Query 028431
Match_columns 209
No_of_seqs 111 out of 480
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 11:26:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028431.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028431hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04525 Tub_2: Tubby C 2; In 100.0 1E-44 2.2E-49 295.6 18.1 177 8-186 2-187 (187)
2 COG4894 Uncharacterized conser 100.0 3.1E-36 6.7E-41 230.7 9.0 154 20-193 6-159 (159)
3 PF03803 Scramblase: Scramblas 99.6 3.5E-14 7.6E-19 118.2 20.0 174 14-193 17-220 (221)
4 COG4894 Uncharacterized conser 98.4 5.7E-07 1.2E-11 69.7 5.6 80 5-88 12-94 (159)
5 PF04525 Tub_2: Tubby C 2; In 97.8 0.00015 3.3E-09 58.9 9.5 96 17-117 36-142 (187)
6 KOG0621 Phospholipid scramblas 97.7 0.0013 2.8E-08 57.3 13.0 178 13-196 72-283 (292)
7 PF03803 Scramblase: Scramblas 96.4 0.011 2.3E-07 49.1 6.7 84 18-108 85-178 (221)
8 KOG0621 Phospholipid scramblas 60.9 36 0.00078 29.8 6.9 53 33-85 187-243 (292)
9 PF01167 Tub: Tub family; Int 57.7 1.2E+02 0.0026 25.8 10.7 72 69-142 6-87 (246)
10 PF04790 Sarcoglycan_1: Sarcog 57.1 20 0.00043 30.9 4.6 22 57-78 115-137 (264)
11 PF09008 Head_binding: Head bi 56.7 30 0.00064 25.9 4.8 43 27-77 63-105 (114)
12 PF13860 FlgD_ig: FlgD Ig-like 51.1 22 0.00047 24.5 3.3 16 61-76 28-43 (81)
13 PF07680 DoxA: TQO small subun 48.0 20 0.00043 27.7 2.9 38 47-84 36-73 (133)
14 PF02974 Inh: Protease inhibit 44.4 1.1E+02 0.0024 22.0 6.3 31 59-92 61-91 (99)
15 PF15529 Toxin_49: Putative to 44.1 26 0.00057 25.2 2.8 21 33-53 29-49 (89)
16 KOG3950 Gamma/delta sarcoglyca 44.0 29 0.00062 29.8 3.4 23 59-81 138-160 (292)
17 smart00634 BID_1 Bacterial Ig- 36.1 1.1E+02 0.0023 21.4 5.0 9 36-44 24-32 (92)
18 PRK12816 flgG flagellar basal 32.5 54 0.0012 28.1 3.5 40 32-74 98-138 (264)
19 TIGR02171 Fb_sc_TIGR02171 Fibr 31.4 5.4E+02 0.012 26.3 10.5 118 42-174 318-442 (912)
20 PF06903 VirK: VirK protein; 30.7 2.2E+02 0.0047 20.9 6.0 13 6-18 19-31 (100)
21 PF08011 DUF1703: Protein of u 30.0 23 0.0005 25.7 0.7 32 175-206 5-36 (105)
22 PF08909 DUF1854: Domain of un 29.6 1.7E+02 0.0036 22.7 5.3 53 19-71 59-112 (133)
23 PRK10523 lipoprotein involved 29.3 1.5E+02 0.0033 25.1 5.5 26 44-71 82-107 (234)
24 PRK12691 flgG flagellar basal 29.2 83 0.0018 26.8 4.1 40 32-74 98-138 (262)
25 PRK06655 flgD flagellar basal 28.9 86 0.0019 26.3 4.0 46 29-77 100-145 (225)
26 TIGR03784 marine_sortase sorta 28.7 78 0.0017 25.4 3.6 23 56-78 109-132 (174)
27 PF12690 BsuPI: Intracellular 28.2 43 0.00093 23.4 1.8 17 35-51 27-43 (82)
28 COG4998 Predicted endonuclease 27.1 1.1E+02 0.0024 24.8 4.0 37 134-177 22-59 (209)
29 PRK12640 flgF flagellar basal 27.0 62 0.0014 27.5 2.9 40 32-74 83-123 (246)
30 TIGR02488 flgG_G_neg flagellar 27.0 69 0.0015 27.2 3.2 40 32-74 96-136 (259)
31 PF00384 Molybdopterin: Molybd 26.7 74 0.0016 28.3 3.5 31 164-194 157-188 (432)
32 PRK12817 flgG flagellar basal 26.6 79 0.0017 26.9 3.5 40 32-74 94-134 (260)
33 TIGR02150 IPP_isom_1 isopenten 25.8 1.3E+02 0.0028 23.3 4.3 54 36-89 1-60 (158)
34 cd06166 Sortase_D_5 Sortase D 25.6 94 0.002 23.2 3.4 22 56-77 65-86 (126)
35 PRK15393 NUDIX hydrolase YfcD; 25.2 1.9E+02 0.0042 22.9 5.3 58 35-92 11-73 (180)
36 PRK12694 flgG flagellar basal 25.2 77 0.0017 27.0 3.2 40 32-74 98-138 (260)
37 PF08269 Cache_2: Cache domain 24.8 11 0.00024 26.5 -1.8 36 36-73 59-94 (95)
38 PRK12818 flgG flagellar basal 24.7 89 0.0019 26.6 3.4 40 32-74 98-138 (256)
39 COG5436 Predicted integral mem 24.6 1.6E+02 0.0036 23.5 4.6 40 36-79 70-110 (182)
40 PF05593 RHS_repeat: RHS Repea 24.4 1.5E+02 0.0033 17.1 4.2 30 39-73 1-30 (38)
41 PF11141 DUF2914: Protein of u 23.3 1.3E+02 0.0027 20.1 3.3 21 56-76 42-62 (66)
42 cd02769 MopB_DMSOR-BSOR-TMAOR 23.1 55 0.0012 31.3 2.0 25 165-189 226-251 (609)
43 PRK12813 flgD flagellar basal 23.1 1.4E+02 0.0031 25.0 4.3 17 60-76 126-142 (223)
44 PF12396 DUF3659: Protein of u 23.0 2.2E+02 0.0049 19.0 4.4 40 37-76 14-57 (64)
45 cd05828 Sortase_D_4 Sortase D 22.9 1E+02 0.0022 23.0 3.2 23 56-78 62-84 (127)
46 PF09000 Cytotoxic: Cytotoxic; 22.6 2.9E+02 0.0063 19.7 5.1 35 38-78 35-69 (85)
47 PF04170 NlpE: NlpE N-terminal 22.2 2.8E+02 0.0061 19.3 5.4 12 61-72 72-83 (87)
48 PRK12693 flgG flagellar basal 21.1 1.2E+02 0.0026 25.8 3.5 40 32-74 98-138 (261)
49 PF04790 Sarcoglycan_1: Sarcog 21.0 1.6E+02 0.0034 25.4 4.2 50 20-70 103-154 (264)
No 1
>PF04525 Tub_2: Tubby C 2; InterPro: IPR007612 This is a family of plant and bacterial uncharacterised proteins.; PDB: 1ZXU_A 2Q4M_A.
Probab=100.00 E-value=1e-44 Score=295.61 Aligned_cols=177 Identities=42% Similarity=0.685 Sum_probs=109.4
Q ss_pred eEeccCccCCCceEEEEEEEeeeEeCCCeEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEecCCCCCcceE
Q 028431 8 VLVADEYIYKQETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKRPSLHHRWE 87 (209)
Q Consensus 8 ~~v~~~~~~~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~s~~~~w~ 87 (209)
++|+++||+++|++|+||+|.+++++++|+|+|++|+++|+|+| ++.+++++++.|+|++|+||++|++|.++++++|+
T Consensus 2 ~vv~~~~~~~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g-~~~~s~~~~~~l~D~~G~~L~~i~~k~~~l~~~w~ 80 (187)
T PF04525_consen 2 VVVDAQYCSPQPVTLTVKKKSLSFSGDDFTVYDENGNVVFRVDG-GKFFSIGKKRTLMDASGNPLFTIRRKLFSLRPTWE 80 (187)
T ss_dssp -SS-GGGB-SS-EEEEEE----------EEEEETTS-EEEEEE---SCTTBTTEEEEE-TTS-EEEEEE--------EEE
T ss_pred cEECHHHcCCCceEEEEEEEEeeecCCCEEEEcCCCCEEEEEEE-ecccCCCCEEEEECCCCCEEEEEEeeecccceEEE
Confidence 58999999999999999999888899999999999999999999 23589999999999999999999999999999999
Q ss_pred EEEcCCCCCCcceEEEEeecccC-cceEEEEeeC--------CCCceEEEEeeecCceEEEEeCCCceEEEEEeeecccc
Q 028431 88 GYSGERTDGQKPIFSVRRSSIIG-RSSVTVEMYE--------NPGEEYQIEGNFWQRSCTIFNAMKESVAEIRRKVDAST 158 (209)
Q Consensus 88 v~~~~~~~~~~~lf~ik~~~~~~-~~~~~v~~~~--------~~~~~~~v~G~~~~~~~~I~~~~g~~VA~V~rk~~~~~ 158 (209)
+|++++.++++++|+||+++.+. ++++.+|+.. ...++|+|+||||+++|+|++.+|++||+|+||+. .+
T Consensus 81 i~~~~~~~~~~~i~tvkk~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~i~G~~~~~~~~I~~~~g~~VA~i~rk~~-~k 159 (187)
T PF04525_consen 81 IYRGGGSEGKKPIFTVKKKSMLQNKDSFDVFLPPKSNISIDDSEGPDFEIKGNFWDRSFTIYDSGGRVVAEISRKYS-SK 159 (187)
T ss_dssp EEETT---GGGEEEEEE----------EEEEET--T----------SEEEES-TTTT--EEEECC--EEEEEEE------
T ss_pred EEECCCCccCceEEEEEEecccCCCcceeEEEecccceeecCCCCceEEEEEEecCcEEEEEEcCCCEEEEEecccc-ee
Confidence 99998776678999999997654 5677777752 24669999999999999999655899999998886 67
Q ss_pred ceEEeeeeEEEEEeCCCCHHHHHHHHHH
Q 028431 159 QVLLAKDVFLLSVKPGFDGAFAMGLVLV 186 (209)
Q Consensus 159 ~~~~~~dtY~v~V~pgvD~ali~alvv~ 186 (209)
..+.|+|+|.|+|+||+|++|++|||||
T Consensus 160 ~~~~~~dty~l~V~pg~D~~lv~alvvi 187 (187)
T PF04525_consen 160 KWFSGRDTYTLTVAPGVDQALVVALVVI 187 (187)
T ss_dssp -----B-SEEEEE-TTSBHHHHHHHHHH
T ss_pred eEEecCcEEEEEEcCCCCHHHheeEEeC
Confidence 7788999999999999999999999997
No 2
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.1e-36 Score=230.69 Aligned_cols=154 Identities=26% Similarity=0.451 Sum_probs=141.2
Q ss_pred eEEEEEEEeeeEeCCCeEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEecCCCCCcceEEEEcCCCCCCcc
Q 028431 20 THLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKRPSLHHRWEGYSGERTDGQKP 99 (209)
Q Consensus 20 ~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~s~~~~w~v~~~~~~~~~~~ 99 (209)
.+|.++|| +++.+++|.|+|.+|+.+|+|+| ++|++++.+++.|++|.+|.+|++|+++++|+|++-.|+ | .
T Consensus 6 ~tl~mkQk-~~~~gd~f~I~d~dgE~af~VeG--s~f~i~dtlti~Da~G~~l~~i~~kll~l~~~yeI~d~~---g--~ 77 (159)
T COG4894 6 ITLFMKQK-MFSFGDAFHIYDRDGEEAFKVEG--SFFSIGDTLTITDASGKTLVSIEQKLLSLLPRYEISDGG---G--T 77 (159)
T ss_pred HhHhhhhh-hhhcccceEEECCCCcEEEEEee--eEEeeCceEEEEecCCCChHHHHHHHhhccceeEEEcCC---C--C
Confidence 36788999 77889999999999999999999 889999999999999999999999999999999997765 3 4
Q ss_pred eEEEEeecccCcceEEEEeeCCCCceEEEEeeecCceEEEEeCCCceEEEEEeeeccccceEEeeeeEEEEEeCCCCHHH
Q 028431 100 IFSVRRSSIIGRSSVTVEMYENPGEEYQIEGNFWQRSCTIFNAMKESVAEIRRKVDASTQVLLAKDVFLLSVKPGFDGAF 179 (209)
Q Consensus 100 lf~ik~~~~~~~~~~~v~~~~~~~~~~~v~G~~~~~~~~I~~~~g~~VA~V~rk~~~~~~~~~~~dtY~v~V~pgvD~al 179 (209)
+|.++|+..|+|+++++ .+.+|+++||+|+.+|++.+| ++++|+|+||| ++|+|||+|+|+|+.|..+
T Consensus 78 ~~~vrKK~tf~Rdk~e~-----d~~~~eihGNi~d~efkl~dg-~~~~aeVsKkw------f~~rdTY~l~vapde~a~l 145 (159)
T COG4894 78 VCEVRKKVTFSRDKFEI-----DGLNWEIHGNIWDDEFKLTDG-ENVRAEVSKKW------FSWRDTYHLQVAPDEDALL 145 (159)
T ss_pred EEEEEEEEEEEeeeEEE-----cCCCeEEecceeceEEEEecC-Cceehhheeee------EeccceEEEEEcCchhhHH
Confidence 99999998887888877 356799999999999999999 68999999999 5799999999999999999
Q ss_pred HHHHHHHHhhhhcC
Q 028431 180 AMGLVLVLDQINGD 193 (209)
Q Consensus 180 i~alvv~lD~i~~~ 193 (209)
|+++|||+|++.++
T Consensus 146 ii~i~VaLD~v~~~ 159 (159)
T COG4894 146 IIAIAVALDMVLYN 159 (159)
T ss_pred HHHHHHHHHHHhcC
Confidence 99999999999764
No 3
>PF03803 Scramblase: Scramblase ; InterPro: IPR005552 Scramblase is palmitoylated and contains a potential protein kinase C phosphorylation site. Scramblase exhibits Ca2+-activated phospholipid scrambling activity in vitro. There are also possible SH3 and WW binding motifs. Scramblase is involved in the redistribution of phospholipids after cell activation or injury [].
Probab=99.65 E-value=3.5e-14 Score=118.25 Aligned_cols=174 Identities=17% Similarity=0.209 Sum_probs=130.0
Q ss_pred ccCCCceEEEEEEEeeeE-------eCCCeEEEeCCCCEEEEEeccCCC-----C--CCCCeEEEEcCCCCeEEEEEecC
Q 028431 14 YIYKQETHLTVFKTSLFF-------QNDGFTVYNCRGELVFRVDSYGPD-----T--RDKDEHVLMDAHGKCLLTVRRKR 79 (209)
Q Consensus 14 ~~~~~~~~l~v~~k~~~~-------~~~~f~V~D~~G~~vf~V~g~~~~-----~--s~~~k~~l~D~~G~~L~~i~~k~ 79 (209)
|.+.-. .+.|+|+.-.. ..+.|.|+|.+|+.+|.+.-.... + ..+-+..++|..|+++++++|..
T Consensus 17 ~L~~~~-~l~I~Q~~e~~e~~~~~e~~N~Y~I~n~~g~~i~~~~E~s~~~~R~~~~~~R~f~~~i~D~~g~~vl~i~Rp~ 95 (221)
T PF03803_consen 17 YLAGLD-QLLIKQQIEPLEIFTGFETPNRYDIKNPNGQQIYYAVEESDCCSRQCCGSHRPFKMHIYDNYGREVLTIERPF 95 (221)
T ss_pred HHhCCC-EEEEEEEEEEeceecccccCceEEEECCCCCEEEEEEEeCcceeeeecCCCCCEEEEEEecCCCEEEEEEcCC
Confidence 555555 56677774321 357899999999999988754321 1 12345678999999999999875
Q ss_pred CCC------CcceEEEEcCCCCCCcceEEEEeecccCcceEEEEeeCCCCceEEEEee------ecCceEEEEeCCCceE
Q 028431 80 PSL------HHRWEGYSGERTDGQKPIFSVRRSSIIGRSSVTVEMYENPGEEYQIEGN------FWQRSCTIFNAMKESV 147 (209)
Q Consensus 80 ~s~------~~~w~v~~~~~~~~~~~lf~ik~~~~~~~~~~~v~~~~~~~~~~~v~G~------~~~~~~~I~~~~g~~V 147 (209)
-.. ..+.+|+.+. | +++.+|++++.+.+++++|+-+++ ..-+.|+|. +.+..|.|++.+|+.|
T Consensus 96 ~c~~C~~~~~~~~~V~~p~---g-~~iG~I~q~~~~~~~~f~I~d~~~-~~~~~I~gp~~~~~~~~~~~F~I~~~~~~~v 170 (221)
T PF03803_consen 96 KCCSCCPCCLQEMEVESPP---G-NLIGSIRQPFSCCRPNFDIFDANG-NPIFTIKGPCCCCSCCCDWEFEIKDPNGQEV 170 (221)
T ss_pred cceecccccceeEEEecCC---C-cEEEEEEEcCcccceEEEEEECCC-ceEEEEeCCcceeccccceeeeeecccCcEE
Confidence 322 3566664443 3 589999999766668898865543 567888887 4567899999778999
Q ss_pred EEEEeeecccc-ceEEeeeeEEEEEeCCCCH---HHHHHHHHHHhhhhcC
Q 028431 148 AEIRRKVDAST-QVLLAKDVFLLSVKPGFDG---AFAMGLVLVLDQINGD 193 (209)
Q Consensus 148 A~V~rk~~~~~-~~~~~~dtY~v~V~pgvD~---ali~alvv~lD~i~~~ 193 (209)
|+|+|+|.+.. ......|.|.|+..+..|. |+++|.++.||.++-+
T Consensus 171 g~I~k~w~G~~~e~~t~~d~f~i~Fp~~l~~~~Kalll~a~~liD~~~Fe 220 (221)
T PF03803_consen 171 GSITKKWSGFCRELFTDADNFVIEFPPDLDVEQKALLLGAAFLIDYMYFE 220 (221)
T ss_pred EEEEEecCCcchhhccccceEEEEcCCCCCHHHHHHHHHHHHHhhhhhhc
Confidence 99999997643 3455789999999999876 7899999999998754
No 4
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=98.40 E-value=5.7e-07 Score=69.74 Aligned_cols=80 Identities=18% Similarity=0.204 Sum_probs=65.7
Q ss_pred ceeeEeccCc---cCCCceEEEEEEEeeeEeCCCeEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEecCCC
Q 028431 5 QAAVLVADEY---IYKQETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKRPS 81 (209)
Q Consensus 5 ~~~~~v~~~~---~~~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~s 81 (209)
|....++..| -...+.++.|.=+ .+..++.|+|+|+.|.+++.++. +++++..+..|-|++|+ ++.+++|...
T Consensus 12 Qk~~~~gd~f~I~d~dgE~af~VeGs-~f~i~dtlti~Da~G~~l~~i~~--kll~l~~~yeI~d~~g~-~~~vrKK~tf 87 (159)
T COG4894 12 QKMFSFGDAFHIYDRDGEEAFKVEGS-FFSIGDTLTITDASGKTLVSIEQ--KLLSLLPRYEISDGGGT-VCEVRKKVTF 87 (159)
T ss_pred hhhhhcccceEEECCCCcEEEEEeee-EEeeCceEEEEecCCCChHHHHH--HHhhccceeEEEcCCCC-EEEEEEEEEE
Confidence 4444555554 3456778888865 55679999999999999999999 78999999999999999 8889998766
Q ss_pred CCcceEE
Q 028431 82 LHHRWEG 88 (209)
Q Consensus 82 ~~~~w~v 88 (209)
++++|++
T Consensus 88 ~Rdk~e~ 94 (159)
T COG4894 88 SRDKFEI 94 (159)
T ss_pred EeeeEEE
Confidence 6888887
No 5
>PF04525 Tub_2: Tubby C 2; InterPro: IPR007612 This is a family of plant and bacterial uncharacterised proteins.; PDB: 1ZXU_A 2Q4M_A.
Probab=97.83 E-value=0.00015 Score=58.87 Aligned_cols=96 Identities=15% Similarity=0.209 Sum_probs=47.9
Q ss_pred CCceEEEEEE-EeeeEeCCCeEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCC----eEEEEEec-CCCCCcceEEEE
Q 028431 17 KQETHLTVFK-TSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGK----CLLTVRRK-RPSLHHRWEGYS 90 (209)
Q Consensus 17 ~~~~~l~v~~-k~~~~~~~~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~----~L~~i~~k-~~s~~~~w~v~~ 90 (209)
.....|+|.. + .+..++...++|.+|++++++.. +.+++..+..+.++++. ++++|+++ .+..++...+|.
T Consensus 36 ~G~~vf~V~g~~-~~s~~~~~~l~D~~G~~L~~i~~--k~~~l~~~w~i~~~~~~~~~~~i~tvkk~~~~~~~~~~~~f~ 112 (187)
T PF04525_consen 36 NGNVVFRVDGGK-FFSIGKKRTLMDASGNPLFTIRR--KLFSLRPTWEIYRGGGSEGKKPIFTVKKKSMLQNKDSFDVFL 112 (187)
T ss_dssp TS-EEEEEE--S-CTTBTTEEEEE-TTS-EEEEEE----------EEEEEETT---GGGEEEEEE----------EEEEE
T ss_pred CCCEEEEEEEec-ccCCCCEEEEECCCCCEEEEEEe--eecccceEEEEEECCCCccCceEEEEEEecccCCCcceeEEE
Confidence 4566888888 5 56678899999999999999998 67999999999999998 59999998 344455555665
Q ss_pred cCCC-----CCCcceEEEEeecccCcceEEEE
Q 028431 91 GERT-----DGQKPIFSVRRSSIIGRSSVTVE 117 (209)
Q Consensus 91 ~~~~-----~~~~~lf~ik~~~~~~~~~~~v~ 117 (209)
+... +...+-++|+-.+. . .+++|+
T Consensus 113 ~~~~~~~~~~~~~~~~~i~G~~~-~-~~~~I~ 142 (187)
T PF04525_consen 113 PPKSNISIDDSEGPDFEIKGNFW-D-RSFTIY 142 (187)
T ss_dssp T--T----------SEEEES-TT-T-T--EEE
T ss_pred ecccceeecCCCCceEEEEEEec-C-cEEEEE
Confidence 4211 12234566655432 2 355654
No 6
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=97.66 E-value=0.0013 Score=57.27 Aligned_cols=178 Identities=16% Similarity=0.143 Sum_probs=109.7
Q ss_pred CccCCCceEEEEEEEee-----eE-eCCCeEEEeCCCCEEEEEeccCC-----C--CCCCCeEEEEcCCCCeEEEEEecC
Q 028431 13 EYIYKQETHLTVFKTSL-----FF-QNDGFTVYNCRGELVFRVDSYGP-----D--TRDKDEHVLMDAHGKCLLTVRRKR 79 (209)
Q Consensus 13 ~~~~~~~~~l~v~~k~~-----~~-~~~~f~V~D~~G~~vf~V~g~~~-----~--~s~~~k~~l~D~~G~~L~~i~~k~ 79 (209)
+|.+..++.+..++... -| ..+.|.|.|.+|+.+|.+--... + ..-+-...++|.-|+++++++++.
T Consensus 72 ~~L~~~~~~~V~q~~E~~ei~tG~et~NRY~v~~~~g~~v~~~~E~S~~~~Rq~~g~~RpF~~~i~D~~g~eVl~~~R~~ 151 (292)
T KOG0621|consen 72 EYLAHLDSLMVVQQIEPLEIFTGFETANRYVVHDMYGQPLYYAMERSNVFARQYLGTHRPFAMRIMDNFGQEVLTCKRPF 151 (292)
T ss_pred heeecCCceEEEEeeeehhhhccCccCcEEEEEcCCcChhHHHHhhchHHHHHhhccCCcceeEeecccCcEEEEEeccc
Confidence 35566665555544432 13 57889999999999985543211 0 123456788999999999999986
Q ss_pred CCCCc--------ceEEEEcCCCCCCcceEEEEeecccCcceEEEEeeCCC-CceEEEEee-------ecCceEEEE-eC
Q 028431 80 PSLHH--------RWEGYSGERTDGQKPIFSVRRSSIIGRSSVTVEMYENP-GEEYQIEGN-------FWQRSCTIF-NA 142 (209)
Q Consensus 80 ~s~~~--------~w~v~~~~~~~~~~~lf~ik~~~~~~~~~~~v~~~~~~-~~~~~v~G~-------~~~~~~~I~-~~ 142 (209)
.+... ..++-. ..+ -.+-++........+++.+. ++. ...|.|+|- +-+..+.+. ..
T Consensus 152 ~c~~~~c~~~~~~~~~v~~---p~~-~~lG~v~q~~~~~~~~f~i~--~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d 225 (292)
T KOG0621|consen 152 PCCSSACALCLAQEIEIQS---PPM-GLLGKVLQTWGCVNPNFHLW--DRDGNLVFLVEGPRCCTFACCDDTVFFPKTTD 225 (292)
T ss_pred cccccccccccccEEEEEc---CCC-ceEEEEEEeeccccceEEEE--cccceeEEEEEcCceeEEEeecCcceeEEEcC
Confidence 43332 111111 111 13444444432222445442 221 223555554 333444444 44
Q ss_pred CCceEEEEEeeeccc-cceEEeeeeEEEEEeCCCCH---HHHHHHHHHHhhhhcCCCC
Q 028431 143 MKESVAEIRRKVDAS-TQVLLAKDVFLLSVKPGFDG---AFAMGLVLVLDQINGDNYV 196 (209)
Q Consensus 143 ~g~~VA~V~rk~~~~-~~~~~~~dtY~v~V~pgvD~---ali~alvv~lD~i~~~~~~ 196 (209)
+|+.|++|.|+|... ...+.+.|+|.|.-.-..|. ++++|.++-||.+.-+...
T Consensus 226 ~~~~vg~I~k~w~g~~rE~fTDad~f~v~FPldLdvk~kavllga~flID~~~Fe~~~ 283 (292)
T KOG0621|consen 226 NGRIVGSISRKWAGLVREAFTDADTFVVHFPLDLDVKLKALLLGSTFLIDYMSFESRG 283 (292)
T ss_pred CCeEEEEEeecccchhhhheeccceeeEecCCcCCHHHHhhhhhheeeEEEEEEecCC
Confidence 589999999999764 35667889999998877775 7899999999988766653
No 7
>PF03803 Scramblase: Scramblase ; InterPro: IPR005552 Scramblase is palmitoylated and contains a potential protein kinase C phosphorylation site. Scramblase exhibits Ca2+-activated phospholipid scrambling activity in vitro. There are also possible SH3 and WW binding motifs. Scramblase is involved in the redistribution of phospholipids after cell activation or injury [].
Probab=96.40 E-value=0.011 Score=49.08 Aligned_cols=84 Identities=15% Similarity=0.158 Sum_probs=60.8
Q ss_pred CceEEEEEEEeeeEe------CCCeEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEecCCC----CCcceE
Q 028431 18 QETHLTVFKTSLFFQ------NDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKRPS----LHHRWE 87 (209)
Q Consensus 18 ~~~~l~v~~k~~~~~------~~~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~s----~~~~w~ 87 (209)
..+.+++.+. ..+. .....|....|+.+.+|.. +...++.++.|+|++|++++.|+..... ..-.|.
T Consensus 85 g~~vl~i~Rp-~~c~~C~~~~~~~~~V~~p~g~~iG~I~q--~~~~~~~~f~I~d~~~~~~~~I~gp~~~~~~~~~~~F~ 161 (221)
T PF03803_consen 85 GREVLTIERP-FKCCSCCPCCLQEMEVESPPGNLIGSIRQ--PFSCCRPNFDIFDANGNPIFTIKGPCCCCSCCCDWEFE 161 (221)
T ss_pred CCEEEEEEcC-CcceecccccceeEEEecCCCcEEEEEEE--cCcccceEEEEEECCCceEEEEeCCcceeccccceeee
Confidence 3446666665 3332 2678898999999999998 4456789999999999999999877542 334555
Q ss_pred EEEcCCCCCCcceEEEEeecc
Q 028431 88 GYSGERTDGQKPIFSVRRSSI 108 (209)
Q Consensus 88 v~~~~~~~~~~~lf~ik~~~~ 108 (209)
|+..+ | +.+.+|+|++.
T Consensus 162 I~~~~---~-~~vg~I~k~w~ 178 (221)
T PF03803_consen 162 IKDPN---G-QEVGSITKKWS 178 (221)
T ss_pred eeccc---C-cEEEEEEEecC
Confidence 65533 3 57999999863
No 8
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=60.94 E-value=36 Score=29.82 Aligned_cols=53 Identities=23% Similarity=0.305 Sum_probs=37.6
Q ss_pred CCCeEEEeCCCCEEEEEeccC-CC---CCCCCeEEEEcCCCCeEEEEEecCCCCCcc
Q 028431 33 NDGFTVYNCRGELVFRVDSYG-PD---TRDKDEHVLMDAHGKCLLTVRRKRPSLHHR 85 (209)
Q Consensus 33 ~~~f~V~D~~G~~vf~V~g~~-~~---~s~~~k~~l~D~~G~~L~~i~~k~~s~~~~ 85 (209)
...|.|.|..++.+|+|+|.. -. .+......++..+|..+..|-++...+...
T Consensus 187 ~~~f~i~~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~w~g~~rE 243 (292)
T KOG0621|consen 187 NPNFHLWDRDGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRKWAGLVRE 243 (292)
T ss_pred cceEEEEcccceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeecccchhhh
Confidence 456899998999999999841 01 344555677788888888888886554443
No 9
>PF01167 Tub: Tub family; InterPro: IPR000007 Tubby, an autosomal recessive mutation, mapping to mouse chromosome 7, was recently found to be the result of a splicing defect in a novel gene with unknown function. This mutation maps to the tub gene [, ]. The mouse tubby mutation is the cause of maturity-onset obesity, insulin resistance and sensory deficits. By contrast with the rapid juvenile-onset weight gain seen in diabetes (db) and obese (ob) mice, obesity in tubby mice develops gradually, and strongly resembles the late-onset obesity observed in the human population. Excessive deposition of adipose tissue culminates in a two-fold increase of body weight. Tubby mice also suffer retinal degeneration and neurosensory hearing loss. The tripartite character of the tubby phenotype is highly similar to human obesity syndromes, such as Alstrom and Bardet-Biedl. Although these phenotypes indicate a vital role for tubby proteins, no biochemical function has yet been ascribed to any family member [], although it has been suggested that the phenotypic features of tubby mice may be the result of cellular apoptosis triggered by expression of the mutated tub gene. TUB is the founding-member of the tubby-like proteins, the TULPs. TULPs are found in multicellular organisms from both the plant and animal kingdoms. Ablation of members of this protein family cause disease phenotypes that are indicative of their importance in nervous-system function and development []. Mammalian TUB is a hydrophilic protein of ~500 residues. The N-terminal (IPR005398 from INTERPRO) portion of the protein is conserved neither in length nor sequence, but, in TUB, contains the nuclear localisation signal and may have transcriptional-activation activity. The C-terminal 250 residues are highly conserved. The C-terminal extremity contains a cysteine residue that might play an important role in the normal functioning of these proteins. The crystal structure of the C-terminal core domain from mouse tubby has been determined to 1.9A resolution. This domain is arranged as a 12-stranded, all anti-parallel, closed beta-barrel that surrounds a central alpha helix, (which is at the extreme carboxyl terminus of the protein) that forms most of the hydrophobic core. Structural analyses suggest that TULPs constitute a unique family of bipartite transcription factors [].; PDB: 3C5N_B 2FIM_A 1I7E_A 1C8Z_A 1S31_A.
Probab=57.72 E-value=1.2e+02 Score=25.76 Aligned_cols=72 Identities=17% Similarity=0.240 Sum_probs=42.5
Q ss_pred CCeEEEEEecC--C--CCCcceEEEEcCCCCCCcceEEEEeecccCcceEEEEeeCC----CCc--eEEEEeeecCceEE
Q 028431 69 GKCLLTVRRKR--P--SLHHRWEGYSGERTDGQKPIFSVRRSSIIGRSSVTVEMYEN----PGE--EYQIEGNFWQRSCT 138 (209)
Q Consensus 69 G~~L~~i~~k~--~--s~~~~w~v~~~~~~~~~~~lf~ik~~~~~~~~~~~v~~~~~----~~~--~~~v~G~~~~~~~~ 138 (209)
|-.-+.|++.. + .+.+.|..|..+. +.+.|...||...-..+.+.+++... ... -=+|+.||++-+|+
T Consensus 6 ~~vqC~I~R~k~g~~~~lyp~y~l~l~~~--~~kfLLaArK~~~s~~s~YiIS~~~~dlsr~s~~yvGKLrsNf~GT~F~ 83 (246)
T PF01167_consen 6 GPVQCFIRRDKSGLTRGLYPGYYLYLEGE--NGKFLLAARKRKRSKTSNYIISLDPDDLSRSSNNYVGKLRSNFLGTEFT 83 (246)
T ss_dssp -EEEEEEEEESTTCCCT---EEEEEEEST--TSEEEEEEEEECSSSSEEEEEESSHHHHCTT---ESEEEEE-TTSSEEE
T ss_pred cEEEEEEEEECCCCCcccCcEeEeccccC--CCcEEEeeeecccCCCcceEEecCCCccccCCCceeeeeccccceeEEE
Confidence 33456675532 2 3567888887532 23678888887443346777876521 112 23778999999999
Q ss_pred EEeC
Q 028431 139 IFNA 142 (209)
Q Consensus 139 I~~~ 142 (209)
||+.
T Consensus 84 iyD~ 87 (246)
T PF01167_consen 84 IYDN 87 (246)
T ss_dssp EEES
T ss_pred EECC
Confidence 9996
No 10
>PF04790 Sarcoglycan_1: Sarcoglycan complex subunit protein; InterPro: IPR006875 The dystrophin glycoprotein complex (DGC) is a membrane-spanning complex that links the interior cytoskeleton to the extracellular matrix in muscle. The sarcoglycan complex is a subcomplex within the DGC and is composed of several muscle-specific, transmembrane proteins (alpha-, beta-, gamma-, delta- and zeta-sarcoglycan). The sarcoglycans are asparagine-linked glycosylated proteins with single transmembrane domains. This family contains beta, gamma and delta members [, ].; GO: 0007010 cytoskeleton organization, 0016012 sarcoglycan complex, 0016021 integral to membrane
Probab=57.10 E-value=20 Score=30.92 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=11.1
Q ss_pred CCCCeEEEEcC-CCCeEEEEEec
Q 028431 57 RDKDEHVLMDA-HGKCLLTVRRK 78 (209)
Q Consensus 57 s~~~k~~l~D~-~G~~L~~i~~k 78 (209)
...+.+.+.|+ +|++||+-.+.
T Consensus 115 ~~~~~F~V~d~~~g~~lFsad~~ 137 (264)
T PF04790_consen 115 AQSNRFEVKDPRDGKTLFSADRP 137 (264)
T ss_pred EecCeEEEEcCCCCceEEEecCC
Confidence 33444555555 55555555443
No 11
>PF09008 Head_binding: Head binding; InterPro: IPR009093 This entry represents the N-terminal domain of the Bacteriophage P22, Gp9, tailspike protein (TSP). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The tailspike protein of Salmonella bacteriophage P22 is a viral adhesion protein that mediates attachment of the viral protein to host cell-surface lipopolysaccharide. The tailspike protein displays both receptor binding and destroying properties, inactivating the receptor by endoglycosidase activity. The N-terminal, head-binding domain mediates the non-covalent attachment of the six homotrimeric tailspike molecules to the DNA injection apparatus []. The N-terminal domain of the P22 tailspike protein shows significant sequence similarity to the N-terminal domain of the Shigella phage Sf6 tailspike protein [].; GO: 0009405 pathogenesis; PDB: 2XC1_C 1LKT_D 2VFQ_A 2VFO_A 2VFN_A 2VFP_A 2VKY_B 2VFM_A 2VNL_A 2VBK_A ....
Probab=56.72 E-value=30 Score=25.87 Aligned_cols=43 Identities=21% Similarity=0.373 Sum_probs=27.2
Q ss_pred EeeeEeCCCeEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEe
Q 028431 27 TSLFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRR 77 (209)
Q Consensus 27 k~~~~~~~~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~ 77 (209)
..+....++|.++ +|+.+..|... ++.+.++|++|..+|.+-.
T Consensus 63 QPi~iN~gg~~~y--~gq~a~~vt~~------~hSMAv~d~~g~q~Fy~pn 105 (114)
T PF09008_consen 63 QPIIINKGGFPVY--NGQIAKFVTVP------GHSMAVYDANGQQQFYFPN 105 (114)
T ss_dssp SSEEE-TTS-EEE--TTEE--EEESS------SEEEEEE-TTS-EEEEESE
T ss_pred CCEEEccCCceEE--ccceeEEEEcc------CceEEEEeCCCcEEEeecc
Confidence 3366778899998 45566667662 4558999999999998743
No 12
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=51.14 E-value=22 Score=24.54 Aligned_cols=16 Identities=19% Similarity=0.430 Sum_probs=8.9
Q ss_pred eEEEEcCCCCeEEEEE
Q 028431 61 EHVLMDAHGKCLLTVR 76 (209)
Q Consensus 61 k~~l~D~~G~~L~~i~ 76 (209)
++.|+|++|+.+.++.
T Consensus 28 ~v~I~d~~G~~V~t~~ 43 (81)
T PF13860_consen 28 TVTIYDSNGQVVRTIS 43 (81)
T ss_dssp EEEEEETTS-EEEEEE
T ss_pred EEEEEcCCCCEEEEEE
Confidence 5566666666665554
No 13
>PF07680 DoxA: TQO small subunit DoxA; InterPro: IPR011636 Thiosulphate:quinone oxidoreductase (TQO) catalyses one of the early steps in elemental sulphur oxidation. A novel TQO enzyme was purified from the thermo-acidophilic archaeon Acidianus ambivalens and shown to consist of a large subunit (DoxD) and a smaller subunit (DoxA). The DoxD- and DoxA-like two subunits are fused together in a single polypeptide in Q8AAF0 from SWISSPROT.
Probab=48.05 E-value=20 Score=27.75 Aligned_cols=38 Identities=18% Similarity=0.102 Sum_probs=26.7
Q ss_pred EEEeccCCCCCCCCeEEEEcCCCCeEEEEEecCCCCCc
Q 028431 47 FRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKRPSLHH 84 (209)
Q Consensus 47 f~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~~s~~~ 84 (209)
||++|...-.++--...|+|.+|+.+++...+.++-.|
T Consensus 36 yr~~G~D~Ygsfl~~i~l~d~~g~vv~~~~~~~L~~lP 73 (133)
T PF07680_consen 36 YRVEGPDVYGSFLIGIQLKDSTGHVVLNWDQEKLSSLP 73 (133)
T ss_pred EEcCCCccCCceeeEEEEECCCCCEEEEeCHHHhhhCC
Confidence 34444332246777899999999999999887665444
No 14
>PF02974 Inh: Protease inhibitor Inh; InterPro: IPR021140 This entry represents the metalloprotease inhibitor I38, as well as the outer membrane lipoprotein Omp19. Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This family of proteins represent monomeric serralysin inhibitors of about 125 residues, which interact with specific metalloprotease which are synthesised by serralysin secretors and characterised by being plant, insect and animal pathogens. It is probable that the serralysin inhibitors protect the host from proteolysis during export of the protease. The members of this family belong to MEROPS proteinase inhibitor family I38, clan IK. X-ray crystallography of a complex between the Serratia marcescens protease, SmaPI, and the inhibitor of Erwinia chrysanthemi, Inh, reveals that Inh is folded into an eight-stranded b-barrel with an N-terminal trunk of 10 residues. Residues 1-5 occupy part of the extended active site of the proteinase, thereby preventing access of the substrate. Residues 6-10 form a linker that connects the N-terminal proteinase-binding peptide to the body of the b-barrel. The backbone carbonyl of Ser-1 interacts with the catalytic zinc; the Ser-2 side chain occupies the S1'-binding site and also forms a hydrogen bond to the carboxyl end of the catalytic Glu, whereas Leu-3 occupies the S2' recognition site. Penetration of the trunk region further than 5 residues into the substrate binding cleft appears to be prevented by the b-barrel, which itself interacts with the proteinase near its Met turn (19). Peptide mimetics of the trunk at concentrations up to about 100 mM do not inhibit the protease, demonstrating that the barrel is essential for inhibitory activity [, ]. Structurally and functionally these inhibitors are closely related to the lipocalins, fatty acid-binding proteins, avidins and the enigmatic triabin. Together these five protein families constitute the calycin superfamily []. The proteins are characterised by their high specificity for small hydrophobic molecules and by their ability to form complexes with soluble macromolecules either through intramolecular disulphides or protein-protein interactions []. ; PDB: 1JIW_I 2RN4_A 1SMP_I.
Probab=44.36 E-value=1.1e+02 Score=21.96 Aligned_cols=31 Identities=32% Similarity=0.440 Sum_probs=22.3
Q ss_pred CCeEEEEcCCCCeEEEEEecCCCCCcceEEEEcC
Q 028431 59 KDEHVLMDAHGKCLLTVRRKRPSLHHRWEGYSGE 92 (209)
Q Consensus 59 ~~k~~l~D~~G~~L~~i~~k~~s~~~~w~v~~~~ 92 (209)
++.+.|+|++|+.|.++.+.. -..|+....+
T Consensus 61 gd~l~L~d~~G~~v~~f~~~~---~g~~~g~~~~ 91 (99)
T PF02974_consen 61 GDGLVLTDADGSVVAFFYRSG---DGRFEGQTPD 91 (99)
T ss_dssp TTEEEEE-TTS-EEEEEEEEC---TTEEEEEECC
T ss_pred CCEEEEECCCCCEEEEEEccC---CeeEEeEcCC
Confidence 567999999999999988765 2467777654
No 15
>PF15529 Toxin_49: Putative toxin 49
Probab=44.07 E-value=26 Score=25.18 Aligned_cols=21 Identities=29% Similarity=0.452 Sum_probs=16.4
Q ss_pred CCCeEEEeCCCCEEEEEeccC
Q 028431 33 NDGFTVYNCRGELVFRVDSYG 53 (209)
Q Consensus 33 ~~~f~V~D~~G~~vf~V~g~~ 53 (209)
-.+|++||++|.++-++++.|
T Consensus 29 vt~Y~tY~~~G~~~kr~r~~G 49 (89)
T PF15529_consen 29 VTSYTTYDEDGMIVKRYRGSG 49 (89)
T ss_pred ccceeEEcCCCcEeEEeeccC
Confidence 357999999999777776644
No 16
>KOG3950 consensus Gamma/delta sarcoglycan [Cytoskeleton]
Probab=43.96 E-value=29 Score=29.75 Aligned_cols=23 Identities=17% Similarity=0.219 Sum_probs=14.3
Q ss_pred CCeEEEEcCCCCeEEEEEecCCC
Q 028431 59 KDEHVLMDAHGKCLLTVRRKRPS 81 (209)
Q Consensus 59 ~~k~~l~D~~G~~L~~i~~k~~s 81 (209)
.+++.+.|.+|++||+..+....
T Consensus 138 ~~~Fev~~~dgk~LFsad~dEv~ 160 (292)
T KOG3950|consen 138 CKRFEVNDVDGKLLFSADEDEVV 160 (292)
T ss_pred hceeEEecCCCcEEEEeccceeE
Confidence 45566666677777766655433
No 17
>smart00634 BID_1 Bacterial Ig-like domain (group 1).
Probab=36.08 E-value=1.1e+02 Score=21.38 Aligned_cols=9 Identities=33% Similarity=0.453 Sum_probs=5.0
Q ss_pred eEEEeCCCC
Q 028431 36 FTVYNCRGE 44 (209)
Q Consensus 36 f~V~D~~G~ 44 (209)
.+|.|.+|+
T Consensus 24 v~v~D~~Gn 32 (92)
T smart00634 24 ATVTDANGN 32 (92)
T ss_pred EEEECCCCC
Confidence 445566655
No 18
>PRK12816 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=32.52 E-value=54 Score=28.10 Aligned_cols=40 Identities=20% Similarity=0.370 Sum_probs=31.7
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|..+|+=+| . |++...-.|.+++|.+|+.
T Consensus 98 ~G~GFF~V~~~~G~~~YTR~G--~-F~~d~~G~Lvt~~G~~vl~ 138 (264)
T PRK12816 98 EGEGFFKILMPDGTYAYTRDG--S-FKIDANGQLVTSNGYRLLP 138 (264)
T ss_pred CCCcEEEEEcCCCCeEEeeCC--C-eeECCCCCEECCCCCEecc
Confidence 4544 6888889988899887 4 6777777899999999984
No 19
>TIGR02171 Fb_sc_TIGR02171 Fibrobacter succinogenes paralogous family TIGR02171. This model describes a paralogous family of the rumen bacterium Fibrobacter succinogenes. Eleven members are found in Fibrobacter succinogenes S85, averaging over 900 amino acids in length. More than half are predicted lipoproteins. The function is unknown.
Probab=31.44 E-value=5.4e+02 Score=26.32 Aligned_cols=118 Identities=16% Similarity=0.249 Sum_probs=61.5
Q ss_pred CCCEEEEEeccCCCCCCCCeEEEEcCCC-CeEEE-EEecCCCCCcceEEEEcCCCCCCcceEEEEeecccCcceEEE-Ee
Q 028431 42 RGELVFRVDSYGPDTRDKDEHVLMDAHG-KCLLT-VRRKRPSLHHRWEGYSGERTDGQKPIFSVRRSSIIGRSSVTV-EM 118 (209)
Q Consensus 42 ~G~~vf~V~g~~~~~s~~~k~~l~D~~G-~~L~~-i~~k~~s~~~~w~v~~~~~~~~~~~lf~ik~~~~~~~~~~~v-~~ 118 (209)
+++++|+.+- ..++.+.|.+| ++-.- ++.....++|.|. ++|++..+.+.-.....++.+-+ .|
T Consensus 318 ~tkiAfv~~~-------~~~L~~~D~dG~n~~~ve~~~~~~i~sP~~S------PDG~~vAY~ts~e~~~g~s~vYv~~L 384 (912)
T TIGR02171 318 KAKLAFRNDV-------TGNLAYIDYTKGASRAVEIEDTISVYHPDIS------PDGKKVAFCTGIEGLPGKSSVYVRNL 384 (912)
T ss_pred eeeEEEEEcC-------CCeEEEEecCCCCceEEEecCCCceecCcCC------CCCCEEEEEEeecCCCCCceEEEEeh
Confidence 5677777763 12899999987 55533 6777666778763 34554333243333333333222 22
Q ss_pred eCC-CC-ceEEEEeeecCceEEEEe-CCCceEEEEEeeeccc-cceEEeeeeEEEEEeCC
Q 028431 119 YEN-PG-EEYQIEGNFWQRSCTIFN-AMKESVAEIRRKVDAS-TQVLLAKDVFLLSVKPG 174 (209)
Q Consensus 119 ~~~-~~-~~~~v~G~~~~~~~~I~~-~~g~~VA~V~rk~~~~-~~~~~~~dtY~v~V~pg 174 (209)
..+ ++ -.+.|+. -.=-...|.. | +.+|.-|+---.|. ...+...+||.|-.+.|
T Consensus 385 ~t~~~~~vkl~ve~-aaiprwrv~e~g-dt~ivyv~~a~nn~d~~~~~~~stw~v~f~~g 442 (912)
T TIGR02171 385 NASGSGLVKLPVEN-AAIPRWRVLENG-DTVIVYVSDASNNKDDATFAAYSTWQVPFANG 442 (912)
T ss_pred hccCCCceEeeccc-ccccceEecCCC-CeEEEEEcCCCCCcchhhhhhcceEEEEecCC
Confidence 221 11 2344442 1222233333 4 47777775433221 12334678888888766
No 20
>PF06903 VirK: VirK protein; InterPro: IPR010694 This family consists of several bacterial VirK proteins of around 145 residues in length. The function of this family is unknown [].
Probab=30.67 E-value=2.2e+02 Score=20.91 Aligned_cols=13 Identities=8% Similarity=0.036 Sum_probs=9.3
Q ss_pred eeeEeccCccCCC
Q 028431 6 AAVLVADEYIYKQ 18 (209)
Q Consensus 6 ~~~~v~~~~~~~~ 18 (209)
...+|+...|.++
T Consensus 19 V~v~iDls~Ct~~ 31 (100)
T PF06903_consen 19 VTVVIDLSQCTPE 31 (100)
T ss_pred EEEEEEHHHCccC
Confidence 3457778888877
No 21
>PF08011 DUF1703: Protein of unknown function (DUF1703); InterPro: IPR012547 This family contains many hypothetical bacterial proteins.
Probab=29.96 E-value=23 Score=25.70 Aligned_cols=32 Identities=28% Similarity=0.379 Sum_probs=24.1
Q ss_pred CCHHHHHHHHHHHhhhhcCCCCCCCCcccCCC
Q 028431 175 FDGAFAMGLVLVLDQINGDNYVESNGGRVDPV 206 (209)
Q Consensus 175 vD~ali~alvv~lD~i~~~~~~~~~~~~~~~~ 206 (209)
.-+.++++++.....-.-....+++.||+|-+
T Consensus 5 ~y~~~~~~~l~~~~~y~v~sE~e~~~Gr~Dl~ 36 (105)
T PF08011_consen 5 FYHGFLLGYLSLSSGYEVKSERESGKGRIDLV 36 (105)
T ss_pred hHHHHHHHHHHHcCCcEEEEEecCCCCeEEEE
Confidence 34667777777566667778889999999843
No 22
>PF08909 DUF1854: Domain of unknown function (DUF1854); InterPro: IPR015005 These protein is functionally uncharacterised. It is found at the C terminus of a number of ATP transporter proteins suggesting it may be involved in ligand binding.
Probab=29.56 E-value=1.7e+02 Score=22.68 Aligned_cols=53 Identities=21% Similarity=0.209 Sum_probs=33.6
Q ss_pred ceEEEEEEEeeeEeCCCeEEEeCCCCEEEEEeccCCCCCC-CCeEEEEcCCCCe
Q 028431 19 ETHLTVFKTSLFFQNDGFTVYNCRGELVFRVDSYGPDTRD-KDEHVLMDAHGKC 71 (209)
Q Consensus 19 ~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~~~~s~-~~k~~l~D~~G~~ 71 (209)
|....|..-+.+...-.++|.-..|..-|...|......+ ++.+.|.|.+|+.
T Consensus 59 P~I~rI~~Vs~~~~p~~W~VeTdrG~t~f~l~g~edirrl~~~~llI~D~~G~~ 112 (133)
T PF08909_consen 59 PEILRIVSVSSFGTPSTWDVETDRGPTRFVLKGEEDIRRLGGKRLLITDSHGNR 112 (133)
T ss_pred eEEEEEEEEecccCCcEEEEEecCCcEEEEEcCcccEEEecCCeEEEEeCCCCE
Confidence 3344444443334455678888899999999985433333 3347777888874
No 23
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=29.33 E-value=1.5e+02 Score=25.12 Aligned_cols=26 Identities=27% Similarity=0.266 Sum_probs=12.8
Q ss_pred CEEEEEeccCCCCCCCCeEEEEcCCCCe
Q 028431 44 ELVFRVDSYGPDTRDKDEHVLMDAHGKC 71 (209)
Q Consensus 44 ~~vf~V~g~~~~~s~~~k~~l~D~~G~~ 71 (209)
...|.-.|.+ -...++++|.|.+|..
T Consensus 82 ~~~f~~~G~w--~~~~~~i~L~~~~g~~ 107 (234)
T PRK10523 82 PSSFASYGTW--ARTADKLVLTDSKGEK 107 (234)
T ss_pred CCceEeeEEE--EecCCEEEEecCCCCE
Confidence 4455555532 1223455555666654
No 24
>PRK12691 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=29.22 E-value=83 Score=26.77 Aligned_cols=40 Identities=15% Similarity=0.241 Sum_probs=31.3
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|+..|+=+| . |.+...-.|.+++|.+|+.
T Consensus 98 ~G~GfF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vl~ 138 (262)
T PRK12691 98 QGRGYFQIQLPDGETAYTRAG--A-FNRSADGQIVTSDGYPVQP 138 (262)
T ss_pred cCCcEEEEEcCCCCEEEeeCC--C-eeECCCCCEECCCCCEeEe
Confidence 3444 6777788988899887 4 6777777899999999985
No 25
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=28.91 E-value=86 Score=26.30 Aligned_cols=46 Identities=20% Similarity=0.252 Sum_probs=26.2
Q ss_pred eeEeCCCeEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEe
Q 028431 29 LFFQNDGFTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRR 77 (209)
Q Consensus 29 ~~~~~~~f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~ 77 (209)
....++.+.+.+ .+..-|+++=.. -.-.-++.|+|++|+.+.++.-
T Consensus 100 V~~~~~~~~~~~-~~~~~~~~~l~~--~a~~vti~I~D~~G~~Vrt~~l 145 (225)
T PRK06655 100 VLVPGDTVLVGT-GGTTPFGVELPS--AADNVTVTITDSAGQVVRTIDL 145 (225)
T ss_pred EEEecceEEecC-CCceEEEEEcCC--CCcEEEEEEEcCCCCEEEEEec
Confidence 334455554433 345556555311 2334568888888888877753
No 26
>TIGR03784 marine_sortase sortase, marine proteobacterial type. Members of this protein family are sortase enzymes, cysteine transpeptidases involved in protein sorting activities. Members of this family tend to be found in proteobacteria, rather than in Gram-positive bacteria where sortases attach proteins to the Gram-positive cell wall or participate in pilin cross-linking. Many species with this sortase appear to contain a signal target sequence, a protein with a Vault protein inter-alpha-trypsin domain (pfam08487) and a von Willebrand factor type A domain (pfam00092), encoded by an adjacent gene. These sortases are designated subfamily 6 according to Comfort and Clubb (2004).
Probab=28.72 E-value=78 Score=25.40 Aligned_cols=23 Identities=22% Similarity=0.177 Sum_probs=12.5
Q ss_pred CCCCCeEEEEcCCCCeE-EEEEec
Q 028431 56 TRDKDEHVLMDAHGKCL-LTVRRK 78 (209)
Q Consensus 56 ~s~~~k~~l~D~~G~~L-~~i~~k 78 (209)
+..++++.|.+.+|+.. +.+...
T Consensus 109 L~~GD~I~v~~~~g~~~~Y~V~~~ 132 (174)
T TIGR03784 109 LRPGDVIRLQTPDGQWQSYQVTAT 132 (174)
T ss_pred CCCCCEEEEEECCCeEEEEEEeEE
Confidence 34566666666666543 555443
No 27
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=28.17 E-value=43 Score=23.40 Aligned_cols=17 Identities=29% Similarity=0.458 Sum_probs=11.2
Q ss_pred CeEEEeCCCCEEEEEec
Q 028431 35 GFTVYNCRGELVFRVDS 51 (209)
Q Consensus 35 ~f~V~D~~G~~vf~V~g 51 (209)
+|.|+|.+|+.||+-..
T Consensus 27 D~~v~d~~g~~vwrwS~ 43 (82)
T PF12690_consen 27 DFVVKDKEGKEVWRWSD 43 (82)
T ss_dssp EEEEE-TT--EEEETTT
T ss_pred EEEEECCCCCEEEEecC
Confidence 57788889999988765
No 28
>COG4998 Predicted endonuclease (RecB family) [DNA replication, recombination, and repair]
Probab=27.08 E-value=1.1e+02 Score=24.76 Aligned_cols=37 Identities=22% Similarity=0.243 Sum_probs=27.9
Q ss_pred CceEEEEeCCCceEEEEEeeeccccceEEeeeeEEEEEeCCC-CH
Q 028431 134 QRSCTIFNAMKESVAEIRRKVDASTQVLLAKDVFLLSVKPGF-DG 177 (209)
Q Consensus 134 ~~~~~I~~~~g~~VA~V~rk~~~~~~~~~~~dtY~v~V~pgv-D~ 177 (209)
.+++.|+++ |..|++|.--- -.+..+|.|+|..|. |.
T Consensus 22 Arn~~ve~e-gveVgEiDIVA------ek~GerYavEVKAG~vdi 59 (209)
T COG4998 22 ARNMPVEDE-GVEVGEIDIVA------EKGGERYAVEVKAGMVDI 59 (209)
T ss_pred eecceeecC-CeEEEEEEEEE------ecCCcEEEEEEeccccch
Confidence 357889888 89999995422 236789999999884 54
No 29
>PRK12640 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=26.98 E-value=62 Score=27.46 Aligned_cols=40 Identities=23% Similarity=0.272 Sum_probs=29.9
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|+..|+=+| . |.+...-.|.+++|.+|+.
T Consensus 83 ~G~GFF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vlg 123 (246)
T PRK12640 83 QGDGWLAVQAPDGSEAYTRNG--S-LQVDANGQLRTANGLPVLG 123 (246)
T ss_pred CCCcEEEEEcCCCCEEEEeCC--C-eeECCCCCEEcCCCCCccC
Confidence 3444 7777888888899777 4 6776777788888988874
No 30
>TIGR02488 flgG_G_neg flagellar basal-body rod protein FlgG, Gram-negative bacteria. This family consists of the FlgG protein of the flagellar apparatus in the Proteobacteria and spirochetes.
Probab=26.97 E-value=69 Score=27.21 Aligned_cols=40 Identities=23% Similarity=0.331 Sum_probs=31.0
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|+.+|+=+| . |++...-.|.+++|.+|+.
T Consensus 96 ~G~GfF~V~~~~g~~~yTR~G--~-F~~d~~G~Lvt~~G~~Vl~ 136 (259)
T TIGR02488 96 EGEGFFQVLMPDGTTAYTRDG--A-FKINAEGQLVTSNGYPLQP 136 (259)
T ss_pred cCCcEEEEEcCCCCeEEeeCC--c-eEECCCCCEECCCCCEecC
Confidence 3454 6787788888899777 4 6777777799999999984
No 31
>PF00384 Molybdopterin: Molybdopterin oxidoreductase; InterPro: IPR006656 This domain is found in a number of molybdopterin-containing oxidoreductases, tungsten formylmethanofuran dehydrogenase subunit d (FwdD) and molybdenum formylmethanofuran dehydrogenase subunit (FmdD); where a single domain constitutes almost the entire subunit. The formylmethanofuran dehydrogenase catalyses the first step in methane formation from CO2 in methanogenic archaea and has a molybdopterin dinucleotide cofactor []. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E 3DMR_A 4DMR_A 1H5N_C 1E5V_A ....
Probab=26.69 E-value=74 Score=28.33 Aligned_cols=31 Identities=26% Similarity=0.460 Sum_probs=23.6
Q ss_pred eeeEEEEEeCCCCHHHHHHHH-HHHhhhhcCC
Q 028431 164 KDVFLLSVKPGFDGAFAMGLV-LVLDQINGDN 194 (209)
Q Consensus 164 ~dtY~v~V~pgvD~ali~alv-v~lD~i~~~~ 194 (209)
...+.|.|.||.|.+|++|++ .++++...+.
T Consensus 157 ~ad~~i~i~PGtD~al~~a~~~~ii~~~~~d~ 188 (432)
T PF00384_consen 157 KADEWIPIRPGTDAALALAMAHVIIDEGLYDK 188 (432)
T ss_dssp GTSEEEEE-TTTHHHHHHHHHHHHHHTTTSTH
T ss_pred hccccccccccccHHhhcccccceeecccccc
Confidence 457889999999999999988 6777665543
No 32
>PRK12817 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=26.56 E-value=79 Score=26.93 Aligned_cols=40 Identities=20% Similarity=0.336 Sum_probs=30.3
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|..+|+=+| . |.+...-.|.+++|.+|+.
T Consensus 94 ~G~GfF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vl~ 134 (260)
T PRK12817 94 DGEGFFRVIMADGTYAYTRAG--N-FNIDSNGMLVDDNGNRLEI 134 (260)
T ss_pred CCCcEEEEEcCCCCeEEEeCC--c-eeECCCCCEEcCCCCEEEe
Confidence 3444 7787888988899887 4 5666666788999999885
No 33
>TIGR02150 IPP_isom_1 isopentenyl-diphosphate delta-isomerase, type 1. This model represents type 1 of two non-homologous families of the enzyme isopentenyl-diphosphate delta-isomerase (IPP isomerase). IPP is an essential building block for many compounds, including enzyme cofactors, sterols, and prenyl groups. This inzyme interconverts isopentenyl diphosphate and dimethylallyl diphosphate.
Probab=25.80 E-value=1.3e+02 Score=23.26 Aligned_cols=54 Identities=11% Similarity=0.080 Sum_probs=35.2
Q ss_pred eEEEeCCCCEEEEEeccCC-----CCCCCCeEEEEcCCCCeEEEEEecC-CCCCcceEEE
Q 028431 36 FTVYNCRGELVFRVDSYGP-----DTRDKDEHVLMDAHGKCLLTVRRKR-PSLHHRWEGY 89 (209)
Q Consensus 36 f~V~D~~G~~vf~V~g~~~-----~~s~~~k~~l~D~~G~~L~~i~~k~-~s~~~~w~v~ 89 (209)
+.|+|++|+++-++...+- ++-..-...|.|.+|+.|+.-|... ..+-..|.+-
T Consensus 1 ~~~~d~~~~~~g~~~r~~~~~~~g~~h~~v~v~v~~~~g~vLl~kR~~~k~~~PG~W~~~ 60 (158)
T TIGR02150 1 VILVDENDNPIGTASKAEVHLQETPLHRAFSVFLFNEEGQLLLQRRALSKITWPGVWTNS 60 (158)
T ss_pred CEEECCCCCEeeeeeHHHhhhcCCCeEEEEEEEEEcCCCeEEEEeccCCCcCCCCCcccc
Confidence 3689999999999876331 1112233678899999888654432 3556778753
No 34
>cd06166 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5, represented by Clostridium perfringens CPE2315. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=25.65 E-value=94 Score=23.16 Aligned_cols=22 Identities=14% Similarity=0.200 Sum_probs=12.4
Q ss_pred CCCCCeEEEEcCCCCeEEEEEe
Q 028431 56 TRDKDEHVLMDAHGKCLLTVRR 77 (209)
Q Consensus 56 ~s~~~k~~l~D~~G~~L~~i~~ 77 (209)
+..++++.+.+..+.--+++..
T Consensus 65 l~~Gd~v~v~~~~~~~~Y~V~~ 86 (126)
T cd06166 65 VEKGDEIKVTTKNGTYKYKITS 86 (126)
T ss_pred CCCCCEEEEEECCEEEEEEEEE
Confidence 3456666666665555555544
No 35
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=25.19 E-value=1.9e+02 Score=22.87 Aligned_cols=58 Identities=17% Similarity=0.158 Sum_probs=34.6
Q ss_pred CeEEEeCCCCEEEEEec---cC-CCCCCCCeEEEEcCCCCeEEEEEecCCC-CCcceEEEEcC
Q 028431 35 GFTVYNCRGELVFRVDS---YG-PDTRDKDEHVLMDAHGKCLLTVRRKRPS-LHHRWEGYSGE 92 (209)
Q Consensus 35 ~f~V~D~~G~~vf~V~g---~~-~~~s~~~k~~l~D~~G~~L~~i~~k~~s-~~~~w~v~~~~ 92 (209)
=+.|+|++|+++-.+.- .. .++...-...++|.+|+.|+.=|...-. +...|..+-|+
T Consensus 11 ~~~~~d~~~~~~g~~~~~~~~~~~~~h~~~~v~v~~~~g~iLL~~R~~~~~~~pg~~~~~pGG 73 (180)
T PRK15393 11 WVDIVNENNEVIAQASREQMRAQCLRHRATYIVVHDGMGKILVQRRTETKDFLPGMLDATAGG 73 (180)
T ss_pred EEEEECCCCCEeeEEEHHHHhhCCCceEEEEEEEECCCCeEEEEEeCCCCCCCCCcccccCCC
Confidence 48899999999998721 00 2344445667789999888743332211 23445544443
No 36
>PRK12694 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=25.16 E-value=77 Score=26.99 Aligned_cols=40 Identities=20% Similarity=0.302 Sum_probs=31.3
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|...|+=+| . |.+...-.|.+++|.+|+.
T Consensus 98 ~G~GfF~V~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~Vl~ 138 (260)
T PRK12694 98 NGQGFFQVLMPDGTTAYTRDG--S-FQTNAQGQLVTSSGYPLQP 138 (260)
T ss_pred cCCcEEEEEcCCCCeEEeeCC--C-ceECCCCCEECCCCCEecc
Confidence 4555 5787788988899777 4 6777777899999999885
No 37
>PF08269 Cache_2: Cache domain; InterPro: IPR013163 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions []. This entry is composed of the type 2 Cache domain.; PDB: 2QHK_A 4EXO_A.
Probab=24.81 E-value=11 Score=26.54 Aligned_cols=36 Identities=28% Similarity=0.527 Sum_probs=17.4
Q ss_pred eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEE
Q 028431 36 FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLL 73 (209)
Q Consensus 36 f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~ 73 (209)
|-|+|.+|..+..-.. +-+-..+-..+.|++|.+++
T Consensus 59 ~fi~d~~g~~l~hp~~--p~~~G~n~~~~~D~~G~~~i 94 (95)
T PF08269_consen 59 FFIYDMDGVVLAHPSN--PELEGKNLSDLKDPNGKYLI 94 (95)
T ss_dssp -EEE-TTSBEEEESS---GGGTT-B-TT-B-TT--BHH
T ss_pred EEEEeCCCeEEEcCCC--cccCCcccccCCCCCCCEEe
Confidence 7788888877665432 22344555667888888764
No 38
>PRK12818 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=24.67 E-value=89 Score=26.58 Aligned_cols=40 Identities=25% Similarity=0.326 Sum_probs=29.0
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|+..|+=+| . |.+...-.|.+++|.+|+-
T Consensus 98 ~G~GFF~V~~~~G~~~YTR~G--~-F~~d~~G~Lvt~~G~~vlg 138 (256)
T PRK12818 98 QGRGFFTVERNAGNNYYTRDG--H-FHVDTQGYLVNDSGYYVLG 138 (256)
T ss_pred CCCceEEEEcCCCCeEEeeCC--C-eeECCCCCEEcCCCCEEec
Confidence 3444 7777778887888777 3 5666666688888888874
No 39
>COG5436 Predicted integral membrane protein [Function unknown]
Probab=24.62 E-value=1.6e+02 Score=23.52 Aligned_cols=40 Identities=13% Similarity=0.326 Sum_probs=23.7
Q ss_pred eEEEe-CCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEecC
Q 028431 36 FTVYN-CRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRKR 79 (209)
Q Consensus 36 f~V~D-~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k~ 79 (209)
+-.+| ++|-+.+.-.|...+ +.+.++|++|+.+|+|..+.
T Consensus 70 ~C~fdvsegpvri~a~~nvpy----WSvsiyds~~nn~fS~ND~t 110 (182)
T COG5436 70 FCRFDVSEGPVRIEAKGNVPY----WSVSIYDSNGNNFFSINDRT 110 (182)
T ss_pred eeEeeccCCcEEEEecCCCce----EEEEEEcCCCCceEEecccc
Confidence 44555 356655555553333 33677777777777776653
No 40
>PF05593 RHS_repeat: RHS Repeat; InterPro: IPR006530 These sequences contain two tandem copies of a 21-residue extracellular repeat that is found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin [, , ].
Probab=24.37 E-value=1.5e+02 Score=17.08 Aligned_cols=30 Identities=27% Similarity=0.414 Sum_probs=15.8
Q ss_pred EeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEE
Q 028431 39 YNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLL 73 (209)
Q Consensus 39 ~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~ 73 (209)
+|++|+++=.++..| .....-+|+.|+++-
T Consensus 1 YD~~G~l~~~~d~~G-----~~~~y~YD~~g~l~~ 30 (38)
T PF05593_consen 1 YDANGRLTSVTDPDG-----RTTRYTYDAAGRLTS 30 (38)
T ss_pred CCCCCCEEEEEcCCC-----CEEEEEECCCCCEEE
Confidence 356666666665422 222345566666544
No 41
>PF11141 DUF2914: Protein of unknown function (DUF2914); InterPro: IPR022606 This bacterial family of proteins has no known function.
Probab=23.30 E-value=1.3e+02 Score=20.10 Aligned_cols=21 Identities=19% Similarity=0.243 Sum_probs=17.9
Q ss_pred CCCCCeEEEEcCCCCeEEEEE
Q 028431 56 TRDKDEHVLMDAHGKCLLTVR 76 (209)
Q Consensus 56 ~s~~~k~~l~D~~G~~L~~i~ 76 (209)
..+..++.++|.+|+.|..++
T Consensus 42 ~~G~WrV~V~~~~G~~l~~~~ 62 (66)
T PF11141_consen 42 QPGDWRVEVVDEDGQVLGSLR 62 (66)
T ss_pred CCcCEEEEEEcCCCCEEEEEE
Confidence 467889999999999998765
No 42
>cd02769 MopB_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=23.12 E-value=55 Score=31.32 Aligned_cols=25 Identities=20% Similarity=0.452 Sum_probs=20.5
Q ss_pred eeEEEEEeCCCCHHHHHHHH-HHHhh
Q 028431 165 DVFLLSVKPGFDGAFAMGLV-LVLDQ 189 (209)
Q Consensus 165 dtY~v~V~pgvD~ali~alv-v~lD~ 189 (209)
|...|.|.||.|.+|++||+ ++|++
T Consensus 226 dd~~l~irPGTD~ALalam~~~ii~e 251 (609)
T cd02769 226 GAEWIAIRPGTDVALMLALAHTLVTE 251 (609)
T ss_pred cCcEeccCCCcHHHHHHHHHHHHHHc
Confidence 45779999999999999998 55544
No 43
>PRK12813 flgD flagellar basal body rod modification protein; Reviewed
Probab=23.09 E-value=1.4e+02 Score=25.03 Aligned_cols=17 Identities=29% Similarity=0.251 Sum_probs=11.2
Q ss_pred CeEEEEcCCCCeEEEEE
Q 028431 60 DEHVLMDAHGKCLLTVR 76 (209)
Q Consensus 60 ~k~~l~D~~G~~L~~i~ 76 (209)
-++.|+|++|+.+-++.
T Consensus 126 v~v~I~D~~G~vV~t~~ 142 (223)
T PRK12813 126 AELVVRDAAGAEVARET 142 (223)
T ss_pred EEEEEEcCCCCEEEEEe
Confidence 35667777777776654
No 44
>PF12396 DUF3659: Protein of unknown function (DUF3659) ; InterPro: IPR022124 This domain family is found in bacteria and eukaryotes, and is approximately 70 amino acids in length.
Probab=23.01 E-value=2.2e+02 Score=18.98 Aligned_cols=40 Identities=18% Similarity=0.200 Sum_probs=25.1
Q ss_pred EEEeCCCCEEEEEe-ccCC-C--CCCCCeEEEEcCCCCeEEEEE
Q 028431 37 TVYNCRGELVFRVD-SYGP-D--TRDKDEHVLMDAHGKCLLTVR 76 (209)
Q Consensus 37 ~V~D~~G~~vf~V~-g~~~-~--~s~~~k~~l~D~~G~~L~~i~ 76 (209)
.|.|.+|+++-+|. |..+ + ...-.+=.|.|.+|+.|-...
T Consensus 14 ~V~d~~G~~vG~vveGd~k~L~G~~vd~~G~I~d~~G~viGkae 57 (64)
T PF12396_consen 14 NVVDDDGNVVGRVVEGDPKKLVGKKVDEDGDILDKDGNVIGKAE 57 (64)
T ss_pred eEECCCCCEEEEEecCCHHHhcCCcCCCCCCEECCCCCEEEEEE
Confidence 48889999999954 4111 1 234445567777777776543
No 45
>cd05828 Sortase_D_4 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-4. These sortases recognize a unique sorting signal (LPXTA) and they constitute a specialized sorting pathway found in bacilli. Their substrates are predicted to be predominantly enzymes such as 5'-nucleotidases, glycosyl hydrolase, and subtilase.
Probab=22.92 E-value=1e+02 Score=22.98 Aligned_cols=23 Identities=17% Similarity=0.079 Sum_probs=13.9
Q ss_pred CCCCCeEEEEcCCCCeEEEEEec
Q 028431 56 TRDKDEHVLMDAHGKCLLTVRRK 78 (209)
Q Consensus 56 ~s~~~k~~l~D~~G~~L~~i~~k 78 (209)
+..++++.+.+..+.-.+.+.+.
T Consensus 62 l~~Gd~i~v~~~~~~~~Y~V~~~ 84 (127)
T cd05828 62 LEPGDIITLQTLGGTYTYRVTST 84 (127)
T ss_pred CCCCCEEEEEECCEEEEEEEeeE
Confidence 45566777777655555555554
No 46
>PF09000 Cytotoxic: Cytotoxic; InterPro: IPR009105 Colicins are plasmid-encoded protein antibiotics, or bacteriocins, produced by strains of Escherichia coli that kill closely related bacteria. Colicins are classified according to the cell-surface receptor they bind to, colicin E3 binding to the BtuB receptor involved in vitamin B12 uptake. The lethal action of colicin E3 arises from its ability to inactivate the ribosome by site-specific RNase cleavage of the 16S ribosomal RNA, which is carried out by the catalytic, or ribonuclease domain. Colicin E3 is comprised of three domains, each domain being involved in a different stage of infection: receptor binding, translocation and cytotoxicity. Colicin E3 is a Y-shaped molecule with the receptor-binding middle domain forming the stalk, the N-terminal translocation domain forming the two globular heads (IPR003058 from INTERPRO), and the C-terminal catalytic domain forming the two globular arms. To neutralise the toxic effects of colicin E3, the host cell produces an immunity protein, which binds to the C-terminal end of the ribonuclease domain and effectively suppresses its activity. This entry represents the ribonuclease domain (also called catalytic or cytotoxic domain) found in various colicins. This domain confers cytotoxic activity to proteins, enabling the formation of nucleolytic breaks in 16S ribosomal RNA. The structure of the domain reveals a highly twisted central beta-sheet elaborated with a short N-terminal alpha-helix [, ]. ; GO: 0003723 RNA binding, 0016788 hydrolase activity, acting on ester bonds, 0043022 ribosome binding, 0009405 pathogenesis; PDB: 2B5U_C 1JCH_A 1E44_B 2XFZ_Y.
Probab=22.63 E-value=2.9e+02 Score=19.66 Aligned_cols=35 Identities=23% Similarity=0.294 Sum_probs=24.5
Q ss_pred EEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEEEEec
Q 028431 38 VYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLTVRRK 78 (209)
Q Consensus 38 V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~i~~k 78 (209)
=+|..|..+|.-|. .+.++.++|..|+.|-.+...
T Consensus 35 w~~~kG~kiYewDs------qHG~lEvy~~~GkHLGe~Dp~ 69 (85)
T PF09000_consen 35 WKDKKGRKIYEWDS------QHGELEVYNKRGKHLGEFDPK 69 (85)
T ss_dssp EEETTTTEEEEEET------TTTEEEEEETT-BEEEEE-TT
T ss_pred eEcCCCCEEEEEcC------CCCeEEEEcCCCcCcccccCC
Confidence 45678888888885 367888888888888776543
No 47
>PF04170 NlpE: NlpE N-terminal domain; InterPro: IPR007298 This family represents a bacterial outer membrane lipoprotein that is necessary for signalling by the Cpx pathway []. This pathway responds to cell envelope disturbances and increases the expression of periplasmic protein folding and degradation factors. While the molecular function of the NlpE protein is unknown, it may be involved in detecting bacterial adhesion to abiotic surfaces. NlpE from Escherichia coli and Salmonella typhi is also known to confer copper tolerance in copper-sensitive strains of E. coli, and may be involved in copper efflux and delivery of copper to copper-dependent enzymes [].; PDB: 3LHN_A 2Z4I_B 2Z4H_A.
Probab=22.23 E-value=2.8e+02 Score=19.30 Aligned_cols=12 Identities=17% Similarity=0.390 Sum_probs=4.8
Q ss_pred eEEEEcCCCCeE
Q 028431 61 EHVLMDAHGKCL 72 (209)
Q Consensus 61 k~~l~D~~G~~L 72 (209)
.+.++|.+|+|+
T Consensus 72 ~L~~Ld~~G~~i 83 (87)
T PF04170_consen 72 SLEMLDQDGNPI 83 (87)
T ss_dssp EEEEE-TTS-B-
T ss_pred EEEEECCCCCcC
Confidence 355555555554
No 48
>PRK12693 flgG flagellar basal body rod protein FlgG; Provisional
Probab=21.07 E-value=1.2e+02 Score=25.75 Aligned_cols=40 Identities=20% Similarity=0.306 Sum_probs=30.8
Q ss_pred eCCC-eEEEeCCCCEEEEEeccCCCCCCCCeEEEEcCCCCeEEE
Q 028431 32 QNDG-FTVYNCRGELVFRVDSYGPDTRDKDEHVLMDAHGKCLLT 74 (209)
Q Consensus 32 ~~~~-f~V~D~~G~~vf~V~g~~~~~s~~~k~~l~D~~G~~L~~ 74 (209)
.+++ |.|.+.+|+..|+=+| . |.+...-.|.+++|.+|+.
T Consensus 98 ~G~GfF~v~~~~G~~~yTR~G--~-F~~d~~G~Lvt~~G~~vl~ 138 (261)
T PRK12693 98 EGQGFFQVQLPDGTIAYTRDG--S-FKLDQDGQLVTSGGYPLQP 138 (261)
T ss_pred CCCcEEEEEcCCCCeEEeeCC--C-eeECCCCCEECCCCCEEee
Confidence 3555 5777788988899777 4 6777777799999999985
No 49
>PF04790 Sarcoglycan_1: Sarcoglycan complex subunit protein; InterPro: IPR006875 The dystrophin glycoprotein complex (DGC) is a membrane-spanning complex that links the interior cytoskeleton to the extracellular matrix in muscle. The sarcoglycan complex is a subcomplex within the DGC and is composed of several muscle-specific, transmembrane proteins (alpha-, beta-, gamma-, delta- and zeta-sarcoglycan). The sarcoglycans are asparagine-linked glycosylated proteins with single transmembrane domains. This family contains beta, gamma and delta members [, ].; GO: 0007010 cytoskeleton organization, 0016012 sarcoglycan complex, 0016021 integral to membrane
Probab=21.00 E-value=1.6e+02 Score=25.45 Aligned_cols=50 Identities=18% Similarity=0.204 Sum_probs=36.0
Q ss_pred eEEEEEEEe-eeEeCCCeEEEeC-CCCEEEEEeccCCCCCCCCeEEEEcCCCC
Q 028431 20 THLTVFKTS-LFFQNDGFTVYNC-RGELVFRVDSYGPDTRDKDEHVLMDAHGK 70 (209)
Q Consensus 20 ~~l~v~~k~-~~~~~~~f~V~D~-~G~~vf~V~g~~~~~s~~~k~~l~D~~G~ 70 (209)
..|.|-+.. .....+.|.|+|. +|+++|..+... .--..+++.+..+.|.
T Consensus 103 ~~l~v~~~~~v~~~~~~F~V~d~~~g~~lFsad~~~-v~v~~~~lrv~~~~G~ 154 (264)
T PF04790_consen 103 SRLVVGPDGTVEAQSNRFEVKDPRDGKTLFSADRPE-VVVGAEKLRVTGPEGA 154 (264)
T ss_pred ceEEECCCccEEEecCeEEEEcCCCCceEEEecCCc-eEEeeeeEEecCCccE
Confidence 456666665 4567888999998 999999999842 1223566677777777
Done!