Query 044600
Match_columns 104
No_of_seqs 172 out of 1885
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 04:54:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044600.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044600hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10871 nlpD lipoprotein NlpD 99.6 1.7E-15 3.8E-20 114.5 10.7 95 1-101 1-108 (319)
2 PRK14125 cell division suppres 99.5 9.8E-14 2.1E-18 90.0 10.0 47 54-101 36-91 (103)
3 PF01476 LysM: LysM domain; I 99.5 7.3E-15 1.6E-19 80.7 3.9 42 57-99 1-44 (44)
4 TIGR02899 spore_safA spore coa 99.3 1.6E-12 3.4E-17 70.6 4.4 42 59-100 1-44 (44)
5 cd00118 LysM Lysin domain, fou 99.1 1.3E-10 2.8E-15 61.8 5.4 43 56-99 2-46 (46)
6 PRK13914 invasion associated s 99.1 2.5E-10 5.4E-15 90.4 8.7 45 56-102 29-75 (481)
7 PRK11198 LysM domain/BON super 99.1 2.1E-10 4.5E-15 78.4 5.7 49 52-100 93-147 (147)
8 TIGR02907 spore_VI_D stage VI 98.9 1.8E-09 4E-14 82.0 5.4 44 54-99 293-338 (338)
9 smart00257 LysM Lysin motif. 98.9 5.7E-09 1.2E-13 54.7 4.9 42 56-98 1-44 (44)
10 PRK06347 autolysin; Reviewed 98.8 5.9E-09 1.3E-13 84.7 5.1 45 53-99 546-592 (592)
11 PRK10783 mltD membrane-bound l 98.8 1.3E-08 2.7E-13 80.6 6.4 47 53-101 401-449 (456)
12 PRK10190 L,D-transpeptidase; P 98.7 6.2E-08 1.3E-12 73.3 8.2 49 52-101 35-87 (310)
13 PRK06347 autolysin; Reviewed 98.7 2.8E-08 6.2E-13 80.8 5.8 47 53-101 478-526 (592)
14 COG1388 LytE FOG: LysM repeat 98.7 4.1E-08 8.8E-13 64.5 5.0 45 54-100 66-112 (124)
15 PRK13914 invasion associated s 98.7 5.1E-08 1.1E-12 77.5 6.3 48 52-101 197-246 (481)
16 COG1652 XkdP Uncharacterized p 98.7 1.4E-08 3.1E-13 75.0 3.0 48 56-103 212-266 (269)
17 PRK10260 L,D-transpeptidase; P 98.6 2.3E-07 5E-12 70.1 8.6 48 53-101 39-90 (306)
18 PRK10783 mltD membrane-bound l 98.5 3E-07 6.6E-12 72.9 5.9 46 54-101 343-390 (456)
19 TIGR03505 FimV_core FimV N-ter 98.3 6.9E-07 1.5E-11 54.7 3.0 39 63-101 1-52 (74)
20 PF05489 Phage_tail_X: Phage T 98.1 1.2E-05 2.5E-10 47.4 4.9 46 56-102 3-55 (60)
21 PF04225 OapA: Opacity-associa 98.0 4.4E-06 9.6E-11 52.3 3.1 45 55-99 3-52 (85)
22 COG3170 FimV Tfp pilus assembl 97.6 6E-05 1.3E-09 62.4 3.3 49 52-100 186-247 (755)
23 COG3858 Predicted glycosyl hyd 96.6 0.003 6.4E-08 49.8 4.2 51 51-102 46-98 (423)
24 PRK11649 putative peptidase; P 96.4 0.0055 1.2E-07 48.7 4.6 42 55-99 96-142 (439)
25 COG4254 Uncharacterized protei 95.3 0.023 5E-07 43.2 3.8 48 55-102 6-57 (339)
26 COG3858 Predicted glycosyl hyd 95.0 0.015 3.3E-07 45.8 2.0 44 56-101 3-48 (423)
27 COG5004 P2-like prophage tail 94.4 0.12 2.6E-06 30.9 4.4 47 56-102 4-57 (70)
28 COG4784 Putative Zn-dependent 94.3 0.088 1.9E-06 41.2 4.6 45 55-99 429-477 (479)
29 COG3061 OapA Cell envelope opa 92.8 0.28 6.2E-06 35.9 4.9 47 53-99 158-209 (242)
30 COG0739 NlpD Membrane proteins 88.0 1 2.2E-05 32.5 4.3 45 56-101 3-49 (277)
31 COG5510 Predicted small secret 87.4 0.45 9.7E-06 26.2 1.6 30 13-42 4-33 (44)
32 COG1388 LytE FOG: LysM repeat 85.0 0.66 1.4E-05 30.0 1.8 32 68-100 1-35 (124)
33 PRK10081 entericidin B membran 79.3 1.2 2.6E-05 25.0 1.2 28 15-42 6-33 (48)
34 PF07172 GRP: Glycine rich pro 79.0 1.8 3.9E-05 27.5 2.1 22 11-32 2-23 (95)
35 PF08139 LPAM_1: Prokaryotic m 72.1 4.5 9.8E-05 19.6 2.0 12 22-33 14-25 (25)
36 PRK10722 hypothetical protein; 71.3 9.4 0.0002 28.4 4.4 56 16-72 15-70 (247)
37 TIGR00247 conserved hypothetic 67.7 14 0.00031 28.3 5.0 40 54-96 39-88 (342)
38 KOG2850 Predicted peptidoglyca 66.4 4.2 9.2E-05 29.0 1.8 44 56-100 11-56 (186)
39 PRK11548 outer membrane biogen 65.8 7.9 0.00017 25.0 2.8 52 21-76 10-63 (113)
40 COG5567 Predicted small peripl 65.4 7.2 0.00016 22.5 2.3 22 11-34 2-23 (58)
41 PRK02710 plastocyanin; Provisi 64.9 12 0.00027 24.2 3.7 12 54-65 46-57 (119)
42 PF13510 Fer2_4: 2Fe-2S iron-s 58.8 9.6 0.00021 23.1 2.2 23 54-76 10-32 (82)
43 PRK06437 hypothetical protein; 58.5 7.8 0.00017 22.7 1.7 44 55-98 13-60 (67)
44 COG1559 Aminodeoxychorismate l 57.2 80 0.0017 24.6 7.4 39 55-96 46-94 (342)
45 PRK05659 sulfur carrier protei 56.7 11 0.00024 21.5 2.1 45 54-98 7-59 (66)
46 TIGR02007 fdx_isc ferredoxin, 55.3 16 0.00034 23.4 2.8 25 52-76 13-37 (110)
47 PRK10781 rcsF outer membrane l 55.1 23 0.0005 24.0 3.7 18 19-36 4-21 (133)
48 PRK13883 conjugal transfer pro 53.4 4.6 0.0001 27.9 0.1 14 21-34 7-20 (151)
49 PRK09810 entericidin A; Provis 53.3 8.4 0.00018 20.9 1.1 21 22-42 10-30 (41)
50 PRK10270 putative aminodeoxych 52.5 27 0.00059 26.9 4.2 39 55-96 40-88 (340)
51 PRK01622 OxaA-like protein pre 51.8 20 0.00043 26.5 3.2 24 11-34 3-26 (256)
52 cd00565 ThiS ThiaminS ubiquiti 50.7 11 0.00024 21.6 1.5 45 54-98 6-58 (65)
53 TIGR02008 fdx_plant ferredoxin 50.6 19 0.00041 22.4 2.6 23 54-76 14-36 (97)
54 PF02796 HTH_7: Helix-turn-hel 50.6 10 0.00022 20.3 1.2 17 60-76 19-35 (45)
55 PRK15396 murein lipoprotein; P 49.9 22 0.00047 21.9 2.7 14 21-34 11-24 (78)
56 TIGR03352 VI_chp_3 type VI sec 49.3 20 0.00044 24.3 2.8 16 21-36 6-21 (146)
57 PRK15078 polysaccharide export 49.1 94 0.002 24.3 6.7 12 87-98 84-95 (379)
58 PF05643 DUF799: Putative bact 48.1 32 0.0007 25.1 3.8 71 21-92 7-94 (215)
59 cd00207 fer2 2Fe-2S iron-sulfu 45.3 29 0.00062 20.2 2.8 23 54-76 9-31 (84)
60 PRK07569 bidirectional hydroge 44.8 21 0.00046 25.8 2.4 23 54-76 10-32 (234)
61 PF04921 XAP5: XAP5, circadian 44.6 20 0.00044 26.5 2.3 44 54-100 112-160 (239)
62 COG3017 LolB Outer membrane li 43.7 31 0.00067 25.1 3.1 21 18-38 9-29 (206)
63 COG3065 Slp Starvation-inducib 43.0 34 0.00073 24.5 3.1 41 57-99 65-118 (191)
64 PF13518 HTH_28: Helix-turn-he 42.8 16 0.00035 19.4 1.2 17 60-76 10-26 (52)
65 PRK00022 lolB outer membrane l 42.4 33 0.00071 24.1 3.1 13 21-33 8-20 (202)
66 PF13117 Cag12: Cag pathogenic 42.2 10 0.00022 24.9 0.4 19 23-42 2-20 (113)
67 PRK11479 hypothetical protein; 42.0 22 0.00047 26.9 2.2 17 18-34 8-24 (274)
68 PRK11251 DNA-binding transcrip 41.6 36 0.00078 22.1 2.9 48 19-76 6-53 (109)
69 PRK10796 LPS-assembly lipoprot 41.3 17 0.00038 25.6 1.5 19 17-35 5-23 (188)
70 PF14451 Ub-Mut7C: Mut7-C ubiq 41.1 25 0.00054 21.6 2.0 47 54-100 24-75 (81)
71 PF05225 HTH_psq: helix-turn-h 40.9 21 0.00046 19.2 1.5 18 59-76 12-30 (45)
72 PF13627 LPAM_2: Prokaryotic l 40.9 32 0.0007 16.4 1.9 16 19-34 3-18 (24)
73 PRK08364 sulfur carrier protei 39.9 27 0.00058 20.4 2.0 43 56-98 17-63 (70)
74 PRK09973 putative outer membra 39.6 37 0.00081 21.2 2.6 14 21-34 10-23 (85)
75 PF11246 Phage_gp53: Base plat 39.6 18 0.00038 26.0 1.3 33 54-87 45-82 (193)
76 PF14453 ThiS-like: ThiS-like 39.2 37 0.0008 19.6 2.4 45 54-98 7-53 (57)
77 PRK11627 hypothetical protein; 39.1 30 0.00065 24.6 2.4 13 23-35 10-22 (192)
78 KOG3309 Ferredoxin [Energy pro 39.0 30 0.00064 24.1 2.3 22 53-74 54-75 (159)
79 TIGR03042 PS_II_psbQ_bact phot 38.6 50 0.0011 22.5 3.4 17 19-35 7-23 (142)
80 PF11839 DUF3359: Protein of u 38.5 42 0.0009 21.5 2.8 16 19-34 7-22 (96)
81 PF01527 HTH_Tnp_1: Transposas 38.3 11 0.00023 21.9 0.0 18 59-76 20-37 (76)
82 COG3056 Uncharacterized lipopr 38.2 1.5E+02 0.0032 21.5 5.7 17 19-35 19-35 (204)
83 TIGR02122 TRAP_TAXI TRAP trans 37.1 40 0.00088 24.5 3.0 25 10-34 1-25 (320)
84 PF13617 Lipoprotein_19: YnbE- 37.0 23 0.0005 20.6 1.3 15 18-32 3-17 (59)
85 TIGR00752 slp outer membrane l 36.8 21 0.00045 25.4 1.3 37 60-98 63-112 (182)
86 COG2963 Transposase and inacti 36.6 28 0.0006 22.0 1.8 16 59-74 21-36 (116)
87 PF11153 DUF2931: Protein of u 36.4 43 0.00093 23.8 2.9 18 20-37 5-22 (216)
88 PF04218 CENP-B_N: CENP-B N-te 36.3 17 0.00037 20.2 0.7 18 59-76 19-36 (53)
89 COG2063 FlgH Flagellar basal b 36.1 89 0.0019 23.1 4.5 17 83-99 65-81 (230)
90 PF06474 MLTD_N: MltD lipid at 35.6 69 0.0015 16.6 3.3 12 22-33 23-34 (34)
91 PF06291 Lambda_Bor: Bor prote 35.2 54 0.0012 20.9 2.9 13 22-34 8-20 (97)
92 TIGR03044 PS_II_psb27 photosys 34.7 81 0.0018 21.4 3.8 20 15-34 9-28 (135)
93 PF13798 PCYCGC: Protein of un 33.3 44 0.00096 23.3 2.4 17 19-35 2-18 (158)
94 PRK11443 lipoprotein; Provisio 33.2 42 0.00091 22.3 2.3 15 21-35 6-20 (124)
95 PF13936 HTH_38: Helix-turn-he 32.7 39 0.00084 17.9 1.7 18 59-76 17-34 (44)
96 TIGR01683 thiS thiamine biosyn 32.7 28 0.0006 19.8 1.2 45 54-98 5-57 (64)
97 PF00111 Fer2: 2Fe-2S iron-sul 32.5 34 0.00074 19.8 1.6 21 55-75 8-30 (78)
98 PF03398 Ist1: Regulator of Vp 32.3 28 0.00061 24.0 1.4 14 63-76 152-165 (165)
99 PRK09413 IS2 repressor TnpA; R 31.4 37 0.00081 21.9 1.8 19 58-76 25-43 (121)
100 TIGR00548 lolB outer membrane 31.3 42 0.0009 23.7 2.2 11 24-34 10-20 (202)
101 PRK07440 hypothetical protein; 31.1 38 0.00082 19.9 1.6 45 54-98 11-63 (70)
102 CHL00134 petF ferredoxin; Vali 30.5 64 0.0014 20.1 2.7 23 54-76 16-38 (99)
103 TIGR02898 spore_YhcN_YlaJ spor 30.2 40 0.00087 23.3 1.8 33 64-98 51-83 (158)
104 PRK10397 lipoprotein; Provisio 30.0 1E+02 0.0022 20.8 3.7 14 21-34 6-19 (137)
105 PRK02998 prsA peptidylprolyl i 29.8 50 0.0011 24.5 2.4 14 21-34 12-25 (283)
106 PRK13614 lipoprotein LpqB; Pro 29.2 67 0.0014 26.8 3.2 24 14-37 7-30 (573)
107 TIGR03850 bind_CPR_0540 carboh 29.1 66 0.0014 24.6 3.1 14 21-34 10-23 (437)
108 TIGR02722 lp_ uncharacterized 29.0 44 0.00096 23.4 2.0 16 19-34 6-21 (189)
109 COG4594 FecB ABC-type Fe3+-cit 29.0 50 0.0011 25.2 2.3 19 18-36 9-27 (310)
110 PLN02593 adrenodoxin-like ferr 29.0 66 0.0014 20.8 2.6 22 55-76 13-34 (117)
111 PRK02463 OxaA-like protein pre 28.8 88 0.0019 23.9 3.6 20 15-34 7-27 (307)
112 PF15468 DUF4636: Domain of un 28.2 1E+02 0.0022 22.7 3.7 19 53-71 82-100 (243)
113 PRK09578 periplasmic multidrug 28.2 1.1E+02 0.0024 23.4 4.2 13 22-34 14-26 (385)
114 PRK11372 lysozyme inhibitor; P 28.2 52 0.0011 21.3 2.0 14 21-34 8-21 (109)
115 PF13473 Cupredoxin_1: Cupredo 28.1 19 0.00041 22.4 -0.0 10 54-63 34-43 (104)
116 TIGR01941 nqrF NADH:ubiquinone 27.9 1.9E+02 0.004 22.5 5.4 23 54-76 41-63 (405)
117 PRK06944 sulfur carrier protei 27.9 53 0.0011 18.4 1.9 45 54-98 7-58 (65)
118 PRK13616 lipoprotein LpqB; Pro 27.8 70 0.0015 26.6 3.1 23 16-38 8-30 (591)
119 PTZ00305 NADH:ubiquinone oxido 27.6 61 0.0013 24.8 2.6 23 54-76 75-98 (297)
120 PRK13835 conjugal transfer pro 27.6 67 0.0015 22.0 2.5 15 20-34 6-20 (145)
121 PRK13792 lysozyme inhibitor; P 27.3 57 0.0012 21.8 2.1 21 17-37 5-25 (127)
122 PRK10540 lipoprotein; Provisio 27.2 1.1E+02 0.0023 18.4 3.1 14 20-33 13-26 (72)
123 PRK15175 Vi polysaccharide exp 27.1 1.6E+02 0.0034 23.0 4.8 12 21-32 7-18 (355)
124 PHA00675 hypothetical protein 26.8 69 0.0015 19.7 2.2 17 60-76 37-53 (78)
125 PF11834 DUF3354: Domain of un 26.7 18 0.0004 21.6 -0.3 34 65-98 31-68 (69)
126 PRK15470 emtA lytic murein end 26.7 39 0.00085 24.4 1.3 13 64-76 42-54 (203)
127 PF12298 Bot1p: Eukaryotic mit 26.5 65 0.0014 22.6 2.4 18 59-76 30-47 (172)
128 PF09680 Tiny_TM_bacill: Prote 26.1 63 0.0014 15.4 1.6 7 19-25 11-17 (24)
129 COG4764 Uncharacterized protei 25.9 68 0.0015 22.7 2.4 14 22-35 11-24 (197)
130 COG3753 Uncharacterized protei 25.5 39 0.00084 23.1 1.0 30 62-93 90-125 (143)
131 PF08356 EF_assoc_2: EF hand a 24.9 55 0.0012 20.5 1.6 42 59-100 42-86 (89)
132 PF04967 HTH_10: HTH DNA bindi 24.9 46 0.001 18.7 1.2 22 55-76 16-37 (53)
133 KOG3462 Predicted membrane pro 24.7 1.8E+02 0.0038 18.7 3.9 24 6-29 44-67 (105)
134 PF13693 HTH_35: Winged helix- 24.6 55 0.0012 20.0 1.5 17 60-76 13-29 (78)
135 COG1102 Cmk Cytidylate kinase 24.3 55 0.0012 23.2 1.7 27 58-84 28-59 (179)
136 PF00356 LacI: Bacterial regul 23.7 1.1E+02 0.0023 16.6 2.5 13 64-76 1-13 (46)
137 COG4238 Murein lipoprotein [Ce 23.5 49 0.0011 20.3 1.1 18 17-34 7-24 (78)
138 PRK11189 lipoprotein NlpI; Pro 23.4 61 0.0013 23.9 1.9 17 17-33 5-21 (296)
139 PRK10802 peptidoglycan-associa 23.3 73 0.0016 22.1 2.2 13 22-34 13-25 (173)
140 PRK10449 heat-inducible protei 23.2 1.1E+02 0.0024 20.3 3.0 14 21-34 7-20 (140)
141 PTZ00038 ferredoxin; Provision 23.0 93 0.002 22.2 2.7 22 55-76 107-128 (191)
142 PRK05863 sulfur carrier protei 23.0 91 0.002 17.8 2.2 44 55-98 8-58 (65)
143 PF04545 Sigma70_r4: Sigma-70, 22.6 72 0.0016 16.9 1.7 17 60-76 18-34 (50)
144 PF05887 Trypan_PARP: Procycli 22.5 29 0.00062 23.7 0.0 20 17-36 8-27 (143)
145 PF12912 N_NLPC_P60: NLPC_P60 22.5 29 0.00062 22.5 0.0 18 20-37 3-20 (124)
146 PRK10713 2Fe-2S ferredoxin Yfa 22.3 1E+02 0.0023 18.4 2.5 22 54-75 10-32 (84)
147 COG4259 Uncharacterized protei 22.0 1E+02 0.0022 20.3 2.4 14 21-34 12-25 (121)
148 PF13384 HTH_23: Homeodomain-l 21.8 65 0.0014 16.9 1.4 17 60-76 15-31 (50)
149 PRK09570 rpoH DNA-directed RNA 21.6 91 0.002 19.2 2.1 43 56-99 14-61 (79)
150 PF02323 ELH: Egg-laying hormo 21.5 1.5E+02 0.0032 21.9 3.5 11 54-64 46-56 (255)
151 PF01710 HTH_Tnp_IS630: Transp 21.3 1.1E+02 0.0023 19.7 2.6 17 60-76 69-85 (119)
152 PRK13613 lipoprotein LpqB; Pro 21.1 79 0.0017 26.4 2.3 17 22-38 18-34 (599)
153 PRK13617 psbV cytochrome c-550 20.7 1.8E+02 0.0039 20.5 3.7 20 6-25 3-22 (170)
154 COG5633 Predicted periplasmic 20.7 53 0.0012 21.9 1.0 15 89-103 96-110 (123)
155 PRK04405 prsA peptidylprolyl i 20.6 1.5E+02 0.0032 22.3 3.5 17 18-34 11-27 (298)
156 PF13984 MsyB: MsyB protein 20.4 30 0.00066 22.7 -0.2 14 55-68 36-49 (122)
157 PF12729 4HB_MCP_1: Four helix 20.4 1.3E+02 0.0029 19.1 2.9 18 10-27 4-21 (181)
158 PF13533 Biotin_lipoyl_2: Biot 20.3 24 0.00052 19.2 -0.6 12 58-69 23-34 (50)
159 PRK10893 lipopolysaccharide ex 20.2 88 0.0019 22.1 2.1 19 12-30 3-21 (192)
160 TIGR03659 IsdE heme ABC transp 20.2 1.2E+02 0.0025 22.2 2.8 19 17-35 5-23 (289)
161 PRK05713 hypothetical protein; 20.1 1E+02 0.0022 22.9 2.6 23 54-76 8-30 (312)
162 PF05984 Cytomega_UL20A: Cytom 20.0 1E+02 0.0023 19.4 2.1 9 23-31 14-22 (100)
No 1
>PRK10871 nlpD lipoprotein NlpD; Provisional
Probab=99.64 E-value=1.7e-15 Score=114.52 Aligned_cols=95 Identities=19% Similarity=0.272 Sum_probs=63.2
Q ss_pred CCccchhHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCcccc---C----CCCC----CCCCCCceEEECCCCchHHHH
Q 044600 1 MARASSTTELAEKIAWHCALFMAIMLVLSCCESSDSGGFMGQV---T----QPRN----VNKPCDEIYVVREGETLHTIS 69 (104)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~~~~---~----~~~~----~~~~~~~~y~V~~GDTL~~IA 69 (104)
|+-++.+... ||..+..++ +++|++|++....++++.. + .... .......+|+||+|||||.||
T Consensus 1 ~~~~~~~~~~----~~~~~~~~~-~~~l~gCs~~~~~~apv~~~~~~~~~~~r~~~~~~~g~~~~~~y~Vk~GDTL~~IA 75 (319)
T PRK10871 1 MSAGSPKFTV----RRIAALSLV-SLWLAGCSNTSNPPAPVSSVGNGRIVYNRQYGNIPKGSYSGSTYTVKKGDTLFYIA 75 (319)
T ss_pred CCCCChhHHH----HHHHHHHHH-HHHhhhhcCCCCCCCceeeccccccccccccccccCCCCCCCceEECCCCHHHHHH
Confidence 5555555533 443333332 3348999865555566651 0 0000 111235789999999999999
Q ss_pred HHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 70 EKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 70 ~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
++||.+| |.+.| +|.+|+.|++||+|+||..
T Consensus 76 ~~~g~~~~~La~~N-~l~~p~~I~~GQ~L~i~~~ 108 (319)
T PRK10871 76 WITGNDFRDLAQRN-NIQAPYSLNVGQTLQVGNA 108 (319)
T ss_pred HHHCcCHHHHHHhc-CCCCCccccCCCEEEeCCC
Confidence 9999999 55555 7889999999999999754
No 2
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=99.54 E-value=9.8e-14 Score=89.96 Aligned_cols=47 Identities=19% Similarity=0.260 Sum_probs=36.8
Q ss_pred CceEEECCCCchHHHHHHcCCh--------H-HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 54 DEIYVVREGETLHTISEKCGDP--------Y-IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~--------~-i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
...|+|++|||||+||++|+.+ + .++.+|++.+ +.|+|||+|+||..
T Consensus 36 ~~~~tV~~GDTLW~IA~~y~~~~~l~~~~~v~~I~~~N~l~~-~~I~~Gq~L~IP~~ 91 (103)
T PRK14125 36 YVEITVQEGDTLWALADQYAGKHHMAKNEFIEWVEDVNNLPS-GHIKAGDKLVIPVL 91 (103)
T ss_pred cEEEEECCCCCHHHHHHHhCCCcCCCHHHHHHHHHHhcCCCC-CcCCCCCEEEEecC
Confidence 4589999999999999999542 2 3344457854 57999999999954
No 3
>PF01476 LysM: LysM domain; InterPro: IPR018392 This domain is about 40 residues long and is found in a variety of enzymes involved in bacterial cell wall degradation []. This domain may have a general peptidoglycan binding function.; GO: 0016998 cell wall macromolecule catabolic process; PDB: 2DJP_A 3ZQD_A 1Y7M_B 4A52_A 2L9Y_A 1E0G_A.
Probab=99.54 E-value=7.3e-15 Score=80.74 Aligned_cols=42 Identities=33% Similarity=0.641 Sum_probs=34.6
Q ss_pred EEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 57 YVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 57 y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
|+|++|||||+||++||+++ +.+.|+++.++ .|.+||+|+||
T Consensus 1 y~V~~gDtl~~IA~~~~~~~~~l~~~N~~~~~~-~l~~G~~l~iP 44 (44)
T PF01476_consen 1 YTVQPGDTLWSIAKRYGISVDELMELNPNIDSD-NLQPGQKLCIP 44 (44)
T ss_dssp EEE-TT--HHHHHHHTTS-HHHHHHHCCTTHGG-CGGTTEEEEEC
T ss_pred CEECcCCcHHHHHhhhhhhHhHHHHhcCCCCcc-cCCCCCEEEeC
Confidence 89999999999999999998 99999888554 49999999998
No 4
>TIGR02899 spore_safA spore coat assembly protein SafA. in which one of which is found in most examples of endospore-forming bacteria. Lysin motifs are repeated in many proteins.
Probab=99.35 E-value=1.6e-12 Score=70.57 Aligned_cols=42 Identities=36% Similarity=0.835 Sum_probs=37.1
Q ss_pred ECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCC
Q 044600 59 VREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITP 100 (104)
Q Consensus 59 V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~ 100 (104)
|++|||||+||++||+++ +.+.|+.+.+++.+++||+|.||.
T Consensus 1 v~~gdtl~~IA~~~~~~~~~l~~~N~~~~~~~~~~~g~~l~ip~ 44 (44)
T TIGR02899 1 VQKGDTLWKIAKKYGVDFDELIQANPQLSNPNLIYPGMKIKIPS 44 (44)
T ss_pred CCCCCCHHHHHHHHCcCHHHHHHHhhcCCCCCCcCCCCEEecCC
Confidence 689999999999999988 888887676677899999999984
No 5
>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
Probab=99.15 E-value=1.3e-10 Score=61.84 Aligned_cols=43 Identities=33% Similarity=0.606 Sum_probs=37.8
Q ss_pred eEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 56 IYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
+|+|++|||+|+||++|++++ +.+.|+. .++..+.+|+.|.||
T Consensus 2 ~~~v~~gdt~~~ia~~~~~~~~~~~~~N~~-~~~~~~~~g~~l~ip 46 (46)
T cd00118 2 TYTVKKGDTLSSIAQRYGISVEELLKLNGL-SDPDNLQVGQKLKIP 46 (46)
T ss_pred EEEECCCCCHHHHHHHHCcCHHHHHHHcCC-CCccccCCCCEEecC
Confidence 699999999999999999988 7777754 456789999999987
No 6
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=99.14 E-value=2.5e-10 Score=90.42 Aligned_cols=45 Identities=27% Similarity=0.499 Sum_probs=39.8
Q ss_pred eEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCCC
Q 044600 56 IYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPFK 102 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~~ 102 (104)
+|+|++|||||+||++||+++ |.+.| ++. ++.|++||+|+||...
T Consensus 29 tytVq~GDTLw~IA~~ygvtv~~I~~~N-~l~-~~~I~~Gq~L~Ip~~~ 75 (481)
T PRK13914 29 TVVVEAGDTLWGIAQSKGTTVDAIKKAN-NLT-TDKIVPGQKLQVNEVA 75 (481)
T ss_pred eEEECCCCCHHHHHHHHCCCHHHHHHHh-CCC-cccccCCCEEEeCCCC
Confidence 799999999999999999999 77777 674 5789999999999654
No 7
>PRK11198 LysM domain/BON superfamily protein; Provisional
Probab=99.09 E-value=2.1e-10 Score=78.44 Aligned_cols=49 Identities=39% Similarity=0.839 Sum_probs=40.9
Q ss_pred CCCceEEECCCCchHHHHHHc-CC--hH--HHHhCCC-CCCCCCcCCCCEEEeCC
Q 044600 52 PCDEIYVVREGETLHTISEKC-GD--PY--IVEQNPH-INDPDDVFPGLVIKITP 100 (104)
Q Consensus 52 ~~~~~y~V~~GDTL~~IA~~~-g~--~~--i~~~N~~-l~~~~~l~~Gq~L~ip~ 100 (104)
+...+|+|++|||||+||++| +. .| |.+.|+. +.+++.|+|||+|.||+
T Consensus 93 p~~~~y~Vk~GDTL~~IA~~~~g~~~~~~~I~~~N~~~l~~~~~I~pGq~L~IP~ 147 (147)
T PRK11198 93 PESQFYTVKSGDTLSAIAKKVYGNANKYNKIFEANKPMLKSPDKIYPGQVLRIPE 147 (147)
T ss_pred CCCeEEEECCCCCHHHHHHHHcCChhhHHHHHHhhhhcCCCcCCcCcCCEEecCC
Confidence 355789999999999999998 43 45 8888843 67888999999999995
No 8
>TIGR02907 spore_VI_D stage VI sporulation protein D. SpoVID, the stage VI sporulation protein D, is restricted to endospore-forming members of the bacteria, all of which are found among the Firmicutes. It is widely distributed but not quite universal in this group. Between well-conserved N-terminal and C-terminal domains is a poorly conserved, low-complexity region of variable length, rich enough in glutamic acid to cause spurious BLAST search results unless a filter is used. The seed alignment for this model was trimmed, in effect, by choosing member sequences in which these regions are relatively short. SpoVID is involved in spore coat assembly by the mother cell compartment late in the process of sporulation.
Probab=98.92 E-value=1.8e-09 Score=82.00 Aligned_cols=44 Identities=25% Similarity=0.452 Sum_probs=39.1
Q ss_pred CceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 54 DEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
..+|+|++|||||.||++||+++ |.+.| ++. ++.|++||.|.||
T Consensus 293 ~~~YiVq~GDTL~sIAkRYGVSV~~L~r~N-~L~-~~~L~~GQ~L~IP 338 (338)
T TIGR02907 293 LRMCIVQEGDTIETIAERYEISVSQLIRHN-QLE-DFEVNEGQILYIP 338 (338)
T ss_pred cEEEEECCCCCHHHHHHHHCcCHHHHHHHh-CCC-ccccCCCCEEEeC
Confidence 35899999999999999999999 77777 675 6899999999998
No 9
>smart00257 LysM Lysin motif.
Probab=98.88 E-value=5.7e-09 Score=54.66 Aligned_cols=42 Identities=36% Similarity=0.646 Sum_probs=35.4
Q ss_pred eEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEe
Q 044600 56 IYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKI 98 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~i 98 (104)
+|+|++|||+|+||++|+.+. +.+.|+.. ++..+.+|+.|+|
T Consensus 1 ~~~v~~gdt~~~ia~~~~~~~~~~~~~N~~~-~~~~~~~g~~l~i 44 (44)
T smart00257 1 TYTVKKGDTLSSIARRYGISVSDLLELNNIL-DPDNLQVGQKLKI 44 (44)
T ss_pred CeEeCCCCCHHHHHHHhCCCHHHHHHHcCCC-CccccCCCCEEeC
Confidence 489999999999999998887 88888644 5578999999875
No 10
>PRK06347 autolysin; Reviewed
Probab=98.81 E-value=5.9e-09 Score=84.69 Aligned_cols=45 Identities=22% Similarity=0.378 Sum_probs=38.3
Q ss_pred CCceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 53 CDEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 53 ~~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
+..+|+|++|||||.||++||++. |.+.| ++. ++.|++||+|+|+
T Consensus 546 ~~~~Y~Vk~GDTL~sIA~KygvSv~~L~~~N-~L~-~~~L~~GQ~L~I~ 592 (592)
T PRK06347 546 TVKTYTVKKGDSLWAISRQYKTTVDNIKAWN-KLT-SNMIHVGQKLTIK 592 (592)
T ss_pred cceeeecCCCCcHHHHHHHhCCCHHHHHHhc-CCC-cccCCCCCEEecC
Confidence 356899999999999999999999 65555 675 4689999999985
No 11
>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional
Probab=98.79 E-value=1.3e-08 Score=80.63 Aligned_cols=47 Identities=21% Similarity=0.326 Sum_probs=39.3
Q ss_pred CCceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 53 CDEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 53 ~~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
...+|+|++|||||+||++||++. |.+.|+ +... .|+|||+|+|+..
T Consensus 401 ~~~~Y~Vr~GDTL~sIA~kygVtv~~L~~~N~-l~~~-~L~pGq~L~l~v~ 449 (456)
T PRK10783 401 DSITYRVRKGDSLSSIAKRHGVNIKDVMRWNS-DTAK-NLQPGDKLTLFVK 449 (456)
T ss_pred cceeEEeCCCCCHHHHHHHhCCCHHHHHHhcC-CCCC-cCCCCCEEEEecC
Confidence 456899999999999999999999 777775 4344 8999999999743
No 12
>PRK10190 L,D-transpeptidase; Provisional
Probab=98.73 E-value=6.2e-08 Score=73.33 Aligned_cols=49 Identities=20% Similarity=0.182 Sum_probs=42.4
Q ss_pred CCCceEEECCCC--chHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 52 PCDEIYVVREGE--TLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 52 ~~~~~y~V~~GD--TL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
+...+|+|+++| +|.+||++|++.+ +.++||++ |++..++|++|.||.+
T Consensus 35 G~~~~~~v~~~~~~~le~iA~~f~~g~~~l~~aNPgv-d~~~p~~G~~i~iP~~ 87 (310)
T PRK10190 35 GQSLTVTVPDHNTQPLETFAAQYGQGLSNMLEANPGA-DVFLPKSGSQLTIPQQ 87 (310)
T ss_pred cceEEEEecCCCCccHHHHHHHhCCCHHHHHHhCCCC-CCCCCCCCCEEEecCc
Confidence 345689999976 5999999999888 99999999 7888899999999963
No 13
>PRK06347 autolysin; Reviewed
Probab=98.69 E-value=2.8e-08 Score=80.77 Aligned_cols=47 Identities=21% Similarity=0.433 Sum_probs=39.7
Q ss_pred CCceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 53 CDEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 53 ~~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
+...|+|++|||||.||++||++. +.+.| .+.+ +.|++||+|+||..
T Consensus 478 ~~~~YtVk~GDTL~sIAkkygVSv~~L~~~N-~l~s-~~L~~GQ~L~Ip~~ 526 (592)
T PRK06347 478 NAKVYTVAKGDSLWRIANNNKVTIANLKSWN-NLKS-DFIYPGQKLKVSAG 526 (592)
T ss_pred cceeeeecCCCCHHHHHHHHCCCHHHHHHhc-CCCc-ccccCCcEEEEecC
Confidence 456899999999999999999999 66666 5644 68999999999953
No 14
>COG1388 LytE FOG: LysM repeat [Cell envelope biogenesis, outer membrane]
Probab=98.67 E-value=4.1e-08 Score=64.53 Aligned_cols=45 Identities=27% Similarity=0.448 Sum_probs=38.2
Q ss_pred CceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCC
Q 044600 54 DEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITP 100 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~ 100 (104)
..+|+|++|||||.||++|+++. +.+.| ++.+ +.+++||.|.++.
T Consensus 66 ~~~~~V~~gdtL~~Ia~~~~~tv~~l~~~n-~l~~-~~i~~gq~l~~~~ 112 (124)
T COG1388 66 VVTYTVKKGDTLSKIARKYGVTVAELKQLN-NLSS-DKIKVGQKLKLPV 112 (124)
T ss_pred CceEEEecCCCHHHHHHHhCCCHHHHHHHh-ccCC-CceecCcEEEEec
Confidence 35899999999999999999998 66666 5544 4999999999974
No 15
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=98.67 E-value=5.1e-08 Score=77.46 Aligned_cols=48 Identities=21% Similarity=0.359 Sum_probs=40.9
Q ss_pred CCCceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 52 PCDEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 52 ~~~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
....+|+|++|||||.||++||+++ |.+.| ++.+ +.|++||+|.||..
T Consensus 197 ~~a~tytVq~GDTL~sIAkrYgVtv~eI~~~N-~l~s-~~L~pGQ~L~Ip~s 246 (481)
T PRK13914 197 QNATTHAVKSGDTIWALSVKYGVSVQDIMSWN-NLSS-SSIYVGQKLAIKQT 246 (481)
T ss_pred CCCeEEEECCCCCHHHHHHHHCCCHHHHHHhc-CCCc-cccCCCCEEEecCC
Confidence 3457899999999999999999999 66666 6754 58999999999964
No 16
>COG1652 XkdP Uncharacterized protein containing LysM domain [Function unknown]
Probab=98.67 E-value=1.4e-08 Score=74.96 Aligned_cols=48 Identities=40% Similarity=0.671 Sum_probs=41.8
Q ss_pred eEEECCCCchHHHHHHc-CCh--H--HHHhCCC--CCCCCCcCCCCEEEeCCCCC
Q 044600 56 IYVVREGETLHTISEKC-GDP--Y--IVEQNPH--INDPDDVFPGLVIKITPFKN 103 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~-g~~--~--i~~~N~~--l~~~~~l~~Gq~L~ip~~~~ 103 (104)
+|+|++|||||.||+++ |.. | |...|.. +.+++.|+|||+|+||...+
T Consensus 212 ~~~v~rgDTl~~is~~~Yg~~~~y~~I~~aNk~~~~~~p~~I~pGq~l~iP~~~~ 266 (269)
T COG1652 212 TNTVKRGDTLWQISKKVYGDGVEYRKIAEANKALVLDNPDKIKPGQVLRIPDQLP 266 (269)
T ss_pred EEEeccCCcccccchhhcCcceEEEeHhhhhhhhccCCCCcCCCcceeeCCCccc
Confidence 89999999999999776 664 4 9999974 89999999999999997654
No 17
>PRK10260 L,D-transpeptidase; Provisional
Probab=98.63 E-value=2.3e-07 Score=70.13 Aligned_cols=48 Identities=21% Similarity=0.285 Sum_probs=41.9
Q ss_pred CCceEEECCCC--chHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 53 CDEIYVVREGE--TLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 53 ~~~~y~V~~GD--TL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
...+|+|++|| +|.+||++|++.+ ++++||++ |+...++|++|.||.+
T Consensus 39 ~~~~~~v~~~~~~~le~iA~~f~~g~~~l~~aNPgv-dp~lp~~G~~i~iP~~ 90 (306)
T PRK10260 39 QNQVITIPEGNTQPLEYFAAEYQMGLSNMMEANPGV-DTFLPKGGTVLNIPQQ 90 (306)
T ss_pred ccEEEEeCCCCCchHHHHHHHhCCCHHHHHHhCcCC-CCCcCCCCCEEEeCCc
Confidence 45689999976 5999999998887 99999998 7888899999999963
No 18
>PRK10783 mltD membrane-bound lytic murein transglycosylase D; Provisional
Probab=98.48 E-value=3e-07 Score=72.85 Aligned_cols=46 Identities=22% Similarity=0.310 Sum_probs=39.2
Q ss_pred CceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 54 DEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
..+|+|++|||||+||++||++. +.+.| ++.+ +.|.+||+|.||.+
T Consensus 343 ~~~y~Vk~GDTL~sIA~r~gvs~~~L~~~N-~l~~-~~L~~Gq~L~Ip~~ 390 (456)
T PRK10783 343 SRSYKVRSGDTLSGIASRLNVSTKDLQQWN-NLRG-SKLKVGQTLTIGAG 390 (456)
T ss_pred ceEEEECCCCcHHHHHHHHCcCHHHHHHHc-CCCc-ccCCCCCEEEecCC
Confidence 45799999999999999999998 66666 5644 78999999999964
No 19
>TIGR03505 FimV_core FimV N-terminal domain. This region is found at, or about 200 amino acids from, the N-terminus of FimV from Pseudomonas aeruginosa, TspA of Neisseria meningitidis, and related proteins. Disruption of FimV blocks twitching motility from type IV pili; Semmler, et al. suggest a role for this family in peptidoglycan layer remodelling required by type IV fimbrial systems. Most but not all members of this protein family have a C-terminal region recognized by TIGR03504. In between is a highly variable, often repeat-filled region rich in the negatively charged amino acids Asp and Glu.
Probab=98.28 E-value=6.9e-07 Score=54.70 Aligned_cols=39 Identities=18% Similarity=0.347 Sum_probs=31.5
Q ss_pred CchHHHHHHc---C-ChH------HHHhCCCC---CCCCCcCCCCEEEeCCC
Q 044600 63 ETLHTISEKC---G-DPY------IVEQNPHI---NDPDDVFPGLVIKITPF 101 (104)
Q Consensus 63 DTL~~IA~~~---g-~~~------i~~~N~~l---~~~~~l~~Gq~L~ip~~ 101 (104)
||||+||++| + ++. |.++||+. .+.+.|++|++|+||..
T Consensus 1 DTLw~IA~~~~~~~~~s~~q~m~ai~~aNp~AF~~~nin~L~~G~~L~iP~~ 52 (74)
T TIGR03505 1 DTLWGIAQRVRPDNSVSLYQMMLALYRANPDAFIGGNINRLKVGQILRIPSE 52 (74)
T ss_pred CcHHHHHHHHccCCCCCHHHHHHHHHHHCHHhHhcCChhhcCCCCEEeCCCH
Confidence 8999999999 3 333 88899764 36788999999999963
No 20
>PF05489 Phage_tail_X: Phage Tail Protein X; InterPro: IPR008861 This entry is represented by Bacteriophage P2, GpX. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family is found in a family of phage tail proteins. Sequence analysis suggests that they are related to IPR002482 from INTERPRO which suggests a general peptidoglycan binding function.
Probab=98.06 E-value=1.2e-05 Score=47.39 Aligned_cols=46 Identities=28% Similarity=0.489 Sum_probs=36.9
Q ss_pred eEEECCCCchHHHHHHc-CChH-----HHHhCCCCCCC-CCcCCCCEEEeCCCC
Q 044600 56 IYVVREGETLHTISEKC-GDPY-----IVEQNPHINDP-DDVFPGLVIKITPFK 102 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~-g~~~-----i~~~N~~l~~~-~~l~~Gq~L~ip~~~ 102 (104)
.|+ +.|||+-.|+.+| |..- ++++||++.+. ..+..|.+|.+|...
T Consensus 3 v~t-~~GDtlD~I~~r~yG~~~~~~e~ll~aNp~La~~~~~lpaG~~I~lP~i~ 55 (60)
T PF05489_consen 3 VYT-TQGDTLDLIAYRHYGREDGAVEALLEANPGLADTGPVLPAGTVIILPDIP 55 (60)
T ss_pred EEE-eCcCcHHHHHHHHhCcHHHHHHHHHHHChhhhhcCCcCCCCCEEECCCCC
Confidence 344 4999999999887 6532 89999999765 578899999999643
No 21
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=98.05 E-value=4.4e-06 Score=52.28 Aligned_cols=45 Identities=24% Similarity=0.437 Sum_probs=25.9
Q ss_pred ceEEECCCCchHHHHHHcCChH-----HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 55 EIYVVREGETLHTISEKCGDPY-----IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~g~~~-----i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
..|+|++||||..|=+++|++. +++....-..-..|+|||.|.+-
T Consensus 3 ~~~~V~~GDtLs~iF~~~gls~~dl~~v~~~~~~~k~L~~L~pGq~l~f~ 52 (85)
T PF04225_consen 3 QEYTVKSGDTLSTIFRRAGLSASDLYAVLEADGEAKPLTRLKPGQTLEFQ 52 (85)
T ss_dssp -EEE--TT--HHHHHHHTT--HHHHHHHHHHGGGT--GGG--TT-EEEEE
T ss_pred cEEEECCCCcHHHHHHHcCCCHHHHHHHHhccCccchHhhCCCCCEEEEE
Confidence 4799999999999999999975 66665222334579999999874
No 22
>COG3170 FimV Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=97.57 E-value=6e-05 Score=62.41 Aligned_cols=49 Identities=24% Similarity=0.411 Sum_probs=39.4
Q ss_pred CCCceEEECCCCchHHHHHHc-C---ChH------HHHhCCCCC---CCCCcCCCCEEEeCC
Q 044600 52 PCDEIYVVREGETLHTISEKC-G---DPY------IVEQNPHIN---DPDDVFPGLVIKITP 100 (104)
Q Consensus 52 ~~~~~y~V~~GDTL~~IA~~~-g---~~~------i~~~N~~l~---~~~~l~~Gq~L~ip~ 100 (104)
..+.+|+|++|||||+||.+. + ++. +++.||+-- +-+.+++|++|+||.
T Consensus 186 a~g~tyt~~~~Dtl~dIAs~~rp~~~vt~~Q~~lAly~lNP~af~~gni~RLr~GSvLriP~ 247 (755)
T COG3170 186 APGDTYTVRSGDTLWDIASRLRPQDHVTVEQMLLALYQLNPQAFVNGNINRLRAGSVLRIPS 247 (755)
T ss_pred CCCcccccCCcchHHHHHHhhcCcccccHHHHHHHHHhhChhhhcccchhhccccceeeccc
Confidence 456889999999999999887 4 232 889997652 345899999999996
No 23
>COG3858 Predicted glycosyl hydrolase [General function prediction only]
Probab=96.61 E-value=0.003 Score=49.79 Aligned_cols=51 Identities=27% Similarity=0.325 Sum_probs=41.7
Q ss_pred CCCCceEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCCC
Q 044600 51 KPCDEIYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPFK 102 (104)
Q Consensus 51 ~~~~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~~ 102 (104)
++...+|.|++||||++||.+++++. +...|+.+ .+.-+.+|-.+.+|+..
T Consensus 46 ~~~~~~y~~~~~d~~~Sia~~~~vt~~~~~~m~~~~-~~~~l~~~~~l~~P~~~ 98 (423)
T COG3858 46 PPSGHFYDVGPGDTLTSIARTVGVTQDSAAIMNFVI-CPGYLQYGLNLYIPSAR 98 (423)
T ss_pred CCcceEEEecCCcchhhhhhhhcCCHHHHHhhcccc-cccceeeeeEEeccCCC
Confidence 34457899999999999999999987 66667544 56789999999999654
No 24
>PRK11649 putative peptidase; Provisional
Probab=96.40 E-value=0.0055 Score=48.67 Aligned_cols=42 Identities=26% Similarity=0.377 Sum_probs=34.0
Q ss_pred ceEEECCCCchHHHHHHcCChH-----HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 55 EIYVVREGETLHTISEKCGDPY-----IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~g~~~-----i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
..|+|++||||..|=+++|++. +++.+. +...|+|||.+.+-
T Consensus 96 ~~~~Vk~GDTl~~iL~r~Gi~~~di~~l~~~~~---~L~~Lr~Gq~l~~~ 142 (439)
T PRK11649 96 HEYVVSTGDTLSSILNQYGIDMSDISQLAAQDK---ELRNLKIGQQLSWT 142 (439)
T ss_pred EEEEeCCCCCHHHHHHHcCCCHHHHHHHHHcCh---HhhcCCCCCEEEEE
Confidence 4899999999999999999976 444442 34579999999884
No 25
>COG4254 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.33 E-value=0.023 Score=43.23 Aligned_cols=48 Identities=19% Similarity=0.064 Sum_probs=39.3
Q ss_pred ceEEECCCCchHHHHHHc-CC--hH-HHHhCCCCCCCCCcCCCCEEEeCCCC
Q 044600 55 EIYVVREGETLHTISEKC-GD--PY-IVEQNPHINDPDDVFPGLVIKITPFK 102 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~-g~--~~-i~~~N~~l~~~~~l~~Gq~L~ip~~~ 102 (104)
-+|+|+.||||.-++..| .. .| ..+.-|++.+|..++||..|.||.+.
T Consensus 6 ~~yrv~~gdtli~l~~~yl~~~~g~r~~q~an~~~~P~~l~pgs~l~ip~~~ 57 (339)
T COG4254 6 LTYRVLFGDTLILLLGGYLTLLAGSRAAQPANTKRPPFILQPGSCLPIPLPA 57 (339)
T ss_pred ceeeeccccHHHHHHHHhhhccchhhhhcccccCCCCcccCCCccccCCCcc
Confidence 489999999999999999 43 45 44444588899999999999999653
No 26
>COG3858 Predicted glycosyl hydrolase [General function prediction only]
Probab=94.97 E-value=0.015 Score=45.85 Aligned_cols=44 Identities=25% Similarity=0.324 Sum_probs=37.8
Q ss_pred eEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 56 IYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
.|.|++||++..|+..|+... |+..| .+.+ +.+.+||.+.||+.
T Consensus 3 i~~~~pg~~~~~i~~~~~~~~~~i~~~~-~~~~-d~~~~~q~~~v~~~ 48 (423)
T COG3858 3 IHLVGPGDSRLIIAVYFPYTNNRIVNGN-DYTN-DDLVDGQTFVVPPS 48 (423)
T ss_pred EEEccCCceeeeehhhcccccccccccc-cccc-ccccCceeEEECCc
Confidence 689999999999999997765 87666 5656 78999999999974
No 27
>COG5004 P2-like prophage tail protein X [General function prediction only]
Probab=94.42 E-value=0.12 Score=30.88 Aligned_cols=47 Identities=26% Similarity=0.420 Sum_probs=36.5
Q ss_pred eEEECCCCchHHHHHHc-CC----hH-HHHhCCCCCCCC-CcCCCCEEEeCCCC
Q 044600 56 IYVVREGETLHTISEKC-GD----PY-IVEQNPHINDPD-DVFPGLVIKITPFK 102 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~-g~----~~-i~~~N~~l~~~~-~l~~Gq~L~ip~~~ 102 (104)
.|+...|||+-.++.++ |- .. ++++||++.+-. .+..|-.|.+|...
T Consensus 4 ~~Rt~~gDtvDalc~~~Ygrt~~v~eavl~ANpGlAd~gp~lp~gl~i~lPD~~ 57 (70)
T COG5004 4 IVRTRQGDTVDALCWRVYGRTTGVTEAVLEANPGLADWGPVLPHGLAITLPDIA 57 (70)
T ss_pred EEEeccCchHHHHHHHHHhhHHHHHHHHHhcCCChhhcCCCCccceeEecCCCC
Confidence 57789999999999887 43 22 999999996533 46679999998643
No 28
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=94.26 E-value=0.088 Score=41.21 Aligned_cols=45 Identities=20% Similarity=0.359 Sum_probs=36.3
Q ss_pred ceEEECCCCchHHHHHHc-CChH---HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 55 EIYVVREGETLHTISEKC-GDPY---IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~-g~~~---i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
...+||+|||+-++|.+- |.+- +++.-|.+.....+.||++++|=
T Consensus 429 rvvtVk~GqT~~~lAA~m~G~~rkldlfRllNam~~~a~~~pGd~vKii 477 (479)
T COG4784 429 RVVTVKPGQTMASLAARMMGTDRKLDLFRLLNAMSPGATVRPGDKVKII 477 (479)
T ss_pred EEEEecCCccHHHHHhhccCchhHHHHHHHHhccCCCCcCCCCCeeeec
Confidence 457899999999999776 7643 66666678777789999999984
No 29
>COG3061 OapA Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]
Probab=92.82 E-value=0.28 Score=35.92 Aligned_cols=47 Identities=19% Similarity=0.213 Sum_probs=33.6
Q ss_pred CCceEEECCCCchHHHHHHcCChH--HHHh--CCCCC-CCCCcCCCCEEEeC
Q 044600 53 CDEIYVVREGETLHTISEKCGDPY--IVEQ--NPHIN-DPDDVFPGLVIKIT 99 (104)
Q Consensus 53 ~~~~y~V~~GDTL~~IA~~~g~~~--i~~~--N~~l~-~~~~l~~Gq~L~ip 99 (104)
...+|+|+.|+||..+=+.++++. +.+. =.+-. .-..++.||.++|-
T Consensus 158 ~wqsy~V~~G~TLaQlFRdn~LpitDVnAMakveGagkpLSnlkaGq~Vki~ 209 (242)
T COG3061 158 NWQSYTVPQGKTLAQLFRDNNLPITDVNAMAKVEGAGKPLSNLKAGQKVKIS 209 (242)
T ss_pred cceeEEecCCccHHHHHhccCCChHHhHHHHhhccCCCchhhccCCCEEEEE
Confidence 567899999999999999998866 2111 11221 12468999999985
No 30
>COG0739 NlpD Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]
Probab=88.03 E-value=1 Score=32.52 Aligned_cols=45 Identities=22% Similarity=0.403 Sum_probs=35.3
Q ss_pred eEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCCC
Q 044600 56 IYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITPF 101 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~~ 101 (104)
.|.++.|++|..|+++++... +.+.|+.. ....+.+|+.+.+|..
T Consensus 3 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 49 (277)
T COG0739 3 LYVVKKGDTLSAIAARLGISAKDLARLNNLL-KKRLLRIGQLLRVPRA 49 (277)
T ss_pred eEEecCCCHHHHHHHHcCCCHHHHHHHHhhc-cccccCccceeeeccc
Confidence 689999999999999998877 55555443 3237889999998864
No 31
>COG5510 Predicted small secreted protein [Function unknown]
Probab=87.44 E-value=0.45 Score=26.15 Aligned_cols=30 Identities=23% Similarity=0.243 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCCCCCccc
Q 044600 13 KIAWHCALFMAIMLVLSCCESSDSGGFMGQ 42 (104)
Q Consensus 13 ~~~~~~~~~~~~~~~la~~~~~~~~~~~~~ 42 (104)
+.+...+++++.++++++|.+....+.++.
T Consensus 4 ~t~l~i~~vll~s~llaaCNT~rG~G~DIq 33 (44)
T COG5510 4 KTILLIALVLLASTLLAACNTMRGAGKDIQ 33 (44)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhccchhHH
Confidence 445667777888889999987765555544
No 32
>COG1388 LytE FOG: LysM repeat [Cell envelope biogenesis, outer membrane]
Probab=84.97 E-value=0.66 Score=29.98 Aligned_cols=32 Identities=31% Similarity=0.511 Sum_probs=24.5
Q ss_pred HHHHcCChH--HHHhCCCCC-CCCCcCCCCEEEeCC
Q 044600 68 ISEKCGDPY--IVEQNPHIN-DPDDVFPGLVIKITP 100 (104)
Q Consensus 68 IA~~~g~~~--i~~~N~~l~-~~~~l~~Gq~L~ip~ 100 (104)
||.+|++++ +.+.| .+. +++.+.+||+|.++.
T Consensus 1 ia~~~~~~v~~l~~~n-~~~~~s~~i~~gq~l~~~~ 35 (124)
T COG1388 1 IASKYGVSVKALKKAN-ALTGKSDAIKPGQVLKIPG 35 (124)
T ss_pred CcccccccHHHHHHHh-cccCCCCccccCceEEccC
Confidence 578888888 55555 453 278999999999996
No 33
>PRK10081 entericidin B membrane lipoprotein; Provisional
Probab=79.32 E-value=1.2 Score=25.01 Aligned_cols=28 Identities=14% Similarity=0.114 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCCccc
Q 044600 15 AWHCALFMAIMLVLSCCESSDSGGFMGQ 42 (104)
Q Consensus 15 ~~~~~~~~~~~~~la~~~~~~~~~~~~~ 42 (104)
...++.++++.+.+++|.+....+.++.
T Consensus 6 i~~i~~~l~~~~~l~~CnTv~G~G~Di~ 33 (48)
T PRK10081 6 IAAIFSVLVLSTVLTACNTTRGVGEDIS 33 (48)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhHhHH
Confidence 3334445555667899987655554443
No 34
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=78.96 E-value=1.8 Score=27.50 Aligned_cols=22 Identities=27% Similarity=0.279 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 044600 11 AEKIAWHCALFMAIMLVLSCCE 32 (104)
Q Consensus 11 ~~~~~~~~~~~~~~~~~la~~~ 32 (104)
+.|...++.+++++++++++..
T Consensus 2 aSK~~llL~l~LA~lLlisSev 23 (95)
T PF07172_consen 2 ASKAFLLLGLLLAALLLISSEV 23 (95)
T ss_pred chhHHHHHHHHHHHHHHHHhhh
Confidence 3344444444444444444433
No 35
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=72.11 E-value=4.5 Score=19.59 Aligned_cols=12 Identities=25% Similarity=0.672 Sum_probs=7.3
Q ss_pred HHHHHHHHhhcc
Q 044600 22 MAIMLVLSCCES 33 (104)
Q Consensus 22 ~~~~~~la~~~~ 33 (104)
++.++.|+||++
T Consensus 14 l~a~~~LagCss 25 (25)
T PF08139_consen 14 LLALFMLAGCSS 25 (25)
T ss_pred HHHHHHHhhccC
Confidence 334456888873
No 36
>PRK10722 hypothetical protein; Provisional
Probab=71.27 E-value=9.4 Score=28.41 Aligned_cols=56 Identities=13% Similarity=0.063 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhhccCCCCCCccccCCCCCCCCCCCceEEECCCCchHHHHHHc
Q 044600 16 WHCALFMAIMLVLSCCESSDSGGFMGQVTQPRNVNKPCDEIYVVREGETLHTISEKC 72 (104)
Q Consensus 16 ~~~~~~~~~~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~y~V~~GDTL~~IA~~~ 72 (104)
...+++++++++|+||+........ ............-.-|....=|++|++...-
T Consensus 15 ~~~~~~~l~~llL~gC~~~~~~~~~-~~~~~~~~pe~~~~Dyr~~~C~~iW~~~~~~ 70 (247)
T PRK10722 15 RRLWLSGLPCLLLAGCVQNANKPAA-STAAEEKIPEYQLADYRSTECDDIWALQGKA 70 (247)
T ss_pred HHHHHHHHHHHHHHHccCCCCCccc-ccccccCCCcchhhhhhhccHhHHhcccCcc
Confidence 3344556778889999976443221 1101100111122347777888899886443
No 37
>TIGR00247 conserved hypothetical protein, YceG family. This uncharacterized protein family, found in three of four microbial genomes, virtually always once per genome, includes YceG from Escherichia coli. This protein is encoded next to PabC, 4-amino-4-deoxychorismate lyase, in E. coli and numerous other proteobacteria, but that proximity is not conserved in other lineages. Numerous members of this family have been misannotated as aminodeoxychorismate lyase, apparently because of promiximty to PabC.
Probab=67.75 E-value=14 Score=28.31 Aligned_cols=40 Identities=8% Similarity=0.081 Sum_probs=26.0
Q ss_pred CceEEECCCCchHHHHHHc---CC---hH----HHHhCCCCCCCCCcCCCCEE
Q 044600 54 DEIYVVREGETLHTISEKC---GD---PY----IVEQNPHINDPDDVFPGLVI 96 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~---g~---~~----i~~~N~~l~~~~~l~~Gq~L 96 (104)
...++|.+|+|..+|++.. |+ .. ..+.+ +. ...|++|..-
T Consensus 39 ~v~v~Ip~G~s~~~Ia~~L~~~GvI~s~~~F~~~ak~~-~~--~~~lkaG~Y~ 88 (342)
T TIGR00247 39 VYEFNIEKGTGVSKIAKELKKQKLIKSEKLLQYLLKIK-GS--LKQFKAGTYL 88 (342)
T ss_pred cEEEEECCCCCHHHHHHHHHHCCCCCCHHHHHHHHHhc-CC--cCcccceEEE
Confidence 3468899999999999877 54 12 33333 22 2358888554
No 38
>KOG2850 consensus Predicted peptidoglycan-binding protein, contains LysM domain [General function prediction only]
Probab=66.42 E-value=4.2 Score=29.00 Aligned_cols=44 Identities=20% Similarity=0.147 Sum_probs=31.2
Q ss_pred eEEECCCCchHHHHHHcCChH--HHHhCCCCCCCCCcCCCCEEEeCC
Q 044600 56 IYVVREGETLHTISEKCGDPY--IVEQNPHINDPDDVFPGLVIKITP 100 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~~~~l~~Gq~L~ip~ 100 (104)
..++|+||||..||-.|..+. +.+.||.. .-.....=+.+++|.
T Consensus 11 ~~~iq~~dt~~a~al~~~~~va~i~RvN~~~-r~q~f~a~~~i~~pv 56 (186)
T KOG2850|consen 11 EVTIQEGDTLQAIALNYESDVADIKRVNNDD-REQRFNALRSISIPV 56 (186)
T ss_pred eeeeccCchhhhHHhhcccchhhheeeccch-hhhhhccccceeccc
Confidence 568999999999999997766 77777443 223455555666653
No 39
>PRK11548 outer membrane biogenesis protein BamE; Provisional
Probab=65.79 E-value=7.9 Score=25.03 Aligned_cols=52 Identities=10% Similarity=0.174 Sum_probs=28.6
Q ss_pred HHHHHHHHHhhccCCCCCC--ccccCCCCCCCCCCCceEEECCCCchHHHHHHcCChH
Q 044600 21 FMAIMLVLSCCESSDSGGF--MGQVTQPRNVNKPCDEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 21 ~~~~~~~la~~~~~~~~~~--~~~~~~~~~~~~~~~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
+++++++|+||+....... ++..|... .......+++|.|=.++....|.+-
T Consensus 10 ~~~~~~~LsgCs~~~~~~y~~~v~qG~~~----~~~~l~~l~~GmTk~qV~~lLGtP~ 63 (113)
T PRK11548 10 AAVLLMLTAGCSTLERVVYRPDINQGNYL----TPNDVAKIHVGMTQQQVAYTLGTPM 63 (113)
T ss_pred HHHHHHHHcccCCCCcccccccCCccccC----CHHHHHHhcCCCCHHHHHHHcCCCc
Confidence 3444567799975421111 12223321 1223357888988888888887654
No 40
>COG5567 Predicted small periplasmic lipoprotein [Cell motility and secretion]
Probab=65.39 E-value=7.2 Score=22.54 Aligned_cols=22 Identities=18% Similarity=0.120 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccC
Q 044600 11 AEKIAWHCALFMAIMLVLSCCESS 34 (104)
Q Consensus 11 ~~~~~~~~~~~~~~~~~la~~~~~ 34 (104)
++-++|.++++.+ +.+++|+..
T Consensus 2 k~~~~s~~ala~l--~sLA~CG~K 23 (58)
T COG5567 2 KNVFKSLLALATL--FSLAGCGLK 23 (58)
T ss_pred hhHHHHHHHHHHH--HHHHhcccC
Confidence 4455565544433 378899854
No 41
>PRK02710 plastocyanin; Provisional
Probab=64.86 E-value=12 Score=24.15 Aligned_cols=12 Identities=17% Similarity=0.509 Sum_probs=9.2
Q ss_pred CceEEECCCCch
Q 044600 54 DEIYVVREGETL 65 (104)
Q Consensus 54 ~~~y~V~~GDTL 65 (104)
+...+|++||++
T Consensus 46 P~~i~v~~Gd~V 57 (119)
T PRK02710 46 PSTLTIKAGDTV 57 (119)
T ss_pred CCEEEEcCCCEE
Confidence 356789999985
No 42
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=58.83 E-value=9.6 Score=23.13 Aligned_cols=23 Identities=22% Similarity=0.104 Sum_probs=17.5
Q ss_pred CceEEECCCCchHHHHHHcCChH
Q 044600 54 DEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
+..|.+.+|+||.+.+++.|+.+
T Consensus 10 G~~v~~~~G~til~al~~~gi~i 32 (82)
T PF13510_consen 10 GKPVEVPPGETILEALLAAGIDI 32 (82)
T ss_dssp TEEEEEEET-BHHHHHHHTT--B
T ss_pred CEEEEEcCCCHHHHHHHHCCCeE
Confidence 44689999999999999998754
No 43
>PRK06437 hypothetical protein; Provisional
Probab=58.48 E-value=7.8 Score=22.71 Aligned_cols=44 Identities=16% Similarity=0.039 Sum_probs=32.9
Q ss_pred ceEEECCCCchHHHHHHcCChH---HHHhCCCC-CCCCCcCCCCEEEe
Q 044600 55 EIYVVREGETLHTISEKCGDPY---IVEQNPHI-NDPDDVFPGLVIKI 98 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~g~~~---i~~~N~~l-~~~~~l~~Gq~L~i 98 (104)
..+.+.++-|+.++.+++|.+. .+..|..+ +....|..|++|.|
T Consensus 13 ~~~~i~~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~~~~~L~dgD~Vei 60 (67)
T PRK06437 13 KTIEIDHELTVNDIIKDLGLDEEEYVVIVNGSPVLEDHNVKKEDDVLI 60 (67)
T ss_pred eEEEcCCCCcHHHHHHHcCCCCccEEEEECCEECCCceEcCCCCEEEE
Confidence 4688889999999999998864 44467444 33456889999876
No 44
>COG1559 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]
Probab=57.17 E-value=80 Score=24.60 Aligned_cols=39 Identities=13% Similarity=0.168 Sum_probs=27.1
Q ss_pred ceEEECCCCchHHHHHHc---CC----hH---HHHhCCCCCCCCCcCCCCEE
Q 044600 55 EIYVVREGETLHTISEKC---GD----PY---IVEQNPHINDPDDVFPGLVI 96 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~---g~----~~---i~~~N~~l~~~~~l~~Gq~L 96 (104)
..++|++|++..+|+.+. ++ .+ .++.|+.. ..|++|..-
T Consensus 46 ~~v~I~~Gs~~~~i~~~Le~~~vI~~~~~f~~~~~~~~~~---~~lkaG~Y~ 94 (342)
T COG1559 46 KTVTIPPGSSVSEIGSELEKQKVIKNARVFRLYLKYNPAA---GSLKAGEYR 94 (342)
T ss_pred eEEEECCCCCHHHHHHHHHhcCccccHHHHHHHHHhcCcc---CCcCCceee
Confidence 589999999999999776 33 22 55555433 358888543
No 45
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=56.74 E-value=11 Score=21.53 Aligned_cols=45 Identities=24% Similarity=0.270 Sum_probs=32.0
Q ss_pred CceEEECCCCchHHHHHHcCChH---HHHhCCCC-C----CCCCcCCCCEEEe
Q 044600 54 DEIYVVREGETLHTISEKCGDPY---IVEQNPHI-N----DPDDVFPGLVIKI 98 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~---i~~~N~~l-~----~~~~l~~Gq~L~i 98 (104)
.+.|.+.+|.|+.++-+..+.+. .++.|..+ + ....|+.|++|.|
T Consensus 7 G~~~~~~~~~tl~~lL~~l~~~~~~vav~vNg~iv~r~~~~~~~l~~gD~vei 59 (66)
T PRK05659 7 GEPRELPDGESVAALLAREGLAGRRVAVEVNGEIVPRSQHASTALREGDVVEI 59 (66)
T ss_pred CeEEEcCCCCCHHHHHHhcCCCCCeEEEEECCeEeCHHHcCcccCCCCCEEEE
Confidence 34688899999999999987754 44455322 1 3456889999876
No 46
>TIGR02007 fdx_isc ferredoxin, 2Fe-2S type, ISC system. This family consists of proteobacterial ferredoxins associated with and essential to the ISC system of 2Fe-2S cluster assembly. This family is closely related to (but excludes) eukaryotic (mitochondrial) adrenodoxins, which are ferredoxins involved in electron transfer to P450 cytochromes.
Probab=55.27 E-value=16 Score=23.40 Aligned_cols=25 Identities=20% Similarity=0.300 Sum_probs=20.8
Q ss_pred CCCceEEECCCCchHHHHHHcCChH
Q 044600 52 PCDEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 52 ~~~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
+...++.+.+|+||-+.+++.|+++
T Consensus 13 p~~~~~~~~~g~tLL~a~~~~gi~i 37 (110)
T TIGR02007 13 PEGAVVEAKPGETILDVALDNGIEI 37 (110)
T ss_pred CCCeEEEECCCChHHHHHHHcCCCc
Confidence 3456789999999999999998754
No 47
>PRK10781 rcsF outer membrane lipoprotein; Reviewed
Probab=55.07 E-value=23 Score=23.95 Aligned_cols=18 Identities=17% Similarity=0.281 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHhhccCCC
Q 044600 19 ALFMAIMLVLSCCESSDS 36 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~~~ 36 (104)
+.++++.++|+||+....
T Consensus 4 l~~~LL~L~LsGCS~l~~ 21 (133)
T PRK10781 4 LPICLLALMLTGCSMLSR 21 (133)
T ss_pred HHHHHHHHHHhhccccCc
Confidence 345666678899975533
No 48
>PRK13883 conjugal transfer protein TrbH; Provisional
Probab=53.36 E-value=4.6 Score=27.88 Aligned_cols=14 Identities=29% Similarity=0.570 Sum_probs=9.2
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
+++++++|+||++.
T Consensus 7 ~~~l~l~LaGCAt~ 20 (151)
T PRK13883 7 LALLALALGGCATS 20 (151)
T ss_pred HHHHHHHHhcccCC
Confidence 34445667999864
No 49
>PRK09810 entericidin A; Provisional
Probab=53.28 E-value=8.4 Score=20.85 Aligned_cols=21 Identities=14% Similarity=0.161 Sum_probs=13.8
Q ss_pred HHHHHHHHhhccCCCCCCccc
Q 044600 22 MAIMLVLSCCESSDSGGFMGQ 42 (104)
Q Consensus 22 ~~~~~~la~~~~~~~~~~~~~ 42 (104)
++..++|++|.+....+.++.
T Consensus 10 ~~~~~~L~aCNTv~G~GkDv~ 30 (41)
T PRK09810 10 LLASTLLTGCNTARGFGEDIK 30 (41)
T ss_pred HHHHHHHhhhhhcccccHhHH
Confidence 334457899988766665554
No 50
>PRK10270 putative aminodeoxychorismate lyase; Provisional
Probab=52.54 E-value=27 Score=26.94 Aligned_cols=39 Identities=15% Similarity=0.335 Sum_probs=26.0
Q ss_pred ceEEECCCCchHHHHHHc---CC---h--H--HHHhCCCCCCCCCcCCCCEE
Q 044600 55 EIYVVREGETLHTISEKC---GD---P--Y--IVEQNPHINDPDDVFPGLVI 96 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~---g~---~--~--i~~~N~~l~~~~~l~~Gq~L 96 (104)
..+.|.+|+|..+||+.. |+ . + ..+.++. ...|++|...
T Consensus 40 v~v~I~~G~t~~~Ia~~L~~~gvI~s~~~F~~~~~~~~~---~~~ikaG~Y~ 88 (340)
T PRK10270 40 TIFTLKPGTGRLALGEQLYADKIINRPRVFQWLLRIEPD---LSHFKAGTYR 88 (340)
T ss_pred EEEEECCCCCHHHHHHHHHHCCCCCCHHHHHHHHHhCCC---CCCccceEEE
Confidence 468899999999999877 54 1 1 3333422 2368888544
No 51
>PRK01622 OxaA-like protein precursor; Validated
Probab=51.77 E-value=20 Score=26.52 Aligned_cols=24 Identities=29% Similarity=0.373 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccC
Q 044600 11 AEKIAWHCALFMAIMLVLSCCESS 34 (104)
Q Consensus 11 ~~~~~~~~~~~~~~~~~la~~~~~ 34 (104)
+.+.+|.+++++++++++.||+..
T Consensus 3 ~~~~~~~~~~~~~~~~~~~gc~~~ 26 (256)
T PRK01622 3 KSYRAVLVSLSLLLVLVLSGCSNA 26 (256)
T ss_pred hHHHHHHHHHHHHHHHHHhccCCC
Confidence 445577776777777889999865
No 52
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=50.67 E-value=11 Score=21.56 Aligned_cols=45 Identities=31% Similarity=0.233 Sum_probs=32.3
Q ss_pred CceEEECCCCchHHHHHHcCChH---HHHhCCCCCCC-----CCcCCCCEEEe
Q 044600 54 DEIYVVREGETLHTISEKCGDPY---IVEQNPHINDP-----DDVFPGLVIKI 98 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~---i~~~N~~l~~~-----~~l~~Gq~L~i 98 (104)
...|.+..+-|+.++-++.+.+. .+..|..+-+. ..|..|++|.|
T Consensus 6 g~~~~~~~~~tv~~ll~~l~~~~~~i~V~vNg~~v~~~~~~~~~L~~gD~V~i 58 (65)
T cd00565 6 GEPREVEEGATLAELLEELGLDPRGVAVALNGEIVPRSEWASTPLQDGDRIEI 58 (65)
T ss_pred CeEEEcCCCCCHHHHHHHcCCCCCcEEEEECCEEcCHHHcCceecCCCCEEEE
Confidence 34688888999999999987654 44566554222 46889998876
No 53
>TIGR02008 fdx_plant ferredoxin [2Fe-2S]. This model represents single domain 2Fe-2S (also called plant type) ferredoxins. In general, these occur as a single domain proteins or with a chloroplast transit peptide. Species tend to be photosynthetic, but several forms may occur in one species and individually may not be associated with photocynthesis. Halobacterial forms differ somewhat in architecture; they score between trusted and noise cutoffs. Sequences scoring below the noise cutoff tend to be ferredoxin-related domains of larger proteins.
Probab=50.59 E-value=19 Score=22.40 Aligned_cols=23 Identities=13% Similarity=0.196 Sum_probs=19.8
Q ss_pred CceEEECCCCchHHHHHHcCChH
Q 044600 54 DEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
...+.+.+|+||-+.+.++|+.+
T Consensus 14 ~~~~~~~~g~tLLda~~~~Gi~i 36 (97)
T TIGR02008 14 EETIECPDDQYILDAAEEAGIDL 36 (97)
T ss_pred EEEEEECCCCcHHHHHHHcCCCC
Confidence 35789999999999999998744
No 54
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=50.56 E-value=10 Score=20.27 Aligned_cols=17 Identities=24% Similarity=0.399 Sum_probs=12.5
Q ss_pred CCCCchHHHHHHcCChH
Q 044600 60 REGETLHTISEKCGDPY 76 (104)
Q Consensus 60 ~~GDTL~~IA~~~g~~~ 76 (104)
+.|-+..+||+.+|++.
T Consensus 19 ~~G~si~~IA~~~gvsr 35 (45)
T PF02796_consen 19 AEGMSIAEIAKQFGVSR 35 (45)
T ss_dssp HTT--HHHHHHHTTS-H
T ss_pred HCCCCHHHHHHHHCcCH
Confidence 67889999999999965
No 55
>PRK15396 murein lipoprotein; Provisional
Probab=49.91 E-value=22 Score=21.86 Aligned_cols=14 Identities=21% Similarity=0.332 Sum_probs=9.6
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
+++.+++|+||++.
T Consensus 11 v~ls~~LLaGCAs~ 24 (78)
T PRK15396 11 VILGSTLLAGCSSN 24 (78)
T ss_pred HHHHHHHHHHcCCc
Confidence 34445688999965
No 56
>TIGR03352 VI_chp_3 type VI secretion lipoprotein, VC_A0113 family. Work by Mougous, et al. (2006), describes IAHP-related loci as a type VI secretion system (PubMed:16763151). This protein family is associated with type VI secretion loci, although not treated explicitly by Mougous, et al.
Probab=49.31 E-value=20 Score=24.26 Aligned_cols=16 Identities=31% Similarity=0.607 Sum_probs=10.6
Q ss_pred HHHHHHHHHhhccCCC
Q 044600 21 FMAIMLVLSCCESSDS 36 (104)
Q Consensus 21 ~~~~~~~la~~~~~~~ 36 (104)
+++++++++||++...
T Consensus 6 ~l~~~llL~gC~s~~~ 21 (146)
T TIGR03352 6 LLAACLLLAGCSSAPP 21 (146)
T ss_pred HHHHHHHHhhccCCCC
Confidence 4445567999986643
No 57
>PRK15078 polysaccharide export protein Wza; Provisional
Probab=49.07 E-value=94 Score=24.33 Aligned_cols=12 Identities=33% Similarity=0.415 Sum_probs=10.2
Q ss_pred CCCcCCCCEEEe
Q 044600 87 PDDVFPGLVIKI 98 (104)
Q Consensus 87 ~~~l~~Gq~L~i 98 (104)
.+.|.||++|.|
T Consensus 84 ~Y~igpGDvL~I 95 (379)
T PRK15078 84 EYRVGPGDVLNV 95 (379)
T ss_pred CcEECCCCEEEE
Confidence 478999999987
No 58
>PF05643 DUF799: Putative bacterial lipoprotein (DUF799); InterPro: IPR008517 This family consists of several bacterial proteins of unknown function. Some of the family members are described as putative lipoproteins.
Probab=48.10 E-value=32 Score=25.10 Aligned_cols=71 Identities=21% Similarity=0.245 Sum_probs=33.4
Q ss_pred HHHHHHHHHhhccCCCCCCccc--cCCCC-C--CCCCCCceEEECCCCchHHHHHHc----C---ChH-----HHHhCCC
Q 044600 21 FMAIMLVLSCCESSDSGGFMGQ--VTQPR-N--VNKPCDEIYVVREGETLHTISEKC----G---DPY-----IVEQNPH 83 (104)
Q Consensus 21 ~~~~~~~la~~~~~~~~~~~~~--~~~~~-~--~~~~~~~~y~V~~GDTL~~IA~~~----g---~~~-----i~~~N~~ 83 (104)
.++.+++|++|+...+...... ..+.+ . .-++...+-.|+..+.+.+-.-.. | .++ +++.| +
T Consensus 7 ~l~~~l~LsgCa~~~~~~~dy~a~~~~kPrSILVlPp~N~S~dV~A~~~~ls~~~~PLAe~GYYV~Pv~~vde~fkqn-G 85 (215)
T PF05643_consen 7 GLAAALLLSGCATTKPPPYDYTAFKESKPRSILVLPPVNESPDVKAAYYVLSTVTYPLAEKGYYVFPVALVDETFKQN-G 85 (215)
T ss_pred HHHHHHHHhhccCCCCccccHHHHhcCCCceEEEeCCCCCCcccchHHHHHHHHHHHHHhCCceecCHHHHHHHHHHc-C
Confidence 3445567899986544332221 11111 1 123333444556666544432211 2 232 66766 7
Q ss_pred CCCCCCcCC
Q 044600 84 INDPDDVFP 92 (104)
Q Consensus 84 l~~~~~l~~ 92 (104)
+.++..++.
T Consensus 86 lt~~~~i~~ 94 (215)
T PF05643_consen 86 LTDAEDIHA 94 (215)
T ss_pred CCCHHHhcc
Confidence 777666543
No 59
>cd00207 fer2 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis and ferredoxins, which participate in redox chains (from bacteria to mammals). Fold is ismilar to thioredoxin.
Probab=45.33 E-value=29 Score=20.20 Aligned_cols=23 Identities=30% Similarity=0.251 Sum_probs=19.3
Q ss_pred CceEEECCCCchHHHHHHcCChH
Q 044600 54 DEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
..++.+++|+||-+.+.+.|+.+
T Consensus 9 ~~~~~~~~g~~ll~al~~~g~~~ 31 (84)
T cd00207 9 GVEVEVPEGETLLDAAREAGIDI 31 (84)
T ss_pred CEEEEECCCCcHHHHHHHcCCCc
Confidence 45789999999999999987643
No 60
>PRK07569 bidirectional hydrogenase complex protein HoxU; Validated
Probab=44.82 E-value=21 Score=25.78 Aligned_cols=23 Identities=39% Similarity=0.614 Sum_probs=19.5
Q ss_pred CceEEECCCCchHHHHHHcCChH
Q 044600 54 DEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
+..|.+.+|+||.+.+.+.|+.+
T Consensus 10 g~~~~~~~g~til~a~~~~gi~i 32 (234)
T PRK07569 10 DQLVSAREGETLLEAAREAGIPI 32 (234)
T ss_pred CEEEEeCCCCHHHHHHHHcCCCC
Confidence 34699999999999999988754
No 61
>PF04921 XAP5: XAP5, circadian clock regulator; InterPro: IPR007005 These proteins are found in a wide range of eukaryotes. Their function is uncertain though they are nuclear proteins, possibly with DNA-binding activity.; GO: 0005634 nucleus
Probab=44.64 E-value=20 Score=26.54 Aligned_cols=44 Identities=18% Similarity=0.320 Sum_probs=26.7
Q ss_pred CceEEECCCCchHHHHHHc-CC---hH-HHHhCCCCCCCCCcCCCCEEEeCC
Q 044600 54 DEIYVVREGETLHTISEKC-GD---PY-IVEQNPHINDPDDVFPGLVIKITP 100 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~-g~---~~-i~~~N~~l~~~~~l~~Gq~L~ip~ 100 (104)
....+|++|||+|..=++. .. .+ .++ .+.-.+.+++-.-|+||-
T Consensus 112 rr~v~vKKGdtI~~FL~~~r~~l~~~f~el~---~vsvd~LM~VkedlIiPH 160 (239)
T PF04921_consen 112 RRTVRVKKGDTIWQFLEKCRKQLAKEFRELR---RVSVDDLMYVKEDLIIPH 160 (239)
T ss_pred cceEEEcCCCCHHHHHHHHHHHHHHHhHHHH---hcCHhheeeeccceeccC
Confidence 4578999999999987666 11 12 222 222224566666677773
No 62
>COG3017 LolB Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]
Probab=43.66 E-value=31 Score=25.06 Aligned_cols=21 Identities=24% Similarity=0.347 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHhhccCCCCC
Q 044600 18 CALFMAIMLVLSCCESSDSGG 38 (104)
Q Consensus 18 ~~~~~~~~~~la~~~~~~~~~ 38 (104)
.+++.+++++|++|+.....+
T Consensus 9 ~~l~~~As~LL~aC~~~~~~~ 29 (206)
T COG3017 9 FLLLALASLLLTACTLTASRP 29 (206)
T ss_pred HHHHHHHHHHHHhccCcCCCC
Confidence 344455566778886554433
No 63
>COG3065 Slp Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=43.05 E-value=34 Score=24.50 Aligned_cols=41 Identities=20% Similarity=0.224 Sum_probs=24.3
Q ss_pred EEECCCCchHHHHHHc-CC------h--H----HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 57 YVVREGETLHTISEKC-GD------P--Y----IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 57 y~V~~GDTL~~IA~~~-g~------~--~----i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
.+.++++|..+|+..- +. . . |...| +.-||..++ |+.+.+-
T Consensus 65 v~n~~~rTrlEi~slPldS~arP~l~~~~qGRfiAy~~-GFlDPv~~~-gr~vTv~ 118 (191)
T COG3065 65 VINQKGRTRLEIASLPLDSGARPDLEAESQGRFIAYVN-GFLDPVNFR-GRLVTVV 118 (191)
T ss_pred EecCCCcEEEEEEeeccCcccCCCcCCCCCceEEEEcc-cccChhhhc-CcEEEEE
Confidence 4568889988887543 11 0 0 33333 444776666 8887763
No 64
>PF13518 HTH_28: Helix-turn-helix domain
Probab=42.83 E-value=16 Score=19.37 Aligned_cols=17 Identities=29% Similarity=0.446 Sum_probs=14.4
Q ss_pred CCCCchHHHHHHcCChH
Q 044600 60 REGETLHTISEKCGDPY 76 (104)
Q Consensus 60 ~~GDTL~~IA~~~g~~~ 76 (104)
..|.++-++|++||++.
T Consensus 10 ~~g~s~~~~a~~~gis~ 26 (52)
T PF13518_consen 10 LEGESVREIAREFGISR 26 (52)
T ss_pred HcCCCHHHHHHHHCCCH
Confidence 36889999999999954
No 65
>PRK00022 lolB outer membrane lipoprotein LolB; Provisional
Probab=42.35 E-value=33 Score=24.08 Aligned_cols=13 Identities=23% Similarity=0.552 Sum_probs=8.2
Q ss_pred HHHHHHHHHhhcc
Q 044600 21 FMAIMLVLSCCES 33 (104)
Q Consensus 21 ~~~~~~~la~~~~ 33 (104)
+++++++|+||+.
T Consensus 8 ~~~~~llL~gCa~ 20 (202)
T PRK00022 8 LLLAALLLAGCAV 20 (202)
T ss_pred HHHHHHHHHhCCC
Confidence 3344467899973
No 66
>PF13117 Cag12: Cag pathogenicity island protein Cag12
Probab=42.17 E-value=10 Score=24.94 Aligned_cols=19 Identities=26% Similarity=0.242 Sum_probs=12.3
Q ss_pred HHHHHHHhhccCCCCCCccc
Q 044600 23 AIMLVLSCCESSDSGGFMGQ 42 (104)
Q Consensus 23 ~~~~~la~~~~~~~~~~~~~ 42 (104)
+++++|+||+ +++.+.++.
T Consensus 2 ~~~~~L~gCS-SpP~P~~v~ 20 (113)
T PF13117_consen 2 ILALMLSGCS-SPPEPPPVD 20 (113)
T ss_pred chheeehhcC-CCCCCCCcC
Confidence 4567889995 445556555
No 67
>PRK11479 hypothetical protein; Provisional
Probab=41.99 E-value=22 Score=26.87 Aligned_cols=17 Identities=35% Similarity=0.870 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHhhccC
Q 044600 18 CALFMAIMLVLSCCESS 34 (104)
Q Consensus 18 ~~~~~~~~~~la~~~~~ 34 (104)
+.+++.++++|++|++.
T Consensus 8 ~~~~~~~~~~~~~c~~~ 24 (274)
T PRK11479 8 CRLLLPWLLLLSACTVD 24 (274)
T ss_pred HHHHHHHHHHHhhhccc
Confidence 34445556678899864
No 68
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=41.60 E-value=36 Score=22.12 Aligned_cols=48 Identities=21% Similarity=0.272 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHhhccCCCCCCccccCCCCCCCCCCCceEEECCCCchHHHHHHcCChH
Q 044600 19 ALFMAIMLVLSCCESSDSGGFMGQVTQPRNVNKPCDEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
+++++++++++||+..... .+... .+..-.|+.|+|=.++....|.+-
T Consensus 6 ~~~~~~~l~lagCS~~~~~-----~gy~~-----~~~v~qv~~GmTr~qV~~~lGtP~ 53 (109)
T PRK11251 6 LSAAAVLTMLAGCTAYDRN-----PVQFV-----EPVVKDVKKGMTRQQVAQIAGKPS 53 (109)
T ss_pred HHHHHHHHHHhhCcceecC-----CCccc-----HHHHHHcCCCCCHHHHHHHcCCCC
Confidence 3444556678899743211 11110 122236789999999988888754
No 69
>PRK10796 LPS-assembly lipoprotein RlpB; Provisional
Probab=41.30 E-value=17 Score=25.63 Aligned_cols=19 Identities=21% Similarity=0.132 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHhhccCC
Q 044600 17 HCALFMAIMLVLSCCESSD 35 (104)
Q Consensus 17 ~~~~~~~~~~~la~~~~~~ 35 (104)
..+++++++++|+||++..
T Consensus 5 ~~lll~~~~l~LsaCGFhL 23 (188)
T PRK10796 5 LTLLLGLAVLVTAGCGFHL 23 (188)
T ss_pred HHHHHHHHHHHHccCCceE
Confidence 3344455555688999873
No 70
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=41.07 E-value=25 Score=21.56 Aligned_cols=47 Identities=17% Similarity=0.181 Sum_probs=35.5
Q ss_pred CceEEECCCCchHHHHHHcCChH----HHHhCCC-CCCCCCcCCCCEEEeCC
Q 044600 54 DEIYVVREGETLHTISEKCGDPY----IVEQNPH-INDPDDVFPGLVIKITP 100 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~----i~~~N~~-l~~~~~l~~Gq~L~ip~ 100 (104)
...+....+-|+-++-+..|++. ++-.|.. ..-.+.+.+|+.+.|-+
T Consensus 24 ~~~~~~~~~~tvkd~IEsLGVP~tEV~~i~vNG~~v~~~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 24 PFTHPFDGGATVKDVIESLGVPHTEVGLILVNGRPVDFDYRLKDGDRVAVYP 75 (81)
T ss_pred ceEEecCCCCcHHHHHHHcCCChHHeEEEEECCEECCCcccCCCCCEEEEEe
Confidence 34688899999999999999976 4555622 23346889999998854
No 71
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster []. In pipsqueak this domain binds to GAGA sequence []. The pipsqueak family, which includes proteins from fungi, sea urchins, nematodes, insects, and vertebrates appear to be proteins essential for sequence-specific targeting of a polycomb group protein complex [].; GO: 0003677 DNA binding; PDB: 2COB_A.
Probab=40.89 E-value=21 Score=19.22 Aligned_cols=18 Identities=28% Similarity=0.562 Sum_probs=12.4
Q ss_pred ECCC-CchHHHHHHcCChH
Q 044600 59 VREG-ETLHTISEKCGDPY 76 (104)
Q Consensus 59 V~~G-DTL~~IA~~~g~~~ 76 (104)
|+.| -++...|+.||++.
T Consensus 12 v~~g~~S~r~AA~~ygVp~ 30 (45)
T PF05225_consen 12 VKNGKMSIRKAAKKYGVPR 30 (45)
T ss_dssp HHTTSS-HHHHHHHHT--H
T ss_pred HHhCCCCHHHHHHHHCcCH
Confidence 3456 78999999999987
No 72
>PF13627 LPAM_2: Prokaryotic lipoprotein-attachment site
Probab=40.85 E-value=32 Score=16.38 Aligned_cols=16 Identities=38% Similarity=0.654 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHhhccC
Q 044600 19 ALFMAIMLVLSCCESS 34 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~ 34 (104)
++++++.+.+++|...
T Consensus 3 ~~~~~~~~~LsgCG~K 18 (24)
T PF13627_consen 3 LLLLALALALSGCGQK 18 (24)
T ss_pred HHHHHHHHHHHhcccC
Confidence 3455556778889853
No 73
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=39.88 E-value=27 Score=20.40 Aligned_cols=43 Identities=21% Similarity=0.203 Sum_probs=31.9
Q ss_pred eEEECCCCchHHHHHHcCChH---HHHhCCCC-CCCCCcCCCCEEEe
Q 044600 56 IYVVREGETLHTISEKCGDPY---IVEQNPHI-NDPDDVFPGLVIKI 98 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~---i~~~N~~l-~~~~~l~~Gq~L~i 98 (104)
.+.+.+|.|+.++.+..+.+. .+..|..+ .....|+.|++|.+
T Consensus 17 ~~~~~~~~tv~~ll~~l~~~~~~v~v~vNg~iv~~~~~l~~gD~Vei 63 (70)
T PRK08364 17 EIEWRKGMKVADILRAVGFNTESAIAKVNGKVALEDDPVKDGDYVEV 63 (70)
T ss_pred EEEcCCCCcHHHHHHHcCCCCccEEEEECCEECCCCcCcCCCCEEEE
Confidence 566788889999999997754 55667444 33456899998876
No 74
>PRK09973 putative outer membrane lipoprotein; Provisional
Probab=39.63 E-value=37 Score=21.20 Aligned_cols=14 Identities=21% Similarity=0.342 Sum_probs=9.7
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
+++.+++|+||++.
T Consensus 10 viLs~~LLaGCAs~ 23 (85)
T PRK09973 10 VVLATCLLSGCVNE 23 (85)
T ss_pred HHHHHHHHHHcCCc
Confidence 34445688999975
No 75
>PF11246 Phage_gp53: Base plate wedge protein 53; InterPro: IPR022607 The baseplate of Enterobacteria phage T4 controls host cell recognition, attachment, tail sheath contraction and viral DNA ejection. The structure of the baseplate suggests a mechanism of baseplate structural transition during the initial stages of T4 infection. The baseplate is assembled from six identical wedges that surround the central hub. Gp53, along with other T4 gene products, combine sequentially to assemble a wedge [].
Probab=39.58 E-value=18 Score=25.98 Aligned_cols=33 Identities=36% Similarity=0.601 Sum_probs=25.4
Q ss_pred CceEEECCCCchHHHHHHc-CC---hH-HHHhCCCCCCC
Q 044600 54 DEIYVVREGETLHTISEKC-GD---PY-IVEQNPHINDP 87 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~-g~---~~-i~~~N~~l~~~ 87 (104)
...|.|+.|++-+.+|.+. |. +| ++-.| ++.|+
T Consensus 45 ~~~Y~I~~g~RPe~vA~~lYGdp~ldWiiLm~N-nI~D~ 82 (193)
T PF11246_consen 45 FETYYIRGGERPEQVAYRLYGDPQLDWIILMIN-NIYDP 82 (193)
T ss_pred eEEEEeCCCCCHHHHHHHHhCCccceeeeeeec-CCcch
Confidence 4579999999999999776 76 45 77777 55554
No 76
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=39.22 E-value=37 Score=19.59 Aligned_cols=45 Identities=16% Similarity=0.130 Sum_probs=30.6
Q ss_pred CceEEECCCCchHHHHHHcCChH-HHHhCCC-CCCCCCcCCCCEEEe
Q 044600 54 DEIYVVREGETLHTISEKCGDPY-IVEQNPH-INDPDDVFPGLVIKI 98 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~-i~~~N~~-l~~~~~l~~Gq~L~i 98 (104)
...+.++.+-||+++.+++.-+. ++-.|-- +.+...|..|+.|.+
T Consensus 7 ~k~~~~~~~~tl~~lr~~~k~~~DI~I~NGF~~~~d~~L~e~D~v~~ 53 (57)
T PF14453_consen 7 EKEIETEENTTLFELRKESKPDADIVILNGFPTKEDIELKEGDEVFL 53 (57)
T ss_pred CEEEEcCCCcCHHHHHHhhCCCCCEEEEcCcccCCccccCCCCEEEE
Confidence 34678889999999999995544 3333511 123457889998865
No 77
>PRK11627 hypothetical protein; Provisional
Probab=39.10 E-value=30 Score=24.64 Aligned_cols=13 Identities=15% Similarity=0.583 Sum_probs=8.9
Q ss_pred HHHHHHHhhccCC
Q 044600 23 AIMLVLSCCESSD 35 (104)
Q Consensus 23 ~~~~~la~~~~~~ 35 (104)
+.+++|+||++++
T Consensus 10 ~a~~~L~gCA~~p 22 (192)
T PRK11627 10 VALFMLAGCATPS 22 (192)
T ss_pred HHHHHHHhhcCCC
Confidence 3355689999764
No 78
>KOG3309 consensus Ferredoxin [Energy production and conversion]
Probab=38.95 E-value=30 Score=24.11 Aligned_cols=22 Identities=14% Similarity=0.009 Sum_probs=18.9
Q ss_pred CCceEEECCCCchHHHHHHcCC
Q 044600 53 CDEIYVVREGETLHTISEKCGD 74 (104)
Q Consensus 53 ~~~~y~V~~GDTL~~IA~~~g~ 74 (104)
....+.++.|||+-++|.++|+
T Consensus 54 ~~~~i~g~vGdtlLd~ah~n~i 75 (159)
T KOG3309|consen 54 EEIKIKGKVGDTLLDAAHENNL 75 (159)
T ss_pred CEEEeeeecchHHHHHHHHcCC
Confidence 4456889999999999999977
No 79
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=38.61 E-value=50 Score=22.54 Aligned_cols=17 Identities=18% Similarity=0.489 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHhhccCC
Q 044600 19 ALFMAIMLVLSCCESSD 35 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~~ 35 (104)
+++++++.+|.+|+...
T Consensus 7 ~~Lv~~~~~Lvsc~~p~ 23 (142)
T TIGR03042 7 LLLVLLLTFLVSCSGPA 23 (142)
T ss_pred HHHHHHHHHHHHcCCCc
Confidence 33344444578888643
No 80
>PF11839 DUF3359: Protein of unknown function (DUF3359); InterPro: IPR021793 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 80 amino acids in length.
Probab=38.53 E-value=42 Score=21.46 Aligned_cols=16 Identities=25% Similarity=0.472 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHhhccC
Q 044600 19 ALFMAIMLVLSCCESS 34 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~ 34 (104)
..+++.+++++||++.
T Consensus 7 sal~~~~~L~~GCAst 22 (96)
T PF11839_consen 7 SALALAALLLAGCAST 22 (96)
T ss_pred HHHHHHHHHHhHccCC
Confidence 3344456778899965
No 81
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=38.28 E-value=11 Score=21.86 Aligned_cols=18 Identities=17% Similarity=0.390 Sum_probs=14.9
Q ss_pred ECCCCchHHHHHHcCChH
Q 044600 59 VREGETLHTISEKCGDPY 76 (104)
Q Consensus 59 V~~GDTL~~IA~~~g~~~ 76 (104)
...|.|+.++|++||++.
T Consensus 20 ~~~g~sv~~va~~~gi~~ 37 (76)
T PF01527_consen 20 LESGESVSEVAREYGISP 37 (76)
T ss_dssp HHHHCHHHHHHHHHTS-H
T ss_pred HHCCCceEeeeccccccc
Confidence 367899999999999954
No 82
>COG3056 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=38.18 E-value=1.5e+02 Score=21.47 Aligned_cols=17 Identities=18% Similarity=0.454 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHhhccCC
Q 044600 19 ALFMAIMLVLSCCESSD 35 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~~ 35 (104)
++.++.+++|+||+..+
T Consensus 19 L~~laa~~lLagC~a~~ 35 (204)
T COG3056 19 LFPLAAIFLLAGCAAPP 35 (204)
T ss_pred HHHHHHHHHHHhcCCCC
Confidence 44556677899998764
No 83
>TIGR02122 TRAP_TAXI TRAP transporter solute receptor, TAXI family. This family is one of at least three major families of extracytoplasmic solute receptor (ESR) for TRAP (Tripartite ATP-independent Periplasmic Transporter) transporters. The others are the DctP (TIGR00787) and SmoM (pfam03480) families. These transporters are secondary (driven by an ion gradient) but composed of three polypeptides, although in some species the 4-TM and 12-TM integral membrane proteins are fused. Substrates for this transporter family are not fully characterized but, besides C4 dicarboxylates, may include mannitol and other compounds.
Probab=37.06 E-value=40 Score=24.46 Aligned_cols=25 Identities=12% Similarity=0.274 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccC
Q 044600 10 LAEKIAWHCALFMAIMLVLSCCESS 34 (104)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~la~~~~~ 34 (104)
|++++..+.+.++++.+.+++|+..
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~ 25 (320)
T TIGR02122 1 MKKRLFLLGAALAIVGAALAACAGD 25 (320)
T ss_pred CchHHHHHHHHHHHHHHHHHhhccC
Confidence 3455555555666667778888854
No 84
>PF13617 Lipoprotein_19: YnbE-like lipoprotein
Probab=36.99 E-value=23 Score=20.60 Aligned_cols=15 Identities=33% Similarity=0.658 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHhhc
Q 044600 18 CALFMAIMLVLSCCE 32 (104)
Q Consensus 18 ~~~~~~~~~~la~~~ 32 (104)
++++++++++++||.
T Consensus 3 l~~~~~~~~~l~gCt 17 (59)
T PF13617_consen 3 LLLLLALALALTGCT 17 (59)
T ss_pred hHHHHHHHHHHccCC
Confidence 455666677888997
No 85
>TIGR00752 slp outer membrane lipoprotein, Slp family. Slp superfamily members are present in the Gram-negative gamma proteobacteria Escherichia coli, which also contains a close paralog, Haemophilus influenzae and Pasteurella multocida and Vibrio cholera. The known members of the family to date share a motif LX[GA]C near the N-terminus, which is compatible with the possibility that the protein is modified into a lipoprotein with Cys as the new N-terminus. Slp from Escherichia coli is known to be a lipoprotein of the outer membrane and to be expressed in response to carbon starvation.
Probab=36.80 E-value=21 Score=25.35 Aligned_cols=37 Identities=19% Similarity=0.165 Sum_probs=21.0
Q ss_pred CCCCchHHHHHHc----CCh------H---HHHhCCCCCCCCCcCCCCEEEe
Q 044600 60 REGETLHTISEKC----GDP------Y---IVEQNPHINDPDDVFPGLVIKI 98 (104)
Q Consensus 60 ~~GDTL~~IA~~~----g~~------~---i~~~N~~l~~~~~l~~Gq~L~i 98 (104)
+++.|.-+|++.- |-+ - +...+ +.-||... .|+.|.|
T Consensus 63 ~~~~T~lEVv~~PLd~~grP~~~~~s~GRFla~~~-gFLDP~~y-~Gr~VTV 112 (182)
T TIGR00752 63 LANQTKLEIASLPLDSIAKPFVELQSDGRFIAYFN-GFLDPVNL-RERYVTV 112 (182)
T ss_pred CCCceEEEEEEcccCCCCCcCCCCCCCCEEEEEeC-CCcChhhc-CCCEEEE
Confidence 5667877777543 111 1 33344 44477555 7888876
No 86
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=36.56 E-value=28 Score=22.04 Aligned_cols=16 Identities=25% Similarity=0.559 Sum_probs=14.2
Q ss_pred ECCCCchHHHHHHcCC
Q 044600 59 VREGETLHTISEKCGD 74 (104)
Q Consensus 59 V~~GDTL~~IA~~~g~ 74 (104)
.++|+|+.+||++||+
T Consensus 21 ~~~g~sv~~vAr~~gv 36 (116)
T COG2963 21 LRGGDTVSEVAREFGI 36 (116)
T ss_pred HhcCccHHHHHHHhCC
Confidence 4689999999999995
No 87
>PF11153 DUF2931: Protein of unknown function (DUF2931); InterPro: IPR021326 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently, there is no known function.
Probab=36.40 E-value=43 Score=23.77 Aligned_cols=18 Identities=22% Similarity=0.667 Sum_probs=12.4
Q ss_pred HHHHHHHHHHhhccCCCC
Q 044600 20 LFMAIMLVLSCCESSDSG 37 (104)
Q Consensus 20 ~~~~~~~~la~~~~~~~~ 37 (104)
+++++++++++|++....
T Consensus 5 ~~l~l~lll~~C~~~~~~ 22 (216)
T PF11153_consen 5 LLLLLLLLLTGCSTNPNE 22 (216)
T ss_pred HHHHHHHHHHhhcCCCcc
Confidence 344567788999977544
No 88
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=36.31 E-value=17 Score=20.22 Aligned_cols=18 Identities=28% Similarity=0.449 Sum_probs=12.9
Q ss_pred ECCCCchHHHHHHcCChH
Q 044600 59 VREGETLHTISEKCGDPY 76 (104)
Q Consensus 59 V~~GDTL~~IA~~~g~~~ 76 (104)
+..|.+..+||++||++.
T Consensus 19 ~e~g~s~~~ia~~fgv~~ 36 (53)
T PF04218_consen 19 LEEGESKRDIAREFGVSR 36 (53)
T ss_dssp HHCTT-HHHHHHHHT--C
T ss_pred HHcCCCHHHHHHHhCCCH
Confidence 467889999999999854
No 89
>COG2063 FlgH Flagellar basal body L-ring protein [Cell motility and secretion]
Probab=36.10 E-value=89 Score=23.07 Aligned_cols=17 Identities=18% Similarity=0.196 Sum_probs=10.8
Q ss_pred CCCCCCCcCCCCEEEeC
Q 044600 83 HINDPDDVFPGLVIKIT 99 (104)
Q Consensus 83 ~l~~~~~l~~Gq~L~ip 99 (104)
-.+|.....+|+.|.|-
T Consensus 65 Lf~D~RA~~vGDilTV~ 81 (230)
T COG2063 65 LFEDRRASNVGDILTIV 81 (230)
T ss_pred hhcccccccCCCEEEEE
Confidence 34455566777777764
No 90
>PF06474 MLTD_N: MltD lipid attachment motif; InterPro: IPR010511 This entry represents the MltD lipid attachment domain. It is a short N-terminal domain found in membrane-bound lytic murein transglycosylase D (Mltd).
Probab=35.60 E-value=69 Score=16.60 Aligned_cols=12 Identities=33% Similarity=0.598 Sum_probs=7.0
Q ss_pred HHHHHHHHhhcc
Q 044600 22 MAIMLVLSCCES 33 (104)
Q Consensus 22 ~~~~~~la~~~~ 33 (104)
+++..+++||.+
T Consensus 23 l~l~a~l~GCQS 34 (34)
T PF06474_consen 23 LALGALLVGCQS 34 (34)
T ss_pred HHHHHHHccccC
Confidence 344456778763
No 91
>PF06291 Lambda_Bor: Bor protein; InterPro: IPR010438 This family consists of several Bacteriophage lambda Bor and Escherichia coli Iss proteins. Expression of bor significantly increases the survival of the E. coli host cell in animal serum. This property is a well known bacterial virulence determinant indeed, bor and its adjacent sequences are highly homologous to the iss serum resistance locus of the plasmid ColV2-K94, which confers virulence in animals. It has been suggested that lysogeny may generally have a role in bacterial survival in animal hosts, and perhaps in pathogenesis [].
Probab=35.16 E-value=54 Score=20.91 Aligned_cols=13 Identities=31% Similarity=0.675 Sum_probs=8.7
Q ss_pred HHHHHHHHhhccC
Q 044600 22 MAIMLVLSCCESS 34 (104)
Q Consensus 22 ~~~~~~la~~~~~ 34 (104)
.+++++++||++.
T Consensus 8 ~~lallLtgCatq 20 (97)
T PF06291_consen 8 AALALLLTGCATQ 20 (97)
T ss_pred HHHHHHHccccee
Confidence 3445678999865
No 92
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=34.68 E-value=81 Score=21.40 Aligned_cols=20 Identities=25% Similarity=0.504 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHhhccC
Q 044600 15 AWHCALFMAIMLVLSCCESS 34 (104)
Q Consensus 15 ~~~~~~~~~~~~~la~~~~~ 34 (104)
+..+.+++.++++|.+|+..
T Consensus 9 ~~~lal~L~~~l~l~~c~~~ 28 (135)
T TIGR03044 9 RAALALVLGLCLLLTACSGA 28 (135)
T ss_pred HHHHHHHHHHHHHHhcccCC
Confidence 34456666666777788754
No 93
>PF13798 PCYCGC: Protein of unknown function with PCYCGC motif
Probab=33.34 E-value=44 Score=23.27 Aligned_cols=17 Identities=24% Similarity=0.593 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHhhccCC
Q 044600 19 ALFMAIMLVLSCCESSD 35 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~~ 35 (104)
+.++++.++|+||++..
T Consensus 2 ~~~l~~~~llagCss~~ 18 (158)
T PF13798_consen 2 IPLLSLSLLLAGCSSDE 18 (158)
T ss_pred hHHHHHHHHHHHcCCCC
Confidence 44667778899999653
No 94
>PRK11443 lipoprotein; Provisional
Probab=33.21 E-value=42 Score=22.28 Aligned_cols=15 Identities=27% Similarity=0.388 Sum_probs=9.7
Q ss_pred HHHHHHHHHhhccCC
Q 044600 21 FMAIMLVLSCCESSD 35 (104)
Q Consensus 21 ~~~~~~~la~~~~~~ 35 (104)
+++++++|+||++.+
T Consensus 6 ~~~~~~lLsgCa~~~ 20 (124)
T PRK11443 6 APLLALLLSGCQIDP 20 (124)
T ss_pred HHHHHHHHHhccCCC
Confidence 344455789999753
No 95
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=32.69 E-value=39 Score=17.90 Aligned_cols=18 Identities=17% Similarity=0.477 Sum_probs=11.1
Q ss_pred ECCCCchHHHHHHcCChH
Q 044600 59 VREGETLHTISEKCGDPY 76 (104)
Q Consensus 59 V~~GDTL~~IA~~~g~~~ 76 (104)
.+.|.+..+||+.+|.+.
T Consensus 17 ~~~G~s~~~IA~~lg~s~ 34 (44)
T PF13936_consen 17 LEQGMSIREIAKRLGRSR 34 (44)
T ss_dssp HCS---HHHHHHHTT--H
T ss_pred HHcCCCHHHHHHHHCcCc
Confidence 368999999999998854
No 96
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=32.67 E-value=28 Score=19.83 Aligned_cols=45 Identities=29% Similarity=0.183 Sum_probs=31.5
Q ss_pred CceEEECCCCchHHHHHHcCChH---HHHhCCCCCC-----CCCcCCCCEEEe
Q 044600 54 DEIYVVREGETLHTISEKCGDPY---IVEQNPHIND-----PDDVFPGLVIKI 98 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~---i~~~N~~l~~-----~~~l~~Gq~L~i 98 (104)
.+.+.+..+-|+.++-+..+.+. .++.|..+-. ...|+.|++|.|
T Consensus 5 g~~~~~~~~~tv~~ll~~l~~~~~~v~v~vN~~iv~~~~~~~~~L~~gD~vei 57 (64)
T TIGR01683 5 GEPVEVEDGLTLAALLESLGLDPRRVAVAVNGEIVPRSEWDDTILKEGDRIEI 57 (64)
T ss_pred CeEEEcCCCCcHHHHHHHcCCCCCeEEEEECCEEcCHHHcCceecCCCCEEEE
Confidence 34677788889999999887654 5566654421 235889998876
No 97
>PF00111 Fer2: 2Fe-2S iron-sulfur cluster binding domain; InterPro: IPR001041 The ferredoxin protein family are electron carrier proteins with an iron-sulphur cofactor that act in a wide variety of metabolic reactions. Ferredoxins can be divided into several subgroups depending upon the physiological nature of the iron-sulphur cluster(s) and according to sequence similarities. This entry represents members of the 2Fe-2S ferredoxin family that have a general core structure consisting of beta(2)-alpha-beta(2), which includes putidaredoxin and terpredoxin, and adrenodoxin [, , , ]. They are proteins of around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated. This conserved region is also found as a domain in various metabolic enzymes and in multidomain proteins, such as aldehyde oxidoreductase (N-terminal), xanthine oxidase (N-terminal), phthalate dioxygenase reductase (C-terminal), succinate dehydrogenase iron-sulphur protein (N-terminal), and methane monooxygenase reductase (N-terminal).; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding; PDB: 3M9S_C 2FUG_L 3IAS_L 2YBB_3 3IAM_3 3I9V_3 1JQ4_A 1DOX_A 1DOY_A 2KAJ_A ....
Probab=32.51 E-value=34 Score=19.78 Aligned_cols=21 Identities=33% Similarity=0.262 Sum_probs=17.4
Q ss_pred ceEEECCCCc-hHHHHHHc-CCh
Q 044600 55 EIYVVREGET-LHTISEKC-GDP 75 (104)
Q Consensus 55 ~~y~V~~GDT-L~~IA~~~-g~~ 75 (104)
..+.+.+|++ |.+.+++. |++
T Consensus 8 ~~~~~~~~~~~ll~~~~~~~gi~ 30 (78)
T PF00111_consen 8 VTVEVPPGETLLLDALERAGGIG 30 (78)
T ss_dssp EEEEEETTSBBHHHHHHHTTTTT
T ss_pred EEEEeCCCccHHHHHHHHcCCCC
Confidence 3678899999 99999988 653
No 98
>PF03398 Ist1: Regulator of Vps4 activity in the MVB pathway; InterPro: IPR005061 This is a eukaryotic protein family of unknown function.; PDB: 3GGZ_B 3GGY_B 3FRR_A 3FRS_A.
Probab=32.27 E-value=28 Score=24.00 Aligned_cols=14 Identities=29% Similarity=0.603 Sum_probs=11.3
Q ss_pred CchHHHHHHcCChH
Q 044600 63 ETLHTISEKCGDPY 76 (104)
Q Consensus 63 DTL~~IA~~~g~~~ 76 (104)
..|.+||+.||++|
T Consensus 152 ~~L~eIA~e~~i~w 165 (165)
T PF03398_consen 152 KYLKEIAKEYGIPW 165 (165)
T ss_dssp HHHHHHHHHCT-SH
T ss_pred HHHHHHHHHcCCCC
Confidence 46899999999987
No 99
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=31.39 E-value=37 Score=21.89 Aligned_cols=19 Identities=16% Similarity=0.230 Sum_probs=16.2
Q ss_pred EECCCCchHHHHHHcCChH
Q 044600 58 VVREGETLHTISEKCGDPY 76 (104)
Q Consensus 58 ~V~~GDTL~~IA~~~g~~~ 76 (104)
.+..|.++.+||++||++.
T Consensus 25 ~~~~g~sv~evA~e~gIs~ 43 (121)
T PRK09413 25 SFEPGMTVSLVARQHGVAA 43 (121)
T ss_pred HHcCCCCHHHHHHHHCcCH
Confidence 3578899999999999965
No 100
>TIGR00548 lolB outer membrane lipoprotein LolB. This protein, LolB, is known so far only in the gamma and beta subdivisions of the Proteobacteria. It is a processed, lipid-modified outer membrane protein. It is required in E. coli for insertion of the major outer lipoprotein (Lpp) into the outer membrane. Lpp is transferred to LolB from the carrier protein LolA in the periplasm. Previously, this protein was thought to play in role in 5-aminolevulinic acid synthesis and was designated HemM.
Probab=31.30 E-value=42 Score=23.75 Aligned_cols=11 Identities=18% Similarity=0.558 Sum_probs=7.5
Q ss_pred HHHHHHhhccC
Q 044600 24 IMLVLSCCESS 34 (104)
Q Consensus 24 ~~~~la~~~~~ 34 (104)
++++|+||++.
T Consensus 10 ~~llLsgCa~~ 20 (202)
T TIGR00548 10 ALALLTACAGL 20 (202)
T ss_pred HHHHHhhccCC
Confidence 44568999754
No 101
>PRK07440 hypothetical protein; Provisional
Probab=31.07 E-value=38 Score=19.91 Aligned_cols=45 Identities=27% Similarity=0.307 Sum_probs=31.8
Q ss_pred CceEEECCCCchHHHHHHcCChH---HHHhCCCCC-----CCCCcCCCCEEEe
Q 044600 54 DEIYVVREGETLHTISEKCGDPY---IVEQNPHIN-----DPDDVFPGLVIKI 98 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~---i~~~N~~l~-----~~~~l~~Gq~L~i 98 (104)
++.+.+..|-|+.++-++++.+. .++.|..+- +...|+.|++|.|
T Consensus 11 G~~~~~~~~~tl~~lL~~l~~~~~~vav~~N~~iv~r~~w~~~~L~~gD~IEI 63 (70)
T PRK07440 11 GETRTCSSGTSLPDLLQQLGFNPRLVAVEYNGEILHRQFWEQTQVQPGDRLEI 63 (70)
T ss_pred CEEEEcCCCCCHHHHHHHcCCCCCeEEEEECCEEeCHHHcCceecCCCCEEEE
Confidence 34578888889999998887653 556664442 2356889998876
No 102
>CHL00134 petF ferredoxin; Validated
Probab=30.53 E-value=64 Score=20.11 Aligned_cols=23 Identities=13% Similarity=0.037 Sum_probs=19.5
Q ss_pred CceEEECCCCchHHHHHHcCChH
Q 044600 54 DEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
..++.+.+|+||-+.+.+.|+.+
T Consensus 16 ~~~~~~~~~~tLL~a~~~~Gi~i 38 (99)
T CHL00134 16 DVTIDCPDDVYILDAAEEQGIDL 38 (99)
T ss_pred eEEEEECCCCcHHHHHHHcCCCC
Confidence 34689999999999999998743
No 103
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family. YhcN and YlaJ are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic 40-residue C-terminal domain that is not included in the seed alignment for this model. A portion of the low-complexity region between the lipoprotein signal sequence and the main conserved region of the protein family was also excised from the seed alignment.
Probab=30.23 E-value=40 Score=23.32 Aligned_cols=33 Identities=12% Similarity=0.154 Sum_probs=19.5
Q ss_pred chHHHHHHcCChHHHHhCCCCCCCCCcCCCCEEEe
Q 044600 64 TLHTISEKCGDPYIVEQNPHINDPDDVFPGLVIKI 98 (104)
Q Consensus 64 TL~~IA~~~g~~~i~~~N~~l~~~~~l~~Gq~L~i 98 (104)
+..++|++- .-.....|++++...+--|....|
T Consensus 51 ~~~~~A~~I--a~~v~~v~~V~dA~vvVtg~~A~V 83 (158)
T TIGR02898 51 DLYDVADEI--ASEAAKVKGVKDATVVITGNYAYV 83 (158)
T ss_pred hHHHHHHHH--HHHHhcCCCCceEEEEEECCEEEE
Confidence 566776654 114444567776666666666555
No 104
>PRK10397 lipoprotein; Provisional
Probab=30.04 E-value=1e+02 Score=20.84 Aligned_cols=14 Identities=14% Similarity=0.465 Sum_probs=9.6
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
++.+++.|+||+..
T Consensus 6 ~~~a~~~LaGCa~~ 19 (137)
T PRK10397 6 IAGALMALAGCAEV 19 (137)
T ss_pred HHHHHHHhhccccc
Confidence 44556678899765
No 105
>PRK02998 prsA peptidylprolyl isomerase; Reviewed
Probab=29.76 E-value=50 Score=24.52 Aligned_cols=14 Identities=43% Similarity=0.731 Sum_probs=8.8
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
+++++++|++|++.
T Consensus 12 ~~~~~~~l~~c~~~ 25 (283)
T PRK02998 12 ISCVVLALSACGSS 25 (283)
T ss_pred HHHHHHHHHhhCCC
Confidence 33444668899864
No 106
>PRK13614 lipoprotein LpqB; Provisional
Probab=29.22 E-value=67 Score=26.76 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCC
Q 044600 14 IAWHCALFMAIMLVLSCCESSDSG 37 (104)
Q Consensus 14 ~~~~~~~~~~~~~~la~~~~~~~~ 37 (104)
..+.+.+++++++++++|++-+..
T Consensus 7 ~~a~~~~~~~~~~~lagCa~iP~s 30 (573)
T PRK13614 7 RCASAALLVLLVVTLSACAQIPRS 30 (573)
T ss_pred hHHHHHHHHHHHHHhhhcccCCCC
Confidence 344555566677788999977544
No 107
>TIGR03850 bind_CPR_0540 carbohydrate ABC transporter substrate-binding protein, CPR_0540 family. Members of this protein are the substrate-binding protein of a predicted carbohydrate transporter operon, together with permease subunits of ABC transporter homology families. This substrate-binding protein frequently co-occurs in genomes with a family of disaccharide phosphorylases, TIGR02336, suggesting that the molecule transported will include beta-D-galactopyranosyl-(1-3)-N-acetyl-D-glucosamine and related carbohydrates. Members of this family are sporadically strain by strain, often in species with a human host association, including Propionibacterium acnes and Clostridium perfringens, and Bacillus cereus.
Probab=29.06 E-value=66 Score=24.59 Aligned_cols=14 Identities=21% Similarity=0.297 Sum_probs=8.7
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
+++++++|+||+.+
T Consensus 10 ~~~~~~~l~gCg~~ 23 (437)
T TIGR03850 10 LAMAASSLAGCGSG 23 (437)
T ss_pred HHHHHHHHhhccCC
Confidence 33344568899864
No 108
>TIGR02722 lp_ uncharacterized proteobacterial lipoprotein. Members of this protein family are restricted to the Proteobacteria, and all are predicted lipoproteins. In genomes that contain the thiK gene for the salvage enzyme thiamin kinase, the member of this family is encoded nearby.
Probab=29.04 E-value=44 Score=23.41 Aligned_cols=16 Identities=31% Similarity=0.490 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhhccC
Q 044600 19 ALFMAIMLVLSCCESS 34 (104)
Q Consensus 19 ~~~~~~~~~la~~~~~ 34 (104)
+++++++++++||++.
T Consensus 6 ~~~~~~al~l~gC~~~ 21 (189)
T TIGR02722 6 IFVALLALLLSGCVSQ 21 (189)
T ss_pred HHHHHHHHHHccCCCC
Confidence 3445556778999764
No 109
>COG4594 FecB ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=28.99 E-value=50 Score=25.18 Aligned_cols=19 Identities=26% Similarity=0.641 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHhhccCCC
Q 044600 18 CALFMAIMLVLSCCESSDS 36 (104)
Q Consensus 18 ~~~~~~~~~~la~~~~~~~ 36 (104)
+..+++++++.++|+++..
T Consensus 9 i~~lll~lllva~C~~s~~ 27 (310)
T COG4594 9 ILTLLLLLLLVAACSSSDN 27 (310)
T ss_pred HHHHHHHHHHHHHhcCcCc
Confidence 3444555667788987643
No 110
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=28.96 E-value=66 Score=20.83 Aligned_cols=22 Identities=9% Similarity=-0.023 Sum_probs=17.9
Q ss_pred ceEEECCCCchHHHHHHcCChH
Q 044600 55 EIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
.+..+..|+||.+.+++.|+++
T Consensus 13 ~~v~~~~G~tLl~a~~~~gi~i 34 (117)
T PLN02593 13 RTVKAPVGMSLLEAAHENDIEL 34 (117)
T ss_pred EEEEECCCCcHHHHHHHcCCCC
Confidence 3567789999999999987753
No 111
>PRK02463 OxaA-like protein precursor; Provisional
Probab=28.80 E-value=88 Score=23.91 Aligned_cols=20 Identities=20% Similarity=0.394 Sum_probs=13.3
Q ss_pred HHHH-HHHHHHHHHHHhhccC
Q 044600 15 AWHC-ALFMAIMLVLSCCESS 34 (104)
Q Consensus 15 ~~~~-~~~~~~~~~la~~~~~ 34 (104)
++.+ .++++++++++||...
T Consensus 7 ~~~~~~~~~~~~~~lsgc~~~ 27 (307)
T PRK02463 7 RILFSGLALSMLLTLTGCVGR 27 (307)
T ss_pred HHHHHHHHHHHHHHHhccCCC
Confidence 4444 3566667788999855
No 112
>PF15468 DUF4636: Domain of unknown function (DUF4636)
Probab=28.24 E-value=1e+02 Score=22.74 Aligned_cols=19 Identities=16% Similarity=0.027 Sum_probs=14.1
Q ss_pred CCceEEECCCCchHHHHHH
Q 044600 53 CDEIYVVREGETLHTISEK 71 (104)
Q Consensus 53 ~~~~y~V~~GDTL~~IA~~ 71 (104)
...+|.-+..|..|+..+.
T Consensus 82 k~~s~k~~sk~~~wds~~~ 100 (243)
T PF15468_consen 82 KDASCKRQSKDGAWDSSQK 100 (243)
T ss_pred cchhhhhhccccchhHHHH
Confidence 3456777888889988873
No 113
>PRK09578 periplasmic multidrug efflux lipoprotein precursor; Reviewed
Probab=28.20 E-value=1.1e+02 Score=23.44 Aligned_cols=13 Identities=23% Similarity=0.631 Sum_probs=7.4
Q ss_pred HHHHHHHHhhccC
Q 044600 22 MAIMLVLSCCESS 34 (104)
Q Consensus 22 ~~~~~~la~~~~~ 34 (104)
+++++++++|...
T Consensus 14 ~~~~~~l~~c~~~ 26 (385)
T PRK09578 14 LVALFVLAGCGKG 26 (385)
T ss_pred HHHHHHHhhcccc
Confidence 3334567788643
No 114
>PRK11372 lysozyme inhibitor; Provisional
Probab=28.19 E-value=52 Score=21.26 Aligned_cols=14 Identities=14% Similarity=0.534 Sum_probs=9.5
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
++++.++|+||+..
T Consensus 8 ~~~~~~lL~gCs~~ 21 (109)
T PRK11372 8 IICLPVLLTGCSAY 21 (109)
T ss_pred HHHHHHHHHHhcCC
Confidence 44455568999875
No 115
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=28.14 E-value=19 Score=22.37 Aligned_cols=10 Identities=20% Similarity=0.421 Sum_probs=7.1
Q ss_pred CceEEECCCC
Q 044600 54 DEIYVVREGE 63 (104)
Q Consensus 54 ~~~y~V~~GD 63 (104)
+....|++|+
T Consensus 34 P~~i~v~~G~ 43 (104)
T PF13473_consen 34 PSTITVKAGQ 43 (104)
T ss_dssp S-EEEEETTC
T ss_pred cCEEEEcCCC
Confidence 4467888888
No 116
>TIGR01941 nqrF NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit. This model represents the NqrF subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria. This oxidoreductase complex functions primarily as a sodium ion pump.
Probab=27.90 E-value=1.9e+02 Score=22.50 Aligned_cols=23 Identities=17% Similarity=0.094 Sum_probs=19.5
Q ss_pred CceEEECCCCchHHHHHHcCChH
Q 044600 54 DEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
...+.+.+|+||.+.+.+.|+.+
T Consensus 41 ~~~~~~~~g~tlL~a~~~~gi~i 63 (405)
T TIGR01941 41 EKSITVPAGGKLLNTLASNGIFI 63 (405)
T ss_pred ceEEEECCCChHHHHHHHcCCCC
Confidence 35789999999999999998743
No 117
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=27.89 E-value=53 Score=18.44 Aligned_cols=45 Identities=13% Similarity=0.162 Sum_probs=30.6
Q ss_pred CceEEECCCCchHHHHHHcCChH--HHHhCCCCCC-----CCCcCCCCEEEe
Q 044600 54 DEIYVVREGETLHTISEKCGDPY--IVEQNPHIND-----PDDVFPGLVIKI 98 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~--i~~~N~~l~~-----~~~l~~Gq~L~i 98 (104)
...+.+.+|-|+.++-+.++... .++.|..+-+ ...|..|++|-|
T Consensus 7 g~~~~~~~~~tl~~ll~~l~~~~~~~v~vN~~~v~~~~~~~~~L~~gD~vei 58 (65)
T PRK06944 7 QQTLSLPDGATVADALAAYGARPPFAVAVNGDFVARTQHAARALAAGDRLDL 58 (65)
T ss_pred CEEEECCCCCcHHHHHHhhCCCCCeEEEECCEEcCchhcccccCCCCCEEEE
Confidence 34677888889999988886643 4455533321 346889999876
No 118
>PRK13616 lipoprotein LpqB; Provisional
Probab=27.79 E-value=70 Score=26.60 Aligned_cols=23 Identities=22% Similarity=0.303 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHhhccCCCCC
Q 044600 16 WHCALFMAIMLVLSCCESSDSGG 38 (104)
Q Consensus 16 ~~~~~~~~~~~~la~~~~~~~~~ 38 (104)
..++++++++++++||++-+..+
T Consensus 8 ~~~~~~~~~~~~~sgCa~iP~~s 30 (591)
T PRK13616 8 KLLAALLAVAALLAGCATLPSSS 30 (591)
T ss_pred HHHHHHHHHHHHhhhcccCCCCC
Confidence 34444555566889998765443
No 119
>PTZ00305 NADH:ubiquinone oxidoreductase; Provisional
Probab=27.60 E-value=61 Score=24.84 Aligned_cols=23 Identities=17% Similarity=0.141 Sum_probs=19.4
Q ss_pred CceEEE-CCCCchHHHHHHcCChH
Q 044600 54 DEIYVV-REGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V-~~GDTL~~IA~~~g~~~ 76 (104)
+..+.| .+|.|+++.|++.|+.+
T Consensus 75 Gk~VeV~~~G~TILeAAr~~GI~I 98 (297)
T PTZ00305 75 KRPVEIIPQEENLLEVLEREGIRV 98 (297)
T ss_pred CEEEEecCCCChHHHHHHHcCCCc
Confidence 356778 89999999999998865
No 120
>PRK13835 conjugal transfer protein TrbH; Provisional
Probab=27.58 E-value=67 Score=22.05 Aligned_cols=15 Identities=27% Similarity=0.434 Sum_probs=10.3
Q ss_pred HHHHHHHHHHhhccC
Q 044600 20 LFMAIMLVLSCCESS 34 (104)
Q Consensus 20 ~~~~~~~~la~~~~~ 34 (104)
++++++++|+||++.
T Consensus 6 ~~~~~al~LaGCaT~ 20 (145)
T PRK13835 6 AACILALLLSGCQTL 20 (145)
T ss_pred HHHHHHHHHhccccc
Confidence 344556678899984
No 121
>PRK13792 lysozyme inhibitor; Provisional
Probab=27.30 E-value=57 Score=21.81 Aligned_cols=21 Identities=33% Similarity=0.502 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHhhccCCCC
Q 044600 17 HCALFMAIMLVLSCCESSDSG 37 (104)
Q Consensus 17 ~~~~~~~~~~~la~~~~~~~~ 37 (104)
.+++++.+.++|++|+.....
T Consensus 5 l~~ll~~~~~lLsaCs~~~~~ 25 (127)
T PRK13792 5 LWLLLAAVPVVLVACGGSDDD 25 (127)
T ss_pred HHHHHHHHHhheecccCCCCC
Confidence 445556666778999977544
No 122
>PRK10540 lipoprotein; Provisional
Probab=27.21 E-value=1.1e+02 Score=18.43 Aligned_cols=14 Identities=29% Similarity=0.667 Sum_probs=8.3
Q ss_pred HHHHHHHHHHhhcc
Q 044600 20 LFMAIMLVLSCCES 33 (104)
Q Consensus 20 ~~~~~~~~la~~~~ 33 (104)
+.+++.+.+++|..
T Consensus 13 ~~~~~a~~L~gC~~ 26 (72)
T PRK10540 13 LAITLAMSLSACSN 26 (72)
T ss_pred HHHHHHHHHhccCC
Confidence 34444556788864
No 123
>PRK15175 Vi polysaccharide export protein VexA; Provisional
Probab=27.12 E-value=1.6e+02 Score=23.00 Aligned_cols=12 Identities=25% Similarity=0.717 Sum_probs=8.3
Q ss_pred HHHHHHHHHhhc
Q 044600 21 FMAIMLVLSCCE 32 (104)
Q Consensus 21 ~~~~~~~la~~~ 32 (104)
++++++++++|+
T Consensus 7 ~~~~~~~~~~c~ 18 (355)
T PRK15175 7 LLTTFFLLSGCT 18 (355)
T ss_pred HHHHHHHHhhcC
Confidence 345566778888
No 124
>PHA00675 hypothetical protein
Probab=26.80 E-value=69 Score=19.72 Aligned_cols=17 Identities=24% Similarity=0.300 Sum_probs=15.7
Q ss_pred CCCCchHHHHHHcCChH
Q 044600 60 REGETLHTISEKCGDPY 76 (104)
Q Consensus 60 ~~GDTL~~IA~~~g~~~ 76 (104)
+.|.+...||++||++.
T Consensus 37 r~G~s~~~IA~~fGVsr 53 (78)
T PHA00675 37 VEGMSYAVLAEKFEQSK 53 (78)
T ss_pred hcCccHHHHHHHhCCCH
Confidence 78999999999999976
No 125
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=26.72 E-value=18 Score=21.57 Aligned_cols=34 Identities=29% Similarity=0.327 Sum_probs=23.4
Q ss_pred hHHHH-HHcCChH---HHHhCCCCCCCCCcCCCCEEEe
Q 044600 65 LHTIS-EKCGDPY---IVEQNPHINDPDDVFPGLVIKI 98 (104)
Q Consensus 65 L~~IA-~~~g~~~---i~~~N~~l~~~~~l~~Gq~L~i 98 (104)
|-.|| ++||... ..+..-++.|-+.|+-|+.|.+
T Consensus 31 Ll~ia~~kfg~~~~~v~~~dgaeIdDI~~IRDgD~L~~ 68 (69)
T PF11834_consen 31 LLKIASEKFGFSATKVLNEDGAEIDDIDVIRDGDHLYL 68 (69)
T ss_pred HHHHHHHHhCCCceEEEcCCCCEEeEEEEEEcCCEEEE
Confidence 45555 7777755 4444456777788899999876
No 126
>PRK15470 emtA lytic murein endotransglycosylase E; Provisional
Probab=26.67 E-value=39 Score=24.38 Aligned_cols=13 Identities=8% Similarity=-0.082 Sum_probs=9.7
Q ss_pred chHHHHHHcCChH
Q 044600 64 TLHTISEKCGDPY 76 (104)
Q Consensus 64 TL~~IA~~~g~~~ 76 (104)
.+..-|++||+++
T Consensus 42 ~~~~aa~~y~iDp 54 (203)
T PRK15470 42 ISQKAGAAWGVDP 54 (203)
T ss_pred HHHHHHHHcCCCH
Confidence 5566678889987
No 127
>PF12298 Bot1p: Eukaryotic mitochondrial regulator protein ; InterPro: IPR021036 This entry represents Ribosomal protein S35, which localises to the mitochondria in live cells and co-fractionates with purified mitochondrial ribosomes. This group of proteins have a novel function in the control of cell respiration by acting on the mitochondrial protein synthesis machinery and a role in mitochondrial integrity. Observations also indicate that in Schizosaccharomyces pombe (Fission yeast), alterations of mitochondrial function are linked to changes in cell cycle and cell morphology control mechanisms [].
Probab=26.49 E-value=65 Score=22.60 Aligned_cols=18 Identities=22% Similarity=0.530 Sum_probs=15.7
Q ss_pred ECCCCchHHHHHHcCChH
Q 044600 59 VREGETLHTISEKCGDPY 76 (104)
Q Consensus 59 V~~GDTL~~IA~~~g~~~ 76 (104)
.+.|.++-.||++||++.
T Consensus 30 ~~~~~sv~~vS~~ygi~~ 47 (172)
T PF12298_consen 30 MQDGKSVREVSQKYGIKI 47 (172)
T ss_pred HhCCCCHHHHHHHhCCCH
Confidence 478889999999999965
No 128
>PF09680 Tiny_TM_bacill: Protein of unknown function (Tiny_TM_bacill); InterPro: IPR010070 This entry represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=26.13 E-value=63 Score=15.42 Aligned_cols=7 Identities=29% Similarity=0.842 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 044600 19 ALFMAIM 25 (104)
Q Consensus 19 ~~~~~~~ 25 (104)
+++++++
T Consensus 11 VLFILLi 17 (24)
T PF09680_consen 11 VLFILLI 17 (24)
T ss_pred HHHHHHH
Confidence 3333333
No 129
>COG4764 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.92 E-value=68 Score=22.69 Aligned_cols=14 Identities=21% Similarity=0.617 Sum_probs=9.8
Q ss_pred HHHHHHHHhhccCC
Q 044600 22 MAIMLVLSCCESSD 35 (104)
Q Consensus 22 ~~~~~~la~~~~~~ 35 (104)
++++++|+||++.+
T Consensus 11 ~v~lL~LagCaTaP 24 (197)
T COG4764 11 AVVLLALAGCATAP 24 (197)
T ss_pred HHHHHHHhhcccCC
Confidence 33466789999764
No 130
>COG3753 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.45 E-value=39 Score=23.06 Aligned_cols=30 Identities=33% Similarity=0.460 Sum_probs=20.1
Q ss_pred CCchHHHHHHcCChH------HHHhCCCCCCCCCcCCC
Q 044600 62 GETLHTISEKCGDPY------IVEQNPHINDPDDVFPG 93 (104)
Q Consensus 62 GDTL~~IA~~~g~~~------i~~~N~~l~~~~~l~~G 93 (104)
-|||.+||++.|++. +-+.-|++-| ++.|.
T Consensus 90 ~~~l~~la~~~Gld~~El~~~Ls~~LP~~Vd--kLTPn 125 (143)
T COG3753 90 TDTLSQLAQKTGLDEQELLKQLSEQLPGIVD--KLTPN 125 (143)
T ss_pred hhHHHHHHHHhCCCHHHHHHHHHHHhHHHHH--hcCCC
Confidence 479999999999976 3334455533 45553
No 131
>PF08356 EF_assoc_2: EF hand associated; InterPro: IPR013567 This region predominantly appears near EF-hands (IPR002048 from INTERPRO) in GTP-binding proteins. It is found in all three eukaryotic kingdoms.
Probab=24.90 E-value=55 Score=20.52 Aligned_cols=42 Identities=24% Similarity=0.315 Sum_probs=24.5
Q ss_pred ECCC--CchHHHHHHcCChHHHHhCC-CCCCCCCcCCCCEEEeCC
Q 044600 59 VREG--ETLHTISEKCGDPYIVEQNP-HINDPDDVFPGLVIKITP 100 (104)
Q Consensus 59 V~~G--DTL~~IA~~~g~~~i~~~N~-~l~~~~~l~~Gq~L~ip~ 100 (104)
+++| ||.|.|=++||-+--+..+. -+...-.+.+|+.+-+.+
T Consensus 42 ierGR~ETtW~vLR~FgY~d~L~L~d~~l~p~l~v~~~~svELS~ 86 (89)
T PF08356_consen 42 IERGRHETTWTVLRKFGYDDDLSLSDDFLYPKLDVPPDQSVELSP 86 (89)
T ss_pred HHhCcchHHHHHHHHcCCCCcceeccccCCCCccCCCCCeeecCc
Confidence 4666 89999999996433222221 222224567777766543
No 132
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=24.87 E-value=46 Score=18.74 Aligned_cols=22 Identities=23% Similarity=0.229 Sum_probs=19.1
Q ss_pred ceEEECCCCchHHHHHHcCChH
Q 044600 55 EIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
++|.+.++-|+-+||+..|++-
T Consensus 16 GYfd~PR~~tl~elA~~lgis~ 37 (53)
T PF04967_consen 16 GYFDVPRRITLEELAEELGISK 37 (53)
T ss_pred CCCCCCCcCCHHHHHHHhCCCH
Confidence 4788889999999999999854
No 133
>KOG3462 consensus Predicted membrane protein [Function unknown]
Probab=24.65 E-value=1.8e+02 Score=18.69 Aligned_cols=24 Identities=17% Similarity=0.151 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Q 044600 6 STTELAEKIAWHCALFMAIMLVLS 29 (104)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~la 29 (104)
++.++.-|.+|+.++.+.++++.+
T Consensus 44 smcGlM~r~KwCsWlAl~cs~iSf 67 (105)
T KOG3462|consen 44 SMCGLMFRLKWCSWLALYCSCISF 67 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777888999888766655543
No 134
>PF13693 HTH_35: Winged helix-turn-helix DNA-binding; PDB: 1NEQ_A 1NER_A.
Probab=24.59 E-value=55 Score=20.04 Aligned_cols=17 Identities=24% Similarity=0.454 Sum_probs=12.4
Q ss_pred CCCCchHHHHHHcCChH
Q 044600 60 REGETLHTISEKCGDPY 76 (104)
Q Consensus 60 ~~GDTL~~IA~~~g~~~ 76 (104)
++|-||..||+++|..-
T Consensus 13 krG~sL~~lsr~~Gl~~ 29 (78)
T PF13693_consen 13 KRGTSLAALSREAGLSS 29 (78)
T ss_dssp TTS--HHHHHHHHSS-H
T ss_pred HcCCCHHHHHHHcCCCH
Confidence 68999999999999854
No 135
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=24.27 E-value=55 Score=23.23 Aligned_cols=27 Identities=22% Similarity=0.486 Sum_probs=22.4
Q ss_pred EECCCCchHHHHHHcCChH-----HHHhCCCC
Q 044600 58 VVREGETLHTISEKCGDPY-----IVEQNPHI 84 (104)
Q Consensus 58 ~V~~GDTL~~IA~~~g~~~-----i~~~N~~l 84 (104)
.|-.|+++-++|++.|++. ..+.||.+
T Consensus 28 ~vsaG~iFR~~A~e~gmsl~ef~~~AE~~p~i 59 (179)
T COG1102 28 LVSAGTIFREMARERGMSLEEFSRYAEEDPEI 59 (179)
T ss_pred eeeccHHHHHHHHHcCCCHHHHHHHHhcCchh
Confidence 5688999999999999976 66667766
No 136
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=23.72 E-value=1.1e+02 Score=16.59 Aligned_cols=13 Identities=23% Similarity=0.388 Sum_probs=11.5
Q ss_pred chHHHHHHcCChH
Q 044600 64 TLHTISEKCGDPY 76 (104)
Q Consensus 64 TL~~IA~~~g~~~ 76 (104)
||.+||+..|++.
T Consensus 1 Ti~dIA~~agvS~ 13 (46)
T PF00356_consen 1 TIKDIAREAGVSK 13 (46)
T ss_dssp CHHHHHHHHTSSH
T ss_pred CHHHHHHHHCcCH
Confidence 6889999999976
No 137
>COG4238 Murein lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=23.52 E-value=49 Score=20.28 Aligned_cols=18 Identities=22% Similarity=0.294 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHhhccC
Q 044600 17 HCALFMAIMLVLSCCESS 34 (104)
Q Consensus 17 ~~~~~~~~~~~la~~~~~ 34 (104)
.+...++-.++|+||.+.
T Consensus 7 ~l~Avvlg~lllAGc~s~ 24 (78)
T COG4238 7 TLGAVVLGSLLLAGCSSN 24 (78)
T ss_pred hHHHHHHHHHHHHhcchH
Confidence 344456667788999863
No 138
>PRK11189 lipoprotein NlpI; Provisional
Probab=23.42 E-value=61 Score=23.90 Aligned_cols=17 Identities=35% Similarity=0.458 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHhhcc
Q 044600 17 HCALFMAIMLVLSCCES 33 (104)
Q Consensus 17 ~~~~~~~~~~~la~~~~ 33 (104)
+-+.+++++++++||.+
T Consensus 5 ~~~~~~~~~~~~~~c~~ 21 (296)
T PRK11189 5 LRWCFVATALLLAGCSS 21 (296)
T ss_pred HHHHHHHHHHHHHhccc
Confidence 33444445667899986
No 139
>PRK10802 peptidoglycan-associated outer membrane lipoprotein; Provisional
Probab=23.25 E-value=73 Score=22.06 Aligned_cols=13 Identities=15% Similarity=0.493 Sum_probs=8.4
Q ss_pred HHHHHHHHhhccC
Q 044600 22 MAIMLVLSCCESS 34 (104)
Q Consensus 22 ~~~~~~la~~~~~ 34 (104)
++.+++|++|++.
T Consensus 13 ~~~~~~laaC~s~ 25 (173)
T PRK10802 13 ALPVMAIAACSSN 25 (173)
T ss_pred HHHHHHHHHcCCC
Confidence 3334568999864
No 140
>PRK10449 heat-inducible protein; Provisional
Probab=23.25 E-value=1.1e+02 Score=20.32 Aligned_cols=14 Identities=36% Similarity=0.693 Sum_probs=8.7
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
++++.+++++|++.
T Consensus 7 ~~~~~~~l~~C~~~ 20 (140)
T PRK10449 7 LVALSLLMAGCVSS 20 (140)
T ss_pred HHHHHHHHHHhcCC
Confidence 34445566888864
No 141
>PTZ00038 ferredoxin; Provisional
Probab=22.99 E-value=93 Score=22.24 Aligned_cols=22 Identities=18% Similarity=0.231 Sum_probs=18.2
Q ss_pred ceEEECCCCchHHHHHHcCChH
Q 044600 55 EIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
..+.+.+|+||-+.+++.|+.+
T Consensus 107 ~~~~v~~geTILdAae~aGI~l 128 (191)
T PTZ00038 107 KVIECDEDEYILDAAERQGVEL 128 (191)
T ss_pred EEEEeCCCCcHHHHHHHcCCCC
Confidence 4667789999999999998743
No 142
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=22.98 E-value=91 Score=17.79 Aligned_cols=44 Identities=18% Similarity=0.184 Sum_probs=30.1
Q ss_pred ceEEECCCCchHHHHHHcCChH---HHHhCCCCCC----CCCcCCCCEEEe
Q 044600 55 EIYVVREGETLHTISEKCGDPY---IVEQNPHIND----PDDVFPGLVIKI 98 (104)
Q Consensus 55 ~~y~V~~GDTL~~IA~~~g~~~---i~~~N~~l~~----~~~l~~Gq~L~i 98 (104)
..|.+.++.|+.++-+..+.+. .++.|..+-. ...|..|++|-|
T Consensus 8 ~~~~~~~~~tl~~ll~~l~~~~~~vav~~N~~iv~r~~~~~~L~~gD~ieI 58 (65)
T PRK05863 8 EQVEVDEQTTVAALLDSLGFPEKGIAVAVDWSVLPRSDWATKLRDGARLEV 58 (65)
T ss_pred EEEEcCCCCcHHHHHHHcCCCCCcEEEEECCcCcChhHhhhhcCCCCEEEE
Confidence 4577888899999999887754 5555644311 124888888876
No 143
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=22.57 E-value=72 Score=16.89 Aligned_cols=17 Identities=41% Similarity=0.438 Sum_probs=14.0
Q ss_pred CCCCchHHHHHHcCChH
Q 044600 60 REGETLHTISEKCGDPY 76 (104)
Q Consensus 60 ~~GDTL~~IA~~~g~~~ 76 (104)
-.|-|+.+||+.+|++.
T Consensus 18 ~~~~t~~eIa~~lg~s~ 34 (50)
T PF04545_consen 18 FEGLTLEEIAERLGISR 34 (50)
T ss_dssp TST-SHHHHHHHHTSCH
T ss_pred cCCCCHHHHHHHHCCcH
Confidence 57889999999999865
No 144
>PF05887 Trypan_PARP: Procyclic acidic repetitive protein (PARP); InterPro: IPR008882 This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of T. brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated [].; GO: 0016020 membrane; PDB: 2X34_B 2X32_B.
Probab=22.50 E-value=29 Score=23.68 Aligned_cols=20 Identities=10% Similarity=0.054 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhhccCCC
Q 044600 17 HCALFMAIMLVLSCCESSDS 36 (104)
Q Consensus 17 ~~~~~~~~~~~la~~~~~~~ 36 (104)
++.++++...++++.+++.+
T Consensus 8 ~LavLL~~A~Lfag~g~AaA 27 (143)
T PF05887_consen 8 LLAVLLFGAALFAGVGSAAA 27 (143)
T ss_dssp --------------------
T ss_pred cccccccccccccccccccc
Confidence 33334444445555554433
No 145
>PF12912 N_NLPC_P60: NLPC_P60 stabilising domain, N term; PDB: 3M1U_B.
Probab=22.48 E-value=29 Score=22.53 Aligned_cols=18 Identities=22% Similarity=0.558 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhccCCCC
Q 044600 20 LFMAIMLVLSCCESSDSG 37 (104)
Q Consensus 20 ~~~~~~~~la~~~~~~~~ 37 (104)
++++++++++||+.....
T Consensus 3 ~~~l~~lll~gCs~k~~~ 20 (124)
T PF12912_consen 3 ILLLALLLLAGCSSKTPP 20 (124)
T ss_dssp ------------------
T ss_pred HHHHHHHHHHHhCCCCCC
Confidence 345556677889866443
No 146
>PRK10713 2Fe-2S ferredoxin YfaE; Provisional
Probab=22.28 E-value=1e+02 Score=18.45 Aligned_cols=22 Identities=9% Similarity=0.058 Sum_probs=17.4
Q ss_pred CceEEECC-CCchHHHHHHcCCh
Q 044600 54 DEIYVVRE-GETLHTISEKCGDP 75 (104)
Q Consensus 54 ~~~y~V~~-GDTL~~IA~~~g~~ 75 (104)
...+.+.+ |+||-+.+++.|++
T Consensus 10 ~~~~~~~~~~~tlL~a~~~~gi~ 32 (84)
T PRK10713 10 GTQLLCQDEHPSLLAALESHNVA 32 (84)
T ss_pred CcEEEecCCCCcHHHHHHHcCCC
Confidence 34678886 58999999999773
No 147
>COG4259 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.99 E-value=1e+02 Score=20.30 Aligned_cols=14 Identities=14% Similarity=0.427 Sum_probs=10.3
Q ss_pred HHHHHHHHHhhccC
Q 044600 21 FMAIMLVLSCCESS 34 (104)
Q Consensus 21 ~~~~~~~la~~~~~ 34 (104)
+++.+++|++|+..
T Consensus 12 l~~av~~LagC~~g 25 (121)
T COG4259 12 LLLAVAALAGCGGG 25 (121)
T ss_pred HHHHHHHHHHccCC
Confidence 56666788999863
No 148
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=21.76 E-value=65 Score=16.90 Aligned_cols=17 Identities=29% Similarity=0.495 Sum_probs=12.0
Q ss_pred CCCCchHHHHHHcCChH
Q 044600 60 REGETLHTISEKCGDPY 76 (104)
Q Consensus 60 ~~GDTL~~IA~~~g~~~ 76 (104)
..|.|..+||+.+|++.
T Consensus 15 ~~G~s~~~ia~~lgvs~ 31 (50)
T PF13384_consen 15 REGWSIREIAKRLGVSR 31 (50)
T ss_dssp HHT--HHHHHHHHTS-H
T ss_pred HCCCCHHHHHHHHCcCH
Confidence 34999999999999965
No 149
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=21.59 E-value=91 Score=19.16 Aligned_cols=43 Identities=23% Similarity=0.237 Sum_probs=28.9
Q ss_pred eEEECCCCchHHHHHHcCChH-----HHHhCCCCCCCCCcCCCCEEEeC
Q 044600 56 IYVVREGETLHTISEKCGDPY-----IVEQNPHINDPDDVFPGLVIKIT 99 (104)
Q Consensus 56 ~y~V~~GDTL~~IA~~~g~~~-----i~~~N~~l~~~~~l~~Gq~L~ip 99 (104)
.|.+-..|---++-++|++.. |....|-. .-..+++||+++|-
T Consensus 14 kH~iLs~eE~~~lL~~y~i~~~qLP~I~~~DPv~-r~~g~k~GdVvkI~ 61 (79)
T PRK09570 14 EHEILSEEEAKKLLKEYGIKPEQLPKIKASDPVV-KAIGAKPGDVIKIV 61 (79)
T ss_pred CeEECCHHHHHHHHHHcCCCHHHCCceeccChhh-hhcCCCCCCEEEEE
Confidence 366666677778888887744 44444333 23578999999994
No 150
>PF02323 ELH: Egg-laying hormone precursor ; InterPro: IPR003424 This family consists of egg-laying hormone (ELH) precursor and atrial gland peptides from the little (Aplysia parvula) and california (Aplysia californica) sea hares. The family also includes ovulation prohormone precursor from the great pond snail (Lymnaea stagnalis). This family thus represents a conserved gastropoda ovulation and egg production prohormone. Note that many of the proteins present are further cleaved to give individual peptides []. Neuropeptidergic bag cells of the marine mollusc A. californica synthesize an egg-laying hormone (ELH) precursor protein which is cleaved to generate several bioacitve peptides including ELH, bag cell peptides (BCP) and acidic peptide (AP) [].; GO: 0005179 hormone activity, 0007275 multicellular organismal development, 0005576 extracellular region
Probab=21.50 E-value=1.5e+02 Score=21.85 Aligned_cols=11 Identities=27% Similarity=0.069 Sum_probs=6.5
Q ss_pred CceEEECCCCc
Q 044600 54 DEIYVVREGET 64 (104)
Q Consensus 54 ~~~y~V~~GDT 64 (104)
...|+|..||-
T Consensus 46 ss~~vv~s~~d 56 (255)
T PF02323_consen 46 SSPEVVLSPED 56 (255)
T ss_pred CCceEEeCccc
Confidence 34567766654
No 151
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=21.27 E-value=1.1e+02 Score=19.65 Aligned_cols=17 Identities=24% Similarity=0.327 Sum_probs=14.6
Q ss_pred CCCCchHHHHHHcCChH
Q 044600 60 REGETLHTISEKCGDPY 76 (104)
Q Consensus 60 ~~GDTL~~IA~~~g~~~ 76 (104)
.++-|+.+||+++|++.
T Consensus 69 ~pd~tl~Ela~~l~Vs~ 85 (119)
T PF01710_consen 69 NPDATLRELAERLGVSP 85 (119)
T ss_pred CCCcCHHHHHHHcCCCH
Confidence 57779999999999865
No 152
>PRK13613 lipoprotein LpqB; Provisional
Probab=21.06 E-value=79 Score=26.40 Aligned_cols=17 Identities=24% Similarity=0.419 Sum_probs=11.1
Q ss_pred HHHHHHHHhhccCCCCC
Q 044600 22 MAIMLVLSCCESSDSGG 38 (104)
Q Consensus 22 ~~~~~~la~~~~~~~~~ 38 (104)
++++++++||++-+..+
T Consensus 18 ~~~~~llagCasiP~sg 34 (599)
T PRK13613 18 GCGVVLLAGCASVPTSG 34 (599)
T ss_pred HHHHHhhhhcccCCCCC
Confidence 44456789999765543
No 153
>PRK13617 psbV cytochrome c-550; Provisional
Probab=20.74 E-value=1.8e+02 Score=20.50 Aligned_cols=20 Identities=5% Similarity=0.067 Sum_probs=9.2
Q ss_pred hhHHHHHHHHHHHHHHHHHH
Q 044600 6 STTELAEKIAWHCALFMAIM 25 (104)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~ 25 (104)
|+..|-++..+.++++++++
T Consensus 3 s~m~MLkr~~~~~~~~l~~~ 22 (170)
T PRK13617 3 SLFSSLRRSLKRLLILLPVL 22 (170)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 44445555555444433333
No 154
>COG5633 Predicted periplasmic lipoprotein [General function prediction only]
Probab=20.69 E-value=53 Score=21.88 Aligned_cols=15 Identities=20% Similarity=-0.009 Sum_probs=9.8
Q ss_pred CcCCCCEEEeCCCCC
Q 044600 89 DVFPGLVIKITPFKN 103 (104)
Q Consensus 89 ~l~~Gq~L~ip~~~~ 103 (104)
.|+++..+.|+...|
T Consensus 96 ~l~~~e~vsi~~~~~ 110 (123)
T COG5633 96 TLPGHEAVSIYLSKN 110 (123)
T ss_pred EecCCceEEEEcccC
Confidence 466777777775443
No 155
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=20.64 E-value=1.5e+02 Score=22.30 Aligned_cols=17 Identities=29% Similarity=0.427 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHhhccC
Q 044600 18 CALFMAIMLVLSCCESS 34 (104)
Q Consensus 18 ~~~~~~~~~~la~~~~~ 34 (104)
+++.++++++++||+..
T Consensus 11 ~~~~~~~~~~l~gC~~~ 27 (298)
T PRK04405 11 AAASAGLALSLAGCSSN 27 (298)
T ss_pred HHHHHHHHHHHHhhcCC
Confidence 33344446678999654
No 156
>PF13984 MsyB: MsyB protein
Probab=20.44 E-value=30 Score=22.67 Aligned_cols=14 Identities=21% Similarity=0.631 Sum_probs=12.2
Q ss_pred ceEEECCCCchHHH
Q 044600 55 EIYVVREGETLHTI 68 (104)
Q Consensus 55 ~~y~V~~GDTL~~I 68 (104)
..|+.|-||++|.-
T Consensus 36 QKYvmqDGdimWqa 49 (122)
T PF13984_consen 36 QKYVMQDGDIMWQA 49 (122)
T ss_pred HHHhhhccchHHHH
Confidence 46999999999975
No 157
>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=20.38 E-value=1.3e+02 Score=19.12 Aligned_cols=18 Identities=17% Similarity=0.444 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 044600 10 LAEKIAWHCALFMAIMLV 27 (104)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~ 27 (104)
++.|+...+.++++++++
T Consensus 4 I~~KL~~~f~~~~~l~~~ 21 (181)
T PF12729_consen 4 IRTKLILGFGLIILLLLI 21 (181)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555544444443333
No 158
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=20.35 E-value=24 Score=19.24 Aligned_cols=12 Identities=25% Similarity=0.570 Sum_probs=9.4
Q ss_pred EECCCCchHHHH
Q 044600 58 VVREGETLHTIS 69 (104)
Q Consensus 58 ~V~~GDTL~~IA 69 (104)
.|++||.|..|-
T Consensus 23 ~VkkGd~L~~ld 34 (50)
T PF13533_consen 23 QVKKGDVLLVLD 34 (50)
T ss_pred EEcCCCEEEEEC
Confidence 578999887764
No 159
>PRK10893 lipopolysaccharide exporter periplasmic protein; Provisional
Probab=20.25 E-value=88 Score=22.10 Aligned_cols=19 Identities=32% Similarity=0.415 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 044600 12 EKIAWHCALFMAIMLVLSC 30 (104)
Q Consensus 12 ~~~~~~~~~~~~~~~~la~ 30 (104)
+..||+.+++.++++++.+
T Consensus 3 ~~~~~~~~il~~~~l~l~~ 21 (192)
T PRK10893 3 KTRRWVIILLALIALVLIG 21 (192)
T ss_pred hhHHHHHHHHHHHHHHHHH
Confidence 3457755554444444444
No 160
>TIGR03659 IsdE heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron.
Probab=20.15 E-value=1.2e+02 Score=22.19 Aligned_cols=19 Identities=32% Similarity=0.419 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHhhccCC
Q 044600 17 HCALFMAIMLVLSCCESSD 35 (104)
Q Consensus 17 ~~~~~~~~~~~la~~~~~~ 35 (104)
++++++++++++++|+...
T Consensus 5 ~~~~~~~~~~~~~~~~~~~ 23 (289)
T TIGR03659 5 SLILLALLSLGLTGCSSSK 23 (289)
T ss_pred HHHHHHHHHHHHHhccccc
Confidence 4556667777889998764
No 161
>PRK05713 hypothetical protein; Provisional
Probab=20.09 E-value=1e+02 Score=22.92 Aligned_cols=23 Identities=17% Similarity=0.244 Sum_probs=19.4
Q ss_pred CceEEECCCCchHHHHHHcCChH
Q 044600 54 DEIYVVREGETLHTISEKCGDPY 76 (104)
Q Consensus 54 ~~~y~V~~GDTL~~IA~~~g~~~ 76 (104)
..++.+.+|+||.+.+.+.|+.+
T Consensus 8 ~~~~~~~~g~tlL~a~~~~gi~~ 30 (312)
T PRK05713 8 ERRWSVPAGSNLLDALNAAGVAV 30 (312)
T ss_pred CeEEEECCCCcHHHHHHHcCCCC
Confidence 34789999999999999998743
No 162
>PF05984 Cytomega_UL20A: Cytomegalovirus UL20A protein; InterPro: IPR009245 This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein [].
Probab=20.00 E-value=1e+02 Score=19.35 Aligned_cols=9 Identities=11% Similarity=0.268 Sum_probs=3.6
Q ss_pred HHHHHHHhh
Q 044600 23 AIMLVLSCC 31 (104)
Q Consensus 23 ~~~~~la~~ 31 (104)
.++..|++.
T Consensus 14 tLtVALAAP 22 (100)
T PF05984_consen 14 TLTVALAAP 22 (100)
T ss_pred HHHHHhhcc
Confidence 333344443
Done!