Query 041057
Match_columns 180
No_of_seqs 113 out of 432
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 03:22:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041057.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041057hhsearch_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 2.2E-42 4.8E-47 274.0 17.0 160 1-169 20-187 (187)
2 COG4894 Uncharacterized conser 100.0 5E-34 1.1E-38 213.6 9.7 146 3-175 13-158 (159)
3 PF03803 Scramblase: Scramblas 99.6 4.7E-14 1E-18 114.1 17.4 153 8-176 42-220 (221)
4 COG4894 Uncharacterized conser 98.2 2.1E-06 4.5E-11 65.1 5.4 86 7-103 41-139 (159)
5 PF04525 Tub_2: Tubby C 2; In 97.7 0.00033 7.1E-09 55.3 9.0 87 16-115 10-99 (187)
6 KOG0621 Phospholipid scramblas 97.3 0.0064 1.4E-07 51.6 12.7 157 8-178 98-282 (292)
7 PF03803 Scramblase: Scramblas 96.2 0.14 3.1E-06 41.1 12.2 101 32-137 41-148 (221)
8 PF02974 Inh: Protease inhibit 78.1 12 0.00025 26.5 6.4 32 33-72 61-92 (99)
9 PF09008 Head_binding: Head bi 72.5 5.7 0.00012 28.9 3.5 42 3-51 64-105 (114)
10 PRK12816 flgG flagellar basal 71.6 6.2 0.00014 32.9 4.1 43 4-48 95-138 (264)
11 PRK12691 flgG flagellar basal 66.9 12 0.00025 31.1 4.8 43 4-48 95-138 (262)
12 PF13860 FlgD_ig: FlgD Ig-like 66.4 11 0.00025 25.3 3.9 18 35-52 28-45 (81)
13 KOG3950 Gamma/delta sarcoglyca 65.9 8.1 0.00018 32.2 3.5 11 147-157 260-270 (292)
14 smart00634 BID_1 Bacterial Ig- 65.4 20 0.00043 24.6 5.1 12 36-47 24-35 (92)
15 PRK12694 flgG flagellar basal 65.2 9.2 0.0002 31.8 3.9 43 4-48 95-138 (260)
16 TIGR02488 flgG_G_neg flagellar 64.5 9.1 0.0002 31.7 3.7 43 4-48 93-136 (259)
17 KOG0621 Phospholipid scramblas 63.2 21 0.00045 30.5 5.7 44 9-52 188-236 (292)
18 PRK12693 flgG flagellar basal 60.9 14 0.0003 30.6 4.2 43 4-48 95-138 (261)
19 PF15529 Toxin_49: Putative to 59.5 9.8 0.00021 26.7 2.5 18 9-26 30-47 (89)
20 cd06166 Sortase_D_5 Sortase D 58.8 17 0.00036 26.6 3.9 20 33-52 68-87 (126)
21 PF04790 Sarcoglycan_1: Sarcog 58.7 20 0.00043 30.1 4.8 21 32-52 116-137 (264)
22 TIGR03784 marine_sortase sorta 56.5 20 0.00043 28.1 4.2 21 32-52 111-132 (174)
23 cd05828 Sortase_D_4 Sortase D 56.3 18 0.00039 26.5 3.7 20 33-52 65-84 (127)
24 TIGR02150 IPP_isom_1 isopenten 53.1 31 0.00067 26.1 4.7 54 11-68 1-60 (158)
25 PRK15393 NUDIX hydrolase YfcD; 50.7 24 0.00052 27.4 3.8 57 10-71 11-73 (180)
26 PRK12643 flgF flagellar basal 49.4 17 0.00036 29.4 2.8 41 4-47 80-121 (209)
27 COG4998 Predicted endonuclease 47.9 36 0.00078 26.8 4.2 37 118-160 22-59 (209)
28 PF01167 Tub: Tub family; Int 47.3 62 0.0013 26.7 5.9 74 45-126 8-87 (246)
29 PLN02552 isopentenyl-diphospha 47.2 47 0.001 27.5 5.2 60 8-71 22-92 (247)
30 PF09000 Cytotoxic: Cytotoxic; 46.8 58 0.0013 22.6 4.7 31 14-49 36-66 (85)
31 TIGR02527 dot_icm_IcmQ Dot/Icm 46.1 9.9 0.00021 29.9 0.9 34 20-53 120-153 (182)
32 PF09475 Dot_icm_IcmQ: Dot/Icm 44.8 7.2 0.00016 30.6 0.0 34 20-53 120-153 (179)
33 cd02885 IPP_Isomerase Isopente 44.6 36 0.00079 25.7 3.9 54 11-68 4-63 (165)
34 cd03676 Nudix_hydrolase_3 Memb 43.3 83 0.0018 24.1 5.8 60 8-71 4-72 (180)
35 PF08269 Cache_2: Cache domain 42.1 5.5 0.00012 27.4 -0.9 43 4-47 51-94 (95)
36 PRK12690 flgF flagellar basal 42.1 34 0.00073 28.2 3.6 42 4-48 81-123 (238)
37 PF00384 Molybdopterin: Molybd 41.5 28 0.0006 30.2 3.2 30 147-176 157-187 (432)
38 PRK12819 flgG flagellar basal 41.2 43 0.00092 27.8 4.1 38 9-48 99-136 (257)
39 COG5436 Predicted integral mem 41.1 67 0.0014 25.1 4.7 40 10-52 69-109 (182)
40 KOG1693 emp24/gp25L/p24 family 38.7 1.2E+02 0.0025 24.6 6.0 48 109-156 50-100 (209)
41 cd05830 Sortase_D_5 Sortase D 37.6 55 0.0012 24.2 3.8 21 32-52 68-88 (137)
42 PRK06655 flgD flagellar basal 37.6 53 0.0011 26.8 4.0 48 2-51 98-145 (225)
43 PF12690 BsuPI: Intracellular 37.0 26 0.00055 23.9 1.8 15 11-25 28-42 (82)
44 cd02769 MopB_DMSOR-BSOR-TMAOR 37.0 21 0.00046 33.1 1.8 25 148-172 226-251 (609)
45 PRK12640 flgF flagellar basal 36.5 37 0.0008 28.1 3.0 43 4-48 80-123 (246)
46 PF12396 DUF3659: Protein of u 36.1 1.2E+02 0.0025 19.9 4.7 46 4-51 7-58 (64)
47 PRK12817 flgG flagellar basal 35.6 46 0.001 27.6 3.4 43 4-48 91-134 (260)
48 cd00004 Sortase Sortases are c 35.5 67 0.0014 23.2 4.0 21 32-52 67-87 (128)
49 PRK10523 lipoprotein involved 35.4 77 0.0017 26.2 4.6 32 18-50 81-113 (234)
50 PF07680 DoxA: TQO small subun 34.8 52 0.0011 24.8 3.3 37 16-52 27-67 (133)
51 PRK12818 flgG flagellar basal 34.2 49 0.0011 27.4 3.4 43 4-48 95-138 (256)
52 KOG0291 WD40-repeat-containing 34.2 4.3E+02 0.0094 25.9 9.7 69 2-71 18-94 (893)
53 cd06165 Sortase_A_1 Sortase A 32.8 72 0.0016 23.1 3.8 21 32-52 66-86 (127)
54 PRK10893 lipopolysaccharide ex 32.4 1.3E+02 0.0028 23.8 5.4 44 10-53 49-101 (192)
55 PRK06803 flgE flagellar hook p 31.5 72 0.0016 28.4 4.1 42 4-47 75-117 (402)
56 PRK12633 flgD flagellar basal 30.7 81 0.0018 25.8 4.1 36 11-46 133-170 (230)
57 TIGR00509 bisC_fam molybdopter 30.2 35 0.00075 32.7 2.0 25 148-172 222-247 (770)
58 PF11141 DUF2914: Protein of u 29.8 72 0.0016 20.8 3.0 20 32-51 44-63 (66)
59 COG1021 EntE Peptide arylation 29.8 33 0.00071 31.1 1.7 38 10-48 345-382 (542)
60 PRK00122 rimM 16S rRNA-process 29.5 1.5E+02 0.0033 22.7 5.3 17 10-26 107-123 (172)
61 PF11906 DUF3426: Protein of u 29.4 1.8E+02 0.0039 21.5 5.5 32 16-48 64-103 (149)
62 TIGR02164 torA trimethylamine- 27.9 38 0.00083 32.7 1.9 22 151-172 272-294 (822)
63 PRK06655 flgD flagellar basal 27.4 2.1E+02 0.0044 23.4 5.9 16 11-26 130-145 (225)
64 PRK12812 flgD flagellar basal 27.3 1.9E+02 0.004 24.3 5.7 49 2-51 112-160 (259)
65 PRK14590 rimM 16S rRNA-process 27.0 1.7E+02 0.0037 22.7 5.1 13 38-50 122-134 (171)
66 TIGR02273 16S_RimM 16S rRNA pr 26.7 1.4E+02 0.0031 22.7 4.6 16 11-26 103-118 (165)
67 PF12914 SH3_7: SH3 domain of 26.6 1.2E+02 0.0026 18.4 3.4 22 4-25 15-36 (50)
68 PF13511 DUF4124: Domain of un 26.5 54 0.0012 20.4 1.9 18 9-26 14-31 (60)
69 COG4787 FlgF Flagellar basal b 26.3 75 0.0016 26.2 3.0 40 5-47 81-121 (251)
70 TIGR01076 sortase_fam LPXTG-si 25.1 1.6E+02 0.0035 21.6 4.5 21 32-52 66-86 (136)
71 cd02750 MopB_Nitrate-R-NarG-li 24.4 54 0.0012 29.2 2.1 22 150-171 218-240 (461)
72 PF06357 Omega-toxin: Omega-at 24.0 68 0.0015 18.5 1.7 12 14-25 26-37 (37)
73 PF12142 PPO1_DWL: Polyphenol 23.8 63 0.0014 20.5 1.8 20 10-30 11-30 (54)
74 PRK05682 flgE flagellar hook p 23.5 1.1E+02 0.0025 27.1 4.0 43 4-48 81-123 (407)
75 PF04170 NlpE: NlpE N-terminal 23.0 1.6E+02 0.0035 20.0 3.9 23 22-44 39-62 (87)
76 PRK12692 flgG flagellar basal 23.0 81 0.0018 26.2 2.8 42 4-47 95-137 (262)
77 PRK13828 rimM 16S rRNA-process 22.9 2.1E+02 0.0047 21.8 5.0 17 10-26 87-103 (161)
78 PRK14591 rimM 16S rRNA-process 22.8 2.1E+02 0.0045 22.0 4.9 13 38-50 124-136 (169)
79 PRK12641 flgF flagellar basal 22.7 89 0.0019 25.9 3.0 42 4-48 78-120 (252)
80 PRK12636 flgG flagellar basal 22.7 1.1E+02 0.0024 25.3 3.6 42 4-48 94-136 (263)
81 TIGR03479 DMSO_red_II_alp DMSO 22.4 43 0.00092 32.9 1.1 22 151-172 273-295 (912)
82 TIGR03067 Planc_TIGR03067 Plan 21.9 3E+02 0.0065 19.5 8.5 46 3-51 32-84 (107)
83 COG4786 FlgG Flagellar basal b 21.6 91 0.002 26.3 2.8 43 4-48 95-138 (265)
84 PF14269 Arylsulfotran_2: Aryl 21.5 3.6E+02 0.0078 22.8 6.5 41 11-52 27-77 (299)
85 PF05593 RHS_repeat: RHS Repea 21.3 1.7E+02 0.0037 16.4 4.2 30 14-47 1-30 (38)
86 PRK03759 isopentenyl-diphospha 20.9 1.8E+02 0.0038 22.5 4.2 59 9-71 6-70 (184)
87 PRK14991 tetrathionate reducta 20.8 61 0.0013 32.4 1.8 24 149-172 340-364 (1031)
88 cd00028 B_lectin Bulb-type man 20.7 3.1E+02 0.0067 19.2 6.1 12 36-47 67-78 (116)
89 cd02758 MopB_Tetrathionate-Ra 20.6 62 0.0013 31.1 1.8 22 149-170 265-286 (735)
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=2.2e-42 Score=274.04 Aligned_cols=160 Identities=31% Similarity=0.523 Sum_probs=97.2
Q ss_pred CcCeEEEcCCEEEEcCCCCEEEEEec-cccCCCCCeEEEECCCCCeEEEEEEcCceeeeecccceeEEEEecCCCCceeE
Q 041057 1 RRPHVVNGGGFVVTDCSQKIIFRVDG-CGVLGTKGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAFDYEGSKKLV 79 (180)
Q Consensus 1 ~k~l~~~gd~f~V~D~~G~~vf~V~g-~~~~s~~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~~~~~~~~~~ 79 (180)
||++++++|+|+|+|++|+++|+|+| + .+++++++.|+|++|+||++|++| +++++++|++|++++.+..+++
T Consensus 20 ~k~~~~~~~~f~V~D~~G~~vf~V~g~~-~~s~~~~~~l~D~~G~~L~~i~~k-----~~~l~~~w~i~~~~~~~~~~~i 93 (187)
T PF04525_consen 20 KKSLSFSGDDFTVYDENGNVVFRVDGGK-FFSIGKKRTLMDASGNPLFTIRRK-----LFSLRPTWEIYRGGGSEGKKPI 93 (187)
T ss_dssp ----------EEEEETTS-EEEEEE--S-CTTBTTEEEEE-TTS-EEEEEE-------------EEEEEETT---GGGEE
T ss_pred EEEeeecCCCEEEEcCCCCEEEEEEEec-ccCCCCEEEEECCCCCEEEEEEee-----ecccceEEEEEECCCCccCceE
Confidence 57889999999999999999999999 6 789999999999999999999999 6999999999999876666799
Q ss_pred EEEEcCCCCcceeecceEEEEEecC-------CCcceEEEEeecCCcceEEEcCCCCEEEEEEeeeeeeeeeeeeeeEEE
Q 041057 80 FTLKEPPSSSCLVRNSSIRISTETT-------ARSSNFEVKGYFPDRDCIIVDPSGNIVAQIGVKKEIQDLMESKDLYHI 152 (180)
Q Consensus 80 ftvkk~~~~~~~~~k~~~~v~l~~~-------~~~~~~~v~G~~~~~~~~I~~~~g~~VAeV~rk~~~~~~~~g~dty~v 152 (180)
|++|+++ .++.++++.+++.+. ++.++|+|+|||++++|+|++.+|++||||+||+...++++|+|+|.|
T Consensus 94 ~tvkk~~---~~~~~~~~~~f~~~~~~~~~~~~~~~~~~i~G~~~~~~~~I~~~~g~~VA~i~rk~~~k~~~~~~dty~l 170 (187)
T PF04525_consen 94 FTVKKKS---MLQNKDSFDVFLPPKSNISIDDSEGPDFEIKGNFWDRSFTIYDSGGRVVAEISRKYSSKKWFSGRDTYTL 170 (187)
T ss_dssp EEEE-------------EEEEET--T----------SEEEES-TTTT--EEEECC--EEEEEEE----------B-SEEE
T ss_pred EEEEEec---ccCCCcceeEEEecccceeecCCCCceEEEEEEecCcEEEEEEcCCCEEEEEecccceeeEEecCcEEEE
Confidence 9999986 366788888887632 367799999999999999997679999999999888889999999999
Q ss_pred EEeCCCCHHHHHHHHHH
Q 041057 153 VVKPGIDQAFVVGVIAT 169 (180)
Q Consensus 153 ~V~pgvD~ali~alvv~ 169 (180)
+|+||+|++||+|||||
T Consensus 171 ~V~pg~D~~lv~alvvi 187 (187)
T PF04525_consen 171 TVAPGVDQALVVALVVI 187 (187)
T ss_dssp EE-TTSBHHHHHHHHHH
T ss_pred EEcCCCCHHHheeEEeC
Confidence 99999999999999997
No 2
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=5e-34 Score=213.62 Aligned_cols=146 Identities=22% Similarity=0.354 Sum_probs=131.2
Q ss_pred CeEEEcCCEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEEEEEcCceeeeecccceeEEEEecCCCCceeEEEE
Q 041057 3 PHVVNGGGFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAFDYEGSKKLVFTL 82 (180)
Q Consensus 3 ~l~~~gd~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~~~~~~~~~~ftv 82 (180)
.+++-||.|.|+|.+|+.+|+|+|. ++++++.+++.|++|.+|.+|++| ++++.|+|++-.|++ ..|.+
T Consensus 13 k~~~~gd~f~I~d~dgE~af~VeGs-~f~i~dtlti~Da~G~~l~~i~~k-----ll~l~~~yeI~d~~g-----~~~~v 81 (159)
T COG4894 13 KMFSFGDAFHIYDRDGEEAFKVEGS-FFSIGDTLTITDASGKTLVSIEQK-----LLSLLPRYEISDGGG-----TVCEV 81 (159)
T ss_pred hhhhcccceEEECCCCcEEEEEeee-EEeeCceEEEEecCCCChHHHHHH-----HhhccceeEEEcCCC-----CEEEE
Confidence 4677889999999999999999996 899999999999999999999999 799999999988875 48889
Q ss_pred EcCCCCcceeecceEEEEEecCCCcceEEEEeecCCcceEEEcCCCCEEEEEEeeeeeeeeeeeeeeEEEEEeCCCCHHH
Q 041057 83 KEPPSSSCLVRNSSIRISTETTARSSNFEVKGYFPDRDCIIVDPSGNIVAQIGVKKEIQDLMESKDLYHIVVKPGIDQAF 162 (180)
Q Consensus 83 kk~~~~~~~~~k~~~~v~l~~~~~~~~~~v~G~~~~~~~~I~~~~g~~VAeV~rk~~~~~~~~g~dty~v~V~pgvD~al 162 (180)
+|+. +++ ++++.+ +..+|+++||+|+.+|++.++ ++++|+|+|| |++|+|||.|+|+|+.|.++
T Consensus 82 rKK~--tf~--Rdk~e~------d~~~~eihGNi~d~efkl~dg-~~~~aeVsKk-----wf~~rdTY~l~vapde~a~l 145 (159)
T COG4894 82 RKKV--TFS--RDKFEI------DGLNWEIHGNIWDDEFKLTDG-ENVRAEVSKK-----WFSWRDTYHLQVAPDEDALL 145 (159)
T ss_pred EEEE--EEE--eeeEEE------cCCCeEEecceeceEEEEecC-Cceehhheee-----eEeccceEEEEEcCchhhHH
Confidence 8886 333 777766 345699999999999999986 6799999998 68999999999999999999
Q ss_pred HHHHHHHhhhhcC
Q 041057 163 VVGVIATLDYIYG 175 (180)
Q Consensus 163 i~alvv~lD~i~~ 175 (180)
|+|++||+|++.+
T Consensus 146 ii~i~VaLD~v~~ 158 (159)
T COG4894 146 IIAIAVALDMVLY 158 (159)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999999875
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=99.62 E-value=4.7e-14 Score=114.14 Aligned_cols=153 Identities=22% Similarity=0.310 Sum_probs=120.1
Q ss_pred cCCEEEEcCCCCEEEEEeccc-cC-----C--CCCeEEEECCCCCeEEEEEEcCceeeeecc-------cceeEEEEecC
Q 041057 8 GGGFVVTDCSQKIIFRVDGCG-VL-----G--TKGELVVRHADGDAVVLIRRKGGVVEALSI-------HKKWKGYAFDY 72 (180)
Q Consensus 8 gd~f~V~D~~G~~vf~V~g~~-~~-----s--~~~~~~l~D~~G~~L~~i~~k~~~~~~~sl-------~~~w~v~~~~~ 72 (180)
.+.|.|+|.+|+.+|.+...+ .. + .+-+..++|+.|+++++++|. +++ ..+.+|+.+.
T Consensus 42 ~N~Y~I~n~~g~~i~~~~E~s~~~~R~~~~~~R~f~~~i~D~~g~~vl~i~Rp------~~c~~C~~~~~~~~~V~~p~- 114 (221)
T PF03803_consen 42 PNRYDIKNPNGQQIYYAVEESDCCSRQCCGSHRPFKMHIYDNYGREVLTIERP------FKCCSCCPCCLQEMEVESPP- 114 (221)
T ss_pred CceEEEECCCCCEEEEEEEeCcceeeeecCCCCCEEEEEEecCCCEEEEEEcC------CcceecccccceeEEEecCC-
Confidence 489999999999999886542 11 1 233578999999999999998 332 3455664443
Q ss_pred CCCceeEEEEEcCCCCcceeecceEEEEEecCCCcceEEEEee------cCCcceEEEcCCCCEEEEEEeeeee--eeee
Q 041057 73 EGSKKLVFTLKEPPSSSCLVRNSSIRISTETTARSSNFEVKGY------FPDRDCIIVDPSGNIVAQIGVKKEI--QDLM 144 (180)
Q Consensus 73 ~~~~~~~ftvkk~~~~~~~~~k~~~~v~l~~~~~~~~~~v~G~------~~~~~~~I~~~~g~~VAeV~rk~~~--~~~~ 144 (180)
++++.+|++++ +++ +++++|.-++ ....+.|+|. +.+..|.|++.+|+.||+|+|+|+. .+.+
T Consensus 115 ---g~~iG~I~q~~--~~~--~~~f~I~d~~--~~~~~~I~gp~~~~~~~~~~~F~I~~~~~~~vg~I~k~w~G~~~e~~ 185 (221)
T PF03803_consen 115 ---GNLIGSIRQPF--SCC--RPNFDIFDAN--GNPIFTIKGPCCCCSCCCDWEFEIKDPNGQEVGSITKKWSGFCRELF 185 (221)
T ss_pred ---CcEEEEEEEcC--ccc--ceEEEEEECC--CceEEEEeCCcceeccccceeeeeecccCcEEEEEEEecCCcchhhc
Confidence 56999999886 455 7888887555 3556888887 4577899999778999999999874 3567
Q ss_pred eeeeeEEEEEeCCCCH---HHHHHHHHHhhhhcCC
Q 041057 145 ESKDLYHIVVKPGIDQ---AFVVGVIATLDYIYGE 176 (180)
Q Consensus 145 ~g~dty~v~V~pgvD~---ali~alvv~lD~i~~~ 176 (180)
...|.|.|+..+..|. |+++|.++.+|.++-|
T Consensus 186 t~~d~f~i~Fp~~l~~~~Kalll~a~~liD~~~Fe 220 (221)
T PF03803_consen 186 TDADNFVIEFPPDLDVEQKALLLGAAFLIDYMYFE 220 (221)
T ss_pred cccceEEEEcCCCCCHHHHHHHHHHHHHhhhhhhc
Confidence 7899999999999887 8899999999999865
No 4
>COG4894 Uncharacterized conserved protein [Function unknown]
Probab=98.24 E-value=2.1e-06 Score=65.13 Aligned_cols=86 Identities=13% Similarity=0.172 Sum_probs=63.1
Q ss_pred EcCCEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEEEEEcCceeeeecccceeEEEEec----C---------C
Q 041057 7 NGGGFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAFD----Y---------E 73 (180)
Q Consensus 7 ~gd~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~~----~---------~ 73 (180)
-||.|+|+|+.|.+++.++.+ ++++.++..|.|++|+ ++.+++|. .-++++|++---+ + .
T Consensus 41 i~dtlti~Da~G~~l~~i~~k-ll~l~~~yeI~d~~g~-~~~vrKK~-----tf~Rdk~e~d~~~~eihGNi~d~efkl~ 113 (159)
T COG4894 41 IGDTLTITDASGKTLVSIEQK-LLSLLPRYEISDGGGT-VCEVRKKV-----TFSRDKFEIDGLNWEIHGNIWDDEFKLT 113 (159)
T ss_pred eCceEEEEecCCCChHHHHHH-HhhccceeEEEcCCCC-EEEEEEEE-----EEEeeeEEEcCCCeEEecceeceEEEEe
Confidence 478999999999999999996 8999999999999999 88899993 4348888872111 0 1
Q ss_pred CCceeEEEEEcCCCCcceeecceEEEEEec
Q 041057 74 GSKKLVFTLKEPPSSSCLVRNSSIRISTET 103 (180)
Q Consensus 74 ~~~~~~ftvkk~~~~~~~~~k~~~~v~l~~ 103 (180)
+.++..++|.|++ |..+..|.+.+++
T Consensus 114 dg~~~~aeVsKkw----f~~rdTY~l~vap 139 (159)
T COG4894 114 DGENVRAEVSKKW----FSWRDTYHLQVAP 139 (159)
T ss_pred cCCceehhheeee----EeccceEEEEEcC
Confidence 1234555666553 5556666666654
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=97.68 E-value=0.00033 Score=55.34 Aligned_cols=87 Identities=18% Similarity=0.198 Sum_probs=48.6
Q ss_pred CCCCEEEEEeccccCCCCCeEEEECCCCCeEEEEEE-cCceeeeecccceeEEEEecCCCCceeEEEEEcCCCCcceeec
Q 041057 16 CSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLIRR-KGGVVEALSIHKKWKGYAFDYEGSKKLVFTLKEPPSSSCLVRN 94 (180)
Q Consensus 16 ~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~-k~~~~~~~sl~~~w~v~~~~~~~~~~~~ftvkk~~~~~~~~~k 94 (180)
+.....++|.-+.....++.+.++|.+|++++++.. + .+++.++..++..+ ++|+++++++. +...
T Consensus 10 ~~~~~~l~v~~k~~~~~~~~f~V~D~~G~~vf~V~g~~-----~~s~~~~~~l~D~~----G~~L~~i~~k~----~~l~ 76 (187)
T PF04525_consen 10 SPQPVTLTVKKKSLSFSGDDFTVYDENGNVVFRVDGGK-----FFSIGKKRTLMDAS----GNPLFTIRRKL----FSLR 76 (187)
T ss_dssp -SS-EEEEEE----------EEEEETTS-EEEEEE--S-----CTTBTTEEEEE-TT----S-EEEEEE-----------
T ss_pred CCCceEEEEEEEEeeecCCCEEEEcCCCCEEEEEEEec-----ccCCCCEEEEECCC----CCEEEEEEeee----cccc
Confidence 456788899665444568999999999999999999 7 59999999998765 46999999875 4457
Q ss_pred ceEEEEEecCC--CcceEEEEee
Q 041057 95 SSIRISTETTA--RSSNFEVKGY 115 (180)
Q Consensus 95 ~~~~v~l~~~~--~~~~~~v~G~ 115 (180)
+++.++.+... +.+-++|+-.
T Consensus 77 ~~w~i~~~~~~~~~~~i~tvkk~ 99 (187)
T PF04525_consen 77 PTWEIYRGGGSEGKKPIFTVKKK 99 (187)
T ss_dssp -EEEEEETT---GGGEEEEEE--
T ss_pred eEEEEEECCCCccCceEEEEEEe
Confidence 88888876641 1234666644
No 6
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=97.33 E-value=0.0064 Score=51.60 Aligned_cols=157 Identities=18% Similarity=0.191 Sum_probs=97.1
Q ss_pred cCCEEEEcCCCCEEEEEeccc------cC--CCCCeEEEECCCCCeEEEEEEcCceeeeecccceeEEEEe-cC------
Q 041057 8 GGGFVVTDCSQKIIFRVDGCG------VL--GTKGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAF-DY------ 72 (180)
Q Consensus 8 gd~f~V~D~~G~~vf~V~g~~------~~--s~~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~-~~------ 72 (180)
.+.|.|.|.+|+.+|.+--.+ .. ..+-...++|.-|+++++++|+ +..... .+.+ ..
T Consensus 98 ~NRY~v~~~~g~~v~~~~E~S~~~~Rq~~g~~RpF~~~i~D~~g~eVl~~~R~------~~c~~~--~c~~~~~~~~~v~ 169 (292)
T KOG0621|consen 98 ANRYVVHDMYGQPLYYAMERSNVFARQYLGTHRPFAMRIMDNFGQEVLTCKRP------FPCCSS--ACALCLAQEIEIQ 169 (292)
T ss_pred CcEEEEEcCCcChhHHHHhhchHHHHHhhccCCcceeEeecccCcEEEEEecc------cccccc--ccccccccEEEEE
Confidence 588999999999988543321 11 1344678999999999999999 333321 1111 00
Q ss_pred CCCceeEEEEEcCCCCcceeecceEEEEEecCCCcceEEEEee-------cCCcceE-EEcCCCCEEEEEEeeeee--ee
Q 041057 73 EGSKKLVFTLKEPPSSSCLVRNSSIRISTETTARSSNFEVKGY-------FPDRDCI-IVDPSGNIVAQIGVKKEI--QD 142 (180)
Q Consensus 73 ~~~~~~~ftvkk~~~~~~~~~k~~~~v~l~~~~~~~~~~v~G~-------~~~~~~~-I~~~~g~~VAeV~rk~~~--~~ 142 (180)
......+-+|..... + ..+++++ .+......+.|+|- +.+..+. +....|++|++|.|+|.. .+
T Consensus 170 ~p~~~~lG~v~q~~~--~--~~~~f~i--~~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~w~g~~rE 243 (292)
T KOG0621|consen 170 SPPMGLLGKVLQTWG--C--VNPNFHL--WDRDGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRKWAGLVRE 243 (292)
T ss_pred cCCCceEEEEEEeec--c--ccceEEE--EcccceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeecccchhhh
Confidence 011122323322210 1 1233333 22212233556554 3344444 444668999999999975 57
Q ss_pred eeeeeeeEEEEEeCCCCH---HHHHHHHHHhhhhcCCcC
Q 041057 143 LMESKDLYHIVVKPGIDQ---AFVVGVIATLDYIYGEST 178 (180)
Q Consensus 143 ~~~g~dty~v~V~pgvD~---ali~alvv~lD~i~~~~~ 178 (180)
.+...|+|.|...-..|. |+++|.++-||.+..+.+
T Consensus 244 ~fTDad~f~v~FPldLdvk~kavllga~flID~~~Fe~~ 282 (292)
T KOG0621|consen 244 AFTDADTFVVHFPLDLDVKLKALLLGSTFLIDYMSFESR 282 (292)
T ss_pred heeccceeeEecCCcCCHHHHhhhhhheeeEEEEEEecC
Confidence 888999999998877777 789999999998877665
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=96.24 E-value=0.14 Score=41.12 Aligned_cols=101 Identities=14% Similarity=0.184 Sum_probs=64.6
Q ss_pred CCCeEEEECCCCCeEEEEEEcCc--eeeeecccceeEEEEecCCCCceeEEEEEcCCCCccee----ecceEEEEEecCC
Q 041057 32 TKGELVVRHADGDAVVLIRRKGG--VVEALSIHKKWKGYAFDYEGSKKLVFTLKEPPSSSCLV----RNSSIRISTETTA 105 (180)
Q Consensus 32 ~~~~~~l~D~~G~~L~~i~~k~~--~~~~~sl~~~w~v~~~~~~~~~~~~ftvkk~~~~~~~~----~k~~~~v~l~~~~ 105 (180)
..++..|+|++|++++...+... -+|.+.-++.+++..-|. .++++++++|+.. +.. ....++|.-++ +
T Consensus 41 ~~N~Y~I~n~~g~~i~~~~E~s~~~~R~~~~~~R~f~~~i~D~--~g~~vl~i~Rp~~--c~~C~~~~~~~~~V~~p~-g 115 (221)
T PF03803_consen 41 TPNRYDIKNPNGQQIYYAVEESDCCSRQCCGSHRPFKMHIYDN--YGREVLTIERPFK--CCSCCPCCLQEMEVESPP-G 115 (221)
T ss_pred cCceEEEECCCCCEEEEEEEeCcceeeeecCCCCCEEEEEEec--CCCEEEEEEcCCc--ceecccccceeEEEecCC-C
Confidence 47899999999999999988731 133444456666555443 3468999999862 321 12344443222 2
Q ss_pred Ccce-EEEEeecCCcceEEEcCCCCEEEEEEee
Q 041057 106 RSSN-FEVKGYFPDRDCIIVDPSGNIVAQIGVK 137 (180)
Q Consensus 106 ~~~~-~~v~G~~~~~~~~I~~~~g~~VAeV~rk 137 (180)
.... ++=..+++...|.|+|++|+.++.|+..
T Consensus 116 ~~iG~I~q~~~~~~~~f~I~d~~~~~~~~I~gp 148 (221)
T PF03803_consen 116 NLIGSIRQPFSCCRPNFDIFDANGNPIFTIKGP 148 (221)
T ss_pred cEEEEEEEcCcccceEEEEEECCCceEEEEeCC
Confidence 2222 2222455688899999888999999875
No 8
>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=78.10 E-value=12 Score=26.48 Aligned_cols=32 Identities=31% Similarity=0.493 Sum_probs=24.5
Q ss_pred CCeEEEECCCCCeEEEEEEcCceeeeecccceeEEEEecC
Q 041057 33 KGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAFDY 72 (180)
Q Consensus 33 ~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~~~ 72 (180)
++.+.|+|++|+.|..+.+.. -.+|+....++
T Consensus 61 gd~l~L~d~~G~~v~~f~~~~--------~g~~~g~~~~g 92 (99)
T PF02974_consen 61 GDGLVLTDADGSVVAFFYRSG--------DGRFEGQTPDG 92 (99)
T ss_dssp TTEEEEE-TTS-EEEEEEEEC--------TTEEEEEECCC
T ss_pred CCEEEEECCCCCEEEEEEccC--------CeeEEeEcCCC
Confidence 578999999999999998874 46888887653
No 9
>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=72.54 E-value=5.7 Score=28.90 Aligned_cols=42 Identities=26% Similarity=0.438 Sum_probs=26.0
Q ss_pred CeEEEcCCEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEEEEE
Q 041057 3 PHVVNGGGFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLIRR 51 (180)
Q Consensus 3 ~l~~~gd~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~ 51 (180)
++.++.++|.+++.+-.-..++.| +-..++|++|..+|.+-.
T Consensus 64 Pi~iN~gg~~~y~gq~a~~vt~~~-------hSMAv~d~~g~q~Fy~pn 105 (114)
T PF09008_consen 64 PIIINKGGFPVYNGQIAKFVTVPG-------HSMAVYDANGQQQFYFPN 105 (114)
T ss_dssp SEEE-TTS-EEETTEE--EEESSS-------EEEEEE-TTS-EEEEESE
T ss_pred CEEEccCCceEEccceeEEEEccC-------ceEEEEeCCCcEEEeecc
Confidence 578889999999766333334444 347899999999997643
No 10
>PRK12816 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=71.58 E-value=6.2 Score=32.94 Aligned_cols=43 Identities=14% Similarity=0.246 Sum_probs=34.4
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
|.+.|++| .|.+.+|..+|+=+|. |.+...-.|.+++|.+|+.
T Consensus 95 lAI~G~GFF~V~~~~G~~~YTR~G~--F~~d~~G~Lvt~~G~~vl~ 138 (264)
T PRK12816 95 VAIEGEGFFKILMPDGTYAYTRDGS--FKIDANGQLVTSNGYRLLP 138 (264)
T ss_pred EEECCCcEEEEEcCCCCeEEeeCCC--eeECCCCCEECCCCCEecc
Confidence 45678776 6777889888998884 6676777899999999985
No 11
>PRK12691 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=66.87 E-value=12 Score=31.13 Aligned_cols=43 Identities=14% Similarity=0.255 Sum_probs=33.8
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
|.+.|++| .|.+.+|..+|+=+|. |.+...-.|.+++|.+|+.
T Consensus 95 lAI~G~GfF~V~~~~G~~~yTR~G~--F~~d~~G~Lvt~~G~~vl~ 138 (262)
T PRK12691 95 LAIQGRGYFQIQLPDGETAYTRAGA--FNRSADGQIVTSDGYPVQP 138 (262)
T ss_pred EEEcCCcEEEEEcCCCCEEEeeCCC--eeECCCCCEECCCCCEeEe
Confidence 45677776 6666789888998884 6676777899999999985
No 12
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=66.36 E-value=11 Score=25.31 Aligned_cols=18 Identities=17% Similarity=0.278 Sum_probs=14.3
Q ss_pred eEEEECCCCCeEEEEEEc
Q 041057 35 ELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 35 ~~~l~D~~G~~L~~i~~k 52 (180)
++.|+|++|+.+-++.-.
T Consensus 28 ~v~I~d~~G~~V~t~~~~ 45 (81)
T PF13860_consen 28 TVTIYDSNGQVVRTISLG 45 (81)
T ss_dssp EEEEEETTS-EEEEEEEE
T ss_pred EEEEEcCCCCEEEEEEcC
Confidence 799999999999887654
No 13
>KOG3950 consensus Gamma/delta sarcoglycan [Cytoskeleton]
Probab=65.88 E-value=8.1 Score=32.21 Aligned_cols=11 Identities=27% Similarity=0.664 Sum_probs=8.7
Q ss_pred eeeEEEEEeCC
Q 041057 147 KDLYHIVVKPG 157 (180)
Q Consensus 147 ~dty~v~V~pg 157 (180)
...|.+.|.|+
T Consensus 260 q~v~eiCvC~n 270 (292)
T KOG3950|consen 260 QKVFEICVCPN 270 (292)
T ss_pred ceEEEEEEecC
Confidence 44899999886
No 14
>smart00634 BID_1 Bacterial Ig-like domain (group 1).
Probab=65.41 E-value=20 Score=24.58 Aligned_cols=12 Identities=33% Similarity=0.545 Sum_probs=5.3
Q ss_pred EEEECCCCCeEE
Q 041057 36 LVVRHADGDAVV 47 (180)
Q Consensus 36 ~~l~D~~G~~L~ 47 (180)
..+.|.+|+|+-
T Consensus 24 v~v~D~~Gnpv~ 35 (92)
T smart00634 24 ATVTDANGNPVA 35 (92)
T ss_pred EEEECCCCCCcC
Confidence 344444444443
No 15
>PRK12694 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=65.16 E-value=9.2 Score=31.78 Aligned_cols=43 Identities=21% Similarity=0.273 Sum_probs=34.2
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+-+.|++| .|.+.+|...|+=+|. |.+...-.|.+++|.+|+.
T Consensus 95 ~AI~G~GfF~V~~~~G~~~yTR~G~--F~~d~~G~Lvt~~G~~Vl~ 138 (260)
T PRK12694 95 VAINGQGFFQVLMPDGTTAYTRDGS--FQTNAQGQLVTSSGYPLQP 138 (260)
T ss_pred EEEcCCcEEEEEcCCCCeEEeeCCC--ceECCCCCEECCCCCEecc
Confidence 45678877 6777889888998884 6676777799999999885
No 16
>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=64.51 E-value=9.1 Score=31.72 Aligned_cols=43 Identities=19% Similarity=0.259 Sum_probs=33.8
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+.+.|++| .|.+.+|..+|+=+|. |.+...-.|.+++|.+|+.
T Consensus 93 ~AI~G~GfF~V~~~~g~~~yTR~G~--F~~d~~G~Lvt~~G~~Vl~ 136 (259)
T TIGR02488 93 LAIEGEGFFQVLMPDGTTAYTRDGA--FKINAEGQLVTSNGYPLQP 136 (259)
T ss_pred EEEcCCcEEEEEcCCCCeEEeeCCc--eEECCCCCEECCCCCEecC
Confidence 45677776 6667788888998884 6676777799999999884
No 17
>KOG0621 consensus Phospholipid scramblase [Cell wall/membrane/envelope biogenesis]
Probab=63.17 E-value=21 Score=30.47 Aligned_cols=44 Identities=23% Similarity=0.235 Sum_probs=34.4
Q ss_pred CCEEEEcCCCCEEEEEecccc-----CCCCCeEEEECCCCCeEEEEEEc
Q 041057 9 GGFVVTDCSQKIIFRVDGCGV-----LGTKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 9 d~f~V~D~~G~~vf~V~g~~~-----~s~~~~~~l~D~~G~~L~~i~~k 52 (180)
-.|.|.|..++.+|+|+|... .+......++..+|..+..|-++
T Consensus 188 ~~f~i~~~~~~~v~~v~gp~~~~~~~~~d~~f~~~~~d~~~~vg~I~k~ 236 (292)
T KOG0621|consen 188 PNFHLWDRDGNLVFLVEGPRCCTFACCDDTVFFPKTTDNGRIVGSISRK 236 (292)
T ss_pred ceEEEEcccceeEEEEEcCceeEEEeecCcceeEEEcCCCeEEEEEeec
Confidence 578999999999999999621 23355677788889999998888
No 18
>PRK12693 flgG flagellar basal body rod protein FlgG; Provisional
Probab=60.93 E-value=14 Score=30.64 Aligned_cols=43 Identities=19% Similarity=0.249 Sum_probs=34.0
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+.+.|++| .|.+.+|...|+=+|. |.+-..-.|.+++|.+|+.
T Consensus 95 ~Ai~G~GfF~v~~~~G~~~yTR~G~--F~~d~~G~Lvt~~G~~vl~ 138 (261)
T PRK12693 95 VAIEGQGFFQVQLPDGTIAYTRDGS--FKLDQDGQLVTSGGYPLQP 138 (261)
T ss_pred EEECCCcEEEEEcCCCCeEEeeCCC--eeECCCCCEECCCCCEEee
Confidence 45778887 5777889888998884 6666777799999999885
No 19
>PF15529 Toxin_49: Putative toxin 49
Probab=59.52 E-value=9.8 Score=26.71 Aligned_cols=18 Identities=22% Similarity=0.298 Sum_probs=13.7
Q ss_pred CCEEEEcCCCCEEEEEec
Q 041057 9 GGFVVTDCSQKIIFRVDG 26 (180)
Q Consensus 9 d~f~V~D~~G~~vf~V~g 26 (180)
.+|++||++|.++-++++
T Consensus 30 t~Y~tY~~~G~~~kr~r~ 47 (89)
T PF15529_consen 30 TSYTTYDEDGMIVKRYRG 47 (89)
T ss_pred cceeEEcCCCcEeEEeec
Confidence 489999999995554444
No 20
>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=58.76 E-value=17 Score=26.59 Aligned_cols=20 Identities=20% Similarity=0.159 Sum_probs=10.0
Q ss_pred CCeEEEECCCCCeEEEEEEc
Q 041057 33 KGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 33 ~~~~~l~D~~G~~L~~i~~k 52 (180)
++++.+.|..+.--+++...
T Consensus 68 Gd~v~v~~~~~~~~Y~V~~~ 87 (126)
T cd06166 68 GDEIKVTTKNGTYKYKITSI 87 (126)
T ss_pred CCEEEEEECCEEEEEEEEEE
Confidence 45555555544444444443
No 21
>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=58.74 E-value=20 Score=30.08 Aligned_cols=21 Identities=19% Similarity=0.366 Sum_probs=13.5
Q ss_pred CCCeEEEECC-CCCeEEEEEEc
Q 041057 32 TKGELVVRHA-DGDAVVLIRRK 52 (180)
Q Consensus 32 ~~~~~~l~D~-~G~~L~~i~~k 52 (180)
..+.+.+.|+ +|++||+-.+.
T Consensus 116 ~~~~F~V~d~~~g~~lFsad~~ 137 (264)
T PF04790_consen 116 QSNRFEVKDPRDGKTLFSADRP 137 (264)
T ss_pred ecCeEEEEcCCCCceEEEecCC
Confidence 4466667776 67777766555
No 22
>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=56.48 E-value=20 Score=28.09 Aligned_cols=21 Identities=10% Similarity=0.139 Sum_probs=11.5
Q ss_pred CCCeEEEECCCCCe-EEEEEEc
Q 041057 32 TKGELVVRHADGDA-VVLIRRK 52 (180)
Q Consensus 32 ~~~~~~l~D~~G~~-L~~i~~k 52 (180)
.++++.|.+.+|+. .+++...
T Consensus 111 ~GD~I~v~~~~g~~~~Y~V~~~ 132 (174)
T TIGR03784 111 PGDVIRLQTPDGQWQSYQVTAT 132 (174)
T ss_pred CCCEEEEEECCCeEEEEEEeEE
Confidence 45566666666654 3555554
No 23
>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=56.26 E-value=18 Score=26.45 Aligned_cols=20 Identities=5% Similarity=0.084 Sum_probs=9.6
Q ss_pred CCeEEEECCCCCeEEEEEEc
Q 041057 33 KGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 33 ~~~~~l~D~~G~~L~~i~~k 52 (180)
++++.+.+..+.-.+++...
T Consensus 65 Gd~i~v~~~~~~~~Y~V~~~ 84 (127)
T cd05828 65 GDIITLQTLGGTYTYRVTST 84 (127)
T ss_pred CCEEEEEECCEEEEEEEeeE
Confidence 44555555544444444444
No 24
>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=53.11 E-value=31 Score=26.06 Aligned_cols=54 Identities=11% Similarity=0.144 Sum_probs=37.1
Q ss_pred EEEEcCCCCEEEEEeccccC---C---CCCeEEEECCCCCeEEEEEEcCceeeeecccceeEEE
Q 041057 11 FVVTDCSQKIIFRVDGCGVL---G---TKGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGY 68 (180)
Q Consensus 11 f~V~D~~G~~vf~V~g~~~~---s---~~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~ 68 (180)
+.|+|++|+++-++.-.... + ..--..|+|.+|+.|++-|... ...+...|.+-
T Consensus 1 ~~~~d~~~~~~g~~~r~~~~~~~g~~h~~v~v~v~~~~g~vLl~kR~~~----k~~~PG~W~~~ 60 (158)
T TIGR02150 1 VILVDENDNPIGTASKAEVHLQETPLHRAFSVFLFNEEGQLLLQRRALS----KITWPGVWTNS 60 (158)
T ss_pred CEEECCCCCEeeeeeHHHhhhcCCCeEEEEEEEEEcCCCeEEEEeccCC----CcCCCCCcccc
Confidence 36899999999988764321 1 1124678999999888644442 35677889864
No 25
>PRK15393 NUDIX hydrolase YfcD; Provisional
Probab=50.66 E-value=24 Score=27.42 Aligned_cols=57 Identities=14% Similarity=0.066 Sum_probs=34.3
Q ss_pred CEEEEcCCCCEEEEEec-----cccCCCCCeEEEECCCCCeEEEEEEcCceeeee-cccceeEEEEec
Q 041057 10 GFVVTDCSQKIIFRVDG-----CGVLGTKGELVVRHADGDAVVLIRRKGGVVEAL-SIHKKWKGYAFD 71 (180)
Q Consensus 10 ~f~V~D~~G~~vf~V~g-----~~~~s~~~~~~l~D~~G~~L~~i~~k~~~~~~~-sl~~~w~v~~~~ 71 (180)
=++|+|++|+++-.+.- .++....--..++|.+|+.|+. ++.. .- .+.+.|..+-|+
T Consensus 11 ~~~~~d~~~~~~g~~~~~~~~~~~~~h~~~~v~v~~~~g~iLL~-~R~~----~~~~~pg~~~~~pGG 73 (180)
T PRK15393 11 WVDIVNENNEVIAQASREQMRAQCLRHRATYIVVHDGMGKILVQ-RRTE----TKDFLPGMLDATAGG 73 (180)
T ss_pred EEEEECCCCCEeeEEEHHHHhhCCCceEEEEEEEECCCCeEEEE-EeCC----CCCCCCCcccccCCC
Confidence 38899999999998721 1122233356778999988874 3321 11 134556655444
No 26
>PRK12643 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=49.40 E-value=17 Score=29.45 Aligned_cols=41 Identities=10% Similarity=0.168 Sum_probs=26.9
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVV 47 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~ 47 (180)
|.+.|++| .|.+.+|+..|+=+|. |.+..+-.| +++|.+|+
T Consensus 80 lAI~G~GFF~V~~~~G~~~YTR~G~--F~~d~~G~L-t~~G~~Vl 121 (209)
T PRK12643 80 VALQQDGYLAVQLPDGSEAYTRNGN--IQISANGQM-TVQGYPLM 121 (209)
T ss_pred EEECCCcEEEEEcCCCCeEEeeCCC--ceECCCCCC-cCCCcCcc
Confidence 45667766 5666777777887774 555444456 77777766
No 27
>COG4998 Predicted endonuclease (RecB family) [DNA replication, recombination, and repair]
Probab=47.92 E-value=36 Score=26.82 Aligned_cols=37 Identities=27% Similarity=0.416 Sum_probs=29.0
Q ss_pred CcceEEEcCCCCEEEEEEeeeeeeeeeeeeeeEEEEEeCCC-CH
Q 041057 118 DRDCIIVDPSGNIVAQIGVKKEIQDLMESKDLYHIVVKPGI-DQ 160 (180)
Q Consensus 118 ~~~~~I~~~~g~~VAeV~rk~~~~~~~~g~dty~v~V~pgv-D~ 160 (180)
.++|.|.++ |..|+||.-- --.+..+|.|+|..|. |.
T Consensus 22 Arn~~ve~e-gveVgEiDIV-----Aek~GerYavEVKAG~vdi 59 (209)
T COG4998 22 ARNMPVEDE-GVEVGEIDIV-----AEKGGERYAVEVKAGMVDI 59 (209)
T ss_pred eecceeecC-CeEEEEEEEE-----EecCCcEEEEEEeccccch
Confidence 567888876 8899999863 2357999999999995 54
No 28
>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=47.31 E-value=62 Score=26.72 Aligned_cols=74 Identities=16% Similarity=0.217 Sum_probs=42.5
Q ss_pred eEEEEEEcC-ceeeeecccceeEEEEecCCCCceeEEEEEcCCCCcceeecceEEEEEecC-----CCcceEEEEeecCC
Q 041057 45 AVVLIRRKG-GVVEALSIHKKWKGYAFDYEGSKKLVFTLKEPPSSSCLVRNSSIRISTETT-----ARSSNFEVKGYFPD 118 (180)
Q Consensus 45 ~L~~i~~k~-~~~~~~sl~~~w~v~~~~~~~~~~~~ftvkk~~~~~~~~~k~~~~v~l~~~-----~~~~~~~v~G~~~~ 118 (180)
.-+.|+|.+ +. -..|.+.|..|..+. .++.+...||... .....|-|++... +...-=+|+.||++
T Consensus 8 vqC~I~R~k~g~--~~~lyp~y~l~l~~~--~~kfLLaArK~~~----s~~s~YiIS~~~~dlsr~s~~yvGKLrsNf~G 79 (246)
T PF01167_consen 8 VQCFIRRDKSGL--TRGLYPGYYLYLEGE--NGKFLLAARKRKR----SKTSNYIISLDPDDLSRSSNNYVGKLRSNFLG 79 (246)
T ss_dssp EEEEEEEESTTC--CCT---EEEEEEEST--TSEEEEEEEEECS----SSSEEEEEESSHHHHCTT---ESEEEEE-TTS
T ss_pred EEEEEEEECCCC--CcccCcEeEeccccC--CCcEEEeeeeccc----CCCcceEEecCCCccccCCCceeeeeccccce
Confidence 335675543 10 123678888888632 2478888876531 1245688877553 12333467899999
Q ss_pred cceEEEcC
Q 041057 119 RDCIIVDP 126 (180)
Q Consensus 119 ~~~~I~~~ 126 (180)
..|.|+|.
T Consensus 80 T~F~iyD~ 87 (246)
T PF01167_consen 80 TEFTIYDN 87 (246)
T ss_dssp SEEEEEES
T ss_pred eEEEEECC
Confidence 99999984
No 29
>PLN02552 isopentenyl-diphosphate delta-isomerase
Probab=47.23 E-value=47 Score=27.54 Aligned_cols=60 Identities=7% Similarity=0.104 Sum_probs=41.3
Q ss_pred cCCEEEEcCCCCEEEEEeccccC--------CC---CCeEEEECCCCCeEEEEEEcCceeeeecccceeEEEEec
Q 041057 8 GGGFVVTDCSQKIIFRVDGCGVL--------GT---KGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAFD 71 (180)
Q Consensus 8 gd~f~V~D~~G~~vf~V~g~~~~--------s~---~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~~ 71 (180)
.+.+.|+|++++++-+..-.... ++ .=.+.|+|.+|+.|++-|... ..++...|...-++
T Consensus 22 ~e~v~lvDe~d~~~G~~~r~~~H~~~~~~~~gl~Hra~~v~i~n~~g~lLLQkRs~~----K~~~Pg~Wd~s~~G 92 (247)
T PLN02552 22 EDECILVDENDNVVGHDSKYNCHLFEKIEPRGLLHRAFSVFLFNSKYELLLQQRAAT----KVTFPLVWTNTCCS 92 (247)
T ss_pred cCeEEEEcCCCCEEeeeEHhhhhccccccCCCceEEEEEEEEEcCCCeEEEEEecCC----CCCCCcceecccCC
Confidence 36789999999999877542211 11 124678899999999888763 25667889776543
No 30
>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=46.84 E-value=58 Score=22.64 Aligned_cols=31 Identities=26% Similarity=0.317 Sum_probs=15.6
Q ss_pred EcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEEE
Q 041057 14 TDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLI 49 (180)
Q Consensus 14 ~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i 49 (180)
+|.+|.-+|.-|+. +.++.++|..|+.|..+
T Consensus 36 ~~~kG~kiYewDsq-----HG~lEvy~~~GkHLGe~ 66 (85)
T PF09000_consen 36 KDKKGRKIYEWDSQ-----HGELEVYNKRGKHLGEF 66 (85)
T ss_dssp EETTTTEEEEEETT-----TTEEEEEETT-BEEEEE
T ss_pred EcCCCCEEEEEcCC-----CCeEEEEcCCCcCcccc
Confidence 34555555555552 34555555555555544
No 31
>TIGR02527 dot_icm_IcmQ Dot/Icm secretion system protein IcmQ. Members of this protein family are the IcmQ component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the literature now seems to favor calling this the Dot/Icm system. This protein was shown to be essential for translocation (PubMed:15661013).
Probab=46.09 E-value=9.9 Score=29.90 Aligned_cols=34 Identities=9% Similarity=0.278 Sum_probs=28.9
Q ss_pred EEEEEeccccCCCCCeEEEECCCCCeEEEEEEcC
Q 041057 20 IIFRVDGCGVLGTKGELVVRHADGDAVVLIRRKG 53 (180)
Q Consensus 20 ~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~k~ 53 (180)
++..|+..+.++.+......|.-|+||+|++.|.
T Consensus 120 VaiyI~q~dIl~~~~dk~p~Dk~GkpLltLKdka 153 (182)
T TIGR02527 120 VAIAIDQSDIIHLSADKAPKDKLGKLLLTLKDKA 153 (182)
T ss_pred EEEEEchHhcccCCcccCcccccCCcccccchhh
Confidence 4556776677889999999999999999999993
No 32
>PF09475 Dot_icm_IcmQ: Dot/Icm secretion system protein (dot_icm_IcmQ); InterPro: IPR013365 Proteins in this entry are the IcmQ component of Dot/Icm secretion systems, as found in the obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the literature now seems to favor calling this the Dot/Icm system. This protein was shown to be essential for translocation ().; PDB: 3FXE_A 3FXD_C.
Probab=44.81 E-value=7.2 Score=30.61 Aligned_cols=34 Identities=6% Similarity=0.261 Sum_probs=0.0
Q ss_pred EEEEEeccccCCCCCeEEEECCCCCeEEEEEEcC
Q 041057 20 IIFRVDGCGVLGTKGELVVRHADGDAVVLIRRKG 53 (180)
Q Consensus 20 ~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~k~ 53 (180)
++..|...+.++++.....+|.-|+||+|++.+.
T Consensus 120 VaiyInq~dIl~~~~dk~~~Dk~GkpLltLkdra 153 (179)
T PF09475_consen 120 VAIYINQSDILSLSPDKIPTDKLGKPLLTLKDRA 153 (179)
T ss_dssp ----------------------------------
T ss_pred EEEEEchHhcccCCcccccccccCCcccccchhh
Confidence 3445565567788899999999999999999993
No 33
>cd02885 IPP_Isomerase Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated proteins. These compounds are synthesized from two precursors: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). IPP isomerase catalyzes the interconversion of IPP and DMAPP by a stereoselective antarafacial transposition of hydrogen. The enzyme requires one Mn2+ or Mg2+ ion in its active site to fold into an active conformation and also contains the Nudix motif, a highly conserved 23-residue block (GX5EX7REUXEEXGU, where U = I, L or V), that functions as a metal binding and catalytic site. The metal binding site is present within the active site and plays structural and catalytical roles. IPP isomerase is well represented in several bacteria, archaebacteria and eukaryotes, including fungi, mamm
Probab=44.64 E-value=36 Score=25.75 Aligned_cols=54 Identities=13% Similarity=0.185 Sum_probs=34.1
Q ss_pred EEEEcCCCCEEEEEeccccC--CCC--C--eEEEECCCCCeEEEEEEcCceeeeecccceeEEE
Q 041057 11 FVVTDCSQKIIFRVDGCGVL--GTK--G--ELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGY 68 (180)
Q Consensus 11 f~V~D~~G~~vf~V~g~~~~--s~~--~--~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~ 68 (180)
.+|+|++|+++-+..-.... +.. . -..|.|.+|+.|+.-|... ...+.+.|.+-
T Consensus 4 ~~~~d~~~~~~g~~~r~~~~~~~~~~~~~v~v~i~~~~~~iLl~kR~~~----~~~~Pg~w~~~ 63 (165)
T cd02885 4 VILVDEDDNPIGTAEKLEAHLKGTLLHRAFSVFLFNSKGRLLLQRRALS----KYTFPGLWTNT 63 (165)
T ss_pred EEEECCCCCCccccCHHHHhhcCCcceeEEEEEEEcCCCcEEEEeccCC----CccCCCccccc
Confidence 47999999999875543211 121 1 2457899998888654432 24566778864
No 34
>cd03676 Nudix_hydrolase_3 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V), which functions as a metal binding and catalytic site. Substrates of nudix hydrolases include intact and oxidatively damaged nucleoside triphosphates, dinucleoside polyphosphates, nucleotide-sugars and dinucleotide enzymes. These substrates are metabolites or cell signaling molecules that require regulation during different stages of the cell cycle or during periods of stress. In general, the role of the nudix hydrolase is to sanitize the nucleotide pools and to maintain cell viability, thereby serving as surveillance & "house-cleaning" enzymes. Substrate specificity is used to define families within the superfamily. Differences in substrate spe
Probab=43.33 E-value=83 Score=24.06 Aligned_cols=60 Identities=12% Similarity=0.058 Sum_probs=35.6
Q ss_pred cCCEEEEcCCCCEEEEEecccc--CCC-CCeEE----EECCC--CCeEEEEEEcCceeeeecccceeEEEEec
Q 041057 8 GGGFVVTDCSQKIIFRVDGCGV--LGT-KGELV----VRHAD--GDAVVLIRRKGGVVEALSIHKKWKGYAFD 71 (180)
Q Consensus 8 gd~f~V~D~~G~~vf~V~g~~~--~s~-~~~~~----l~D~~--G~~L~~i~~k~~~~~~~sl~~~w~v~~~~ 71 (180)
-+-|+|+|++|+++..++-... .++ +.-+. +.|.+ |..+++-|-.. ..++...|...-++
T Consensus 4 ~E~~~v~d~~~~~~~~~~r~~~~~~g~~h~~v~~~~~~~~~~~~~~l~lqrRs~~----K~~~Pg~wd~~~~G 72 (180)
T cd03676 4 NELYAVYGPFGEPLFEIERAASRLFGLVTYGVHLNGYVRDEDGGLRIWIPRRSPT----KATWPGMLDNLVAG 72 (180)
T ss_pred CcceeeECCCCCEeEEEEecccccCCceEEEEEEEEEEEcCCCCeEEEEEeccCC----CCCCCCceeeeccc
Confidence 3568899999999987764321 122 23333 33665 55555555443 24567888766554
No 35
>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=42.14 E-value=5.5 Score=27.39 Aligned_cols=43 Identities=16% Similarity=0.258 Sum_probs=20.5
Q ss_pred eEEEcCC-EEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEE
Q 041057 4 HVVNGGG-FVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVV 47 (180)
Q Consensus 4 l~~~gd~-f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~ 47 (180)
+.+.+++ |.|+|.+|..+..-..+. +-..+-..+.|++|.+++
T Consensus 51 ~r~~~~gY~fi~d~~g~~l~hp~~p~-~~G~n~~~~~D~~G~~~i 94 (95)
T PF08269_consen 51 LRYGGDGYFFIYDMDGVVLAHPSNPE-LEGKNLSDLKDPNGKYLI 94 (95)
T ss_dssp --SBTTB--EEE-TTSBEEEESS-GG-GTT-B-TT-B-TT--BHH
T ss_pred cccCCCCeEEEEeCCCeEEEcCCCcc-cCCcccccCCCCCCCEEe
Confidence 3444444 778999998877754332 323345568889998865
No 36
>PRK12690 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=42.14 E-value=34 Score=28.16 Aligned_cols=42 Identities=19% Similarity=0.304 Sum_probs=28.5
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
|.+.|++| .|.+.+| ..|+=+|. |.+...-.|.+++|.+|+-
T Consensus 81 lAI~G~GFF~V~~~~G-~~yTR~G~--F~~d~~G~Lvt~~G~~vlg 123 (238)
T PRK12690 81 FAIEGEGFFMVETPQG-ERLTRAGS--FTPNAEGELVDPDGNRLLD 123 (238)
T ss_pred EEECCCcEEEEEcCCC-CEEeeCCC--eEECCCCCEEcCCCCEeEC
Confidence 45667665 6667777 45887774 5565666688888888763
No 37
>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=41.53 E-value=28 Score=30.15 Aligned_cols=30 Identities=23% Similarity=0.308 Sum_probs=22.8
Q ss_pred eeeEEEEEeCCCCHHHHHHHH-HHhhhhcCC
Q 041057 147 KDLYHIVVKPGIDQAFVVGVI-ATLDYIYGE 176 (180)
Q Consensus 147 ~dty~v~V~pgvD~ali~alv-v~lD~i~~~ 176 (180)
...+.|-|.||.|.+|++|++ .++++...+
T Consensus 157 ~ad~~i~i~PGtD~al~~a~~~~ii~~~~~d 187 (432)
T PF00384_consen 157 KADEWIPIRPGTDAALALAMAHVIIDEGLYD 187 (432)
T ss_dssp GTSEEEEE-TTTHHHHHHHHHHHHHHTTTST
T ss_pred hccccccccccccHHhhcccccceeeccccc
Confidence 456779999999999999988 666665543
No 38
>PRK12819 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=41.23 E-value=43 Score=27.76 Aligned_cols=38 Identities=21% Similarity=0.308 Sum_probs=30.0
Q ss_pred CCEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 9 GGFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 9 d~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
++|-+.+.+|...|+=+|. |.+...-.|.+++|.+|+-
T Consensus 99 ~gFf~v~~~G~~~yTR~G~--F~~d~~G~Lvt~~G~~vlg 136 (257)
T PRK12819 99 SSFFVTSKNGETFLTRDGS--FTLNSDRYLQTASGAFVMG 136 (257)
T ss_pred CEEEEEcCCCCeeEeeCCC--eeECCCCCEEcCCCCEEec
Confidence 7788888889888998884 6666677788888888773
No 39
>COG5436 Predicted integral membrane protein [Function unknown]
Probab=41.12 E-value=67 Score=25.10 Aligned_cols=40 Identities=13% Similarity=0.205 Sum_probs=25.3
Q ss_pred CEEEEc-CCCCEEEEEeccccCCCCCeEEEECCCCCeEEEEEEc
Q 041057 10 GFVVTD-CSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 10 ~f~V~D-~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~k 52 (180)
.+..+| ++|-+.+.-+|.-.+ +-+.++|+.|+.+++|...
T Consensus 69 a~C~fdvsegpvri~a~~nvpy---WSvsiyds~~nn~fS~ND~ 109 (182)
T COG5436 69 AFCRFDVSEGPVRIEAKGNVPY---WSVSIYDSNGNNFFSINDR 109 (182)
T ss_pred heeEeeccCCcEEEEecCCCce---EEEEEEcCCCCceEEeccc
Confidence 345667 566666665553112 4577888888888877665
No 40
>KOG1693 consensus emp24/gp25L/p24 family of membrane trafficking proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.71 E-value=1.2e+02 Score=24.63 Aligned_cols=48 Identities=25% Similarity=0.258 Sum_probs=32.3
Q ss_pred eEEEE-eecCCcceEEEcCCCCEEEEEEeeeeee--eeeeeeeeEEEEEeC
Q 041057 109 NFEVK-GYFPDRDCIIVDPSGNIVAQIGVKKEIQ--DLMESKDLYHIVVKP 156 (180)
Q Consensus 109 ~~~v~-G~~~~~~~~I~~~~g~~VAeV~rk~~~~--~~~~g~dty~v~V~p 156 (180)
.|+|. |.-++-+|.|.+++|.+|++=++|.-.. =...+..+|......
T Consensus 50 ~fqV~tGG~fDVD~~I~aPdgkvI~~~~kk~~~~~~f~ae~~G~Y~fCFsN 100 (209)
T KOG1693|consen 50 EFQVQTGGHFDVDYDIEAPDGKVIYSEKKKRYDSFLFKAEGKGEYTFCFSN 100 (209)
T ss_pred EEEEEeCCceeeEEEEECCCCCEEeeccccccccEEEEEecceEEEEEecC
Confidence 56765 7777999999999999999888773211 112356666655433
No 41
>cd05830 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 Streptomyces avermitilis SAV4337. 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=37.60 E-value=55 Score=24.22 Aligned_cols=21 Identities=29% Similarity=0.393 Sum_probs=11.7
Q ss_pred CCCeEEEECCCCCeEEEEEEc
Q 041057 32 TKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 32 ~~~~~~l~D~~G~~L~~i~~k 52 (180)
.++++.+.|..|.--++|-..
T Consensus 68 ~Gd~i~v~~~~~~~~Y~V~~~ 88 (137)
T cd05830 68 PGDKIVVETADGWYTYVVRSS 88 (137)
T ss_pred CCCEEEEEECCeEEEEEEeEE
Confidence 455666666655555555444
No 42
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=37.55 E-value=53 Score=26.81 Aligned_cols=48 Identities=19% Similarity=0.198 Sum_probs=31.4
Q ss_pred cCeEEEcCCEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEEEEE
Q 041057 2 RPHVVNGGGFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLIRR 51 (180)
Q Consensus 2 k~l~~~gd~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~ 51 (180)
|...+.+|.+.+.+ .+..-|+++=.. -.-.-.+.|+|++|+.+.++.-
T Consensus 98 k~V~~~~~~~~~~~-~~~~~~~~~l~~-~a~~vti~I~D~~G~~Vrt~~l 145 (225)
T PRK06655 98 RGVLVPGDTVLVGT-GGTTPFGVELPS-AADNVTVTITDSAGQVVRTIDL 145 (225)
T ss_pred CeEEEecceEEecC-CCceEEEEEcCC-CCcEEEEEEEcCCCCEEEEEec
Confidence 45567778877654 345666665321 1223579999999999987754
No 43
>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=37.01 E-value=26 Score=23.93 Aligned_cols=15 Identities=40% Similarity=0.552 Sum_probs=6.6
Q ss_pred EEEEcCCCCEEEEEe
Q 041057 11 FVVTDCSQKIIFRVD 25 (180)
Q Consensus 11 f~V~D~~G~~vf~V~ 25 (180)
|.|+|.+|+.||+=.
T Consensus 28 ~~v~d~~g~~vwrwS 42 (82)
T PF12690_consen 28 FVVKDKEGKEVWRWS 42 (82)
T ss_dssp EEEE-TT--EEEETT
T ss_pred EEEECCCCCEEEEec
Confidence 555566666665543
No 44
>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=37.00 E-value=21 Score=33.11 Aligned_cols=25 Identities=20% Similarity=0.399 Sum_probs=20.2
Q ss_pred eeEEEEEeCCCCHHHHHHHH-HHhhh
Q 041057 148 DLYHIVVKPGIDQAFVVGVI-ATLDY 172 (180)
Q Consensus 148 dty~v~V~pgvD~ali~alv-v~lD~ 172 (180)
|...|-|.||.|.||++||+ +++++
T Consensus 226 dd~~l~irPGTD~ALalam~~~ii~e 251 (609)
T cd02769 226 GAEWIAIRPGTDVALMLALAHTLVTE 251 (609)
T ss_pred cCcEeccCCCcHHHHHHHHHHHHHHc
Confidence 44679999999999999998 45543
No 45
>PRK12640 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=36.48 E-value=37 Score=28.07 Aligned_cols=43 Identities=21% Similarity=0.304 Sum_probs=31.3
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
|.+.|++| .|.+.+|+..|+=+|. |.+-..-.|.+++|.+|+.
T Consensus 80 lAI~G~GFF~V~~~~G~~~yTR~G~--F~~d~~G~Lvt~~G~~vlg 123 (246)
T PRK12640 80 VALQGDGWLAVQAPDGSEAYTRNGS--LQVDANGQLRTANGLPVLG 123 (246)
T ss_pred EEECCCcEEEEEcCCCCEEEEeCCC--eeECCCCCEEcCCCCCccC
Confidence 45667665 5556788888998884 6666667788888888774
No 46
>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=36.09 E-value=1.2e+02 Score=19.87 Aligned_cols=46 Identities=22% Similarity=0.244 Sum_probs=29.6
Q ss_pred eEEEcCCEEEEcCCCCEEEE-EeccccC-----CCCCeEEEECCCCCeEEEEEE
Q 041057 4 HVVNGGGFVVTDCSQKIIFR-VDGCGVL-----GTKGELVVRHADGDAVVLIRR 51 (180)
Q Consensus 4 l~~~gd~f~V~D~~G~~vf~-V~g~~~~-----s~~~~~~l~D~~G~~L~~i~~ 51 (180)
+..+.++ .|.|.+|+++-+ |+| .+. .+-.+=.|.|.+|+.|.+...
T Consensus 7 ~~Vnk~G-~V~d~~G~~vG~vveG-d~k~L~G~~vd~~G~I~d~~G~viGkae~ 58 (64)
T PF12396_consen 7 LTVNKDG-NVVDDDGNVVGRVVEG-DPKKLVGKKVDEDGDILDKDGNVIGKAEP 58 (64)
T ss_pred CEECCCC-eEECCCCCEEEEEecC-CHHHhcCCcCCCCCCEECCCCCEEEEEEe
Confidence 3444444 489999999999 555 332 133445678888888876543
No 47
>PRK12817 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=35.62 E-value=46 Score=27.58 Aligned_cols=43 Identities=14% Similarity=0.315 Sum_probs=31.9
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+.+.|++| .|.+.+|..+|+=+|. |.+-..-.|.+++|.+|+.
T Consensus 91 ~Ai~G~GfF~V~~~~G~~~yTR~G~--F~~d~~G~Lvt~~G~~vl~ 134 (260)
T PRK12817 91 LAIDGEGFFRVIMADGTYAYTRAGN--FNIDSNGMLVDDNGNRLEI 134 (260)
T ss_pred EEECCCcEEEEEcCCCCeEEEeCCc--eeECCCCCEEcCCCCEEEe
Confidence 45667665 5667788888998884 6666666788899998884
No 48
>cd00004 Sortase Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved 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. The different classes are called Sortase A or SrtA (subfamily 1), B or SrtB (subfamily 2), C or SrtC (subfamily3), D or SrtD (subfamilies 4 and 5), and E or SrtE. In two different sortase subfamilies, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one s
Probab=35.46 E-value=67 Score=23.18 Aligned_cols=21 Identities=5% Similarity=0.036 Sum_probs=14.7
Q ss_pred CCCeEEEECCCCCeEEEEEEc
Q 041057 32 TKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 32 ~~~~~~l~D~~G~~L~~i~~k 52 (180)
.++++.|.+..+.-.+++-..
T Consensus 67 ~Gd~v~v~~~~~~~~Y~V~~~ 87 (128)
T cd00004 67 KGDKIYLTDGGKTYVYKVTSI 87 (128)
T ss_pred CCCEEEEEECCEEEEEEEEEE
Confidence 467777777766666776665
No 49
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=35.38 E-value=77 Score=26.18 Aligned_cols=32 Identities=19% Similarity=0.218 Sum_probs=15.9
Q ss_pred CCEEEEEeccccCCCCCeEEEECCCCCe-EEEEE
Q 041057 18 QKIIFRVDGCGVLGTKGELVVRHADGDA-VVLIR 50 (180)
Q Consensus 18 G~~vf~V~g~~~~s~~~~~~l~D~~G~~-L~~i~ 50 (180)
++..|.-.|.. ....+.++|.|.+|.. .|.+.
T Consensus 81 ~~~~f~~~G~w-~~~~~~i~L~~~~g~~~yF~v~ 113 (234)
T PRK10523 81 EPSSFASYGTW-ARTADKLVLTDSKGEKSYYRAK 113 (234)
T ss_pred CCCceEeeEEE-EecCCEEEEecCCCCEeEEEEC
Confidence 34556666641 1233455566666654 34433
No 50
>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=34.83 E-value=52 Score=24.80 Aligned_cols=37 Identities=16% Similarity=0.306 Sum_probs=27.1
Q ss_pred CCCCE---EEEEeccccC-CCCCeEEEECCCCCeEEEEEEc
Q 041057 16 CSQKI---IFRVDGCGVL-GTKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 16 ~~G~~---vf~V~g~~~~-s~~~~~~l~D~~G~~L~~i~~k 52 (180)
++|++ +||++|.+.. +.--...|+|.+|+.+++...+
T Consensus 27 ~~~~L~f~vyr~~G~D~Ygsfl~~i~l~d~~g~vv~~~~~~ 67 (133)
T PF07680_consen 27 ENGTLSFHVYRVEGPDVYGSFLIGIQLKDSTGHVVLNWDQE 67 (133)
T ss_pred eCCeEEEEEEEcCCCccCCceeeEEEEECCCCCEEEEeCHH
Confidence 45555 4667776432 4446899999999999998887
No 51
>PRK12818 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=34.19 E-value=49 Score=27.40 Aligned_cols=43 Identities=19% Similarity=0.268 Sum_probs=30.6
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+.+.|++| .|.+.+|...|+=+|. |.+...-.|.+++|.+|+-
T Consensus 95 lAI~G~GFF~V~~~~G~~~YTR~G~--F~~d~~G~Lvt~~G~~vlg 138 (256)
T PRK12818 95 FAIQGRGFFTVERNAGNNYYTRDGH--FHVDTQGYLVNDSGYYVLG 138 (256)
T ss_pred EEECCCceEEEEcCCCCeEEeeCCC--eeECCCCCEEcCCCCEEec
Confidence 34667664 5666778878998884 5565666688888888874
No 52
>KOG0291 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]
Probab=34.18 E-value=4.3e+02 Score=25.87 Aligned_cols=69 Identities=14% Similarity=0.072 Sum_probs=48.4
Q ss_pred cCeEEEcCCEEEEcCCCCEEEEEeccccCC------CCC--eEEEECCCCCeEEEEEEcCceeeeecccceeEEEEec
Q 041057 2 RPHVVNGGGFVVTDCSQKIIFRVDGCGVLG------TKG--ELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAFD 71 (180)
Q Consensus 2 k~l~~~gd~f~V~D~~G~~vf~V~g~~~~s------~~~--~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~~ 71 (180)
.-|+|++|++.|+-.-||-+..++.+.-.| .+. +..=..++|..|+.+-++ +..+++++..+..+++-.
T Consensus 18 Gnl~ft~dG~sviSPvGNrvsv~dLknN~S~Tl~~e~~~NI~~ialSp~g~lllavdE~-g~~~lvs~~~r~Vlh~f~ 94 (893)
T KOG0291|consen 18 GNLVFTKDGNSVISPVGNRVSVFDLKNNKSYTLPLETRYNITRIALSPDGTLLLAVDER-GRALLVSLLSRSVLHRFN 94 (893)
T ss_pred CcEEECCCCCEEEeccCCEEEEEEccCCcceeEEeecCCceEEEEeCCCceEEEEEcCC-CcEEEEecccceeeEEEe
Confidence 357899999999999999999998863111 111 233345778888888776 345678888888886643
No 53
>cd06165 Sortase_A_1 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal (usually a pentapeptide motif), 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. This group contains a subset of Class A (subfamily-1) sortases, excluding SrtA from Staphylococcus aureus. Sortase A cleaves between threonine and glycine of the LPXTG motif in a wide range of protein substrates. It affects the ability of a pathogen to establish successful infection. Sortase A contains an N-terminal region that functions as both a signal peptide for secretion and a stop-tra
Probab=32.77 E-value=72 Score=23.09 Aligned_cols=21 Identities=10% Similarity=0.071 Sum_probs=12.6
Q ss_pred CCCeEEEECCCCCeEEEEEEc
Q 041057 32 TKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 32 ~~~~~~l~D~~G~~L~~i~~k 52 (180)
.++++.|.+..+.--+++...
T Consensus 66 ~Gd~I~l~~~~~~~~Y~V~~~ 86 (127)
T cd06165 66 VGDKIYLTDKDNVYEYKVTSK 86 (127)
T ss_pred CCCEEEEEECCEEEEEEEeeE
Confidence 356666666666555565554
No 54
>PRK10893 lipopolysaccharide exporter periplasmic protein; Provisional
Probab=32.40 E-value=1.3e+02 Score=23.84 Aligned_cols=44 Identities=14% Similarity=0.019 Sum_probs=31.7
Q ss_pred CEEEEcCCCCEEEEEeccccC---------CCCCeEEEECCCCCeEEEEEEcC
Q 041057 10 GFVVTDCSQKIIFRVDGCGVL---------GTKGELVVRHADGDAVVLIRRKG 53 (180)
Q Consensus 10 ~f~V~D~~G~~vf~V~g~~~~---------s~~~~~~l~D~~G~~L~~i~~k~ 53 (180)
..++||++|.+-|++.+..+- --...+.+++..|.+..+++-++
T Consensus 49 ~~~~yd~~G~l~y~l~a~~~~Hy~~~~~t~f~~P~l~~y~~~~~~~W~v~A~~ 101 (192)
T PRK10893 49 DTVVYNPEGALSYKLVAQHVEYYSDQAVSWFTQPVLTTFDKNKVPTWSVRADK 101 (192)
T ss_pred EEEEECCCCCEEEEEEecceEEcCCCCCEEEeCCeEEEECCCCcceEEEEeCe
Confidence 346899999999999996321 12456777777777777776653
No 55
>PRK06803 flgE flagellar hook protein FlgE; Validated
Probab=31.50 E-value=72 Score=28.39 Aligned_cols=42 Identities=17% Similarity=0.379 Sum_probs=28.8
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVV 47 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~ 47 (180)
|.++|++| .|.+.+|+..|+=.|. |.+-..-.|.+++|.+|.
T Consensus 75 lAI~G~GFF~v~~~~g~~~YTR~G~--F~~d~~G~Lv~~~G~~vq 117 (402)
T PRK06803 75 LAISGGGFFVLKESDGDTAYTRAGM--FRSDVDGYLTDPQGMKLQ 117 (402)
T ss_pred EEEcCCcEEEEEcCCCCeeEEeCCc--eeECCCCCEEcCCCCEeE
Confidence 45778876 5667788888888884 555555566667776654
No 56
>PRK12633 flgD flagellar basal body rod modification protein; Provisional
Probab=30.74 E-value=81 Score=25.79 Aligned_cols=36 Identities=14% Similarity=0.077 Sum_probs=0.0
Q ss_pred EEEEcCCCCEEEEEeccccCCCCCeEE--EECCCCCeE
Q 041057 11 FVVTDCSQKIIFRVDGCGVLGTKGELV--VRHADGDAV 46 (180)
Q Consensus 11 f~V~D~~G~~vf~V~g~~~~s~~~~~~--l~D~~G~~L 46 (180)
.+|+|++|++|.+++....-...+.+. -.|.+|+++
T Consensus 133 v~I~D~~G~vV~t~~lg~~~aG~~~f~WDG~d~~G~~~ 170 (230)
T PRK12633 133 VKVLDPSGAVVRTMELGDLKTGVHTLQWDGNNDGGQPL 170 (230)
T ss_pred EEEEeCCCCEEEEEecCCCCCCceeEEECCCCCCCCcC
No 57
>TIGR00509 bisC_fam molybdopterin guanine dinucleotide-containing S/N-oxide reductases. This enzyme family shares sequence similarity and a requirement for a molydenum cofactor as the only prosthetic group. The form of the cofactor is a single molybdenum atom coordinated by two molybdopterin guanine dinucleotide molecules. Members of the family include biotin sulfoxide reductase, dimethylsulfoxide reductase, and trimethylamine-N-oxide reductase, although a single member may show all those activities and related activities; it may not be possible to resolve the primary function for members of this family by sequence comparison alone. A number of similar molybdoproteins in which the N-terminal region contains a CXXXC motif and may bind an iron-sulfur cluster are excluded from this set, including formate dehydrogenases and nitrate reductases. Also excluded is the A chain of a heteromeric, anaerobic DMSO reductase, which also contains the CXXXC motif.
Probab=30.16 E-value=35 Score=32.65 Aligned_cols=25 Identities=20% Similarity=0.263 Sum_probs=20.2
Q ss_pred eeEEEEEeCCCCHHHHHHHH-HHhhh
Q 041057 148 DLYHIVVKPGIDQAFVVGVI-ATLDY 172 (180)
Q Consensus 148 dty~v~V~pgvD~ali~alv-v~lD~ 172 (180)
+...|.|.||.|.||++||+ +++++
T Consensus 222 aD~~l~irPGTD~AL~lam~~~ii~e 247 (770)
T TIGR00509 222 GAEWIPPNPQTDVALMLGLAHTLVTE 247 (770)
T ss_pred cCeEeCcCCCcHHHHHHHHHHHHHHc
Confidence 34679999999999999998 45544
No 58
>PF11141 DUF2914: Protein of unknown function (DUF2914); InterPro: IPR022606 This bacterial family of proteins has no known function.
Probab=29.84 E-value=72 Score=20.75 Aligned_cols=20 Identities=20% Similarity=0.177 Sum_probs=16.9
Q ss_pred CCCeEEEECCCCCeEEEEEE
Q 041057 32 TKGELVVRHADGDAVVLIRR 51 (180)
Q Consensus 32 ~~~~~~l~D~~G~~L~~i~~ 51 (180)
...++.++|.+|+.|.+++=
T Consensus 44 G~WrV~V~~~~G~~l~~~~F 63 (66)
T PF11141_consen 44 GDWRVEVVDEDGQVLGSLRF 63 (66)
T ss_pred cCEEEEEEcCCCCEEEEEEE
Confidence 45799999999999998764
No 59
>COG1021 EntE Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=29.80 E-value=33 Score=31.07 Aligned_cols=38 Identities=29% Similarity=0.404 Sum_probs=33.8
Q ss_pred CEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 10 GFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 10 ~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
.||=.|..-..++.-+|+ .+|-.+++.+.|++|+|+..
T Consensus 345 nyTRLDDp~E~i~~TQGr-PlsP~DEvrvvD~dg~pv~p 382 (542)
T COG1021 345 NYTRLDDPPEIIIHTQGR-PLSPDDEVRVVDADGNPVAP 382 (542)
T ss_pred cccccCCchHheeecCCC-cCCCcceeEEecCCCCCCCC
Confidence 577788888999999997 79999999999999999874
No 60
>PRK00122 rimM 16S rRNA-processing protein RimM; Provisional
Probab=29.52 E-value=1.5e+02 Score=22.72 Aligned_cols=17 Identities=24% Similarity=0.268 Sum_probs=8.8
Q ss_pred CEEEEcCCCCEEEEEec
Q 041057 10 GFVVTDCSQKIIFRVDG 26 (180)
Q Consensus 10 ~f~V~D~~G~~vf~V~g 26 (180)
+|.|+|++|+.+-+|.+
T Consensus 107 G~~V~d~~g~~lG~V~~ 123 (172)
T PRK00122 107 GLEVVDEDGEELGKVTD 123 (172)
T ss_pred CcEEEeCCCcEEEEEEE
Confidence 34555555555555544
No 61
>PF11906 DUF3426: Protein of unknown function (DUF3426); InterPro: IPR021834 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 262 to 463 amino acids in length.
Probab=29.42 E-value=1.8e+02 Score=21.46 Aligned_cols=32 Identities=19% Similarity=0.190 Sum_probs=23.8
Q ss_pred CCCCEEEEEeccccCCC--------CCeEEEECCCCCeEEE
Q 041057 16 CSQKIIFRVDGCGVLGT--------KGELVVRHADGDAVVL 48 (180)
Q Consensus 16 ~~G~~vf~V~g~~~~s~--------~~~~~l~D~~G~~L~~ 48 (180)
.+|..+|+|+|. +... .=++.|.|.+|++|.+
T Consensus 64 ~~~~~~l~v~g~-i~N~~~~~~~~P~l~l~L~D~~g~~l~~ 103 (149)
T PF11906_consen 64 PDGPGVLVVSGT-IRNRADFPQALPALELSLLDAQGQPLAR 103 (149)
T ss_pred cCCCCEEEEEEE-EEeCCCCcccCceEEEEEECCCCCEEEE
Confidence 368889999985 3211 2288999999999974
No 62
>TIGR02164 torA trimethylamine-N-oxide reductase TorA. This very narrowly defined family represents TorA, part of a family of related molybdoenzymes that include biotin sulfoxide reductases, dimethyl sulfoxide reductases, and at least two different subfamilies of trimethylamine-N-oxide reductases. A single enzyme from the larger family may have more than one activity. TorA typically is located in the periplasm, has a Tat (twin-arginine translocation)-dependent signal sequence, and is encoded in a torCAD operon.
Probab=27.87 E-value=38 Score=32.66 Aligned_cols=22 Identities=23% Similarity=0.418 Sum_probs=18.6
Q ss_pred EEEEeCCCCHHHHHHHH-HHhhh
Q 041057 151 HIVVKPGIDQAFVVGVI-ATLDY 172 (180)
Q Consensus 151 ~v~V~pgvD~ali~alv-v~lD~ 172 (180)
.|.|.||.|.||++||+ +++++
T Consensus 272 ~l~irPGTD~AL~lam~~vii~e 294 (822)
T TIGR02164 272 HLYVNPQTDVALMLALAHTLYSE 294 (822)
T ss_pred EeccCCCcHHHHHHHHHHHHHHC
Confidence 68999999999999998 45544
No 63
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=27.37 E-value=2.1e+02 Score=23.36 Aligned_cols=16 Identities=19% Similarity=0.382 Sum_probs=10.4
Q ss_pred EEEEcCCCCEEEEEec
Q 041057 11 FVVTDCSQKIIFRVDG 26 (180)
Q Consensus 11 f~V~D~~G~~vf~V~g 26 (180)
.+|+|++|++|++++.
T Consensus 130 i~I~D~~G~~Vrt~~l 145 (225)
T PRK06655 130 VTITDSAGQVVRTIDL 145 (225)
T ss_pred EEEEcCCCCEEEEEec
Confidence 5666666776666655
No 64
>PRK12812 flgD flagellar basal body rod modification protein; Reviewed
Probab=27.31 E-value=1.9e+02 Score=24.26 Aligned_cols=49 Identities=14% Similarity=0.116 Sum_probs=31.1
Q ss_pred cCeEEEcCCEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEEEEE
Q 041057 2 RPHVVNGGGFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVLIRR 51 (180)
Q Consensus 2 k~l~~~gd~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~i~~ 51 (180)
|...+.++.+.+.|..+..-|.++=.. -.-.-++.|+|++|+.+-++.-
T Consensus 112 k~V~v~~~~~~l~~~~~~~~~~~~l~~-~a~~v~v~I~D~~G~~V~t~~l 160 (259)
T PRK12812 112 KMATVSDNAVKLTGADELIALKLYFPE-DSDEGTLEIYDSNNKLVEKIDF 160 (259)
T ss_pred CEEEEecceeeeccCcceeEEEEecCC-cCceEEEEEEeCCCCEEEEEec
Confidence 344567777776665455555554221 1123679999999999987753
No 65
>PRK14590 rimM 16S rRNA-processing protein RimM; Provisional
Probab=26.95 E-value=1.7e+02 Score=22.66 Aligned_cols=13 Identities=8% Similarity=0.279 Sum_probs=7.0
Q ss_pred EECCCCCeEEEEE
Q 041057 38 VRHADGDAVVLIR 50 (180)
Q Consensus 38 l~D~~G~~L~~i~ 50 (180)
+++.-.+.|+.|+
T Consensus 122 v~~~~a~dllvV~ 134 (171)
T PRK14590 122 VQDNPAHPILVFI 134 (171)
T ss_pred EecCCCceEEEEE
Confidence 4444555666554
No 66
>TIGR02273 16S_RimM 16S rRNA processing protein RimM. This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide.
Probab=26.72 E-value=1.4e+02 Score=22.70 Aligned_cols=16 Identities=13% Similarity=-0.035 Sum_probs=7.1
Q ss_pred EEEEcCCCCEEEEEec
Q 041057 11 FVVTDCSQKIIFRVDG 26 (180)
Q Consensus 11 f~V~D~~G~~vf~V~g 26 (180)
|.|+|.+|+.+-+|..
T Consensus 103 ~~V~d~~~~~lG~V~~ 118 (165)
T TIGR02273 103 LEVVTEEGEELGKVVE 118 (165)
T ss_pred cEEEcCCCcEEEEEEE
Confidence 4444444444444443
No 67
>PF12914 SH3_7: SH3 domain of SH3b2 type; PDB: 3M1U_B.
Probab=26.58 E-value=1.2e+02 Score=18.39 Aligned_cols=22 Identities=18% Similarity=0.117 Sum_probs=12.6
Q ss_pred eEEEcCCEEEEcCCCCEEEEEe
Q 041057 4 HVVNGGGFVVTDCSQKIIFRVD 25 (180)
Q Consensus 4 l~~~gd~f~V~D~~G~~vf~V~ 25 (180)
+++.+|...++|++|.-.|+.+
T Consensus 15 ~~vi~d~~~~~d~~g~f~~~a~ 36 (50)
T PF12914_consen 15 LVVIKDKVPLYDEPGIFLFTAR 36 (50)
T ss_dssp EEE-STTEEEE-TTS-EEEEE-
T ss_pred EEEEcCCCeeEcCCCcEEEEec
Confidence 5666777777777777666654
No 68
>PF13511 DUF4124: Domain of unknown function (DUF4124)
Probab=26.53 E-value=54 Score=20.35 Aligned_cols=18 Identities=6% Similarity=-0.036 Sum_probs=12.5
Q ss_pred CCEEEEcCCCCEEEEEec
Q 041057 9 GGFVVTDCSQKIIFRVDG 26 (180)
Q Consensus 9 d~f~V~D~~G~~vf~V~g 26 (180)
+=|.=.|++|+++|.=.-
T Consensus 14 ~vYk~~D~~G~v~ysd~P 31 (60)
T PF13511_consen 14 EVYKWVDENGVVHYSDTP 31 (60)
T ss_pred cEEEEECCCCCEEECccC
Confidence 446667888888886443
No 69
>COG4787 FlgF Flagellar basal body rod protein [Cell motility and secretion]
Probab=26.31 E-value=75 Score=26.19 Aligned_cols=40 Identities=18% Similarity=0.361 Sum_probs=26.5
Q ss_pred EEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEE
Q 041057 5 VVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVV 47 (180)
Q Consensus 5 ~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~ 47 (180)
-+.+|+| +|.|.+|...|+=.|. +.+.... ++--+|.|++
T Consensus 81 aiq~DGwlaVq~~dG~EaYTRnG~--~qI~a~g-~lTiqg~pVi 121 (251)
T COG4787 81 AIQGDGWLAVQDADGSEAYTRNGN--IQIDATG-QLTIQGHPVI 121 (251)
T ss_pred EEccCceEEEEcCCCcchheecCc--eEECccc-ceecCCCeee
Confidence 3556665 6889999999998884 4443333 5555666665
No 70
>TIGR01076 sortase_fam LPXTG-site transpeptidase (sortase) family protein. of an LPXTG motif to the cell wall. It also includes a protein required for correct assembly of an LPXTG-containing fimbrial protein, a set of homologous proteins from Streptococcus pneumoniae, in which LPXTG proteins are common. However, related proteins are found in Bacillus subtilis and Methanobacterium thermoautotrophicum, in which LPXTG-mediated cell wall attachment is not known.
Probab=25.08 E-value=1.6e+02 Score=21.61 Aligned_cols=21 Identities=5% Similarity=-0.024 Sum_probs=12.1
Q ss_pred CCCeEEEECCCCCeEEEEEEc
Q 041057 32 TKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 32 ~~~~~~l~D~~G~~L~~i~~k 52 (180)
.++.+.|.+..+.-.+++-..
T Consensus 66 ~GD~i~v~~~~~~~~Y~V~~~ 86 (136)
T TIGR01076 66 KGDMLYLHVGNEVLTYQVTST 86 (136)
T ss_pred CCCEEEEEECCcEEEEEEEEE
Confidence 355666666666555555444
No 71
>cd02750 MopB_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. Members of the MopB_Nitrate-R-NarG-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=24.45 E-value=54 Score=29.23 Aligned_cols=22 Identities=23% Similarity=0.536 Sum_probs=18.0
Q ss_pred EEEEEeCCCCHHHHHHHH-HHhh
Q 041057 150 YHIVVKPGIDQAFVVGVI-ATLD 171 (180)
Q Consensus 150 y~v~V~pgvD~ali~alv-v~lD 171 (180)
..|.|.||.|.+|++||+ ++++
T Consensus 218 ~~l~i~PGtD~al~lal~~~i~~ 240 (461)
T cd02750 218 LWVPIKPGTDAALALAMAHVIIK 240 (461)
T ss_pred EEeccCCCcHHHHHHHHHHHHHH
Confidence 348899999999999999 4443
No 72
>PF06357 Omega-toxin: Omega-atracotoxin; InterPro: IPR009415 This family consists of several Hadronyche versuta (Blue mountains funnel-web spider) specific omega-atracotoxin proteins. Omega-Atracotoxin-Hv1a is an insect-specific neurotoxin whose phylogenetic specificity derives from its ability to antagonise insect, but not vertebrate, voltage-gated calcium channels. Two spatially proximal residues, Asn(27) and Arg(35), form a contiguous molecular surface that is essential for toxin activity. It has been proposed that this surface of the beta-hairpin is a key site for interaction of the toxin with insect calcium channels [].; GO: 0019855 calcium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 1AXH_A 1HVW_A.
Probab=24.05 E-value=68 Score=18.47 Aligned_cols=12 Identities=25% Similarity=0.307 Sum_probs=7.6
Q ss_pred EcCCCCEEEEEe
Q 041057 14 TDCSQKIIFRVD 25 (180)
Q Consensus 14 ~D~~G~~vf~V~ 25 (180)
.+++|+.|+|.|
T Consensus 26 ~NeNGntV~RCd 37 (37)
T PF06357_consen 26 TNENGNTVKRCD 37 (37)
T ss_dssp E-SSS-EEEEE-
T ss_pred cccCCceeeccC
Confidence 368999999875
No 73
>PF12142 PPO1_DWL: Polyphenol oxidase middle domain; InterPro: IPR022739 This domain is found in bacteria and eukaryotes and is approximately 50 amino acids in length. It is found in association with PF00264 from PFAM and PF12143 from PFAM. Most members are annotated as being polyphenol oxidases, and many are from plants or plastids. There is a conserved DWL sequence motif. ; GO: 0004097 catechol oxidase activity, 0055114 oxidation-reduction process; PDB: 1BT3_A 1BUG_B 1BT1_B 1BT2_B 2P3X_A.
Probab=23.83 E-value=63 Score=20.49 Aligned_cols=20 Identities=30% Similarity=0.451 Sum_probs=11.1
Q ss_pred CEEEEcCCCCEEEEEeccccC
Q 041057 10 GFVVTDCSQKIIFRVDGCGVL 30 (180)
Q Consensus 10 ~f~V~D~~G~~vf~V~g~~~~ 30 (180)
.|..||++|++| +|+-++.+
T Consensus 11 ~F~FYDen~~lV-rv~vrD~L 30 (54)
T PF12142_consen 11 SFLFYDENGQLV-RVKVRDVL 30 (54)
T ss_dssp EEEEE-TTS-EE-EEEGGGHT
T ss_pred eeEEECCCCCEE-EEEhhhcc
Confidence 577888877764 55554444
No 74
>PRK05682 flgE flagellar hook protein FlgE; Validated
Probab=23.55 E-value=1.1e+02 Score=27.15 Aligned_cols=43 Identities=16% Similarity=0.207 Sum_probs=32.0
Q ss_pred eEEEcCCEEEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGFVVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
|.+.|++|=+...+|+..|+=.|. |.+-..-.|.+++|.+|+-
T Consensus 81 lAI~G~GfF~V~~~g~~~yTR~G~--F~~d~~G~Lv~~~G~~vlg 123 (407)
T PRK05682 81 LAISGNGFFVVSNGGNGFYTRAGA--FKLDKNGYLVNAAGYYLQG 123 (407)
T ss_pred EEEcCCceEEEeCCCCeEEEeccc--eEECCCCCEEcCCCCEEEe
Confidence 567888886666778888998884 6666666788888877663
No 75
>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=23.03 E-value=1.6e+02 Score=19.97 Aligned_cols=23 Identities=22% Similarity=0.479 Sum_probs=10.2
Q ss_pred EEEeccccCC-CCCeEEEECCCCC
Q 041057 22 FRVDGCGVLG-TKGELVVRHADGD 44 (180)
Q Consensus 22 f~V~g~~~~s-~~~~~~l~D~~G~ 44 (180)
+...|.+-+. -++.++|.+.+|.
T Consensus 39 ~~~~g~g~w~~~~~~i~L~~~~~~ 62 (87)
T PF04170_consen 39 FTEKGSGTWNVDGNIITLTDNNGD 62 (87)
T ss_dssp CEEEEEEEEECTSSEEEEEETTTT
T ss_pred ceEEEEEEEEccCCEEEEecCCCC
Confidence 4444432232 2445555555443
No 76
>PRK12692 flgG flagellar basal body rod protein FlgG; Reviewed
Probab=23.01 E-value=81 Score=26.23 Aligned_cols=42 Identities=26% Similarity=0.356 Sum_probs=31.3
Q ss_pred eEEEcCCEE-EEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEE
Q 041057 4 HVVNGGGFV-VTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVV 47 (180)
Q Consensus 4 l~~~gd~f~-V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~ 47 (180)
+.+.|++|= |.+.+|...|+=+|. |.+...-.|.+++|.+|+
T Consensus 95 ~AI~G~GFF~V~~~~G~~~yTR~G~--F~~d~~G~Lvt~~G~~Vl 137 (262)
T PRK12692 95 LAVNGRGYFQVTSPNGEIQYTRAGS--FNKNAAGQLVTMEGYAVD 137 (262)
T ss_pred EEEcCCceEEEECCCCCeEEEeCCC--ceECCCCCEEcCCCCCcc
Confidence 456677754 556788878998884 666666678899998886
No 77
>PRK13828 rimM 16S rRNA-processing protein RimM; Provisional
Probab=22.93 E-value=2.1e+02 Score=21.75 Aligned_cols=17 Identities=24% Similarity=0.423 Sum_probs=8.6
Q ss_pred CEEEEcCCCCEEEEEec
Q 041057 10 GFVVTDCSQKIIFRVDG 26 (180)
Q Consensus 10 ~f~V~D~~G~~vf~V~g 26 (180)
+|.|+|++|+.+-+|.+
T Consensus 87 G~~V~d~~g~~lG~V~~ 103 (161)
T PRK13828 87 GLAAVDTGGALLGRVKA 103 (161)
T ss_pred CCEEEeCCCCEEEEEEE
Confidence 34555555555544444
No 78
>PRK14591 rimM 16S rRNA-processing protein RimM; Provisional
Probab=22.77 E-value=2.1e+02 Score=22.04 Aligned_cols=13 Identities=8% Similarity=0.337 Sum_probs=6.2
Q ss_pred EECCCCCeEEEEE
Q 041057 38 VRHADGDAVVLIR 50 (180)
Q Consensus 38 l~D~~G~~L~~i~ 50 (180)
+.+.-.+.|+.|+
T Consensus 124 v~~~ga~dll~I~ 136 (169)
T PRK14591 124 IIETGANEVLVCK 136 (169)
T ss_pred EeecCCceEEEEE
Confidence 3444445555554
No 79
>PRK12641 flgF flagellar basal body rod protein FlgF; Reviewed
Probab=22.75 E-value=89 Score=25.86 Aligned_cols=42 Identities=12% Similarity=0.294 Sum_probs=26.4
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+.+.|++| .|.+.+|...|+=+|. |.+-..-.|. ++|.+|+-
T Consensus 78 lAI~G~GFF~V~~~~G~~~YTR~G~--F~~d~~G~L~-~~G~~Vl~ 120 (252)
T PRK12641 78 LFIKDNGWLTIKDTNGQEAYTKNGH--LKINSKRKLT-VQNNEVIG 120 (252)
T ss_pred EEEcCCcEEEEEcCCCCeEEeeCCC--eeECCCCCEE-eCCcEecc
Confidence 34566665 5667788888998884 5443333444 66777663
No 80
>PRK12636 flgG flagellar basal body rod protein FlgG; Provisional
Probab=22.73 E-value=1.1e+02 Score=25.32 Aligned_cols=42 Identities=21% Similarity=0.272 Sum_probs=28.7
Q ss_pred eEEEcCCEEEE-cCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGFVVT-DCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f~V~-D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+.+.|++|=.. +.+| ..|+=+|. |.+...-.|.+++|.+|+-
T Consensus 94 lAI~G~GfF~V~~~~g-~~YTR~G~--F~~d~~G~Lvt~~G~~vlg 136 (263)
T PRK12636 94 LAISGDGFFRVGDGDN-TAYTRAGN--FYLDNEGNIVNADGLYLLG 136 (263)
T ss_pred EEEcCCcEEEEEeCCC-CEEEeCCC--eEECCCCCEEcCCCCEeec
Confidence 45667666444 4455 66888884 6666666788888888874
No 81
>TIGR03479 DMSO_red_II_alp DMSO reductase family type II enzyme, molybdopterin subunit. This model represents the molybdopterin subunit, typically called the alpha subunit, of various proteins that also contain an iron-sulfur subunit and a heme b subunit. The group includes two distinct but very closely related periplasmic proteins of anaerobic respiration, selenate reductase and chlorate reductase. Other members of this family include dimethyl sulphide dehydrogenase, ethylbenzene dehydrogenase, and an archaeal respiratory nitrate reductase. This alpha subunit has a twin-arginine translocation (TAT) signal for Sec-independent translocation across the plasma membrane.
Probab=22.41 E-value=43 Score=32.87 Aligned_cols=22 Identities=27% Similarity=0.560 Sum_probs=18.6
Q ss_pred EEEEeCCCCHHHHHHHH-HHhhh
Q 041057 151 HIVVKPGIDQAFVVGVI-ATLDY 172 (180)
Q Consensus 151 ~v~V~pgvD~ali~alv-v~lD~ 172 (180)
.|-|.||.|.||++||+ ++|++
T Consensus 273 wlpirPGTD~ALalam~~vIi~e 295 (912)
T TIGR03479 273 WLPVRVGTDAALALGMVQVIIDE 295 (912)
T ss_pred ecCCCCCcHHHHHHHHHHHHHHc
Confidence 47899999999999998 55555
No 82
>TIGR03067 Planc_TIGR03067 Planctomycetes uncharacterized domain TIGR03067. This domain occurs in several species, mostly from the Planctomycetes division of the bacteria. It is expanded into a paralogous family of at least twenty-five members in Gemmata obscuriglobus UQM 2246. This family appears related to TIGR03066, which also is expanded into a large paralogous family in Gemmata obscuriglobus.
Probab=21.90 E-value=3e+02 Score=19.51 Aligned_cols=46 Identities=17% Similarity=0.269 Sum_probs=32.8
Q ss_pred CeEEEcCCEEEEcCCCC---EEEEEeccccCCCCCeEEEECCC----CCeEEEEEE
Q 041057 3 PHVVNGGGFVVTDCSQK---IIFRVDGCGVLGTKGELVVRHAD----GDAVVLIRR 51 (180)
Q Consensus 3 ~l~~~gd~f~V~D~~G~---~vf~V~g~~~~s~~~~~~l~D~~----G~~L~~i~~ 51 (180)
.+.|.||.|++.+.++. -.|+++.. .-++.+.+.+.. |+++.=|.+
T Consensus 32 ~~~~~g~~~~~~~~~~~~~~~~~~Ld~~---~~Pk~id~~~~~g~~~g~~~~gIY~ 84 (107)
T TIGR03067 32 VWTFKGDKLTVKDGEGDQGKGTFKLDPA---ANPKTIDLTSPDGPDKGKTIKGIYK 84 (107)
T ss_pred EEEEeCCEEEEEcCCCcceeEEEEECCC---CCccEEEEEccCCCCCCCEEEEEEE
Confidence 47899999999998875 55677663 357889998754 455554444
No 83
>COG4786 FlgG Flagellar basal body rod protein [Cell motility and secretion]
Probab=21.58 E-value=91 Score=26.27 Aligned_cols=43 Identities=21% Similarity=0.343 Sum_probs=32.5
Q ss_pred eEEEcCCE-EEEcCCCCEEEEEeccccCCCCCeEEEECCCCCeEEE
Q 041057 4 HVVNGGGF-VVTDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVVL 48 (180)
Q Consensus 4 l~~~gd~f-~V~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~~ 48 (180)
+-+.|++| .|...+|+.+|+=+|. |.+..+-.|...+|-||+-
T Consensus 95 ~AI~g~gfF~I~~~dG~~~YTR~G~--F~~d~~G~LVT~~G~~vl~ 138 (265)
T COG4786 95 LAITGDGFFQIQTPDGTIAYTRDGS--FTVDEEGQLVTSNGYPVLD 138 (265)
T ss_pred eEEcCCceEEEEcCCCCEEEeeCCc--eeECCCCCEEeCCCCCccC
Confidence 34566554 5666899999999994 7777788888888888775
No 84
>PF14269 Arylsulfotran_2: Arylsulfotransferase (ASST)
Probab=21.50 E-value=3.6e+02 Score=22.78 Aligned_cols=41 Identities=24% Similarity=0.414 Sum_probs=32.8
Q ss_pred EEEEcCCCCEEEEEeccc----------cCCCCCeEEEECCCCCeEEEEEEc
Q 041057 11 FVVTDCSQKIIFRVDGCG----------VLGTKGELVVRHADGDAVVLIRRK 52 (180)
Q Consensus 11 f~V~D~~G~~vf~V~g~~----------~~s~~~~~~l~D~~G~~L~~i~~k 52 (180)
+.+.|.+.+++++|.... ...-.+++.+ .++|+.|+++.+.
T Consensus 27 ~~~lD~~y~~i~~v~~~~~~~~~~~~~~~~~d~He~~i-t~~gt~lvt~~~~ 77 (299)
T PF14269_consen 27 YVILDSSYEVIWNVSAGNDFGTPDGEPGSYADHHEFEI-TPDGTALVTAYNP 77 (299)
T ss_pred EEEECCCCcEEEEEECCCcccccccccCccCCccceEE-cCCCcEEEEEccc
Confidence 789999999999999853 1123688888 7889999988765
No 85
>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=21.27 E-value=1.7e+02 Score=16.44 Aligned_cols=30 Identities=17% Similarity=0.144 Sum_probs=17.7
Q ss_pred EcCCCCEEEEEeccccCCCCCeEEEECCCCCeEE
Q 041057 14 TDCSQKIIFRVDGCGVLGTKGELVVRHADGDAVV 47 (180)
Q Consensus 14 ~D~~G~~vf~V~g~~~~s~~~~~~l~D~~G~~L~ 47 (180)
||+.|+++=.++.-+ .....-+|+.|+++-
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 577777776665422 123466777777554
No 86
>PRK03759 isopentenyl-diphosphate delta-isomerase; Provisional
Probab=20.86 E-value=1.8e+02 Score=22.45 Aligned_cols=59 Identities=14% Similarity=0.006 Sum_probs=35.5
Q ss_pred CCEEEEcCCCCEEEEEeccccC------CCCCeEEEECCCCCeEEEEEEcCceeeeecccceeEEEEec
Q 041057 9 GGFVVTDCSQKIIFRVDGCGVL------GTKGELVVRHADGDAVVLIRRKGGVVEALSIHKKWKGYAFD 71 (180)
Q Consensus 9 d~f~V~D~~G~~vf~V~g~~~~------s~~~~~~l~D~~G~~L~~i~~k~~~~~~~sl~~~w~v~~~~ 71 (180)
+-++|+|++|+++-++.-.... ...--..+.|.+|+.|+.=|... ..++...|..--|+
T Consensus 6 E~~~~vd~~~~~~g~~~r~~~~~~~~~~h~av~v~i~~~~g~vLL~rR~~~----~~~~PG~w~~~~gG 70 (184)
T PRK03759 6 ELVVLLDEQGVPTGTAEKAAAHTADTPLHLAFSCYLFDADGRLLVTRRALS----KKTWPGVWTNSCCG 70 (184)
T ss_pred eeEEEECCCCCCcccccHHHHHhcCCCeeeEEEEEEEcCCCeEEEEEccCC----CCCCCCcccccccC
Confidence 4578999999999887654221 01113557888888877533221 24555677754333
No 87
>PRK14991 tetrathionate reductase subunit A; Provisional
Probab=20.81 E-value=61 Score=32.43 Aligned_cols=24 Identities=29% Similarity=0.555 Sum_probs=19.8
Q ss_pred eEEEEEeCCCCHHHHHHHH-HHhhh
Q 041057 149 LYHIVVKPGIDQAFVVGVI-ATLDY 172 (180)
Q Consensus 149 ty~v~V~pgvD~ali~alv-v~lD~ 172 (180)
...|-|.||.|.||++||+ ++|++
T Consensus 340 d~wlpIrPGTD~ALalgmi~~Iie~ 364 (1031)
T PRK14991 340 NRWLPIRPGTDSALAMGMIRWIIDN 364 (1031)
T ss_pred CEEeCCCCCcHHHHHHHHHHHHHHc
Confidence 4568999999999999998 55554
No 88
>cd00028 B_lectin Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically recognize diverse carbohydrates and mediate a wide variety of biological processes, such as cell-cell and host-pathogen interactions, serum glycoprotein turnover, and innate immune responses.
Probab=20.70 E-value=3.1e+02 Score=19.22 Aligned_cols=12 Identities=33% Similarity=0.490 Sum_probs=5.6
Q ss_pred EEEECCCCCeEE
Q 041057 36 LVVRHADGDAVV 47 (180)
Q Consensus 36 ~~l~D~~G~~L~ 47 (180)
++|+|.+|.++.
T Consensus 67 Lvl~~~~g~~vW 78 (116)
T cd00028 67 LVIYDGSGTVVW 78 (116)
T ss_pred eEEEcCCCcEEE
Confidence 444454444443
No 89
>cd02758 MopB_Tetrathionate-Ra The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=20.56 E-value=62 Score=31.06 Aligned_cols=22 Identities=27% Similarity=0.487 Sum_probs=18.0
Q ss_pred eEEEEEeCCCCHHHHHHHHHHh
Q 041057 149 LYHIVVKPGIDQAFVVGVIATL 170 (180)
Q Consensus 149 ty~v~V~pgvD~ali~alvv~l 170 (180)
...|-|.||.|.||++||+=.|
T Consensus 265 d~wlpIrPGTD~AL~lam~~~I 286 (735)
T cd02758 265 IRWVPIKPGGDGALAMAMIRWI 286 (735)
T ss_pred CEEECCCCCcHHHHHHHHHHHH
Confidence 3458899999999999998433
Done!