKLDQSNGAFKQI 70 (143)
Q Consensus 39 nIvLks~~g~~~-----G-----~~gv~IV~LD~s~G~F~~I 70 (143)
.|.|||-+|.=+ | .--+=||+|||..|+|..+
T Consensus 21 ~v~lk~ngGRKk~~~r~G~L~EtYpSvFIiel~~d~~~~~~v 62 (80)
T COG4466 21 RVTLKANGGRKKTIERSGILIETYPSVFIIELDQDEGNFERV 62 (80)
T ss_pred EEEEEecCCceeeehhceEEeeecCcEEEEEecccCCCceEE
Confidence 477888887632 2 5567899999999999776
No 7
>PF14289 DUF4369: Domain of unknown function (DUF4369)
Probab=35.07 E-value=91 Score=20.74 Aligned_cols=38 Identities=32% Similarity=0.379 Sum_probs=24.5
Q ss_pred ecceEEcC-CCceEEEeccCCCCcceeeEEEEeccccccee
Q 045607 45 INGVAKGN-NGVEIVKLDQSNGAFKQIDKVFVDRNTVQGMN 84 (143)
Q Consensus 45 ~~g~~~G~-~gv~IV~LD~s~G~F~~IdqvvVD~N~~~GM~ 84 (143)
|+|.+.|. +|..+......++. ..+|.+.|+ |-.--+.
T Consensus 15 I~G~i~~~~~~~~vyL~~~~~~~-~~~ds~~v~-nG~F~f~ 53 (106)
T PF14289_consen 15 IEGKIKGLPDGDKVYLYYYDNGK-VVIDSVVVK-NGKFSFK 53 (106)
T ss_pred EEEEEcCCCCCCEEEEEEeCCCC-EEEEEEEEe-CCEEEEE
Confidence 55777775 66666555555666 788998888 5443333
No 8
>COG5434 PGU1 Endopygalactorunase [Cell envelope biogenesis, outer membrane]
Probab=32.65 E-value=1.2e+02 Score=28.63 Aligned_cols=55 Identities=27% Similarity=0.477 Sum_probs=37.7
Q ss_pred ecceEEEEeecceE--E--c--------------CCCceEEEeccCCCCccee--eEEEEecccccceeeeeeeeee
Q 045607 36 GDAFIVLKSINGVA--K--G--------------NNGVEIVKLDQSNGAFKQI--DKVFVDRNTVQGMNTRATIARA 92 (143)
Q Consensus 36 GDanIvLks~~g~~--~--G--------------~~gv~IV~LD~s~G~F~~I--dqvvVD~N~~~GM~lksTvak~ 92 (143)
||-.|-+||=++.. + | +.|.-++ ==|+.|-|++| ...++|. .-+|..+|+.-+|.
T Consensus 308 gDD~I~iksg~~~~~~~~~~~~~~i~i~~c~~~~ghG~~v~-Gse~~ggv~ni~ved~~~~~-~d~GLRikt~~~~g 382 (542)
T COG5434 308 GDDCIAIKSGAGLDGKKGYGPSRNIVIRNCYFSSGHGGLVL-GSEMGGGVQNITVEDCVMDN-TDRGLRIKTNDGRG 382 (542)
T ss_pred CCceEEeecccCCcccccccccccEEEecceecccccceEe-eeecCCceeEEEEEeeeecc-Ccceeeeeeecccc
Confidence 88888888876553 1 1 3333222 25677999998 6666665 67899998887765
No 9
>PF14199 DUF4317: Domain of unknown function (DUF4317)
Probab=32.40 E-value=27 Score=31.33 Aligned_cols=15 Identities=33% Similarity=0.437 Sum_probs=12.6
Q ss_pred CceeeEeeeeecccc
Q 045607 4 NTQTRIVNSYMDCTG 18 (143)
Q Consensus 4 ~tqTRI~NcYlDyt~ 18 (143)
++.|||.+||+|--+
T Consensus 18 ~~i~rI~gcYVd~e~ 32 (371)
T PF14199_consen 18 CSITRICGCYVDKEK 32 (371)
T ss_pred CceeeEEEEEEcCCC
Confidence 678999999999653
No 10
>PF05048 NosD: Periplasmic copper-binding protein (NosD); InterPro: IPR007742 Bacterial nitrous oxide (N(2)O) reductase is the terminal oxidoreductase of a respiratory process that generates dinitrogen from N(2)O. To attain its functional state, the enzyme is subjected to a maturation process which involves the protein-driven synthesis of a unique copper-sulphur cluster and metallation of the binuclear Cu(A) site in the periplasm. NosD is a periplasmic protein which is thought to insert copper into the exported reductase apoenzyme [].
Probab=28.86 E-value=2.8e+02 Score=21.52 Aligned_cols=86 Identities=21% Similarity=0.239 Sum_probs=50.5
Q ss_pred eeEeeeeec--ccceeeeCceEEEEEceEEee--cceEEEEeecceEEc----CCCceEEEeccCCCCcceeeEEEEecc
Q 045607 7 TRIVNSYMD--CTGIVAEDPVQLHISSNFFLG--DAFIVLKSINGVAKG----NNGVEIVKLDQSNGAFKQIDKVFVDRN 78 (143)
Q Consensus 7 TRI~NcYlD--yt~IV~EDPvql~Is~~fFLG--DanIvLks~~g~~~G----~~gv~IV~LD~s~G~F~~IdqvvVD~N 78 (143)
.+|.+|.+. ..||.++..-...|+++.|.+ .+-.+..+-+..+++ +++. =+.|..+.+ ..|-.=.+. +
T Consensus 46 ~~I~~n~i~~~~~GI~~~~s~~~~i~~n~i~~n~~Gi~l~~s~~~~I~~N~i~~n~~-GI~l~~s~~--~~I~~N~i~-~ 121 (236)
T PF05048_consen 46 NTISNNTISNNRYGIHLMGSSNNTIENNTISNNGYGIYLMGSSNNTISNNTISNNGY-GIYLYGSSN--NTISNNTIS-N 121 (236)
T ss_pred eEEEeeEEECCCeEEEEEccCCCEEEeEEEEccCCCEEEEcCCCcEEECCEecCCCc-eEEEeeCCc--eEEECcEEe-C
Confidence 455555444 347888888888888888877 455555555466666 2222 335554444 345333444 7
Q ss_pred cccceeeeeeeeeeeeccc
Q 045607 79 TVQGMNTRATIARASMQGN 97 (143)
Q Consensus 79 ~~~GM~lksTvak~s~~gn 97 (143)
+..|+.+... .+..+.+|
T Consensus 122 ~~~GI~l~~s-~~n~I~~N 139 (236)
T PF05048_consen 122 NGYGIYLSSS-SNNTITGN 139 (236)
T ss_pred CCEEEEEEeC-CCCEEECe
Confidence 7788888543 44444444
No 11
>PF01200 Ribosomal_S28e: Ribosomal protein S28e; InterPro: IPR000289 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaebacterial ribosomal proteins can be grouped on the basis of sequence similarities. Examples are: Mammalian S28 [] Plant S28 [] Fungi S33 [] Archaebacterial S28e. These proteins have from 64 to 78 amino acids and a highly conserved C-terminal region.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZ6_Y 2XZN_1 2XZM_1 1NY4_A 1NE3_A 3U5C_c 3U5G_c 3O30_R 3O2Z_R 3IZB_Y.
Probab=24.00 E-value=60 Score=23.22 Aligned_cols=29 Identities=17% Similarity=0.449 Sum_probs=20.4
Q ss_pred Eeec--ceEEEEeecceEEcCCCceEEEeccCCC
Q 045607 34 FLGD--AFIVLKSINGVAKGNNGVEIVKLDQSNG 65 (143)
Q Consensus 34 FLGD--anIvLks~~g~~~G~~gv~IV~LD~s~G 65 (143)
||+| ++++++.++|-++=+ ||+.|-|+.-
T Consensus 33 ~l~~~~gR~i~RNVkGPVr~G---Dil~LlEtER 63 (69)
T PF01200_consen 33 FLDGDKGRSIIRNVKGPVREG---DILTLLETER 63 (69)
T ss_dssp ESSSSSS-EEEEEECSTTSTT----EEEESSSS-
T ss_pred EecCCcceEEeecccCCcccC---cEEEEeehhh
Confidence 6777 689999999988732 8888887653
No 12
>PF07581 Glug: The GLUG motif; InterPro: IPR011493 This domain is found in the IgA1-specific metalloendopeptidases, which attach to the cell wall peptidoglycan by an amide bond []. IgA1 protease selectively cleaves human IgA1 and is likely to be a pathogenicity factor in some pathogens including Giardia spp []. This domain is also found in various other contexts, including with IPR008638 from INTERPRO. It is named GLUG after the mostly conserved G-L-any-G motif. The IgA1-specific metalloendopeptidases belong to MEROPS peptidase family M26, clan MA(E).
Probab=23.18 E-value=30 Score=20.18 Aligned_cols=9 Identities=33% Similarity=0.508 Sum_probs=7.0
Q ss_pred eeEeeeeec
Q 045607 7 TRIVNSYMD 15 (143)
Q Consensus 7 TRI~NcYlD 15 (143)
..|.|||-.
T Consensus 16 ~~I~nc~at 24 (28)
T PF07581_consen 16 GSITNCYAT 24 (28)
T ss_pred CEEEEEEEE
Confidence 589999864
No 13
>PF08378 NERD: Nuclease-related domain; InterPro: IPR011528 The nuclease-related domain (NERD) is found in a broad range of bacterial, as well as single archaeal and plant proteins. Most NERD-containing proteins have a single domain, sometimes with additional (predicted) transmembrane helices. In a few instances, proteins containing NERD domains have additional domains (mostly involved in DNA processing), such as the HRDC, the UvrD/REP helicase, the DNA-binding C4 zinc finger, or the serine/threonine and tyrosine protein kinases. In all cases in which a NERD domain is present in multidomain proteins, it is found at the N terminus. The NERD domain is predicted to function in DNA processing, and may have a nuclease function [].
Probab=21.51 E-value=2.4e+02 Score=19.21 Aligned_cols=41 Identities=10% Similarity=0.174 Sum_probs=32.6
Q ss_pred CCCCcceeeEEEEecccccceeeeeeeeeeeeccccceEEee
Q 045607 63 SNGAFKQIDKVFVDRNTVQGMNTRATIARASMQGNGNHGRAS 104 (143)
Q Consensus 63 s~G~F~~IdqvvVD~N~~~GM~lksTvak~s~~gnGt~W~~~ 104 (143)
.++...+||-+++-+....=+.+|.--++.+...+| .|+..
T Consensus 33 ~~~~~~eiD~lvi~~~gi~viE~K~~~g~i~~~~~~-~w~~~ 73 (115)
T PF08378_consen 33 PQGGTREIDHLVITPKGIFVIEVKNWSGKIYGDEDG-QWFQE 73 (115)
T ss_pred cCCCCceeEEEEEeCCEEEEEEEecccceEEEcCCC-cEEEc
Confidence 668899999999999777777778766777765667 89765
No 14
>COG3354 FlaG Putative archaeal flagellar protein G [Cell motility and secretion]
Probab=21.05 E-value=2.9e+02 Score=22.59 Aligned_cols=39 Identities=28% Similarity=0.388 Sum_probs=24.3
Q ss_pred CCCceEEEeccCCCCcceeeEEEEecccccceeeeeeeeeeeeccccceEE
Q 045607 52 NNGVEIVKLDQSNGAFKQIDKVFVDRNTVQGMNTRATIARASMQGNGNHGR 102 (143)
Q Consensus 52 ~~gv~IV~LD~s~G~F~~IdqvvVD~N~~~GM~lksTvak~s~~gnGt~W~ 102 (143)
+-|.+....|.+ ==||+||-|.+.+-.+.= .++ ||++|.
T Consensus 78 NtG~~~~~fd~~------sitVliDG~iv~~a~~~~----~~~--~gs~i~ 116 (154)
T COG3354 78 NTGSDSIAFDNT------SITVLIDGNIVTPAYVTF----TSV--NGSSIR 116 (154)
T ss_pred cCCCcccccCCC------eEEEEEcCcEeccceEEE----Eec--CCCeeE
Confidence 445566555521 148999999988765543 333 677883
No 15
>cd01344 PL2_Passenger_AT Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43, AIDA-1 and IcsA, as well as, the less characterized ShdA, MisL, and BapA autotransporters.
Probab=20.72 E-value=4.6e+02 Score=21.33 Aligned_cols=75 Identities=28% Similarity=0.403 Sum_probs=44.1
Q ss_pred ceEEEEEceEEeecceEEEEeec-------------ceEEc----------------CCCceEEEecc--CCCCcceeeE
Q 045607 24 PVQLHISSNFFLGDAFIVLKSIN-------------GVAKG----------------NNGVEIVKLDQ--SNGAFKQIDK 72 (143)
Q Consensus 24 Pvql~Is~~fFLGDanIvLks~~-------------g~~~G----------------~~gv~IV~LD~--s~G~F~~Idq 72 (143)
+-.|.|...|-=-++.|.|...= |.++| .+|+++|+..- +++.|..-.
T Consensus 78 ~~tLtv~gny~G~~G~l~lnt~L~~d~s~tD~LvV~G~asG~t~v~V~N~gg~ga~t~~gI~lV~v~gt~s~~~F~L~~- 156 (188)
T cd01344 78 GGTLTITGNYTGNGGTLRLNTVLGDDDSPTDRLVIDGDASGTTRVAVNNAGGSGATTGNGIEVVEVGGTSSNGAFSLAG- 156 (188)
T ss_pred CCEEEEcCEEEcCCeEEEEEeEECCCCCCCCEEEEeeecCCeEEEEEEeCCCcCcccCCCeEEEEEcCccCCCeEEECC-
Confidence 35777777766333777776542 33333 78899999985 888998755
Q ss_pred EEEecccccceeeeeeeeeeeeccccceEEeeC
Q 045607 73 VFVDRNTVQGMNTRATIARASMQGNGNHGRASG 105 (143)
Q Consensus 73 vvVD~N~~~GM~lksTvak~s~~gnGt~W~~~~ 105 (143)
-..-|. -+=...|....+++..||-..
T Consensus 157 -----~v~aGa-Y~Y~L~~~~~~~~~~~WYL~S 183 (188)
T cd01344 157 -----RVVAGA-YEYRLYRGGVSGNDGNWYLRS 183 (188)
T ss_pred -----ccccCC-EEEEEEeCCCCCCCCceEEec
Confidence 111121 122333443335577897655
Done!