Query 031724
Match_columns 154
No_of_seqs 20 out of 22
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 04:28:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031724.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031724hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02720 complex II 100.0 2.1E-89 4.6E-94 534.9 12.4 139 13-151 2-140 (140)
2 PF05433 Rick_17kDa_Anti: Glyc 92.4 0.17 3.8E-06 32.7 3.0 41 83-124 2-42 (42)
3 PF13436 Gly-zipper_OmpA: Glyc 86.5 1.8 3.9E-05 32.5 5.0 50 73-126 49-98 (118)
4 PF05818 TraT: Enterobacterial 86.1 0.9 2E-05 38.3 3.5 52 71-123 77-129 (215)
5 PRK10510 putative outer membra 85.1 1.1 2.5E-05 36.5 3.6 27 104-140 62-88 (219)
6 PRK11280 hypothetical protein; 84.2 1.5 3.2E-05 36.0 3.8 45 81-126 65-109 (170)
7 PF12597 DUF3767: Protein of u 80.1 2.7 5.9E-05 32.0 3.8 49 72-120 39-87 (118)
8 PF13488 Gly-zipper_Omp: Glyci 79.7 3.3 7.3E-05 27.1 3.6 23 100-122 19-41 (46)
9 PRK10540 lipoprotein; Provisio 77.6 3.1 6.8E-05 29.6 3.2 22 103-124 50-71 (72)
10 PF13441 Gly-zipper_YMGG: YMGG 77.1 2.9 6.3E-05 27.8 2.7 41 72-120 3-43 (45)
11 TIGR03789 pdsO proteobacterial 75.5 2.1 4.5E-05 36.1 2.1 21 107-127 61-81 (239)
12 PRK10535 macrolide transporter 75.5 4 8.6E-05 37.5 4.1 55 74-128 574-637 (648)
13 PF02466 Tim17: Tim17/Tim22/Ti 68.3 6.7 0.00015 28.1 3.1 25 95-119 97-121 (128)
14 PF11981 DUF3482: Domain of un 65.3 6.8 0.00015 33.8 3.1 33 83-121 151-183 (292)
15 KOG2715 Uncharacterized conser 64.9 3.9 8.5E-05 34.8 1.6 42 37-78 46-88 (210)
16 PF11981 DUF3482: Domain of un 63.4 7.4 0.00016 33.5 3.0 49 62-119 133-185 (292)
17 PF13436 Gly-zipper_OmpA: Glyc 62.5 11 0.00025 28.2 3.5 49 70-122 50-98 (118)
18 PF09512 ThiW: Thiamine-precur 62.1 13 0.00028 30.2 4.0 47 78-125 66-113 (150)
19 COG4732 Predicted membrane pro 57.6 4.3 9.3E-05 33.9 0.6 37 79-116 76-113 (177)
20 PF04304 DUF454: Protein of un 55.9 19 0.00041 23.9 3.4 20 57-76 2-21 (71)
21 PF08164 TRAUB: Apoptosis-anta 55.2 8.2 0.00018 28.0 1.6 30 32-62 52-81 (83)
22 PF11808 DUF3329: Domain of un 54.2 45 0.00099 23.7 5.3 13 123-135 41-53 (90)
23 PF08566 Pam17: Mitochondrial 54.1 29 0.00063 28.7 4.8 60 70-131 33-106 (173)
24 TIGR01946 rnfD electron transp 53.5 18 0.0004 31.9 3.8 50 59-115 263-312 (327)
25 PF06738 DUF1212: Protein of u 52.9 33 0.00072 26.2 4.7 72 35-118 70-141 (193)
26 PRK00816 rnfD electron transpo 52.6 18 0.00039 32.3 3.6 50 59-115 284-333 (350)
27 PF08560 DUF1757: Protein of u 52.0 16 0.00035 29.1 3.0 16 80-95 35-50 (155)
28 PLN02975 complex I subunit 51.9 24 0.00051 26.8 3.7 60 59-121 12-71 (97)
29 PF01507 PAPS_reduct: Phosphoa 51.6 8.2 0.00018 27.8 1.2 19 44-62 132-150 (174)
30 PF12732 YtxH: YtxH-like prote 49.8 12 0.00026 25.4 1.7 14 107-120 3-16 (74)
31 PF09548 Spore_III_AB: Stage I 49.5 29 0.00063 26.9 4.0 35 103-137 3-37 (170)
32 PF10785 NADH-u_ox-rdase: NADH 49.2 30 0.00065 25.0 3.8 61 59-120 6-69 (86)
33 PRK13731 conjugal transfer sur 48.1 26 0.00057 30.4 3.9 45 77-122 113-158 (243)
34 PRK12866 YciI-like protein; Re 47.7 9.4 0.0002 27.6 1.0 15 52-66 58-72 (97)
35 KOG4608 Uncharacterized conser 47.1 10 0.00023 33.4 1.3 53 78-138 163-215 (270)
36 PRK09331 Sep-tRNA:Cys-tRNA syn 46.3 9 0.0002 32.1 0.8 27 57-83 18-46 (387)
37 PF13495 Phage_int_SAM_4: Phag 46.2 9.7 0.00021 24.8 0.8 24 45-68 35-61 (85)
38 PRK11370 YciI-like protein; Re 46.1 10 0.00022 26.9 0.9 15 52-66 67-81 (99)
39 PRK12864 YciI-like protein; Re 44.8 12 0.00026 26.4 1.1 15 52-66 58-72 (89)
40 COG2035 Predicted membrane pro 44.0 40 0.00086 29.7 4.4 39 99-137 186-224 (276)
41 PF10281 Ish1: Putative stress 42.9 11 0.00024 23.0 0.6 22 50-71 3-24 (38)
42 COG0577 SalY ABC-type antimicr 42.8 67 0.0014 24.7 5.0 50 71-120 335-400 (419)
43 PRK05349 Na(+)-translocating N 42.8 29 0.00064 31.9 3.5 52 59-117 333-385 (405)
44 PF08439 Peptidase_M3_N: Oligo 42.5 14 0.0003 24.4 1.1 27 52-78 6-35 (70)
45 PF09564 RE_NgoBV: NgoBV restr 42.1 13 0.00027 32.5 1.0 25 27-53 211-235 (240)
46 TIGR01937 nqrB NADH:ubiquinone 41.9 31 0.00067 31.8 3.5 51 58-116 346-398 (413)
47 PF06305 DUF1049: Protein of u 41.9 21 0.00045 23.2 1.8 15 106-120 25-39 (68)
48 smart00441 FF Contains two con 41.8 28 0.0006 21.7 2.3 38 38-76 7-45 (55)
49 PF06295 DUF1043: Protein of u 40.9 19 0.00042 27.2 1.8 16 105-120 2-17 (128)
50 PRK12865 YciI-like protein; Re 39.9 15 0.00033 26.0 1.1 15 52-66 61-75 (97)
51 PRK10527 hypothetical protein; 39.5 44 0.00095 25.8 3.6 25 52-76 42-66 (125)
52 PRK12863 YciI-like protein; Re 39.2 15 0.00032 25.8 0.9 15 52-66 60-74 (94)
53 KOG2805 tRNA (5-methylaminomet 38.4 19 0.00042 33.1 1.7 17 24-40 76-93 (377)
54 PF03116 NQR2_RnfD_RnfE: NQR2, 36.8 38 0.00082 29.4 3.1 52 58-116 247-298 (313)
55 PF05572 Peptidase_M43: Pregna 35.9 17 0.00036 28.2 0.7 19 114-133 68-86 (154)
56 PRK11026 ftsX cell division AB 35.9 1.1E+02 0.0023 26.2 5.7 24 73-96 230-253 (309)
57 PRK11677 hypothetical protein; 34.4 28 0.00061 27.3 1.8 17 105-121 6-22 (134)
58 PRK01024 Na(+)-translocating N 33.8 44 0.00095 31.8 3.2 55 58-119 435-490 (503)
59 COG3311 AlpA Predicted transcr 33.8 19 0.00041 25.8 0.7 14 50-63 51-64 (70)
60 PF08560 DUF1757: Protein of u 32.7 73 0.0016 25.4 3.9 45 73-117 32-83 (155)
61 TIGR00906 2A0303 cationic amin 32.5 1.6E+02 0.0035 26.8 6.5 75 40-127 8-86 (557)
62 PF03672 UPF0154: Uncharacteri 32.3 35 0.00076 24.2 1.8 18 104-121 2-19 (64)
63 KOG3208 SNARE protein GS28 [In 32.1 49 0.0011 28.7 3.0 54 7-65 81-134 (231)
64 PF06813 Nodulin-like: Nodulin 32.0 91 0.002 26.0 4.6 33 64-96 22-60 (250)
65 PF06233 Usg: Usg-like family; 31.8 29 0.00063 26.0 1.4 14 140-153 42-55 (82)
66 PF03195 DUF260: Protein of un 31.1 21 0.00046 26.6 0.6 9 61-69 69-77 (101)
67 PRK00956 thyA thymidylate synt 30.4 40 0.00088 27.5 2.2 24 50-73 59-91 (208)
68 PRK10540 lipoprotein; Provisio 30.3 93 0.002 22.2 3.8 22 98-119 27-48 (72)
69 PRK10510 putative outer membra 30.1 44 0.00094 27.3 2.3 20 100-119 62-81 (219)
70 PRK09430 djlA Dna-J like membr 29.8 35 0.00077 28.7 1.8 7 83-89 5-11 (267)
71 PF05084 GRA6: Granule antigen 29.5 39 0.00084 28.9 2.0 38 64-101 134-173 (215)
72 PF12868 DUF3824: Domain of un 29.4 33 0.00071 27.1 1.4 20 81-100 9-28 (137)
73 COG5036 SPX domain-containing 29.2 31 0.00067 32.8 1.5 49 28-76 15-68 (509)
74 PRK08307 stage III sporulation 28.7 96 0.0021 24.4 4.0 34 103-136 4-37 (171)
75 PRK10814 outer membrane-specif 28.0 1.1E+02 0.0024 25.7 4.4 24 73-96 315-338 (399)
76 cd01713 PAPS_reductase This do 27.3 31 0.00067 24.1 0.9 21 42-62 136-156 (173)
77 PF02466 Tim17: Tim17/Tim22/Ti 27.2 1.6E+02 0.0036 20.9 4.7 44 75-121 57-100 (128)
78 PF14362 DUF4407: Domain of un 26.7 82 0.0018 26.0 3.4 43 75-119 11-59 (301)
79 PF13197 DUF4013: Protein of u 25.9 45 0.00097 25.1 1.6 11 42-52 31-41 (169)
80 COG3781 Predicted membrane pro 25.0 1E+02 0.0022 27.9 3.8 42 17-60 76-117 (306)
81 KOG3913 Wnt family of developm 24.9 45 0.00098 30.3 1.7 32 62-100 99-131 (356)
82 PF04757 Pex2_Pex12: Pex2 / Pe 24.7 38 0.00083 26.2 1.1 11 137-147 217-227 (229)
83 TIGR02833 spore_III_AB stage I 24.5 1.3E+02 0.0028 23.7 4.0 34 103-136 3-36 (170)
84 TIGR02212 lolCE lipoprotein re 23.9 1.5E+02 0.0032 24.5 4.3 19 73-91 317-335 (411)
85 cd03511 Rhizopine-oxygenase-li 23.5 1.6E+02 0.0035 24.0 4.5 18 52-69 2-19 (285)
86 TIGR01764 excise DNA binding d 23.4 36 0.00079 19.6 0.6 13 50-62 37-49 (49)
87 PF14715 FixP_N: N-terminal do 23.1 27 0.00058 23.4 -0.0 8 44-51 16-23 (51)
88 cd01185 INT_Tn4399 Tn4399 and 23.1 1.3E+02 0.0029 23.3 3.8 48 14-61 16-76 (299)
89 PF05930 Phage_AlpA: Prophage 23.0 28 0.0006 22.1 0.0 11 50-60 41-51 (51)
90 cd08187 BDH Butanol dehydrogen 22.8 2.7E+02 0.0058 23.9 5.9 20 100-119 276-295 (382)
91 PF06699 PIG-F: GPI biosynthes 22.7 1.9E+02 0.0041 23.6 4.7 65 56-123 121-186 (190)
92 TIGR00434 cysH phosophoadenyly 22.6 41 0.00088 26.2 0.9 19 44-62 146-164 (212)
93 TIGR02055 APS_reductase thiore 22.6 42 0.00092 26.3 1.0 20 44-63 125-144 (191)
94 PRK02090 phosphoadenosine phos 22.2 33 0.00072 27.7 0.3 23 41-63 168-190 (241)
95 PF12728 HTH_17: Helix-turn-he 21.9 36 0.00078 20.8 0.4 13 50-62 37-49 (51)
96 PF12072 DUF3552: Domain of un 21.8 1.1E+02 0.0023 24.5 3.1 24 105-128 6-29 (201)
97 COG3619 Predicted membrane pro 21.6 88 0.0019 26.4 2.7 24 105-128 177-200 (226)
98 PRK15138 aldehyde reductase; P 21.6 2.7E+02 0.0058 24.3 5.7 78 72-150 239-334 (387)
99 PF06222 Phage_TAC: Phage tail 21.5 93 0.002 24.9 2.7 40 37-79 77-117 (127)
100 TIGR03726 strep_RK_lipo putati 21.3 62 0.0013 20.8 1.3 16 80-95 11-26 (34)
101 PRK05963 3-oxoacyl-(acyl carri 21.3 31 0.00067 28.1 -0.0 68 50-118 241-322 (326)
102 TIGR03718 R_switched_Alx integ 21.2 1E+02 0.0023 27.1 3.2 32 105-136 43-74 (302)
103 PF09988 DUF2227: Uncharacteri 21.2 1.8E+02 0.004 23.5 4.3 59 59-117 78-148 (169)
104 COG5425 Usg protein, probable 20.9 60 0.0013 24.7 1.4 27 126-152 30-62 (90)
105 cd06071 Beach BEACH (Beige and 20.8 52 0.0011 28.3 1.2 36 34-80 159-202 (275)
106 PF05957 DUF883: Bacterial pro 20.7 73 0.0016 22.3 1.7 18 103-120 75-92 (94)
107 PRK09444 pntB pyridine nucleot 20.6 1.1E+02 0.0024 28.9 3.3 49 71-122 28-77 (462)
108 PF01169 UPF0016: Uncharacteri 20.3 1.4E+02 0.0031 20.9 3.2 36 90-125 20-59 (78)
109 PF10439 Bacteriocin_IIc: Bact 20.3 2E+02 0.0044 19.4 3.8 14 107-120 47-60 (65)
110 PF12315 DUF3633: Protein of u 20.2 76 0.0017 27.1 2.0 17 62-78 181-197 (212)
111 PF12270 Cyt_c_ox_IV: Cytochro 20.1 2.9E+02 0.0064 22.0 5.2 31 34-67 50-82 (137)
112 PRK00235 cobS cobalamin syntha 20.0 3.5E+02 0.0076 22.3 5.8 39 47-99 18-56 (249)
113 PF04854 DUF624: Protein of un 20.0 77 0.0017 21.0 1.7 20 13-32 41-60 (77)
No 1
>PLN02720 complex II
Probab=100.00 E-value=2.1e-89 Score=534.87 Aligned_cols=139 Identities=66% Similarity=1.264 Sum_probs=137.3
Q ss_pred HhHHhHhhHHhHHHHHhhhhhhhhhhhhhhcCCCCCCCCCchhhHHhhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhh
Q 031724 13 QQSFFRKHWEGYKEFWGERFSFLENYTRFTKREKPLPSWSPSDVDAFIATDPVHGPALKSAREAVNFALAGSLIGAVSTA 92 (154)
Q Consensus 13 ~~~~~k~~weg~K~~W~e~Fsfl~~y~~~~~RdkPLP~Ws~sDVeeFIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~ta 92 (154)
+.+|||+||||+|+||+||||||+||++|++||||||||||||||||||||||||||||+||||++||++|++||||+||
T Consensus 2 ~~~~~~~~w~g~K~~w~e~fs~l~~y~~~~~rdkPLP~Ws~sDVeeFIaSDPVyGPqLk~~rea~~fa~~Ga~vGa~~ta 81 (140)
T PLN02720 2 SESFFKKHWEGLKDFWRDRFSFLENYARFSKRDKPLPPWSDSDVDEFIASDPVYGPQLKTMREAATFAVTGAAVGAVSTA 81 (140)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCchhhHHHHHhcCCCcchHHHHHHHHHHHHhhhhhhhhhhhh
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhccCcchhHHHhhhhhHHhhhhhhhHHHHHHHHhhcchhhhhHHHHHHHHHHhc
Q 031724 93 GVAWKYSRSLHGTGLSLAAGAVFGWTFGQEFANHYLQLYRMDTLAAQSKFMEWWEAKCA 151 (154)
Q Consensus 93 gva~kYSks~hGa~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~~a~~kFl~WWE~K~~ 151 (154)
||||||||+|||++||||+|+|||||||+|||||||||||||||+||+|||||||||++
T Consensus 82 g~a~kysk~phga~lsfl~G~~~G~~~G~EvAnh~lqLYk~d~m~a~~KFl~WWE~K~~ 140 (140)
T PLN02720 82 GVAWKYSKSPHGAALAFLGGGVFGWAFGQEVANHWLQLYKFDTMAANVKFLDWWERKNG 140 (140)
T ss_pred HHHHHhhcCCchHHHHHhccchhhhhHhHHHHHHHHHHHhccccchhhHHHHHHHhhcC
Confidence 99999999999999999999999999999999999999999999999999999999984
No 2
>PF05433 Rick_17kDa_Anti: Glycine zipper 2TM domain; InterPro: IPR008816 This domain includes a putative two transmembrane alpha-helical region that contains glycine zipper motifs []. The domain is found in several Rickettsia genus specific 17 kDa surface antigen proteins [].; GO: 0019867 outer membrane
Probab=92.37 E-value=0.17 Score=32.69 Aligned_cols=41 Identities=34% Similarity=0.411 Sum_probs=29.9
Q ss_pred hhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhhhHH
Q 031724 83 GSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQEFA 124 (154)
Q Consensus 83 Ga~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~EvA 124 (154)
|+++||+.-+.+.... .+-.+..++.+.|++.|...|++|+
T Consensus 2 G~~~Ga~~Ga~~G~~i-g~~~g~~~g~~~Ga~~Ga~~G~~ig 42 (42)
T PF05433_consen 2 GALIGAAVGAVAGSQI-GGGNGRTLGAVAGAVAGALIGNQIG 42 (42)
T ss_pred chHHHHHHHHHHHHHh-cCCCCcHHHHHHHHHHHHHHHhhcC
Confidence 4556665555555666 3456778899999999999998873
No 3
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=86.51 E-value=1.8 Score=32.53 Aligned_cols=50 Identities=26% Similarity=0.234 Sum_probs=31.9
Q ss_pred HHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhhhHHHH
Q 031724 73 AREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQEFANH 126 (154)
Q Consensus 73 ~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~EvAnh 126 (154)
.++++.=+++|+++||+.-+ -..++.-|++..-.+|+++|.+.|.-..+.
T Consensus 49 ~~~~~~ga~~GA~~GA~~Ga----~~G~~~~ga~~GAa~Ga~~G~~~g~~~~~~ 98 (118)
T PF13436_consen 49 AENTAGGAAIGAAAGAAIGA----IIGGNGRGAAIGAAAGAAVGAAAGAARGRY 98 (118)
T ss_pred hhhHHHHHHHHHHHHHHHHh----hcCCCccchHHHHHHHHHHHHHhhhhhhhh
Confidence 34555555555555554333 334467778888888888888888766654
No 4
>PF05818 TraT: Enterobacterial TraT complement resistance protein; InterPro: IPR008874 The traT gene is one of the F factor transfer genes and encodes an outer membrane protein which is involved in interactions between Escherichia coli and its surroundings []. The protein plays a role in preventing unproductive conjugation between bacteria carrying like plasmids.; GO: 0046999 regulation of conjugation, 0019867 outer membrane
Probab=86.06 E-value=0.9 Score=38.27 Aligned_cols=52 Identities=25% Similarity=0.376 Sum_probs=38.4
Q ss_pred HhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHH-hhhhhHHhhhhhhhH
Q 031724 71 KSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLS-LAAGAVFGWTFGQEF 123 (154)
Q Consensus 71 K~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls-~l~G~~~G~~~G~Ev 123 (154)
+.++.+..-|+.|++.||+.-++++ .|.-+.-|++++ -++|+++|.+.+.=+
T Consensus 77 ~~~~~~l~~G~gga~~Ga~~G~~~g-~~~~~~~g~~~G~GlaGalig~~ada~v 129 (215)
T PF05818_consen 77 NAAQSALAGGYGGALAGAATGAAIG-AYNSGSAGAAIGAGLAGALIGMIADAMV 129 (215)
T ss_pred hHHHHHhhccchhHHHHhHHhhhhc-cccCCccchhhhhhHHHhHHHHHHhhhc
Confidence 4456666668888888888777777 787777777777 788888888877543
No 5
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=85.08 E-value=1.1 Score=36.46 Aligned_cols=27 Identities=41% Similarity=0.545 Sum_probs=15.7
Q ss_pred hhHHHhhhhhHHhhhhhhhHHHHHHHHhhcchhhhhH
Q 031724 104 GTGLSLAAGAVFGWTFGQEFANHYLQLYRMDTLAAQS 140 (154)
Q Consensus 104 Ga~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~~a~~ 140 (154)
|++..-++|++.|...| |.+|.++.++
T Consensus 62 ~a~~ga~~G~~~G~~~g----------~~~d~q~~~l 88 (219)
T PRK10510 62 GALIGAAAGAALGGGVG----------YYMDVQEAKL 88 (219)
T ss_pred hhhhHhHHHhhhhhhhh----------hhhhhHHHHH
Confidence 55555556666666655 3446666554
No 6
>PRK11280 hypothetical protein; Provisional
Probab=84.16 E-value=1.5 Score=35.98 Aligned_cols=45 Identities=27% Similarity=0.448 Sum_probs=34.5
Q ss_pred hhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhhhHHHH
Q 031724 81 LAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQEFANH 126 (154)
Q Consensus 81 ~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~EvAnh 126 (154)
..|+++||+.-|.+.-...+. .|-.++.++|++.|...|.++.+-
T Consensus 65 ~~Gtv~Gav~Gg~~G~~iGgG-~Gr~~at~~Ga~~G~~~G~~i~~~ 109 (170)
T PRK11280 65 IAGSVLGAVAGGVLGHQFGGG-RGKDVATVAGALGGGYAGNQIQGG 109 (170)
T ss_pred chhHHHHHHHHHHhhhhccCC-CccHHHHHHHHHHHHHHHHHHHHH
Confidence 467788877777666666643 466689999999999999998763
No 7
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=80.11 E-value=2.7 Score=32.02 Aligned_cols=49 Identities=12% Similarity=0.108 Sum_probs=33.7
Q ss_pred hHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhh
Q 031724 72 SAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFG 120 (154)
Q Consensus 72 ~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G 120 (154)
=.|+|...|++|.++=++.+--+.=+-.|+.|=++.+|++|.+++|.+=
T Consensus 39 CfR~slL~Gi~~G~~vG~~~fl~~~~~~~A~nwavgsF~l~s~~~we~C 87 (118)
T PF12597_consen 39 CFRDSLLYGIAGGFGVGGLRFLFTSNPRKAANWAVGSFFLGSLGSWEYC 87 (118)
T ss_pred cHHHHHHHHHHHHHHHHhhhhcccCCCccchhhhhHHHHHHHHHHHHHH
Confidence 3688888887655443333333333556677889999999999999753
No 8
>PF13488 Gly-zipper_Omp: Glycine zipper
Probab=79.70 E-value=3.3 Score=27.07 Aligned_cols=23 Identities=26% Similarity=0.381 Sum_probs=14.8
Q ss_pred cCcchhHHHhhhhhHHhhhhhhh
Q 031724 100 RSLHGTGLSLAAGAVFGWTFGQE 122 (154)
Q Consensus 100 ks~hGa~ls~l~G~~~G~~~G~E 122 (154)
...-|+++.-..|++.|..+|+.
T Consensus 19 ~~~~ga~iGa~vGa~~G~~ig~~ 41 (46)
T PF13488_consen 19 GPGKGAAIGAAVGAAVGAAIGNY 41 (46)
T ss_pred CchhhHHHHHHHHHHHHHHHHHH
Confidence 34567777767777777666654
No 9
>PRK10540 lipoprotein; Provisional
Probab=77.60 E-value=3.1 Score=29.64 Aligned_cols=22 Identities=27% Similarity=0.496 Sum_probs=16.0
Q ss_pred chhHHHhhhhhHHhhhhhhhHH
Q 031724 103 HGTGLSLAAGAVFGWTFGQEFA 124 (154)
Q Consensus 103 hGa~ls~l~G~~~G~~~G~EvA 124 (154)
+|..++.+.|++.|...|+++-
T Consensus 50 ~g~~~g~~~Ga~~G~~~G~~v~ 71 (72)
T PRK10540 50 DGSTLGTLGGAAVGGVIGHQVG 71 (72)
T ss_pred CCcHHHHHHHHHHHHHHhHhhc
Confidence 3555777788888888887763
No 10
>PF13441 Gly-zipper_YMGG: YMGG-like Gly-zipper
Probab=77.06 E-value=2.9 Score=27.82 Aligned_cols=41 Identities=37% Similarity=0.468 Sum_probs=24.4
Q ss_pred hHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhh
Q 031724 72 SAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFG 120 (154)
Q Consensus 72 ~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G 120 (154)
+++.+..=+.+|+++|++.- ..++|++..-..|++.|...|
T Consensus 3 t~~GA~iGA~~GA~iG~~~g--------~~~~GA~iGA~~Ga~~G~~~g 43 (45)
T PF13441_consen 3 TVRGAAIGAAAGAVIGAIIG--------NGGKGAAIGAAAGALAGAAIG 43 (45)
T ss_pred chhHHHHHHHHHHHHHHhhC--------CCcccchhhhhhhhhhhhhhc
Confidence 34444444444555554433 678888877777777776654
No 11
>TIGR03789 pdsO proteobacterial sortase system OmpA family protein. A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein.
Probab=75.52 E-value=2.1 Score=36.10 Aligned_cols=21 Identities=24% Similarity=0.324 Sum_probs=13.6
Q ss_pred HHhhhhhHHhhhhhhhHHHHH
Q 031724 107 LSLAAGAVFGWTFGQEFANHY 127 (154)
Q Consensus 107 ls~l~G~~~G~~~G~EvAnh~ 127 (154)
++.++|+++|...|.++.++=
T Consensus 61 ~G~~~G~~~G~~~g~~~~~~~ 81 (239)
T TIGR03789 61 VGAIIGGITGGLIGQAVNNDE 81 (239)
T ss_pred HHHHHHHHHHHHhhhhccCcH
Confidence 455567777777777666554
No 12
>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional
Probab=75.46 E-value=4 Score=37.50 Aligned_cols=55 Identities=24% Similarity=0.165 Sum_probs=40.0
Q ss_pred HHHHHHHhhhhhhhhhhhhhhhhhh---------ccCcchhHHHhhhhhHHhhhhhhhHHHHHH
Q 031724 74 REAVNFALAGSLIGAVSTAGVAWKY---------SRSLHGTGLSLAAGAVFGWTFGQEFANHYL 128 (154)
Q Consensus 74 Rea~~fa~aGa~vGa~~tagva~kY---------Sks~hGa~ls~l~G~~~G~~~G~EvAnh~l 128 (154)
-||.-+++.|.++|.+--.++++-. .=+|..++++++++.++|..||-==|..+-
T Consensus 574 ~Es~~l~~~GGiiGi~lg~~~~~~~~~~~~~~~~~~~~~~~~~a~~~s~~vGl~~GlyPA~rAa 637 (648)
T PRK10535 574 IEAVLVCLVGGALGITLSLLIAFTLQLFLPGWEIGFSPLALLSAFLCSTVTGILFGWLPARNAA 637 (648)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEeCHHHHHHHHHHHHHHHHHHhHHHHHHHh
Confidence 4888899998888866554443333 337788999999999999999865554443
No 13
>PF02466 Tim17: Tim17/Tim22/Tim23/Pmp24 family; InterPro: IPR003397 The membrane-embedded multi-protein complexes of mitochondria mediate the transport of nuclear-encoded proteins across and into the outer or inner mitochondrial membranes []. The TOM (translocase of the outer mitochondrial membrane) complex consists of cytosol-exposed receptors and a pore-forming core, and mediates the transport of proteins from the cytosol across and into the outer mitochondrial membrane. A novel protein complex in the outer membrane of mitochondria, called the SAM complex (sorting and assembly machinery), is involved in the biogenesis of beta-barrel proteins of the outer membrane. Two translocases of the inner mitochondrial membrane (TIM22 and TIM23 complexes) mediate protein transport at the inner membrane. The TIM23 complex (a presequence translocase) mediates the transport of presequence-containing proteins across and into the inner membrane. Tim23 and Tim17 form part of this complex. Tim23 forms a pore in the inner membrane. The role of Tim17 is not yet fully understood. The TIM22 complex (a twin-pore carrier translocase) catalyses the insertion of multi-spanning proteins that have internal targeting signals into the inner membrane. The TIM22 complex mediates the membrane insertion of multi-spanning inner-membrane proteins that have internal targeting signals, and it uses the membrane potential as an external driving force. The Tim22 subunit of the mitochondrial import inner membrane translocase is included in this family. This family also includes Pmp24, a peroxisomal membrane protein, and NADH ubiquinone dehydrogenase 1 alpha subunit 11. Pmp24 was previously known as Pmp27 [].
Probab=68.27 E-value=6.7 Score=28.13 Aligned_cols=25 Identities=20% Similarity=0.203 Sum_probs=13.1
Q ss_pred hhhhccCcchhHHHhhhhhHHhhhh
Q 031724 95 AWKYSRSLHGTGLSLAAGAVFGWTF 119 (154)
Q Consensus 95 a~kYSks~hGa~ls~l~G~~~G~~~ 119 (154)
.++.+.+|.+++.+-+.+++++.++
T Consensus 97 ~~~~~~g~~~~~~~~~~~a~~~~~~ 121 (128)
T PF02466_consen 97 VLGLRSGPRGMASGAALGAAFAAAV 121 (128)
T ss_pred HHHhccChHHHHHHHHHHHHHHHHH
Confidence 4444555555555555555555443
No 14
>PF11981 DUF3482: Domain of unknown function (DUF3482); InterPro: IPR021871 This presumed domain is functionally uncharacterised. This domain is found in bacteria and eukaryotes. This domain is typically between 289 to 301 amino acids in length. This domain is found associated with PF01926 from PFAM.
Probab=65.31 E-value=6.8 Score=33.79 Aligned_cols=33 Identities=42% Similarity=0.583 Sum_probs=17.4
Q ss_pred hhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhh
Q 031724 83 GSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQ 121 (154)
Q Consensus 83 Ga~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~ 121 (154)
|++-||+.-+||=. --.++|++.|+++|.+.|.
T Consensus 151 GaaaGAa~GagiDl------~tgG~SLG~gaaiGal~Gg 183 (292)
T PF11981_consen 151 GAAAGAAAGAGIDL------ATGGLSLGAGAAIGALAGG 183 (292)
T ss_pred hHHHHHHHhHHHHH------HhhhhhhHHHHHHHHHHHH
Confidence 66666665555532 2234555555555555554
No 15
>KOG2715 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=64.95 E-value=3.9 Score=34.78 Aligned_cols=42 Identities=33% Similarity=0.384 Sum_probs=36.6
Q ss_pred hhhhhhcCCCCCCCCCchhhHHhhhcCCCC-chhHHhHHHHHH
Q 031724 37 NYTRFTKREKPLPSWSPSDVDAFIATDPVH-GPALKSAREAVN 78 (154)
Q Consensus 37 ~y~~~~~RdkPLP~Ws~sDVeeFIaSDPVy-GP~LK~~Rea~~ 78 (154)
+.+++..|++-||+=+|.+=-=||.-||-| ||.|.-+|-...
T Consensus 46 Fl~rl~q~~~~l~sdrDetGAYlIDRDP~~FgpvLNylRhgkl 88 (210)
T KOG2715|consen 46 FLYRLCQREKDLPSDRDETGAYLIDRDPFYFGPVLNYLRHGKL 88 (210)
T ss_pred HHHHHHhcccCCCCCccccCceEeccCcchHHHHHHHHhcchh
Confidence 457889999999998888888899999986 999999996654
No 16
>PF11981 DUF3482: Domain of unknown function (DUF3482); InterPro: IPR021871 This presumed domain is functionally uncharacterised. This domain is found in bacteria and eukaryotes. This domain is typically between 289 to 301 amino acids in length. This domain is found associated with PF01926 from PFAM.
Probab=63.38 E-value=7.4 Score=33.54 Aligned_cols=49 Identities=31% Similarity=0.336 Sum_probs=29.1
Q ss_pred cCCCCchhHHhHHHH-HHHHhhhhhhhh---hhhhhhhhhhccCcchhHHHhhhhhHHhhhh
Q 031724 62 TDPVHGPALKSAREA-VNFALAGSLIGA---VSTAGVAWKYSRSLHGTGLSLAAGAVFGWTF 119 (154)
Q Consensus 62 SDPVyGP~LK~~Rea-~~fa~aGa~vGa---~~tagva~kYSks~hGa~ls~l~G~~~G~~~ 119 (154)
.||.--=++|.+==. .+=+.+|+++|+ +.|+|.++ +++.++||+.|.++
T Consensus 133 ~DLF~~e~~k~~Gl~~~~GaaaGAa~GagiDl~tgG~SL---------G~gaaiGal~Gg~~ 185 (292)
T PF11981_consen 133 QDLFSPETLKAYGLRRGQGAAAGAAAGAGIDLATGGLSL---------GAGAAIGALAGGAW 185 (292)
T ss_pred cCCCCHHHHHHhhhhhhhhHHHHHHHhHHHHHHhhhhhh---------HHHHHHHHHHHHHH
Confidence 355444445543211 125678888888 47888776 45666666666654
No 17
>PF13436 Gly-zipper_OmpA: Glycine-zipper containing OmpA-like membrane domain
Probab=62.50 E-value=11 Score=28.20 Aligned_cols=49 Identities=29% Similarity=0.223 Sum_probs=31.2
Q ss_pred HHhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhhh
Q 031724 70 LKSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQE 122 (154)
Q Consensus 70 LK~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~E 122 (154)
-.++.-++.=+.+|+++|++.-. .-.-...|++...+.|++.|..-+..
T Consensus 50 ~~~~~ga~~GA~~GA~~Ga~~G~----~~~ga~~GAa~Ga~~G~~~g~~~~~~ 98 (118)
T PF13436_consen 50 ENTAGGAAIGAAAGAAIGAIIGG----NGRGAAIGAAAGAAVGAAAGAARGRY 98 (118)
T ss_pred hhHHHHHHHHHHHHHHHHhhcCC----CccchHHHHHHHHHHHHHhhhhhhhh
Confidence 45555566666677777776554 22234567777777777777776665
No 18
>PF09512 ThiW: Thiamine-precursor transporter protein (ThiW); InterPro: IPR012652 Levels of thiamine pyrophosphate (TPP) or thiamine regulate transcription or translation of a number of thiamine biosynthesis, salvage, or transport genes in a wide range of prokaryotes. The mechanism involves direct binding, with no protein involved, to a structural element called THI found in the untranslated upstream region of thiamine metabolism gene operons. This element is called a riboswitch and is seen also for other metabolites such as FMN and glycine. This protein family consists of proteins identified in operons controlled by the THI riboswitch and designated ThiW. The hydrophobic nature of this protein and reconstructed metabolic background suggests that this protein acts in transport of a thiazole precursor of thiamine.
Probab=62.10 E-value=13 Score=30.17 Aligned_cols=47 Identities=26% Similarity=0.473 Sum_probs=32.6
Q ss_pred HHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhh-hHHhhhhhhhHHH
Q 031724 78 NFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAG-AVFGWTFGQEFAN 125 (154)
Q Consensus 78 ~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G-~~~G~~~G~EvAn 125 (154)
-+|+.||.+||. .+|+.+|++|++..+.+.=..| ++.|....--+|.
T Consensus 66 ~lAfPGsm~GA~-laGllyr~~~k~~~a~lGEviGTGiIGal~sypva~ 113 (150)
T PF09512_consen 66 LLAFPGSMFGAL-LAGLLYRKTKKLWAAALGEVIGTGIIGALLSYPVAK 113 (150)
T ss_pred HHHhccchHHHH-HHHHHHHHhCcchHHHHHHHHhhHHHHHHHHHHHHH
Confidence 478899999986 6889999999988877664444 3444444333333
No 19
>COG4732 Predicted membrane protein [Function unknown]
Probab=57.64 E-value=4.3 Score=33.87 Aligned_cols=37 Identities=35% Similarity=0.580 Sum_probs=26.8
Q ss_pred HHhhhhhhhhhhhhhhhhhhccCcchhH-HHhhhhhHHh
Q 031724 79 FALAGSLIGAVSTAGVAWKYSRSLHGTG-LSLAAGAVFG 116 (154)
Q Consensus 79 fa~aGa~vGa~~tagva~kYSks~hGa~-ls~l~G~~~G 116 (154)
|++.|+..||+- |+.-+||.|++|=+. +=.|+=++.|
T Consensus 76 fA~pGsi~GaLl-A~~fyrygr~~~~aalgE~LGTgvIG 113 (177)
T COG4732 76 FAFPGSIPGALL-AGAFYRYGRKFHYAALGEPLGTGVIG 113 (177)
T ss_pred eecCCCchHHHH-HHHHHHhcccccchhhccccccchhh
Confidence 678899999986 899999999999333 3333334444
No 20
>PF04304 DUF454: Protein of unknown function (DUF454); InterPro: IPR007401 This is a predicted membrane protein.
Probab=55.89 E-value=19 Score=23.93 Aligned_cols=20 Identities=15% Similarity=0.413 Sum_probs=16.0
Q ss_pred HHhhhcCCCCchhHHhHHHH
Q 031724 57 DAFIATDPVHGPALKSAREA 76 (154)
Q Consensus 57 eeFIaSDPVyGP~LK~~Rea 76 (154)
+..+-+.|.|||.++.-+|-
T Consensus 2 ~~Wl~~h~~~g~~I~~w~~~ 21 (71)
T PF04304_consen 2 HRWLLNHRLFGPYIRNWEEH 21 (71)
T ss_pred hHHHHcCchhHHHHHHHHHC
Confidence 45667899999999987763
No 21
>PF08164 TRAUB: Apoptosis-antagonizing transcription factor, C-terminal; InterPro: IPR012617 This C-terminal domain is found in traube proteins [].; GO: 0005634 nucleus
Probab=55.16 E-value=8.2 Score=27.96 Aligned_cols=30 Identities=23% Similarity=0.576 Sum_probs=20.8
Q ss_pred hhhhhhhhhhhcCCCCCCCCCchhhHHhhhc
Q 031724 32 FSFLENYTRFTKREKPLPSWSPSDVDAFIAT 62 (154)
Q Consensus 32 Fsfl~~y~~~~~RdkPLP~Ws~sDVeeFIaS 62 (154)
|.-.+..-.|.-. .+.+.|++..+|||++|
T Consensus 52 Y~VheKL~NFmaP-~~~~~w~~~~~delf~s 81 (83)
T PF08164_consen 52 YHVHEKLVNFMAP-EDRPTWSDEQIDELFAS 81 (83)
T ss_pred eeeHHHHhhhcCC-CCCCCCCHHHHHHHHHH
Confidence 3334444455544 56788999999999987
No 22
>PF11808 DUF3329: Domain of unknown function (DUF3329); InterPro: IPR021766 This family of proteins are functionally uncharacterised. This family is only found in bacteria. ; GO: 0004673 protein histidine kinase activity
Probab=54.24 E-value=45 Score=23.69 Aligned_cols=13 Identities=38% Similarity=0.682 Sum_probs=9.8
Q ss_pred HHHHHHHHhhcch
Q 031724 123 FANHYLQLYRMDT 135 (154)
Q Consensus 123 vAnh~lqLYk~d~ 135 (154)
++-|.+||||++.
T Consensus 41 l~wh~~~l~rL~~ 53 (90)
T PF11808_consen 41 LFWHLYQLYRLER 53 (90)
T ss_pred HHHHHHHHHHHHH
Confidence 3469999998764
No 23
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=54.05 E-value=29 Score=28.72 Aligned_cols=60 Identities=25% Similarity=0.547 Sum_probs=39.2
Q ss_pred HHhHHHHHHHHhhhhhhhhhhhhhhhhhhc--------cCcch------hHHHhhhhhHHhhhhhhhHHHHHHHHh
Q 031724 70 LKSAREAVNFALAGSLIGAVSTAGVAWKYS--------RSLHG------TGLSLAAGAVFGWTFGQEFANHYLQLY 131 (154)
Q Consensus 70 LK~~Rea~~fa~aGa~vGa~~tagva~kYS--------ks~hG------a~ls~l~G~~~G~~~G~EvAnh~lqLY 131 (154)
||+-| +.+.++-+++.++..+++.+-|= +..-| .++++++.+++||.+|.=+.|-...|-
T Consensus 33 LRk~r--rr~~~~~si~t~~~g~~~g~~yl~~~~~D~~~~I~GlDP~~~~g~~t~a~g~lG~L~GP~~G~~vf~l~ 106 (173)
T PF08566_consen 33 LRKSR--RRINLVSSIPTGLLGSSAGWAYLSTIEIDPTQQIMGLDPFMVYGLATLACGALGWLVGPSLGNQVFRLL 106 (173)
T ss_pred HHHHh--hHHHHHhHHHHHHHHHHHHHHHHhhccccccccccCcCHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence 44443 45556656665555555555552 22212 478899999999999999999776664
No 24
>TIGR01946 rnfD electron transport complex, RnfABCDGE type, D subunit. The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation. A closely related complex in E. coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized. This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This model describes the A subunit.
Probab=53.55 E-value=18 Score=31.88 Aligned_cols=50 Identities=26% Similarity=0.380 Sum_probs=36.6
Q ss_pred hhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHH
Q 031724 59 FIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVF 115 (154)
Q Consensus 59 FIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~ 115 (154)
|||+|||-.|.-++-|= +.|..+|.+..-- --++..|-|+..|+|..-.+
T Consensus 263 FmaTDpvTsp~t~~Gk~-----iyG~~~G~lt~~I--R~~g~~PeGv~fAILlmN~~ 312 (327)
T TIGR01946 263 FIATDPVTAPTTNKGRI-----IFGAGIGVLVYLI--RTFGGYPDGVAFAILLMNLC 312 (327)
T ss_pred HHhCCCCCCCCCccHHH-----HHHHHHHHHHHHH--HhhCCCccHHHHHHHHHhhh
Confidence 89999999999887663 5666666554322 24578899999999876554
No 25
>PF06738 DUF1212: Protein of unknown function (DUF1212); InterPro: IPR010619 This entry represents a predicted domain found within a number of hypothetical proteins of unknown function found in eukaryotes, bacteria and archaea. Some of these sequences are predicted to be membrane proteins.
Probab=52.92 E-value=33 Score=26.17 Aligned_cols=72 Identities=14% Similarity=0.094 Sum_probs=40.3
Q ss_pred hhhhhhhhcCCCCCCCCCchhhHHhhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhH
Q 031724 35 LENYTRFTKREKPLPSWSPSDVDAFIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAV 114 (154)
Q Consensus 35 l~~y~~~~~RdkPLP~Ws~sDVeeFIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~ 114 (154)
+++.++-+.+++.-|.=-...+++-.+.-|.|.|-++.+= -+++.++++.=+.-++...+.+++.|.+
T Consensus 70 v~~l~~~~~~~~~~~~ea~~~L~~I~~~~~~y~~~~~~l~------------~~l~~~~fa~lfgg~~~~~~~a~i~g~~ 137 (193)
T PF06738_consen 70 VNRLSRRIVAGQLSLEEAIERLDEIDREPPRYPPWLVILA------------AGLASAAFALLFGGSWIDMIVAFILGLL 137 (193)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHhhCCCCCCHHHHHHH------------HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3344444444333222223344555556668998766431 2233445666677778888888888777
Q ss_pred Hhhh
Q 031724 115 FGWT 118 (154)
Q Consensus 115 ~G~~ 118 (154)
.+++
T Consensus 138 ~~~~ 141 (193)
T PF06738_consen 138 VGLL 141 (193)
T ss_pred HHHH
Confidence 6654
No 26
>PRK00816 rnfD electron transport complex protein RnfD; Reviewed
Probab=52.58 E-value=18 Score=32.33 Aligned_cols=50 Identities=26% Similarity=0.440 Sum_probs=36.1
Q ss_pred hhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHH
Q 031724 59 FIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVF 115 (154)
Q Consensus 59 FIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~ 115 (154)
|||+|||-.|+-++-|= +.|..+|.+.. +---|+.-|-|+..|+|..-.+
T Consensus 284 FmATDpvTsP~t~~Gk~-----ifG~~~G~lt~--lIR~~g~yPeGv~fAILlmN~~ 333 (350)
T PRK00816 284 FIATDPVTASTTPRGRL-----IFGALIGLLVY--LIRSFGGYPDGVAFAVLLANIC 333 (350)
T ss_pred HHhCCCCCCCCCccHHH-----HHHHHHHHHHH--HHHhcCCCccHHHHHHHHHhhh
Confidence 89999999999877662 45666665433 2234578899999999876554
No 27
>PF08560 DUF1757: Protein of unknown function (DUF1757); InterPro: IPR013869 This entry shows proteins that are about 150 amino acids in length and have no known function.
Probab=51.98 E-value=16 Score=29.10 Aligned_cols=16 Identities=31% Similarity=0.507 Sum_probs=8.6
Q ss_pred Hhhhhhhhhhhhhhhh
Q 031724 80 ALAGSLIGAVSTAGVA 95 (154)
Q Consensus 80 a~aGa~vGa~~tagva 95 (154)
+-+|+++|++.++-+.
T Consensus 35 ~q~gs~lGsl~~~Pi~ 50 (155)
T PF08560_consen 35 AQAGSFLGSLIVGPIY 50 (155)
T ss_pred HHHHHHHHHHHhHHHH
Confidence 3456666666544443
No 28
>PLN02975 complex I subunit
Probab=51.92 E-value=24 Score=26.84 Aligned_cols=60 Identities=17% Similarity=0.178 Sum_probs=34.5
Q ss_pred hhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhh
Q 031724 59 FIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQ 121 (154)
Q Consensus 59 FIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~ 121 (154)
-|.+||-...+++-+|-+= +++.+ .+.|++-. +.|--...|++.+-+.-.++++|..-|-
T Consensus 12 lId~dP~f~rVv~yfr~sD-Y~~~a-~~ta~s~~-~~~~~~~~~~~~~~~mr~ag~iG~~gGf 71 (97)
T PLN02975 12 VVDRNPTFTKVVGNFSALD-YLRFA-TITGVSVT-VGYLSGIKPGIRGPSMVTGGLIGLMGGF 71 (97)
T ss_pred ccCCCCChHHHHHhCCHHH-HHHHH-HHHHHHHH-HHHHHccCccccchHHHHHHHHHHhhhH
Confidence 5899999999988888763 22222 12222211 1122223577776666777777766554
No 29
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) [, ]. It is also found in NodP nodulation protein P from Rhizobium meliloti (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=51.59 E-value=8.2 Score=27.76 Aligned_cols=19 Identities=32% Similarity=0.688 Sum_probs=13.6
Q ss_pred CCCCCCCCCchhhHHhhhc
Q 031724 44 REKPLPSWSPSDVDAFIAT 62 (154)
Q Consensus 44 RdkPLP~Ws~sDVeeFIaS 62 (154)
+-.||--||++||-+||..
T Consensus 132 ~~~Pi~~wt~~dV~~yi~~ 150 (174)
T PF01507_consen 132 RVYPIADWTEEDVWDYIKA 150 (174)
T ss_dssp EE-TTTT--HHHHHHHHHH
T ss_pred EEEehhhCCHHHHHHHHHH
Confidence 3459999999999999975
No 30
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=49.83 E-value=12 Score=25.39 Aligned_cols=14 Identities=43% Similarity=0.532 Sum_probs=7.4
Q ss_pred HHhhhhhHHhhhhh
Q 031724 107 LSLAAGAVFGWTFG 120 (154)
Q Consensus 107 ls~l~G~~~G~~~G 120 (154)
+++++|+++|.+.|
T Consensus 3 ~g~l~Ga~~Ga~~g 16 (74)
T PF12732_consen 3 LGFLAGAAAGAAAG 16 (74)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555555555544
No 31
>PF09548 Spore_III_AB: Stage III sporulation protein AB (spore_III_AB); InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=49.47 E-value=29 Score=26.94 Aligned_cols=35 Identities=20% Similarity=0.290 Sum_probs=31.1
Q ss_pred chhHHHhhhhhHHhhhhhhhHHHHHHHHhhcchhh
Q 031724 103 HGTGLSLAAGAVFGWTFGQEFANHYLQLYRMDTLA 137 (154)
Q Consensus 103 hGa~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~~ 137 (154)
-|++|=+++++.+|+..+.+..++.-||..+..+-
T Consensus 3 iG~~LIi~a~~~~G~~~a~~~~~R~~~L~~l~~~L 37 (170)
T PF09548_consen 3 IGAILIIAASSGIGFLYARRLKRRVRQLRELRRAL 37 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37889999999999999999999999999876653
No 32
>PF10785 NADH-u_ox-rdase: NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit; InterPro: IPR019721 This domain is found in the N-terminal region of NADH-ubiquinone oxidoreductase 21kDa subunits from plants and fungi [].
Probab=49.23 E-value=30 Score=24.99 Aligned_cols=61 Identities=18% Similarity=0.243 Sum_probs=36.2
Q ss_pred hhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchh---HHHhhhhhHHhhhhh
Q 031724 59 FIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGT---GLSLAAGAVFGWTFG 120 (154)
Q Consensus 59 FIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa---~ls~l~G~~~G~~~G 120 (154)
-|.+||-..=+++-+|-+ .+++.+++-.+..+++..+-.....|.. .-+...++++|.+-|
T Consensus 6 vId~dP~f~rVv~~~R~s-Dy~~~a~~ta~~p~~~~~~~~~~~~~~~~~~~~~~~~a~~ig~~gG 69 (86)
T PF10785_consen 6 VIDSDPHFKRVVRYFRPS-DYAIWAGATAASPPLGYYMERSAPSRVGRGGGPAMRLAGAIGFFGG 69 (86)
T ss_pred ccCCCCCHHHHHHhCCHH-HHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHH
Confidence 488999777777766644 4555555555555666666666665533 344444445554444
No 33
>PRK13731 conjugal transfer surface exclusion protein TraT; Provisional
Probab=48.12 E-value=26 Score=30.40 Aligned_cols=45 Identities=24% Similarity=0.330 Sum_probs=27.2
Q ss_pred HHHHhhhhhhhhhhhhhhhhhhccCcchhHHH-hhhhhHHhhhhhhh
Q 031724 77 VNFALAGSLIGAVSTAGVAWKYSRSLHGTGLS-LAAGAVFGWTFGQE 122 (154)
Q Consensus 77 ~~fa~aGa~vGa~~tagva~kYSks~hGa~ls-~l~G~~~G~~~G~E 122 (154)
..=|+.|++.||+.-+++ --|.-+.-|.++. =|+|+++|.+.+.=
T Consensus 113 L~~Gy~ga~~Gaa~G~~~-~~y~~~~ag~~~G~Glagglig~~ada~ 158 (243)
T PRK13731 113 LNRGYEGAAVGAALGAGI-TGYNSNSAGATLGVGLAAGLVGMAADAM 158 (243)
T ss_pred HhhchhhHHHHHHhhhhh-hcccCCcchhhHHHHHHHHHHHHHhhhh
Confidence 334666777776666666 4565555554444 56778888776643
No 34
>PRK12866 YciI-like protein; Reviewed
Probab=47.70 E-value=9.4 Score=27.61 Aligned_cols=15 Identities=40% Similarity=0.693 Sum_probs=13.1
Q ss_pred CchhhHHhhhcCCCC
Q 031724 52 SPSDVDAFIATDPVH 66 (154)
Q Consensus 52 s~sDVeeFIaSDPVy 66 (154)
|.++|++||+.||-+
T Consensus 58 s~~e~~~~l~~DPf~ 72 (97)
T PRK12866 58 SPAAAEAFARADPYV 72 (97)
T ss_pred CHHHHHHHHHcCChh
Confidence 556999999999976
No 35
>KOG4608 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.05 E-value=10 Score=33.42 Aligned_cols=53 Identities=28% Similarity=0.374 Sum_probs=32.4
Q ss_pred HHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhhhHHHHHHHHhhcchhhh
Q 031724 78 NFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQEFANHYLQLYRMDTLAA 138 (154)
Q Consensus 78 ~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~~a 138 (154)
.|=.+||+.|+|.+--|. +.|-+-+-+.|++.|.|+|- --|++|+|-..++.-
T Consensus 163 ~fvaaga~tgsvF~~~~g------L~g~aa~vilG~~lG~tv~~--~l~l~q~a~~k~vnE 215 (270)
T KOG4608|consen 163 HFVAAGAVTGSVFRINVG------LRGLAAGVILGALLGTTVGG--LLMLFQKASGKTVNE 215 (270)
T ss_pred hhhccccceeeeEEeehh------hHHHhhcceeehhhcchHHH--HHHHHHHHhCCcHHH
Confidence 345578888887765544 33444444445555555543 348999998887754
No 36
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=46.27 E-value=9 Score=32.10 Aligned_cols=27 Identities=33% Similarity=0.437 Sum_probs=22.5
Q ss_pred HHhhhcCCCC--chhHHhHHHHHHHHhhh
Q 031724 57 DAFIATDPVH--GPALKSAREAVNFALAG 83 (154)
Q Consensus 57 eeFIaSDPVy--GP~LK~~Rea~~fa~aG 83 (154)
||||..||+- ||..+.++||.+=...|
T Consensus 18 ~~~~~~~~~~~~~p~~~~~~~a~~~~~~~ 46 (387)
T PRK09331 18 EEFINLDPIQRGGILTPEARKALIEYGDG 46 (387)
T ss_pred ccccccChhhcCCCCCHHHHHHHHHHHhc
Confidence 7999999984 99999999998755444
No 37
>PF13495 Phage_int_SAM_4: Phage integrase, N-terminal SAM-like domain; PDB: 2A3V_A.
Probab=46.20 E-value=9.7 Score=24.79 Aligned_cols=24 Identities=21% Similarity=0.515 Sum_probs=13.7
Q ss_pred CCCCCCCCchhhHHhhhc---CCCCch
Q 031724 45 EKPLPSWSPSDVDAFIAT---DPVHGP 68 (154)
Q Consensus 45 dkPLP~Ws~sDVeeFIaS---DPVyGP 68 (154)
++|+..++..||+.|+.. +.=+.|
T Consensus 35 ~~~~~~it~~~i~~y~~~l~~~~~~s~ 61 (85)
T PF13495_consen 35 NKPPDEITPEDIEQYLNYLQNERGLSP 61 (85)
T ss_dssp S--GGG--HHHHHHHHHHHHTTT---H
T ss_pred cCccchhHHHHHHHHHHHHHHhcCCCH
Confidence 568888999999999975 444444
No 38
>PRK11370 YciI-like protein; Reviewed
Probab=46.10 E-value=10 Score=26.94 Aligned_cols=15 Identities=27% Similarity=0.346 Sum_probs=12.7
Q ss_pred CchhhHHhhhcCCCC
Q 031724 52 SPSDVDAFIATDPVH 66 (154)
Q Consensus 52 s~sDVeeFIaSDPVy 66 (154)
|.++|++|+++||-+
T Consensus 67 s~~~a~~~~~~DPy~ 81 (99)
T PRK11370 67 SLEAAQAWADADPYV 81 (99)
T ss_pred CHHHHHHHHHCCchh
Confidence 556899999999965
No 39
>PRK12864 YciI-like protein; Reviewed
Probab=44.82 E-value=12 Score=26.36 Aligned_cols=15 Identities=27% Similarity=0.448 Sum_probs=13.2
Q ss_pred CchhhHHhhhcCCCC
Q 031724 52 SPSDVDAFIATDPVH 66 (154)
Q Consensus 52 s~sDVeeFIaSDPVy 66 (154)
|.++|++|++.||.+
T Consensus 58 s~eea~~~~~~DPy~ 72 (89)
T PRK12864 58 DEETVRQLIEADPYW 72 (89)
T ss_pred CHHHHHHHHHcCCch
Confidence 567999999999976
No 40
>COG2035 Predicted membrane protein [Function unknown]
Probab=43.97 E-value=40 Score=29.75 Aligned_cols=39 Identities=31% Similarity=0.121 Sum_probs=34.5
Q ss_pred ccCcchhHHHhhhhhHHhhhhhhhHHHHHHHHhhcchhh
Q 031724 99 SRSLHGTGLSLAAGAVFGWTFGQEFANHYLQLYRMDTLA 137 (154)
Q Consensus 99 Sks~hGa~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~~ 137 (154)
|..+-++++.|+.|++.|...=.-+-|-+|+.||-.|+.
T Consensus 186 s~~~l~~l~~f~~G~~~Gll~fskvi~y~L~~h~~~t~~ 224 (276)
T COG2035 186 SFFILGTLLPFAIGAGAGLLTFSKVISYLLRNHREITYA 224 (276)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 566779999999999999999999999999999987754
No 41
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=42.86 E-value=11 Score=23.00 Aligned_cols=22 Identities=23% Similarity=0.564 Sum_probs=17.8
Q ss_pred CCCchhhHHhhhcCCCCchhHH
Q 031724 50 SWSPSDVDAFIATDPVHGPALK 71 (154)
Q Consensus 50 ~Ws~sDVeeFIaSDPVyGP~LK 71 (154)
.||++|+.+|+.+=.|--|+-.
T Consensus 3 tWs~~~L~~wL~~~gi~~~~~~ 24 (38)
T PF10281_consen 3 TWSDSDLKSWLKSHGIPVPKSA 24 (38)
T ss_pred CCCHHHHHHHHHHcCCCCCCCC
Confidence 6999999999999777666543
No 42
>COG0577 SalY ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]
Probab=42.80 E-value=67 Score=24.66 Aligned_cols=50 Identities=24% Similarity=0.243 Sum_probs=35.8
Q ss_pred HhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcc----------------hhHHHhhhhhHHhhhhh
Q 031724 71 KSAREAVNFALAGSLIGAVSTAGVAWKYSRSLH----------------GTGLSLAAGAVFGWTFG 120 (154)
Q Consensus 71 K~~Rea~~fa~aGa~vGa~~tagva~kYSks~h----------------Ga~ls~l~G~~~G~~~G 120 (154)
.-..|+.-.++.|.++|.+..-++++-...... ..++++++..+++...|
T Consensus 335 ~~~~e~~~~~~~g~~~g~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~ 400 (419)
T COG0577 335 QFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIVALLVGVIAG 400 (419)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcCHHHHHHHHHHHHHHHHHHH
Confidence 345788899999999998887555555444432 56677777777777777
No 43
>PRK05349 Na(+)-translocating NADH-quinone reductase subunit B; Provisional
Probab=42.79 E-value=29 Score=31.89 Aligned_cols=52 Identities=25% Similarity=0.355 Sum_probs=36.7
Q ss_pred hhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhc-cCcchhHHHhhhhhHHhh
Q 031724 59 FIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYS-RSLHGTGLSLAAGAVFGW 117 (154)
Q Consensus 59 FIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYS-ks~hGa~ls~l~G~~~G~ 117 (154)
|||+|||-.|+-+.-|= +.|..+|.... +-.-|+ ..|-|+..|+|..-++-=
T Consensus 333 FMATDpVTSP~T~~Gk~-----IyGi~iG~lt~--iIR~~g~~yPEGV~fAILlmN~~~P 385 (405)
T PRK05349 333 FMATDPVSASFTNKGKW-----IYGALIGFMTV--LIRVVNPAYPEGMMLAILFANLFAP 385 (405)
T ss_pred HHhCCCCCCCCCccHHH-----HHHHHHHHHHh--hHhhcCCCCchHHHHHHHHHHhhHH
Confidence 89999999999887663 45666665432 122345 688999999998776653
No 44
>PF08439 Peptidase_M3_N: Oligopeptidase F; InterPro: IPR013647 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain is found towards the N terminus of metallopeptidases belonging to MEROPS peptidase subfamily M3B (oligopeptidase F, clan MA). An example protein is Lactococcus lactisPepF []. The function of this N-terminal domain is unknown.; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2QR4_B 3CE2_A.
Probab=42.47 E-value=14 Score=24.39 Aligned_cols=27 Identities=19% Similarity=0.242 Sum_probs=20.3
Q ss_pred CchhhHHhhhcCC---CCchhHHhHHHHHH
Q 031724 52 SPSDVDAFIATDP---VHGPALKSAREAVN 78 (154)
Q Consensus 52 s~sDVeeFIaSDP---VyGP~LK~~Rea~~ 78 (154)
++.+++++|++|| .|-+-|+.+|+-++
T Consensus 6 ~e~~l~~~~~~~~~l~~y~~~l~~i~r~k~ 35 (70)
T PF08439_consen 6 PEEKLESLIKEDPELKEYRFYLEEIRRYKK 35 (70)
T ss_dssp -HHHHHHHHHH-CCCGGGHHHHHHHHGGGG
T ss_pred CHHHHHHHHhcCccHHHHHHHHHHHHHhCC
Confidence 4678999999888 88888888876543
No 45
>PF09564 RE_NgoBV: NgoBV restriction endonuclease; InterPro: IPR019064 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the restriction endonuclease NgoBV, which recognises the sequence GGNNCC, but whose cleavage site is unknown.
Probab=42.07 E-value=13 Score=32.46 Aligned_cols=25 Identities=20% Similarity=0.691 Sum_probs=21.7
Q ss_pred HHhhhhhhhhhhhhhhcCCCCCCCCCc
Q 031724 27 FWGERFSFLENYTRFTKREKPLPSWSP 53 (154)
Q Consensus 27 ~W~e~Fsfl~~y~~~~~RdkPLP~Ws~ 53 (154)
-|.++| ..+|++.++++-.+|+|++
T Consensus 211 ~W~~~F--~~~yk~~y~~~~~~p~w~~ 235 (240)
T PF09564_consen 211 LWKNTF--KRSYKKHYGVDIDIPRWDE 235 (240)
T ss_pred HHHHHH--HHHHHHhcCCccCCccHHh
Confidence 477765 6899999999999999986
No 46
>TIGR01937 nqrB NADH:ubiquinone oxidoreductase, Na(+)-translocating, B subunit. This model represents the NqrB subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria. This oxidoreductase complex functions primarily as a sodium ion pump.
Probab=41.87 E-value=31 Score=31.81 Aligned_cols=51 Identities=29% Similarity=0.447 Sum_probs=36.7
Q ss_pred HhhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhh-hc-cCcchhHHHhhhhhHHh
Q 031724 58 AFIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWK-YS-RSLHGTGLSLAAGAVFG 116 (154)
Q Consensus 58 eFIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~k-YS-ks~hGa~ls~l~G~~~G 116 (154)
=|||+|||-.|.-++-|= +.|..+|.+. +..| |+ ..|-|+..|+|..-+|-
T Consensus 346 fFmATDpVTsP~T~~Gk~-----IyG~~~G~lt---~lIR~~g~~yPEGV~fAILlmN~~~ 398 (413)
T TIGR01937 346 VFMATDPVSSSFTKKGKW-----IYGAFIGFMA---VLIRVVNPAYPEGMMLAILLANVFA 398 (413)
T ss_pred HHHhCCCCCCCCCccHHH-----HHHHHHHHHH---hhHhhcCCCCchHHHHHHHHHHhhh
Confidence 389999999999887663 4566666543 2233 45 68899999999877664
No 47
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=41.86 E-value=21 Score=23.18 Aligned_cols=15 Identities=27% Similarity=0.751 Sum_probs=11.3
Q ss_pred HHHhhhhhHHhhhhh
Q 031724 106 GLSLAAGAVFGWTFG 120 (154)
Q Consensus 106 ~ls~l~G~~~G~~~G 120 (154)
+++|+.|+++||.+.
T Consensus 25 l~~f~~G~llg~l~~ 39 (68)
T PF06305_consen 25 LIAFLLGALLGWLLS 39 (68)
T ss_pred HHHHHHHHHHHHHHH
Confidence 567888888888665
No 48
>smart00441 FF Contains two conserved F residues. A novel motif that often accompanies WW domains. Often contains two conserved Phe (F) residues.
Probab=41.79 E-value=28 Score=21.66 Aligned_cols=38 Identities=24% Similarity=0.298 Sum_probs=23.8
Q ss_pred hhhhhcCCCCC-CCCCchhhHHhhhcCCCCchhHHhHHHH
Q 031724 38 YTRFTKREKPL-PSWSPSDVDAFIATDPVHGPALKSAREA 76 (154)
Q Consensus 38 y~~~~~RdkPL-P~Ws~sDVeeFIaSDPVyGP~LK~~Rea 76 (154)
|.+.+..-+-+ |.++=++|...|..||-|- .|...++.
T Consensus 7 F~~LL~e~~~~~~~~~W~~~~~~~~~d~ry~-~l~~~~~r 45 (55)
T smart00441 7 FKELLKEHEVITPDTTWSEARKKLKNDPRYK-ALLSESER 45 (55)
T ss_pred HHHHHHhCCCCCCCCcHHHHHHHHhcChHHH-HhcChHHH
Confidence 34444433334 6666678889999999995 44444433
No 49
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=40.87 E-value=19 Score=27.20 Aligned_cols=16 Identities=25% Similarity=0.615 Sum_probs=11.1
Q ss_pred hHHHhhhhhHHhhhhh
Q 031724 105 TGLSLAAGAVFGWTFG 120 (154)
Q Consensus 105 a~ls~l~G~~~G~~~G 120 (154)
++++|++|.|+|++++
T Consensus 2 ~~i~lvvG~iiG~~~~ 17 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIG 17 (128)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 4667777777777665
No 50
>PRK12865 YciI-like protein; Reviewed
Probab=39.93 E-value=15 Score=25.99 Aligned_cols=15 Identities=20% Similarity=0.350 Sum_probs=13.2
Q ss_pred CchhhHHhhhcCCCC
Q 031724 52 SPSDVDAFIATDPVH 66 (154)
Q Consensus 52 s~sDVeeFIaSDPVy 66 (154)
|.++|++|++.||-+
T Consensus 61 s~e~a~~~~~~DP~~ 75 (97)
T PRK12865 61 TKEAAKALADADPYA 75 (97)
T ss_pred CHHHHHHHHHcCCch
Confidence 567999999999977
No 51
>PRK10527 hypothetical protein; Provisional
Probab=39.50 E-value=44 Score=25.83 Aligned_cols=25 Identities=16% Similarity=0.221 Sum_probs=21.2
Q ss_pred CchhhHHhhhcCCCCchhHHhHHHH
Q 031724 52 SPSDVDAFIATDPVHGPALKSAREA 76 (154)
Q Consensus 52 s~sDVeeFIaSDPVyGP~LK~~Rea 76 (154)
|+.-.+..+-+.|.|||.++.-||-
T Consensus 42 sSpR~~~WL~~h~~fGp~i~~w~~~ 66 (125)
T PRK10527 42 SSPRFHAWLLYRSWFGSYLRHWQQH 66 (125)
T ss_pred CCHHHHHHHHcCchhhHHHHHHHHC
Confidence 4566788999999999999987764
No 52
>PRK12863 YciI-like protein; Reviewed
Probab=39.23 E-value=15 Score=25.81 Aligned_cols=15 Identities=40% Similarity=0.625 Sum_probs=13.2
Q ss_pred CchhhHHhhhcCCCC
Q 031724 52 SPSDVDAFIATDPVH 66 (154)
Q Consensus 52 s~sDVeeFIaSDPVy 66 (154)
|.+++++|++.||-+
T Consensus 60 ~~eea~~~~~~DP~~ 74 (94)
T PRK12863 60 SRAAAEAFAAADPFA 74 (94)
T ss_pred CHHHHHHHHHcCChh
Confidence 567999999999976
No 53
>KOG2805 consensus tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=38.39 E-value=19 Score=33.06 Aligned_cols=17 Identities=53% Similarity=1.152 Sum_probs=15.6
Q ss_pred HHHHHhhhhh-hhhhhhh
Q 031724 24 YKEFWGERFS-FLENYTR 40 (154)
Q Consensus 24 ~K~~W~e~Fs-fl~~y~~ 40 (154)
.||||-+.|| ||++|+.
T Consensus 76 ~kEYW~~Vfs~~L~~Y~~ 93 (377)
T KOG2805|consen 76 VKEYWNDVFSPFLEEYEN 93 (377)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 5899999999 9999985
No 54
>PF03116 NQR2_RnfD_RnfE: NQR2, RnfD, RnfE family; InterPro: IPR004338 This family of proteins describes the Nqr2 (NqrB) subunit of the bacterial 6-subunit sodium-translocating NADH-ubiquinone oxidoreductase (i.e. a respiration linked sodium pump). In Vibrio cholerae, it negatively regulates the expression of virulence factors through inhibiting (by an unknown mechanism) the transcription of the transcriptional activator ToxT []. The family also includes RnfD, which is involved in nitrogen fixation. The similarity of RnfD to NADH-ubiquinone oxidoreductases was previously noted [].; GO: 0006810 transport, 0016020 membrane
Probab=36.80 E-value=38 Score=29.40 Aligned_cols=52 Identities=27% Similarity=0.388 Sum_probs=35.9
Q ss_pred HhhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHh
Q 031724 58 AFIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFG 116 (154)
Q Consensus 58 eFIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G 116 (154)
=|+++|||=.|.-+.-|= +.|.++|-+. .+-..++-.|.|+..|+|.+-++-
T Consensus 247 fFm~TDp~TsP~t~~Gr~-----iyG~~~G~lt--~~ir~~g~~p~Gv~fAiLl~N~~~ 298 (313)
T PF03116_consen 247 FFMATDPVTSPMTRKGRI-----IYGILIGVLT--FLIRFFGGYPEGVMFAILLMNAFV 298 (313)
T ss_pred HHHccCCCCCCCCcccHH-----HHHHHHHHHH--HHHHHhCCcchHHHHHHHHHHhhH
Confidence 489999999998776653 3444444332 222346788999999999877653
No 55
>PF05572 Peptidase_M43: Pregnancy-associated plasma protein-A; InterPro: IPR008754 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase M43 (cytophagalysin family, clan MA(M)), subfamily M43. The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example of this family is the pregnancy-associated plasma protein A (PAPP-A), which cleaves insulin-like growth factor (IGF) binding protein-4 (IGFBP-4), causing a dramatic reduction in its affinity for IGF-I and -II. Through this mechanism, PAPP-A is a regulator of IGF bioactivity in several systems, including the Homo sapiens ovary and the cardiovascular system [, , , ].; PDB: 3LUN_A 3LUM_B 2J83_A 2CKI_A.
Probab=35.90 E-value=17 Score=28.24 Aligned_cols=19 Identities=42% Similarity=0.730 Sum_probs=12.9
Q ss_pred HHhhhhhhhHHHHHHHHhhc
Q 031724 114 VFGWTFGQEFANHYLQLYRM 133 (154)
Q Consensus 114 ~~G~~~G~EvAnh~lqLYk~ 133 (154)
-.|-|+-|||. |||+||-.
T Consensus 68 ~~g~TltHEvG-H~LGL~Ht 86 (154)
T PF05572_consen 68 NFGKTLTHEVG-HWLGLYHT 86 (154)
T ss_dssp -SSHHHHHHHH-HHTT---T
T ss_pred ccccchhhhhh-hhhccccc
Confidence 34789999997 99999964
No 56
>PRK11026 ftsX cell division ABC transporter subunit FtsX; Provisional
Probab=35.87 E-value=1.1e+02 Score=26.17 Aligned_cols=24 Identities=13% Similarity=0.379 Sum_probs=17.0
Q ss_pred HHHHHHHHhhhhhhhhhhhhhhhh
Q 031724 73 AREAVNFALAGSLIGAVSTAGVAW 96 (154)
Q Consensus 73 ~Rea~~fa~aGa~vGa~~tagva~ 96 (154)
+.|+.-+|+.|+++|.+....+.+
T Consensus 230 l~eg~~~g~~G~~~g~~l~~~~~~ 253 (309)
T PRK11026 230 LYGGALLGFSGALLSLILSEILVW 253 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357788888999888766554433
No 57
>PRK11677 hypothetical protein; Provisional
Probab=34.45 E-value=28 Score=27.35 Aligned_cols=17 Identities=18% Similarity=0.241 Sum_probs=13.4
Q ss_pred hHHHhhhhhHHhhhhhh
Q 031724 105 TGLSLAAGAVFGWTFGQ 121 (154)
Q Consensus 105 a~ls~l~G~~~G~~~G~ 121 (154)
++++|++|+|+|+.++.
T Consensus 6 a~i~livG~iiG~~~~R 22 (134)
T PRK11677 6 ALIGLVVGIIIGAVAMR 22 (134)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 56788888888888775
No 58
>PRK01024 Na(+)-translocating NADH-quinone reductase subunit B; Provisional
Probab=33.81 E-value=44 Score=31.84 Aligned_cols=55 Identities=35% Similarity=0.520 Sum_probs=39.5
Q ss_pred HhhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhc-cCcchhHHHhhhhhHHhhhh
Q 031724 58 AFIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYS-RSLHGTGLSLAAGAVFGWTF 119 (154)
Q Consensus 58 eFIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYS-ks~hGa~ls~l~G~~~G~~~ 119 (154)
=|||.|||=.|+-+.-|= +.|..+|.+.. +---|. .-|-|+..|+|..-+|-=.+
T Consensus 435 fFMATDPVTSP~T~~GK~-----IYGigiGvLTv--lIR~fgp~YPEGV~FAILLmN~~~PLi 490 (503)
T PRK01024 435 VFMATDPVSSPTMKLAKW-----IYGAFIGFMTI--VIRLINPAYPEGVMLAILLGNVFAPLF 490 (503)
T ss_pred HhhhcCCCCCCCCCchHh-----HHHHHHHHHhh--hhhhcCCCCchHHHHHHHHHhhhhhhH
Confidence 389999999999877652 56677776532 222355 68999999999887765443
No 59
>COG3311 AlpA Predicted transcriptional regulator [Transcription]
Probab=33.80 E-value=19 Score=25.76 Aligned_cols=14 Identities=36% Similarity=0.930 Sum_probs=12.2
Q ss_pred CCCchhhHHhhhcC
Q 031724 50 SWSPSDVDAFIATD 63 (154)
Q Consensus 50 ~Ws~sDVeeFIaSD 63 (154)
-|.+|||||+|++=
T Consensus 51 ~W~~SEI~~Wi~~~ 64 (70)
T COG3311 51 AWPESEIDEWIASR 64 (70)
T ss_pred cccHHHHHHHHHHH
Confidence 49999999999863
No 60
>PF08560 DUF1757: Protein of unknown function (DUF1757); InterPro: IPR013869 This entry shows proteins that are about 150 amino acids in length and have no known function.
Probab=32.70 E-value=73 Score=25.41 Aligned_cols=45 Identities=29% Similarity=0.260 Sum_probs=23.5
Q ss_pred HHHHHHHHhhhhhh-hhhhhhhhhhhh------ccCcchhHHHhhhhhHHhh
Q 031724 73 AREAVNFALAGSLI-GAVSTAGVAWKY------SRSLHGTGLSLAAGAVFGW 117 (154)
Q Consensus 73 ~Rea~~fa~aGa~v-Ga~~tagva~kY------Sks~hGa~ls~l~G~~~G~ 117 (154)
+|-+-.-++.|+++ |-+.+..-.-+. .+.++++..++++|+++|-
T Consensus 32 ~k~~q~gs~lGsl~~~Pi~~~~~~~~~~~~~~~~~~~~~~~~G~l~G~~~gp 83 (155)
T PF08560_consen 32 FKGAQAGSFLGSLIVGPIYRLLKQPRLNPKELTNRFVKGGRNGALAGAVLGP 83 (155)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHhCccccHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 44444556778888 666655444332 2233444444555555443
No 61
>TIGR00906 2A0303 cationic amino acid transport permease.
Probab=32.47 E-value=1.6e+02 Score=26.75 Aligned_cols=75 Identities=13% Similarity=0.106 Sum_probs=42.2
Q ss_pred hhhcCCCCCCCCCchhhHHhhhcCCCCchhHHh---HHHHHHHHhhhhhhhhh-hhhhhhhhhccCcchhHHHhhhhhHH
Q 031724 40 RFTKREKPLPSWSPSDVDAFIATDPVHGPALKS---AREAVNFALAGSLIGAV-STAGVAWKYSRSLHGTGLSLAAGAVF 115 (154)
Q Consensus 40 ~~~~RdkPLP~Ws~sDVeeFIaSDPVyGP~LK~---~Rea~~fa~aGa~vGa~-~tagva~kYSks~hGa~ls~l~G~~~ 115 (154)
+-+.|.||+.. + |.+ .+.||. .++..-+++.+.+..++ .+.|...+. ....++.+|++.++++
T Consensus 8 ~~~~r~k~~~~-~--~~~---------~~~L~r~L~~~~l~~l~ig~viGsGIf~l~g~~a~~-~aGp~~~ls~liagv~ 74 (557)
T TIGR00906 8 RCLIRRKIVDL-D--SRE---------ESKMKRCLTTWDLMALGIGSTIGAGIYVLTGEVARN-DSGPAIVLSFLISGLA 74 (557)
T ss_pred HHHhccCCccc-c--ccc---------ccchhhcCCHHHHHHHHhhhhhcchhhhhhhHHHHh-ccCcHHHHHHHHHHHH
Confidence 44788999964 1 111 123543 45555555544322222 233433222 2345799999999999
Q ss_pred hhhhhhhHHHHH
Q 031724 116 GWTFGQEFANHY 127 (154)
Q Consensus 116 G~~~G~EvAnh~ 127 (154)
.+..+-=.|+..
T Consensus 75 ~l~~al~yaEla 86 (557)
T TIGR00906 75 AVLSGFCYAEFG 86 (557)
T ss_pred HHHHHHHHHHHH
Confidence 888876666553
No 62
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=32.28 E-value=35 Score=24.23 Aligned_cols=18 Identities=33% Similarity=0.433 Sum_probs=14.2
Q ss_pred hhHHHhhhhhHHhhhhhh
Q 031724 104 GTGLSLAAGAVFGWTFGQ 121 (154)
Q Consensus 104 Ga~ls~l~G~~~G~~~G~ 121 (154)
++++++++|++.|+.++.
T Consensus 2 ~iilali~G~~~Gff~ar 19 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIAR 19 (64)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 467889999988887654
No 63
>KOG3208 consensus SNARE protein GS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.11 E-value=49 Score=28.74 Aligned_cols=54 Identities=22% Similarity=0.211 Sum_probs=41.7
Q ss_pred ccchhhHhHHhHhhHHhHHHHHhhhhhhhhhhhhhhcCCCCCCCCCchhhHHhhhcCCC
Q 031724 7 SASASEQQSFFRKHWEGYKEFWGERFSFLENYTRFTKREKPLPSWSPSDVDAFIATDPV 65 (154)
Q Consensus 7 sa~a~e~~~~~k~~weg~K~~W~e~Fsfl~~y~~~~~RdkPLP~Ws~sDVeeFIaSDPV 65 (154)
+|.-.-.+.-.++|-|+.++||.|---..+|+-..-.|..+| ++|.++|.+-|.
T Consensus 81 ~a~~aa~~htL~RHrEILqdy~qef~rir~n~~a~~e~~~Ll-----~s~~~~~~~~~~ 134 (231)
T KOG3208|consen 81 PANSAAVMHTLQRHREILQDYTQEFRRIRSNIDAKRERESLL-----ESVRADISSYPS 134 (231)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhhhccCCc
Confidence 333344566789999999999999888999998888888877 568888755443
No 64
>PF06813 Nodulin-like: Nodulin-like; InterPro: IPR010658 This entry represents a conserved region within plant nodulin-like proteins and a number of uncharacterised proteins.
Probab=31.97 E-value=91 Score=26.05 Aligned_cols=33 Identities=24% Similarity=0.354 Sum_probs=19.1
Q ss_pred CCCchhHHhH-----HHHHHHHhhhhhhhhhhh-hhhhh
Q 031724 64 PVHGPALKSA-----REAVNFALAGSLIGAVST-AGVAW 96 (154)
Q Consensus 64 PVyGP~LK~~-----Rea~~fa~aGa~vGa~~t-agva~ 96 (154)
++|+||||.. .|--.++.+|-+.+.++. +|+..
T Consensus 22 s~yS~~Lk~~l~~sq~~l~~l~~~~~~G~~~G~~~G~l~ 60 (250)
T PF06813_consen 22 SAYSPQLKSRLGYSQSQLNTLSTAGDIGSYFGILAGLLY 60 (250)
T ss_pred hhhhHHHHHHhCCCHHHHHHHHHHHHHHhhccHHHHHHH
Confidence 6899999963 455556655544443332 34443
No 65
>PF06233 Usg: Usg-like family; InterPro: IPR009354 This is a family of bacterial proteins, referred to as Usg. Usg is found in the same operon as trpF, trpB, and trpA and is expressed in a coupled transcription-translation system [].
Probab=31.82 E-value=29 Score=25.98 Aligned_cols=14 Identities=21% Similarity=0.710 Sum_probs=12.3
Q ss_pred HHHHHHHHHHhccc
Q 031724 140 SKFMEWWEAKCAER 153 (154)
Q Consensus 140 ~kFl~WWE~K~~g~ 153 (154)
.|||+-|+++.+|.
T Consensus 42 ~~Fl~fW~~~leG~ 55 (82)
T PF06233_consen 42 FKFLDFWQRELEGP 55 (82)
T ss_pred HHHHHHHHHhccCc
Confidence 58999999999884
No 66
>PF03195 DUF260: Protein of unknown function DUF260; InterPro: IPR004883 The lateral organ boundaries (LOB) gene is expressed at the adaxial base of initiating lateral organs and encodes a plant-specific protein of unknown function. The N-terminal one half of the LOB protein contains a conserved approximately 100-amino acid domain (the LOB domain) that is present in 42 other Arabidopsis thaliana proteins and in proteins from a variety of other plant species. Genes encoding LOB domain (LBD) proteins are expressed in a variety of temporal- and tissue-specific patterns, suggesting that they may function in diverse processes [] The LOB domain contains conserved blocks of amino acids that identify the LBD gene family. In particular, a conserved C-x(2)-C-x(6)-C-x(3)-C motif, which is defining feature of the LOB domain, is present in all LBD proteins. It is possible that this motif forms a new zinc finger [].
Probab=31.12 E-value=21 Score=26.60 Aligned_cols=9 Identities=56% Similarity=0.715 Sum_probs=7.2
Q ss_pred hcCCCCchh
Q 031724 61 ATDPVHGPA 69 (154)
Q Consensus 61 aSDPVyGP~ 69 (154)
.-|||||+.
T Consensus 69 ~~dPv~Gc~ 77 (101)
T PF03195_consen 69 ARDPVYGCV 77 (101)
T ss_pred ccCCCcchH
Confidence 359999984
No 67
>PRK00956 thyA thymidylate synthase; Provisional
Probab=30.37 E-value=40 Score=27.45 Aligned_cols=24 Identities=8% Similarity=0.112 Sum_probs=17.3
Q ss_pred CCCchhhHHhhh---------cCCCCchhHHhH
Q 031724 50 SWSPSDVDAFIA---------TDPVHGPALKSA 73 (154)
Q Consensus 50 ~Ws~sDVeeFIa---------SDPVyGP~LK~~ 73 (154)
+|.+..+++|+. --|+|||+++.-
T Consensus 59 ~~~~~~~~~y~~~~~~g~~~~~~~~YG~r~r~~ 91 (208)
T PRK00956 59 PLGEEALEEYTKQLLSGSAQGFVYTYGERLREY 91 (208)
T ss_pred CcchHHHHHHHHhccCCccCccCCCHHHHHhcC
Confidence 377777777765 247899998864
No 68
>PRK10540 lipoprotein; Provisional
Probab=30.34 E-value=93 Score=22.17 Aligned_cols=22 Identities=27% Similarity=0.369 Sum_probs=11.2
Q ss_pred hccCcchhHHHhhhhhHHhhhh
Q 031724 98 YSRSLHGTGLSLAAGAVFGWTF 119 (154)
Q Consensus 98 YSks~hGa~ls~l~G~~~G~~~ 119 (154)
+++...++.+..+.|++.|..+
T Consensus 27 ~~~~~~g~~~Ga~~Ga~~Ga~~ 48 (72)
T PRK10540 27 WSKRDRNTAIGAGAGALGGAVL 48 (72)
T ss_pred CCcccchhHHHHHHHHHHHHHh
Confidence 4444445555555555555555
No 69
>PRK10510 putative outer membrane lipoprotein; Provisional
Probab=30.14 E-value=44 Score=27.34 Aligned_cols=20 Identities=25% Similarity=0.386 Sum_probs=15.8
Q ss_pred cCcchhHHHhhhhhHHhhhh
Q 031724 100 RSLHGTGLSLAAGAVFGWTF 119 (154)
Q Consensus 100 ks~hGa~ls~l~G~~~G~~~ 119 (154)
...-|+++.-++|+..|.-+
T Consensus 62 ~a~~ga~~G~~~G~~~g~~~ 81 (219)
T PRK10510 62 GALIGAAAGAALGGGVGYYM 81 (219)
T ss_pred hhhhHhHHHhhhhhhhhhhh
Confidence 45778888888888888776
No 70
>PRK09430 djlA Dna-J like membrane chaperone protein; Provisional
Probab=29.75 E-value=35 Score=28.67 Aligned_cols=7 Identities=29% Similarity=0.795 Sum_probs=3.5
Q ss_pred hhhhhhh
Q 031724 83 GSLIGAV 89 (154)
Q Consensus 83 Ga~vGa~ 89 (154)
|-+||++
T Consensus 5 gki~g~~ 11 (267)
T PRK09430 5 GKILGFA 11 (267)
T ss_pred HHHHHHH
Confidence 4555554
No 71
>PF05084 GRA6: Granule antigen protein (GRA6); InterPro: IPR008119 Toxoplasma gondii is an obligate intracellular apicomplexan protozoan parasite, with a complex lifestyle involving varied hosts []. It has two phases of growth: an intestinal phase in feline hosts, and an extra-intestinal phase in other mammals. Oocysts from infected cats develop into tachyzoites, and eventually, bradyzoites and zoitocysts in the extraintestinal host []. Transmission of the parasite occurs through contact with infected cats or raw/undercooked meat; in immunocompromised individuals, it can cause severe and often lethal toxoplasmosis. Acute infection in healthy humans can sometimes also cause tissue damage []. The protozoan utilises a variety of secretory and antigenic proteins to invade a host and gain access to the intracellular environment []. These originate from distinct organelles in the T. gondii cell termed micronemes, rhoptries, and dense granules. They are released at specific times during invasion to ensure the proteins are allocated to their correct target destinations []. Dense granule antigens (GRAs) are released from the T. gondii tachyzoite while still encapsulated in a host vacuole. Gra6, one of these moieties, is associated with the parasitophorous vacuole []. It possesses a hydrophobic central region flanked by two hydrophilic domains, and is present as a single copy gene in the Toxoplasma gondii genome []. Gra6 shares a similar function with Gra2, in that it is rapidly targeted to a network of membranous tubules that connect with the vacuolar membrane []. Indeed, these two proteins, together with Gra4, form a multimeric complex that stabilises the parasite within the vacuole.
Probab=29.54 E-value=39 Score=28.85 Aligned_cols=38 Identities=32% Similarity=0.471 Sum_probs=30.0
Q ss_pred CCCchhHHh--HHHHHHHHhhhhhhhhhhhhhhhhhhccC
Q 031724 64 PVHGPALKS--AREAVNFALAGSLIGAVSTAGVAWKYSRS 101 (154)
Q Consensus 64 PVyGP~LK~--~Rea~~fa~aGa~vGa~~tagva~kYSks 101 (154)
||--||-|+ -|+-+.--+.|++|=|++.|.+-|+++|-
T Consensus 134 ~V~~~~~~~~sKR~Q~RHR~IG~~VlA~~VA~L~~~F~RR 173 (215)
T PF05084_consen 134 SVQEPQAKVPSKRTQKRHRLIGAVVLAVSVAMLTWFFLRR 173 (215)
T ss_pred cccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 566666654 36666778999999999999999999863
No 72
>PF12868 DUF3824: Domain of unknwon function (DUF3824); InterPro: IPR024436 This repeating domain is proline-rich but its function is unknown.
Probab=29.38 E-value=33 Score=27.08 Aligned_cols=20 Identities=30% Similarity=0.406 Sum_probs=12.6
Q ss_pred hhhhhhhhhhhhhhhhhhcc
Q 031724 81 LAGSLIGAVSTAGVAWKYSR 100 (154)
Q Consensus 81 ~aGa~vGa~~tagva~kYSk 100 (154)
++++.|+|+.+|..|.+|.|
T Consensus 9 la~~aLaAAG~G~AA~~~~k 28 (137)
T PF12868_consen 9 LAEAALAAAGAGYAAHKYKK 28 (137)
T ss_pred HhHHHHHHHHHHHHHHHHHH
Confidence 45555666666666777764
No 73
>COG5036 SPX domain-containing protein involved in vacuolar polyphosphate accumulation [Inorganic ion transport and metabolism]
Probab=29.20 E-value=31 Score=32.83 Aligned_cols=49 Identities=27% Similarity=0.374 Sum_probs=39.5
Q ss_pred HhhhhhhhhhhhhhhcCCCCCCCCCchhhHHhh-----hcCCCCchhHHhHHHH
Q 031724 28 WGERFSFLENYTRFTKREKPLPSWSPSDVDAFI-----ATDPVHGPALKSAREA 76 (154)
Q Consensus 28 W~e~Fsfl~~y~~~~~RdkPLP~Ws~sDVeeFI-----aSDPVyGP~LK~~Rea 76 (154)
|+..+-=+++.++.+++.+--++|+++|=.+|. ..|-|||=|+..-.|.
T Consensus 15 ~k~~YinYe~LK~~lK~~~~~~~w~e~dEsdFVe~Ld~eLeKVY~F~~~k~~ev 68 (509)
T COG5036 15 YKYSYINYENLKKLLKESEEEGSWSESDESDFVEELDKELEKVYGFQLSKYSEV 68 (509)
T ss_pred cccccCCHHHHHHHHhhccccCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555567889999999999999999999996 4689999998876554
No 74
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=28.71 E-value=96 Score=24.43 Aligned_cols=34 Identities=21% Similarity=0.359 Sum_probs=30.2
Q ss_pred chhHHHhhhhhHHhhhhhhhHHHHHHHHhhcchh
Q 031724 103 HGTGLSLAAGAVFGWTFGQEFANHYLQLYRMDTL 136 (154)
Q Consensus 103 hGa~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~ 136 (154)
-|++|-+++++.+|+.++.+..++--||..+..+
T Consensus 4 iGa~LIi~s~~~~G~~~a~~~~~R~~~L~~l~~~ 37 (171)
T PRK08307 4 LGAVLIIAASTWIGFLYAKRYKERPRQLRELKAA 37 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999999999999999887654
No 75
>PRK10814 outer membrane-specific lipoprotein transporter subunit LolC; Provisional
Probab=27.95 E-value=1.1e+02 Score=25.67 Aligned_cols=24 Identities=25% Similarity=0.303 Sum_probs=16.6
Q ss_pred HHHHHHHHhhhhhhhhhhhhhhhh
Q 031724 73 AREAVNFALAGSLIGAVSTAGVAW 96 (154)
Q Consensus 73 ~Rea~~fa~aGa~vGa~~tagva~ 96 (154)
+.|+.-+++.|+++|.+-...+++
T Consensus 315 ~~E~~~~~~~G~~~G~~lg~~l~~ 338 (399)
T PRK10814 315 MVQGASAGIIGALLGALLGALLAS 338 (399)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888888888888665444443
No 76
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=27.30 E-value=31 Score=24.09 Aligned_cols=21 Identities=33% Similarity=0.586 Sum_probs=17.7
Q ss_pred hcCCCCCCCCCchhhHHhhhc
Q 031724 42 TKREKPLPSWSPSDVDAFIAT 62 (154)
Q Consensus 42 ~~RdkPLP~Ws~sDVeeFIaS 62 (154)
..+-.||=.|+.+||.+||..
T Consensus 136 ~~~~~Pl~~w~~~di~~~~~~ 156 (173)
T cd01713 136 ILKVNPLLDWTYEDVWAYLAR 156 (173)
T ss_pred cEEEcchhcCCHHHHHHHHHH
Confidence 345678888999999999986
No 77
>PF02466 Tim17: Tim17/Tim22/Tim23/Pmp24 family; InterPro: IPR003397 The membrane-embedded multi-protein complexes of mitochondria mediate the transport of nuclear-encoded proteins across and into the outer or inner mitochondrial membranes []. The TOM (translocase of the outer mitochondrial membrane) complex consists of cytosol-exposed receptors and a pore-forming core, and mediates the transport of proteins from the cytosol across and into the outer mitochondrial membrane. A novel protein complex in the outer membrane of mitochondria, called the SAM complex (sorting and assembly machinery), is involved in the biogenesis of beta-barrel proteins of the outer membrane. Two translocases of the inner mitochondrial membrane (TIM22 and TIM23 complexes) mediate protein transport at the inner membrane. The TIM23 complex (a presequence translocase) mediates the transport of presequence-containing proteins across and into the inner membrane. Tim23 and Tim17 form part of this complex. Tim23 forms a pore in the inner membrane. The role of Tim17 is not yet fully understood. The TIM22 complex (a twin-pore carrier translocase) catalyses the insertion of multi-spanning proteins that have internal targeting signals into the inner membrane. The TIM22 complex mediates the membrane insertion of multi-spanning inner-membrane proteins that have internal targeting signals, and it uses the membrane potential as an external driving force. The Tim22 subunit of the mitochondrial import inner membrane translocase is included in this family. This family also includes Pmp24, a peroxisomal membrane protein, and NADH ubiquinone dehydrogenase 1 alpha subunit 11. Pmp24 was previously known as Pmp27 [].
Probab=27.22 E-value=1.6e+02 Score=20.93 Aligned_cols=44 Identities=25% Similarity=0.255 Sum_probs=28.2
Q ss_pred HHHHHHhhhhhhhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhhhh
Q 031724 75 EAVNFALAGSLIGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTFGQ 121 (154)
Q Consensus 75 ea~~fa~aGa~vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~G~ 121 (154)
.+..||..+.+-.++.. ..+.-|.-|...=++++|++.|.++|.
T Consensus 57 ~~~~~g~~~~~y~~~~~---~l~~~R~k~D~~N~~~aG~~aGa~~~~ 100 (128)
T PF02466_consen 57 HGARFGSFGGLYSGIEC---ALERLRGKDDPWNSAIAGAAAGAVLGL 100 (128)
T ss_pred HHHHHHHHHHHHHHHHH---HHHHhhcccccchhHHHHHHHHHHHHh
Confidence 35555555555544433 333445668888888888888888876
No 78
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=26.69 E-value=82 Score=26.02 Aligned_cols=43 Identities=16% Similarity=0.187 Sum_probs=24.5
Q ss_pred HHHHHHhhhhh------hhhhhhhhhhhhhccCcchhHHHhhhhhHHhhhh
Q 031724 75 EAVNFALAGSL------IGAVSTAGVAWKYSRSLHGTGLSLAAGAVFGWTF 119 (154)
Q Consensus 75 ea~~fa~aGa~------vGa~~tagva~kYSks~hGa~ls~l~G~~~G~~~ 119 (154)
|-.+|.-.|++ +.+++.+-.+..+-..|| .+++++|.++|.+.
T Consensus 11 er~k~~~~G~~vl~ta~la~~s~~~a~~~~~~~~~--~~ai~~glvwgl~I 59 (301)
T PF14362_consen 11 ERNKYAGIGAAVLFTALLAGLSGGYALYTVFGGPV--WAAIPFGLVWGLVI 59 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch--HHHHHHHHHHHHHH
Confidence 33455544443 344444444455666665 77777777777654
No 79
>PF13197 DUF4013: Protein of unknown function (DUF4013)
Probab=25.90 E-value=45 Score=25.14 Aligned_cols=11 Identities=27% Similarity=0.664 Sum_probs=8.3
Q ss_pred hcCCCCCCCCC
Q 031724 42 TKREKPLPSWS 52 (154)
Q Consensus 42 ~~RdkPLP~Ws 52 (154)
.++++|+|+|+
T Consensus 31 ~g~~~~lP~~~ 41 (169)
T PF13197_consen 31 IGGSDPLPEFN 41 (169)
T ss_pred ccCCCCCCCch
Confidence 44459999995
No 80
>COG3781 Predicted membrane protein [Function unknown]
Probab=25.00 E-value=1e+02 Score=27.88 Aligned_cols=42 Identities=26% Similarity=0.562 Sum_probs=26.4
Q ss_pred hHhhHHhHHHHHhhhhhhhhhhhhhhcCCCCCCCCCchhhHHhh
Q 031724 17 FRKHWEGYKEFWGERFSFLENYTRFTKREKPLPSWSPSDVDAFI 60 (154)
Q Consensus 17 ~k~~weg~K~~W~e~Fsfl~~y~~~~~RdkPLP~Ws~sDVeeFI 60 (154)
|.||||+.| .|+.---=..|..|-+.---|-| =..+||.||.
T Consensus 76 YdR~wEaRK-lWG~lvn~~Rnl~R~i~t~v~e~-~d~a~~~~~l 117 (306)
T COG3781 76 YDRYWEARK-LWGQLVNAIRNLARQIWTLVPET-LDSADVREFL 117 (306)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHhcCCcc-cChHHHHHHH
Confidence 889999998 48875544445554433322222 5667888775
No 81
>KOG3913 consensus Wnt family of developmental regulators [Signal transduction mechanisms]
Probab=24.87 E-value=45 Score=30.32 Aligned_cols=32 Identities=44% Similarity=0.657 Sum_probs=23.4
Q ss_pred cCCCCchhHH-hHHHHHHHHhhhhhhhhhhhhhhhhhhcc
Q 031724 62 TDPVHGPALK-SAREAVNFALAGSLIGAVSTAGVAWKYSR 100 (154)
Q Consensus 62 SDPVyGP~LK-~~Rea~~fa~aGa~vGa~~tagva~kYSk 100 (154)
.-||+||.|+ ..||++ .|=|++.|||++...|
T Consensus 99 ~~~~~g~~l~~g~REsA-------Fv~AIssAgV~havtr 131 (356)
T KOG3913|consen 99 QLPVFGPLLSRGTRETA-------FVYAISSAGVAHAVTR 131 (356)
T ss_pred cccccchhhcccchHHH-------HHHHHHHhHHHHHHHH
Confidence 4589999999 778874 4556677777776544
No 82
>PF04757 Pex2_Pex12: Pex2 / Pex12 amino terminal region; InterPro: IPR006845 This region is the N-terminal part of a number of peroxisomal biogenesis proteins, including Pex2, Pex10 and Pex12, which contain two predicted transmembrane segments. The majority of these proteins have a C-terminal ring finger domain IPR001841 from INTERPRO.; GO: 0007031 peroxisome organization, 0005778 peroxisomal membrane
Probab=24.68 E-value=38 Score=26.19 Aligned_cols=11 Identities=45% Similarity=1.032 Sum_probs=8.8
Q ss_pred hhhHHHHHHHH
Q 031724 137 AAQSKFMEWWE 147 (154)
Q Consensus 137 ~a~~kFl~WWE 147 (154)
--.+||+|||.
T Consensus 217 ~~~~~~~eww~ 227 (229)
T PF04757_consen 217 LFFLKFLEWWY 227 (229)
T ss_pred HHHHHHHHHhC
Confidence 34679999996
No 83
>TIGR02833 spore_III_AB stage III sporulation protein AB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage III sporulation protein AB.
Probab=24.47 E-value=1.3e+02 Score=23.71 Aligned_cols=34 Identities=18% Similarity=0.269 Sum_probs=30.0
Q ss_pred chhHHHhhhhhHHhhhhhhhHHHHHHHHhhcchh
Q 031724 103 HGTGLSLAAGAVFGWTFGQEFANHYLQLYRMDTL 136 (154)
Q Consensus 103 hGa~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~ 136 (154)
-|++|=+++++.+|+.++.+..++--||..+-.+
T Consensus 3 iGa~LIi~s~~~~G~~~a~~~~~R~~~L~~l~~~ 36 (170)
T TIGR02833 3 LGALLIVLSSTWIGFLYANRFKERPRQLRQLINA 36 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3788999999999999999999999999877554
No 84
>TIGR02212 lolCE lipoprotein releasing system, transmembrane protein, LolC/E family. This model describes the LolC protein, and its paralog LolE found in some species. These proteins are homologous to permease proteins of ABC transporters. In some species, two paralogs occur, designated LolC and LolE. In others, a single form is found and tends to be designated LolC.
Probab=23.92 E-value=1.5e+02 Score=24.52 Aligned_cols=19 Identities=16% Similarity=0.391 Sum_probs=14.1
Q ss_pred HHHHHHHHhhhhhhhhhhh
Q 031724 73 AREAVNFALAGSLIGAVST 91 (154)
Q Consensus 73 ~Rea~~fa~aGa~vGa~~t 91 (154)
+.|+.-+++.|.++|.+--
T Consensus 317 l~E~~~l~l~g~~~G~~lg 335 (411)
T TIGR02212 317 IVQGLLIGVIGTLLGVILG 335 (411)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4678888888888886543
No 85
>cd03511 Rhizopine-oxygenase-like This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase) under the regulation of MocR, act in concert to form a ferredoxin oxygenase system that demethylates 3-O-MSI to form scyllo-inosamine. This domain family appears to be structurally related to the membrane fatty acid desaturases and the alkane hydroxylases. They all share in common extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. Comparison of sequences also reveals the existence of three regions of conserved histidine cluster motifs that contain eight histidine residues: HXXXH, HXXHH, and HXXHH. These histidine residues are reported to be catalytically essential and proposed to be the ligands for the iron atoms contained within homologs, stearoyl CoA d
Probab=23.46 E-value=1.6e+02 Score=23.96 Aligned_cols=18 Identities=6% Similarity=0.196 Sum_probs=13.0
Q ss_pred CchhhHHhhhcCCCCchh
Q 031724 52 SPSDVDAFIATDPVHGPA 69 (154)
Q Consensus 52 s~sDVeeFIaSDPVyGP~ 69 (154)
|.++..+....||..+..
T Consensus 2 ~~~~~~~L~~~~~~~~~~ 19 (285)
T cd03511 2 PRQELKQLMQRSDAPGLL 19 (285)
T ss_pred CHHHHHHHhCCcchhHHH
Confidence 346777888888877765
No 86
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=23.40 E-value=36 Score=19.58 Aligned_cols=13 Identities=23% Similarity=0.473 Sum_probs=11.1
Q ss_pred CCCchhhHHhhhc
Q 031724 50 SWSPSDVDAFIAT 62 (154)
Q Consensus 50 ~Ws~sDVeeFIaS 62 (154)
.|+.+||++|+++
T Consensus 37 ~~~~~~l~~~~~~ 49 (49)
T TIGR01764 37 RIPREDVDEYLEQ 49 (49)
T ss_pred EEeHHHHHHHHhC
Confidence 5899999999874
No 87
>PF14715 FixP_N: N-terminal domain of cytochrome oxidase-cbb3, FixP
Probab=23.15 E-value=27 Score=23.42 Aligned_cols=8 Identities=50% Similarity=1.435 Sum_probs=6.1
Q ss_pred CCCCCCCC
Q 031724 44 REKPLPSW 51 (154)
Q Consensus 44 RdkPLP~W 51 (154)
-|+|||+|
T Consensus 16 ~dnplP~w 23 (51)
T PF14715_consen 16 LDNPLPRW 23 (51)
T ss_pred hcCCCCHH
Confidence 47888886
No 88
>cd01185 INT_Tn4399 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the Bacteroides mobilizable transposon, Tn4399, integrase.
Probab=23.12 E-value=1.3e+02 Score=23.26 Aligned_cols=48 Identities=19% Similarity=0.291 Sum_probs=30.4
Q ss_pred hHHhHhhHHhHH--------HHHhhhhhhhhhhhhhhc-----CCCCCCCCCchhhHHhhh
Q 031724 14 QSFFRKHWEGYK--------EFWGERFSFLENYTRFTK-----REKPLPSWSPSDVDAFIA 61 (154)
Q Consensus 14 ~~~~k~~weg~K--------~~W~e~Fsfl~~y~~~~~-----RdkPLP~Ws~sDVeeFIa 61 (154)
..+|+.|++.++ .-+...-+.+.++.+++. .+.++..-+..|+++|+.
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~T~~~y~~~~~~~~~~~~~~~~~~~~~l~~i~~~~i~~~~~ 76 (299)
T cd01185 16 LAYFDKHNDERERVGKDKAQSTWKRYRTHLKNLREFIECTYKEIDIALLELTREFILEFKL 76 (299)
T ss_pred HHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHhcCccCCCHHHccHHHHHHHHH
Confidence 456666666664 334444445555555433 466788899999999964
No 89
>PF05930 Phage_AlpA: Prophage CP4-57 regulatory protein (AlpA); InterPro: IPR010260 This entry is represents phage P4, Orf88. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. In Escherichia coli phage P4 Orf 88 is similar to AlpA of the CP4-57 cryptic prophage []. AlpA acts as a positive transcriptional regulator of slpA, a gene linked to alpA and necessary for suppression of lon mutants [, ]. The sequence of slpA suggests that it encodes an integrase gene closely related to phage P4 int and that both alpA and slpA are part of a cryptic P4-like prophage. Increase in alpA expression increases SlpA synthesis. Increased SlpA leads, in turn, to the excision and loss of the cryptic prophage. ; PDB: 1Z4H_A.
Probab=23.05 E-value=28 Score=22.07 Aligned_cols=11 Identities=45% Similarity=1.038 Sum_probs=0.0
Q ss_pred CCCchhhHHhh
Q 031724 50 SWSPSDVDAFI 60 (154)
Q Consensus 50 ~Ws~sDVeeFI 60 (154)
-|..+||+++|
T Consensus 41 ~W~~~eV~~Wi 51 (51)
T PF05930_consen 41 RWRESEVEAWI 51 (51)
T ss_dssp -----------
T ss_pred ccccccccccC
Confidence 49999999987
No 90
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=22.78 E-value=2.7e+02 Score=23.91 Aligned_cols=20 Identities=25% Similarity=0.552 Sum_probs=16.1
Q ss_pred cCcchhHHHhhhhhHHhhhh
Q 031724 100 RSLHGTGLSLAAGAVFGWTF 119 (154)
Q Consensus 100 ks~hGa~ls~l~G~~~G~~~ 119 (154)
.-|||...+++...++-...
T Consensus 276 ~i~HG~~~ai~lp~v~~~n~ 295 (382)
T cd08187 276 DIAHGAGLAIVTPAWMRYVY 295 (382)
T ss_pred CCCcHHHHHHHHHHHHHHHH
Confidence 46999999999888875544
No 91
>PF06699 PIG-F: GPI biosynthesis protein family Pig-F; InterPro: IPR009580 Glycosylphosphatidylinositol anchor biosynthesis protein Pig-F is involved in glycosylphosphatidylinositol (GPI) anchor biosynthesis [, , ]. ; GO: 0006506 GPI anchor biosynthetic process, 0005789 endoplasmic reticulum membrane, 0016021 integral to membrane
Probab=22.67 E-value=1.9e+02 Score=23.65 Aligned_cols=65 Identities=14% Similarity=0.257 Sum_probs=30.8
Q ss_pred hHHhhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhh-hhhhhhccCcchhHHHhhhhhHHhhhhhhhH
Q 031724 56 VDAFIATDPVHGPALKSAREAVNFALAGSLIGAVSTA-GVAWKYSRSLHGTGLSLAAGAVFGWTFGQEF 123 (154)
Q Consensus 56 VeeFIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~ta-gva~kYSks~hGa~ls~l~G~~~G~~~G~Ev 123 (154)
..+....+..+. +...........|+++||=--| -+-+-+.|.=--==+..+.|+..|.++|.=+
T Consensus 121 w~~~~~~~~~~~---~~~~~~~~~~~~g~~~GaWlGa~pIPLDWDRpWQ~WPi~~~~Ga~~G~~~G~~~ 186 (190)
T PF06699_consen 121 WKRVFSLERPLD---EIFENSLLYPAIGAVLGAWLGAVPIPLDWDRPWQAWPITCVVGAYLGYFVGSLI 186 (190)
T ss_pred HHHHHhcCCccc---hHHHHHHHHHHHHHHHHHHHcceeccCCCCCccccCChHHHHHHHHHHHHHHHh
Confidence 444444444333 2233345566666666664333 2445555542222234455555555555433
No 92
>TIGR00434 cysH phosophoadenylyl-sulfate reductase (thioredoxin). This enzyme, involved in the assimilation of inorganic sulfate, is designated cysH in Bacteria and MET16 in Saccharomyces cerevisiae. Synonyms include phosphoadenosine phosphosulfate reductase, PAPS reductase, and PAPS reductase, thioredoxin-dependent. In a reaction requiring reduced thioredoxin and NADPH, it converts 3(prime)-phosphoadenylylsulfate (PAPS) to sulfite and adenosine 3(prime),5(prime) diphosphate (PAP). A related family of plant enzymes, scoring below the trusted cutoff, differs in having a thioredoxin-like C-terminal domain, not requiring thioredoxin, and in having a preference for 5(prime)-adenylylsulfate (APS) over PAPS.
Probab=22.64 E-value=41 Score=26.22 Aligned_cols=19 Identities=32% Similarity=0.588 Sum_probs=15.8
Q ss_pred CCCCCCCCCchhhHHhhhc
Q 031724 44 REKPLPSWSPSDVDAFIAT 62 (154)
Q Consensus 44 RdkPLP~Ws~sDVeeFIaS 62 (154)
|-.||=.||++||.+||..
T Consensus 146 ~v~PI~dWt~~dVw~Yi~~ 164 (212)
T TIGR00434 146 KVLPLIDWTWKDVYQYIDA 164 (212)
T ss_pred EEeehhhCCHHHHHHHHHH
Confidence 3467888999999999974
No 93
>TIGR02055 APS_reductase thioredoxin-dependent adenylylsulfate APS reductase. This model describes recently identified adenosine 5'-phosphosulfate (APS) reductase activity found in sulfate-assimilatory prokaryotes, thus separating it from the traditionally described phosphoadenosine 5'-phosphosulfate (PAPS) reductases found in bacteria and fungi. Homologous to PAPS reductase in enterobacteria, cyanobacteria, and yeast, APS reductase here clusters with, and demonstrates greater homology to plant APS reductase. Additionally, the presence of two conserved C-terminal motifs (CCXXRKXXPL & SXGCXXCT) distinguishes APS substrate specificity and serves as a FeS cluster.
Probab=22.62 E-value=42 Score=26.31 Aligned_cols=20 Identities=35% Similarity=0.768 Sum_probs=16.7
Q ss_pred CCCCCCCCCchhhHHhhhcC
Q 031724 44 REKPLPSWSPSDVDAFIATD 63 (154)
Q Consensus 44 RdkPLP~Ws~sDVeeFIaSD 63 (154)
|-.||=-||+.||.+||..-
T Consensus 125 ~~~Pi~~Wt~~dVw~Yi~~~ 144 (191)
T TIGR02055 125 KINPLADWTSEDVWEYIADN 144 (191)
T ss_pred EEEecccCCHHHHHHHHHHc
Confidence 45688889999999999753
No 94
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=22.20 E-value=33 Score=27.70 Aligned_cols=23 Identities=26% Similarity=0.473 Sum_probs=19.7
Q ss_pred hhcCCCCCCCCCchhhHHhhhcC
Q 031724 41 FTKREKPLPSWSPSDVDAFIATD 63 (154)
Q Consensus 41 ~~~RdkPLP~Ws~sDVeeFIaSD 63 (154)
...|-+||=.||++||.+||..-
T Consensus 168 ~~~rv~Pi~~Wt~~dV~~Yi~~~ 190 (241)
T PRK02090 168 GRFKINPLADWTNEDVWAYLKEH 190 (241)
T ss_pred CeEEEeehhhCCHHHHHHHHHHc
Confidence 45778999999999999999754
No 95
>PF12728 HTH_17: Helix-turn-helix domain
Probab=21.93 E-value=36 Score=20.82 Aligned_cols=13 Identities=23% Similarity=0.432 Sum_probs=11.1
Q ss_pred CCCchhhHHhhhc
Q 031724 50 SWSPSDVDAFIAT 62 (154)
Q Consensus 50 ~Ws~sDVeeFIaS 62 (154)
.|+.+||++||++
T Consensus 37 ~~~~~~l~~~~~~ 49 (51)
T PF12728_consen 37 RIPKSDLDRWLER 49 (51)
T ss_pred EEeHHHHHHHHHh
Confidence 4888999999975
No 96
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=21.79 E-value=1.1e+02 Score=24.53 Aligned_cols=24 Identities=17% Similarity=0.286 Sum_probs=16.3
Q ss_pred hHHHhhhhhHHhhhhhhhHHHHHH
Q 031724 105 TGLSLAAGAVFGWTFGQEFANHYL 128 (154)
Q Consensus 105 a~ls~l~G~~~G~~~G~EvAnh~l 128 (154)
+++++++|.++|+.+..-..+.-+
T Consensus 6 ~i~~~~vG~~~G~~~~~~~~~~~~ 29 (201)
T PF12072_consen 6 AIVALIVGIGIGYLVRKKINRKKL 29 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777888888887665555443
No 97
>COG3619 Predicted membrane protein [Function unknown]
Probab=21.61 E-value=88 Score=26.42 Aligned_cols=24 Identities=29% Similarity=0.238 Sum_probs=21.1
Q ss_pred hHHHhhhhhHHhhhhhhhHHHHHH
Q 031724 105 TGLSLAAGAVFGWTFGQEFANHYL 128 (154)
Q Consensus 105 a~ls~l~G~~~G~~~G~EvAnh~l 128 (154)
..++|..|+++|..++.++..+++
T Consensus 177 ~il~f~~GAi~g~ll~~~~g~~al 200 (226)
T COG3619 177 LILSFIVGAICGALLTLFFGLKAL 200 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHH
Confidence 568999999999999999988764
No 98
>PRK15138 aldehyde reductase; Provisional
Probab=21.55 E-value=2.7e+02 Score=24.27 Aligned_cols=78 Identities=12% Similarity=-0.015 Sum_probs=41.8
Q ss_pred hHHHHHHHH--hhhhhhhhhhhh------hhhhhhc---cCcchhHHHhhhhhHHhhhhhhhHHHHHHHHhh-c------
Q 031724 72 SAREAVNFA--LAGSLIGAVSTA------GVAWKYS---RSLHGTGLSLAAGAVFGWTFGQEFANHYLQLYR-M------ 133 (154)
Q Consensus 72 ~~Rea~~fa--~aGa~vGa~~ta------gva~kYS---ks~hGa~ls~l~G~~~G~~~G~EvAnh~lqLYk-~------ 133 (154)
.+|+....| ++|..+...+++ ++++..+ .-|||.+++++.-.++-+..-. ..+-..|+++ +
T Consensus 239 ~aR~~m~~as~lag~a~~~~g~~~~~~~Hal~h~lg~~~~i~HG~~~ai~lP~vl~~~~~~-~~~k~~~~a~~~~~~~~~ 317 (387)
T PRK15138 239 DVRANVMWAATQALNGLIGAGVPQDWATHMLGHELTAMHGLDHAQTLAIVLPALWNEKRDT-KRAKLLQYAERVWNITEG 317 (387)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCCchhhhhcchhhhccCCchHHHHHHHHHHHHHHhhhh-CHHHHHHHHHHHcCCCCC
Confidence 455544332 344444433333 4455544 4699999999999998765432 2233344433 1
Q ss_pred chhhhhHHHHHHHHHHh
Q 031724 134 DTLAAQSKFMEWWEAKC 150 (154)
Q Consensus 134 d~~~a~~kFl~WWE~K~ 150 (154)
+..+.-.++++++++-.
T Consensus 318 ~~~~~~~~~i~~i~~l~ 334 (387)
T PRK15138 318 SDDERIDAAIAATRNFF 334 (387)
T ss_pred ChHHHHHHHHHHHHHHH
Confidence 11122246777776543
No 99
>PF06222 Phage_TAC: Phage tail assembly chaperone; InterPro: IPR010411 This entry is represented by Bacteriophage HK97, Gp13 and Gp14. These are two overlapping reading frames []. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. These proteins include several putative tail assembly chaperones encoded by phages of Gram-negative bacteria.; PDB: 2OB9_A.
Probab=21.46 E-value=93 Score=24.88 Aligned_cols=40 Identities=20% Similarity=0.313 Sum_probs=26.2
Q ss_pred hhhhhhcCCCCCCCCCchhhHHhhhcCCCCchhH-HhHHHHHHH
Q 031724 37 NYTRFTKREKPLPSWSPSDVDAFIATDPVHGPAL-KSAREAVNF 79 (154)
Q Consensus 37 ~y~~~~~RdkPLP~Ws~sDVeeFIaSDPVyGP~L-K~~Rea~~f 79 (154)
-|-+++--...-|-.|++|.++-++ +|||.= +.+++|..+
T Consensus 77 LFidVL~dE~~~rVFsd~D~~~V~~---~YGPVHaRLl~qALeL 117 (127)
T PF06222_consen 77 LFIDVLLDEDGQRVFSDDDAEQVAA---IYGPVHARLLRQALEL 117 (127)
T ss_dssp HHHHHEE-TTS-BSS-GGGHHHHHC---C--HHHHHHHHHHHTT
T ss_pred hhhHHHhcCCCCcccCcchHHHHHH---HhchHHHHHHHHHHHh
Confidence 3556666677779999999999886 799974 556777665
No 100
>TIGR03726 strep_RK_lipo putative cross-wall-targeting lipoprotein signal. The YSIRK signal domain targets proteins to the cross-wall, or septum, of dividing Gram-positive bacterial. Lipoprotein signal motifs direct a characteristic N-terminal cleavage and lipid modification for membrane anchoring. This Streptococcal-only signal peptide variant appears to be a hybrid between the two, likely directing protein targeting of nascent surface lipoproteins to the cross-wall. Nearly all members of this family have the characteristic LPXTG cell wall anchor signal at the C-terminus.
Probab=21.31 E-value=62 Score=20.80 Aligned_cols=16 Identities=44% Similarity=0.663 Sum_probs=12.6
Q ss_pred Hhhhhhhhhhhhhhhh
Q 031724 80 ALAGSLIGAVSTAGVA 95 (154)
Q Consensus 80 a~aGa~vGa~~tagva 95 (154)
.+-|+++|++.|+.++
T Consensus 11 tLCGa~Lgt~~~~~~a 26 (34)
T TIGR03726 11 TLCGAALGTAVTASVA 26 (34)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 3678999988888776
No 101
>PRK05963 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed
Probab=21.30 E-value=31 Score=28.08 Aligned_cols=68 Identities=15% Similarity=0.149 Sum_probs=38.6
Q ss_pred CCCchhhHHhhhcCCCCchhHHhHHHH------------HHHHhhhhhh--hhhhhhhhhhhhccCcchhHHHhhhhhHH
Q 031724 50 SWSPSDVDAFIATDPVHGPALKSAREA------------VNFALAGSLI--GAVSTAGVAWKYSRSLHGTGLSLAAGAVF 115 (154)
Q Consensus 50 ~Ws~sDVeeFIaSDPVyGP~LK~~Rea------------~~fa~aGa~v--Ga~~tagva~kYSks~hGa~ls~l~G~~~ 115 (154)
.++.+|||-|+- -+.-.+.++.+++. .++|++|++= =+++.+--.-+..+.-+..+++++.|..+
T Consensus 241 gl~~~did~~~~-h~~~~~~~~~~~~~l~l~~~k~~~~l~~~Gn~~sas~~~~L~~~~~~~~~~~Gd~vll~~~G~G~~~ 319 (326)
T PRK05963 241 AMTPQDIDRFFP-HQANARIVDKVCETIGIPRAKAASTLETYGNSSAATIPLSLSLANLEQPLREGERLLFAAAGAGMTG 319 (326)
T ss_pred CCCHHHCCEEEe-CCCCHHHHHHHHHHcCCCHHHhhhhHHhhCcHHHHHHHHHHHHHHHhCCCCCCCEEEEEEEehhhhh
Confidence 377899997776 66777777877766 4455554321 11111111112334446677788777766
Q ss_pred hhh
Q 031724 116 GWT 118 (154)
Q Consensus 116 G~~ 118 (154)
|.+
T Consensus 320 ~~~ 322 (326)
T PRK05963 320 GAV 322 (326)
T ss_pred eee
Confidence 654
No 102
>TIGR03718 R_switched_Alx integral membrane protein, TerC family. Rfam model RF00080 describes a structured RNA element called the yybP-ykoY leader, or SraF, which may precede one or several genes in a genome. Members of this highly hydrophobic protein family often are preceded by a yybP-ykoY leader, which may serve as a riboswitch. From the larger group of TerC homologs (pfam03741), this subfamily contains TerC itself from Alcaligenes sp. plasmid IncHI2 pMER610 and from Proteus mirabilis. It also contains the alkaline-inducible E. coli protein Alx, which unlike the two TerC examples is preceded by a yybP-ykoY leader.
Probab=21.24 E-value=1e+02 Score=27.15 Aligned_cols=32 Identities=25% Similarity=0.312 Sum_probs=27.4
Q ss_pred hHHHhhhhhHHhhhhhhhHHHHHHHHhhcchh
Q 031724 105 TGLSLAAGAVFGWTFGQEFANHYLQLYRMDTL 136 (154)
Q Consensus 105 a~ls~l~G~~~G~~~G~EvAnh~lqLYk~d~~ 136 (154)
+++|+++|+.+.+..|.|.|--.+++|=+++.
T Consensus 43 v~la~~F~~~i~~~~g~~~~~~f~tg~llE~~ 74 (302)
T TIGR03718 43 VSLALLFGGGVWFYLGGEAALEFLTGYLIEKS 74 (302)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 56889999999999999999999999977653
No 103
>PF09988 DUF2227: Uncharacterized metal-binding protein (DUF2227); InterPro: IPR019250 This entry represents hypothetical bacterial proteins that possess metal binding properties; however, their exact function has not yet been determined.
Probab=21.21 E-value=1.8e+02 Score=23.52 Aligned_cols=59 Identities=22% Similarity=0.292 Sum_probs=35.9
Q ss_pred hhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhh--hhhhh----------hhccCcchhHHHhhhhhHHhh
Q 031724 59 FIATDPVHGPALKSAREAVNFALAGSLIGAVST--AGVAW----------KYSRSLHGTGLSLAAGAVFGW 117 (154)
Q Consensus 59 FIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~t--agva~----------kYSks~hGa~ls~l~G~~~G~ 117 (154)
|+---||.||.+|.+-=+.-+++.+.++.++.- .++.+ +.-++..-..+++++|-..|.
T Consensus 78 ~lSH~piiGt~~RllYL~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~Gl~l~~ 148 (169)
T PF09988_consen 78 FLSHGPIIGTLLRLLYLALWLLLLLILLLWLLQSLWGLNWPWLSLASWLQRLLRQYPEELLAFLIGLELGA 148 (169)
T ss_pred cccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCCchhHHHHHHHHHHhCHHHHHHHHHHHHHHH
Confidence 334469999999998887777766666654432 12222 233444456677776665554
No 104
>COG5425 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]
Probab=20.85 E-value=60 Score=24.70 Aligned_cols=27 Identities=22% Similarity=0.514 Sum_probs=17.7
Q ss_pred HHHHHhh-----cchhhhh-HHHHHHHHHHhcc
Q 031724 126 HYLQLYR-----MDTLAAQ-SKFMEWWEAKCAE 152 (154)
Q Consensus 126 h~lqLYk-----~d~~~a~-~kFl~WWE~K~~g 152 (154)
|.||+|- +-+.=++ .+|||.|++|.+|
T Consensus 30 ~lLQ~yvWQdYDlAP~FP~l~~Fl~fWq~~ldG 62 (90)
T COG5425 30 SLLQLYVWQDYDLAPEFPVLKGFLDFWQRELDG 62 (90)
T ss_pred HHHHHHHHhhcccCcccHHHHHHHHHHHHhccC
Confidence 3566653 3333333 4799999999887
No 105
>cd06071 Beach BEACH (Beige and Chediak-Higashi) domains, implicated in membrane trafficking, are present in a family of proteins conserved throughout eukaryotes. This group contains human lysosomal trafficking regulator (LYST), LPS-responsive and beige-like anchor (LRBA) and neurobeachin. Disruption of LYST leads to Chediak-Higashi syndrome, characterized by severe immunodeficiency, albinism, poor blood coagulation and neurologic problems. Neurobeachin is a candidate gene linked to autism. LBRA seems to be upregulated in several cancer types. It has been shown that the BEACH domain itself is important for the function of these proteins.
Probab=20.84 E-value=52 Score=28.31 Aligned_cols=36 Identities=33% Similarity=0.626 Sum_probs=24.9
Q ss_pred hhhhhhhh-h-------cCCCCCCCCCchhhHHhhhcCCCCchhHHhHHHHHHHH
Q 031724 34 FLENYTRF-T-------KREKPLPSWSPSDVDAFIATDPVHGPALKSAREAVNFA 80 (154)
Q Consensus 34 fl~~y~~~-~-------~RdkPLP~Ws~sDVeeFIaSDPVyGP~LK~~Rea~~fa 80 (154)
||.|-..+ + -.|--||+|.+++ ++||. .+|+|.+--
T Consensus 159 ~f~N~n~~~lg~~~g~~~~DV~LP~Wa~s~-~~FV~----------~~R~aLES~ 202 (275)
T cd06071 159 FFLNINKFDFGKQDGEKVNDVELPPWAKSP-EEFIR----------KHREALESE 202 (275)
T ss_pred HHhCCCcccccccCCCcccceecCCCcCCH-HHHHH----------HHHHHHccc
Confidence 55555555 2 2678899999999 88874 566665543
No 106
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=20.74 E-value=73 Score=22.29 Aligned_cols=18 Identities=17% Similarity=0.468 Sum_probs=11.0
Q ss_pred chhHHHhhhhhHHhhhhh
Q 031724 103 HGTGLSLAAGAVFGWTFG 120 (154)
Q Consensus 103 hGa~ls~l~G~~~G~~~G 120 (154)
..+++++++|.++|+.++
T Consensus 75 ~svgiAagvG~llG~Ll~ 92 (94)
T PF05957_consen 75 QSVGIAAGVGFLLGLLLR 92 (94)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 345566666667666654
No 107
>PRK09444 pntB pyridine nucleotide transhydrogenase; Provisional
Probab=20.59 E-value=1.1e+02 Score=28.89 Aligned_cols=49 Identities=18% Similarity=0.364 Sum_probs=33.4
Q ss_pred HhHHHHHHHHhhhhhhhhhhhhhhhhhhc-cCcchhHHHhhhhhHHhhhhhhh
Q 031724 71 KSAREAVNFALAGSLIGAVSTAGVAWKYS-RSLHGTGLSLAAGAVFGWTFGQE 122 (154)
Q Consensus 71 K~~Rea~~fa~aGa~vGa~~tagva~kYS-ks~hGa~ls~l~G~~~G~~~G~E 122 (154)
||+|..-.+|..|-+++-+.|= +... .+..-.+++++.|+++|+..++-
T Consensus 28 ~TAr~GN~lg~~Gm~~av~~tl---~~~~~~~~~~~~~~~~~G~~iG~~~A~~ 77 (462)
T PRK09444 28 ETSRQGNNFGIAGMAIALIATI---FGPDTGNVGWIIIAMVIGGAIGIRLAKK 77 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---hccccccHHHHHHHHHHHHHHhHHheeE
Confidence 7999999999999999888884 1110 12223445666777777776643
No 108
>PF01169 UPF0016: Uncharacterized protein family UPF0016; InterPro: IPR001727 A number of uncharacterised proteins share regions of similarities. These include, Saccharomyces cerevisiae (Baker's yeast) hypothetical protein YBR187w. Schizosaccharomyces pombe (Fission yeast) hypothetical protein SpAC17G8.08c. Mus musculus (Mouse) protein pFT27. Synechocystis sp. (strain PCC 6803) hypothetical protein sll0615. These are hydrophobic proteins of 200 to 320 amino acids that seem to contain six or seven transmembrane domains.; GO: 0016020 membrane
Probab=20.34 E-value=1.4e+02 Score=20.90 Aligned_cols=36 Identities=22% Similarity=0.204 Sum_probs=21.1
Q ss_pred hhhhhhhhhccCcchhHH----HhhhhhHHhhhhhhhHHH
Q 031724 90 STAGVAWKYSRSLHGTGL----SLAAGAVFGWTFGQEFAN 125 (154)
Q Consensus 90 ~tagva~kYSks~hGa~l----s~l~G~~~G~~~G~EvAn 125 (154)
.|...|-+|+++|-.+.+ ++..=.+++.++|+=+++
T Consensus 20 ~t~~La~~~~~~~~~V~~G~~~al~~~~~lav~~G~~l~~ 59 (78)
T PF01169_consen 20 ATIALAARYPRNPWPVFAGATLALALATGLAVLLGSWLAS 59 (78)
T ss_pred HHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467778888888654443 344444455566655443
No 109
>PF10439 Bacteriocin_IIc: Bacteriocin class II with double-glycine leader peptide; InterPro: IPR019493 Bacteriocins are proteinaceous toxins produced by bacteria to inhibit the growth of similar or closely related strains. The producer bacteria are protected from the effects of their own bacteriocins by production of a specific immunity protein which is co-transcribed with the genes encoding the bacteriocins, e.g. IPR015046 from INTERPRO. The bacteriocins are structurally more specific than their immunity-protein counterparts. Typically, production of the bacteriocin gene is from within an operon carrying up to 6 genes including a typical two-component regulatory system (R and H), a small peptide pheromone (C), and a dedicated ABC transporter (A and -B) as well as an immunity protein []. The ABC transporter is thought to recognise the N termini of both the pheromone and the bacteriocins and to transport these peptides across the cytoplasmic membrane, concurrent with cleavage at the conserved double-glycine motif. Cleaved extracellular C can then bind to the sensor kinase, H, resulting in activation of R and up-regulation of the entire gene cluster via binding to consensus sequences within each promoter []. It seems likely that the whole regulon is carried on a transmissible plasmid which is passed between closely related Firmicute species since many clinical isolates from different Firmicutes can produce at least two bacteriocins, and the same bacteriocins can be produced by different species. The proteins in this entry include amylovorin-L, lactacin-F and salivaricin CRL 1328, all of them class IIb two-peptide bacteriocins.
Probab=20.33 E-value=2e+02 Score=19.37 Aligned_cols=14 Identities=36% Similarity=0.620 Sum_probs=6.5
Q ss_pred HHhhhhhHHhhhhh
Q 031724 107 LSLAAGAVFGWTFG 120 (154)
Q Consensus 107 ls~l~G~~~G~~~G 120 (154)
...++|++.|.++|
T Consensus 47 ~g~~~Ga~~G~~~G 60 (65)
T PF10439_consen 47 VGAVAGAIVGAAVG 60 (65)
T ss_pred hHHHHHHHHHHHHH
Confidence 34444555544443
No 110
>PF12315 DUF3633: Protein of unknown function (DUF3633); InterPro: IPR022087 This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length. The family is found in association with PF00412 from PFAM.
Probab=20.19 E-value=76 Score=27.13 Aligned_cols=17 Identities=47% Similarity=0.726 Sum_probs=15.5
Q ss_pred cCCCCchhHHhHHHHHH
Q 031724 62 TDPVHGPALKSAREAVN 78 (154)
Q Consensus 62 SDPVyGP~LK~~Rea~~ 78 (154)
+|||||==.+++++|+.
T Consensus 181 ~SpvYGdGFRaa~~av~ 197 (212)
T PF12315_consen 181 TSPVYGDGFRAANEAVE 197 (212)
T ss_pred CCcccchHHHHHHHHHH
Confidence 57999999999999986
No 111
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=20.09 E-value=2.9e+02 Score=22.03 Aligned_cols=31 Identities=23% Similarity=0.432 Sum_probs=21.0
Q ss_pred hhhhhhhh-hcCCCCCCC-CCchhhHHhhhcCCCCc
Q 031724 34 FLENYTRF-TKREKPLPS-WSPSDVDAFIATDPVHG 67 (154)
Q Consensus 34 fl~~y~~~-~~RdkPLP~-Ws~sDVeeFIaSDPVyG 67 (154)
.+..|-.+ .+|-.++|. |.|+||+| -.+.||
T Consensus 50 mig~yl~~~~rr~~~rPED~~daEI~d---gAGe~G 82 (137)
T PF12270_consen 50 MIGFYLRFTARRIGPRPEDREDAEIAD---GAGELG 82 (137)
T ss_pred HHHHHHHHHHhhCCCCCcccccccccc---CCCCcC
Confidence 34556666 556678887 99999986 345555
No 112
>PRK00235 cobS cobalamin synthase; Reviewed
Probab=20.02 E-value=3.5e+02 Score=22.26 Aligned_cols=39 Identities=36% Similarity=0.579 Sum_probs=23.9
Q ss_pred CCCCCCchhhHHhhhcCCCCchhHHhHHHHHHHHhhhhhhhhhhhhhhhhhhc
Q 031724 47 PLPSWSPSDVDAFIATDPVHGPALKSAREAVNFALAGSLIGAVSTAGVAWKYS 99 (154)
Q Consensus 47 PLP~Ws~sDVeeFIaSDPVyGP~LK~~Rea~~fa~aGa~vGa~~tagva~kYS 99 (154)
|+|.|.+.|-|+|- |-.+-|-++|.++|++. +.+.+-.+
T Consensus 18 Pvp~~~~~~~~~~~-------------~~~~~~PlvGl~iG~i~-~~~~~l~~ 56 (249)
T PRK00235 18 PVPGSVGGDPEDLR-------------RAARAFPLVGLLLGALA-ALVYWLLQ 56 (249)
T ss_pred cCCCCCCCCHHHHH-------------HHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 77766554544442 33556788999999765 44444443
No 113
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=20.02 E-value=77 Score=21.02 Aligned_cols=20 Identities=20% Similarity=0.688 Sum_probs=14.1
Q ss_pred HhHHhHhhHHhHHHHHhhhh
Q 031724 13 QQSFFRKHWEGYKEFWGERF 32 (154)
Q Consensus 13 ~~~~~k~~weg~K~~W~e~F 32 (154)
...-++.+|+.+|+.|++..
T Consensus 41 ~~~~~~~f~~~fk~nf~~~~ 60 (77)
T PF04854_consen 41 DSYLFRDFWRAFKQNFKQSL 60 (77)
T ss_pred cChHHHHHHHHHHHHHHHHH
Confidence 45667788888887777653
Done!