Query 029023
Match_columns 200
No_of_seqs 66 out of 68
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 06:15:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029023.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029023hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06103 DUF948: Bacterial pro 98.4 8.6E-06 1.9E-10 59.5 11.3 86 95-184 2-87 (90)
2 COG4768 Uncharacterized protei 96.2 0.15 3.3E-06 42.4 12.0 101 91-191 3-106 (139)
3 PF06103 DUF948: Bacterial pro 95.9 0.3 6.5E-06 35.6 11.5 75 89-163 3-77 (90)
4 PRK15048 methyl-accepting chem 87.7 15 0.00032 34.1 12.6 53 132-184 258-310 (553)
5 PRK09793 methyl-accepting prot 82.9 41 0.00089 31.4 13.3 51 134-184 258-308 (533)
6 PF05659 RPW8: Arabidopsis bro 81.4 18 0.00039 29.6 9.1 45 123-168 35-80 (147)
7 PRK15041 methyl-accepting chem 80.6 48 0.001 31.3 12.9 32 139-170 267-298 (554)
8 TIGR01386 cztS_silS_copS heavy 80.4 20 0.00043 30.8 9.5 35 147-181 218-252 (457)
9 PRK10755 sensor protein BasS/P 78.3 30 0.00066 29.3 9.9 31 103-133 68-98 (356)
10 PF06305 DUF1049: Protein of u 77.6 19 0.00041 24.6 7.1 46 89-136 20-65 (68)
11 PRK00708 sec-independent trans 75.1 45 0.00098 29.4 10.3 23 115-137 30-52 (209)
12 COG0811 TolQ Biopolymer transp 73.3 16 0.00035 31.1 7.0 36 95-134 166-201 (216)
13 PRK10600 nitrate/nitrite senso 73.3 54 0.0012 30.4 10.9 33 146-178 184-216 (569)
14 cd00193 t_SNARE Soluble NSF (N 70.5 21 0.00046 22.8 5.6 47 137-183 13-59 (60)
15 PRK10337 sensor protein QseC; 70.3 34 0.00073 29.8 8.4 17 117-133 182-198 (449)
16 PRK09835 sensor kinase CusS; P 70.2 74 0.0016 27.8 10.8 23 147-169 239-261 (482)
17 PRK10815 sensor protein PhoQ; 68.1 58 0.0013 30.2 9.9 13 115-127 217-229 (485)
18 PRK04654 sec-independent trans 66.1 81 0.0018 28.2 10.0 58 116-178 31-88 (214)
19 PF11221 Med21: Subunit 21 of 64.8 52 0.0011 26.4 7.9 64 119-186 80-143 (144)
20 TIGR03785 marine_sort_HK prote 64.5 72 0.0016 31.3 10.3 16 148-163 463-478 (703)
21 PF14584 DUF4446: Protein of u 61.6 62 0.0013 26.8 8.0 22 107-128 15-36 (151)
22 PLN03094 Substrate binding sub 59.9 56 0.0012 30.8 8.3 54 129-184 259-312 (370)
23 PRK10935 nitrate/nitrite senso 59.4 1.4E+02 0.003 27.0 11.1 33 149-181 215-247 (565)
24 PF05529 Bap31: B-cell recepto 58.8 1E+02 0.0022 25.3 10.1 86 84-178 99-185 (192)
25 TIGR01386 cztS_silS_copS heavy 57.8 1.2E+02 0.0027 26.0 10.1 16 148-163 233-248 (457)
26 COG2165 PulG Type II secretory 57.4 41 0.00088 24.4 5.6 59 87-148 8-66 (149)
27 PRK01770 sec-independent trans 57.2 99 0.0022 26.5 8.7 19 117-135 32-50 (171)
28 PRK09470 cpxA two-component se 56.3 1.3E+02 0.0029 26.0 9.9 24 146-169 219-242 (461)
29 PF11887 DUF3407: Protein of u 55.2 94 0.002 27.3 8.5 78 106-183 43-123 (267)
30 PRK11107 hybrid sensory histid 54.7 2E+02 0.0043 27.7 11.1 15 148-162 232-246 (919)
31 PRK00708 sec-independent trans 52.7 1.6E+02 0.0036 26.0 9.5 44 87-130 7-52 (209)
32 PF05633 DUF793: Protein of un 51.0 54 0.0012 31.4 6.7 98 87-184 243-367 (389)
33 PF10824 DUF2580: Protein of u 50.3 83 0.0018 21.8 8.6 68 116-183 11-96 (100)
34 TIGR01710 typeII_sec_gspG gene 49.8 1.2E+02 0.0027 23.6 8.2 12 108-119 20-31 (134)
35 TIGR00996 Mtu_fam_mce virulenc 49.1 1.2E+02 0.0025 26.0 7.9 18 117-134 169-186 (291)
36 PRK10935 nitrate/nitrite senso 48.9 1.9E+02 0.0042 26.1 9.6 30 147-176 206-235 (565)
37 PRK09467 envZ osmolarity senso 48.2 1.3E+02 0.0028 26.1 8.1 14 148-161 207-220 (435)
38 PRK10600 nitrate/nitrite senso 48.1 2.1E+02 0.0045 26.7 9.9 47 138-184 183-229 (569)
39 PRK04654 sec-independent trans 47.1 2.1E+02 0.0046 25.6 10.2 25 146-170 67-91 (214)
40 PF05802 EspB: Enterobacterial 46.8 91 0.002 29.4 7.3 61 117-177 152-212 (317)
41 PRK10983 putative inner membra 46.2 2.4E+02 0.0052 25.9 9.9 43 105-147 74-121 (368)
42 PF14341 PilX_N: PilX N-termin 46.2 35 0.00076 23.1 3.5 22 161-182 30-51 (51)
43 PF00672 HAMP: HAMP domain; I 46.2 3 6.6E-05 27.7 -1.7 46 117-164 20-69 (70)
44 COG4768 Uncharacterized protei 46.0 1.8E+02 0.004 24.5 12.0 93 89-181 8-114 (139)
45 TIGR02797 exbB tonB-system ene 43.2 88 0.0019 26.5 6.2 23 107-129 174-196 (211)
46 PRK10414 biopolymer transport 42.7 84 0.0018 27.7 6.2 28 106-133 184-211 (244)
47 TIGR00996 Mtu_fam_mce virulenc 42.4 1.9E+02 0.0041 24.7 8.2 37 133-169 209-245 (291)
48 PRK10801 colicin uptake protei 39.9 1.4E+02 0.003 25.9 7.1 27 106-132 178-204 (227)
49 PRK10549 signal transduction h 38.8 2.7E+02 0.0058 24.3 10.3 20 147-166 217-236 (466)
50 PRK11360 sensory histidine kin 38.3 1.9E+02 0.0042 25.3 7.7 19 147-165 241-259 (607)
51 PF07465 PsaM: Photosystem I p 38.1 43 0.00094 21.4 2.8 16 103-118 7-22 (29)
52 TIGR02796 tolQ TolQ protein. T 36.7 1.3E+02 0.0027 25.7 6.2 26 106-131 177-202 (215)
53 PF05739 SNARE: SNARE domain; 36.2 1.3E+02 0.0028 19.9 6.0 50 135-184 9-58 (63)
54 PRK15347 two component system 36.1 3.4E+02 0.0074 26.3 9.6 15 148-162 351-365 (921)
55 CHL00190 psaM photosystem I su 36.1 46 0.001 21.5 2.7 15 104-118 9-23 (30)
56 PF02203 TarH: Tar ligand bind 36.0 56 0.0012 24.9 3.7 30 99-128 15-44 (171)
57 smart00397 t_SNARE Helical reg 35.6 1.2E+02 0.0026 19.4 5.6 43 141-183 23-65 (66)
58 TIGR03053 PS_I_psaM photosyste 35.4 49 0.0011 21.1 2.7 16 103-118 7-22 (29)
59 PF04906 Tweety: Tweety; Inte 34.7 3.5E+02 0.0077 25.4 9.3 21 168-188 142-162 (406)
60 COG4191 Signal transduction hi 34.2 5.3E+02 0.011 26.4 12.8 40 147-187 338-381 (603)
61 PRK10807 paraquat-inducible pr 33.4 2.3E+02 0.005 27.7 8.1 18 112-129 443-460 (547)
62 PF12732 YtxH: YtxH-like prote 33.0 1.8E+02 0.0039 20.6 6.7 19 90-108 1-19 (74)
63 PRK10506 hypothetical protein; 32.9 1.6E+02 0.0035 23.7 6.1 47 86-134 8-60 (162)
64 PRK10574 putative major pilin 31.9 1.6E+02 0.0035 24.0 5.9 24 106-129 22-45 (146)
65 PF04740 LXG: LXG domain of WX 31.8 2.8E+02 0.006 22.4 8.8 50 148-197 153-202 (204)
66 COG3074 Uncharacterized protei 31.7 2.2E+02 0.0047 22.0 6.1 39 127-165 5-43 (79)
67 PF11812 DUF3333: Domain of un 31.3 66 0.0014 26.8 3.6 29 83-111 9-37 (155)
68 PF09177 Syntaxin-6_N: Syntaxi 30.7 2.2E+02 0.0049 21.0 6.6 59 116-179 9-67 (97)
69 PRK11107 hybrid sensory histid 30.0 5.2E+02 0.011 25.0 10.0 24 146-169 237-260 (919)
70 PRK11878 psaM photosystem I re 29.7 66 0.0014 21.3 2.7 16 103-118 11-26 (34)
71 PF11172 DUF2959: Protein of u 29.7 4E+02 0.0087 23.6 8.9 57 128-184 135-200 (201)
72 TIGR02805 exbB2 tonB-system en 29.3 2E+02 0.0044 23.9 6.1 25 106-130 109-133 (138)
73 PRK13561 putative diguanylate 29.0 4.6E+02 0.01 24.8 9.1 44 90-133 141-184 (651)
74 PRK11091 aerobic respiration c 28.6 5.5E+02 0.012 24.8 12.6 16 172-187 148-163 (779)
75 PRK04098 sec-independent trans 28.6 3.7E+02 0.0081 22.9 8.8 21 116-136 31-51 (158)
76 PRK10604 sensor protein RstB; 28.5 4.3E+02 0.0094 23.6 9.3 18 148-165 190-207 (433)
77 PF12729 4HB_MCP_1: Four helix 28.3 2.4E+02 0.0051 20.6 10.9 17 111-127 24-40 (181)
78 smart00283 MA Methyl-accepting 28.2 3E+02 0.0066 21.8 8.5 29 114-142 41-69 (262)
79 TIGR01708 typeII_sec_gspH gene 28.0 2.7E+02 0.0059 21.4 6.3 26 108-133 23-54 (143)
80 PF08397 IMD: IRSp53/MIM homol 27.8 3.7E+02 0.008 22.6 8.0 15 112-126 10-24 (219)
81 PF01618 MotA_ExbB: MotA/TolQ/ 27.7 2.6E+02 0.0057 21.7 6.2 26 107-132 110-135 (139)
82 PF07332 DUF1469: Protein of u 27.5 1.4E+02 0.0029 22.4 4.5 19 125-143 101-119 (121)
83 PF00804 Syntaxin: Syntaxin; 27.5 2.2E+02 0.0047 19.8 6.1 24 147-170 45-68 (103)
84 PLN03094 Substrate binding sub 27.3 4.5E+02 0.0097 24.9 8.7 45 113-159 268-312 (370)
85 PRK06041 flagellar assembly pr 27.2 6E+02 0.013 24.9 10.9 72 110-190 59-140 (553)
86 PF00015 MCPsignal: Methyl-acc 26.8 3.1E+02 0.0067 21.4 8.9 6 115-120 65-70 (213)
87 PF04375 HemX: HemX; InterPro 26.5 5.1E+02 0.011 23.8 13.8 6 178-183 113-118 (372)
88 PF15195 TMEM210: TMEM210 fami 25.7 40 0.00087 27.4 1.4 35 82-116 7-42 (116)
89 PLN02678 seryl-tRNA synthetase 24.6 6.5E+02 0.014 24.3 9.9 81 111-191 32-115 (448)
90 smart00787 Spc7 Spc7 kinetocho 24.4 5.1E+02 0.011 23.7 8.3 65 117-181 191-262 (312)
91 PRK15422 septal ring assembly 24.3 3.4E+02 0.0073 21.0 6.5 55 127-182 5-59 (79)
92 PF05478 Prominin: Prominin; 24.1 6.5E+02 0.014 25.6 9.7 46 110-155 157-202 (806)
93 PF05957 DUF883: Bacterial pro 23.9 3E+02 0.0064 20.2 8.4 65 116-183 6-71 (94)
94 COG4726 PilX Tfp pilus assembl 23.5 1.2E+02 0.0026 26.8 4.0 21 167-187 55-75 (196)
95 PRK00182 tatB sec-independent 23.4 3.7E+02 0.0081 23.0 6.8 23 115-137 31-53 (160)
96 PRK09470 cpxA two-component se 23.3 4.9E+02 0.011 22.5 10.5 10 118-127 195-204 (461)
97 PF15463 ECM11: Extracellular 23.0 2.3E+02 0.0051 22.6 5.3 51 113-163 88-138 (139)
98 PRK11546 zraP zinc resistance 22.6 4.6E+02 0.01 21.9 8.8 39 149-189 91-129 (143)
99 TIGR02596 Verrucomicrobium spi 22.5 3.9E+02 0.0085 23.2 6.9 26 108-133 18-49 (195)
100 COG4842 Uncharacterized protei 22.3 1.7E+02 0.0037 22.0 4.1 31 153-183 63-93 (97)
101 PF12631 GTPase_Cys_C: Catalyt 22.3 2.2E+02 0.0049 20.1 4.6 43 112-159 13-55 (73)
102 PF06013 WXG100: Proteins of 1 21.9 2.4E+02 0.0053 18.5 8.2 32 148-179 55-86 (86)
103 PRK09835 sensor kinase CusS; P 21.1 5.7E+02 0.012 22.4 8.4 10 146-155 245-254 (482)
104 KOG0963 Transcription factor/C 21.0 2.7E+02 0.0059 28.6 6.3 74 119-192 372-445 (629)
105 PRK01919 tatB sec-independent 20.7 5.6E+02 0.012 22.2 10.7 21 117-137 32-52 (169)
106 PRK07945 hypothetical protein; 20.6 67 0.0015 29.0 1.9 43 114-156 24-68 (335)
107 PF00015 MCPsignal: Methyl-acc 20.6 4.2E+02 0.0091 20.7 9.2 13 81-93 69-81 (213)
108 PRK03100 sec-independent trans 20.4 4.8E+02 0.01 21.6 6.7 22 115-136 31-52 (136)
No 1
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=98.39 E-value=8.6e-06 Score=59.50 Aligned_cols=86 Identities=17% Similarity=0.177 Sum_probs=67.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHH
Q 029023 95 IACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAV 174 (200)
Q Consensus 95 ~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v 174 (200)
+++++|++|..++++.++++..+++..+++++..+.+.+++.+.+..+.-.-.+.+++++|+.+-.+++. ...+.+
T Consensus 2 a~lI~Aiaf~vLvi~l~~~l~~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~----~~~~~v 77 (90)
T PF06103_consen 2 AGLIAAIAFAVLVIFLIKVLKKLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVD----PVFEAV 77 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH----HHHHHH
Confidence 5678899999999999999999999999999999999999999998887777777777777665444433 333344
Q ss_pred HHHHHHHhhh
Q 029023 175 RIAEERLRQL 184 (200)
Q Consensus 175 ~~ae~~lrq~ 184 (200)
+.....++.+
T Consensus 78 ~~~g~~v~~l 87 (90)
T PF06103_consen 78 ADLGESVSEL 87 (90)
T ss_pred HHHHHHHHHH
Confidence 4444444443
No 2
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=96.16 E-value=0.15 Score=42.45 Aligned_cols=101 Identities=12% Similarity=0.111 Sum_probs=65.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhH---HHHHHhh
Q 029023 91 VLNVIACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLG---QEITQGV 167 (200)
Q Consensus 91 vL~v~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~---qei~~GV 167 (200)
+|.+++.++|+++.+|++..|-++..+.++-..++|-++.+.-++-+++..--.-=---+-|.+|+..=. +-+-+.|
T Consensus 3 ilyIs~~iiAiAf~vL~I~li~tlkkv~~tldevakt~~~l~~qv~gi~~eT~~Ll~K~N~L~eDvq~Kv~tld~vf~aV 82 (139)
T COG4768 3 ILYISLAIIAIAFLVLVIYLIITLKKVSKTLDEVAKTLKGLTSQVDGITHETEELLHKTNTLAEDVQGKVATLDPVFDAV 82 (139)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhHhHHHHHH
Confidence 5778899999999999999999999999999999999999988888775432111112222223322111 1123445
Q ss_pred hhhHHHHHHHHHHHhhhcCCCCCC
Q 029023 168 RSSTKAVRIAEERLRQLTNMNPSG 191 (200)
Q Consensus 168 rss~~~v~~ae~~lrq~~~~~~~~ 191 (200)
+.-++.|+..-+..|+.++.++.+
T Consensus 83 ~dl~~SV~~ln~s~r~~~~~~t~~ 106 (139)
T COG4768 83 KDLGQSVSDLNQSVRHLATRATNA 106 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhH
Confidence 555555666666666655554443
No 3
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=95.94 E-value=0.3 Score=35.60 Aligned_cols=75 Identities=8% Similarity=0.075 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHH
Q 029023 89 ILVLNVIACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEI 163 (200)
Q Consensus 89 l~vL~v~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei 163 (200)
.++.++++.++++.+.-++.-.-+++.++.+..+.+++=.|.+.+|...+++..+-.--++.+-+++++.+.+.+
T Consensus 3 ~lI~Aiaf~vLvi~l~~~l~~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v 77 (90)
T PF06103_consen 3 GLIAAIAFAVLVIFLIKVLKKLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNEKLEKVDPVFEAV 77 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 456777777778888888888899999999999999999999999999999999888888888777777555443
No 4
>PRK15048 methyl-accepting chemotaxis protein II; Provisional
Probab=87.73 E-value=15 Score=34.12 Aligned_cols=53 Identities=19% Similarity=0.236 Sum_probs=30.2
Q ss_pred HhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhh
Q 029023 132 REELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQL 184 (200)
Q Consensus 132 reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~ 184 (200)
.+.|-..+..++-+..+|++-++++++-++++..++......++..-+.+.++
T Consensus 258 ~~~l~~~i~~i~~~s~~v~~~s~el~~~~~~ls~~~~~qa~~i~~i~~s~eei 310 (553)
T PRK15048 258 QRSLTDTVTHVREGSDAIYAGTREIAAGNTDLSSRTEQQASALEETAASMEQL 310 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455666666666666666666666666666655555555544444443
No 5
>PRK09793 methyl-accepting protein IV; Provisional
Probab=82.92 E-value=41 Score=31.43 Aligned_cols=51 Identities=16% Similarity=0.192 Sum_probs=27.1
Q ss_pred hchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhh
Q 029023 134 ELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQL 184 (200)
Q Consensus 134 ELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~ 184 (200)
.|-.++..++-+..+++..+.+++...+++.+++...+..+...-+.+.++
T Consensus 258 ~L~~~i~~i~~~~~~~~~~~~eia~~~~~ls~~~e~qa~~~~~~~~s~~~~ 308 (533)
T PRK09793 258 ALRGTVSDVRKGSQEMHIGIAEIVAGNNDLSSRTEQQAASLAQTAASMEQL 308 (533)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455556655666666666665555555555555544444444444433
No 6
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=81.38 E-value=18 Score=29.58 Aligned_cols=45 Identities=16% Similarity=0.245 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhhchhhHHHHHhhhhhhhhh-hHHhhhhHHHHHHhhh
Q 029023 123 SLEKLMDVTREELPETMAAVRLSGMEISDL-TMELSDLGQEITQGVR 168 (200)
Q Consensus 123 SleKL~Dt~reELP~TLAAiRLSGlEIsDL-T~eLs~l~qei~~GVr 168 (200)
++++|-.|+ +.+-|+...|.-+|-|+.+- -.|+.+|.+.+.+|.+
T Consensus 35 ~l~~L~sTl-~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~ 80 (147)
T PF05659_consen 35 ILKRLESTL-ESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKE 80 (147)
T ss_pred HHHHHHHHH-HHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHH
Confidence 344444444 56778999999999999999 8888888888888864
No 7
>PRK15041 methyl-accepting chemotaxis protein I; Provisional
Probab=80.61 E-value=48 Score=31.29 Aligned_cols=32 Identities=13% Similarity=0.150 Sum_probs=13.2
Q ss_pred HHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhh
Q 029023 139 MAAVRLSGMEISDLTMELSDLGQEITQGVRSS 170 (200)
Q Consensus 139 LAAiRLSGlEIsDLT~eLs~l~qei~~GVrss 170 (200)
+..++-...+|.+-+.+++...+++.++....
T Consensus 267 i~~i~~~s~~v~~~s~els~~~~~ls~~~~~q 298 (554)
T PRK15041 267 VGDVRNGANAIYSGASEIATGNNDLSSRTEQQ 298 (554)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444444443333
No 8
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=80.41 E-value=20 Score=30.76 Aligned_cols=35 Identities=9% Similarity=0.142 Sum_probs=20.7
Q ss_pred hhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHH
Q 029023 147 MEISDLTMELSDLGQEITQGVRSSTKAVRIAEERL 181 (200)
Q Consensus 147 lEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~l 181 (200)
-||.++...++.+.+++.+-++...+..+.+-..|
T Consensus 218 dEi~~l~~~~n~m~~~l~~~~~~~~~~~~~~~h~l 252 (457)
T TIGR01386 218 AELRELAQSFNAMLGRLEDAFQRLSQFSADLAHEL 252 (457)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 47777777777766666666655554444443333
No 9
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=78.26 E-value=30 Score=29.30 Aligned_cols=31 Identities=10% Similarity=0.095 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029023 103 ATWLFFSAIPTLLALKGAAESLEKLMDVTRE 133 (200)
Q Consensus 103 ~t~ll~~aIPtllAlkRAA~SleKL~Dt~re 133 (200)
+.+++++.+-.++..++.-+-+++|.+.+.+
T Consensus 68 ~~~~~~~~~~~~~~~~~~~~pl~~l~~~~~~ 98 (356)
T PRK10755 68 LVMVSLTLLICFQAVRWITRPLAELQKELEA 98 (356)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHh
Confidence 3334444555667777777777777666654
No 10
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=77.61 E-value=19 Score=24.55 Aligned_cols=46 Identities=22% Similarity=0.267 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhch
Q 029023 89 ILVLNVIACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREELP 136 (200)
Q Consensus 89 l~vL~v~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reELP 136 (200)
+.++-++++++++ ....+..++.....+|..++++|=.+.+.+|+.
T Consensus 20 l~l~il~~f~~G~--llg~l~~~~~~~~~r~~~~~~~k~l~~le~e~~ 65 (68)
T PF06305_consen 20 LGLLILIAFLLGA--LLGWLLSLPSRLRLRRRIRRLRKELKKLEKELE 65 (68)
T ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3434334444443 334467788889999999999887777776653
No 11
>PRK00708 sec-independent translocase; Provisional
Probab=75.10 E-value=45 Score=29.41 Aligned_cols=23 Identities=17% Similarity=0.232 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhchh
Q 029023 115 LALKGAAESLEKLMDVTREELPE 137 (200)
Q Consensus 115 lAlkRAA~SleKL~Dt~reELP~ 137 (200)
..++|.-+.+.+..+-+++++-+
T Consensus 30 R~lGk~v~k~R~~a~e~r~~~~e 52 (209)
T PRK00708 30 RAFGKMTARMRKMAGEFRRQFDE 52 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555555544
No 12
>COG0811 TolQ Biopolymer transport proteins [Intracellular trafficking and secretion]
Probab=73.34 E-value=16 Score=31.08 Aligned_cols=36 Identities=25% Similarity=0.341 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029023 95 IACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREE 134 (200)
Q Consensus 95 ~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reE 134 (200)
++.++|+.+ ++|||++..-.+-.+..+++.+.+.+.
T Consensus 166 AL~aTA~GL----~vAIPAvi~yn~l~r~~~~~~~~~e~~ 201 (216)
T COG0811 166 ALIATAIGL----FVAIPAVVAYNVLRRKVEELLAKLEDF 201 (216)
T ss_pred HHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444 999999999888888888877655443
No 13
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=73.26 E-value=54 Score=30.38 Aligned_cols=33 Identities=18% Similarity=0.322 Sum_probs=15.6
Q ss_pred hhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHH
Q 029023 146 GMEISDLTMELSDLGQEITQGVRSSTKAVRIAE 178 (200)
Q Consensus 146 GlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae 178 (200)
+..++...++|+++.+++.+.|..-+..++++-
T Consensus 184 ~~~~n~M~~~L~~~~~~l~~~~~~~t~~l~~~~ 216 (569)
T PRK10600 184 GTALNNMSAELAESYAVLEQRVQEKTAGLEQKN 216 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555555555555554444444433
No 14
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=70.53 E-value=21 Score=22.81 Aligned_cols=47 Identities=17% Similarity=0.283 Sum_probs=38.8
Q ss_pred hhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhh
Q 029023 137 ETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQ 183 (200)
Q Consensus 137 ~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq 183 (200)
.++..++=.+.+|+++..+=++...+|.+.|..+..-++.+...|++
T Consensus 13 ~~i~~l~~l~~~i~~~v~~Q~~~ld~i~~~~~~~~~~~~~~~~~l~k 59 (60)
T cd00193 13 ASIGELKQIFLDLGTEVEEQGELLDRIEDNVDNADVNVKRANKRLKK 59 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34556666688999999888899999999999998888888887765
No 15
>PRK10337 sensor protein QseC; Provisional
Probab=70.34 E-value=34 Score=29.84 Aligned_cols=17 Identities=29% Similarity=0.204 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHh
Q 029023 117 LKGAAESLEKLMDVTRE 133 (200)
Q Consensus 117 lkRAA~SleKL~Dt~re 133 (200)
++|.-+.+.++.+.+++
T Consensus 182 ~~~~~~pl~~l~~~~~~ 198 (449)
T PRK10337 182 LGRELAPLKKLALALRM 198 (449)
T ss_pred HHhhhchHHHHHHHHHh
Confidence 45555555555555544
No 16
>PRK09835 sensor kinase CusS; Provisional
Probab=70.24 E-value=74 Score=27.78 Aligned_cols=23 Identities=13% Similarity=0.319 Sum_probs=14.6
Q ss_pred hhhhhhhHHhhhhHHHHHHhhhh
Q 029023 147 MEISDLTMELSDLGQEITQGVRS 169 (200)
Q Consensus 147 lEIsDLT~eLs~l~qei~~GVrs 169 (200)
-||.+|...++++.+++.+-+..
T Consensus 239 dEl~~l~~~~n~m~~~l~~~~~~ 261 (482)
T PRK09835 239 IELEQLVLSFNHMIERIEDVFTR 261 (482)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 37777777766666666655444
No 17
>PRK10815 sensor protein PhoQ; Provisional
Probab=68.13 E-value=58 Score=30.16 Aligned_cols=13 Identities=15% Similarity=0.325 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHH
Q 029023 115 LALKGAAESLEKL 127 (200)
Q Consensus 115 lAlkRAA~SleKL 127 (200)
.-+++..+.++++
T Consensus 217 rpi~~L~~~~~~l 229 (485)
T PRK10815 217 RPIEALAKQVREL 229 (485)
T ss_pred HHHHHHHHHHHHH
Confidence 3334444444444
No 18
>PRK04654 sec-independent translocase; Provisional
Probab=66.10 E-value=81 Score=28.17 Aligned_cols=58 Identities=14% Similarity=0.106 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHH
Q 029023 116 ALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAE 178 (200)
Q Consensus 116 AlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae 178 (200)
.++|.-+.+.+.++-+++|+-..+.. .||.+..+++.+-.+++.+++|++.+-++++-
T Consensus 31 tlGk~irk~R~~~~~vk~El~~El~~-----~ELrk~l~~~~~~i~~~~~~lk~~~~el~q~a 88 (214)
T PRK04654 31 FAGLWVRRARMQWDSVKQELERELEA-----EELKRSLQDVQASLREAEDQLRNTQQQVEQGA 88 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444455555555555554433221 13333333333334444444555544444333
No 19
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=64.76 E-value=52 Score=26.42 Aligned_cols=64 Identities=19% Similarity=0.327 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhhcC
Q 029023 119 GAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQLTN 186 (200)
Q Consensus 119 RAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~~~ 186 (200)
+.++-++.|. ..||+-=.+-..-=..|.+|-.|+.+..+|+.+-|+.....+...+..||.+++
T Consensus 80 ~kakqIe~LI----dsLPg~~~see~Q~~~i~~L~~E~~~~~~el~~~v~e~e~ll~~v~~~i~~ia~ 143 (144)
T PF11221_consen 80 RKAKQIEYLI----DSLPGIEVSEEEQLKRIKELEEENEEAEEELQEAVKEAEELLKQVQELIREIAR 143 (144)
T ss_dssp HHHHHHHHHH----HHSTTSSS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--
T ss_pred HHHHHHHHHH----HhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4455555555 567773222222225678899999999999999999999999999999998764
No 20
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase. This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.
Probab=64.52 E-value=72 Score=31.34 Aligned_cols=16 Identities=25% Similarity=0.484 Sum_probs=7.0
Q ss_pred hhhhhhHHhhhhHHHH
Q 029023 148 EISDLTMELSDLGQEI 163 (200)
Q Consensus 148 EIsDLT~eLs~l~qei 163 (200)
||.+|...++....++
T Consensus 463 EIg~La~afn~M~~~L 478 (703)
T TIGR03785 463 EIGDLSRSFAQMVARL 478 (703)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4555444444433333
No 21
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=61.61 E-value=62 Score=26.79 Aligned_cols=22 Identities=18% Similarity=0.220 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 029023 107 FFSAIPTLLALKGAAESLEKLM 128 (200)
Q Consensus 107 l~~aIPtllAlkRAA~SleKL~ 128 (200)
++..|=....++|.-+.-.+++
T Consensus 15 li~~~~~~~kl~kl~r~Y~~lm 36 (151)
T PF14584_consen 15 LILIIILNIKLRKLKRRYDALM 36 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4444555556666666666666
No 22
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=59.86 E-value=56 Score=30.80 Aligned_cols=54 Identities=22% Similarity=0.252 Sum_probs=37.5
Q ss_pred HHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhh
Q 029023 129 DVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQL 184 (200)
Q Consensus 129 Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~ 184 (200)
+.+-+++|+.++.++-.-..++.+.+++++ .++-+-+...+.++..+.+.||++
T Consensus 259 a~~~~~~~~ll~~l~~l~~~l~~ll~~l~~--~~lL~Nle~lt~~LA~as~~l~~l 312 (370)
T PLN03094 259 ADLMEEARPLLLKIQAMAEDLQPLLSEVRD--SGLLKEVEKLTRVAAEASEDLRRL 312 (370)
T ss_pred HHHHhhcHHHHHHHHHHHHHHHHHHhhcch--hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344467777777777777777777766665 566667777777777777777776
No 23
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=59.43 E-value=1.4e+02 Score=27.02 Aligned_cols=33 Identities=21% Similarity=0.348 Sum_probs=14.0
Q ss_pred hhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHH
Q 029023 149 ISDLTMELSDLGQEITQGVRSSTKAVRIAEERL 181 (200)
Q Consensus 149 IsDLT~eLs~l~qei~~GVrss~~~v~~ae~~l 181 (200)
+++..+.+.+..+++.+.++.....++.+.+.+
T Consensus 215 ~~~m~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (565)
T PRK10935 215 FNQMSSELHKLYRSLEASVEEKTRKLTQANRSL 247 (565)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444433333
No 24
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=58.83 E-value=1e+02 Score=25.29 Aligned_cols=86 Identities=15% Similarity=0.165 Sum_probs=43.2
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHH-hhhhhhhhhhHHhhhhHHH
Q 029023 84 LTHRHILVLNVIACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREELPETMAAVR-LSGMEISDLTMELSDLGQE 162 (200)
Q Consensus 84 l~~~~l~vL~v~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reELP~TLAAiR-LSGlEIsDLT~eLs~l~qe 162 (200)
.++|-+.+-|+++++ ...|..+..+-+--...++-.+.+.++...+-..-+ ..-.+.....+|+.++.+|
T Consensus 99 raQRN~YIsGf~LfL---------~l~I~r~~~li~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~e 169 (192)
T PF05529_consen 99 RAQRNMYISGFALFL---------SLVIRRVHSLIKELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKE 169 (192)
T ss_pred HHHHhHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHH
Confidence 455656654444332 333445544444444444444444444444432222 2344556666777777777
Q ss_pred HHHhhhhhHHHHHHHH
Q 029023 163 ITQGVRSSTKAVRIAE 178 (200)
Q Consensus 163 i~~GVrss~~~v~~ae 178 (200)
|.+--+.....-+|+|
T Consensus 170 l~~~~~~~~~LkkQ~~ 185 (192)
T PF05529_consen 170 LEKKEKEIEALKKQSE 185 (192)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7764444444444444
No 25
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=57.83 E-value=1.2e+02 Score=25.99 Aligned_cols=16 Identities=19% Similarity=0.395 Sum_probs=6.0
Q ss_pred hhhhhhHHhhhhHHHH
Q 029023 148 EISDLTMELSDLGQEI 163 (200)
Q Consensus 148 EIsDLT~eLs~l~qei 163 (200)
.+.+...++.++.+++
T Consensus 233 ~l~~~~~~~~~~~~~~ 248 (457)
T TIGR01386 233 RLEDAFQRLSQFSADL 248 (457)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3333333333333333
No 26
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=57.36 E-value=41 Score=24.42 Aligned_cols=59 Identities=22% Similarity=0.291 Sum_probs=31.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhh
Q 029023 87 RHILVLNVIACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREELPETMAAVRLSGME 148 (200)
Q Consensus 87 ~~l~vL~v~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlE 148 (200)
++|.++=+++.++-+++ +..+++|.+....+.++..++....++ -+=..+...|+.+.+
T Consensus 8 rGFTLiElLVvl~Iigi--l~~~~~p~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 66 (149)
T COG2165 8 RGFTLIELLVVLAIIGI--LAALALPSLQGSIDKAKRLEAAQQALR-VIRLALEEYRLDGGR 66 (149)
T ss_pred CCcchHHHHHHHHHHHH--HHHHHHhhhhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHcCCC
Confidence 35555544443333333 446778888888887765555544332 223334444444443
No 27
>PRK01770 sec-independent translocase; Provisional
Probab=57.17 E-value=99 Score=26.52 Aligned_cols=19 Identities=26% Similarity=0.403 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHhhc
Q 029023 117 LKGAAESLEKLMDVTREEL 135 (200)
Q Consensus 117 lkRAA~SleKL~Dt~reEL 135 (200)
+++..+.+.++++-+++|+
T Consensus 32 lg~~i~~~R~~~~~~k~e~ 50 (171)
T PRK01770 32 VAGWIRALRSLATTVQNEL 50 (171)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444443
No 28
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=56.33 E-value=1.3e+02 Score=25.96 Aligned_cols=24 Identities=8% Similarity=0.106 Sum_probs=14.6
Q ss_pred hhhhhhhhHHhhhhHHHHHHhhhh
Q 029023 146 GMEISDLTMELSDLGQEITQGVRS 169 (200)
Q Consensus 146 GlEIsDLT~eLs~l~qei~~GVrs 169 (200)
.-||.++.+.++...+++.+-+..
T Consensus 219 ~dEi~~l~~~~n~m~~~l~~~~~~ 242 (461)
T PRK09470 219 PQEFRQAGASFNQMVTALERMMTS 242 (461)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666666555544
No 29
>PF11887 DUF3407: Protein of unknown function (DUF3407); InterPro: IPR024516 This entry represents a domain of unknown function found at the C terminus of many proteins in the mammalian cell entry family.
Probab=55.19 E-value=94 Score=27.33 Aligned_cols=78 Identities=17% Similarity=0.210 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhchh---hHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHh
Q 029023 106 LFFSAIPTLLALKGAAESLEKLMDVTREELPE---TMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLR 182 (200)
Q Consensus 106 ll~~aIPtllAlkRAA~SleKL~Dt~reELP~---TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lr 182 (200)
++-..=|.+-++.+.-+.+.++.+++.+--|+ ++..+..+...|.|--++|..+-..+..-.+....++..-+..|-
T Consensus 43 ~l~~ln~~~~~l~~~l~~l~~v~~~~a~aapdL~~~l~~~~~~s~tL~~~~~~L~~lL~~~~~~a~~~~~~l~~n~~~L~ 122 (267)
T PF11887_consen 43 LLATLNPRLPQLREDLRNLADVADTYADAAPDLLDALDNLTTTSRTLVDQRQQLDALLLSATGLADTGTDFLADNRDNLI 122 (267)
T ss_pred HHHHHhccchHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 33344444455555566666666666555554 466666777777777777777766666666666666666555544
Q ss_pred h
Q 029023 183 Q 183 (200)
Q Consensus 183 q 183 (200)
+
T Consensus 123 ~ 123 (267)
T PF11887_consen 123 R 123 (267)
T ss_pred H
Confidence 3
No 30
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=54.65 E-value=2e+02 Score=27.75 Aligned_cols=15 Identities=13% Similarity=0.244 Sum_probs=6.9
Q ss_pred hhhhhhHHhhhhHHH
Q 029023 148 EISDLTMELSDLGQE 162 (200)
Q Consensus 148 EIsDLT~eLs~l~qe 162 (200)
||..|...++.+.++
T Consensus 232 Ei~~L~~~~n~m~~~ 246 (919)
T PRK11107 232 ELDMLKNGINAMAMS 246 (919)
T ss_pred HHHHHHHHHHHHHHH
Confidence 454454444444333
No 31
>PRK00708 sec-independent translocase; Provisional
Probab=52.75 E-value=1.6e+02 Score=25.99 Aligned_cols=44 Identities=9% Similarity=0.102 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 87 RHILVLNVIACAAAV--SATWLFFSAIPTLLALKGAAESLEKLMDV 130 (200)
Q Consensus 87 ~~l~vL~v~a~~vav--s~t~ll~~aIPtllAlkRAA~SleKL~Dt 130 (200)
..|+|+++++++|.- =+=-++=..--.+..++|.++.+..=+|-
T Consensus 7 ~ELlvI~vVaLvV~GPkrLP~~~R~lGk~v~k~R~~a~e~r~~~~e 52 (209)
T PRK00708 7 SELLVIAIVLIVVVGPKDLPPMLRAFGKMTARMRKMAGEFRRQFDE 52 (209)
T ss_pred HHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555544432 11112233344566777777777665543
No 32
>PF05633 DUF793: Protein of unknown function (DUF793); InterPro: IPR008511 This entry includes Protein BYPASS 1 which is required for normal root and shoot development. Prevents constitutive production of a root mobile carotenoid-derived signaling compound that is capable of arresting shoot and leaf development [, ].
Probab=50.97 E-value=54 Score=31.35 Aligned_cols=98 Identities=20% Similarity=0.267 Sum_probs=62.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH----H-HHH------HHHHHHHHHHHHHHhhchhh-----------HHHHHh
Q 029023 87 RHILVLNVIACAAAVSATWLFFSAIPTL----L-ALK------GAAESLEKLMDVTREELPET-----------MAAVRL 144 (200)
Q Consensus 87 ~~l~vL~v~a~~vavs~t~ll~~aIPtl----l-Alk------RAA~SleKL~Dt~reELP~T-----------LAAiRL 144 (200)
++|..--...-++.+.++++|++|||-- + .+. -=|.++-.|-+.+.||...- |..+--
T Consensus 243 ~gL~~A~Y~m~~vtvFV~~vlVAA~pc~~rgL~~~l~~vP~~~~WA~s~~~LQ~rI~eEikkk~~kgs~gLLkEl~~ve~ 322 (389)
T PF05633_consen 243 RGLLRAMYGMKSVTVFVCWVLVAAFPCQDRGLQVHLSAVPRQFSWAPSFISLQERINEEIKKKERKGSCGLLKELQQVEA 322 (389)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHeeecCCccccCCCCCCccccccchHHHHHHHHHHHHHhhccccCcchHHHHHHHHHH
Confidence 3444334445556666788888888742 1 222 11567777888888887652 555656
Q ss_pred hhhhhhhhhHHh-----hhhHHHHHHhhhhhHHHHHHHHHHHhhh
Q 029023 145 SGMEISDLTMEL-----SDLGQEITQGVRSSTKAVRIAEERLRQL 184 (200)
Q Consensus 145 SGlEIsDLT~eL-----s~l~qei~~GVrss~~~v~~ae~~lrq~ 184 (200)
+..++.|+++++ .|=..|+.+.|..-+++....++||.-+
T Consensus 323 ~vr~L~el~d~~~~p~~~e~~~ev~~~V~EL~~~~~~L~~GLdpL 367 (389)
T PF05633_consen 323 SVRELHELIDSFQFPLEEEKEEEVREAVEELARVCEALSQGLDPL 367 (389)
T ss_pred HHHHHHHHHHhccCCcchhHHHHHHHHHHHHHHHHHHHHcccHHH
Confidence 677788888776 3445567777777777777777776543
No 33
>PF10824 DUF2580: Protein of unknown function (DUF2580); InterPro: IPR022536 This entry represents the ESX-1 secretion-associated protein EspC protein family.
Probab=50.31 E-value=83 Score=21.80 Aligned_cols=68 Identities=18% Similarity=0.174 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHhhchhh------------------HHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHH
Q 029023 116 ALKGAAESLEKLMDVTREELPET------------------MAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIA 177 (200)
Q Consensus 116 AlkRAA~SleKL~Dt~reELP~T------------------LAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~a 177 (200)
+|++.|..++.+.+.+.+-.... -.+++-.--+..+....+.+-..++.+.+|.+++.-+..
T Consensus 11 ~Lr~~A~~~~~~A~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~L~~aA~~Y~~~ 90 (100)
T PF10824_consen 11 ALRQAAAQLDDIADQLAAAASAVAGASAAVAAAFGPIGAAFAAALAEALEARQAALEQLAEALDEFADALRAAADRYEAT 90 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcchhccccccccHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666677777776666644433 112222233334444555555666677777777777777
Q ss_pred HHHHhh
Q 029023 178 EERLRQ 183 (200)
Q Consensus 178 e~~lrq 183 (200)
|+...+
T Consensus 91 D~~~a~ 96 (100)
T PF10824_consen 91 DEDNAA 96 (100)
T ss_pred HHHHHh
Confidence 766543
No 34
>TIGR01710 typeII_sec_gspG general secretion pathway protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=49.81 E-value=1.2e+02 Score=23.65 Aligned_cols=12 Identities=17% Similarity=0.218 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHH
Q 029023 108 FSAIPTLLALKG 119 (200)
Q Consensus 108 ~~aIPtllAlkR 119 (200)
.+++|.+....+
T Consensus 20 ~i~~p~~~~~~~ 31 (134)
T TIGR01710 20 ALVAPKLFSQAD 31 (134)
T ss_pred HHHHHHHHHHHH
Confidence 457777765433
No 35
>TIGR00996 Mtu_fam_mce virulence factor Mce family protein. Members of this paralogous family are found as six tandem homologous proteins in the same orientation per cassette, in four separate cassettes in Mycobacterium tuberculosis. The six members of each cassette represent six subfamilies. One subfamily includes the protein mce (mycobacterial cell entry), a virulence protein required for invasion of non-phagocytic cells.
Probab=49.07 E-value=1.2e+02 Score=26.02 Aligned_cols=18 Identities=17% Similarity=0.296 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 029023 117 LKGAAESLEKLMDVTREE 134 (200)
Q Consensus 117 lkRAA~SleKL~Dt~reE 134 (200)
++++-..++++.+.+.+.
T Consensus 169 l~~~l~~l~~l~~~l~~~ 186 (291)
T TIGR00996 169 LRNLLDGLAQLTAALNAR 186 (291)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 444444455555544443
No 36
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=48.94 E-value=1.9e+02 Score=26.10 Aligned_cols=30 Identities=20% Similarity=0.220 Sum_probs=14.1
Q ss_pred hhhhhhhHHhhhhHHHHHHhhhhhHHHHHH
Q 029023 147 MEISDLTMELSDLGQEITQGVRSSTKAVRI 176 (200)
Q Consensus 147 lEIsDLT~eLs~l~qei~~GVrss~~~v~~ 176 (200)
-||.++...++.+.+.+.+-++.....++.
T Consensus 206 dE~g~l~~~~~~m~~~l~~~~~~~~~~~~~ 235 (565)
T PRK10935 206 NELGLLAKAFNQMSSELHKLYRSLEASVEE 235 (565)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555555555555554444443333333
No 37
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=48.22 E-value=1.3e+02 Score=26.10 Aligned_cols=14 Identities=14% Similarity=0.394 Sum_probs=5.7
Q ss_pred hhhhhhHHhhhhHH
Q 029023 148 EISDLTMELSDLGQ 161 (200)
Q Consensus 148 EIsDLT~eLs~l~q 161 (200)
||..|++.++++.+
T Consensus 207 Ei~~L~~~~n~m~~ 220 (435)
T PRK09467 207 EVRSVTRAFNQMAA 220 (435)
T ss_pred HHHHHHHHHHHHHH
Confidence 44444444443333
No 38
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=48.07 E-value=2.1e+02 Score=26.66 Aligned_cols=47 Identities=19% Similarity=0.151 Sum_probs=30.3
Q ss_pred hHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhh
Q 029023 138 TMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQL 184 (200)
Q Consensus 138 TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~ 184 (200)
-..+++---.+|.++..+|++-.++.+..+..+.+.+......-|++
T Consensus 183 L~~~~n~M~~~L~~~~~~l~~~~~~~t~~l~~~~~~l~~ly~~~~~l 229 (569)
T PRK10600 183 LGTALNNMSAELAESYAVLEQRVQEKTAGLEQKNQILSFLWQANRRL 229 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35556655667777777777777777777777766665544444443
No 39
>PRK04654 sec-independent translocase; Provisional
Probab=47.10 E-value=2.1e+02 Score=25.59 Aligned_cols=25 Identities=20% Similarity=0.340 Sum_probs=16.5
Q ss_pred hhhhhhhhHHhhhhHHHHHHhhhhh
Q 029023 146 GMEISDLTMELSDLGQEITQGVRSS 170 (200)
Q Consensus 146 GlEIsDLT~eLs~l~qei~~GVrss 170 (200)
..+|.|+.+++++.+|++.++-++.
T Consensus 67 ~~~i~~~~~~lk~~~~el~q~a~~~ 91 (214)
T PRK04654 67 QASLREAEDQLRNTQQQVEQGARAL 91 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3467777777777777777665543
No 40
>PF05802 EspB: Enterobacterial EspB protein
Probab=46.80 E-value=91 Score=29.35 Aligned_cols=61 Identities=21% Similarity=0.219 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHH
Q 029023 117 LKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIA 177 (200)
Q Consensus 117 lkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~a 177 (200)
+.++++++.+.++-+++-+...|+..-=----++|..||+.++-|.+++-....+.+.+.+
T Consensus 152 aqkyaEsl~d~~~KAseiMQQim~t~T~Aa~r~s~v~ddv~~~a~~as~~ae~~A~Aa~k~ 212 (317)
T PF05802_consen 152 AQKYAESLADAMEKASEIMQQIMATATKAASRTSGVADDVATSAQKASQLAEQAADAAQKA 212 (317)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666665556555555544433344567778888888877777766665555433
No 41
>PRK10983 putative inner membrane protein; Provisional
Probab=46.24 E-value=2.4e+02 Score=25.91 Aligned_cols=43 Identities=14% Similarity=0.200 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----hchhhHHHHHhhhh
Q 029023 105 WLFFSAIPTLLALKGAAESLEKLMDVTRE-----ELPETMAAVRLSGM 147 (200)
Q Consensus 105 ~ll~~aIPtllAlkRAA~SleKL~Dt~re-----ELP~TLAAiRLSGl 147 (200)
++++..+|......+.+...+.+.+.+++ ..|+.+..+.+.|.
T Consensus 74 ~~llv~iPl~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~l~~lp~ig~ 121 (368)
T PRK10983 74 LVLLFVIPIALLVNSLVDNSGPLIKWASSGDMTLPDLAWLNSIPLIGA 121 (368)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCchHHHHhCCcccH
Confidence 45567788888888888888888876654 12444554444443
No 42
>PF14341 PilX_N: PilX N-terminal
Probab=46.18 E-value=35 Score=23.13 Aligned_cols=22 Identities=27% Similarity=0.374 Sum_probs=18.1
Q ss_pred HHHHHhhhhhHHHHHHHHHHHh
Q 029023 161 QEITQGVRSSTKAVRIAEERLR 182 (200)
Q Consensus 161 qei~~GVrss~~~v~~ae~~lr 182 (200)
+++....+...++.++||+|+|
T Consensus 30 ~~~a~n~~~~~~A~~aAEagl~ 51 (51)
T PF14341_consen 30 ERMAGNQRDSQQAFQAAEAGLE 51 (51)
T ss_pred HHHHHhHHHHHHHHHHHHhhcC
Confidence 3466778888999999999986
No 43
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=46.15 E-value=3 Score=27.66 Aligned_cols=46 Identities=17% Similarity=0.343 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHH----hhchhhHHHHHhhhhhhhhhhHHhhhhHHHHH
Q 029023 117 LKGAAESLEKLMDVTR----EELPETMAAVRLSGMEISDLTMELSDLGQEIT 164 (200)
Q Consensus 117 lkRAA~SleKL~Dt~r----eELP~TLAAiRLSGlEIsDLT~eLs~l~qei~ 164 (200)
.++-.+.++++.+.++ .++...+ .+. ..-||.++.+.++...+++.
T Consensus 20 ~~~i~~pl~~l~~~~~~i~~g~~~~~i-~~~-~~dEi~~l~~~~n~m~~~l~ 69 (70)
T PF00672_consen 20 ARRITRPLRRLSDAMQRIAQGDLSTRI-PVS-GPDEIGQLARAFNQMADRLR 69 (70)
T ss_dssp -HTTCCCHHHHHHHCCCCHTTBTTTTT-TTT-SSSCHCCCHHHCCCHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCccC-CCC-CccHHHHHHHHHHHHHHHhc
Confidence 3444444444444433 2443333 344 67788888888887777664
No 44
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=46.00 E-value=1.8e+02 Score=24.54 Aligned_cols=93 Identities=17% Similarity=0.166 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhch--------------hhHHHHHhhhhhhhhhhH
Q 029023 89 ILVLNVIACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTREELP--------------ETMAAVRLSGMEISDLTM 154 (200)
Q Consensus 89 l~vL~v~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~reELP--------------~TLAAiRLSGlEIsDLT~ 154 (200)
+.++++++.+++|-+...+=..=|+|-+..+.-.-+++=+|.+..|=- +--+.|--.--++.|+-+
T Consensus 8 ~~iiAiAf~vL~I~li~tlkkv~~tldevakt~~~l~~qv~gi~~eT~~Ll~K~N~L~eDvq~Kv~tld~vf~aV~dl~~ 87 (139)
T COG4768 8 LAIIAIAFLVLVIYLIITLKKVSKTLDEVAKTLKGLTSQVDGITHETEELLHKTNTLAEDVQGKVATLDPVFDAVKDLGQ 87 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhHhHHHHHHHHHHH
Confidence 456777777777777777788889999999888877776655443322 222233333334444444
Q ss_pred HhhhhHHHHHHhhhhhHHHHHHHHHHH
Q 029023 155 ELSDLGQEITQGVRSSTKAVRIAEERL 181 (200)
Q Consensus 155 eLs~l~qei~~GVrss~~~v~~ae~~l 181 (200)
.|+++-|....-.++.++.+..-+..+
T Consensus 88 SV~~ln~s~r~~~~~~t~~~~~~~~~i 114 (139)
T COG4768 88 SVSDLNQSVRHLATRATNAVEKNEKKI 114 (139)
T ss_pred HHHHHHHHHHHHHHHHhhHhhhhHHHH
Confidence 444444444444444444444444433
No 45
>TIGR02797 exbB tonB-system energizer ExbB. This model describes ExbB proteins, part of the MotA/TolQ/ExbB protein family. The paired proteins MotA and MotB, TolQ and TolR, and ExbB and ExbD harness the proton-motive force to drive the flagellar motor, energize the Tol-Pal system, or energize TonB, respectively. Tol-Pal and TonB are both active at the outer membrane. Genomes may have many different TonB-dependent receptors, of which many of those characterized are involved in siderophore transport across the outer membrane.
Probab=43.21 E-value=88 Score=26.53 Aligned_cols=23 Identities=22% Similarity=0.299 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 029023 107 FFSAIPTLLALKGAAESLEKLMD 129 (200)
Q Consensus 107 l~~aIPtllAlkRAA~SleKL~D 129 (200)
+++|||++.+..---+.++++..
T Consensus 174 L~VAIPAli~yn~f~~ri~~~~~ 196 (211)
T TIGR02797 174 LVAAIPAVVIYNVFARSIAGYRA 196 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999987766666666543
No 46
>PRK10414 biopolymer transport protein ExbB; Provisional
Probab=42.70 E-value=84 Score=27.73 Aligned_cols=28 Identities=14% Similarity=0.188 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029023 106 LFFSAIPTLLALKGAAESLEKLMDVTRE 133 (200)
Q Consensus 106 ll~~aIPtllAlkRAA~SleKL~Dt~re 133 (200)
=+++|||++.+..---+.++|+...+.+
T Consensus 184 GL~vAIPAliayn~f~~ri~~~~~~me~ 211 (244)
T PRK10414 184 GLVAAIPAVVIYNVFARQIGGYKAMLGD 211 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3589999999988888888777655443
No 47
>TIGR00996 Mtu_fam_mce virulence factor Mce family protein. Members of this paralogous family are found as six tandem homologous proteins in the same orientation per cassette, in four separate cassettes in Mycobacterium tuberculosis. The six members of each cassette represent six subfamilies. One subfamily includes the protein mce (mycobacterial cell entry), a virulence protein required for invasion of non-phagocytic cells.
Probab=42.36 E-value=1.9e+02 Score=24.73 Aligned_cols=37 Identities=11% Similarity=0.145 Sum_probs=15.3
Q ss_pred hhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhh
Q 029023 133 EELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRS 169 (200)
Q Consensus 133 eELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrs 169 (200)
+++-.++..+....-++.+..+++.++..++...++.
T Consensus 209 ~~l~~~v~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~ 245 (291)
T TIGR00996 209 DQLDRLLDNLATLTAQLADRDDALDDALAALSGASAQ 245 (291)
T ss_pred HHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHH
Confidence 3444444444443334444444444444444333333
No 48
>PRK10801 colicin uptake protein TolQ; Provisional
Probab=39.94 E-value=1.4e+02 Score=25.90 Aligned_cols=27 Identities=26% Similarity=0.330 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 106 LFFSAIPTLLALKGAAESLEKLMDVTR 132 (200)
Q Consensus 106 ll~~aIPtllAlkRAA~SleKL~Dt~r 132 (200)
=+++|||++.+.---.+.++++...+.
T Consensus 178 GL~vAIPAli~yN~f~~ri~~i~~~le 204 (227)
T PRK10801 178 GLFAAIPAVMAYNRLNQRVNKLELNYD 204 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 358999999988777777766654443
No 49
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=38.75 E-value=2.7e+02 Score=24.33 Aligned_cols=20 Identities=15% Similarity=0.381 Sum_probs=12.8
Q ss_pred hhhhhhhHHhhhhHHHHHHh
Q 029023 147 MEISDLTMELSDLGQEITQG 166 (200)
Q Consensus 147 lEIsDLT~eLs~l~qei~~G 166 (200)
-||.++...++.+.+++.+-
T Consensus 217 dE~~~l~~~~n~m~~~l~~~ 236 (466)
T PRK10549 217 DELGRLAQDFNQLASTLEKN 236 (466)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 56777777776666666543
No 50
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=38.34 E-value=1.9e+02 Score=25.32 Aligned_cols=19 Identities=16% Similarity=0.469 Sum_probs=11.3
Q ss_pred hhhhhhhHHhhhhHHHHHH
Q 029023 147 MEISDLTMELSDLGQEITQ 165 (200)
Q Consensus 147 lEIsDLT~eLs~l~qei~~ 165 (200)
-|+.++...++++.+++.+
T Consensus 241 dEig~l~~~~~~~~~~l~~ 259 (607)
T PRK11360 241 GELGEISQAINNLAQALRE 259 (607)
T ss_pred CcHHHHHHHHHHHHHHHHH
Confidence 3666666666665555544
No 51
>PF07465 PsaM: Photosystem I protein M (PsaM); InterPro: IPR010010 Members of this protein family are PsaM, which is subunit XII of the photosystem I reaction centre. PsaM forms part of the photosystem I complex and its binding is stabilised by PsaI []. This protein is found in both the Cyanobacteria and the chloroplasts of plants, but is absent from non-oxygenic photosynthetic bacteria such as Rhodobacter sphaeroides. Species that contain photosystem I also contain photosystem II, which splits water and releases molecular oxygen.; GO: 0015979 photosynthesis, 0009522 photosystem I, 0030094 plasma membrane-derived photosystem I; PDB: 3PCQ_M 1JB0_M.
Probab=38.12 E-value=43 Score=21.43 Aligned_cols=16 Identities=31% Similarity=0.364 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 029023 103 ATWLFFSAIPTLLALK 118 (200)
Q Consensus 103 ~t~ll~~aIPtllAlk 118 (200)
+.+++++.||.++|+|
T Consensus 7 ~iAL~~Al~~~iLA~r 22 (29)
T PF07465_consen 7 FIALVIALITGILALR 22 (29)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3456777788888875
No 52
>TIGR02796 tolQ TolQ protein. TolQ is one of the essential components of the Tol-Pal system. Together with TolR, it harnesses protonmotive force to energize TolA, which spans the periplasm to reach the complex of TolB and Pal at the outer member. The tol-pal system proves to be important for maintaining outer membrane integrity. Gene pairs similar to the TolQ and TolR gene pair often number several per genome, but this model describes specificially TolQ per se, as found in tol-pal operons. A close homolog, excluded from this model, is ExbB of the ExbB/ExbD/TonB protein complex, which powers transport of siderophores and vitamin B12 across the bacterial outer membrane. The Tol-Pal system is exploited by colicin and filamentous phage DNA to enter the cell. It is also implicated in pathogenesis in several bacterial species
Probab=36.65 E-value=1.3e+02 Score=25.70 Aligned_cols=26 Identities=23% Similarity=0.395 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 106 LFFSAIPTLLALKGAAESLEKLMDVT 131 (200)
Q Consensus 106 ll~~aIPtllAlkRAA~SleKL~Dt~ 131 (200)
=+++|||++.+..=--+.++++...+
T Consensus 177 GL~vAIPali~yn~f~~~i~~~~~~m 202 (215)
T TIGR02796 177 GLFAAIPAVIAYNKLSTQVNKIEQRY 202 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35899999998665555555554433
No 53
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....
Probab=36.23 E-value=1.3e+02 Score=19.94 Aligned_cols=50 Identities=12% Similarity=0.268 Sum_probs=37.1
Q ss_pred chhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhh
Q 029023 135 LPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQL 184 (200)
Q Consensus 135 LP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~ 184 (200)
|=.++..++=.+.+|++..++=+++..+|..-|-.+..-++.+-..|..+
T Consensus 9 l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~ka 58 (63)
T PF05739_consen 9 LEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLKKA 58 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456667777888888888888888888888888877777776666543
No 54
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=36.15 E-value=3.4e+02 Score=26.28 Aligned_cols=15 Identities=13% Similarity=0.257 Sum_probs=6.1
Q ss_pred hhhhhhHHhhhhHHH
Q 029023 148 EISDLTMELSDLGQE 162 (200)
Q Consensus 148 EIsDLT~eLs~l~qe 162 (200)
||..+.+.++.+.++
T Consensus 351 Ei~~L~~~~n~m~~~ 365 (921)
T PRK15347 351 ELGSIAKAYNQLLDT 365 (921)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444444433333
No 55
>CHL00190 psaM photosystem I subunit XII; Provisional
Probab=36.10 E-value=46 Score=21.46 Aligned_cols=15 Identities=27% Similarity=0.485 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHH
Q 029023 104 TWLFFSAIPTLLALK 118 (200)
Q Consensus 104 t~ll~~aIPtllAlk 118 (200)
.+++++.+|.++|+|
T Consensus 9 iAL~~Al~~~iLA~r 23 (30)
T CHL00190 9 IALFLALTTGILAIR 23 (30)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456677788888875
No 56
>PF02203 TarH: Tar ligand binding domain homologue; InterPro: IPR003122 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the ligand-binding domain found in a number of methyl-accepting chemotaxis receptors.; GO: 0004888 transmembrane signaling receptor activity, 0006935 chemotaxis, 0007165 signal transduction, 0016020 membrane; PDB: 2ASR_A 3ATP_A 2D4U_A 2LIG_A 1VLS_A 1LIH_A 1WAT_B 1VLT_B 1WAS_A 1JMW_A.
Probab=36.03 E-value=56 Score=24.86 Aligned_cols=30 Identities=23% Similarity=0.242 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 99 AAVSATWLFFSAIPTLLALKGAAESLEKLM 128 (200)
Q Consensus 99 vavs~t~ll~~aIPtllAlkRAA~SleKL~ 128 (200)
+++.+..++++++=.+..+.++.++++.+.
T Consensus 15 l~~~~~ll~~~~~~~~~~l~~~~~~l~~~~ 44 (171)
T PF02203_consen 15 LALFLLLLLVVGGLGFWGLRSSNESLEEIY 44 (171)
T ss_dssp ----------HHCCCCCCHHHHHHHH-HHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333334444555566777788777776555
No 57
>smart00397 t_SNARE Helical region found in SNAREs. All alpha-helical motifs that form twisted and parallel four-helix bundles in target soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptor proteins. This motif found in "Q-SNAREs".
Probab=35.56 E-value=1.2e+02 Score=19.44 Aligned_cols=43 Identities=14% Similarity=0.206 Sum_probs=32.5
Q ss_pred HHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhh
Q 029023 141 AVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQ 183 (200)
Q Consensus 141 AiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq 183 (200)
.++=.+++|+.+..+=.+...+|..++-.+..-++.+...|+.
T Consensus 23 ~l~~l~~~i~~~v~~Q~~~ld~i~~~~d~~~~~~~~~~~~l~~ 65 (66)
T smart00397 23 ELKQIFLDMGTELEEQGEQLDRIEDNVDDADVNLKKANKRLKK 65 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhc
Confidence 4444488888888877888888888888887777777766654
No 58
>TIGR03053 PS_I_psaM photosystem I reaction center subunit XII. Members of this protein family are PsaM, which is subunit XII of the photosystem I reaction center. This protein is found in both the Cyanobacteria and the chloroplasts of plants, but is absent from non-oxygenic photosynthetic bacteria such as Rhodobacter sphaeroides. Species that contain photosystem I also contain photosystem II, which splits water and releases molecular oxygen. The seed alignment for this model includes sequences from Pfam model pfam07465 and additional sequences, as from Prochlorococcus.
Probab=35.43 E-value=49 Score=21.09 Aligned_cols=16 Identities=31% Similarity=0.368 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 029023 103 ATWLFFSAIPTLLALK 118 (200)
Q Consensus 103 ~t~ll~~aIPtllAlk 118 (200)
+.+++++.+|.++|+|
T Consensus 7 ~iaL~~Al~~~iLA~r 22 (29)
T TIGR03053 7 FIALVIALIAGILALR 22 (29)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3456777788888875
No 59
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=34.68 E-value=3.5e+02 Score=25.36 Aligned_cols=21 Identities=19% Similarity=0.189 Sum_probs=11.0
Q ss_pred hhhHHHHHHHHHHHhhhcCCC
Q 029023 168 RSSTKAVRIAEERLRQLTNMN 188 (200)
Q Consensus 168 rss~~~v~~ae~~lrq~~~~~ 188 (200)
+....+-++++.-.+++.+++
T Consensus 142 ~~~~~~~~~~~~v~~~l~~l~ 162 (406)
T PF04906_consen 142 QALQFLQQQAENVVQQLDELP 162 (406)
T ss_pred HHHHHHHHHHHHHHHHHhcCc
Confidence 333344455566666666555
No 60
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=34.24 E-value=5.3e+02 Score=26.43 Aligned_cols=40 Identities=25% Similarity=0.375 Sum_probs=20.9
Q ss_pred hhhhhhhHHhhh----hHHHHHHhhhhhHHHHHHHHHHHhhhcCC
Q 029023 147 MEISDLTMELSD----LGQEITQGVRSSTKAVRIAEERLRQLTNM 187 (200)
Q Consensus 147 lEIsDLT~eLs~----l~qei~~GVrss~~~v~~ae~~lrq~~~~ 187 (200)
.++.+.|.|+.. +-+||.+= +.+...++.+++.|-|.+.+
T Consensus 338 ~rV~eRTadL~~~n~~l~~EIaer-~~ae~~LR~~QdeLvQA~kL 381 (603)
T COG4191 338 RRVEERTADLTRANARLQAEIAER-EQAEAALRRAQDELVQAGKL 381 (603)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 455666666633 33455444 45555566666555554443
No 61
>PRK10807 paraquat-inducible protein B; Provisional
Probab=33.44 E-value=2.3e+02 Score=27.74 Aligned_cols=18 Identities=22% Similarity=0.292 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 029023 112 PTLLALKGAAESLEKLMD 129 (200)
Q Consensus 112 PtllAlkRAA~SleKL~D 129 (200)
-+|.++.++.+++++.++
T Consensus 443 ~tL~~~~~tl~~l~~~l~ 460 (547)
T PRK10807 443 STLSESQRTMRELQTTLD 460 (547)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444455544443
No 62
>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=33.05 E-value=1.8e+02 Score=20.60 Aligned_cols=19 Identities=42% Similarity=0.501 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 029023 90 LVLNVIACAAAVSATWLFF 108 (200)
Q Consensus 90 ~vL~v~a~~vavs~t~ll~ 108 (200)
|++++++.+++-+++.+|+
T Consensus 1 F~~g~l~Ga~~Ga~~glL~ 19 (74)
T PF12732_consen 1 FLLGFLAGAAAGAAAGLLF 19 (74)
T ss_pred CHHHHHHHHHHHHHHHHHh
Confidence 4566666666666555544
No 63
>PRK10506 hypothetical protein; Provisional
Probab=32.88 E-value=1.6e+02 Score=23.71 Aligned_cols=47 Identities=13% Similarity=0.097 Sum_probs=23.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHhh
Q 029023 86 HRHILVLNVIACAAAVSATWLFFSAIPTLLAL------KGAAESLEKLMDVTREE 134 (200)
Q Consensus 86 ~~~l~vL~v~a~~vavs~t~ll~~aIPtllAl------kRAA~SleKL~Dt~reE 134 (200)
+++|.++=+.+.++-+ ..++..++|.+... +.+++.+...+..+++|
T Consensus 8 ~~GFTLiEllvvl~Ii--~il~~~a~p~~~~~~~~~~~~~~~~~l~~~l~~ar~~ 60 (162)
T PRK10506 8 QRGYTLIELLVVMTIV--SILSAWGLYGWQRWQQRQRLWQTAQQLLDFLLRLQED 60 (162)
T ss_pred CCCeeHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455544444333322 23445667777654 35555555555555544
No 64
>PRK10574 putative major pilin subunit; Provisional
Probab=31.93 E-value=1.6e+02 Score=24.04 Aligned_cols=24 Identities=21% Similarity=0.109 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 106 LFFSAIPTLLALKGAAESLEKLMD 129 (200)
Q Consensus 106 ll~~aIPtllAlkRAA~SleKL~D 129 (200)
|..++||.++...+-++..+.+.+
T Consensus 22 LaaiaiP~~~~~~~~a~~~~~~~~ 45 (146)
T PRK10574 22 LSAIGIPAYQNYLQKAALTDMLQT 45 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456889999988776665555544
No 65
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=31.78 E-value=2.8e+02 Score=22.42 Aligned_cols=50 Identities=14% Similarity=0.164 Sum_probs=32.1
Q ss_pred hhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhhcCCCCCCCCCCCC
Q 029023 148 EISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQLTNMNPSGGSEPEN 197 (200)
Q Consensus 148 EIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~~~~~~~~~~~~~~ 197 (200)
++.|..+.|.++=++-...+......++..+.+|+++.++...|.-.+.+
T Consensus 153 ~l~~~lekL~~fd~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~g~~~~~~ 202 (204)
T PF04740_consen 153 KLQETLEKLRAFDQQSSSIFSEIEELLQALQSGLSQLQSMWNNGSISIGS 202 (204)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcccC
Confidence 34444444555545555556667778888899999998888655444443
No 66
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.69 E-value=2.2e+02 Score=22.04 Aligned_cols=39 Identities=21% Similarity=0.396 Sum_probs=31.4
Q ss_pred HHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHH
Q 029023 127 LMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQ 165 (200)
Q Consensus 127 L~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~ 165 (200)
.+|.+.+.+.-....|-|--|||-+|-+.=..|.||..+
T Consensus 5 v~ekLE~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~ 43 (79)
T COG3074 5 VFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQN 43 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHH
Confidence 456667777778888999999999998888878887763
No 67
>PF11812 DUF3333: Domain of unknown function (DUF3333); InterPro: IPR024573 This N-terminal domain is functionally uncharacterised and it is found in proteins annotated as putative phosphate ABC transporter permease proteins. This presumed domain is typically between 116 to 159 amino acids in length.
Probab=31.31 E-value=66 Score=26.77 Aligned_cols=29 Identities=17% Similarity=0.164 Sum_probs=24.4
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 83 NLTHRHILVLNVIACAAAVSATWLFFSAI 111 (200)
Q Consensus 83 nl~~~~l~vL~v~a~~vavs~t~ll~~aI 111 (200)
|-.++.|=++|++++++++++.++|++.|
T Consensus 9 ~~~e~rFr~~g~~Ai~~~l~fL~~ll~sI 37 (155)
T PF11812_consen 9 YRAERRFRAYGLAAIAIALAFLVILLFSI 37 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567788999999999999999888877
No 68
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=30.71 E-value=2.2e+02 Score=21.04 Aligned_cols=59 Identities=27% Similarity=0.265 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHH
Q 029023 116 ALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEE 179 (200)
Q Consensus 116 AlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~ 179 (200)
++.+....++.++..-.....++= +..|+.+++.||.+--++|..-+.--.++|..+|.
T Consensus 9 ev~~sl~~l~~~~~~~~~~~~~~~-----~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~ 67 (97)
T PF09177_consen 9 EVQSSLDRLESLYRRWQRLRSDTS-----SSEELKWLKRELRNALQSIEWDLEDLEEAVRIVEK 67 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTHCC------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHhcccCC-----CcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444555555555555444433332 34466666666666666666666666666666553
No 69
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=30.00 E-value=5.2e+02 Score=25.02 Aligned_cols=24 Identities=25% Similarity=0.374 Sum_probs=13.2
Q ss_pred hhhhhhhhHHhhhhHHHHHHhhhh
Q 029023 146 GMEISDLTMELSDLGQEITQGVRS 169 (200)
Q Consensus 146 GlEIsDLT~eLs~l~qei~~GVrs 169 (200)
...++++.+++.+..+++.+.++.
T Consensus 237 ~~~~n~m~~~l~~~~~~l~~~~~~ 260 (919)
T PRK11107 237 KNGINAMAMSLSAYHEEMQQNIDQ 260 (919)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666666665555555544443
No 70
>PRK11878 psaM photosystem I reaction center subunit XII; Reviewed
Probab=29.74 E-value=66 Score=21.26 Aligned_cols=16 Identities=25% Similarity=0.212 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 029023 103 ATWLFFSAIPTLLALK 118 (200)
Q Consensus 103 ~t~ll~~aIPtllAlk 118 (200)
+.+++++.+|.++|+|
T Consensus 11 ~iaL~~Al~~giLA~R 26 (34)
T PRK11878 11 FVALVVALHAGVLALR 26 (34)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3456677788888875
No 71
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=29.66 E-value=4e+02 Score=23.65 Aligned_cols=57 Identities=23% Similarity=0.369 Sum_probs=44.8
Q ss_pred HHHHHhhchhhHHHHH---------hhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhh
Q 029023 128 MDVTREELPETMAAVR---------LSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQL 184 (200)
Q Consensus 128 ~Dt~reELP~TLAAiR---------LSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~ 184 (200)
|..+....+|-|.++| |...-|.-|..|++.+..+|..-++...+++..+|+=|..|
T Consensus 135 M~~Ae~km~PVL~~~~D~vL~LKHNLNA~AI~sL~~e~~~~~~di~~Li~~m~~sI~ead~FI~~l 200 (201)
T PF11172_consen 135 MRRAESKMQPVLAAFRDQVLYLKHNLNAQAIASLQGEFSSIESDISQLIKEMERSIAEADAFIASL 200 (201)
T ss_pred HHHHHHhcChHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3344556777777776 66778888889999999999888888888888888877654
No 72
>TIGR02805 exbB2 tonB-system energizer ExbB, group 2. Members of this protein family appear to be the ExbB protein of an ExbBD proton-transporting membrane complex that, by means of TonB, energizes transport by TonB-dependent receptors. Note that this family represents one of at least two distinct groups TolQ homologs designated ExbB - see also TIGR02797. Each group associates with a distinct group of ExbD proteins, and a single species may have two ExbB/ExbD/TonB systems.
Probab=29.30 E-value=2e+02 Score=23.93 Aligned_cols=25 Identities=20% Similarity=0.163 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 106 LFFSAIPTLLALKGAAESLEKLMDV 130 (200)
Q Consensus 106 ll~~aIPtllAlkRAA~SleKL~Dt 130 (200)
=+++|||++....--.+.++++...
T Consensus 109 GL~VAIpali~yn~l~~rv~~~~~~ 133 (138)
T TIGR02805 109 GLLVAIPSLVFYNALLRKVEVNRLA 133 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3489999999887777777666543
No 73
>PRK13561 putative diguanylate cyclase; Provisional
Probab=29.02 E-value=4.6e+02 Score=24.79 Aligned_cols=44 Identities=5% Similarity=-0.021 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029023 90 LVLNVIACAAAVSATWLFFSAIPTLLALKGAAESLEKLMDVTRE 133 (200)
Q Consensus 90 ~vL~v~a~~vavs~t~ll~~aIPtllAlkRAA~SleKL~Dt~re 133 (200)
++..+...+++..+.+++++.+=++.-.++-.+-+.+|.+.+.+
T Consensus 141 l~~~l~~~~~~~l~~~l~l~~~l~~~~~~~i~~PL~~l~~~~~~ 184 (651)
T PRK13561 141 VMSALSTLVTIYLLLSLILTVAISWCINRLIVHPLRNIARELND 184 (651)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 44444333333333334434444444445555555555555544
No 74
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=28.57 E-value=5.5e+02 Score=24.82 Aligned_cols=16 Identities=13% Similarity=0.154 Sum_probs=7.2
Q ss_pred HHHHHHHHHHhhhcCC
Q 029023 172 KAVRIAEERLRQLTNM 187 (200)
Q Consensus 172 ~~v~~ae~~lrq~~~~ 187 (200)
+.++..++.+|.+-..
T Consensus 148 ~~l~~~~~~l~~il~~ 163 (779)
T PRK11091 148 IELEQQSSLLRSFLDA 163 (779)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 3344444455554433
No 75
>PRK04098 sec-independent translocase; Provisional
Probab=28.56 E-value=3.7e+02 Score=22.91 Aligned_cols=21 Identities=10% Similarity=0.194 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHhhch
Q 029023 116 ALKGAAESLEKLMDVTREELP 136 (200)
Q Consensus 116 AlkRAA~SleKL~Dt~reELP 136 (200)
.++|.-+.+.+.++-+++++-
T Consensus 31 ~lGk~ir~~K~~~~~~k~~l~ 51 (158)
T PRK04098 31 DIAKFFKAVKKTINDAKSTLD 51 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444555555554444444433
No 76
>PRK10604 sensor protein RstB; Provisional
Probab=28.46 E-value=4.3e+02 Score=23.62 Aligned_cols=18 Identities=11% Similarity=0.383 Sum_probs=8.0
Q ss_pred hhhhhhHHhhhhHHHHHH
Q 029023 148 EISDLTMELSDLGQEITQ 165 (200)
Q Consensus 148 EIsDLT~eLs~l~qei~~ 165 (200)
||.+|.+.++...+++.+
T Consensus 190 el~~L~~~fn~m~~~l~~ 207 (433)
T PRK10604 190 SLERLGVAFNQMADNINA 207 (433)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444444444444433
No 77
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=28.34 E-value=2.4e+02 Score=20.55 Aligned_cols=17 Identities=24% Similarity=0.397 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q 029023 111 IPTLLALKGAAESLEKL 127 (200)
Q Consensus 111 IPtllAlkRAA~SleKL 127 (200)
+=++..+.+....++.+
T Consensus 24 ~~~~~~l~~~~~~~~~i 40 (181)
T PF12729_consen 24 IVGLYSLSQINQNVEEI 40 (181)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444444
No 78
>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.
Probab=28.23 E-value=3e+02 Score=21.79 Aligned_cols=29 Identities=17% Similarity=0.259 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhchhhHHHH
Q 029023 114 LLALKGAAESLEKLMDVTREELPETMAAV 142 (200)
Q Consensus 114 llAlkRAA~SleKL~Dt~reELP~TLAAi 142 (200)
+..+...+..+.+..+.+.+..-.+...+
T Consensus 41 ~~~~~~~~~~v~~~~~~~~~~~~~~~~~~ 69 (262)
T smart00283 41 ADEIAATAQSAAEAAEEGREAVEDAITAM 69 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444443333
No 79
>TIGR01708 typeII_sec_gspH general secretion pathway protein H. This model represents GspH, protein H of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=28.03 E-value=2.7e+02 Score=21.35 Aligned_cols=26 Identities=19% Similarity=0.248 Sum_probs=11.9
Q ss_pred HHHHHHHHH------HHHHHHHHHHHHHHHHh
Q 029023 108 FSAIPTLLA------LKGAAESLEKLMDVTRE 133 (200)
Q Consensus 108 ~~aIPtllA------lkRAA~SleKL~Dt~re 133 (200)
..++|.+.. ++.+++.+...+..++.
T Consensus 23 ~~~~~~~~~~~~~~~~~~~a~~l~~~l~~ar~ 54 (143)
T TIGR01708 23 AAAALSLVSHYGTKSLDQVAGRLAARLRLAQT 54 (143)
T ss_pred HHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 444555543 44444444444444443
No 80
>PF08397 IMD: IRSp53/MIM homology domain; InterPro: IPR013606 The IMD (IRSp53 and MIM (missing in metastases) homology) domain is a BAR-like domain of approximately 250 amino acids found at the N-terminal in the insulin receptor tyrosine kinase substrate p53 (IRSp53) and in the evolutionarily related IRSp53/MIM family. In IRSp53, a ubiquitous regulator o the actin cytoskeleton, the IMD domain acts as conserved F-actin bundling domain involved in filopodium formation. Filopodium-inducing IMD activity is regulated by Cdc42 and Rac1 (Rho-family GTPases) and is SH3-independent [, , ]. The IRSp53/MIM family is a novel F-actin bundling protein family that includes invertebrate relatives: Vertebrate MIM (missing in metastasis), an actin-binding scaffold protein that may be involved in cancer metastasis. Vertebrate ABBA-1, a MIM-related protein. Vertebrate brain-specific angiogenesis inhibitor 1-associated protein 2 (BAI1-associated protein 2) or insulin receptor tyrosine kinase substrate p53 (IRSp53), a multifunctional adaptor protein that links Rac1 with a Wiskott-Aldrich syndrome family verprolin-homologous protein 2 (WAVE2) to induce lamellipodia or Cdc42 with Mena to induce filopodia []. Vertebrate brain-specific angiogenesis inhibitor 1-associated protein 2-like proteins 1 and 2 (BAI1-associated protein 2-like proteins 1 and 2). Drosophila melanogaster (Fruit fly) CG32082-PA. Caenorhabditis elegans M04F3.5 protein. The vertebrate IRSp53/MIM family is divided into two major groups: the IRSp53 subfamily and the MIM/ABBA subfamily. The putative invertebrate homologues are positioned between them. The IRSp53 subfamily members contain an SH3 domain, and the MIM/ABBA subfamily proteins contain a WH2 (WASP-homology 2) domain. The vertebrate SH3-containing subfamily is further divided into three groups according to the presence or absence of the WWB and the half-CRIB motif. The IMD domain can bind to and bundle actin filaments, bind to membranes and interact with the small GTPase Rac [, ]. The IMD domain folds as a coiled coil of three extended alpha-helices and a shorter C-terminal helix. Helix 4 packs tightly against the other three helices, and thus represents an integral part of the domain. The fold of the IMD domain closely resembles that of the BAR (Bin-Amphiphysin-RVS) domain, a functional module serving both as a sensor and inducer of membrane curvature []. The WH2 domain performs a scaffolding function [].; GO: 0008093 cytoskeletal adaptor activity, 0017124 SH3 domain binding, 0007165 signal transduction, 0046847 filopodium assembly; PDB: 2D1L_A 3OK8_B 1WDZ_B 1Y2O_A 2YKT_A.
Probab=27.75 E-value=3.7e+02 Score=22.62 Aligned_cols=15 Identities=20% Similarity=0.282 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHH
Q 029023 112 PTLLALKGAAESLEK 126 (200)
Q Consensus 112 PtllAlkRAA~SleK 126 (200)
|++..|-.+|...++
T Consensus 10 P~~e~lv~~~~kY~~ 24 (219)
T PF08397_consen 10 PAWENLVSLGKKYQK 24 (219)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444444444333
No 81
>PF01618 MotA_ExbB: MotA/TolQ/ExbB proton channel family MotA family only; InterPro: IPR002898 This family groups together integral membrane proteins that appear to be involved in translocation of proteins across a membrane. These proteins are probably proton channels. MotA is an essential component of the flagellar motor that uses a proton gradient to generate rotational motion in the flagellar []. ExbB is part of the TonB-dependent transduction complex. The TonB complex uses the proton gradient across the inner bacterial membrane to transport large molecules across the outer bacterial membrane.; GO: 0008565 protein transporter activity, 0006810 transport, 0016020 membrane
Probab=27.66 E-value=2.6e+02 Score=21.71 Aligned_cols=26 Identities=19% Similarity=0.285 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 107 FFSAIPTLLALKGAAESLEKLMDVTR 132 (200)
Q Consensus 107 l~~aIPtllAlkRAA~SleKL~Dt~r 132 (200)
+++|||++.-..+-.+..+++...+.
T Consensus 110 L~vai~~~~~~~~l~~~~~~~~~~~e 135 (139)
T PF01618_consen 110 LVVAIPALPFYNYLKRRVERIIHRME 135 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36778888888887778887776554
No 82
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=27.52 E-value=1.4e+02 Score=22.43 Aligned_cols=19 Identities=32% Similarity=0.378 Sum_probs=11.6
Q ss_pred HHHHHHHHhhchhhHHHHH
Q 029023 125 EKLMDVTREELPETMAAVR 143 (200)
Q Consensus 125 eKL~Dt~reELP~TLAAiR 143 (200)
.+.++...+|+..+.+.+|
T Consensus 101 ~~~~~~t~~~l~~d~~~lk 119 (121)
T PF07332_consen 101 PPPFEETIAELKEDIAALK 119 (121)
T ss_pred CCCHHHHHHHHHHHHHHhh
Confidence 4556666666666666654
No 83
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=27.47 E-value=2.2e+02 Score=19.80 Aligned_cols=24 Identities=29% Similarity=0.400 Sum_probs=11.2
Q ss_pred hhhhhhhHHhhhhHHHHHHhhhhh
Q 029023 147 MEISDLTMELSDLGQEITQGVRSS 170 (200)
Q Consensus 147 lEIsDLT~eLs~l~qei~~GVrss 170 (200)
.||.++|.++..+.+++...++.-
T Consensus 45 ~el~~l~~~i~~~~~~~~~~lk~l 68 (103)
T PF00804_consen 45 RELDELTDEIKQLFQKIKKRLKQL 68 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444443
No 84
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=27.26 E-value=4.5e+02 Score=24.90 Aligned_cols=45 Identities=22% Similarity=0.312 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhh
Q 029023 113 TLLALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDL 159 (200)
Q Consensus 113 tllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l 159 (200)
-+.++++.++.+..+.+.+++ =++++.+....--+.|-++++.++
T Consensus 268 ll~~l~~l~~~l~~ll~~l~~--~~lL~Nle~lt~~LA~as~~l~~l 312 (370)
T PLN03094 268 LLLKIQAMAEDLQPLLSEVRD--SGLLKEVEKLTRVAAEASEDLRRL 312 (370)
T ss_pred HHHHHHHHHHHHHHHHhhcch--hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566666666666666654 366666665555566666666666
No 85
>PRK06041 flagellar assembly protein J; Reviewed
Probab=27.24 E-value=6e+02 Score=24.91 Aligned_cols=72 Identities=17% Similarity=0.166 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchhh---HHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHH-------H
Q 029023 110 AIPTLLALKGAAESLEKLMDVTREELPET---MAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAE-------E 179 (200)
Q Consensus 110 aIPtllAlkRAA~SleKL~Dt~reELP~T---LAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae-------~ 179 (200)
..|.+.+=.|. ..+.+++|-+ |+++-.+|+.+-|.-..+++- .|-.+--|...++++-+| +
T Consensus 59 ~yP~~~~~~rk--------~~Id~~lp~~itym~aLs~sg~~~~eifr~la~~-~~yG~~s~E~~~Iv~~v~~~g~d~~~ 129 (553)
T PRK06041 59 GYPYIKLDSKK--------KKINNDLHFFITYMAVLSTTDIDRDEIFRILSEK-EEYGALAKEFRKIYVLVDKWNYSLAE 129 (553)
T ss_pred hchHHHHHHHH--------HHHHHhHHHHHHHHHHHHcCCCCHHHHHHHHhCc-hhhhHHHHHHHHHHHHHHHhCCCHHH
Confidence 33555554443 3457788887 888999999999988888732 334444555566666654 6
Q ss_pred HHhhhcCCCCC
Q 029023 180 RLRQLTNMNPS 190 (200)
Q Consensus 180 ~lrq~~~~~~~ 190 (200)
++|+.....|+
T Consensus 130 Al~~~a~~tPS 140 (553)
T PRK06041 130 ACRFVAKRTPS 140 (553)
T ss_pred HHHHHHHhCCc
Confidence 77777766665
No 86
>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.
Probab=26.84 E-value=3.1e+02 Score=21.44 Aligned_cols=6 Identities=17% Similarity=0.147 Sum_probs=2.5
Q ss_pred HHHHHH
Q 029023 115 LALKGA 120 (200)
Q Consensus 115 lAlkRA 120 (200)
++-.||
T Consensus 65 IEAara 70 (213)
T PF00015_consen 65 IEAARA 70 (213)
T ss_dssp HHHHHT
T ss_pred cccchh
Confidence 344444
No 87
>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2.1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].
Probab=26.49 E-value=5.1e+02 Score=23.82 Aligned_cols=6 Identities=17% Similarity=0.451 Sum_probs=2.2
Q ss_pred HHHHhh
Q 029023 178 EERLRQ 183 (200)
Q Consensus 178 e~~lrq 183 (200)
++.+.+
T Consensus 113 ~~~~~~ 118 (372)
T PF04375_consen 113 QQQLAA 118 (372)
T ss_pred HHHHHH
Confidence 333333
No 88
>PF15195 TMEM210: TMEM210 family
Probab=25.74 E-value=40 Score=27.42 Aligned_cols=35 Identities=29% Similarity=0.293 Sum_probs=25.1
Q ss_pred ccccchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029023 82 WNLTHRHIL-VLNVIACAAAVSATWLFFSAIPTLLA 116 (200)
Q Consensus 82 wnl~~~~l~-vL~v~a~~vavs~t~ll~~aIPtllA 116 (200)
.+|++.+++ ++.+.+.+-|.+|++++++||-.+.|
T Consensus 7 LGLSREALIALlVVLAgv~ascfcalvivaigv~ra 42 (116)
T PF15195_consen 7 LGLSREALIALLVVLAGVSASCFCALVIVAIGVLRA 42 (116)
T ss_pred cccCHHHHHHHHHHHhccchhHHHHHHHhhheeeec
Confidence 456677654 34556667778999999999977654
No 89
>PLN02678 seryl-tRNA synthetase
Probab=24.60 E-value=6.5e+02 Score=24.34 Aligned_cols=81 Identities=17% Similarity=0.267 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhchhhHHH---HHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhhcCC
Q 029023 111 IPTLLALKGAAESLEKLMDVTREELPETMAA---VRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQLTNM 187 (200)
Q Consensus 111 IPtllAlkRAA~SleKL~Dt~reELP~TLAA---iRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~~~~ 187 (200)
|..++++-+--+++..=.|.++.|---.=.+ +...+-+..++..+++.+.++|.+-=.....+-..-++-+.++.|+
T Consensus 32 id~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~~~~~iPNi 111 (448)
T PLN02678 32 VDEVIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKEITEKEAEVQEAKAALDAKLKTIGNL 111 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 6667777777777777777777665554443 3466778888888888888887666555555556666667778887
Q ss_pred CCCC
Q 029023 188 NPSG 191 (200)
Q Consensus 188 ~~~~ 191 (200)
+.+.
T Consensus 112 ~~~~ 115 (448)
T PLN02678 112 VHDS 115 (448)
T ss_pred CCcc
Confidence 6553
No 90
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=24.39 E-value=5.1e+02 Score=23.71 Aligned_cols=65 Identities=23% Similarity=0.372 Sum_probs=45.5
Q ss_pred HHHHHHHHHH----HHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHH---HHHHHHHH
Q 029023 117 LKGAAESLEK----LMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKA---VRIAEERL 181 (200)
Q Consensus 117 lkRAA~SleK----L~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~---v~~ae~~l 181 (200)
+++....++. .++.++++|-.+...|..--.++.++.+++.++..+|.++...-... ++.||.-+
T Consensus 191 L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~~ 262 (312)
T smart00787 191 LKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKKL 262 (312)
T ss_pred HHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444433 67777888888888888888889999999998888888877665443 34444433
No 91
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=24.34 E-value=3.4e+02 Score=21.00 Aligned_cols=55 Identities=16% Similarity=0.351 Sum_probs=40.0
Q ss_pred HHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHh
Q 029023 127 LMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLR 182 (200)
Q Consensus 127 L~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lr 182 (200)
+++-+.+.+.-+...|-|--|||.+|-++=..+.+++.. ++++...+..--+.|+
T Consensus 5 vleqLE~KIqqAvdtI~LLqmEieELKekn~~L~~e~~~-~~~~r~~L~~en~qLk 59 (79)
T PRK15422 5 VFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQN-AQHQREELERENNHLK 59 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHH
Confidence 677788888889999999999999999988888887643 4444444444333333
No 92
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=24.13 E-value=6.5e+02 Score=25.63 Aligned_cols=46 Identities=11% Similarity=0.149 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHH
Q 029023 110 AIPTLLALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTME 155 (200)
Q Consensus 110 aIPtllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~e 155 (200)
.|=++.+=.+..+.+++.-+++++-+-++-.=++-+-.+|..+.++
T Consensus 157 ~i~aF~~n~~l~~~v~~~~~~~~~~~~Dl~~~l~~~~~qi~~l~~~ 202 (806)
T PF05478_consen 157 VICAFVANQQLSTGVDDTPNTVNSTLDDLRTFLNDTPQQIDHLLVQ 202 (806)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 3345555567777777777777777777766666677777777666
No 93
>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=23.93 E-value=3e+02 Score=20.17 Aligned_cols=65 Identities=17% Similarity=0.209 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhh-hhHHHHHHHHHHHhh
Q 029023 116 ALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVR-SSTKAVRIAEERLRQ 183 (200)
Q Consensus 116 AlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVr-ss~~~v~~ae~~lrq 183 (200)
++......++.|.+.+....-+.+..+|= .+.+..++..+-..++.+.++ ...+++..++.-+|.
T Consensus 6 ~l~~l~~d~~~l~~~~~~~~~~~~~~~r~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~V~e 71 (94)
T PF05957_consen 6 ELEQLRADLEDLARSAADLAGEKADEARD---RAEEALDDARDRAEDAADQAREQAREAAEQTEDYVRE 71 (94)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566667777777777666666666643 333444444444444443332 334445556655553
No 94
>COG4726 PilX Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=23.46 E-value=1.2e+02 Score=26.78 Aligned_cols=21 Identities=19% Similarity=0.270 Sum_probs=12.2
Q ss_pred hhhhHHHHHHHHHHHhhhcCC
Q 029023 167 VRSSTKAVRIAEERLRQLTNM 187 (200)
Q Consensus 167 Vrss~~~v~~ae~~lrq~~~~ 187 (200)
++.+..+++.+|..|++.+..
T Consensus 55 fqaAEaaLr~~E~~i~n~~~~ 75 (196)
T COG4726 55 FQAAEAALREGELQINNATAY 75 (196)
T ss_pred HHHHHHHHHHHHHHHhcccCc
Confidence 445555666666666666433
No 95
>PRK00182 tatB sec-independent translocase; Provisional
Probab=23.42 E-value=3.7e+02 Score=22.98 Aligned_cols=23 Identities=9% Similarity=0.164 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhchh
Q 029023 115 LALKGAAESLEKLMDVTREELPE 137 (200)
Q Consensus 115 lAlkRAA~SleKL~Dt~reELP~ 137 (200)
..++++.+.+.+.++-+++|+-.
T Consensus 31 r~lg~~ir~~R~~~~~~k~el~~ 53 (160)
T PRK00182 31 EDVRAALLAARTAINNAKQQLDG 53 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555665555555554443
No 96
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=23.27 E-value=4.9e+02 Score=22.52 Aligned_cols=10 Identities=0% Similarity=0.219 Sum_probs=3.8
Q ss_pred HHHHHHHHHH
Q 029023 118 KGAAESLEKL 127 (200)
Q Consensus 118 kRAA~SleKL 127 (200)
++....++++
T Consensus 195 ~~l~~~~~~i 204 (461)
T PRK09470 195 RKLKNAADEV 204 (461)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 97
>PF15463 ECM11: Extracellular mutant protein 11
Probab=22.98 E-value=2.3e+02 Score=22.58 Aligned_cols=51 Identities=27% Similarity=0.366 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHH
Q 029023 113 TLLALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEI 163 (200)
Q Consensus 113 tllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei 163 (200)
-|..|+.+-....+.++....|+-.--++||.-|-+|.+=.++++.++++|
T Consensus 88 l~~kl~~~R~~~r~~~~~fe~eI~~R~eav~~~~~~l~~kL~~mk~~G~ei 138 (139)
T PF15463_consen 88 LMQKLKEARRKLRKKFAVFEDEINRRAEAVRAQGEQLDRKLEKMKEGGKEI 138 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 467788888888899999999999999999999999998888888777665
No 98
>PRK11546 zraP zinc resistance protein; Provisional
Probab=22.57 E-value=4.6e+02 Score=21.92 Aligned_cols=39 Identities=18% Similarity=0.305 Sum_probs=22.9
Q ss_pred hhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhhcCCCC
Q 029023 149 ISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQLTNMNP 189 (200)
Q Consensus 149 IsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~~~~~~ 189 (200)
|..|+.|+++|.+++.+ +....-++.+++|+-+...|..
T Consensus 91 I~aL~kEI~~Lr~kL~e--~r~~~~~~~~k~Gv~~g~~~g~ 129 (143)
T PRK11546 91 INAVAKEMENLRQSLDE--LRVKRDIAMAEAGIPRGAGMGY 129 (143)
T ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHcCCCcccccCc
Confidence 56666666666666553 1223335666678876666653
No 99
>TIGR02596 Verrucomicrobium spinosum paralogous family TIGR02596. This model describes a nearly twenty member protein family unique to Verrucomicrobium spinosum. All members share a type IV pilin-like N-terminal leader sequence (TIGR02532). Sequences are from 207 to 248 in length. The function is unknown.
Probab=22.50 E-value=3.9e+02 Score=23.17 Aligned_cols=26 Identities=15% Similarity=0.138 Sum_probs=12.9
Q ss_pred HHHHHHHHH------HHHHHHHHHHHHHHHHh
Q 029023 108 FSAIPTLLA------LKGAAESLEKLMDVTRE 133 (200)
Q Consensus 108 ~~aIPtllA------lkRAA~SleKL~Dt~re 133 (200)
..++|.+.. ++++++.+...+..+|.
T Consensus 18 aia~P~l~~~~~~~~L~~~a~~L~s~L~~AR~ 49 (195)
T TIGR02596 18 ALSTPVVNQVLAAQQLGSSATRLANELAAAAL 49 (195)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445565544 44455555555544444
No 100
>COG4842 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.30 E-value=1.7e+02 Score=22.00 Aligned_cols=31 Identities=23% Similarity=0.409 Sum_probs=23.4
Q ss_pred hHHhhhhHHHHHHhhhhhHHHHHHHHHHHhh
Q 029023 153 TMELSDLGQEITQGVRSSTKAVRIAEERLRQ 183 (200)
Q Consensus 153 T~eLs~l~qei~~GVrss~~~v~~ae~~lrq 183 (200)
+.++.++-.+|.+.+|..+..++.+|++..+
T Consensus 63 ~~~l~~~l~~i~~~l~~~a~~~~~~d~~~a~ 93 (97)
T COG4842 63 ATELNEALEQLADALRHAADAFEEADQRVAQ 93 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455555566778888889999999988776
No 101
>PF12631 GTPase_Cys_C: Catalytic cysteine-containing C-terminus of GTPase, MnmE; PDB: 1XZQ_A 1XZP_A 2GJ8_D 3GEH_A 3GEI_B 3GEE_A.
Probab=22.29 E-value=2.2e+02 Score=20.15 Aligned_cols=43 Identities=21% Similarity=0.315 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhh
Q 029023 112 PTLLALKGAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDL 159 (200)
Q Consensus 112 PtllAlkRAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l 159 (200)
.-...+++|...+++..+.+....|.-+.+. ++.+..+.|+++
T Consensus 13 Rq~~~L~~a~~~l~~a~~~l~~~~~~dl~a~-----~L~~A~~~L~~I 55 (73)
T PF12631_consen 13 RQRQLLEQALEHLEDALEALENGLPLDLVAE-----DLREALESLGEI 55 (73)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT--HHHHHH-----HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCHHHHHH-----HHHHHHHHHHHH
Confidence 4456788999999999999888888666543 555555555543
No 102
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=21.86 E-value=2.4e+02 Score=18.46 Aligned_cols=32 Identities=19% Similarity=0.302 Sum_probs=18.9
Q ss_pred hhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHH
Q 029023 148 EISDLTMELSDLGQEITQGVRSSTKAVRIAEE 179 (200)
Q Consensus 148 EIsDLT~eLs~l~qei~~GVrss~~~v~~ae~ 179 (200)
++..-..++.+...++.+.++.+++....+|+
T Consensus 55 ~~~~~~~~~~~~L~~~~~~l~~~~~~~~~~d~ 86 (86)
T PF06013_consen 55 EWNQAFRQLNEALEELSQALRQAAQNYEQADQ 86 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 45555555555555666666666666666553
No 103
>PRK09835 sensor kinase CusS; Provisional
Probab=21.05 E-value=5.7e+02 Score=22.38 Aligned_cols=10 Identities=0% Similarity=0.089 Sum_probs=3.9
Q ss_pred hhhhhhhhHH
Q 029023 146 GMEISDLTME 155 (200)
Q Consensus 146 GlEIsDLT~e 155 (200)
...+++..++
T Consensus 245 ~~~~n~m~~~ 254 (482)
T PRK09835 245 VLSFNHMIER 254 (482)
T ss_pred HHHHHHHHHH
Confidence 3334444333
No 104
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=21.02 E-value=2.7e+02 Score=28.58 Aligned_cols=74 Identities=23% Similarity=0.325 Sum_probs=58.6
Q ss_pred HHHHHHHHHHHHHHhhchhhHHHHHhhhhhhhhhhHHhhhhHHHHHHhhhhhHHHHHHHHHHHhhhcCCCCCCC
Q 029023 119 GAAESLEKLMDVTREELPETMAAVRLSGMEISDLTMELSDLGQEITQGVRSSTKAVRIAEERLRQLTNMNPSGG 192 (200)
Q Consensus 119 RAA~SleKL~Dt~reELP~TLAAiRLSGlEIsDLT~eLs~l~qei~~GVrss~~~v~~ae~~lrq~~~~~~~~~ 192 (200)
.++..+|.|+-.-.+.|+.+++++|....+.++...+++--..++.+-+..--++++--|+-+++.-.+++.-+
T Consensus 372 ~~~~~leslLl~knr~lq~e~a~Lr~~n~~~~~~~~~~~~~~~el~~~~~~~ke~i~klE~dl~~~~~~~~~~~ 445 (629)
T KOG0963|consen 372 ETAKTLESLLLEKNRKLQNENASLRVANSGLSGRITELSKKGEELEAKATEQKELIAKLEQDLLKVQVSPPAEG 445 (629)
T ss_pred cccchHHHHHHHHHhhhhHHHHHHhccccccchhHHHHHhhhhhhHHHHHHHHHHHHHHHhhHhhcccCCCCCc
Confidence 45678888888889999999999999988888877777666666666666667778888889988877665544
No 105
>PRK01919 tatB sec-independent translocase; Provisional
Probab=20.67 E-value=5.6e+02 Score=22.19 Aligned_cols=21 Identities=5% Similarity=0.123 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHhhchh
Q 029023 117 LKGAAESLEKLMDVTREELPE 137 (200)
Q Consensus 117 lkRAA~SleKL~Dt~reELP~ 137 (200)
+++.-..+.+.++-+++|+-.
T Consensus 32 lGk~i~k~Rr~~~d~K~ev~~ 52 (169)
T PRK01919 32 AGALFGRAQRYINDVKAEVSR 52 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444445555555555443
No 106
>PRK07945 hypothetical protein; Provisional
Probab=20.64 E-value=67 Score=29.03 Aligned_cols=43 Identities=16% Similarity=0.228 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhch-h-hHHHHHhhhhhhhhhhHHh
Q 029023 114 LLALKGAAESLEKLMDVTREELP-E-TMAAVRLSGMEISDLTMEL 156 (200)
Q Consensus 114 llAlkRAA~SleKL~Dt~reELP-~-TLAAiRLSGlEIsDLT~eL 156 (200)
+.|.+|||+.+++|-+-+.+++- . .|.+|.=.|..+.+...|+
T Consensus 24 v~ayr~aa~~~~~~~~~~~~~~~~~g~l~~~~giG~~~a~~i~e~ 68 (335)
T PRK07945 24 VRAFRRAADVVEALDAAERARRARAGSLTSLPGIGPKTAKVIAQA 68 (335)
T ss_pred HHHHHHHHHHHHhcChhHHHHHHhcCCcccCCCcCHHHHHHHHHH
Confidence 46889999999998776233332 2 5666666677666655554
No 107
>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.
Probab=20.57 E-value=4.2e+02 Score=20.70 Aligned_cols=13 Identities=15% Similarity=0.072 Sum_probs=5.5
Q ss_pred cccccchhHHHHH
Q 029023 81 QWNLTHRHILVLN 93 (200)
Q Consensus 81 ~wnl~~~~l~vL~ 93 (200)
+.+=.+++|-|++
T Consensus 69 raGe~G~gF~vvA 81 (213)
T PF00015_consen 69 RAGEAGRGFAVVA 81 (213)
T ss_dssp HTCCCHHHHHHHH
T ss_pred hhcccchhHHHHH
Confidence 3333445444443
No 108
>PRK03100 sec-independent translocase; Provisional
Probab=20.37 E-value=4.8e+02 Score=21.64 Aligned_cols=22 Identities=9% Similarity=-0.074 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhch
Q 029023 115 LALKGAAESLEKLMDVTREELP 136 (200)
Q Consensus 115 lAlkRAA~SleKL~Dt~reELP 136 (200)
..++++-+.+.+...-+++++-
T Consensus 31 r~lG~~vr~~R~~~~~~~~~~~ 52 (136)
T PRK03100 31 RWTARALRQARDYASGATSQLR 52 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555554444443
Done!