Query 034685
Match_columns 87
No_of_seqs 53 out of 55
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 05:25:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034685.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034685hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3130 Uncharacterized conser 99.7 3.9E-17 8.4E-22 135.2 5.9 61 24-85 3-63 (514)
2 cd00584 Prefoldin_alpha Prefol 98.9 6.6E-09 1.4E-13 70.2 6.3 65 20-85 2-67 (129)
3 PF02996 Prefoldin: Prefoldin 98.8 2.2E-09 4.7E-14 70.9 1.4 54 30-84 2-56 (120)
4 TIGR00293 prefoldin, archaeal 98.4 8.6E-07 1.9E-11 59.7 6.4 65 20-85 2-66 (126)
5 cd00890 Prefoldin Prefoldin is 98.4 1.3E-06 2.7E-11 57.9 6.4 65 20-84 2-66 (129)
6 PRK14011 prefoldin subunit alp 98.1 1.6E-05 3.5E-10 57.1 6.5 57 26-85 12-68 (144)
7 PRK01203 prefoldin subunit alp 98.0 2.5E-05 5.4E-10 55.9 6.6 65 20-85 3-67 (130)
8 PRK03947 prefoldin subunit alp 97.9 5.6E-05 1.2E-09 51.9 6.6 64 20-84 9-73 (140)
9 COG1730 GIM5 Predicted prefold 97.3 0.0011 2.4E-08 48.0 6.5 68 17-85 6-74 (145)
10 KOG3048 Molecular chaperone Pr 93.7 0.55 1.2E-05 35.0 7.7 80 1-85 1-81 (153)
11 PF01920 Prefoldin_2: Prefoldi 90.0 2.2 4.7E-05 27.1 6.4 51 23-76 4-54 (106)
12 PF14131 DUF4298: Domain of un 89.3 2.6 5.7E-05 27.8 6.6 50 20-69 3-66 (90)
13 PF09278 MerR-DNA-bind: MerR, 85.8 5.3 0.00012 23.5 6.4 44 17-60 15-65 (65)
14 PF13234 rRNA_proc-arch: rRNA- 82.6 0.69 1.5E-05 34.7 1.3 72 15-86 6-81 (268)
15 PF04340 DUF484: Protein of un 82.5 5.7 0.00012 29.2 6.0 39 23-61 46-84 (225)
16 PF13758 Prefoldin_3: Prefoldi 76.0 2.8 6E-05 29.1 2.5 33 38-70 2-36 (99)
17 TIGR02338 gimC_beta prefoldin, 75.8 15 0.00032 24.5 6.0 53 20-75 6-58 (110)
18 PRK10963 hypothetical protein; 75.3 12 0.00026 27.9 5.9 42 23-64 43-84 (223)
19 PF08654 DASH_Dad2: DASH compl 74.1 8.4 0.00018 26.4 4.5 37 29-65 2-38 (103)
20 PF07352 Phage_Mu_Gam: Bacteri 73.8 6.3 0.00014 27.6 3.9 54 20-78 28-81 (149)
21 PRK13922 rod shape-determining 71.8 17 0.00037 27.3 6.1 41 19-59 71-111 (276)
22 TIGR02894 DNA_bind_RsfA transc 71.5 20 0.00043 26.9 6.2 32 29-60 116-151 (161)
23 PF08781 DP: Transcription fac 70.3 26 0.00057 25.5 6.6 44 20-63 4-47 (142)
24 PF09457 RBD-FIP: FIP domain ; 68.7 24 0.00051 21.4 5.2 43 18-62 1-43 (48)
25 COG3879 Uncharacterized protei 67.8 20 0.00043 28.4 5.9 40 22-61 55-102 (247)
26 PLN03085 nucleobase:cation sym 67.6 18 0.00039 28.4 5.5 34 39-75 173-206 (221)
27 PF05531 NPV_P10: Nucleopolyhe 66.8 17 0.00038 24.0 4.6 40 22-61 9-48 (75)
28 PF11544 Spc42p: Spindle pole 66.2 24 0.00051 23.6 5.2 39 26-64 7-45 (76)
29 PRK13436 F0F1 ATP synthase sub 64.9 14 0.0003 26.5 4.2 39 24-62 6-44 (179)
30 PF11083 Streptin-Immun: Lanti 64.7 20 0.00044 25.0 4.8 36 27-65 55-90 (99)
31 cd00632 Prefoldin_beta Prefold 64.6 37 0.00081 22.2 6.2 51 22-75 4-54 (105)
32 PRK14154 heat shock protein Gr 64.5 33 0.00072 26.3 6.4 50 2-59 42-91 (208)
33 PF06810 Phage_GP20: Phage min 63.5 24 0.00051 25.4 5.2 43 21-63 24-66 (155)
34 COG4026 Uncharacterized protei 63.4 28 0.00061 28.2 6.0 39 27-65 142-180 (290)
35 PF05852 DUF848: Gammaherpesvi 62.9 22 0.00048 26.1 5.0 48 21-68 58-109 (146)
36 KOG2751 Beclin-like protein [S 62.8 6.2 0.00013 33.7 2.4 38 42-79 300-340 (447)
37 cd08318 Death_NMPP84 Death dom 62.4 8.3 0.00018 24.9 2.5 39 12-52 27-65 (86)
38 PRK03578 hscB co-chaperone Hsc 60.6 31 0.00067 25.2 5.4 43 18-60 115-157 (176)
39 PF07743 HSCB_C: HSCB C-termin 60.6 37 0.0008 20.9 5.7 41 19-60 26-66 (78)
40 PRK13441 F0F1 ATP synthase sub 60.2 16 0.00035 25.9 3.8 42 24-65 5-46 (180)
41 PF09036 Bcr-Abl_Oligo: Bcr-Ab 59.5 44 0.00096 22.6 5.6 37 8-51 17-53 (79)
42 COG1792 MreC Cell shape-determ 58.8 36 0.00078 26.6 5.8 43 21-64 70-112 (284)
43 PF06696 Strep_SA_rep: Strepto 58.5 28 0.00061 18.8 4.2 24 28-51 2-25 (25)
44 TIGR01437 selA_rel uncharacter 58.1 22 0.00048 27.6 4.5 25 6-30 13-37 (363)
45 PF14576 SEO_N: Sieve element 58.1 28 0.00062 27.9 5.2 33 23-59 251-283 (286)
46 PRK06310 DNA polymerase III su 58.0 17 0.00037 27.4 3.8 44 32-77 156-199 (250)
47 PF02465 FliD_N: Flagellar hoo 57.0 49 0.0011 21.1 5.7 34 27-60 22-55 (99)
48 PRK13923 putative spore coat p 56.1 73 0.0016 23.9 6.8 48 12-59 98-150 (170)
49 cd00632 Prefoldin_beta Prefold 55.7 48 0.0011 21.7 5.3 43 12-54 51-93 (105)
50 PF01920 Prefoldin_2: Prefoldi 55.5 41 0.00089 21.1 4.8 41 12-52 50-90 (106)
51 PF05591 DUF770: Protein of un 54.9 48 0.001 24.2 5.6 44 16-60 98-141 (157)
52 PF07395 Mig-14: Mig-14; Inte 54.8 9.7 0.00021 30.3 2.1 63 7-87 126-188 (264)
53 PF10234 Cluap1: Clusterin-ass 54.5 52 0.0011 26.1 6.1 15 46-60 223-237 (267)
54 COG5509 Uncharacterized small 54.4 32 0.0007 22.5 4.1 19 27-45 28-46 (65)
55 PRK13429 F0F1 ATP synthase sub 54.1 26 0.00056 24.7 4.0 39 24-62 5-43 (181)
56 PF05615 THOC7: Tho complex su 53.9 68 0.0015 21.8 6.3 34 28-61 92-128 (139)
57 PF09403 FadA: Adhesion protei 53.6 77 0.0017 22.5 6.3 37 20-56 89-125 (126)
58 PF02465 FliD_N: Flagellar hoo 53.2 58 0.0012 20.8 5.9 42 24-65 12-53 (99)
59 PF04799 Fzo_mitofusin: fzo-li 53.2 69 0.0015 24.1 6.3 36 28-63 117-152 (171)
60 PF13094 CENP-Q: CENP-Q, a CEN 53.2 75 0.0016 22.1 6.6 26 9-34 9-37 (160)
61 cd07606 BAR_SFC_plant The Bin/ 52.7 55 0.0012 24.6 5.7 55 20-75 8-62 (202)
62 TIGR03358 VI_chp_5 type VI sec 52.5 40 0.00086 25.0 4.9 43 17-60 100-142 (159)
63 PRK10328 DNA binding protein, 52.3 84 0.0018 22.4 6.5 39 17-55 21-59 (134)
64 PF11351 DUF3154: Protein of u 52.1 17 0.00036 25.2 2.7 52 10-61 3-55 (123)
65 COG3516 Predicted component of 52.1 30 0.00065 26.2 4.2 43 17-60 105-147 (169)
66 cd08784 Death_DRs Death Domain 51.7 20 0.00042 22.8 2.8 43 17-59 23-65 (79)
67 PF07798 DUF1640: Protein of u 50.8 49 0.0011 23.7 5.1 54 16-69 43-101 (177)
68 PF12795 MscS_porin: Mechanose 50.1 39 0.00085 25.1 4.6 43 26-68 80-122 (240)
69 PF06013 WXG100: Proteins of 1 50.1 49 0.0011 19.1 5.3 49 17-65 4-75 (86)
70 PF06151 Trehalose_recp: Treha 50.1 10 0.00022 31.1 1.6 35 40-75 256-290 (414)
71 PRK10947 global DNA-binding tr 50.0 93 0.002 22.2 6.5 35 16-50 20-54 (135)
72 PF01346 FKBP_N: Domain amino 49.7 27 0.00058 23.0 3.3 52 16-68 64-124 (124)
73 PF14932 HAUS-augmin3: HAUS au 49.7 29 0.00063 26.4 3.9 38 30-67 67-104 (256)
74 PRK05689 fliJ flagellar biosyn 49.4 67 0.0014 21.8 5.3 31 23-53 22-52 (147)
75 PHA03161 hypothetical protein; 49.3 48 0.001 24.6 4.9 49 20-68 57-109 (150)
76 PF00512 HisKA: His Kinase A ( 49.2 26 0.00056 20.1 2.9 24 30-53 39-62 (68)
77 TIGR02338 gimC_beta prefoldin, 48.9 74 0.0016 21.1 5.4 40 12-51 55-94 (110)
78 TIGR00219 mreC rod shape-deter 48.8 55 0.0012 25.4 5.4 33 27-59 76-109 (283)
79 PF10241 KxDL: Uncharacterized 48.7 74 0.0016 20.7 5.6 31 34-64 50-80 (88)
80 PHA03395 p10 fibrous body prot 48.7 47 0.001 22.7 4.4 43 22-64 9-51 (87)
81 cd01670 Death Death Domain: a 48.3 27 0.00058 20.9 2.9 42 17-58 22-66 (79)
82 cd04769 HTH_MerR2 Helix-Turn-H 48.2 79 0.0017 20.9 6.1 28 29-56 84-111 (116)
83 PRK09343 prefoldin subunit bet 48.2 68 0.0015 22.0 5.3 38 12-49 59-96 (121)
84 PRK13729 conjugal transfer pil 47.9 61 0.0013 27.9 5.9 22 20-41 72-93 (475)
85 PF07097 DUF1359: Protein of u 47.8 52 0.0011 23.1 4.6 41 29-69 7-47 (102)
86 PF06295 DUF1043: Protein of u 47.6 67 0.0015 22.2 5.2 21 28-48 29-49 (128)
87 PF08700 Vps51: Vps51/Vps67; 47.4 65 0.0014 19.8 5.9 27 17-43 19-45 (87)
88 PF04799 Fzo_mitofusin: fzo-li 47.2 70 0.0015 24.1 5.5 44 21-64 117-160 (171)
89 PRK13431 F0F1 ATP synthase sub 47.2 52 0.0011 24.4 4.8 37 23-59 5-42 (180)
90 PF02970 TBCA: Tubulin binding 47.0 81 0.0018 20.7 5.7 42 22-63 9-60 (90)
91 cd04786 HTH_MerR-like_sg7 Heli 46.7 95 0.0021 21.4 6.0 30 28-57 82-111 (131)
92 PF07926 TPR_MLP1_2: TPR/MLP1/ 46.3 94 0.002 21.3 5.8 39 22-60 40-78 (132)
93 PF13281 DUF4071: Domain of un 46.3 38 0.00082 28.0 4.4 30 20-49 106-135 (374)
94 PF13600 DUF4140: N-terminal d 45.5 65 0.0014 20.7 4.6 37 21-57 67-103 (104)
95 PF15011 CK2S: Casein Kinase 2 45.4 42 0.00091 24.4 4.0 40 28-67 2-41 (168)
96 CHL00119 atpD ATP synthase CF1 45.2 44 0.00096 23.8 4.1 38 23-60 6-43 (184)
97 PRK05431 seryl-tRNA synthetase 45.0 83 0.0018 25.8 6.1 22 51-75 94-115 (425)
98 cd00890 Prefoldin Prefoldin is 44.8 85 0.0018 20.3 5.2 38 12-49 74-112 (129)
99 PRK13922 rod shape-determining 43.7 1.1E+02 0.0023 23.0 6.1 42 26-67 71-112 (276)
100 TIGR01145 ATP_synt_delta ATP s 42.9 29 0.00064 24.3 2.9 34 26-59 2-35 (172)
101 PF11221 Med21: Subunit 21 of 42.7 73 0.0016 22.3 4.8 23 23-45 114-136 (144)
102 PRK07502 cyclohexadienyl dehyd 42.4 64 0.0014 24.3 4.8 32 28-59 247-280 (307)
103 KOG1434 Meiotic recombination 42.2 35 0.00077 28.2 3.5 55 16-73 160-224 (335)
104 TIGR00414 serS seryl-tRNA synt 41.7 94 0.002 25.4 5.9 21 52-75 98-118 (418)
105 cd08306 Death_FADD Fas-associa 41.5 54 0.0012 21.1 3.8 47 12-60 22-69 (86)
106 cd01107 HTH_BmrR Helix-Turn-He 41.5 1E+02 0.0022 20.2 5.4 43 17-59 59-103 (108)
107 PF00261 Tropomyosin: Tropomyo 41.3 1.3E+02 0.0028 22.4 6.3 44 21-64 9-52 (237)
108 PRK14127 cell division protein 41.3 1.2E+02 0.0026 21.1 6.1 46 17-65 23-68 (109)
109 KOG4571 Activating transcripti 40.9 63 0.0014 26.4 4.8 42 25-66 238-280 (294)
110 cd07648 F-BAR_FCHO The F-BAR ( 40.7 1.4E+02 0.003 22.3 6.3 34 18-51 148-181 (261)
111 PF15458 NTR2: Nineteen comple 40.1 1.2E+02 0.0027 23.2 6.1 50 8-59 198-247 (254)
112 cd08315 Death_TRAILR_DR4_DR5 D 40.1 35 0.00076 22.6 2.8 44 17-60 31-74 (96)
113 PRK10884 SH3 domain-containing 40.0 1.2E+02 0.0027 22.8 6.0 18 46-63 137-154 (206)
114 PRK07720 fliJ flagellar biosyn 39.9 1.1E+02 0.0024 20.8 5.3 31 24-54 23-53 (146)
115 COG1077 MreB Actin-like ATPase 39.9 43 0.00093 27.8 3.7 29 52-81 266-298 (342)
116 TIGR00714 hscB Fe-S protein as 39.8 1.1E+02 0.0023 21.9 5.4 41 19-60 99-139 (157)
117 cd04790 HTH_Cfa-like_unk Helix 39.7 1.4E+02 0.0031 21.4 6.5 38 17-54 59-104 (172)
118 KOG2856 Adaptor protein PACSIN 39.4 83 0.0018 27.2 5.4 37 16-59 173-209 (472)
119 TIGR02051 MerR Hg(II)-responsi 39.0 1.2E+02 0.0026 20.4 5.7 44 17-60 57-105 (124)
120 PF09766 FimP: Fms-interacting 38.6 1.1E+02 0.0024 24.5 5.8 32 34-65 108-139 (355)
121 PRK01356 hscB co-chaperone Hsc 38.4 1.2E+02 0.0025 22.0 5.4 43 17-60 106-148 (166)
122 PF06698 DUF1192: Protein of u 38.3 1E+02 0.0022 19.4 5.6 28 15-42 19-46 (59)
123 PF12732 YtxH: YtxH-like prote 38.2 70 0.0015 19.7 3.8 34 14-47 16-49 (74)
124 PF09748 Med10: Transcription 38.1 41 0.00089 23.4 2.9 20 31-50 3-22 (128)
125 PRK10807 paraquat-inducible pr 37.8 1.3E+02 0.0027 25.8 6.3 29 36-64 502-530 (547)
126 PLN03094 Substrate binding sub 37.7 97 0.0021 25.6 5.4 46 20-66 323-368 (370)
127 PRK07417 arogenate dehydrogena 37.5 86 0.0019 23.4 4.8 32 28-59 236-269 (279)
128 TIGR03789 pdsO proteobacterial 37.3 1.1E+02 0.0024 23.6 5.5 51 29-80 89-148 (239)
129 PF07047 OPA3: Optic atrophy 3 37.0 1.4E+02 0.0031 20.7 5.8 37 21-57 95-131 (134)
130 PRK09514 zntR zinc-responsive 36.5 1.4E+02 0.0031 20.6 6.0 29 29-57 86-114 (140)
131 PRK09343 prefoldin subunit bet 36.4 1.4E+02 0.003 20.4 6.4 38 27-64 17-54 (121)
132 PF07544 Med9: RNA polymerase 36.3 1.2E+02 0.0026 19.5 6.1 27 16-42 20-46 (83)
133 PRK03918 chromosome segregatio 36.2 99 0.0021 26.5 5.4 46 13-58 151-196 (880)
134 PF13935 Ead_Ea22: Ead/Ea22-li 35.6 1.2E+02 0.0025 21.2 4.9 36 29-65 72-107 (139)
135 TIGR03495 phage_LysB phage lys 35.6 1.7E+02 0.0036 21.1 5.8 40 20-59 29-68 (135)
136 COG1729 Uncharacterized protei 34.8 1E+02 0.0022 24.5 4.9 38 6-45 40-77 (262)
137 cd04766 HTH_HspR Helix-Turn-He 34.7 1.2E+02 0.0026 19.1 4.6 12 16-27 38-49 (91)
138 cd07649 F-BAR_GAS7 The F-BAR ( 34.7 1.5E+02 0.0033 22.5 5.8 36 16-51 150-185 (233)
139 PF00531 Death: Death domain; 34.5 43 0.00094 19.9 2.3 39 17-55 24-62 (83)
140 PF09177 Syntaxin-6_N: Syntaxi 34.5 1.3E+02 0.0028 19.4 4.9 27 18-44 33-59 (97)
141 PF09969 DUF2203: Uncharacteri 34.4 1.6E+02 0.0034 20.4 5.5 20 16-35 2-21 (120)
142 PLN02678 seryl-tRNA synthetase 34.4 1.5E+02 0.0032 25.0 6.1 21 52-75 100-120 (448)
143 PRK08097 ligB NAD-dependent DN 34.1 95 0.0021 27.0 5.1 33 28-60 29-71 (562)
144 PF15079 DUF4546: Domain of un 33.9 1.5E+02 0.0032 23.1 5.6 39 21-59 48-90 (205)
145 PF08781 DP: Transcription fac 33.8 1.9E+02 0.0041 21.1 6.3 38 22-59 3-40 (142)
146 PRK08507 prephenate dehydrogen 33.5 1.1E+02 0.0024 22.6 4.8 33 27-59 233-267 (275)
147 cd07628 BAR_Atg24p The Bin/Amp 33.4 1.9E+02 0.004 21.0 5.9 41 19-61 125-165 (185)
148 PF02153 PDH: Prephenate dehyd 33.3 1.5E+02 0.0033 22.1 5.5 30 29-58 226-257 (258)
149 PF06584 DIRP: DIRP; InterPro 33.3 51 0.0011 22.9 2.8 40 27-66 55-95 (109)
150 TIGR02976 phageshock_pspB phag 33.2 73 0.0016 20.8 3.4 21 41-61 42-62 (75)
151 PF05565 Sipho_Gp157: Siphovir 33.2 1.8E+02 0.0039 20.7 6.1 37 22-58 45-81 (162)
152 KOG2829 E2F-like protein [Tran 33.2 1.7E+02 0.0036 24.4 6.1 54 19-73 134-190 (326)
153 PF10158 LOH1CR12: Tumour supp 33.1 1.8E+02 0.0039 20.6 5.6 27 33-59 89-115 (131)
154 PF14735 HAUS4: HAUS augmin-li 33.1 1E+02 0.0023 23.8 4.7 34 19-52 173-206 (238)
155 PF07443 HARP: HepA-related pr 33.1 13 0.00028 23.3 -0.2 24 39-62 26-49 (55)
156 cd01106 HTH_TipAL-Mta Helix-Tu 33.0 1.4E+02 0.003 19.2 5.6 41 17-57 58-99 (103)
157 PRK12765 flagellar capping pro 32.7 1.7E+02 0.0036 25.4 6.3 56 8-63 4-64 (595)
158 KOG1301 Vesicle trafficking pr 32.5 73 0.0016 28.5 4.2 41 24-64 316-369 (621)
159 PF08372 PRT_C: Plant phosphor 32.3 1E+02 0.0022 22.6 4.4 36 25-60 53-88 (156)
160 PF02050 FliJ: Flagellar FliJ 32.2 1.2E+02 0.0026 18.5 5.5 32 22-53 3-34 (123)
161 PF08285 DPM3: Dolichol-phosph 32.2 51 0.0011 22.1 2.6 26 17-42 61-86 (91)
162 KOG4098 Molecular chaperone Pr 32.1 2.1E+02 0.0046 21.2 6.5 43 21-63 19-61 (140)
163 cd04776 HTH_GnyR Helix-Turn-He 31.9 1.6E+02 0.0035 19.8 6.3 20 37-56 86-105 (118)
164 PRK03598 putative efflux pump 31.6 2.3E+02 0.005 21.5 7.2 38 47-84 184-225 (331)
165 cd04775 HTH_Cfa-like Helix-Tur 31.4 1.4E+02 0.0031 19.3 4.6 9 17-25 58-66 (102)
166 PRK09737 EcoKI restriction-mod 31.2 2.3E+02 0.0051 21.8 6.4 20 18-37 160-179 (461)
167 PF00213 OSCP: ATP synthase de 31.2 18 0.0004 25.0 0.3 37 25-61 1-37 (172)
168 PRK05758 F0F1 ATP synthase sub 31.1 89 0.0019 21.8 3.8 38 24-62 6-43 (177)
169 cd04787 HTH_HMRTR_unk Helix-Tu 31.1 1.7E+02 0.0037 19.8 5.9 34 30-63 85-118 (133)
170 TIGR02043 ZntR Zn(II)-responsi 31.1 1.7E+02 0.0037 19.8 6.2 31 28-58 85-115 (131)
171 PF06667 PspB: Phage shock pro 31.0 83 0.0018 20.6 3.4 21 40-60 41-61 (75)
172 PRK14161 heat shock protein Gr 30.9 2E+02 0.0044 21.3 5.8 18 41-58 40-57 (178)
173 cd04770 HTH_HMRTR Helix-Turn-H 30.8 1.6E+02 0.0035 19.4 6.3 10 17-26 58-67 (123)
174 cd07624 BAR_SNX7_30 The Bin/Am 30.8 1.3E+02 0.0028 21.9 4.7 29 20-48 141-169 (200)
175 PF08946 Osmo_CC: Osmosensory 30.8 70 0.0015 19.7 2.8 24 23-46 11-34 (46)
176 cd07674 F-BAR_FCHO1 The F-BAR 30.5 2.4E+02 0.0052 21.3 6.3 35 17-51 147-181 (261)
177 PF04423 Rad50_zn_hook: Rad50 30.5 87 0.0019 18.3 3.1 25 16-40 29-53 (54)
178 COG3259 FrhA Coenzyme F420-red 30.4 2.5E+02 0.0054 24.2 6.9 64 13-86 167-231 (441)
179 PHA02148 hypothetical protein 30.4 2E+02 0.0043 20.4 5.4 43 3-45 16-58 (110)
180 PF03732 Retrotrans_gag: Retro 30.2 26 0.00056 20.8 0.8 36 28-63 48-84 (96)
181 cd07623 BAR_SNX1_2 The Bin/Amp 30.2 2.3E+02 0.005 21.0 6.1 41 20-60 102-142 (224)
182 PRK01773 hscB co-chaperone Hsc 29.9 1.9E+02 0.004 21.2 5.4 39 21-60 115-153 (173)
183 cd07658 F-BAR_NOSTRIN The F-BA 29.8 1.5E+02 0.0032 22.3 5.0 31 26-59 173-203 (239)
184 TIGR03042 PS_II_psbQ_bact phot 29.8 66 0.0014 23.4 3.0 33 16-49 29-61 (142)
185 PRK10337 sensor protein QseC; 29.7 1.5E+02 0.0032 22.6 5.0 38 8-45 202-239 (449)
186 KOG4603 TBP-1 interacting prot 29.6 97 0.0021 24.1 4.0 31 12-42 111-141 (201)
187 PF10400 Vir_act_alpha_C: Viru 29.2 1.4E+02 0.003 18.2 4.6 23 24-46 21-43 (90)
188 PF07889 DUF1664: Protein of u 29.1 2.1E+02 0.0046 20.3 6.0 16 48-63 103-118 (126)
189 cd07666 BAR_SNX7 The Bin/Amphi 29.1 1.4E+02 0.003 23.2 4.8 28 20-47 184-211 (243)
190 TIGR02047 CadR-PbrR Cd(II)/Pb( 28.8 1.9E+02 0.0041 19.6 6.4 27 29-55 84-110 (127)
191 PF08336 P4Ha_N: Prolyl 4-Hydr 28.7 1.9E+02 0.0041 19.6 5.6 36 24-59 15-50 (134)
192 PRK04778 septation ring format 28.7 1.2E+02 0.0027 25.5 4.8 36 30-65 197-233 (569)
193 PHA03386 P10 fibrous body prot 28.7 1.6E+02 0.0034 20.5 4.5 39 23-61 11-49 (94)
194 KOG3192 Mitochondrial J-type c 28.6 1.9E+02 0.0041 22.0 5.3 44 13-57 108-151 (168)
195 PRK08032 fliD flagellar cappin 28.6 2.6E+02 0.0056 23.1 6.5 51 13-63 9-60 (462)
196 PRK13752 putative transcriptio 28.6 2.1E+02 0.0046 20.1 5.7 9 17-25 65-73 (144)
197 PF13874 Nup54: Nucleoporin co 28.6 1.6E+02 0.0034 20.5 4.6 48 21-68 41-88 (141)
198 PLN02320 seryl-tRNA synthetase 28.6 1.9E+02 0.0042 24.9 5.9 21 52-75 159-179 (502)
199 PRK13879 conjugal transfer pro 28.4 2.3E+02 0.005 22.2 6.0 31 32-62 46-76 (253)
200 PF06305 DUF1049: Protein of u 28.4 60 0.0013 19.2 2.2 22 22-43 46-67 (68)
201 PRK15312 antimicrobial resista 28.3 49 0.0011 27.0 2.3 63 7-87 154-218 (298)
202 cd06534 ALDH-SF NAD(P)+-depend 28.2 2.7E+02 0.0059 21.2 6.5 27 17-43 13-39 (367)
203 PF05659 RPW8: Arabidopsis bro 28.1 1.3E+02 0.0028 21.4 4.2 46 21-66 17-62 (147)
204 PF06248 Zw10: Centromere/kine 28.0 2.3E+02 0.005 23.8 6.2 35 17-51 7-42 (593)
205 cd01134 V_A-ATPase_A V/A-type 28.0 23 0.0005 29.4 0.4 18 57-75 67-86 (369)
206 PRK14141 heat shock protein Gr 27.8 2E+02 0.0043 22.0 5.4 29 27-58 41-69 (209)
207 PF11460 DUF3007: Protein of u 27.8 78 0.0017 22.2 2.9 13 51-63 81-93 (104)
208 PF05531 NPV_P10: Nucleopolyhe 27.8 1.2E+02 0.0027 20.0 3.8 14 55-68 56-69 (75)
209 PRK00182 tatB sec-independent 27.7 2.5E+02 0.0055 20.9 5.8 37 22-60 33-69 (160)
210 PRK08474 F0F1 ATP synthase sub 27.5 1.2E+02 0.0025 21.6 3.9 34 24-58 4-37 (176)
211 PF09006 Surfac_D-trimer: Lung 27.3 1.5E+02 0.0033 18.1 4.7 36 27-66 2-37 (46)
212 smart00005 DEATH DEATH domain, 27.2 1.4E+02 0.0031 18.0 3.8 45 17-61 29-74 (88)
213 cd07627 BAR_Vps5p The Bin/Amph 27.2 2.5E+02 0.0055 20.5 6.2 43 18-60 92-134 (216)
214 PF14775 NYD-SP28_assoc: Sperm 27.2 1.6E+02 0.0035 18.2 6.2 47 13-59 6-58 (60)
215 PF07011 DUF1313: Protein of u 27.2 1.4E+02 0.003 20.5 4.0 38 32-69 7-49 (87)
216 KOG3501 Molecular chaperone Pr 26.9 71 0.0015 22.9 2.6 39 10-48 53-91 (114)
217 PRK04192 V-type ATP synthase s 26.5 26 0.00055 30.7 0.4 12 64-76 145-156 (586)
218 PRK14350 ligA NAD-dependent DN 26.5 1.1E+02 0.0025 26.9 4.3 37 27-63 3-49 (669)
219 PRK09458 pspB phage shock prot 26.5 1.1E+02 0.0024 20.3 3.4 19 42-60 43-61 (75)
220 TIGR00153 conserved hypothetic 26.4 1.4E+02 0.0031 21.6 4.3 30 50-80 48-77 (216)
221 PF05227 CHASE3: CHASE3 domain 26.3 1.8E+02 0.0038 18.5 4.3 17 41-57 73-89 (138)
222 KOG2264 Exostosin EXT1L [Signa 26.3 2.1E+02 0.0045 26.5 5.9 28 46-74 133-160 (907)
223 PF08295 Sin3_corepress: Sin3 26.2 1.6E+02 0.0035 20.0 4.3 39 27-65 54-92 (101)
224 COG3159 Uncharacterized protei 26.1 2.4E+02 0.0052 22.2 5.7 38 24-61 45-82 (218)
225 PF08887 GAD-like: GAD-like do 26.1 53 0.0012 22.5 1.9 30 48-77 59-92 (109)
226 PF14257 DUF4349: Domain of un 25.9 1.5E+02 0.0033 22.0 4.4 26 17-42 125-150 (262)
227 PF08824 Serine_rich: Serine r 25.8 2.8E+02 0.006 20.5 6.1 41 20-60 43-103 (159)
228 KOG2070 Guanine nucleotide exc 25.8 2E+02 0.0044 25.9 5.7 49 17-65 609-657 (661)
229 PF08988 DUF1895: Protein of u 25.8 1.9E+02 0.0041 18.5 6.5 46 17-62 11-65 (68)
230 PF11945 WASH_WAHD: WAHD domai 25.7 2.7E+02 0.0058 22.3 6.0 37 24-60 36-72 (297)
231 smart00761 HDAC_interact Histo 25.7 1.6E+02 0.0035 20.4 4.2 41 26-66 54-94 (102)
232 PF14235 DUF4337: Domain of un 25.6 2.2E+02 0.0049 20.5 5.1 33 26-58 68-100 (157)
233 PRK07956 ligA NAD-dependent DN 25.6 1.5E+02 0.0033 26.0 5.0 32 29-60 5-46 (665)
234 cd08319 Death_RAIDD Death doma 25.5 63 0.0014 21.1 2.1 44 17-60 25-69 (83)
235 cd07681 F-BAR_PACSIN3 The F-BA 25.5 2.3E+02 0.0051 22.2 5.5 18 16-33 164-181 (258)
236 PRK14143 heat shock protein Gr 25.4 3.3E+02 0.007 21.2 6.3 32 28-59 71-106 (238)
237 KOG0837 Transcriptional activa 25.4 1.4E+02 0.003 24.4 4.3 43 27-69 223-265 (279)
238 PF10481 CENP-F_N: Cenp-F N-te 25.2 59 0.0013 26.7 2.2 57 23-83 45-104 (307)
239 PRK15325 type III secretion sy 25.1 1.1E+02 0.0024 20.6 3.1 27 37-63 43-69 (80)
240 PF09789 DUF2353: Uncharacteri 25.0 2.2E+02 0.0048 23.3 5.5 56 24-82 9-65 (319)
241 COG0712 AtpH F0F1-type ATP syn 24.9 1.9E+02 0.0042 21.0 4.7 39 23-61 5-43 (178)
242 PRK14736 atpC F0F1 ATP synthas 24.9 2.2E+02 0.0048 19.8 4.9 42 16-57 88-131 (133)
243 PRK14158 heat shock protein Gr 24.9 3.1E+02 0.0066 20.7 7.2 19 41-59 61-79 (194)
244 cd07664 BAR_SNX2 The Bin/Amphi 24.9 3.2E+02 0.0069 20.9 6.2 42 19-60 111-152 (234)
245 PF08895 DUF1840: Domain of un 24.8 1.2E+02 0.0025 20.9 3.4 23 14-36 34-56 (105)
246 KOG2065 Gamma-tubulin ring com 24.8 2.2E+02 0.0048 25.6 5.7 27 51-78 386-413 (679)
247 PRK10803 tol-pal system protei 24.7 3.2E+02 0.0069 20.9 6.1 22 28-49 58-79 (263)
248 PRK10803 tol-pal system protei 24.7 2.5E+02 0.0055 21.5 5.5 41 20-60 64-105 (263)
249 PF07106 TBPIP: Tat binding pr 24.6 1.8E+02 0.004 20.3 4.4 33 13-45 105-137 (169)
250 PRK10755 sensor protein BasS/P 24.5 2.4E+02 0.0052 20.8 5.2 42 17-73 111-152 (356)
251 COG4829 CatC1 Muconolactone de 24.4 49 0.0011 23.1 1.4 60 17-76 15-87 (98)
252 cd04789 HTH_Cfa Helix-Turn-Hel 24.4 2.1E+02 0.0045 18.6 4.6 23 37-59 77-99 (102)
253 cd08317 Death_ank Death domain 24.4 85 0.0019 19.8 2.5 36 17-52 27-63 (84)
254 PF05103 DivIVA: DivIVA protei 24.3 2.1E+02 0.0046 18.6 5.0 26 17-42 18-43 (131)
255 cd07655 F-BAR_PACSIN The F-BAR 24.3 2.7E+02 0.0058 21.1 5.5 17 17-33 165-181 (258)
256 TIGR02231 conserved hypothetic 24.2 1.9E+02 0.0041 23.8 5.0 46 18-63 65-110 (525)
257 PF05010 TACC: Transforming ac 24.2 1.7E+02 0.0037 22.3 4.5 44 10-55 85-128 (207)
258 COG4026 Uncharacterized protei 24.1 3.2E+02 0.007 22.2 6.2 20 45-64 174-193 (290)
259 PF00016 RuBisCO_large: Ribulo 24.1 1.9E+02 0.0042 23.2 4.9 45 21-65 259-303 (309)
260 PF14712 Snapin_Pallidin: Snap 24.0 1.9E+02 0.0042 18.1 4.6 31 20-50 24-54 (92)
261 PF05873 Mt_ATP-synt_D: ATP sy 24.0 1.5E+02 0.0033 21.4 4.0 28 24-51 96-123 (161)
262 PRK14162 heat shock protein Gr 23.9 3.2E+02 0.007 20.6 6.2 17 42-58 61-77 (194)
263 PF02609 Exonuc_VII_S: Exonucl 23.9 1.6E+02 0.0035 17.2 5.2 31 17-47 20-50 (53)
264 TIGR02044 CueR Cu(I)-responsiv 23.7 2.3E+02 0.0051 18.9 6.7 25 37-61 85-109 (127)
265 PF12017 Tnp_P_element: Transp 23.7 2.3E+02 0.0049 21.9 5.1 35 26-60 20-54 (236)
266 KOG4815 Muscular protein impli 23.7 1.5E+02 0.0032 25.5 4.3 40 24-70 327-366 (511)
267 KOG3647 Predicted coiled-coil 23.6 1.9E+02 0.0041 24.1 4.8 34 27-60 136-180 (338)
268 COG3543 Uncharacterized conser 23.4 75 0.0016 23.4 2.3 26 44-75 23-48 (135)
269 PF11559 ADIP: Afadin- and alp 23.4 2.5E+02 0.0055 19.2 5.4 18 42-59 109-126 (151)
270 PF04791 LMBR1: LMBR1-like mem 23.4 1.6E+02 0.0035 23.5 4.4 13 53-65 236-248 (471)
271 PF08549 SWI-SNF_Ssr4: Fungal 23.1 2E+02 0.0044 26.0 5.3 30 16-45 356-385 (669)
272 TIGR01950 SoxR redox-sensitive 23.0 2.7E+02 0.0059 19.4 6.4 10 17-26 58-67 (142)
273 PF11672 DUF3268: Protein of u 23.0 2.4E+02 0.0051 19.4 4.6 50 7-59 45-94 (102)
274 cd07091 ALDH_F1-2_Ald2-like AL 23.0 3.7E+02 0.0081 21.7 6.4 28 16-43 61-88 (476)
275 PHA00666 putative protease 22.9 3.2E+02 0.007 21.7 5.8 34 17-50 114-148 (233)
276 PLN02760 4-aminobutyrate:pyruv 22.9 1.5E+02 0.0032 24.8 4.2 29 17-45 473-501 (504)
277 PRK10807 paraquat-inducible pr 22.9 1.2E+02 0.0026 25.9 3.8 42 17-58 466-507 (547)
278 PRK11415 hypothetical protein; 22.8 1.7E+02 0.0037 18.6 3.6 33 28-60 4-36 (74)
279 PF02996 Prefoldin: Prefoldin 22.8 2.2E+02 0.0048 18.3 5.4 31 21-51 74-104 (120)
280 TIGR02473 flagell_FliJ flagell 22.8 2.3E+02 0.005 18.5 5.4 27 26-52 22-48 (141)
281 PF07195 FliD_C: Flagellar hoo 22.8 1.1E+02 0.0023 22.7 3.1 23 40-62 53-75 (239)
282 PF00170 bZIP_1: bZIP transcri 22.7 1.8E+02 0.0039 17.3 5.3 31 27-60 22-52 (64)
283 PF13805 Pil1: Eisosome compon 22.7 1.7E+02 0.0036 23.5 4.3 45 21-65 111-155 (271)
284 PF04062 P21-Arc: ARP2/3 compl 22.6 90 0.002 23.6 2.6 32 11-42 113-144 (175)
285 KOG0963 Transcription factor/C 22.5 1.9E+02 0.0041 26.0 4.9 18 42-60 339-356 (629)
286 PRK10005 dihydroxyacetone kina 22.5 1.4E+02 0.003 22.3 3.7 33 17-49 3-35 (210)
287 PF01627 Hpt: Hpt domain; Int 22.4 1.7E+02 0.0037 16.9 5.0 43 15-57 44-87 (90)
288 cd04783 HTH_MerR1 Helix-Turn-H 22.2 2.5E+02 0.0054 18.7 6.0 25 30-54 83-107 (126)
289 PF06441 EHN: Epoxide hydrolas 22.2 2.6E+02 0.0057 19.0 4.7 50 12-62 2-70 (112)
290 PF08785 Ku_PK_bind: Ku C term 22.1 43 0.00092 22.7 0.8 27 8-34 1-32 (120)
291 PF12252 SidE: Dot/Icm substra 22.1 1.7E+02 0.0037 28.5 4.8 36 9-44 1048-1083(1439)
292 PF06723 MreB_Mbl: MreB/Mbl pr 22.1 1.2E+02 0.0026 24.2 3.4 30 52-81 256-288 (326)
293 cd07146 ALDH_PhpJ Streptomyces 22.1 4E+02 0.0087 21.5 6.4 29 16-44 36-64 (451)
294 PHA03161 hypothetical protein; 22.1 2.8E+02 0.006 20.6 5.1 27 20-46 89-115 (150)
295 PF13602 ADH_zinc_N_2: Zinc-bi 22.1 62 0.0013 20.4 1.5 24 7-30 93-117 (127)
296 PF03480 SBP_bac_7: Bacterial 22.1 2.7E+02 0.0058 20.6 5.1 48 12-59 206-255 (286)
297 PRK14145 heat shock protein Gr 22.1 3.6E+02 0.0077 20.4 6.4 19 41-59 66-84 (196)
298 COG0339 Dcp Zn-dependent oligo 22.1 1.5E+02 0.0033 26.8 4.3 53 12-67 19-73 (683)
299 cd09237 V_ScBro1_like Protein- 22.0 1.5E+02 0.0032 23.4 3.9 28 30-57 301-328 (356)
300 KOG1962 B-cell receptor-associ 22.0 2.7E+02 0.0059 21.6 5.2 11 45-55 176-186 (216)
301 cd07602 BAR_RhoGAP_OPHN1-like 21.9 3.7E+02 0.0079 20.5 6.1 42 20-61 9-50 (207)
302 TIGR02290 M3_fam_3 oligoendope 21.8 2.9E+02 0.0064 23.1 5.7 48 13-60 4-66 (587)
303 PF08202 MIS13: Mis12-Mtw1 pro 21.8 1.6E+02 0.0035 23.0 4.0 31 22-52 162-192 (301)
304 PHA03386 P10 fibrous body prot 21.8 1.5E+02 0.0033 20.5 3.5 41 27-67 22-62 (94)
305 PF05524 PEP-utilisers_N: PEP- 21.8 2.1E+02 0.0047 18.7 4.1 27 20-46 31-57 (123)
306 PF03938 OmpH: Outer membrane 21.8 1.8E+02 0.0038 19.6 3.8 41 20-63 32-72 (158)
307 PF14227 UBN2_2: gag-polypepti 21.7 89 0.0019 20.1 2.2 32 32-63 47-78 (119)
308 PRK13443 atpC F0F1 ATP synthas 21.6 2.2E+02 0.0049 20.1 4.4 39 17-55 89-132 (136)
309 PRK10869 recombination and rep 21.6 2.2E+02 0.0049 24.1 5.1 14 20-33 320-333 (553)
310 PF14257 DUF4349: Domain of un 21.6 1.8E+02 0.0039 21.7 4.1 21 29-49 167-187 (262)
311 PF08665 PglZ: PglZ domain; I 21.6 21 0.00044 25.3 -0.9 15 71-85 44-58 (181)
312 cd04786 HTH_MerR-like_sg7 Heli 21.6 2.8E+02 0.0061 19.1 5.9 49 17-65 58-112 (131)
313 PF11833 DUF3353: Protein of u 21.5 1.4E+02 0.003 22.3 3.5 34 18-54 5-38 (194)
314 PRK10227 DNA-binding transcrip 21.5 2.9E+02 0.0062 19.1 6.4 20 30-49 85-104 (135)
315 PRK10780 periplasmic chaperone 21.4 2.5E+02 0.0054 19.7 4.6 37 7-43 26-62 (165)
316 KOG3850 Predicted membrane pro 21.4 4.3E+02 0.0094 22.9 6.7 82 5-86 62-168 (455)
317 PF02426 MIase: Muconolactone 21.3 55 0.0012 22.0 1.2 58 17-75 15-86 (91)
318 PRK13448 atpC F0F1 ATP synthas 21.3 2.9E+02 0.0064 19.2 5.5 41 17-57 88-129 (135)
319 PRK14155 heat shock protein Gr 21.3 2.8E+02 0.006 21.1 5.1 35 21-58 17-51 (208)
320 PRK15374 pathogenicity island 21.3 2.5E+02 0.0054 25.2 5.4 43 22-64 122-164 (593)
321 PF04977 DivIC: Septum formati 21.3 1.9E+02 0.0042 17.1 5.5 38 27-64 20-57 (80)
322 TIGR00293 prefoldin, archaeal 21.1 2.6E+02 0.0056 18.4 4.9 35 30-64 5-39 (126)
323 COG5185 HEC1 Protein involved 21.1 2.8E+02 0.006 24.8 5.6 46 23-68 392-437 (622)
324 PF04518 Effector_1: Effector 21.1 3.1E+02 0.0068 23.0 5.7 42 20-61 196-237 (379)
325 PF13747 DUF4164: Domain of un 21.0 2.6E+02 0.0056 18.4 5.5 13 22-34 13-25 (89)
326 KOG3387 60S ribosomal protein 21.0 2E+02 0.0043 21.1 4.1 47 1-58 1-47 (131)
327 PF12548 DUF3740: Sulfatase pr 20.9 2.7E+02 0.0059 20.1 4.8 30 18-47 100-129 (145)
328 PRK14148 heat shock protein Gr 20.9 3.8E+02 0.0081 20.2 6.2 32 28-59 44-79 (195)
329 PF07412 Geminin: Geminin; In 20.9 2.7E+02 0.0058 21.5 5.0 16 21-36 108-123 (200)
330 PRK11281 hypothetical protein; 20.8 2.1E+02 0.0045 27.0 5.1 38 27-64 124-161 (1113)
331 PF03114 BAR: BAR domain; Int 20.8 2.8E+02 0.006 18.7 6.1 30 34-63 131-160 (229)
332 cd07307 BAR The Bin/Amphiphysi 20.8 2.5E+02 0.0054 18.1 6.1 28 35-62 95-122 (194)
333 PRK14147 heat shock protein Gr 20.8 3.5E+02 0.0075 19.8 5.4 14 45-58 43-56 (172)
334 PF05016 Plasmid_stabil: Plasm 20.8 1.9E+02 0.0042 16.9 3.5 25 42-66 24-48 (90)
335 cd07601 BAR_APPL The Bin/Amphi 20.6 3.9E+02 0.0085 20.4 6.1 42 20-61 9-50 (215)
336 PRK14163 heat shock protein Gr 20.6 4E+02 0.0088 20.5 6.0 19 41-59 61-79 (214)
337 KOG0947 Cytoplasmic exosomal R 20.5 1.1E+02 0.0023 29.6 3.1 64 23-86 777-848 (1248)
338 PF12795 MscS_porin: Mechanose 20.4 3.2E+02 0.0069 20.2 5.2 38 21-62 15-52 (240)
339 cd01109 HTH_YyaN Helix-Turn-He 20.4 2.6E+02 0.0056 18.2 6.5 10 17-26 58-67 (113)
340 cd04785 HTH_CadR-PbrR-like Hel 20.4 2.8E+02 0.0061 18.6 5.7 19 30-48 85-103 (126)
341 cd07622 BAR_SNX4 The Bin/Amphi 20.3 2.6E+02 0.0057 20.7 4.7 29 20-48 140-168 (201)
342 PF14559 TPR_19: Tetratricopep 20.3 1.7E+02 0.0038 16.2 4.8 48 19-66 4-57 (68)
343 PF05983 Med7: MED7 protein; 20.3 3.2E+02 0.0069 19.7 5.0 29 26-54 133-161 (162)
344 PRK13702 replication protein; 20.3 2.2E+02 0.0048 19.4 3.9 45 5-63 18-62 (85)
345 PRK06309 DNA polymerase III su 20.2 1.8E+02 0.0039 21.4 3.8 7 71-77 186-192 (232)
346 PF08372 PRT_C: Plant phosphor 20.1 2.1E+02 0.0045 21.0 4.1 30 18-47 60-89 (156)
347 PF15243 ANAPC15: Anaphase-pro 20.1 1.5E+02 0.0032 20.2 3.1 9 70-79 52-60 (92)
348 PF05504 Spore_GerAC: Spore ge 20.1 2.4E+02 0.0051 19.1 4.1 42 16-57 89-132 (171)
No 1
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.68 E-value=3.9e-17 Score=135.24 Aligned_cols=61 Identities=18% Similarity=0.134 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT 85 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~ 85 (87)
+..++..+|+..|+.++++|+.|.+||+++++||.+||+|||++||| |||++|||||+||.
T Consensus 3 r~~~e~~~a~~~~~~ete~~~~v~~dye~~~erl~~~~kkLs~~Imv-pig~~a~mpG~lVh 63 (514)
T KOG3130|consen 3 RYVAECNAAKARLEVETECRKKVDNDYEALRERLSTLPKKLSYNIMV-PIGPFAFMPGKLVH 63 (514)
T ss_pred hHHHHHHHHHHHhHHHHHHHHHHhhhHHHHHHHHHHhhhhcccceee-ecccccccccceee
Confidence 45677889999999999999999999999999999999999999999 99999999999984
No 2
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=98.87 E-value=6.6e-09 Score=70.21 Aligned_cols=65 Identities=15% Similarity=0.200 Sum_probs=60.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh-hcccccccccccccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE-ELHHGIMASSFWKSSIFSWAFDT 85 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd-kLsh~IMV~PfGk~AfmPG~Lv~ 85 (87)
+++......+++-+...+++++.|+...+||+.+++.|+.|++ +-++++|| |+|..+|+||+++.
T Consensus 2 ~~l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lv-plg~~~~~~~~i~~ 67 (129)
T cd00584 2 EQLAAQLQVLQQEIEELQQELARLNEAIAEYEQAKETLETLKKADEGKETLV-PLGAGVFVKAKVKD 67 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEE-ECCCCeEEeEEeCC
Confidence 4667788899999999999999999999999999999999988 78999999 99999999998863
No 3
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=98.78 E-value=2.2e-09 Score=70.93 Aligned_cols=54 Identities=19% Similarity=0.268 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh-hccccccccccccccccccccc
Q 034685 30 QDALLEKQQELERVKEFISDNTNLINLVQKLPE-ELHHGIMASSFWKSSIFSWAFD 84 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd-kLsh~IMV~PfGk~AfmPG~Lv 84 (87)
++.+...+++++.|+...++|+.++++|..|++ +.++++|| |+|..+|+||++.
T Consensus 2 ~~~l~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lv-plg~~~~v~g~i~ 56 (120)
T PF02996_consen 2 QEELENLQQQIEQLEEQIEEYEEAKETLEELKKEKKEHEILV-PLGSGVFVPGKIP 56 (120)
T ss_dssp CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--TT-EEEE-EECTTEEEEEE-S
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCceeee-cCCCCeEEEEEeC
Confidence 345678899999999999999999999999999 99999999 9999999999984
No 4
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=98.43 E-value=8.6e-07 Score=59.67 Aligned_cols=65 Identities=9% Similarity=0.129 Sum_probs=59.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT 85 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~ 85 (87)
++.......+++-++..++.+.+++...++|+.+.+.|..|+++-++++|| |+|..+|+||++..
T Consensus 2 qql~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~~~~~~lv-~lg~~~~v~~~v~~ 66 (126)
T TIGR00293 2 QQLAAELQILQQQVESLQAQIAALRALIAELETAIETLEDLKGAEGKETLV-PVGAGSFVKAKVKD 66 (126)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCeEEE-EcCCCeEEEEEeCC
Confidence 345666788999999999999999999999999999999999888899999 99999999999863
No 5
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=98.39 E-value=1.3e-06 Score=57.87 Aligned_cols=65 Identities=9% Similarity=0.139 Sum_probs=59.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFD 84 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv 84 (87)
+++......+++.|...++++.+|+...++|+++++.|.+|++......|..|+|..+|+||++.
T Consensus 2 ~~l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~l~~~g~~~~~~~~i~ 66 (129)
T cd00890 2 QELAAQLQQLQQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAEEEKELLVPLGAGLFVKAEVK 66 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCeEEEecCCceEEEEEEC
Confidence 46777888999999999999999999999999999999999998888766559999999999985
No 6
>PRK14011 prefoldin subunit alpha; Provisional
Probab=98.05 E-value=1.6e-05 Score=57.11 Aligned_cols=57 Identities=11% Similarity=0.099 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT 85 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~ 85 (87)
-..+++-+...++.+..++...++|.+.++.|+.+.. +.+||| |+|...|.||+|+.
T Consensus 12 l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~~--~~eiLV-PLg~s~yV~g~i~d 68 (144)
T PRK14011 12 LEVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLKT--SEEILI-PLGPGAFLKAKIVD 68 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCC--CCeEEE-EcCCCcEEeEEecC
Confidence 3677888999999999999999999999999998874 799999 99999999999874
No 7
>PRK01203 prefoldin subunit alpha; Provisional
Probab=98.00 E-value=2.5e-05 Score=55.87 Aligned_cols=65 Identities=8% Similarity=0.136 Sum_probs=57.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDT 85 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~ 85 (87)
+|+..=..-+++-++..+++++.++...++|.+-++.|..+++.=..+|+| |+|..+|.||+|+.
T Consensus 3 ~~~~~~~~~~~~q~e~l~~ql~~L~~a~se~~~~ie~L~~~~~~~~~eiLV-PLg~slYV~gki~d 67 (130)
T PRK01203 3 RDVEAQLNYIESLISSVDSQIDSLNKTLSEVQQTISFLSDNELDNSKELLI-SIGSGIFADGNIKK 67 (130)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCCCCeEEE-EccCCceEeEEecC
Confidence 455555667888999999999999999999999999999998777799999 99999999999874
No 8
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=97.89 E-value=5.6e-05 Score=51.90 Aligned_cols=64 Identities=13% Similarity=0.157 Sum_probs=56.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh-ccccccccccccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE-LHHGIMASSFWKSSIFSWAFD 84 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk-Lsh~IMV~PfGk~AfmPG~Lv 84 (87)
.+.......+++-+...++++.+++....++..+++.|..|+++ -+++++| |+|...|.||++.
T Consensus 9 ~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~~~~~e~lv-plg~~~yv~~~v~ 73 (140)
T PRK03947 9 EELAAQLQALQAQIEALQQQLEELQASINELDTAKETLEELKSKGEGKETLV-PIGAGSFVKAKVK 73 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCeEEE-EcCCCcEEEEEec
Confidence 34555667788899999999999999999999999999999964 6899999 9999999999984
No 9
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=97.28 E-value=0.0011 Score=48.03 Aligned_cols=68 Identities=9% Similarity=0.106 Sum_probs=59.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc-ccccccccccccccccccccc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL-HHGIMASSFWKSSIFSWAFDT 85 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL-sh~IMV~PfGk~AfmPG~Lv~ 85 (87)
-+++++......++.-|+..++++..++..+++++..+++|..+-..= +-+++| |.|.-+|.+|+++-
T Consensus 6 ~~le~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~g~E~LV-pvGag~fv~~kv~~ 74 (145)
T COG1730 6 QELEELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLV-PVGAGLFVKAKVKD 74 (145)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEE-EcCCCceEEEEecc
Confidence 356677777888899999999999999999999999999999885433 569999 99999999999863
No 10
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=93.67 E-value=0.55 Score=34.96 Aligned_cols=80 Identities=15% Similarity=0.140 Sum_probs=66.8
Q ss_pred CCCCCCCcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc-hhhcccccccccccccccc
Q 034685 1 MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL-PEELHHGIMASSFWKSSIF 79 (87)
Q Consensus 1 ~~~~~~kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L-PdkLsh~IMV~PfGk~Afm 79 (87)
|.+.+.++-.|.| |++++-.+.+...+.|.-.++-+..|....--|+.-+..|+.+ +..=.|.+.| |+-..=+.
T Consensus 1 ma~~s~~idltkL----sleQL~~lk~q~dqEl~~lq~Sl~~L~~aq~k~~~~~~aln~~~~~~eGk~~LV-PLTsSlYV 75 (153)
T KOG3048|consen 1 MAEESKGIDLTKL----SLEQLGALKKQFDQELNFLQDSLNALKGAQTKYEESIAALNDVQAANEGKKLLV-PLTSSLYV 75 (153)
T ss_pred CCCcccCCChhhC----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCeEEE-ecccceec
Confidence 4555666665554 5889999999999999999999999999999999999999977 4556788999 99999999
Q ss_pred cccccc
Q 034685 80 SWAFDT 85 (87)
Q Consensus 80 PG~Lv~ 85 (87)
||+|+-
T Consensus 76 PGkl~d 81 (153)
T KOG3048|consen 76 PGKLSD 81 (153)
T ss_pred cceecc
Confidence 999863
No 11
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=90.01 E-value=2.2 Score=27.06 Aligned_cols=51 Identities=14% Similarity=0.244 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccc
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKS 76 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~ 76 (87)
..-..++.+.+..+..++.+++.-.++++...+.|..+|+. ..|+. .+|+.
T Consensus 4 ~~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~--~~~y~-~vG~~ 54 (106)
T PF01920_consen 4 QNKFQELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDD--RKVYK-SVGKM 54 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT---EEEE-EETTE
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc--chhHH-HHhHH
Confidence 34456777888899999999999999999999999999998 77777 77874
No 12
>PF14131 DUF4298: Domain of unknown function (DUF4298)
Probab=89.31 E-value=2.6 Score=27.77 Aligned_cols=50 Identities=22% Similarity=0.319 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH--------------hhchhhcccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLV--------------QKLPEELHHGIM 69 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L--------------~~LPdkLsh~IM 69 (87)
.+.++.-++..+.+.+..+-+++|++...+|..|.+== ..+|+.+.+.||
T Consensus 3 ~eme~~y~~~~~~l~~le~~l~~~~~~~~~~~~L~~YY~s~~w~~d~e~~e~g~~~~~~~~gVL 66 (90)
T PF14131_consen 3 QEMEKIYNEWCELLEELEEALEKWQEAQPDYRKLRDYYGSEEWMEDYEASEQGDLPTDGKCGVL 66 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCcHhHHHHHHHHhCCCCCCCcccCcc
Confidence 45667777777777888888888888887777776533 257888888887
No 13
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=85.76 E-value=5.3 Score=23.50 Aligned_cols=44 Identities=20% Similarity=0.336 Sum_probs=29.4
Q ss_pred CChhHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 17 FSVDDVQKAA-------KRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 17 ~~~~~~~~a~-------~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
||.+|.+... ....+...-.+.+++++.+-+++.+.+.+.|+.|
T Consensus 15 fsL~eI~~~l~l~~~~~~~~~~~~~~l~~~~~~i~~~i~~L~~~~~~L~~l 65 (65)
T PF09278_consen 15 FSLEEIRELLELYDQGDPPCADRRALLEEKLEEIEEQIAELQALRAQLEHL 65 (65)
T ss_dssp --HHHHHHHHHHCCSHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 7777777776 3344555566777777777888888888877754
No 14
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=82.60 E-value=0.69 Score=34.68 Aligned_cols=72 Identities=18% Similarity=0.184 Sum_probs=58.2
Q ss_pred ccCChhHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhHHHHHHHHhhchhhccccccccccccccccccccccc
Q 034685 15 SMFSVDDVQKAAKRVQDALLEKQQELERVKE----FISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTY 86 (87)
Q Consensus 15 ~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~----~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~~ 86 (87)
..|+.-+.++..-.+++.|.+.++++..+.. -..+|-.+.+.|..+=.++..-||=++.+...+-||+||-.
T Consensus 6 rSF~qfq~~~~lP~~~~~~~~~e~~~~~i~~~~~~~v~~y~~l~~~l~~~~~~~~~~i~~p~~~~~fL~~GRlV~v 81 (268)
T PF13234_consen 6 RSFSQFQNQRKLPELEKKLKELEEELDAIKIEDEEDVEEYYDLRQELEELRKELRKIITSPKYCLPFLQPGRLVVV 81 (268)
T ss_dssp CSHHHHHHHHHHHHHHHHHHHHHHHHHCS--TTCTCCHHHHHHHHHHHHHHHHHHHHHCTCCCHHHHS-TTEEEEE
T ss_pred HhHHHHcccccCHHHHHHHHHHHHHHHhcccccHhHHHHHHHHHHHHHHHHHHHHHHHhCcHHHHHhCCCCCEEEE
Confidence 4577778888889999999999998887764 45678999999999999988888876788888999999854
No 15
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=82.49 E-value=5.7 Score=29.16 Aligned_cols=39 Identities=15% Similarity=0.320 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
.+-..++++.+.+.+.+++++-....+|+++.+++..|-
T Consensus 46 erQ~~~LR~~~~~L~~~l~~Li~~Ar~Ne~~~~~~~~l~ 84 (225)
T PF04340_consen 46 ERQLERLRERNRQLEEQLEELIENARENEAIFQRLHRLV 84 (225)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566778889999999999999999999999999887654
No 16
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=76.03 E-value=2.8 Score=29.10 Aligned_cols=33 Identities=15% Similarity=0.248 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhHHHHHHHHhhchh--hccccccc
Q 034685 38 QELERVKEFISDNTNLINLVQKLPE--ELHHGIMA 70 (87)
Q Consensus 38 ~el~~~q~~~~Dy~~l~~~L~~LPd--kLsh~IMV 70 (87)
.-|.|||-...+|++|.+-+..||. .-+++=+.
T Consensus 2 ksL~hWq~w~aEYe~LKEEi~~l~~~~~~~~e~l~ 36 (99)
T PF13758_consen 2 KSLYHWQTWEAEYEGLKEEIEALPEDDDATREDLL 36 (99)
T ss_pred chHHHHHHHHHHHHHHHHHHHhccccCCCCHHHHH
Confidence 3478999999999999999999987 55555444
No 17
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=75.84 E-value=15 Score=24.49 Aligned_cols=53 Identities=11% Similarity=0.252 Sum_probs=41.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
.++..-...+++.+.....++..++.-.++++..++.|..||+.-. |-- +.|+
T Consensus 6 q~~~~~~q~~q~~~~~l~~q~~~le~~~~E~~~v~~eL~~l~~d~~--vyk-~VG~ 58 (110)
T TIGR02338 6 QNQLAQLQQLQQQLQAVATQKQQVEAQLKEAEKALEELERLPDDTP--VYK-SVGN 58 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcch--hHH-Hhch
Confidence 3444555677788999999999999999999999999999997543 333 4455
No 18
>PRK10963 hypothetical protein; Provisional
Probab=75.32 E-value=12 Score=27.91 Aligned_cols=42 Identities=17% Similarity=0.170 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
.+-..++++.+.+.+.++..+-....+|+++.+++..|--+|
T Consensus 43 ErQ~~~LR~r~~~Le~~l~~Li~~A~~Ne~l~~~~~~l~l~L 84 (223)
T PRK10963 43 EWQMARQRNHIHVLEEEMTLLMEQAIANEDLFYRLLPLQSRL 84 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566889999999999999999999999999988877664443
No 19
>PF08654 DASH_Dad2: DASH complex subunit Dad2; InterPro: IPR013963 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=74.14 E-value=8.4 Score=26.42 Aligned_cols=37 Identities=30% Similarity=0.448 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 29 VQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
+...|.+++.|++.++++.+==..|...|+.|-+++.
T Consensus 2 l~~ri~eKk~ELe~L~~l~~lS~~L~~qle~L~~kl~ 38 (103)
T PF08654_consen 2 LQARIAEKKAELEALKQLRDLSADLASQLEALSEKLE 38 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999999998888888888888887764
No 20
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=73.82 E-value=6.3 Score=27.57 Aligned_cols=54 Identities=9% Similarity=0.162 Sum_probs=27.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSI 78 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~Af 78 (87)
++..++...+++.+..++.+++.+++-...|-. .+...||++=|++ .|||..+|
T Consensus 28 ~~I~~i~~~~~~~~~~l~~~i~~l~~~l~~y~e--~~r~e~~k~Ks~~---l~~G~v~~ 81 (149)
T PF07352_consen 28 DEIARIKEWYEAEIAPLQNRIEYLEGLLQAYAE--ANRDELTKKKSLK---LPFGTVGF 81 (149)
T ss_dssp HHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH--CTHHHH-----EE----SS-EE--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HCHHhcccceEEE---cCCeeEEE
Confidence 345556666666666666667666666666643 2344555444444 48998887
No 21
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=71.82 E-value=17 Score=27.27 Aligned_cols=41 Identities=20% Similarity=0.399 Sum_probs=29.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
..++.+--+++++.+.+.+.++.+++...++|+.|.+.|..
T Consensus 71 ~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~ 111 (276)
T PRK13922 71 LFDLREENEELKKELLELESRLQELEQLEAENARLRELLNL 111 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34455555677777777777778888888888888887654
No 22
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=71.49 E-value=20 Score=26.86 Aligned_cols=32 Identities=25% Similarity=0.400 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHH----HHHHHhHHHHHHHHhhc
Q 034685 29 VQDALLEKQQELERV----KEFISDNTNLINLVQKL 60 (87)
Q Consensus 29 ~~~ai~~~~~el~~~----q~~~~Dy~~l~~~L~~L 60 (87)
+++.++..+.+++.+ +.+..||++|++-+++-
T Consensus 116 l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RA 151 (161)
T TIGR02894 116 LQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRA 151 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444 45889999998877653
No 23
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=70.33 E-value=26 Score=25.54 Aligned_cols=44 Identities=14% Similarity=0.284 Sum_probs=35.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
+++..-..+.++.|..++++|+.|......|.+|++|=..+-..
T Consensus 4 ~~Le~ek~~~~~rI~~K~~~LqEL~~Q~va~knLv~RN~~~~~~ 47 (142)
T PF08781_consen 4 EELEEEKQRRRERIKKKKEQLQELILQQVAFKNLVQRNRQLEQS 47 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 34555667788889999999999999999999999887766554
No 24
>PF09457 RBD-FIP: FIP domain ; InterPro: IPR019018 The Rab11 GTPase regulates recycling of internalized plasma membrane receptors and is essential for completion of cytokinesis. A family of Rab11 interacting proteins (FIPs) that conserve a C-terminal Rab-binding domain (RBD) selectively recognise the active form of Rab11. FIPs are diverse in sequence length and composition toward their N-termini, presumably a feature that underpins their specific roles in Rab11-mediated vesicle trafficking. They have been divided into three subfamilies (classe I, II, and III)on the basis of domain architecture. Class I FIPs comprises a subfamily of three proteins (Rip11/pp75/FIP5, Rab-coupling protein (RCP), and FIP2) that possess an N- terminal C2 domain, localize to recycling endosomes, and regulate plasma membrane recycling. The class II subfamily consists of two proteins (FIP3/eferin/arfophilin and FIP4) with tandem EF hands and a proline-rich region. Class II FIPs localize to recycling endosomes, the trans-Golgi network, and have been implicated in the regulation of membrane trafficking during cytokinesis. The class III subfamily consists of a single protein, FIP1, which does not contain obvious homology domains or motifs other than the FIP-RBD [, , , ]. The FIP-RBD domain is also found in Rab6-interacting protein Erc1/Elks. Erc1 is the regulatory subunit of the IKK complex and probably recruits IkappaBalpha/NFKBIA to the complex []. It may be involved in the organisation of the cytomatrix at the nerve terminals active zone (CAZ) which regulates neurotransmitter release. It may also be involved in vesicle trafficking at the CAZ, as well as in Rab-6 regulated endosomes to Golgi transport []. The FIB-RBD domain consists of an N-terminal long alpha-helix, followed by a 90 degrees bend at a conserved proline residue, a 3(10) helix and a C-terminal short beta-strand, adopting an "L" shape. The long alpha-helix forms a parallel coiled-coil homodimer that symmetrically interacts with two Rab11 molecules on both sides, forming a quaternary Rab11-(FIP)2-Rab11 complex. The Rab11-interacting region of FIP-RBD is confined to the C-terminal 24 amino acids, which cover the C-terminal half of the long alpha-helix and the short beta-strand [, , , ]. This entry represents the FIP-RBD domain.; PDB: 2HV8_E 2D7C_D 2K6S_B 2GZD_D 2GZH_B.
Probab=68.73 E-value=24 Score=21.44 Aligned_cols=43 Identities=14% Similarity=0.393 Sum_probs=28.1
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
|-+|+..+..+.+..+.+...++..|+.|++. =|.+-...=|+
T Consensus 1 s~eeL~~~l~~~e~~~~~k~~~v~eLe~YiD~--LL~rVmE~~P~ 43 (48)
T PF09457_consen 1 SREELISLLKKQEEENARKDSRVRELEDYIDN--LLVRVMEQTPS 43 (48)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHCC-GG
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhCcc
Confidence 34677777777888888878888888888764 23333444444
No 25
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=67.85 E-value=20 Score=28.39 Aligned_cols=40 Identities=18% Similarity=0.228 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHH--------HHHHHHhhch
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNT--------NLINLVQKLP 61 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~--------~l~~~L~~LP 61 (87)
+++.-...+++..+++.|++.++.+.++|. ++.++|++|-
T Consensus 55 L~~e~~s~Q~~~~~L~~ev~~~~~~~~s~~~~~~t~~~~ie~~l~~l~ 102 (247)
T COG3879 55 LVKELRSLQKKVNTLAAEVEDLENKLDSVRRSVLTDDAALEDRLEKLR 102 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHH
Confidence 344445566777777777777777776666 4555566654
No 26
>PLN03085 nucleobase:cation symporter-1; Provisional
Probab=67.56 E-value=18 Score=28.42 Aligned_cols=34 Identities=6% Similarity=-0.059 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhHHHHHHHHhhchhhcccccccccccc
Q 034685 39 ELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 39 el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
+-+.|+.+...++..+..|++.=+ .|+--| ||+.
T Consensus 173 ~~~~W~~~~~~~qe~Ir~LNkkId--kYNLIV-Pl~~ 206 (221)
T PLN03085 173 DDSQWIEDSRLLQEQLRQINNKVF--RYNLIV-PFGR 206 (221)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH--HhcccC-CCcc
Confidence 334577776666666666666555 478888 9864
No 27
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=66.76 E-value=17 Score=24.03 Aligned_cols=40 Identities=18% Similarity=0.258 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
.+...+.+-+++...+..+..++.-..|.++|-++|..++
T Consensus 9 Ir~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~ 48 (75)
T PF05531_consen 9 IRQDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQS 48 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHH
Confidence 4556677777777777777777777777444444444443
No 28
>PF11544 Spc42p: Spindle pole body component Spc42p; InterPro: IPR021611 Spc42p is a 42kDa component of the S.cerevisiae spindle body that localises to the electron dense central region of the SPB. Spc42p is a phosphoprotein which forms a polymeric layer at the periphery of the SPB central plaque. This functions during SPB duplication and also facilitates the attachment of the SPB to the nuclear membrane. ; PDB: 2Q6Q_B.
Probab=66.22 E-value=24 Score=23.59 Aligned_cols=39 Identities=21% Similarity=0.346 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
-+.+...+.+.++||++|.....+..+=--....|-++|
T Consensus 7 Nk~L~~kL~~K~eEI~rLn~lv~sLR~KLiKYt~LnkkL 45 (76)
T PF11544_consen 7 NKELKKKLNDKQEEIDRLNILVGSLRGKLIKYTELNKKL 45 (76)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466788899999999999988887655443334443333
No 29
>PRK13436 F0F1 ATP synthase subunit delta; Provisional
Probab=64.88 E-value=14 Score=26.53 Aligned_cols=39 Identities=18% Similarity=0.359 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
.++++|.+|+.+...+-..+..+.+|...+.+.+..-|+
T Consensus 6 ~va~~YA~AL~~~a~e~~~l~~v~~~l~~~~~~~~~~~~ 44 (179)
T PRK13436 6 KNIYNYAEALFDIANEENNVEKYINEVFKIIEILKNNKD 44 (179)
T ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHcChH
Confidence 688999999999999888888888998888888876554
No 30
>PF11083 Streptin-Immun: Lantibiotic streptin immunity protein; InterPro: IPR021112 Streptococcal species produce a lantibiotic, streptin, in a similar manner to the production of nisin and subtilin by other lactic acid bacteria, in order to compete against competing bacteria within the environment []. The immunity protein protects the bacterium from destruction by its own lantibiotic. In general, there is little homology between the immunity proteins of different genera of bacteria.
Probab=64.71 E-value=20 Score=25.00 Aligned_cols=36 Identities=19% Similarity=0.404 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
+.+++.|...|.++.. ..++|+.+..+|.++-.-|+
T Consensus 55 e~ve~Ei~~lQ~qL~~---~ldeYE~~VrrLE~fvkvLn 90 (99)
T PF11083_consen 55 EQVEKEIRELQNQLGL---YLDEYEKLVRRLEKFVKVLN 90 (99)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHc
Confidence 4455666666665544 56899999999999988776
No 31
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=64.61 E-value=37 Score=22.24 Aligned_cols=51 Identities=12% Similarity=0.192 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccc
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
+..-...+++-+....+++..+..-.++++.+.+.|..||+. ..|.. ++|.
T Consensus 4 ~~~~~q~l~~~~~~l~~~~~~l~~~~~E~~~v~~EL~~l~~d--~~vy~-~VG~ 54 (105)
T cd00632 4 QLAQLQQLQQQLQAYIVQRQKVEAQLNENKKALEELEKLADD--AEVYK-LVGN 54 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCc--chHHH-Hhhh
Confidence 344556778888899999999999999999999999999853 44444 4565
No 32
>PRK14154 heat shock protein GrpE; Provisional
Probab=64.55 E-value=33 Score=26.25 Aligned_cols=50 Identities=14% Similarity=0.194 Sum_probs=24.8
Q ss_pred CCCCCCcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 2 EEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 2 ~~~~~kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
|++.|-|..-|=. +++..-...+++.+.+.+. +|.-...||++..+|..+
T Consensus 42 ~~~~~~~~~~~~~-----~~l~~el~~le~e~~elkd---~~lRl~ADfeNyRKR~~k 91 (208)
T PRK14154 42 MEPHREGLEFPSR-----EKLEGQLTRMERKVDEYKT---QYLRAQAEMDNLRKRIER 91 (208)
T ss_pred cCcccccccCcch-----hhHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 5667777665532 2222223334444444443 334445666666665543
No 33
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=63.49 E-value=24 Score=25.40 Aligned_cols=43 Identities=19% Similarity=0.365 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
.+....+.++.-|.+...+|+.|++-..|++.|...+..|-.+
T Consensus 24 ~~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~ 66 (155)
T PF06810_consen 24 KVKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAK 66 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Confidence 4455667777778888888888888888888888887776543
No 34
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=63.42 E-value=28 Score=28.17 Aligned_cols=39 Identities=15% Similarity=0.291 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
.++++-+.++.+-++++....+.|+.++++|..|-...|
T Consensus 142 ekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s 180 (290)
T COG4026 142 EKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENS 180 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555567777778888888888877655443
No 35
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=62.91 E-value=22 Score=26.07 Aligned_cols=48 Identities=27% Similarity=0.526 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHhhchhhccccc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEF----ISDNTNLINLVQKLPEELHHGI 68 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~----~~Dy~~l~~~L~~LPdkLsh~I 68 (87)
++.....-+...|.+++.|+..|..| .++-++|++++..|-+.|...+
T Consensus 58 ~~~~~v~~~~~~i~~k~~El~~L~~~d~~kv~~~E~L~d~v~eLkeel~~el 109 (146)
T PF05852_consen 58 EIKNKVSSLETEISEKKKELSHLKKFDRKKVEDLEKLTDRVEELKEELEFEL 109 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566778889999999998876 5788999999999888876543
No 36
>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]
Probab=62.81 E-value=6.2 Score=33.72 Aligned_cols=38 Identities=11% Similarity=0.044 Sum_probs=31.8
Q ss_pred HHHHHHHhHHHHHHHHhhchhhc---ccccccccccccccc
Q 034685 42 RVKEFISDNTNLINLVQKLPEEL---HHGIMASSFWKSSIF 79 (87)
Q Consensus 42 ~~q~~~~Dy~~l~~~L~~LPdkL---sh~IMV~PfGk~Afm 79 (87)
.|+++..-......+|.+||.|+ +|+-|+.|||.+.|.
T Consensus 300 ew~EINAA~GQ~vLLL~~l~~kig~~~~~y~lvp~GshSyI 340 (447)
T KOG2751|consen 300 EWDEINAAWGQTVLLLHTLANKIGLNFVRYRLVPMGSHSYI 340 (447)
T ss_pred CHHHHHHHhhhHHHHHHHHHHhcCcccceeeeecccchhHH
Confidence 58888888889999999999987 466777799999874
No 37
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=62.36 E-value=8.3 Score=24.88 Aligned_cols=39 Identities=10% Similarity=0.148 Sum_probs=30.5
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTN 52 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~ 52 (87)
-|+ |+..|+..+....+..-+.|.+.|..|+.-......
T Consensus 27 ~LG--ls~~dI~~i~~~~~~~~eq~~~mL~~W~~r~g~~AT 65 (86)
T cd08318 27 HLE--MKDKEIRAIESDSEDIKMQAKQLLVAWQDREGSQAT 65 (86)
T ss_pred HcC--CCHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCcccc
Confidence 355 888899888887777778899999999987664433
No 38
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=60.58 E-value=31 Score=25.21 Aligned_cols=43 Identities=21% Similarity=0.271 Sum_probs=28.1
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
+++++.++..++++.+..+..++...=.-..||++....+.+|
T Consensus 115 d~~~L~~l~~e~~~~~~~~~~~l~~~~~~~~d~~~A~~~~~kL 157 (176)
T PRK03578 115 DVDALDALLAELRDERRERYAELGALLDSRGDDQAAAEAVRQL 157 (176)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHH
Confidence 3455667777777777777777764433235788877776654
No 39
>PF07743 HSCB_C: HSCB C-terminal oligomerisation domain; InterPro: IPR009073 This entry represents the C-terminal oligomerisation domain found in HscB (heat shock cognate protein B), which is also known as HSC20 (20K heat shock cognate protein). HscB acts as a co-chaperone to regulate the ATPase activity and peptide-binding specificity of the molecular chaperone HscA, also known as HSC66 (HSP70 class). HscB proteins contain two domains, an N-terminal J-domain, which is involved in interactions with HscA, connected by a short loop to the C-terminal oligomerisation domain; the two domains make contact through a hydrophobic interface. The core of the oligomerisation domain is thought to bind and target proteins to HscA and consists of an open, three-helical bundle []. HscB, along with HscA, has been shown to play a role in the biogenesis of iron-sulphur proteins.; GO: 0006457 protein folding; PDB: 1FPO_C 3BVO_B 3HHO_A 3UO2_B 3UO3_B.
Probab=60.56 E-value=37 Score=20.85 Aligned_cols=41 Identities=17% Similarity=0.199 Sum_probs=31.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
..++..+.+++.+.+.+|..++...= -..||+.....+.+|
T Consensus 26 ~~~L~~l~~~~~~~~~~~~~~l~~~f-~~~d~~~A~~~~~kL 66 (78)
T PF07743_consen 26 EAELEELKKEIEERIKELIKELAEAF-DAKDWEEAKEALRKL 66 (78)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-ccCcHHHHHHHHHHH
Confidence 36778888888889988888888766 477888888877665
No 40
>PRK13441 F0F1 ATP synthase subunit delta; Provisional
Probab=60.16 E-value=16 Score=25.93 Aligned_cols=42 Identities=21% Similarity=0.178 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
.++++|..|+.+...+...+.++.++...+.+.+..+++-|+
T Consensus 5 ~va~~YA~AL~~~a~e~~~l~~v~~~l~~~~~~~~~~~~~l~ 46 (180)
T PRK13441 5 AIASKYARALLNVAIELEKEEEYGEFLDLVCQIYESAKEFFD 46 (180)
T ss_pred hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 578899999999888877788888888888888877655443
No 41
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=59.55 E-value=44 Score=22.58 Aligned_cols=37 Identities=14% Similarity=0.278 Sum_probs=21.8
Q ss_pred cccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 8 GTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 8 gt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
|...|...+=|+.| +++.++.|+..|.||++-.+.-.
T Consensus 17 ~~~~p~m~l~svgd-------~e~eLerCK~sirrLeqevnkER 53 (79)
T PF09036_consen 17 DSEPPVMELRSVGD-------IEQELERCKASIRRLEQEVNKER 53 (79)
T ss_dssp TS-------SSHHH-------HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCcHHHHHHhcc-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555 78888999999999987766533
No 42
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=58.77 E-value=36 Score=26.57 Aligned_cols=43 Identities=26% Similarity=0.366 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
+..+--..+++.+.+.++.+.+++.++++|+.|.+.|. ++...
T Consensus 70 ~~~~en~~Lk~~l~~~~~~~~~~~~l~~EN~~Lr~lL~-~~~~~ 112 (284)
T COG1792 70 DLALENEELKKELAELEQLLEEVESLEEENKRLKELLD-FKESS 112 (284)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-Ccccc
Confidence 44444556777888888888999999999999998875 34444
No 43
>PF06696 Strep_SA_rep: Streptococcal surface antigen repeat; InterPro: IPR009578 This family consists of a number of ~25 residue long repeats found commonly in Streptococcal surface antigens although one copy is present in the HPSR2-heavy chain potential motor protein of Giardia lamblia (Giardia intestinalis) (Q24984 from SWISSPROT). This family is often found in conjunction with IPR001899 from INTERPRO.; PDB: 3IOX_A 3IPK_A 2WD6_B 1JMM_A.
Probab=58.46 E-value=28 Score=18.77 Aligned_cols=24 Identities=33% Similarity=0.322 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 28 RVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
.++.++...+.+|.+.|+--.||+
T Consensus 2 ~Yqakla~YqaeLa~vqk~na~~~ 25 (25)
T PF06696_consen 2 DYQAKLAQYQAELARVQKANADYE 25 (25)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHhhccC
Confidence 467889999999999998887774
No 44
>TIGR01437 selA_rel uncharacterized pyridoxal phosphate-dependent enzyme. This model describes a protein related to a number of pyridoxal phosphate-dependent enzymes, and in particular to selenocysteine synthase (SelA), which converts Ser to selenocysteine on its tRNA. While resembling SelA, this protein is found only in species that have a better candidate SelA or else lack the other genes (selB, selC, and selD) required for selenocysteine incorporation.
Probab=58.12 E-value=22 Score=27.58 Aligned_cols=25 Identities=36% Similarity=0.361 Sum_probs=21.6
Q ss_pred CCcccccccccCChhHHHHHHHHHH
Q 034685 6 AKGTVTSLSSMFSVDDVQKAAKRVQ 30 (87)
Q Consensus 6 ~kgt~tpl~~~~~~~~~~~a~~~~~ 30 (87)
+.||+|.|+..+.++++.++..+.-
T Consensus 13 a~g~~t~~g~s~~~~~v~~a~~~~~ 37 (363)
T TIGR01437 13 ASGKMTILGVSTVSDEVADAQKRGA 37 (363)
T ss_pred CCcEeecCCCCCCCHHHHHHHHHHH
Confidence 5799999999999999998877654
No 45
>PF14576 SEO_N: Sieve element occlusion N-terminus
Probab=58.07 E-value=28 Score=27.93 Aligned_cols=33 Identities=21% Similarity=0.297 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
..+-+++++-+.-|+++|++ .+||..|.+..++
T Consensus 251 ~~I~~~Lk~qL~~C~~~I~~----~E~y~~l~~lf~t 283 (286)
T PF14576_consen 251 SNILSHLKKQLDLCRQQIEE----IEDYQMLLKLFET 283 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhhc
Confidence 34445556666666666666 6677777776654
No 46
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=57.96 E-value=17 Score=27.39 Aligned_cols=44 Identities=16% Similarity=0.150 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccccc
Q 034685 32 ALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSS 77 (87)
Q Consensus 32 ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~A 77 (87)
|+.++..-.+=|+....+|..+.+..+-+.+..-.++ . ||||+-
T Consensus 156 Al~Da~at~~vl~~l~~~~~~~~~l~~~~~~~~~~~~-~-~fGK~k 199 (250)
T PRK06310 156 AMKDVEINIKVFKHLCKRFRTLEQLKQILSKPIKMKY-M-PLGKHK 199 (250)
T ss_pred hHHHHHHHHHHHHHHHHhcccHHHHHHHhhcCccccc-c-cCcccC
Confidence 3344444444455555555444444444444344443 3 999964
No 47
>PF02465 FliD_N: Flagellar hook-associated protein 2 N-terminus; InterPro: IPR003481 The flagellar hook-associated protein 2 (HAP2 or FliD) is the capping protein for the flagella and forms the distal end of the flagella. The protein plays a role in mucin specific adhesion of the bacteria [].; GO: 0009296 flagellum assembly, 0009288 bacterial-type flagellum
Probab=56.99 E-value=49 Score=21.14 Aligned_cols=34 Identities=15% Similarity=0.103 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
.++++.....+.++.-|..+.+.-.+|...+..|
T Consensus 22 ~~l~~~~~~~~~k~sa~~~l~s~l~~l~~~~~~L 55 (99)
T PF02465_consen 22 DRLQQKKTSLEWKQSAYGSLNSKLSTLQSALSDL 55 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5555555555555555555555555555555444
No 48
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=56.09 E-value=73 Score=23.90 Aligned_cols=48 Identities=21% Similarity=0.212 Sum_probs=33.1
Q ss_pred cccccCChhHHH-HHHHHHHHHHHHHHHHHHHHHH----HHHhHHHHHHHHhh
Q 034685 12 SLSSMFSVDDVQ-KAAKRVQDALLEKQQELERVKE----FISDNTNLINLVQK 59 (87)
Q Consensus 12 pl~~~~~~~~~~-~a~~~~~~ai~~~~~el~~~q~----~~~Dy~~l~~~L~~ 59 (87)
|=.+-++++++. .-..++++.+++...+.++++. +..||++|+.-.++
T Consensus 98 ~~~~~it~~~v~~~e~~kl~~~~e~L~~e~~~L~~~~~~~~eDy~~Li~Im~r 150 (170)
T PRK13923 98 SGISDLTLEDVLSEQIGKLQEEEEKLSWENQTLKQELAITEEDYRALIVIMNR 150 (170)
T ss_pred CCcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335557788872 2234467777777777777776 88999999887654
No 49
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=55.68 E-value=48 Score=21.69 Aligned_cols=43 Identities=9% Similarity=0.190 Sum_probs=31.2
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLI 54 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~ 54 (87)
+.|.+|=..++..|...+.+.++.+..+++++.+-+.+-+.-.
T Consensus 51 ~VG~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~ 93 (105)
T cd00632 51 LVGNVLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKL 93 (105)
T ss_pred HhhhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566676677888888888888888888887776665554433
No 50
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=55.53 E-value=41 Score=21.10 Aligned_cols=41 Identities=15% Similarity=0.332 Sum_probs=31.2
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTN 52 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~ 52 (87)
.+|.+|=..+...+.+.+++.++.+..+++.+++-..+-+.
T Consensus 50 ~vG~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~ 90 (106)
T PF01920_consen 50 SVGKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEK 90 (106)
T ss_dssp EETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777788888899999999998888887766554433
No 51
>PF05591 DUF770: Protein of unknown function (DUF770); InterPro: IPR008312 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, these proteins are encoded in type VI secretion loci (including the SCI genomic island in Salmonella enterica and the imp locus in Rhizobium leguminosarum) implicated in pathogenicity and protein secretion [, , [].
Probab=54.92 E-value=48 Score=24.21 Aligned_cols=44 Identities=25% Similarity=0.412 Sum_probs=36.6
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
-|+|+.+.+-...++ ++.+.++.|..++.....+.++.+.|+.+
T Consensus 98 DF~Pd~v~~qVp~L~-~LlelR~~L~~L~~~l~~~~~~r~~l~~~ 141 (157)
T PF05591_consen 98 DFHPDAVAEQVPELR-KLLELREQLRDLKGPLDNNPAFRKLLQEI 141 (157)
T ss_pred cCCHHHHHHhhHHHH-HHHHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence 388888887776654 56788999999999999999999998865
No 52
>PF07395 Mig-14: Mig-14; InterPro: IPR009977 This family contains a number of bacterial mig-14 proteins (approximately 270 residues long). In Salmonella, mig-14 contributes to resistance to antimicrobial peptides, although the mechanism is not fully understood [].
Probab=54.83 E-value=9.7 Score=30.26 Aligned_cols=63 Identities=16% Similarity=0.119 Sum_probs=47.0
Q ss_pred CcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccccccccccccccc
Q 034685 7 KGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTY 86 (87)
Q Consensus 7 kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~~ 86 (87)
-|.+-|++. ||++|+..+-..+=+ .||.....+++.+.+.+..|++- + ||..-|+-|+-+.+
T Consensus 126 GG~v~~v~~-~S~~Ela~iY~~Lf~---------~Rwg~~~~~~~~l~e~f~~Lr~~------~--fG~vL~l~~~P~Ai 187 (264)
T PF07395_consen 126 GGSVRPVSE-FSPEELADIYIDLFQ---------KRWGFRCYGKEHLAEFFSELRHM------I--FGSVLFLNGQPCAI 187 (264)
T ss_pred CCEEEEHHH-CCHHHHHHHHHHHHH---------HHhCCCCCcHHHHHHHHHHhHHh------h--eeeEEEECCcceEE
Confidence 477777764 788887776655544 38987778889999999999973 3 77777788877665
Q ss_pred C
Q 034685 87 Q 87 (87)
Q Consensus 87 ~ 87 (87)
|
T Consensus 188 q 188 (264)
T PF07395_consen 188 Q 188 (264)
T ss_pred E
Confidence 4
No 53
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=54.46 E-value=52 Score=26.13 Aligned_cols=15 Identities=33% Similarity=0.514 Sum_probs=9.2
Q ss_pred HHHhHHHHHHHHhhc
Q 034685 46 FISDNTNLINLVQKL 60 (87)
Q Consensus 46 ~~~Dy~~l~~~L~~L 60 (87)
|.++|+.|..-|+.|
T Consensus 223 fmdEyEklE~EL~~l 237 (267)
T PF10234_consen 223 FMDEYEKLEEELQKL 237 (267)
T ss_pred HHHHHHHHHHHHHHH
Confidence 566666666666554
No 54
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=54.44 E-value=32 Score=22.47 Aligned_cols=19 Identities=26% Similarity=0.431 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034685 27 KRVQDALLEKQQELERVKE 45 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~ 45 (87)
.++.+.|.-.|+||+|++.
T Consensus 28 ~El~eRIalLq~EIeRlkA 46 (65)
T COG5509 28 AELEERIALLQAEIERLKA 46 (65)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455666666666666654
No 55
>PRK13429 F0F1 ATP synthase subunit delta; Provisional
Probab=54.11 E-value=26 Score=24.66 Aligned_cols=39 Identities=23% Similarity=0.370 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
.++++|.+|+.+...+-..+..+.+|...+.+.+..-|+
T Consensus 5 ~ia~~YA~AL~~~a~~~~~l~~~~~~l~~i~~~~~~~~~ 43 (181)
T PRK13429 5 AIARRYAKALFQLAKEKGQLDSVYEELKQLAELLEDSPE 43 (181)
T ss_pred hhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHcCHH
Confidence 567889999988888877788888888888777765543
No 56
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=53.89 E-value=68 Score=21.84 Aligned_cols=34 Identities=21% Similarity=0.349 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHH---HHHHHHhHHHHHHHHhhch
Q 034685 28 RVQDALLEKQQELER---VKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 28 ~~~~ai~~~~~el~~---~q~~~~Dy~~l~~~L~~LP 61 (87)
.+++.|++++.+|++ +...+..|++|.+.+++.|
T Consensus 92 ~~k~~ie~lk~~L~~ak~~r~~k~eyd~La~~I~~~p 128 (139)
T PF05615_consen 92 QAKKEIEELKEELEEAKRVRQNKEEYDALAKKINSQP 128 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 344445555555543 3345678999999999999
No 57
>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices. ; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.
Probab=53.61 E-value=77 Score=22.49 Aligned_cols=37 Identities=19% Similarity=0.346 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINL 56 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~ 56 (87)
++-..+.+++.....+...+|..-++.+++|+.+...
T Consensus 89 ~eYk~llk~y~~~~~~L~k~I~~~e~iI~~fe~i~~~ 125 (126)
T PF09403_consen 89 DEYKELLKKYKDLLNKLDKEIAEQEQIIDNFEKIQSL 125 (126)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5556667777777777777777777777777776653
No 58
>PF02465 FliD_N: Flagellar hook-associated protein 2 N-terminus; InterPro: IPR003481 The flagellar hook-associated protein 2 (HAP2 or FliD) is the capping protein for the flagella and forms the distal end of the flagella. The protein plays a role in mucin specific adhesion of the bacteria [].; GO: 0009296 flagellum assembly, 0009288 bacterial-type flagellum
Probab=53.23 E-value=58 Score=20.81 Aligned_cols=42 Identities=14% Similarity=0.043 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
.+....+..+...+++.+.++.-++.|..|...|..|-+.+.
T Consensus 12 ~l~~~e~~~~~~l~~~~~~~~~k~sa~~~l~s~l~~l~~~~~ 53 (99)
T PF02465_consen 12 QLMQAERAPIDRLQQKKTSLEWKQSAYGSLNSKLSTLQSALS 53 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445556688888999999999999999999999987543
No 59
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=53.22 E-value=69 Score=24.08 Aligned_cols=36 Identities=14% Similarity=0.214 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 28 RVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
.+.+.-.+.+.+|+++..-++-.+.++..+..|=.|
T Consensus 117 ~Vd~~~~eL~~eI~~L~~~i~~le~~~~~~k~LrnK 152 (171)
T PF04799_consen 117 QVDQTKNELEDEIKQLEKEIQRLEEIQSKSKTLRNK 152 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333444555555555555555555555555433
No 60
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=53.20 E-value=75 Score=22.14 Aligned_cols=26 Identities=8% Similarity=0.121 Sum_probs=16.0
Q ss_pred ccccccc---cCChhHHHHHHHHHHHHHH
Q 034685 9 TVTSLSS---MFSVDDVQKAAKRVQDALL 34 (87)
Q Consensus 9 t~tpl~~---~~~~~~~~~a~~~~~~ai~ 34 (87)
+=.|-++ .|..+.+.+....++..+.
T Consensus 9 ~~~Pp~~~~~~~~~e~ll~~~~~LE~qL~ 37 (160)
T PF13094_consen 9 LPFPPQKREDSFDYEQLLDRKRALERQLA 37 (160)
T ss_pred CCCCcccccccccHHHHHHHHHHHHHHHH
Confidence 3445555 7777777766666665444
No 61
>cd07606 BAR_SFC_plant The Bin/Amphiphysin/Rvs (BAR) domain of the plant protein SCARFACE (SFC). BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. The plant protein SCARFACE (SFC), also called VAscular Network 3 (VAN3), is a plant ACAP (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein), an Arf GTPase Activating Protein (GAP) that plays a role in the trafficking of auxin efflux regulators from the plasma membrane to the endosome. It is required for the normal vein patterning in leaves. SCF contains an N-terminal BAR domain, followed by a Pleckstrin Homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=52.65 E-value=55 Score=24.59 Aligned_cols=55 Identities=5% Similarity=0.016 Sum_probs=44.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
+++..+.+++.+-+..|+.-++.+..+.+-..+..+.|..+...---+||+ .+|.
T Consensus 8 ~~~~~l~~~~~Kl~K~~~~~~~a~~~~~~a~~~Fa~~L~~f~~~~dD~~~~-a~gg 62 (202)
T cd07606 8 GSADELRDRSLKLYKGCRKYRDALGEAYDGDSAFAESLEEFGGGHDDPISV-AVGG 62 (202)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChHHH-hccc
Confidence 567778888888889999999999999888899999999998664445666 5553
No 62
>TIGR03358 VI_chp_5 type VI secretion protein, VC_A0107 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=52.52 E-value=40 Score=24.96 Aligned_cols=43 Identities=35% Similarity=0.530 Sum_probs=35.7
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
|+|+.+.+-...+++ +.+.++.+..|++....+.++.++|+.+
T Consensus 100 F~Pd~Ia~qVp~L~~-LlelR~~L~~L~~~l~~~~~~~~~l~~~ 142 (159)
T TIGR03358 100 FSPDAVAKQVPELKK-LLEAREALRDLKGPLDNNPDLRKLLQEL 142 (159)
T ss_pred CCHHHHHHHhHHHHH-HHHHHHHHHHHHhhccCcHHHHHHHHHH
Confidence 888888887777764 5678899999999999999998888765
No 63
>PRK10328 DNA binding protein, nucleoid-associated; Provisional
Probab=52.25 E-value=84 Score=22.43 Aligned_cols=39 Identities=21% Similarity=0.357 Sum_probs=26.5
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLIN 55 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~ 55 (87)
++.+++..+.+++..+|++.+++-+..+.-..+-.+.++
T Consensus 21 ~~~e~Lee~~ekl~~vv~er~~~~~~~~~~~~er~~~l~ 59 (134)
T PRK10328 21 FSIDVLEEMLEKFRVVTKERREEEEQQQRELAERQEKIN 59 (134)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888999988888887765555544444433333
No 64
>PF11351 DUF3154: Protein of unknown function (DUF3154); InterPro: IPR021497 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=52.09 E-value=17 Score=25.17 Aligned_cols=52 Identities=10% Similarity=0.033 Sum_probs=27.6
Q ss_pred cccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhHHHHHHHHhhch
Q 034685 10 VTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKE-FISDNTNLINLVQKLP 61 (87)
Q Consensus 10 ~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~-~~~Dy~~l~~~L~~LP 61 (87)
|+.+...|-+++-.++..+++-.-.+.+++.+..+. ....++.++.-|++.|
T Consensus 3 v~~~~d~~~~~~e~~~~~~~~l~~~~~~~~~~e~~~~~~~~~~~~~~eln~~~ 55 (123)
T PF11351_consen 3 VGETIDVFRPDPEERAQAKAELQQAALEQFAAEFEAARRARFDRMQAELNRAD 55 (123)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcCc
Confidence 344455554454455555555444444444433332 3345667777777777
No 65
>COG3516 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.07 E-value=30 Score=26.20 Aligned_cols=43 Identities=30% Similarity=0.445 Sum_probs=36.2
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
||++.+.+=...++ +|.+.+.+|..|+.+.+.+.++.++|+.|
T Consensus 105 FsP~~Va~qVp~L~-kLLeaR~~L~~L~~~ldg~~~~e~~l~~l 147 (169)
T COG3516 105 FSPDAVARQVPELK-KLLEARTALADLKGPLDGNPAFEELLQDL 147 (169)
T ss_pred CCHHHHHHhhHHHH-HHHHHHHHHHHHhccccCcHHHHHHHHHH
Confidence 88988888777775 46778999999999999999988888765
No 66
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=51.73 E-value=20 Score=22.79 Aligned_cols=43 Identities=12% Similarity=0.044 Sum_probs=30.8
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
|+..++..+.....+.-+.|.+.|..|..-...-..+..+++.
T Consensus 23 ls~~~I~~ie~~~~~~~eq~~~mL~~W~~k~G~~At~~~L~~a 65 (79)
T cd08784 23 LSDNEIKVAELDNPQHRDRVYELLRIWRNKEGRKATLNTLIKA 65 (79)
T ss_pred CCHHHHHHHHHcCCchHHHHHHHHHHHHhccCcCcHHHHHHHH
Confidence 7888888888888775688999999998766543333333333
No 67
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=50.82 E-value=49 Score=23.72 Aligned_cols=54 Identities=26% Similarity=0.366 Sum_probs=37.2
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHhHHHHHHHHhhchhhcccccc
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERV-----KEFISDNTNLINLVQKLPEELHHGIM 69 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~-----q~~~~Dy~~l~~~L~~LPdkLsh~IM 69 (87)
+.+-.|+.+..-..+.++.+.+.+++.. .....+++.|..-+..|=++|.++|.
T Consensus 43 ~vtk~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l~~~L~~ei~ 101 (177)
T PF07798_consen 43 LVTKSDLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKLRQELREEIN 101 (177)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455677777777777888888777543 34566777777777777777776653
No 68
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=50.14 E-value=39 Score=25.05 Aligned_cols=43 Identities=16% Similarity=0.340 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccc
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGI 68 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~I 68 (87)
.+.+++.|.....++..|+.-.+++++....+++.|+.+...+
T Consensus 80 ~~eLeq~l~~~~~~L~~~q~~l~~~~~~l~~~~~~p~~aq~~l 122 (240)
T PF12795_consen 80 LEELEQRLSQEQAQLQELQEQLQQENSQLIEIQTRPERAQQQL 122 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHH
Confidence 3567888888888999999999999999999999998876554
No 69
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=50.10 E-value=49 Score=19.08 Aligned_cols=49 Identities=20% Similarity=0.316 Sum_probs=27.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHH-----------------------HHHHHhHHHHHHHHhhchhhcc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERV-----------------------KEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~-----------------------q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
..+++++.+++.++....+.+..++++ ..+...++.+.+.|..+.+.|.
T Consensus 4 vd~~~l~~~a~~~~~~~~~l~~~~~~l~~~~~~l~~~W~G~a~~af~~~~~~~~~~~~~~~~~L~~~~~~l~ 75 (86)
T PF06013_consen 4 VDPEQLRAAAQQLQAQADELQSQLQQLESSIDSLQASWQGEAADAFQDKFEEWNQAFRQLNEALEELSQALR 75 (86)
T ss_dssp SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGBTSSTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666655555544444433 3445555666666666666553
No 70
>PF06151 Trehalose_recp: Trehalose receptor; InterPro: IPR009318 In Drosophila, taste is perceived by gustatory neurons located in sensilla distributed on several different appendages throughout the body of the animal. This family represents the taste receptor sensitive to trehalose [,].
Probab=50.07 E-value=10 Score=31.09 Aligned_cols=35 Identities=26% Similarity=0.223 Sum_probs=32.0
Q ss_pred HHHHHHHHHhHHHHHHHHhhchhhcccccccccccc
Q 034685 40 LERVKEFISDNTNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 40 l~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
.+-|++.-.||.+|.++++.+-+.+|+=|++ .||-
T Consensus 256 ~~fW~~iR~~y~~l~~Lv~~vD~~iS~lil~-S~an 290 (414)
T PF06151_consen 256 EEFWREIREDYLRLCELVRLVDDIISPLILL-SFAN 290 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH-HHhc
Confidence 4579999999999999999999999999999 7764
No 71
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=49.96 E-value=93 Score=22.24 Aligned_cols=35 Identities=6% Similarity=0.206 Sum_probs=25.9
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVKEFISDN 50 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy 50 (87)
=++.+++..+.+++..+|++.+++-+..++-....
T Consensus 20 e~~~e~Lee~~ekl~~vv~er~ee~~~~~~~~~er 54 (135)
T PRK10947 20 ECTLETLEEMLEKLEVVVNERREEESAAAAEVEER 54 (135)
T ss_pred HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36788999999999999988887766555444433
No 72
>PF01346 FKBP_N: Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; InterPro: IPR000774 Peptidyl-prolyl cis-trans isomerase (PPIase) catalyses the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides [, ]. This alpha helical domain is found at the N terminus of proteins belonging to the FKBP-type peptidyl-prolyl cis-trans isomerase(IPR001179 from INTERPRO) family. Peptidyl-prolyl cis-trans isomerase has been shown to accelerate the refolding of several proteins in vitro [, , ]; the FKPB-type enzymes probably act in the folding of extracytoplasmic proteins.; GO: 0006457 protein folding; PDB: 1FD9_A 2VCD_A 3OE2_A 2UZ5_A 3B09_A 1Q6H_B 1Q6I_B 1Q6U_A.
Probab=49.73 E-value=27 Score=22.95 Aligned_cols=52 Identities=23% Similarity=0.291 Sum_probs=32.7
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHhHHHHHHHHhhchhhccccc
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQE---------LERVKEFISDNTNLINLVQKLPEELHHGI 68 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~e---------l~~~q~~~~Dy~~l~~~L~~LPdkLsh~I 68 (87)
.++.++.+.+...+.+.+...+++ ++.=++|..+|.. .+-+.++|.-|.|+|
T Consensus 64 ~l~~~e~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~fla~n~k-~~GV~~t~SGLqY~V 124 (124)
T PF01346_consen 64 KLSDEEAQEALQAFQQKMQAKQQEKMAKAAEKNKAEGEAFLAENAK-KEGVKTTESGLQYKV 124 (124)
T ss_dssp SS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-STTEEE-TTS-EEEE
T ss_pred CCCHHHHHHHHHHHHHHHHHHhhcchhhhhhhhHHHHHHHHHHHcC-CCCCEECCCCCeeeC
Confidence 578888888888888877665533 3444556666655 356677777777765
No 73
>PF14932 HAUS-augmin3: HAUS augmin-like complex subunit 3
Probab=49.73 E-value=29 Score=26.42 Aligned_cols=38 Identities=26% Similarity=0.350 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccc
Q 034685 30 QDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHG 67 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~ 67 (87)
+..|+...++++.+++.++.|..+++.++.+-..++|+
T Consensus 67 e~~le~Le~el~~l~~~~~~~~~~~~~lq~~~~~~~~~ 104 (256)
T PF14932_consen 67 EEDLEALEEELEALQEYKELYEQLRNKLQQLDSSLSQE 104 (256)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678889999999999999999999999887777665
No 74
>PRK05689 fliJ flagellar biosynthesis chaperone; Validated
Probab=49.38 E-value=67 Score=21.79 Aligned_cols=31 Identities=10% Similarity=0.206 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNL 53 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l 53 (87)
...-...++.+...+++++.+..+.++|..-
T Consensus 22 ~~~la~a~~~~~~~~~~L~~L~~y~~~y~~~ 52 (147)
T PRK05689 22 ALQLGQARQELQQAEQQLKMLEDYRLEYRQQ 52 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455666688889999999999999873
No 75
>PHA03161 hypothetical protein; Provisional
Probab=49.28 E-value=48 Score=24.60 Aligned_cols=49 Identities=27% Similarity=0.455 Sum_probs=37.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHhhchhhccccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEF----ISDNTNLINLVQKLPEELHHGI 68 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~----~~Dy~~l~~~L~~LPdkLsh~I 68 (87)
.++......+...|++++.|++-|..| .++.++|.+++..|-+.|..++
T Consensus 57 ~~i~~~v~~l~~~I~~k~kE~~~L~~fd~kkl~~~E~L~drv~eLkeel~~EL 109 (150)
T PHA03161 57 KSIEGMLQAVDLSIQEKKKELSLLKAFDRHKLSAAEDLQDKILELKEDIHFEI 109 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555566667788888888888876 5788999999999988887665
No 76
>PF00512 HisKA: His Kinase A (phospho-acceptor) domain; InterPro: IPR003661 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the dimerisation and phosphoacceptor domain found in histidine kinases. It has been found in bacterial sensor protein/histidine kinases. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms []. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and the phosphotransfer from aspartyl phosphate back to ADP or to water []. The homodimeric domain includes the site of histidine autophosphorylation and phosphate transfer reactions. The structure of the homodimeric domain comprises a closed, four-helical bundle with a left-handed twist, formed by two identical alpha-hairpin subunits.; GO: 0000155 two-component sensor activity, 0007165 signal transduction, 0016020 membrane; PDB: 3DGE_A 2C2A_A 3A0R_A 4EW8_A 2LFS_B 2LFR_B 3JZ3_A 1JOY_B 3ZRW_C 3ZRV_A ....
Probab=49.16 E-value=26 Score=20.11 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHH
Q 034685 30 QDALLEKQQELERVKEFISDNTNL 53 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l 53 (87)
++.+......++++....+|.-.+
T Consensus 39 ~~~l~~i~~~~~~l~~li~~ll~~ 62 (68)
T PF00512_consen 39 REYLDRIRSAADRLNELINDLLDF 62 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555666666666655554443
No 77
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=48.92 E-value=74 Score=21.10 Aligned_cols=40 Identities=8% Similarity=0.116 Sum_probs=29.9
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
+.|.+|=..+...|...+.+.++.+...++.+++-...-+
T Consensus 55 ~VG~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~ 94 (110)
T TIGR02338 55 SVGNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLR 94 (110)
T ss_pred HhchhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566676777888888888888888888888776655443
No 78
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=48.76 E-value=55 Score=25.42 Aligned_cols=33 Identities=27% Similarity=0.477 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHhHHHHHHHHhh
Q 034685 27 KRVQDALLEKQQELERVKE-FISDNTNLINLVQK 59 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~-~~~Dy~~l~~~L~~ 59 (87)
+++++.+.+.+++++.... .+.+|+.|.+.|+-
T Consensus 76 ~~Lr~e~~~l~~~~~~~~~~l~~EN~rLr~LL~~ 109 (283)
T TIGR00219 76 YKLRQELLKKNQQLEILTQNLKQENVRLRELLNS 109 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3455555555444444444 88889999887765
No 79
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=48.69 E-value=74 Score=20.72 Aligned_cols=31 Identities=16% Similarity=0.194 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 34 LEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 34 ~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
.+.+...+-+...+.|-+....++..|=.+|
T Consensus 50 ~~f~~~~~~l~~mK~DLd~i~krir~lk~kl 80 (88)
T PF10241_consen 50 ERFARHTKLLKEMKKDLDYIFKRIRSLKAKL 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444555555555555555554444
No 80
>PHA03395 p10 fibrous body protein; Provisional
Probab=48.67 E-value=47 Score=22.69 Aligned_cols=43 Identities=19% Similarity=0.266 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
.+.+.+.+-+++...|+.+..+++-.-|-+.|-+.|..++.+|
T Consensus 9 Ir~dIkavd~KVdalQ~~V~~l~~nlpdv~~l~~kLdaq~~~L 51 (87)
T PHA03395 9 IRQDIKAVSDKVDALQAAVDDVRANLPDVTEINEKLDAQSASL 51 (87)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHhcCCcHHHHHHHHHhHHHHH
Confidence 3556667777777777777777766555555555444444433
No 81
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=48.28 E-value=27 Score=20.88 Aligned_cols=42 Identities=19% Similarity=0.148 Sum_probs=31.2
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---HHHHHHHHh
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISD---NTNLINLVQ 58 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~D---y~~l~~~L~ 58 (87)
|+..++..+.......-+.+.+-|..|..-..+ .+.|.+.|.
T Consensus 22 l~~~~I~~i~~~~~~~~~~~~~mL~~W~~~~~~~at~~~L~~aL~ 66 (79)
T cd01670 22 LSDGEIDQIEEDNPRVREQAYQLLLKWEEREGDNATVGNLIEALR 66 (79)
T ss_pred CCHHHHHHHHHhCCCHHHHHHHHHHHHHhccCcCcHHHHHHHHHH
Confidence 788899999888887668888899999877754 444444443
No 82
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=48.16 E-value=79 Score=20.92 Aligned_cols=28 Identities=7% Similarity=0.191 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 034685 29 VQDALLEKQQELERVKEFISDNTNLINL 56 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~Dy~~l~~~ 56 (87)
+++.+.+..+++++++...+..+.+.+.
T Consensus 84 l~~~~~~l~~~i~~l~~~~~~l~~~~~~ 111 (116)
T cd04769 84 LEDKKQEIRAQITELQQLLARLDAFEAS 111 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444455555555444444444333
No 83
>PRK09343 prefoldin subunit beta; Provisional
Probab=48.15 E-value=68 Score=21.96 Aligned_cols=38 Identities=8% Similarity=0.038 Sum_probs=30.1
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISD 49 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~D 49 (87)
+.|.+|=.-+...|.+.+.+.++-+..+|+++++-..+
T Consensus 59 ~VG~vlv~qd~~e~~~~l~~r~E~ie~~ik~lekq~~~ 96 (121)
T PRK09343 59 IVGNLLVKVDKTKVEKELKERKELLELRSRTLEKQEKK 96 (121)
T ss_pred HhhHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666766788899999999999999888888766554
No 84
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=47.95 E-value=61 Score=27.92 Aligned_cols=22 Identities=27% Similarity=0.395 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 034685 20 DDVQKAAKRVQDALLEKQQELE 41 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~ 41 (87)
.+.+.-++++++.|+..+++++
T Consensus 72 teqQ~kasELEKqLaaLrqElq 93 (475)
T PRK13729 72 TEMQVTAAQMQKQYEEIRRELD 93 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556666777776666554
No 85
>PF07097 DUF1359: Protein of unknown function (DUF1359); InterPro: IPR010772 This family consists of several hypothetical bacterial and phage proteins of around 100 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this species. The function of this family is unknown.
Probab=47.81 E-value=52 Score=23.08 Aligned_cols=41 Identities=17% Similarity=0.320 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccc
Q 034685 29 VQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIM 69 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IM 69 (87)
+++-|+..++++.||+..+.+..+--+++.-+-|++..+-|
T Consensus 7 i~~~I~~~q~K~~RLk~~IH~vr~Q~~~~~i~~D~~k~~~i 47 (102)
T PF07097_consen 7 ISEQIAKIQTKICRLKNVIHAVRRQTELVKIVLDDLKNNHI 47 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhcCCC
Confidence 36678888999999999999999998888888888877666
No 86
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=47.55 E-value=67 Score=22.20 Aligned_cols=21 Identities=29% Similarity=0.483 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034685 28 RVQDALLEKQQELERVKEFIS 48 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~ 48 (87)
.+++.+++.++++++-+.-.+
T Consensus 29 ~l~~eL~~~k~el~~yk~~V~ 49 (128)
T PF06295_consen 29 KLEQELEQAKQELEQYKQEVN 49 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444443333
No 87
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=47.41 E-value=65 Score=19.75 Aligned_cols=27 Identities=19% Similarity=0.497 Sum_probs=22.4
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERV 43 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~ 43 (87)
-+++++.+...+++..+..++.+++.+
T Consensus 19 ~s~~~i~~~~~~L~~~i~~~~~eLr~~ 45 (87)
T PF08700_consen 19 SSIKEIRQLENKLRQEIEEKDEELRKL 45 (87)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457889999999999999998888764
No 88
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=47.24 E-value=70 Score=24.06 Aligned_cols=44 Identities=25% Similarity=0.413 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
.|....+.+++-|.+...+++++++..+....|.+.-.-|-.+|
T Consensus 117 ~Vd~~~~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L~~eL 160 (171)
T PF04799_consen 117 QVDQTKNELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWLESEL 160 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667788888889999999998888888888887766665544
No 89
>PRK13431 F0F1 ATP synthase subunit delta; Provisional
Probab=47.18 E-value=52 Score=24.37 Aligned_cols=37 Identities=14% Similarity=0.158 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHhHHHHHHHHhh
Q 034685 23 QKAAKRVQDALLEKQQEL-ERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el-~~~q~~~~Dy~~l~~~L~~ 59 (87)
--+++||.+|+.+...+- ..+..+.++...|.+.+..
T Consensus 5 g~IAkRYAkAL~~~a~e~~~~le~v~~~L~~L~~~f~~ 42 (180)
T PRK13431 5 KVISKHYAKALKNHTKGDLALLEEIVVGLKNVAEAIKL 42 (180)
T ss_pred chhhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHcc
Confidence 347899999999998888 9999999999999888866
No 90
>PF02970 TBCA: Tubulin binding cofactor A; InterPro: IPR004226 The folding pathway of tubulins includes highly specific interactions with a series of cofactors (A, B, C, D and E) after they are released from the eukaryotic chaperonin CCT. Cofactors A and D capture and stabilise tubulin in a quasi-native conformation. Cofactor E binds to the cofactor D-tubulin complex, and interaction with cofactor C then causes the release of tubulin poypeptides in the native state. This family is the tubulin-specific chaperone A.; GO: 0051082 unfolded protein binding, 0007021 tubulin complex assembly, 0005874 microtubule; PDB: 3MXZ_A 1QSD_A 1H7C_A.
Probab=47.05 E-value=81 Score=20.71 Aligned_cols=42 Identities=14% Similarity=0.177 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh----------HHHHHHHHhhchhh
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISD----------NTNLINLVQKLPEE 63 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~D----------y~~l~~~L~~LPdk 63 (87)
+.|+.++..---.+..++.++++.+++| -+.|.++...+||-
T Consensus 9 vkRL~KE~~~Y~kE~~~q~~rle~~k~~~~de~~iKkq~~vl~Et~~mipd~ 60 (90)
T PF02970_consen 9 VKRLLKEEASYEKEVEEQEARLEKMKAEGEDEYDIKKQEEVLEETKMMIPDC 60 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHhHHH
Confidence 4555555555555555566666666655 23455666666653
No 91
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=46.73 E-value=95 Score=21.42 Aligned_cols=30 Identities=13% Similarity=0.165 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034685 28 RVQDALLEKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
-+++.+++.++++++|+...+--+.+++.+
T Consensus 82 ~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~ 111 (131)
T cd04786 82 ALERKVADIEALEARLAQNKAQLLVLIDLI 111 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555444433333333
No 92
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=46.35 E-value=94 Score=21.25 Aligned_cols=39 Identities=13% Similarity=0.354 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
+..|.+.|+.-+.....-++.++....++..+...+..|
T Consensus 40 a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l 78 (132)
T PF07926_consen 40 AQEAQQKYERELVKHAEDIKELQQLREELQELQQEINEL 78 (132)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555555555555555555555444
No 93
>PF13281 DUF4071: Domain of unknown function (DUF4071)
Probab=46.34 E-value=38 Score=27.97 Aligned_cols=30 Identities=33% Similarity=0.529 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISD 49 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~D 49 (87)
.|+++|++++..+..+.++++.++++-.+|
T Consensus 106 ~dirkare~~~g~~~~l~~~L~~i~~rLd~ 135 (374)
T PF13281_consen 106 NDIRKARERYSGARKELAKELRRIRQRLDD 135 (374)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHhhCC
Confidence 368888888888788888888888776543
No 94
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=45.55 E-value=65 Score=20.68 Aligned_cols=37 Identities=16% Similarity=0.209 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
......+++++.|++++.++..++.-.+-.++.+..|
T Consensus 67 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 67 SDSPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3455667777777777777777776655555555444
No 95
>PF15011 CK2S: Casein Kinase 2 substrate
Probab=45.35 E-value=42 Score=24.41 Aligned_cols=40 Identities=15% Similarity=0.262 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccc
Q 034685 28 RVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHG 67 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~ 67 (87)
.+++.-...+++.++|++.-+|-..+...|..|-+.|.+=
T Consensus 2 ~lr~~f~~~~~~~~~W~~~~~~~~~~l~sl~nL~eqL~al 41 (168)
T PF15011_consen 2 ALRKCFRKVEEQMEKWDSALSRCLPLLSSLANLAEQLQAL 41 (168)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556666777888889988888888888888777777543
No 96
>CHL00119 atpD ATP synthase CF1 delta subunit; Validated
Probab=45.19 E-value=44 Score=23.84 Aligned_cols=38 Identities=21% Similarity=0.296 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
..++++|..|+-+...+...+.++.+|-..+.+.+..-
T Consensus 6 ~~va~~YA~AL~~~a~e~~~l~~v~~~l~~l~~~~~~~ 43 (184)
T CHL00119 6 SKIAQPYAEALLEFAKEKNIMEQITADIQLILTFLNES 43 (184)
T ss_pred hHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHcC
Confidence 45788888888888777666666666666666666543
No 97
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=44.98 E-value=83 Score=25.78 Aligned_cols=22 Identities=23% Similarity=0.401 Sum_probs=15.2
Q ss_pred HHHHHHHhhchhhcccccccccccc
Q 034685 51 TNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 51 ~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
+.+.+.+..||.-++-+| |+|+
T Consensus 94 ~~~~~~~~~iPN~~~~~v---P~g~ 115 (425)
T PRK05431 94 AELEELLLRIPNLPHDSV---PVGK 115 (425)
T ss_pred HHHHHHHHhCCCCCCccC---CCCC
Confidence 356667888888887775 5564
No 98
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=44.79 E-value=85 Score=20.33 Aligned_cols=38 Identities=11% Similarity=0.315 Sum_probs=25.0
Q ss_pred ccc-ccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034685 12 SLS-SMFSVDDVQKAAKRVQDALLEKQQELERVKEFISD 49 (87)
Q Consensus 12 pl~-~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~D 49 (87)
++| ..|=.-....|.+.+.+.++..+.+++.|++-.++
T Consensus 74 ~iG~~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~ 112 (129)
T cd00890 74 DLGTGVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEK 112 (129)
T ss_pred EecCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455 55555566777777777777777777766654443
No 99
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=43.72 E-value=1.1e+02 Score=22.98 Aligned_cols=42 Identities=17% Similarity=0.105 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccc
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHG 67 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~ 67 (87)
...+++..+++++|+.+++....+++++.+-.++|-+-|...
T Consensus 71 ~~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~~ 112 (276)
T PRK13922 71 LFDLREENEELKKELLELESRLQELEQLEAENARLRELLNLK 112 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 445566667888888899999999988888888888876643
No 100
>TIGR01145 ATP_synt_delta ATP synthase, F1 delta subunit. This model describes the ATP synthase delta subunit in bacteria, mitochondria, and chloroplasts. It is sometimes called OSCP for Oligomycin Sensitivity Conferring Protein. F1/F0-ATP synthase is a multisubunit, membrane associated enzyme found in bacteria and organelles of higher eukaryotes, namely, mitochondria and chloroplast. This enzyme is principally involved in the synthesis of ATP from ADP and inorganic phosphate by coupling the energy derived from the proton electrochemical gradient across the biological membrane. A brief description of this multisubunit enzyme complex: F1 and F0 represent two major clusters of subunits. Delta subunit belongs to the F1 cluster or sector and functionally implicated in the overall stability of the complex. Expression of truncated forms of this subunit results in low ATPase activity.
Probab=42.89 E-value=29 Score=24.29 Aligned_cols=34 Identities=18% Similarity=0.189 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
+++|..|+.+...+...+..+.+|-..+.+.+..
T Consensus 2 a~~YA~AL~~~a~e~~~l~~v~~~l~~i~~~~~~ 35 (172)
T TIGR01145 2 ARPYAKALFEIANEKSSLEEWGEMLNFVKEVLKN 35 (172)
T ss_pred ChhHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhC
Confidence 3556666666655555555555555555555544
No 101
>PF11221 Med21: Subunit 21 of Mediator complex; InterPro: IPR021384 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med21 has been known as Srb7 in yeasts, hSrb7 in humans and Trap 19 in Drosophila. The heterodimer of the two subunits Med7 and Med21 appears to act as a hinge between the middle and the tail regions of Mediator []. ; PDB: 1YKE_B 1YKH_B.
Probab=42.72 E-value=73 Score=22.29 Aligned_cols=23 Identities=30% Similarity=0.511 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 034685 23 QKAAKRVQDALLEKQQELERVKE 45 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~ 45 (87)
..+.++++++|.+..+.++++++
T Consensus 114 ~~~~~el~~~v~e~e~ll~~v~~ 136 (144)
T PF11221_consen 114 EEAEEELQEAVKEAEELLKQVQE 136 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443
No 102
>PRK07502 cyclohexadienyl dehydrogenase; Validated
Probab=42.43 E-value=64 Score=24.31 Aligned_cols=32 Identities=22% Similarity=0.338 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH--HhHHHHHHHHhh
Q 034685 28 RVQDALLEKQQELERVKEFI--SDNTNLINLVQK 59 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~--~Dy~~l~~~L~~ 59 (87)
.+.++|++.++++++++... +|.+.|.+.+.+
T Consensus 247 ~~~~~l~~~~~~l~~~~~~l~~~d~~~l~~~~~~ 280 (307)
T PRK07502 247 AVLEMLGRFTEDLAALQRAIRWGDGDALFDLFTR 280 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 35566788888888887777 566777777765
No 103
>KOG1434 consensus Meiotic recombination protein Dmc1 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=42.16 E-value=35 Score=28.22 Aligned_cols=55 Identities=22% Similarity=0.165 Sum_probs=38.1
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccc----------cccccc
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHG----------IMASSF 73 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~----------IMV~Pf 73 (87)
.|.|+-+..++++++-.=+.+=+.+- -...-+|+..++.+..||+.+|-+ ||. ||
T Consensus 160 tFrpdRi~~IAe~~~~d~d~~LdNI~--y~Ra~~se~qmelv~~L~~~~se~g~~rlvIVDsIma-~F 224 (335)
T KOG1434|consen 160 TFRPDRIKDIAERFKVDPDFTLDNIL--YFRAYNSEEQMELVYLLGDFLSEHGKYRLVIVDSIMA-LF 224 (335)
T ss_pred ccchHHHHHHHHHhCCCHHHHHHHHH--HHHHcChHHHHHHHHHHHHHHhhcCcEEEEEEeceeh-he
Confidence 38888888888776432232222222 333458999999999999999986 777 76
No 104
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=41.66 E-value=94 Score=25.41 Aligned_cols=21 Identities=19% Similarity=0.308 Sum_probs=14.4
Q ss_pred HHHHHHhhchhhcccccccccccc
Q 034685 52 NLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 52 ~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
.+.+.+..||.-++-+| |+|+
T Consensus 98 ~~~~~~~~lPN~~~~~v---P~g~ 118 (418)
T TIGR00414 98 ELQDKLLSIPNIPHESV---PVGK 118 (418)
T ss_pred HHHHHHHhCCCCCCccC---CCCC
Confidence 45567788888777764 5564
No 105
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=41.52 E-value=54 Score=21.10 Aligned_cols=47 Identities=15% Similarity=0.225 Sum_probs=32.9
Q ss_pred cccccCChhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 12 SLSSMFSVDDVQKAAKRVQD-ALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~-ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
-|+ ||..+...+...... .-+.|.+.|..|+.-..+..++..+++.|
T Consensus 22 ~LG--lse~~Id~i~~~~~~~~~eq~~~mL~~W~~~~g~~At~~~L~~aL 69 (86)
T cd08306 22 KLG--LSETKIESIEEAHPRNLREQVRQSLREWKKIKKKEAKVADLIKAL 69 (86)
T ss_pred HcC--CCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhHCcchHHHHHHHHH
Confidence 355 888888888887754 34778889999998777555544444443
No 106
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=41.47 E-value=1e+02 Score=20.21 Aligned_cols=43 Identities=9% Similarity=0.268 Sum_probs=22.7
Q ss_pred CChhHHHHHHHHHH--HHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 17 FSVDDVQKAAKRVQ--DALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 17 ~~~~~~~~a~~~~~--~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
||.+|+..+.+... +...-.+++++.++.-+.+.+.+++.|..
T Consensus 59 ~sl~~i~~l~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 103 (108)
T cd01107 59 FPLEEIKEILDADNDDELRKLLREKLAELEAEIEELQRILRLLED 103 (108)
T ss_pred CCHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555543332 33444555555666566666666665553
No 107
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=41.30 E-value=1.3e+02 Score=22.38 Aligned_cols=44 Identities=23% Similarity=0.323 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
++-.+..++..+-..+....++......+..+|.++++.|=+.|
T Consensus 9 eld~~~~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~l 52 (237)
T PF00261_consen 9 ELDEAEERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEEL 52 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777777777788888889999999999999998886655
No 108
>PRK14127 cell division protein GpsB; Provisional
Probab=41.26 E-value=1.2e+02 Score=21.07 Aligned_cols=46 Identities=24% Similarity=0.370 Sum_probs=24.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
++.+||..--+.+-+-++....++.+|+ +.+..|.+.|..+..+++
T Consensus 23 Yd~~EVD~FLd~V~~dye~l~~e~~~Lk---~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 23 YDQDEVDKFLDDVIKDYEAFQKEIEELQ---QENARLKAQVDELTKQVS 68 (109)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHhhc
Confidence 6677777666666555544444444433 344444445544444443
No 109
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=40.93 E-value=63 Score=26.35 Aligned_cols=42 Identities=24% Similarity=0.271 Sum_probs=31.5
Q ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHhHHHHHHHHhhchhhccc
Q 034685 25 AAKRVQDALL-EKQQELERVKEFISDNTNLINLVQKLPEELHH 66 (87)
Q Consensus 25 a~~~~~~ai~-~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh 66 (87)
||.||||+=. +.+.-+..+++....|+.|.++++.|=.++.|
T Consensus 238 AAtRYRqKkRae~E~l~ge~~~Le~rN~~LK~qa~~lerEI~y 280 (294)
T KOG4571|consen 238 AATRYRQKKRAEKEALLGELEGLEKRNEELKDQASELEREIRY 280 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888764 44444567888889999999999988776544
No 110
>cd07648 F-BAR_FCHO The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Proteins in this group have been named FCH domain Only (FCHO) proteins. Vertebrates have two members, FCHO1 and FCHO2. These proteins contain an F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=40.71 E-value=1.4e+02 Score=22.26 Aligned_cols=34 Identities=21% Similarity=0.264 Sum_probs=25.0
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
+..++.++..+++.+-.+.++.++.++....+|.
T Consensus 148 s~k~~eK~~~K~~ka~~~Y~~~v~~~~~~~~~~~ 181 (261)
T cd07648 148 SPKEIEKAEAKLKKAQDEYKALVEKYNNIRADFE 181 (261)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888888888877777777777776555554
No 111
>PF15458 NTR2: Nineteen complex-related protein 2
Probab=40.13 E-value=1.2e+02 Score=23.25 Aligned_cols=50 Identities=10% Similarity=0.116 Sum_probs=26.3
Q ss_pred cccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 8 GTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 8 gt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
-.+|||-+++++- .+++..+...=...++...+++.+..+-..+.++=..
T Consensus 198 p~~tpLP~L~~~~--~rL~~~l~~le~~~~~~~~~l~~l~~E~~~I~~re~e 247 (254)
T PF15458_consen 198 PKITPLPSLSECL--ERLRESLSSLEDSKSQLQQQLESLEKEKEEIEEREKE 247 (254)
T ss_pred cccCCCCchhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888887743 5555544433344444444555554444444444333
No 112
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=40.10 E-value=35 Score=22.64 Aligned_cols=44 Identities=14% Similarity=0.064 Sum_probs=30.6
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
||..+...+....+.--+.+.+.|..|..-.....++..+++.|
T Consensus 31 Lse~~I~~i~~~~~~~~eq~~qmL~~W~~~~G~~At~~~L~~aL 74 (96)
T cd08315 31 LSENEIDVAKANERVTREQLYQMLLTWVNKTGRKASVNTLLDAL 74 (96)
T ss_pred CCHHHHHHHHHHCCCCHHHHHHHHHHHHHhhCCCcHHHHHHHHH
Confidence 77777777777776667888899999988765544444444433
No 113
>PRK10884 SH3 domain-containing protein; Provisional
Probab=39.98 E-value=1.2e+02 Score=22.79 Aligned_cols=18 Identities=17% Similarity=0.200 Sum_probs=10.2
Q ss_pred HHHhHHHHHHHHhhchhh
Q 034685 46 FISDNTNLINLVQKLPEE 63 (87)
Q Consensus 46 ~~~Dy~~l~~~L~~LPdk 63 (87)
.+++|+.|.+.|..+-.+
T Consensus 137 L~~~n~~L~~~l~~~~~~ 154 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKK 154 (206)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455666666666555443
No 114
>PRK07720 fliJ flagellar biosynthesis chaperone; Validated
Probab=39.94 E-value=1.1e+02 Score=20.75 Aligned_cols=31 Identities=6% Similarity=-0.042 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLI 54 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~ 54 (87)
..-......+..++.+++.+..+.++|..-.
T Consensus 23 ~~L~~a~~~~~~~~~~L~~L~~~~~~~~~~~ 53 (146)
T PRK07720 23 GEYEEAVSRFEQVAEKLYELLKQKEDLEQAK 53 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334445556788888999999998888754
No 115
>COG1077 MreB Actin-like ATPase involved in cell morphogenesis [Cell division and chromosome partitioning]
Probab=39.91 E-value=43 Score=27.83 Aligned_cols=29 Identities=17% Similarity=0.185 Sum_probs=23.5
Q ss_pred HHHHHHhhchhhcccccc----cccccccccccc
Q 034685 52 NLINLVQKLPEELHHGIM----ASSFWKSSIFSW 81 (87)
Q Consensus 52 ~l~~~L~~LPdkLsh~IM----V~PfGk~AfmPG 81 (87)
++..+|...|-.|+.+|+ | ++|--|..-|
T Consensus 266 air~~Le~tpPeL~~DI~ergiv-ltGGGalLrg 298 (342)
T COG1077 266 AIRLVLEKTPPELAADIVERGIV-LTGGGALLRG 298 (342)
T ss_pred HHHHHHhhCCchhcccHhhCceE-EecchHHhcC
Confidence 788999999999999984 5 7777666544
No 116
>TIGR00714 hscB Fe-S protein assembly co-chaperone HscB. This model describes the small subunit, Hsc20 (20K heat shock cognate protein) of a pair of proteins Hsc66-Hsc20, related to the DnaK-DnaJ heat shock proteins, which also serve as molecular chaperones. Hsc20, unlike DnaJ, appears not to have chaperone activity on its own, but to act solely as a regulatory subunit for Hsc66 (i.e., to be a co-chaperone). The gene for Hsc20 in E. coli, hscB, is not induced by heat shock.
Probab=39.83 E-value=1.1e+02 Score=21.87 Aligned_cols=41 Identities=17% Similarity=0.159 Sum_probs=28.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
.+++..+.+++++.+.+|.+.++..=. ..||+.....+.+|
T Consensus 99 ~~~L~~l~~~~~~~~~~~~~~l~~~~~-~~d~~~A~~~~~kL 139 (157)
T TIGR00714 99 EARLESFIKRVKKMFQTRHQLLVEQLD-NQTWAAAADYTRKL 139 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCHHHHHHHHHHH
Confidence 445667778888888888777775332 35787777776654
No 117
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=39.67 E-value=1.4e+02 Score=21.39 Aligned_cols=38 Identities=18% Similarity=0.364 Sum_probs=20.7
Q ss_pred CChhHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 034685 17 FSVDDVQKAAK--------RVQDALLEKQQELERVKEFISDNTNLI 54 (87)
Q Consensus 17 ~~~~~~~~a~~--------~~~~ai~~~~~el~~~q~~~~Dy~~l~ 54 (87)
||.++++.+.+ .+++.+.+.++++++++...+-.+.+.
T Consensus 59 ~sL~eI~~ll~~~~~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll 104 (172)
T cd04790 59 VSLEDIRSLLQQPGDDATDVLRRRLAELNREIQRLRQQQRAIATLL 104 (172)
T ss_pred CCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555443 455566666666666665555444443
No 118
>KOG2856 consensus Adaptor protein PACSIN [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=39.44 E-value=83 Score=27.15 Aligned_cols=37 Identities=14% Similarity=0.157 Sum_probs=22.6
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
..|++.+.+..+ .++.|+++. |+.+.+|+..+..|.+
T Consensus 173 Svspeq~kKlqd----rveK~k~ev---qktkekYektl~el~~ 209 (472)
T KOG2856|consen 173 SVSPEQLKKLQD----RVEKCKQEV---QKTKEKYEKTLAELNK 209 (472)
T ss_pred cCCHHHHHHHHH----HHHHHHHHH---HHHHHHHHHHHHHHhc
Confidence 467777666554 455666654 4456777776666553
No 119
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=39.03 E-value=1.2e+02 Score=20.39 Aligned_cols=44 Identities=18% Similarity=0.301 Sum_probs=20.1
Q ss_pred CChhHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 17 FSVDDVQKAAKRV-----QDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 17 ~~~~~~~~a~~~~-----~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
||.+|+....+.. .+...-.+++++.+++-+++.+.+.+.|..+
T Consensus 57 ~sl~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 105 (124)
T TIGR02051 57 FSLEEIGGLLGLVDGTHCREMYELASRKLKSVQAKMADLLRIERLLEEL 105 (124)
T ss_pred CCHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555655554322 1223333344444444444444555555444
No 120
>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7. The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].
Probab=38.56 E-value=1.1e+02 Score=24.52 Aligned_cols=32 Identities=19% Similarity=0.314 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 34 LEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 34 ~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
.++++-.++-++...++....+.|..||++|.
T Consensus 108 ~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~ 139 (355)
T PF09766_consen 108 EQLKELEQRKKKLQQENKKKKKFLDSLPPQLK 139 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 33444445556677889999999999999886
No 121
>PRK01356 hscB co-chaperone HscB; Provisional
Probab=38.44 E-value=1.2e+02 Score=21.95 Aligned_cols=43 Identities=14% Similarity=0.130 Sum_probs=26.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
-+.+++.++.+++++.+.++..++...=. ..||+.....+.+|
T Consensus 106 ~~~~~L~~l~~~~~~~~~~~~~~l~~~f~-~~d~~~A~~~~~~L 148 (166)
T PRK01356 106 ILFSDLEKIKNKYELMYKNEIDSLKQAFE-EQNLSDATIKTSKL 148 (166)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCHHHHHHHHHHH
Confidence 34555666677777777777666664321 24677776666544
No 122
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=38.28 E-value=1e+02 Score=19.41 Aligned_cols=28 Identities=11% Similarity=0.344 Sum_probs=13.6
Q ss_pred ccCChhHHHHHHHHHHHHHHHHHHHHHH
Q 034685 15 SMFSVDDVQKAAKRVQDALLEKQQELER 42 (87)
Q Consensus 15 ~~~~~~~~~~a~~~~~~ai~~~~~el~~ 42 (87)
+.+|++|+..=..-++.-|..+++++.+
T Consensus 19 s~lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 19 SLLSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567666554444444444444444433
No 123
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=38.20 E-value=70 Score=19.73 Aligned_cols=34 Identities=9% Similarity=0.177 Sum_probs=20.7
Q ss_pred cccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 14 SSMFSVDDVQKAAKRVQDALLEKQQELERVKEFI 47 (87)
Q Consensus 14 ~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~ 47 (87)
+-+|.|+-=.+.++++.+...+..+.++.+..-.
T Consensus 16 glL~aP~sG~e~R~~l~~~~~~~~~~~~~~~~~~ 49 (74)
T PF12732_consen 16 GLLFAPKSGKETREKLKDKAEDLKDKAKDLYEEA 49 (74)
T ss_pred HHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3356666666677777777776666665554433
No 124
>PF09748 Med10: Transcription factor subunit Med10 of Mediator complex; InterPro: IPR019145 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med10 is one of the protein subunits of the Mediator complex, tethered to Med14 (Rgr1) protein. Med10 specifically mediates basal-level HIS4 transcription via Gcn4. In addition, there is a putative requirement for Med10 in Bas2-mediated transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=38.12 E-value=41 Score=23.38 Aligned_cols=20 Identities=25% Similarity=0.207 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHhH
Q 034685 31 DALLEKQQELERVKEFISDN 50 (87)
Q Consensus 31 ~ai~~~~~el~~~q~~~~Dy 50 (87)
+.|++.-+.+-++.-...||
T Consensus 3 ~~l~~~i~~l~el~~~v~d~ 22 (128)
T PF09748_consen 3 QQLEDVIQSLYELGVIVSDF 22 (128)
T ss_pred HHHHHHHHHHHHHHHHHHcC
Confidence 34444444444455455555
No 125
>PRK10807 paraquat-inducible protein B; Provisional
Probab=37.80 E-value=1.3e+02 Score=25.76 Aligned_cols=29 Identities=7% Similarity=0.292 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 36 KQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 36 ~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
.++-+++++...++-+.|.+.|++=|.-|
T Consensus 502 l~~tl~~l~~~~r~lr~l~~~L~~~P~aL 530 (547)
T PRK10807 502 MVADMQRLDQVLRELQPVLKTLNEKSNAL 530 (547)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCchhh
Confidence 44566777777777888888887777655
No 126
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=37.73 E-value=97 Score=25.56 Aligned_cols=46 Identities=11% Similarity=0.163 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHH 66 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh 66 (87)
.+++...+.+..++...+.-...+++|..|. .+++.|.+|=+.||.
T Consensus 323 ~~L~qtl~sl~~t~~ni~~vs~dv~~ft~D~-~~r~~Lr~li~~Ls~ 368 (370)
T PLN03094 323 ELLRQSIYTLTKTLKHIESISSDISGFTGDE-ATRRNLKQLIQSLSR 368 (370)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCH-HHHHHHHHHHHHHhc
Confidence 4555566666666677777777788888887 677777777777663
No 127
>PRK07417 arogenate dehydrogenase; Reviewed
Probab=37.51 E-value=86 Score=23.39 Aligned_cols=32 Identities=19% Similarity=0.329 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH--HhHHHHHHHHhh
Q 034685 28 RVQDALLEKQQELERVKEFI--SDNTNLINLVQK 59 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~--~Dy~~l~~~L~~ 59 (87)
.+.++|++.+++++++.... +|.+.|.+.+++
T Consensus 236 ~i~~~l~~~~~~l~~~~~~l~~~d~~~l~~~~~~ 269 (279)
T PRK07417 236 ALLRSLASYRQSLDQLEELIEQENWSALEQKLEQ 269 (279)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 45666777777777777777 355666666654
No 128
>TIGR03789 pdsO proteobacterial sortase system OmpA family protein. A newly defined histidine kinase (TIGR03785) and response regulator (TIGR03787) gene pair occurs exclusively in Proteobacteria, mostly of marine origin, nearly all of which contain a subfamily 6 sortase (TIGR03784) and its single dedicated target protein (TIGR03788) adjacent to to the sortase. This protein family shows up in only in those species with the histidine kinase/response regulator gene pair, and often adjacent to that pair. It belongs to the OmpA protein family (pfam00691). Its function is unknown. We assign the gene symbol pdsO, for Proteobacterial Dedicated Sortase system OmpA family protein.
Probab=37.30 E-value=1.1e+02 Score=23.62 Aligned_cols=51 Identities=10% Similarity=0.094 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch---h------hccccccccccccccccc
Q 034685 29 VQDALLEKQQELERVKEFISDNTNLINLVQKLP---E------ELHHGIMASSFWKSSIFS 80 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP---d------kLsh~IMV~PfGk~AfmP 80 (87)
.++.+....++-.+++...++|......|.+|- . .++.+|.. ++|+.-+-|
T Consensus 89 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~V~F-~~gSa~L~p 148 (239)
T TIGR03789 89 QRQQMVALTQKQQALEQLEAEYQQAQVHLETLQQDQQQLLEELALGMNVQF-RTGSSDIEP 148 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCcceee-CCCCccCCH
Confidence 345566667777778888889999888888877 2 34566777 777766544
No 129
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=37.00 E-value=1.4e+02 Score=20.70 Aligned_cols=37 Identities=19% Similarity=0.219 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
|..|.+++-..+-++.+++++.++.-+++-+..++.+
T Consensus 95 E~~Rs~~ke~~Ke~~~~~~l~~L~~~i~~L~~~~~~~ 131 (134)
T PF07047_consen 95 EYWRSARKEAKKEEELQERLEELEERIEELEEQVEKQ 131 (134)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555566666665555555544443
No 130
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=36.52 E-value=1.4e+02 Score=20.58 Aligned_cols=29 Identities=14% Similarity=0.231 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034685 29 VQDALLEKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
+++.+.+.++++++++...+.-+.+....
T Consensus 86 l~~~~~~l~~~i~~L~~~~~~L~~~~~~~ 114 (140)
T PRK09514 86 VDEKLAEVEAKIAELQHMRRSLQRLNDAC 114 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444555555555555444444444433
No 131
>PRK09343 prefoldin subunit beta; Provisional
Probab=36.45 E-value=1.4e+02 Score=20.40 Aligned_cols=38 Identities=16% Similarity=0.290 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
..+++.+.....+.+.++.-.++++...+-|..||+.-
T Consensus 17 q~lq~~l~~~~~q~~~le~q~~e~~~~~~EL~~L~~d~ 54 (121)
T PRK09343 17 QQLQQQLERLLQQKSQIDLELREINKALEELEKLPDDT 54 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 34556677777888889999999999999999998753
No 132
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=36.28 E-value=1.2e+02 Score=19.53 Aligned_cols=27 Identities=15% Similarity=0.272 Sum_probs=19.9
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELER 42 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~ 42 (87)
-.++.|+..+...++-+|..|++.+..
T Consensus 20 ~~~~kd~~~~~~~lk~Klq~ar~~i~~ 46 (83)
T PF07544_consen 20 PLSSKDLDTATGSLKHKLQKARAAIRE 46 (83)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356778888888888888777776655
No 133
>PRK03918 chromosome segregation protein; Provisional
Probab=36.17 E-value=99 Score=26.50 Aligned_cols=46 Identities=24% Similarity=0.523 Sum_probs=30.0
Q ss_pred ccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 13 LSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 13 l~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
|..+|..+...++.+...+.+.+...+++.+++...+.+...+.|.
T Consensus 151 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~i~~~l~ 196 (880)
T PRK03918 151 VRQILGLDDYENAYKNLGEVIKEIKRRIERLEKFIKRTENIEELIK 196 (880)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666777777777777777777777776666666555555444
No 134
>PF13935 Ead_Ea22: Ead/Ea22-like protein
Probab=35.63 E-value=1.2e+02 Score=21.17 Aligned_cols=36 Identities=31% Similarity=0.354 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 29 VQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
+-+.++.+++.++++.+. .++..+..++..|+++|-
T Consensus 72 LLDElE~~~~~i~~~~~~-~e~~~~a~~~~~l~~~Le 107 (139)
T PF13935_consen 72 LLDELERAQQRIAELEQE-CENEDIALDVQKLRVELE 107 (139)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 334445566666666655 556666667777766553
No 135
>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family. Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.
Probab=35.63 E-value=1.7e+02 Score=21.10 Aligned_cols=40 Identities=15% Similarity=0.178 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
+..++..+..+..+......|.+++.....++..+.+|..
T Consensus 29 ~~a~~~~~~~~~~l~~~~~qL~~l~~~a~~~~~~Q~~Lr~ 68 (135)
T TIGR03495 29 ERANRVLKAQQAELASKANQLIVLLALAKRNEEAQAQLRQ 68 (135)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666777777777777777777777777776666644
No 136
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.82 E-value=1e+02 Score=24.49 Aligned_cols=38 Identities=16% Similarity=0.202 Sum_probs=24.4
Q ss_pred CCcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 6 AKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKE 45 (87)
Q Consensus 6 ~kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~ 45 (87)
..|-++||. +-..........+++.|...+.+++++++
T Consensus 40 ~~~~~~~~~--~~~~~~~~~~~~l~~Ql~~l~g~i~~L~~ 77 (262)
T COG1729 40 VEDRVTPLE--RVQNAHSYRLTQLEQQLRQLQGKIEELRG 77 (262)
T ss_pred ccccccccc--cccchhhhccHHHHHHHHHHHhhHHHHHh
Confidence 344555653 33444555667778888888888888775
No 137
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=34.74 E-value=1.2e+02 Score=19.13 Aligned_cols=12 Identities=17% Similarity=0.459 Sum_probs=8.3
Q ss_pred cCChhHHHHHHH
Q 034685 16 MFSVDDVQKAAK 27 (87)
Q Consensus 16 ~~~~~~~~~a~~ 27 (87)
.|+..|+.++..
T Consensus 38 ~y~~~dv~~l~~ 49 (91)
T cd04766 38 RYSERDIERLRR 49 (91)
T ss_pred eECHHHHHHHHH
Confidence 677777776653
No 138
>cd07649 F-BAR_GAS7 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Growth Arrest Specific protein 7. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Growth Arrest Specific protein 7 (GAS7) is mainly expressed in the brain and is required for neurite outgrowth. It may also play a role in the protection and migration of embryonic stem cells. Treatment-related acute myeloid leukemia (AML) has been reported resulting from mixed-lineage leukemia (MLL)-GAS7 translocations as a complication of primary cancer treatment. GAS7 contains an N-terminal SH3 domain, followed by a WW domain, and a central F-BAR domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=34.74 E-value=1.5e+02 Score=22.48 Aligned_cols=36 Identities=14% Similarity=0.048 Sum_probs=25.9
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
..|++++.++.+++..+-++.+.-++.++....||+
T Consensus 150 ~~s~~~~~K~~~K~~Ka~~e~~~~ve~y~~~r~~we 185 (233)
T cd07649 150 NKTEEDIKKARRKSTQAGDDLMRCVDLYNQAQSKWF 185 (233)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888888888888887777777776665555544
No 139
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=34.52 E-value=43 Score=19.92 Aligned_cols=39 Identities=13% Similarity=0.151 Sum_probs=26.9
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLIN 55 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~ 55 (87)
|+..++..+.......-+.+.+-|..|+.-..+...+..
T Consensus 24 ~~~~~i~~i~~~~~~~~~~~~~~L~~W~~~~~~~at~~~ 62 (83)
T PF00531_consen 24 LSESEIENIEEENPDLREQTYEMLQRWRQREGPNATVDQ 62 (83)
T ss_dssp S-HHHHHHHHHHSTSHHHHHHHHHHHHHHHHGSTSSHHH
T ss_pred cCHHHHHHHHHhCCChHHHHHHHHHHHHHhcCCCCcHHH
Confidence 778888888887766556777889999988444333333
No 140
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=34.47 E-value=1.3e+02 Score=19.43 Aligned_cols=27 Identities=19% Similarity=0.351 Sum_probs=15.7
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVK 44 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q 44 (87)
+.++...+.++++.++.+.+..|+.|+
T Consensus 33 ~~~e~~~~~~eL~~~l~~ie~~L~DL~ 59 (97)
T PF09177_consen 33 SSEELKWLKRELRNALQSIEWDLEDLE 59 (97)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666666655555544
No 141
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=34.41 E-value=1.6e+02 Score=20.43 Aligned_cols=20 Identities=15% Similarity=0.290 Sum_probs=12.7
Q ss_pred cCChhHHHHHHHHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDALLE 35 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~ 35 (87)
.|+++|++++--.++..+.+
T Consensus 2 ~FTl~EA~~lLP~l~~~~~~ 21 (120)
T PF09969_consen 2 YFTLEEANALLPLLRPILEE 21 (120)
T ss_pred ccCHHHHHHHHHHHHHHHHH
Confidence 57777777766655555543
No 142
>PLN02678 seryl-tRNA synthetase
Probab=34.35 E-value=1.5e+02 Score=24.98 Aligned_cols=21 Identities=10% Similarity=0.159 Sum_probs=14.7
Q ss_pred HHHHHHhhchhhcccccccccccc
Q 034685 52 NLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 52 ~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
.+.+.+..||.-++-+| |.|.
T Consensus 100 ~l~~~~~~iPNi~~~~V---P~G~ 120 (448)
T PLN02678 100 ALDAKLKTIGNLVHDSV---PVSN 120 (448)
T ss_pred HHHHHHHhCCCCCCccC---CCCC
Confidence 45567788888887775 5554
No 143
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=34.07 E-value=95 Score=27.00 Aligned_cols=33 Identities=18% Similarity=0.175 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHH-H---------HhHHHHHHHHhhc
Q 034685 28 RVQDALLEKQQELERVKEF-I---------SDNTNLINLVQKL 60 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~-~---------~Dy~~l~~~L~~L 60 (87)
++++.|.+.+++|.+|... . .+|++|.+.|..|
T Consensus 29 ~~~~~i~~L~~~l~~~~~~YY~~~~p~IsD~eYD~L~~eL~~L 71 (562)
T PRK08097 29 RAQEEIAALQQQLAQWDDAYWRQGKSEVDDEVYDQLRARLTQW 71 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHH
Confidence 4455688899999999883 3 4799999999765
No 144
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=33.92 E-value=1.5e+02 Score=23.07 Aligned_cols=39 Identities=15% Similarity=0.333 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHHHHHH-HhHHHHHHHHhh
Q 034685 21 DVQKAAKRVQDALLEKQQEL---ERVKEFI-SDNTNLINLVQK 59 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el---~~~q~~~-~Dy~~l~~~L~~ 59 (87)
-.+.+..+++++-++..++. .+.+... .||+.|.+-+.-
T Consensus 48 ~T~eLkNeLREVREELkEKmeEIKQIKdiMDKDFDKL~EFVEI 90 (205)
T PF15079_consen 48 GTQELKNELREVREELKEKMEEIKQIKDIMDKDFDKLHEFVEI 90 (205)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 34555555555555555444 4444433 488888877653
No 145
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=33.81 E-value=1.9e+02 Score=21.10 Aligned_cols=38 Identities=21% Similarity=0.287 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
.+++..+-....+..+++.++||+...-+.++.+++++
T Consensus 3 ~~~Le~ek~~~~~rI~~K~~~LqEL~~Q~va~knLv~R 40 (142)
T PF08781_consen 3 CEELEEEKQRRRERIKKKKEQLQELILQQVAFKNLVQR 40 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444455555555555555555555555443
No 146
>PRK08507 prephenate dehydrogenase; Validated
Probab=33.46 E-value=1.1e+02 Score=22.65 Aligned_cols=33 Identities=30% Similarity=0.397 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH--HhHHHHHHHHhh
Q 034685 27 KRVQDALLEKQQELERVKEFI--SDNTNLINLVQK 59 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~--~Dy~~l~~~L~~ 59 (87)
+.+.++|++.+.++++++... +|.+.+.+.|++
T Consensus 233 ~~~~~~l~~~~~~l~~~~~~l~~~d~~~~~~~~~~ 267 (275)
T PRK08507 233 ENVLEAIDEFIKELEQFKQLIENEDWEELEEWMEQ 267 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 346667777777777777766 466677776664
No 147
>cd07628 BAR_Atg24p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Atg24p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Atg24p is involved in membrane fusion events at the vacuolar surface during pexophagy. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=33.40 E-value=1.9e+02 Score=20.95 Aligned_cols=41 Identities=15% Similarity=0.178 Sum_probs=29.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
.+++..|.++.+........|+++|+..+.. .+...|..|.
T Consensus 125 ~~~ve~a~~~~e~f~~~~~~E~~rF~~~k~~--elk~~l~~~a 165 (185)
T cd07628 125 TDEVENAKETSDAFNKEVLKEYPNFERIKKQ--EIKDSLGALA 165 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHH
Confidence 4577778888888888888899999887753 4444444443
No 148
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=33.33 E-value=1.5e+02 Score=22.07 Aligned_cols=30 Identities=30% Similarity=0.434 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH--hHHHHHHHHh
Q 034685 29 VQDALLEKQQELERVKEFIS--DNTNLINLVQ 58 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~--Dy~~l~~~L~ 58 (87)
+.+.+++...++++|.+..+ |.++|.+.|+
T Consensus 226 ~~~~l~~~~~~L~~l~~~l~~~d~~~l~~~l~ 257 (258)
T PF02153_consen 226 LLEALDEFIKELNELREALEAGDEEELEELLE 257 (258)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHhc
Confidence 66777777777777777655 7788877765
No 149
>PF06584 DIRP: DIRP; InterPro: IPR010561 DIRP (Domain in Rb-related Pathway) is postulated to be involved in the Rb-related pathway, which is encoded by multiple eukaryotic genomes and is present in proteins including lin-9 of Caenorhabditis elegans, aly of Drosophila melanogaster and mustard weed. Studies of lin-9 and aly of fruit fly proteins containing DIRP suggest that this domain might be involved in development. Aly, lin-9, act in parallel to, or downstream of, activation of MAPK by the RTK-Ras signalling pathway.
Probab=33.26 E-value=51 Score=22.94 Aligned_cols=40 Identities=18% Similarity=0.321 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhH-HHHHHHHhhchhhccc
Q 034685 27 KRVQDALLEKQQELERVKEFISDN-TNLINLVQKLPEELHH 66 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy-~~l~~~L~~LPdkLsh 66 (87)
++-++.++.+++.+-++|+.+-.+ ..-.+.+..||+++.-
T Consensus 55 ~eER~~Le~~R~~iR~lQ~~~~~~~~~~~~~~~~lP~~iP~ 95 (109)
T PF06584_consen 55 EEEREELERKRQKIRQLQQRKFHDTELNSDLLEDLPDEIPL 95 (109)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccccchhhhhcCchhcCC
Confidence 345677888888888888888777 4445667777877653
No 150
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=33.20 E-value=73 Score=20.79 Aligned_cols=21 Identities=14% Similarity=0.243 Sum_probs=9.9
Q ss_pred HHHHHHHHhHHHHHHHHhhch
Q 034685 41 ERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 41 ~~~q~~~~Dy~~l~~~L~~LP 61 (87)
+++++..+..+.+.+|+++|=
T Consensus 42 ~~L~~L~~~a~rm~eRI~tLE 62 (75)
T TIGR02976 42 ALLQELYAKADRLEERIDTLE 62 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444445555555543
No 151
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=33.16 E-value=1.8e+02 Score=20.69 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
..+..+.++--++-+..|++||++.+.-.++-+++|.
T Consensus 45 ~~~~Ik~~ea~~e~~k~E~krL~~rkk~~e~~~~~Lk 81 (162)
T PF05565_consen 45 IAKVIKNLEADIEAIKAEIKRLQERKKSIENRIDRLK 81 (162)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555667777888888877766655555543
No 152
>KOG2829 consensus E2F-like protein [Transcription]
Probab=33.15 E-value=1.7e+02 Score=24.38 Aligned_cols=54 Identities=19% Similarity=0.295 Sum_probs=39.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh---cccccccccc
Q 034685 19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE---LHHGIMASSF 73 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk---Lsh~IMV~Pf 73 (87)
+.++..=+.+..+.|..+++.++.+.....-|.+|++|=...-++ =+-+|-. ||
T Consensus 134 v~~le~Er~k~~erI~kK~a~lqEl~~q~~~fknLV~RN~~~e~~~~~P~~~i~L-PF 190 (326)
T KOG2829|consen 134 VSELEEERKKRMERIKKKAAQLQELIEQVSAFKNLVQRNRHAESQGQPPSENIHL-PF 190 (326)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCCccccc-ce
Confidence 445555667777888888888888888888888998887776665 3444555 65
No 153
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=33.10 E-value=1.8e+02 Score=20.61 Aligned_cols=27 Identities=19% Similarity=0.334 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 33 LLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 33 i~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
|.+....|.+.+...+|.-.++++|+.
T Consensus 89 v~els~~L~~~~~lL~~~v~~ie~LN~ 115 (131)
T PF10158_consen 89 VNELSQQLSRCQSLLNQTVPSIETLNE 115 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456666777777777777777777764
No 154
>PF14735 HAUS4: HAUS augmin-like complex subunit 4
Probab=33.10 E-value=1e+02 Score=23.84 Aligned_cols=34 Identities=21% Similarity=0.382 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 034685 19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTN 52 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~ 52 (87)
++..+++++.++.++.+++++....+.--+.|+.
T Consensus 173 v~Al~~Ir~~L~~~~~~~e~~~~~a~~~L~~Ye~ 206 (238)
T PF14735_consen 173 VPALRKIRDHLEEAIEELEQELQKARQRLESYEG 206 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4466778888888887777776655554444443
No 155
>PF07443 HARP: HepA-related protein (HARP); InterPro: IPR010003 This entry represents a conserved region approximately 60 residues long within eukaryotic HepA-related protein (HARP). This exhibits single-stranded DNA-dependent ATPase activity, and is ubiquitously expressed in human and mouse tissues []. Family members may contain more than one copy of this region.; GO: 0004386 helicase activity, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0016568 chromatin modification, 0005634 nucleus
Probab=33.08 E-value=13 Score=23.26 Aligned_cols=24 Identities=21% Similarity=0.376 Sum_probs=20.2
Q ss_pred HHHHHHHHHHhHHHHHHHHhhchh
Q 034685 39 ELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 39 el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
.+..|.=-.+||+.|++.++.||.
T Consensus 26 ~Tr~W~F~L~Dy~~L~~~~~~l~~ 49 (55)
T PF07443_consen 26 KTRKWNFSLEDYSTLMKKVRNLPQ 49 (55)
T ss_pred cceeeeeeHHHHHHHHHHHhcCCc
Confidence 456788888999999999999964
No 156
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=32.95 E-value=1.4e+02 Score=19.24 Aligned_cols=41 Identities=22% Similarity=0.300 Sum_probs=15.6
Q ss_pred CChhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034685 17 FSVDDVQKAAKRV-QDALLEKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 17 ~~~~~~~~a~~~~-~~ai~~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
||.+++++..+.. .+...-.+++...++.-++..++.++.|
T Consensus 58 ~~l~~i~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l 99 (103)
T cd01106 58 FSLKEIKELLKDPSEDLLEALREQKELLEEKKERLDKLIKTI 99 (103)
T ss_pred CCHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444443333 2223333333333333333333444333
No 157
>PRK12765 flagellar capping protein; Provisional
Probab=32.70 E-value=1.7e+02 Score=25.38 Aligned_cols=56 Identities=18% Similarity=0.192 Sum_probs=33.1
Q ss_pred ccccccc--c-cCChhHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 8 GTVTSLS--S-MFSVDDVQKAAKRVQD--ALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 8 gt~tpl~--~-~~~~~~~~~a~~~~~~--ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
|+.+.|+ + .+..+++-..-...++ .+.....+.+.|+...++|..|...|..|-+.
T Consensus 4 g~isslGiGS~G~d~~~iv~qL~~aE~~~~~~~l~~~~~~~~~k~sa~~~l~s~L~~lq~a 64 (595)
T PRK12765 4 GSLSSLGFGSDGVLSQDTIDKLKEADQKAQIDPITTKIEENTTKQKDLTAIKTLLSNFKTS 64 (595)
T ss_pred ccccccccCCCCCCHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555554 4 4444444333333333 44556677777777788888887777777643
No 158
>KOG1301 consensus Vesicle trafficking protein Sly1 (Sec1 family) [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.53 E-value=73 Score=28.46 Aligned_cols=41 Identities=29% Similarity=0.404 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-------------HHHHhHHHHHHHHhhchhhc
Q 034685 24 KAAKRVQDALLEKQQELERVK-------------EFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q-------------~~~~Dy~~l~~~L~~LPdkL 64 (87)
.++.++++.+.+++.+-+..+ ...+|...|.+.+..||+-.
T Consensus 316 ~VAE~Ve~eL~~Yk~~~~ei~r~~G~sg~~e~~~~~~~Dtt~l~~aV~sLPEL~ 369 (621)
T KOG1301|consen 316 EVAENVEEELESYKNEEAEIKRKMGLSGEDEGAIDELNDTTKLQSAVSSLPELT 369 (621)
T ss_pred hHHHHHHHHHHHHHhhHHHHHhhcCCCcccccccccccchHHHHHHHHHhHHHH
Confidence 578889999999988888777 45689999999999999743
No 159
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=32.34 E-value=1e+02 Score=22.60 Aligned_cols=36 Identities=14% Similarity=0.102 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 25 AAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 25 a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
-.+-++...+..++-..+.|....|..+.-|+++.|
T Consensus 53 ~~~~lr~Rydrlr~va~rvQ~vlgd~At~gERl~al 88 (156)
T PF08372_consen 53 PPDSLRMRYDRLRSVAGRVQNVLGDVATQGERLQAL 88 (156)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455556666666667777777777777776654
No 160
>PF02050 FliJ: Flagellar FliJ protein; InterPro: IPR012823 Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects []. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export. The sequences of fliH, fliI and the adjacent gene, fliJ, have been deduced. FliJ was shown to encode a protein of molecular mass 17,302 Da []. It is a membrane-associated protein that affects chemotactic events, mutations in FliJ result in failure to respond to chemotactic stimuli.; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 bacterial-type flagellum, 0016020 membrane, 0044461 bacterial-type flagellum part; PDB: 3AJW_A.
Probab=32.23 E-value=1.2e+02 Score=18.46 Aligned_cols=32 Identities=16% Similarity=0.263 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNL 53 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l 53 (87)
..+......+.+..++.+++.++...++|..-
T Consensus 3 a~~~l~~~~~~~~~~~~~l~~L~~~~~~~~~~ 34 (123)
T PF02050_consen 3 AEQELAEAQQELQEAEEQLEQLQQERQEYQEQ 34 (123)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556666777777777777777777433
No 161
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=32.17 E-value=51 Score=22.09 Aligned_cols=26 Identities=27% Similarity=0.457 Sum_probs=20.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELER 42 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~ 42 (87)
+.-+|..+|++++++-|++-+..+.+
T Consensus 61 ~tFnDcpeA~~eL~~eI~eAK~dLr~ 86 (91)
T PF08285_consen 61 ATFNDCPEAAKELQKEIKEAKADLRK 86 (91)
T ss_pred hccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 44458888888888888888877754
No 162
>KOG4098 consensus Molecular chaperone Prefoldin, subunit 2 [Posttranslational modification, protein turnover, chaperones]
Probab=32.14 E-value=2.1e+02 Score=21.17 Aligned_cols=43 Identities=9% Similarity=0.159 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
.+.--.+.+++.+.+.++++-+|.--.+++.-++++|+.+-..
T Consensus 19 ~v~a~yn~~r~el~~ia~ki~~LE~d~~EH~lVi~tlk~~dp~ 61 (140)
T KOG4098|consen 19 AVVAKYNALRSELQQIASKITDLEMDLREHKLVIETLKDLDPT 61 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcChh
Confidence 3444457788888999999999999999999999999987544
No 163
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=31.92 E-value=1.6e+02 Score=19.75 Aligned_cols=20 Identities=5% Similarity=0.026 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHhHHHHHHH
Q 034685 37 QQELERVKEFISDNTNLINL 56 (87)
Q Consensus 37 ~~el~~~q~~~~Dy~~l~~~ 56 (87)
.+++++++.-..+.+++.+.
T Consensus 86 ~~~~~~l~~~~~~l~~~~~~ 105 (118)
T cd04776 86 EKRRAELEQQRRDIDAALAE 105 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33344444333333333333
No 164
>PRK03598 putative efflux pump membrane fusion protein; Provisional
Probab=31.65 E-value=2.3e+02 Score=21.49 Aligned_cols=38 Identities=3% Similarity=-0.162 Sum_probs=22.1
Q ss_pred HHhHHHHHHHHhhchhhcccccccccc-cccc---ccccccc
Q 034685 47 ISDNTNLINLVQKLPEELHHGIMASSF-WKSS---IFSWAFD 84 (87)
Q Consensus 47 ~~Dy~~l~~~L~~LPdkLsh~IMV~Pf-Gk~A---fmPG~Lv 84 (87)
..+.+.+...|..+=.+|+.-.+.+|| |... .-+|..|
T Consensus 184 ~~~l~~~~~~l~~a~~~l~~~~I~AP~dG~V~~~~~~~G~~V 225 (331)
T PRK03598 184 KASLAQAQAALAQAELNLQDTELIAPSDGTILTRAVEPGTML 225 (331)
T ss_pred HHHHHHHHHHHHHHHHHHhcCEEECCCCeEEEeccCCCCCCc
Confidence 344455555666666667666666688 5332 4455544
No 165
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=31.36 E-value=1.4e+02 Score=19.34 Aligned_cols=9 Identities=0% Similarity=0.442 Sum_probs=4.3
Q ss_pred CChhHHHHH
Q 034685 17 FSVDDVQKA 25 (87)
Q Consensus 17 ~~~~~~~~a 25 (87)
||.+++...
T Consensus 58 ~~l~ei~~~ 66 (102)
T cd04775 58 LPLEEIAGC 66 (102)
T ss_pred CCHHHHHHH
Confidence 445555443
No 166
>PRK09737 EcoKI restriction-modification system protein HsdS; Provisional
Probab=31.18 E-value=2.3e+02 Score=21.80 Aligned_cols=20 Identities=10% Similarity=0.243 Sum_probs=13.7
Q ss_pred ChhHHHHHHHHHHHHHHHHH
Q 034685 18 SVDDVQKAAKRVQDALLEKQ 37 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~ 37 (87)
+.+|++++++.+.+.+..++
T Consensus 160 pl~EQ~~I~~~Ld~~~~~i~ 179 (461)
T PRK09737 160 PIAEQKIIAEKLDTLLAQVD 179 (461)
T ss_pred CHHHHHHHHHHHHHHHHHHH
Confidence 45889999987766544443
No 167
>PF00213 OSCP: ATP synthase delta (OSCP) subunit; InterPro: IPR000711 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This family represents subunits called delta in bacterial and chloroplast ATPase, or OSCP (oligomycin sensitivity conferral protein) in mitochondrial ATPase (note that in mitochondria there is a different delta subunit, IPR001469 from INTERPRO). The OSCP/delta subunit appears to be part of the peripheral stalk that holds the F1 complex alpha3beta3 catalytic core stationary against the torque of the rotating central stalk, and links subunit A of the F0 complex with the F1 complex. In mitochondria, the peripheral stalk consists of OSCP, as well as F0 components F6, B and D. In bacteria and chloroplasts the peripheral stalks have different subunit compositions: delta and two copies of F0 component B (bacteria), or delta and F0 components B and B' (chloroplasts) [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0015986 ATP synthesis coupled proton transport; PDB: 2A7U_B 1ABV_A 2WSS_S 2BO5_A 2JMX_A.
Probab=31.17 E-value=18 Score=24.97 Aligned_cols=37 Identities=27% Similarity=0.458 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 25 AAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 25 a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
++++|..|+-++..+-..+..+.+|-+.+.+.+..-|
T Consensus 1 ia~~YA~AL~~~a~e~~~l~~v~~~l~~l~~~~~~~~ 37 (172)
T PF00213_consen 1 IAKRYAKALFELAKEEGKLDEVLEELQSLLEILKSNP 37 (172)
T ss_dssp HHHCHHHHHHHHCCCCTTHHHHHHHHHHH-HHHCCSC
T ss_pred CchHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcCH
Confidence 4678889998888887777777777777766666555
No 168
>PRK05758 F0F1 ATP synthase subunit delta; Validated
Probab=31.12 E-value=89 Score=21.83 Aligned_cols=38 Identities=18% Similarity=0.171 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
.+++++..|+.+...+...+..+.+|... .+.+..-|+
T Consensus 6 ~~a~~YA~AL~~~a~~~~~~~~v~~~l~~-~~~~~~~~~ 43 (177)
T PRK05758 6 TVARPYAKALFEVALEKGSLDAWSEELTF-LAEVAENED 43 (177)
T ss_pred hhHHHHHHHHHHHHHhcCCHHHHHHHHHH-HHHHhcCHH
Confidence 56788888888887777777777777777 666666554
No 169
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=31.11 E-value=1.7e+02 Score=19.81 Aligned_cols=34 Identities=12% Similarity=0.304 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 30 QDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
++.+.+.++++.+++...+.-+..++.....|+.
T Consensus 85 ~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~~~~ 118 (133)
T cd04787 85 EQRLAETERRIKELLKLRDRMQQAVSQWQQMPDG 118 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 4445555555556655555555555555555543
No 170
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=31.07 E-value=1.7e+02 Score=19.85 Aligned_cols=31 Identities=10% Similarity=0.072 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 28 RVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
-+++.+++.++++++++...+.-+.+++...
T Consensus 85 ~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 115 (131)
T TIGR02043 85 IVDAKLELVDEKINELTKIRRSLKKLSDACC 115 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444555555555555555555444444433
No 171
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=30.95 E-value=83 Score=20.59 Aligned_cols=21 Identities=14% Similarity=0.327 Sum_probs=10.2
Q ss_pred HHHHHHHHHhHHHHHHHHhhc
Q 034685 40 LERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 40 l~~~q~~~~Dy~~l~~~L~~L 60 (87)
.+++++..+..+.+.+|+++|
T Consensus 41 ~~~L~~L~~~a~rm~eRI~tL 61 (75)
T PF06667_consen 41 EQRLQELYEQAERMEERIETL 61 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444445555555554
No 172
>PRK14161 heat shock protein GrpE; Provisional
Probab=30.92 E-value=2e+02 Score=21.27 Aligned_cols=18 Identities=6% Similarity=0.111 Sum_probs=9.6
Q ss_pred HHHHHHHHhHHHHHHHHh
Q 034685 41 ERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 41 ~~~q~~~~Dy~~l~~~L~ 58 (87)
++|.....|+++..+|..
T Consensus 40 d~~lR~~AefeN~rkR~~ 57 (178)
T PRK14161 40 DKLIRTTAEIDNTRKRLE 57 (178)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344445566666665543
No 173
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.79 E-value=1.6e+02 Score=19.35 Aligned_cols=10 Identities=20% Similarity=0.561 Sum_probs=4.9
Q ss_pred CChhHHHHHH
Q 034685 17 FSVDDVQKAA 26 (87)
Q Consensus 17 ~~~~~~~~a~ 26 (87)
||.+|.....
T Consensus 58 ~sl~eI~~~l 67 (123)
T cd04770 58 FSLAEIRELL 67 (123)
T ss_pred CCHHHHHHHH
Confidence 4555554444
No 174
>cd07624 BAR_SNX7_30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 7 and 30. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX7, SNX30, and similar proteins. The specific functions of SNX7 and SNX30 have not been elucidated. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=30.77 E-value=1.3e+02 Score=21.87 Aligned_cols=29 Identities=24% Similarity=0.296 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFIS 48 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~ 48 (87)
.++..+.++++.+-.+.+.|++||+..+.
T Consensus 141 ~ev~~a~~~~e~~~~~~~~E~~rF~~~K~ 169 (200)
T cd07624 141 KEVEKLQDKLECANADLKADLERWKQNKR 169 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666777777777777888888876553
No 175
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=30.76 E-value=70 Score=19.65 Aligned_cols=24 Identities=4% Similarity=0.207 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 23 QKAAKRVQDALLEKQQELERVKEF 46 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~ 46 (87)
+..-+-++++|++..++|+.|++-
T Consensus 11 qe~~d~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 11 QEHYDNIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp ----THHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhHHHhHHHHHHHHHHHHHH
Confidence 345567888899888888888753
No 176
>cd07674 F-BAR_FCHO1 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of FCH domain Only 1 protein. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. FCH domain Only 1 (FCHO1) may be involved in clathrin-coated vesicle formation. It contains an N-terminal F-BAR domain and a C-terminal domain of unknown function named SAFF which is also present in FCHO2 and endophilin interacting protein 1. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules.
Probab=30.54 E-value=2.4e+02 Score=21.31 Aligned_cols=35 Identities=14% Similarity=0.159 Sum_probs=26.9
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
.+..++.|+..+.+.+-++.+..++.++..-.+|+
T Consensus 147 ~s~k~leK~~~K~~ka~~~y~~~~~ky~~~~~~~~ 181 (261)
T cd07674 147 VPQKELEKAELKTKKAAESLRGSVEKYNRARGDFE 181 (261)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888888887777777777777666665
No 177
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=30.49 E-value=87 Score=18.26 Aligned_cols=25 Identities=16% Similarity=0.218 Sum_probs=12.5
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQEL 40 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el 40 (87)
-|+.++..++.++++..|.+..++|
T Consensus 29 ~l~~e~~~~li~~~~~~i~~~~~~l 53 (54)
T PF04423_consen 29 PLDEEHRQELIKKYKSEIEELPEKL 53 (54)
T ss_dssp EE-HHHHHHHHHHHHHHHHHHHH--
T ss_pred CCCHHHHHHHHHHHHHHHHhhhhcc
Confidence 3555555666666655555555444
No 178
>COG3259 FrhA Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]
Probab=30.40 E-value=2.5e+02 Score=24.19 Aligned_cols=64 Identities=17% Similarity=0.165 Sum_probs=44.8
Q ss_pred ccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccccc-cccccccccccc
Q 034685 13 LSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSFW-KSSIFSWAFDTY 86 (87)
Q Consensus 13 l~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfG-k~AfmPG~Lv~~ 86 (87)
.++-+|.+...++.++.+++++-....++-..+..++|+.- .--|-++| |-| ...+--|.+..|
T Consensus 167 ~~~~lsee~~~~l~~~ake~~~lA~~~~e~~~~l~er~~~~---------~~~~~g~v-~~g~~~~~y~~~~~~~ 231 (441)
T COG3259 167 VAKNLSEEAREKLLDRAKEALELADRTVELFKELLERMEEE---------ESYHLGLV-KKGDHPEPYDGSIRAY 231 (441)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc---------ccceeccc-CCCcccccccceEEec
Confidence 34778899999999999999987777666666555555443 45677788 777 555555555443
No 179
>PHA02148 hypothetical protein
Probab=30.39 E-value=2e+02 Score=20.37 Aligned_cols=43 Identities=19% Similarity=0.203 Sum_probs=27.1
Q ss_pred CCCCCcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 3 EPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKE 45 (87)
Q Consensus 3 ~~~~kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~ 45 (87)
....+-|+|||--.=---++-.+.+.+++.|..-++.++++..
T Consensus 16 ~~~i~P~v~~~~i~~~k~~A~E~FK~iE~RIA~D~~~L~~~A~ 58 (110)
T PHA02148 16 KTKIEPTVTPLPISDLKVEAFELFKKIEERIAHDQTRLEELAK 58 (110)
T ss_pred ccccCCCCCCCChhHHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence 3456778898751111224557788888888777777766543
No 180
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=30.24 E-value=26 Score=20.81 Aligned_cols=36 Identities=22% Similarity=0.306 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh-chhh
Q 034685 28 RVQDALLEKQQELERVKEFISDNTNLINLVQK-LPEE 63 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~-LPdk 63 (87)
..++.+..+++.-+.+..|.+.++.|...+.. +++.
T Consensus 48 ~~~~~l~~l~Q~~esv~~y~~rf~~l~~~~~~~~~e~ 84 (96)
T PF03732_consen 48 QARQELNSLRQGNESVREYVNRFRELARRAPPPMDEE 84 (96)
T ss_pred cchhhhhhhhccCCcHHHHHHHHHHHHHHCCCCcCHH
Confidence 34455666767778888899999988888875 5543
No 181
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=30.17 E-value=2.3e+02 Score=20.97 Aligned_cols=41 Identities=15% Similarity=0.077 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
.+-.+...-++.++.....-+.+|+...++......++.+|
T Consensus 102 ~eY~r~i~svk~~f~~R~~a~~~~q~a~~~l~kkr~~~~Kl 142 (224)
T cd07623 102 KDYIGLIGAIKDVFHERVKVWQNWQNAQQTLTKKREAKAKL 142 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35555556666777777777777777777777777776666
No 182
>PRK01773 hscB co-chaperone HscB; Provisional
Probab=29.92 E-value=1.9e+02 Score=21.18 Aligned_cols=39 Identities=10% Similarity=0.095 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
++.++.+++++.+.+|.+++...=. ..||+.....+.+|
T Consensus 115 ~L~~l~~~v~~~~~~~~~~l~~~~~-~~d~~~A~~~~~rL 153 (173)
T PRK01773 115 ALTAFSKEIKQEQQAILTELSTALN-SQQWQQASQINDRL 153 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh-cCCHHHHHHHHHHH
Confidence 3555566666677666666654322 24666666655544
No 183
>cd07658 F-BAR_NOSTRIN The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Nitric Oxide Synthase TRaffic INducer (NOSTRIN). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Nitric Oxide Synthase TRaffic INducer (NOSTRIN) is expressed in endothelial and epithelial cells and is involved in the regulation, trafficking and targeting of endothelial NOS (eNOS). NOSTRIN facilitates the endocytosis of eNOS by coordinating the functions of dynamin and the Wiskott-Aldrich syndrome protein (WASP). Increased expression of NOSTRIN may be correlated to preeclampsia. NOSTRIN contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce membrane deformation in the form of long tubules. The F-BAR domain of NOSTRIN is necessary and sufficient fo
Probab=29.79 E-value=1.5e+02 Score=22.27 Aligned_cols=31 Identities=0% Similarity=0.054 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
.+++..++..+++..++|. ++|....+.|+.
T Consensus 173 ~~Kl~~k~~ka~~~~~k~e---~~y~~~~~~l~~ 203 (239)
T cd07658 173 DEKLEAKRKKGEESRLKAE---NEYYTCCVRLER 203 (239)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence 3445555555555555544 566666655554
No 184
>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=29.78 E-value=66 Score=23.43 Aligned_cols=33 Identities=6% Similarity=0.268 Sum_probs=25.0
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVKEFISD 49 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~D 49 (87)
-.|+++..++.. +.+.|...++.+..++.++++
T Consensus 29 tysp~~l~~i~~-~~~~i~~~~~r~~eLk~lI~k 61 (142)
T TIGR03042 29 TYSPAQLAQIQR-QAEGIEAAKDRLPELASLVAK 61 (142)
T ss_pred CCCHHHHHHHHH-HHHHHHHHHHhhHHHHHHHhh
Confidence 378888888764 455678888888888888764
No 185
>PRK10337 sensor protein QseC; Provisional
Probab=29.72 E-value=1.5e+02 Score=22.62 Aligned_cols=38 Identities=11% Similarity=0.145 Sum_probs=23.2
Q ss_pred cccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 8 GTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKE 45 (87)
Q Consensus 8 gt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~ 45 (87)
|.-.++......+|+..+++.+.+-+++.++.+++-+.
T Consensus 202 ~~~~~~~~~~~~~Ei~~l~~~~n~~~~~l~~~~~~~~~ 239 (449)
T PRK10337 202 DSETPLNATGVPSEVRPLVEALNQLFARTHAMMVRERR 239 (449)
T ss_pred CCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444544455677777777777777666665555443
No 186
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=29.56 E-value=97 Score=24.08 Aligned_cols=31 Identities=16% Similarity=0.367 Sum_probs=21.5
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHHH
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELER 42 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~~ 42 (87)
.|+|.++.++.++-..++.+.+..+++.|+.
T Consensus 111 ~L~s~Lt~eemQe~i~~L~kev~~~~erl~~ 141 (201)
T KOG4603|consen 111 ELSSALTTEEMQEEIQELKKEVAGYRERLKN 141 (201)
T ss_pred HHHHhcChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778888888887777777666555555443
No 187
>PF10400 Vir_act_alpha_C: Virulence activator alpha C-term; InterPro: IPR018309 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response []. This entry represents the C-terminal domain.; PDB: 1YG2_A.
Probab=29.15 E-value=1.4e+02 Score=18.17 Aligned_cols=23 Identities=13% Similarity=0.257 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 034685 24 KAAKRVQDALLEKQQELERVKEF 46 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~ 46 (87)
.+.+.+++-+..|+++++.+++.
T Consensus 21 ~~~~~l~~~~~~~~~~l~~~~~~ 43 (90)
T PF10400_consen 21 EAIELLEERREQHEERLAEYEEI 43 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555554443
No 188
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=29.15 E-value=2.1e+02 Score=20.29 Aligned_cols=16 Identities=19% Similarity=0.318 Sum_probs=6.5
Q ss_pred HhHHHHHHHHhhchhh
Q 034685 48 SDNTNLINLVQKLPEE 63 (87)
Q Consensus 48 ~Dy~~l~~~L~~LPdk 63 (87)
.|-+.+...+..|-.|
T Consensus 103 ~dv~~v~~~V~~Le~k 118 (126)
T PF07889_consen 103 DDVDSVQQMVEGLEGK 118 (126)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444444333
No 189
>cd07666 BAR_SNX7 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 7. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. The specific function of SNX7 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=29.07 E-value=1.4e+02 Score=23.23 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFI 47 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~ 47 (87)
.|+.++-++++++=...+.+++||+..+
T Consensus 184 ~ev~~~e~kve~a~~~~k~e~~Rf~~~k 211 (243)
T cd07666 184 EEIEKLEDKVECANNALKADWERWKQNM 211 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677788888888888899999998765
No 190
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=28.76 E-value=1.9e+02 Score=19.56 Aligned_cols=27 Identities=7% Similarity=0.250 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 034685 29 VQDALLEKQQELERVKEFISDNTNLIN 55 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~Dy~~l~~ 55 (87)
+++.+++..+++++++...+..+.+..
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T TIGR02047 84 LDEHISHVRARIIKLQALIEQLVDLRG 110 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555444433
No 191
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=28.72 E-value=1.9e+02 Score=19.57 Aligned_cols=36 Identities=14% Similarity=0.267 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
.+...++.-|.+.+++++.++.+.++++...+....
T Consensus 15 ~l~~~L~~Yi~~~~~kl~~l~~~~~~~~~~~~~~~~ 50 (134)
T PF08336_consen 15 ELISNLRNYIEELQEKLDTLKRFLDEMKREHEKAKS 50 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 456777888889999999999999999888776665
No 192
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=28.70 E-value=1.2e+02 Score=25.49 Aligned_cols=36 Identities=22% Similarity=0.494 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHhh-chhhcc
Q 034685 30 QDALLEKQQELERVKEFISDNTNLINLVQK-LPEELH 65 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~-LPdkLs 65 (87)
++.+.+.+.++..++....+--.|...+++ ||+.|.
T Consensus 197 ~e~l~~l~~~~~~l~~~~~~iP~l~~~~~~~~P~ql~ 233 (569)
T PRK04778 197 REILDQLEEELAALEQIMEEIPELLKELQTELPDQLQ 233 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 345566777777888888888777777777 888764
No 193
>PHA03386 P10 fibrous body protein; Provisional
Probab=28.66 E-value=1.6e+02 Score=20.48 Aligned_cols=39 Identities=18% Similarity=0.124 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
+.+.+.+-+++...|+.+..++.-.+-.+++-..|.+|-
T Consensus 11 r~dIkavd~KVdaLQ~qV~dv~~n~~~LDa~~~qL~~l~ 49 (94)
T PHA03386 11 LDAVQEVDTKVDALQTQLNGLEEDSQPLDGLPAQLTELD 49 (94)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHhcchhhhhHHHHHHHHH
Confidence 445555555555555555555544333334444444433
No 194
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=28.65 E-value=1.9e+02 Score=22.01 Aligned_cols=44 Identities=16% Similarity=0.206 Sum_probs=30.1
Q ss_pred ccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034685 13 LSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 13 l~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
++.+=+.+++.++.++.+..|.+|.+++-.-=.-+. |.+....+
T Consensus 108 IS~~~De~~l~~lk~q~q~ri~q~~~qlge~~esk~-~~~Al~~i 151 (168)
T KOG3192|consen 108 ISEMDDEEDLKQLKSQNQERIAQCKQQLGEAFESKK-YDEALKKI 151 (168)
T ss_pred HHhccCcHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-HHHHHHHH
Confidence 344556677888999999999999888876555444 44443333
No 195
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=28.60 E-value=2.6e+02 Score=23.12 Aligned_cols=51 Identities=10% Similarity=0.115 Sum_probs=29.8
Q ss_pred ccccCChhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 13 LSSMFSVDDVQ-KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 13 l~~~~~~~~~~-~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
|++=+..+++- .+.+.-+..+...+++.+.++.-.+.|..|...|..|-+.
T Consensus 9 lgSGld~~~iv~~L~~ae~~~~~~l~~~~~~~~~k~sa~~~l~s~L~~~~~a 60 (462)
T PRK08032 9 VGSGLDLDSLLDSLTAAEKKRLTPITNQQSSYTAKLTAYGTLKSALEKFQTA 60 (462)
T ss_pred cccCcCHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555432 2222223345556666777777778888887777776654
No 196
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=28.59 E-value=2.1e+02 Score=20.05 Aligned_cols=9 Identities=33% Similarity=0.789 Sum_probs=4.0
Q ss_pred CChhHHHHH
Q 034685 17 FSVDDVQKA 25 (87)
Q Consensus 17 ~~~~~~~~a 25 (87)
||.+|....
T Consensus 65 ~sL~eI~~l 73 (144)
T PRK13752 65 FSLDEIAEL 73 (144)
T ss_pred CCHHHHHHH
Confidence 444444443
No 197
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=28.59 E-value=1.6e+02 Score=20.48 Aligned_cols=48 Identities=15% Similarity=0.257 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGI 68 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~I 68 (87)
......+.++..+.+..+++..++....+..+=++.+..==..|+|.+
T Consensus 41 ~Q~~~~~~~~~~l~~i~~~l~~L~~~~~~~~~rl~~~r~r~~~L~hR~ 88 (141)
T PF13874_consen 41 AQEEEIAQHRERLKEINDKLEELQKHDLETSARLEEARRRHQELSHRL 88 (141)
T ss_dssp -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566666666666666665544443333333333333444443
No 198
>PLN02320 seryl-tRNA synthetase
Probab=28.55 E-value=1.9e+02 Score=24.89 Aligned_cols=21 Identities=19% Similarity=0.186 Sum_probs=14.3
Q ss_pred HHHHHHhhchhhcccccccccccc
Q 034685 52 NLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 52 ~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
.+.+.+..||.-++-+| |.|+
T Consensus 159 ~l~~~~l~iPN~~h~~V---P~G~ 179 (502)
T PLN02320 159 ELQLEAQSIPNMTHPDV---PVGG 179 (502)
T ss_pred HHHHHHHhCCCCCCccC---CCCC
Confidence 35667788887777765 6664
No 199
>PRK13879 conjugal transfer protein TrbJ; Provisional
Probab=28.43 E-value=2.3e+02 Score=22.23 Aligned_cols=31 Identities=6% Similarity=0.183 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 32 ALLEKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 32 ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
.+.....++++++.-+.-|++...+|..||.
T Consensus 46 ~v~q~~~Qi~Qlq~Qiqqy~nql~Nl~~lp~ 76 (253)
T PRK13879 46 SVAQTLKQIEQYQTQLQQYENMLQNTMAPAA 76 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCCCH
Confidence 3444556667777777777787788888875
No 200
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=28.38 E-value=60 Score=19.20 Aligned_cols=22 Identities=23% Similarity=0.524 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 034685 22 VQKAAKRVQDALLEKQQELERV 43 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~ 43 (87)
.++..++.++.+++++.+++++
T Consensus 46 ~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 46 LRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3455555666666666665543
No 201
>PRK15312 antimicrobial resistance protein Mig-14; Provisional
Probab=28.29 E-value=49 Score=26.97 Aligned_cols=63 Identities=19% Similarity=0.170 Sum_probs=45.4
Q ss_pred CcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hHHHHHHHHhhchhhccccccccccccccccccccc
Q 034685 7 KGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFIS--DNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFD 84 (87)
Q Consensus 7 kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~--Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv 84 (87)
-|.+-|++ -||++|+..+-..+=+ .||..-.. +.+.+++.+..|++- .||..-|+.|+-+
T Consensus 154 GG~v~~is-~fS~~Ela~iY~~Lf~---------~Rwg~~~~~~~~~~l~e~f~~Lr~l--------~fG~VLfl~~~Pc 215 (298)
T PRK15312 154 GGSVKSVA-DCSSDELTHIFIELFR---------SRFGNTLSCYPADNLANFFSQLRHL--------LFGHILYIEGIPC 215 (298)
T ss_pred CCEEEEhH-HCCHHHHHHHHHHHHH---------HHhCCCCCcccHHHHHHHHHHhHHh--------heeeEEEECCcce
Confidence 46777766 4888887766555433 38887776 888999999999873 4777777777766
Q ss_pred ccC
Q 034685 85 TYQ 87 (87)
Q Consensus 85 ~~~ 87 (87)
.+|
T Consensus 216 A~q 218 (298)
T PRK15312 216 AFD 218 (298)
T ss_pred EEE
Confidence 554
No 202
>cd06534 ALDH-SF NAD(P)+-dependent aldehyde dehydrogenase superfamily. The aldehyde dehydrogenase superfamily (ALDH-SF) of NAD(P)+-dependent enzymes, in general, oxidize a wide range of endogenous and exogenous aliphatic and aromatic aldehydes to their corresponding carboxylic acids and play an important role in detoxification. Besides aldehyde detoxification, many ALDH isozymes possess multiple additional catalytic and non-catalytic functions such as participating in metabolic pathways, or as binding proteins, or osmoregulants, to mention a few. The enzyme has three domains, a NAD(P)+ cofactor-binding domain, a catalytic domain, and a bridging domain; and the active enzyme is generally either homodimeric or homotetrameric. The catalytic mechanism is proposed to involve cofactor binding, resulting in a conformational change and activation of an invariant catalytic cysteine nucleophile. The cysteine and aldehyde substrate form an oxyanion thiohemiacetal intermediate resulting in hydri
Probab=28.23 E-value=2.7e+02 Score=21.21 Aligned_cols=27 Identities=19% Similarity=0.368 Sum_probs=16.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERV 43 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~ 43 (87)
++.++-.+...++.+.+.+..+++.+.
T Consensus 13 ~~~~~R~~~l~~l~~~l~~~~~~l~~~ 39 (367)
T cd06534 13 LPPAERAAILRKIADLLEERREELAAL 39 (367)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666666666555544
No 203
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=28.06 E-value=1.3e+02 Score=21.43 Aligned_cols=46 Identities=22% Similarity=0.265 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHH 66 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh 66 (87)
++.++.....+....++.-++++....+.-.-+++-++.+-+.|..
T Consensus 17 eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~ 62 (147)
T PF05659_consen 17 ELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDR 62 (147)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCC
Confidence 6666666677777777778888888877777777777766665554
No 204
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=28.01 E-value=2.3e+02 Score=23.78 Aligned_cols=35 Identities=23% Similarity=0.376 Sum_probs=26.3
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELER-VKEFISDNT 51 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~-~q~~~~Dy~ 51 (87)
++.+++.....++..+|++.+.++.. .++-..|+.
T Consensus 7 l~~edl~~~I~~L~~~i~~~k~eV~~~I~~~y~df~ 42 (593)
T PF06248_consen 7 LSKEDLRKSISRLSRRIEELKEEVHSMINKKYSDFS 42 (593)
T ss_pred CCHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56889999999999999999988863 344444443
No 205
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=27.98 E-value=23 Score=29.44 Aligned_cols=18 Identities=28% Similarity=0.457 Sum_probs=13.1
Q ss_pred Hhhchhh--cccccccccccc
Q 034685 57 VQKLPEE--LHHGIMASSFWK 75 (87)
Q Consensus 57 L~~LPdk--Lsh~IMV~PfGk 75 (87)
+.+.|++ +.|+||| |++.
T Consensus 67 ~g~v~e~~~~~h~imv-p~~~ 86 (369)
T cd01134 67 LGTVPENSLIEHKIMV-PPRV 86 (369)
T ss_pred EEEEecCCceeeEEeC-CCCC
Confidence 4455543 6899999 9965
No 206
>PRK14141 heat shock protein GrpE; Provisional
Probab=27.80 E-value=2e+02 Score=21.97 Aligned_cols=29 Identities=14% Similarity=0.165 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
..+++.+.+.+..+ .....|++++.+|..
T Consensus 41 ~~le~e~~elkd~~---lR~~Ae~eN~RKR~~ 69 (209)
T PRK14141 41 EALKAENAELKDRM---LRLAAEMENLRKRTQ 69 (209)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence 34444444444333 334456666655544
No 207
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=27.76 E-value=78 Score=22.21 Aligned_cols=13 Identities=23% Similarity=0.353 Sum_probs=8.3
Q ss_pred HHHHHHHhhchhh
Q 034685 51 TNLINLVQKLPEE 63 (87)
Q Consensus 51 ~~l~~~L~~LPdk 63 (87)
+.+++|++.||+.
T Consensus 81 ~~lqkRle~l~~e 93 (104)
T PF11460_consen 81 EELQKRLEELSPE 93 (104)
T ss_pred HHHHHHHHhCCHH
Confidence 3567777777653
No 208
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=27.76 E-value=1.2e+02 Score=19.97 Aligned_cols=14 Identities=21% Similarity=0.347 Sum_probs=5.7
Q ss_pred HHHhhchhhccccc
Q 034685 55 NLVQKLPEELHHGI 68 (87)
Q Consensus 55 ~~L~~LPdkLsh~I 68 (87)
..+...-+-|+.++
T Consensus 56 ~~V~~I~~iL~~~~ 69 (75)
T PF05531_consen 56 TKVNEIQDILNPDI 69 (75)
T ss_pred HHHHHHHHHhCCcc
Confidence 33344444444443
No 209
>PRK00182 tatB sec-independent translocase; Provisional
Probab=27.68 E-value=2.5e+02 Score=20.92 Aligned_cols=37 Identities=16% Similarity=0.269 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
+.++..++++.+.+.++++++ ++..|++.+.+-|+.|
T Consensus 33 lg~~ir~~R~~~~~~k~el~~--Elg~e~~elrk~l~~l 69 (160)
T PRK00182 33 VRAALLAARTAINNAKQQLDG--DFGEEFDEFRKPLNQI 69 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHhhHHHHHHHHHHHH
Confidence 444455555555555555544 2334555665555543
No 210
>PRK08474 F0F1 ATP synthase subunit delta; Validated
Probab=27.54 E-value=1.2e+02 Score=21.64 Aligned_cols=34 Identities=24% Similarity=0.227 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
.++++|.+|+.+..+ -..+.++.+|...+.+.++
T Consensus 4 ~va~~YA~ALf~~a~-~~~l~~v~~~l~~l~~~~~ 37 (176)
T PRK08474 4 LIAKRYAKALLSSLS-SDELNDIYSNLKILSSAFA 37 (176)
T ss_pred hhHHHHHHHHHHHHh-cCcHHHHHHHHHHHHHHHC
Confidence 356777777777753 3566666666666666664
No 211
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=27.35 E-value=1.5e+02 Score=18.08 Aligned_cols=36 Identities=11% Similarity=0.208 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHH 66 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh 66 (87)
..+++.++..+.++++||.-.+-|.. ..-+|+-.++
T Consensus 2 ~aLrqQv~aL~~qv~~Lq~~fs~yKK----a~lFp~G~~V 37 (46)
T PF09006_consen 2 NALRQQVEALQGQVQRLQAAFSQYKK----AELFPNGRSV 37 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHTTTEEEE
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH----HHHCCCchhh
Confidence 45788899999999999988877764 3456665544
No 212
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=27.18 E-value=1.4e+02 Score=18.02 Aligned_cols=45 Identities=20% Similarity=0.176 Sum_probs=28.5
Q ss_pred CChhHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 17 FSVDDVQKAAKRVQ-DALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 17 ~~~~~~~~a~~~~~-~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
|+..++..+..... ..-+.+.+-|..|..-..+..++.++++.|-
T Consensus 29 ~~~~~i~~i~~~~~~~~~~~~~~lL~~W~~~~g~~at~~~L~~aL~ 74 (88)
T smart00005 29 LSEADIDQIRTEAPRDLAEQSVQLLRLWEQREGKNATLGTLLEALR 74 (88)
T ss_pred CCHHHHHHHHHHCCCCHHHHHHHHHHHHHHccchhhHHHHHHHHHH
Confidence 56667777766654 3446777888999876665445555544443
No 213
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=27.17 E-value=2.5e+02 Score=20.51 Aligned_cols=43 Identities=16% Similarity=0.196 Sum_probs=31.2
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
+..|-.+...-++.++.....-...|+...++.......+.+|
T Consensus 92 ~L~ey~r~~~Svk~~~~~R~~~~~~~~~~~~~L~k~~~~~~Kl 134 (216)
T cd07627 92 TLDEYIRSIGSVRAAFAQRQKLWQYWQSAESELSKKKAQLEKL 134 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3446666667777777777777778888888887777777766
No 214
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=27.16 E-value=1.6e+02 Score=18.20 Aligned_cols=47 Identities=17% Similarity=0.360 Sum_probs=35.9
Q ss_pred ccccCChhHH------HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 13 LSSMFSVDDV------QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 13 l~~~~~~~~~------~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
++.+||.+.+ ...-+++-.++.+..+-+..-......|..|+.+|+.
T Consensus 6 ~~~vip~~~~~~W~~L~~~l~rY~~vL~~R~~l~~e~~~L~~qN~eLr~lLkq 58 (60)
T PF14775_consen 6 LANVIPDEKIRLWDALENFLKRYNKVLLDRAALIQEKESLEQQNEELRSLLKQ 58 (60)
T ss_pred HhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556665543 4567788888888888888888889999999998863
No 215
>PF07011 DUF1313: Protein of unknown function (DUF1313); InterPro: IPR009741 This family consists of several hypothetical plant proteins of around 100 residues in length. The function of this family is unknown.
Probab=27.16 E-value=1.4e+02 Score=20.48 Aligned_cols=38 Identities=21% Similarity=0.398 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHh-----hchhhcccccc
Q 034685 32 ALLEKQQELERVKEFISDNTNLINLVQ-----KLPEELHHGIM 69 (87)
Q Consensus 32 ai~~~~~el~~~q~~~~Dy~~l~~~L~-----~LPdkLsh~IM 69 (87)
++...+.-..+.|..-+-|..||+-++ +.||.|+-+|.
T Consensus 7 ~~~tf~~sF~qVQ~iLDqNR~LI~eINqNHeSr~PdnL~RNV~ 49 (87)
T PF07011_consen 7 VWQTFQKSFVQVQSILDQNRLLINEINQNHESRIPDNLSRNVG 49 (87)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHhhcccccCCchhhHhHH
Confidence 344445555566666666777777664 68888887765
No 216
>KOG3501 consensus Molecular chaperone Prefoldin, subunit 1 [Posttranslational modification, protein turnover, chaperones]
Probab=26.94 E-value=71 Score=22.90 Aligned_cols=39 Identities=15% Similarity=0.302 Sum_probs=30.7
Q ss_pred cccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 10 VTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFIS 48 (87)
Q Consensus 10 ~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~ 48 (87)
-|+++.+|=..+-.-...++++...+.++.|+.||+-++
T Consensus 53 Y~svgrmF~l~dk~a~~s~leak~k~see~IeaLqkkK~ 91 (114)
T KOG3501|consen 53 YTSVGRMFMLSDKAAVRSHLEAKMKSSEEKIEALQKKKT 91 (114)
T ss_pred HHHHHHHHHcCcHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 467888888888888888888888888888888876543
No 217
>PRK04192 V-type ATP synthase subunit A; Provisional
Probab=26.51 E-value=26 Score=30.74 Aligned_cols=12 Identities=33% Similarity=0.268 Sum_probs=10.5
Q ss_pred ccccccccccccc
Q 034685 64 LHHGIMASSFWKS 76 (87)
Q Consensus 64 Lsh~IMV~PfGk~ 76 (87)
+.|.||| |+|..
T Consensus 145 ~~h~imv-p~~~~ 156 (586)
T PRK04192 145 IEHKIMV-PPGVS 156 (586)
T ss_pred eeeeeec-CCCCc
Confidence 6899999 99874
No 218
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=26.47 E-value=1.1e+02 Score=26.95 Aligned_cols=37 Identities=16% Similarity=0.308 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHH-HH---------HhHHHHHHHHhhchhh
Q 034685 27 KRVQDALLEKQQELERVKE-FI---------SDNTNLINLVQKLPEE 63 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~-~~---------~Dy~~l~~~L~~LPdk 63 (87)
+++++.|.+++++|.+|.. +. .+|++|.+.|..|=.+
T Consensus 3 ~~~~~~i~~L~~~i~~~~~~YY~~~~p~IsD~~YD~L~~eL~~lE~~ 49 (669)
T PRK14350 3 KDIQDEILDLKKLIRKWDKEYYVDSSPSVEDFTYDKALLRLQELESK 49 (669)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHHHHh
Confidence 4456679999999999998 33 4699999999766544
No 219
>PRK09458 pspB phage shock protein B; Provisional
Probab=26.46 E-value=1.1e+02 Score=20.30 Aligned_cols=19 Identities=16% Similarity=0.323 Sum_probs=8.0
Q ss_pred HHHHHHHhHHHHHHHHhhc
Q 034685 42 RVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 42 ~~q~~~~Dy~~l~~~L~~L 60 (87)
++++..++-+.+.+|+++|
T Consensus 43 ~L~~L~~~A~rm~~RI~tL 61 (75)
T PRK09458 43 RLAQLTEKAERMRERIQAL 61 (75)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333444444444444
No 220
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=26.38 E-value=1.4e+02 Score=21.57 Aligned_cols=30 Identities=13% Similarity=0.151 Sum_probs=18.6
Q ss_pred HHHHHHHHhhchhhccccccccccccccccc
Q 034685 50 NTNLINLVQKLPEELHHGIMASSFWKSSIFS 80 (87)
Q Consensus 50 y~~l~~~L~~LPdkLsh~IMV~PfGk~AfmP 80 (87)
.-.-+..+..--|++.|+|.- -+-+..|+|
T Consensus 48 ~~~~I~~lE~eaD~i~~~i~~-~L~~~fitP 77 (216)
T TIGR00153 48 LRKEIIEIEHEADEIKREIRL-NLEKGAFLP 77 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-hCcccccCc
Confidence 334455566667778887776 555555555
No 221
>PF05227 CHASE3: CHASE3 domain; InterPro: IPR007891 CHASE3 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are upstream of signal transduction pathways in bacteria. Specifically, CHASE3 domains are found in histidine kinases, adenylate cyclases, methyl-accepting chemotaxis proteins and predicted diguanylate cyclases/phosphodiesterases. Environmental factors that are recognised by CHASE3 domains are not known at this time [].; PDB: 3VA9_A.
Probab=26.28 E-value=1.8e+02 Score=18.53 Aligned_cols=17 Identities=18% Similarity=0.378 Sum_probs=6.5
Q ss_pred HHHHHHHHhHHHHHHHH
Q 034685 41 ERVKEFISDNTNLINLV 57 (87)
Q Consensus 41 ~~~q~~~~Dy~~l~~~L 57 (87)
+.++...+.|..+.+.+
T Consensus 73 ~~l~~~~~~~~~~~~~~ 89 (138)
T PF05227_consen 73 DQLEELIDQWRELLEPQ 89 (138)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333334443333333
No 222
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=26.28 E-value=2.1e+02 Score=26.45 Aligned_cols=28 Identities=11% Similarity=0.133 Sum_probs=14.0
Q ss_pred HHHhHHHHHHHHhhchhhccccccccccc
Q 034685 46 FISDNTNLINLVQKLPEELHHGIMASSFW 74 (87)
Q Consensus 46 ~~~Dy~~l~~~L~~LPdkLsh~IMV~PfG 74 (87)
.+...++.+..+.+|-..-+.+.-. ||-
T Consensus 133 Lk~~ieqaq~~~~El~~~n~pkl~L-P~s 160 (907)
T KOG2264|consen 133 LKGEIEQAQRQLEELRETNNPKLFL-PFS 160 (907)
T ss_pred HHhHHHHHHHHHHHHHhhcCCceee-ccc
Confidence 3444445555555555555555555 553
No 223
>PF08295 Sin3_corepress: Sin3 family co-repressor; InterPro: IPR013194 This domain is found on transcriptional regulators. It forms interactions with histone deacetylases [].
Probab=26.24 E-value=1.6e+02 Score=20.01 Aligned_cols=39 Identities=23% Similarity=0.415 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
..+++++..|.++.-.+--.++-+.+.|+.|..|-.++.
T Consensus 54 nqyEE~lf~~EDeR~E~D~~ie~~~~tI~~Le~l~~~i~ 92 (101)
T PF08295_consen 54 NQYEEALFRCEDERFELDMLIESNRSTIKLLEELQEKIQ 92 (101)
T ss_pred hHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 678999999999888888888888888988888877765
No 224
>COG3159 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.15 E-value=2.4e+02 Score=22.15 Aligned_cols=38 Identities=21% Similarity=0.303 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
+.-.+.+++|.+..+++..+.+....|+.+.-++-.|-
T Consensus 45 ~ql~r~R~~~~~Le~~l~~L~~~A~~N~~lf~r~~~lq 82 (218)
T COG3159 45 RQLARLRNRIRELEEELAALMENARANERLFYRLHALQ 82 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 44456677777777777777777777777666554443
No 225
>PF08887 GAD-like: GAD-like domain; InterPro: IPR014983 This domain is functionally uncharacterised, but it appears to be distantly related to the GAD domain IPR004115 from INTERPRO.
Probab=26.08 E-value=53 Score=22.49 Aligned_cols=30 Identities=13% Similarity=0.074 Sum_probs=21.1
Q ss_pred HhHHHHHHHHh---hchh-hcccccccccccccc
Q 034685 48 SDNTNLINLVQ---KLPE-ELHHGIMASSFWKSS 77 (87)
Q Consensus 48 ~Dy~~l~~~L~---~LPd-kLsh~IMV~PfGk~A 77 (87)
+||+.+.+..- .+++ +-+|-||+|.||..=
T Consensus 59 ~dy~~vl~~~~~~~~~~~~~~~~~ia~tAFGdl~ 92 (109)
T PF08887_consen 59 DDYEDVLDEWLGGTPLFDPDNYIPIARTAFGDLY 92 (109)
T ss_pred HHHHHHHHHHhcCCccccCceEEEEEEcccccEE
Confidence 68888887774 3433 567888888888653
No 226
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=25.90 E-value=1.5e+02 Score=22.05 Aligned_cols=26 Identities=27% Similarity=0.305 Sum_probs=10.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELER 42 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~ 42 (87)
.+.+|+..-.--++-.|...+++.+|
T Consensus 125 ~~~~DvT~~y~D~~arl~~l~~~~~r 150 (262)
T PF14257_consen 125 ISSEDVTEQYVDLEARLKNLEAEEER 150 (262)
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHH
Confidence 44444443333333333333333333
No 227
>PF08824 Serine_rich: Serine rich protein interaction domain; InterPro: IPR014928 This is a serine rich protein that is found in the docking protein p130(cas) (Crk-associated substrate). The protein folds into a four helix bundle which is associated with protein-protein interactions []. ; PDB: 2L81_A 1Z23_A.
Probab=25.78 E-value=2.8e+02 Score=20.47 Aligned_cols=41 Identities=24% Similarity=0.378 Sum_probs=30.4
Q ss_pred hHHHHHHHHHHHHH-------------------HHHHHHHHH-HHHHHHhHHHHHHHHhhc
Q 034685 20 DDVQKAAKRVQDAL-------------------LEKQQELER-VKEFISDNTNLINLVQKL 60 (87)
Q Consensus 20 ~~~~~a~~~~~~ai-------------------~~~~~el~~-~q~~~~Dy~~l~~~L~~L 60 (87)
.+++.|.++++.++ ..++.+|.+ ++...+.|.-|.+.-+.|
T Consensus 43 ~~Ir~a~~~v~~sl~~fl~FArga~~NA~~~~D~~L~~kL~~qLq~l~ds~qiL~~~~q~L 103 (159)
T PF08824_consen 43 NEIRAAVDRVRASLREFLDFARGALANASNLSDRNLQAKLRRQLQPLEDSYQILLQTSQAL 103 (159)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHCCHTTTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHccccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47888888888888 334555555 778888888888887777
No 228
>KOG2070 consensus Guanine nucleotide exchange factor [Nucleotide transport and metabolism]
Probab=25.78 E-value=2e+02 Score=25.85 Aligned_cols=49 Identities=14% Similarity=0.243 Sum_probs=39.9
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
+-.+..--+.-.+.++|.+.|++-+++++..++-..+.+.|+.|--+++
T Consensus 609 leekslvdtvyalkd~v~~lqqd~~kmkk~leeEqkaRrdLe~ll~k~l 657 (661)
T KOG2070|consen 609 LEEKSLVDTVYALKDEVSELQQDNKKMKKVLEEEQKARRDLEKLLRKML 657 (661)
T ss_pred ecccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4445555566678889999999999999999999999999998866654
No 229
>PF08988 DUF1895: Protein of unknown function (DUF1895); InterPro: IPR015081 The YscE protein, produced by the pathogen Yersinia, assumes a secondary structure composed of two anti-parallel alpha-helices separated by a flexible loop. The function of this protein is, as yet, unknown. ; PDB: 1ZW0_B 2P58_A 2UWJ_E 2Q1K_D 3PH0_B.
Probab=25.75 E-value=1.9e+02 Score=18.52 Aligned_cols=46 Identities=9% Similarity=0.193 Sum_probs=38.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHhHHHHHHHHhhchh
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQE---------LERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~e---------l~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
-+..+.+.+..++.++...++.. -+.|+...+=|++.+.-++++-.
T Consensus 11 ~~~~~~~~i~~~L~~a~~~vkr~L~~G~~P~eyQq~q~~~~AieAA~~Vie~~~~ 65 (68)
T PF08988_consen 11 ASGEEARAIEQQLRQAQSQVKRKLDRGGTPQEYQQLQQQYDAIEAAIAVIETLEG 65 (68)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHTCTSSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35789999999999999888765 47899999999998888887643
No 230
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=25.72 E-value=2.7e+02 Score=22.28 Aligned_cols=37 Identities=14% Similarity=0.176 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
.+..|+.+.|+..+++++.+++.++--++=++.|+.-
T Consensus 36 diF~rI~~Rv~~~~~~l~~i~~Ri~~~qaKi~~l~gs 72 (297)
T PF11945_consen 36 DIFSRISARVERNRERLQAIQQRIEVAQAKIEKLQGS 72 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 4566777788888888888887777666666666554
No 231
>smart00761 HDAC_interact Histone deacetylase (HDAC) interacting. This domain is found on transcriptional regulators. It forms interactions with histone deacetylases.
Probab=25.70 E-value=1.6e+02 Score=20.38 Aligned_cols=41 Identities=17% Similarity=0.338 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccc
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHH 66 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh 66 (87)
...+++++-.|.++--.+--++.-+...|++|..|-++++.
T Consensus 54 KNqyEE~Lfr~EDeR~E~D~~ie~~~~ti~~le~l~~~~~~ 94 (102)
T smart00761 54 KNQYEEALFRCEDERFELDMVIESNSSTIKLLEEILNKIED 94 (102)
T ss_pred ccHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56789999999988888888888899999999998888764
No 232
>PF14235 DUF4337: Domain of unknown function (DUF4337)
Probab=25.60 E-value=2.2e+02 Score=20.52 Aligned_cols=33 Identities=12% Similarity=0.035 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
...++..|++++.+.++++.-..+.++-.+..+
T Consensus 68 ~~~~~~~i~~Y~~~~~~~~~e~~~l~~~A~~~e 100 (157)
T PF14235_consen 68 RAAYQKKIARYKKEKARYKSEAEELEAKAKEAE 100 (157)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444443333
No 233
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=25.57 E-value=1.5e+02 Score=25.98 Aligned_cols=32 Identities=16% Similarity=0.154 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHH-H---------HhHHHHHHHHhhc
Q 034685 29 VQDALLEKQQELERVKEF-I---------SDNTNLINLVQKL 60 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~-~---------~Dy~~l~~~L~~L 60 (87)
.++.|.+++++|.+|... . .+|++|.+.|..|
T Consensus 5 ~~~~i~~L~~~i~~~~~~YY~~~~p~IsD~eYD~L~~~L~~l 46 (665)
T PRK07956 5 AKKRIEELREELNHHAYAYYVLDAPSISDAEYDRLYRELVAL 46 (665)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHH
Confidence 344588999999999983 3 5799999999877
No 234
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=25.51 E-value=63 Score=21.12 Aligned_cols=44 Identities=14% Similarity=0.247 Sum_probs=31.9
Q ss_pred CChhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 17 FSVDDVQKAAKRVQDAL-LEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai-~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
||..++.++....+.-+ +.+.+.+..|+.-.-+...+..+++.|
T Consensus 25 ls~~~I~~i~~~~p~~l~eQv~~mL~~W~~r~G~~ATv~~L~~aL 69 (83)
T cd08319 25 LSQTDIYRCKENHPHNVQSQIVEALVKWRQRFGKKATVQSLIQSL 69 (83)
T ss_pred CCHHHHHHHHHhCCCCHHHHHHHHHHHHHHhcCCCCcHHHHHHHH
Confidence 78888998888876444 788899999998776655544444433
No 235
>cd07681 F-BAR_PACSIN3 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 3 (PACSIN3). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 3 or Syndapin III is expressed ubiquitously and regulates glucose uptake in adipocytes through its role in GLUT1 trafficking. It also modulates the subcellular localization and stimulus-specific function of the cation channel TRPV4. PACSIN 3 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to
Probab=25.50 E-value=2.3e+02 Score=22.17 Aligned_cols=18 Identities=22% Similarity=0.351 Sum_probs=10.6
Q ss_pred cCChhHHHHHHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDAL 33 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai 33 (87)
..+++++.++.++++++-
T Consensus 164 ~~~~~q~~K~~~kleK~~ 181 (258)
T cd07681 164 TVSQEQLRKLQDRVEKCT 181 (258)
T ss_pred cCCHHHHHHHHHHHHHHH
Confidence 456777766655555443
No 236
>PRK14143 heat shock protein GrpE; Provisional
Probab=25.38 E-value=3.3e+02 Score=21.17 Aligned_cols=32 Identities=22% Similarity=0.291 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHH----HHHHHHHhHHHHHHHHhh
Q 034685 28 RVQDALLEKQQELE----RVKEFISDNTNLINLVQK 59 (87)
Q Consensus 28 ~~~~ai~~~~~el~----~~q~~~~Dy~~l~~~L~~ 59 (87)
.+++.|.+++++++ +|.....|+++.++|..+
T Consensus 71 ~l~~el~~l~~e~~elkd~~lR~~AdfeN~RKR~~k 106 (238)
T PRK14143 71 QLEQELESLKQELEELNSQYMRIAADFDNFRKRTSR 106 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444443 344456788888877654
No 237
>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]
Probab=25.36 E-value=1.4e+02 Score=24.36 Aligned_cols=43 Identities=19% Similarity=0.292 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIM 69 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IM 69 (87)
++.-+.|.++.++...++..-.|-.++..+|.+.-.++-..||
T Consensus 223 ~rkLdrisrLEdkv~~lk~~n~~L~~~l~~l~~~v~e~k~~V~ 265 (279)
T KOG0837|consen 223 KRKLDRISRLEDKVKTLKIYNRDLASELSKLKEQVAELKQKVM 265 (279)
T ss_pred HHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444555555555666666666655555555555
No 238
>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []. Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].
Probab=25.22 E-value=59 Score=26.75 Aligned_cols=57 Identities=14% Similarity=0.250 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH---HHhhchhhcccccccccccccccccccc
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLIN---LVQKLPEELHHGIMASSFWKSSIFSWAF 83 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~---~L~~LPdkLsh~IMV~PfGk~AfmPG~L 83 (87)
.-|..+.++++++-+.++.. .+.+|..|.+ .|.+=-+||+|++=| ==+...|..|.|
T Consensus 45 EAaLqKQKqK~e~ek~e~s~---LkREnq~l~e~c~~lek~rqKlshdlq~-Ke~qv~~lEgQl 104 (307)
T PF10481_consen 45 EAALQKQKQKVEEEKNEYSA---LKRENQSLMESCENLEKTRQKLSHDLQV-KESQVNFLEGQL 104 (307)
T ss_pred HHHHHHHHHHHHHHhhhhhh---hhhhhhhHHHHHHHHHHHHHHhhHHHhh-hHHHHHHHHHHH
Confidence 33344444444444333333 3345555544 455556789999877 555666666655
No 239
>PRK15325 type III secretion system needle complex protein PrgJ; Provisional
Probab=25.06 E-value=1.1e+02 Score=20.64 Aligned_cols=27 Identities=30% Similarity=0.438 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 37 QQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 37 ~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
=+++-++|....||..-++.+.+|-.|
T Consensus 43 P~~Ll~lQ~~~~~Ysl~vslvSTLtrK 69 (80)
T PRK15325 43 PKELAISQEMISDYNLYVSMVSTLTRK 69 (80)
T ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence 356778999999999999999988765
No 240
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=25.03 E-value=2.2e+02 Score=23.25 Aligned_cols=56 Identities=20% Similarity=0.113 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccccc-cccccccccc
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASS-FWKSSIFSWA 82 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~P-fGk~AfmPG~ 82 (87)
.|-..+.+-++.|+.|-++ |+...+.|+++-+.|=.+..--+|++. ||...|+|++
T Consensus 9 eAL~IL~~eLe~cq~ErDq---yKlMAEqLqer~q~LKkk~~el~~~~~~~~d~~~~~~~ 65 (319)
T PF09789_consen 9 EALLILSQELEKCQSERDQ---YKLMAEQLQERYQALKKKYRELIQEAAGFGDPSIPPEK 65 (319)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhhhhhcccCCccCCccc
No 241
>COG0712 AtpH F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]
Probab=24.91 E-value=1.9e+02 Score=21.04 Aligned_cols=39 Identities=26% Similarity=0.367 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
..++.++.+|+.+...|-..+.++.++-..+.+.++.=|
T Consensus 5 ~~va~~YA~ALf~~A~e~~~~~~~~~~L~~~~~i~~~~~ 43 (178)
T COG0712 5 STVARRYAKALFELAEEKGQLEEVEEELTFLAEILKNSP 43 (178)
T ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhcCH
Confidence 457888999999998887777777777777776666543
No 242
>PRK14736 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=24.90 E-value=2.2e+02 Score=19.85 Aligned_cols=42 Identities=7% Similarity=0.041 Sum_probs=28.4
Q ss_pred cCChhHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDALL--EKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~--~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
=++++.++++.++.++++. ...++-..++.+.+.++++...|
T Consensus 88 eID~~~a~~a~~~Ae~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 131 (133)
T PRK14736 88 ELTPEMIDREIEAVEMERDATQDLDKREALNAQIVQMQEAKATL 131 (133)
T ss_pred hCCHHHHHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 4677888888888888775 23344555666677777766654
No 243
>PRK14158 heat shock protein GrpE; Provisional
Probab=24.89 E-value=3.1e+02 Score=20.70 Aligned_cols=19 Identities=26% Similarity=0.148 Sum_probs=11.6
Q ss_pred HHHHHHHHhHHHHHHHHhh
Q 034685 41 ERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 41 ~~~q~~~~Dy~~l~~~L~~ 59 (87)
++|.-...|+++.++|..+
T Consensus 61 d~~lR~~AefeN~RkR~~k 79 (194)
T PRK14158 61 DKYLRERADLENYRKRVQK 79 (194)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444456777777776653
No 244
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=24.86 E-value=3.2e+02 Score=20.87 Aligned_cols=42 Identities=10% Similarity=0.054 Sum_probs=29.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 19 VDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
.+|-.|+..-++.+..+...-..+|+...++...-...+.+|
T Consensus 111 L~eYiR~i~svK~~f~~R~k~~~~~~~a~~~L~kkr~~~~Kl 152 (234)
T cd07664 111 LGDYIRLIAAVKGVFDQRMKCWQKWQDAQVTLQKKREAEAKL 152 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666666677777777777777777777777666666655
No 245
>PF08895 DUF1840: Domain of unknown function (DUF1840); InterPro: IPR014991 This group of proteins are functionally uncharacterised.
Probab=24.84 E-value=1.2e+02 Score=20.85 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=19.6
Q ss_pred cccCChhHHHHHHHHHHHHHHHH
Q 034685 14 SSMFSVDDVQKAAKRVQDALLEK 36 (87)
Q Consensus 14 ~~~~~~~~~~~a~~~~~~ai~~~ 36 (87)
-.+|.++|+..|.++++++|..-
T Consensus 34 ~G~I~~edlp~Ai~~Le~Ai~~~ 56 (105)
T PF08895_consen 34 PGAITAEDLPAAIARLEAAIAAD 56 (105)
T ss_pred CceecHHHHHHHHHHHHHHHHHH
Confidence 34688999999999999999754
No 246
>KOG2065 consensus Gamma-tubulin ring complex protein [Cytoskeleton]
Probab=24.77 E-value=2.2e+02 Score=25.58 Aligned_cols=27 Identities=19% Similarity=0.370 Sum_probs=20.9
Q ss_pred HHHHHHHhhchhhcc-ccccccccccccc
Q 034685 51 TNLINLVQKLPEELH-HGIMASSFWKSSI 78 (87)
Q Consensus 51 ~~l~~~L~~LPdkLs-h~IMV~PfGk~Af 78 (87)
+....++.+-|.... |++|| ||--.|-
T Consensus 386 ~~~~~~m~tpp~~~tE~dv~v-~FqlaAt 413 (679)
T KOG2065|consen 386 SQMVGTMETPPEERTEKDVTV-SFQLAAT 413 (679)
T ss_pred HHHHHHhhCCchhhcccccch-hhhhhhh
Confidence 345567778888888 99999 9977664
No 247
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=24.74 E-value=3.2e+02 Score=20.90 Aligned_cols=22 Identities=18% Similarity=0.471 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 034685 28 RVQDALLEKQQELERVKEFISD 49 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~D 49 (87)
.+++-|++.++++.+|++.++.
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~ 79 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQE 79 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHH
Confidence 4455555555555555555443
No 248
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=24.71 E-value=2.5e+02 Score=21.46 Aligned_cols=41 Identities=20% Similarity=0.162 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-HHHHHHHHhhc
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISD-NTNLINLVQKL 60 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~D-y~~l~~~L~~L 60 (87)
++.+.=..+++--|++.+-+++++++--.| |..|-+++..+
T Consensus 64 ~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~~y~dld~r~~~~ 105 (263)
T PRK10803 64 SDNQSDIDSLRGQIQENQYQLNQVVERQKQIYLQIDSLSSGG 105 (263)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 444555666677777777777777654444 66676666644
No 249
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=24.56 E-value=1.8e+02 Score=20.29 Aligned_cols=33 Identities=18% Similarity=0.404 Sum_probs=18.1
Q ss_pred ccccCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 13 LSSMFSVDDVQKAAKRVQDALLEKQQELERVKE 45 (87)
Q Consensus 13 l~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~ 45 (87)
|.+..+.+|+......+++.+....++++.+++
T Consensus 105 L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 105 LSSEPTNEELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444555555555555555555555555555543
No 250
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=24.45 E-value=2.4e+02 Score=20.83 Aligned_cols=42 Identities=7% Similarity=0.200 Sum_probs=22.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccccccccc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMASSF 73 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV~Pf 73 (87)
-+.+|+..+...+.+.+++.++.+++.+ .+=..++|++-- |+
T Consensus 111 ~~~~E~~~l~~~~n~~~~~l~~~~~~~~--------------~~~~~~sHelrt-PL 152 (356)
T PRK10755 111 SSTLEIEAVTSALNQLVSRLTSTLDQER--------------LFTADVAHELRT-PL 152 (356)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHhhHhhcC-hH
Confidence 3445666665555555554444443322 233456777766 65
No 251
>COG4829 CatC1 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.44 E-value=49 Score=23.14 Aligned_cols=60 Identities=20% Similarity=0.154 Sum_probs=37.3
Q ss_pred CChhHHHHHHHHHHHHHHHHHHH--HHH-HHH----------HHHhHHHHHHHHhhchhhccccccccccccc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQE--LER-VKE----------FISDNTNLINLVQKLPEELHHGIMASSFWKS 76 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~e--l~~-~q~----------~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~ 76 (87)
..++.+.+.+.+-...-.+.|.+ +.+ |.- -.+|+++|..+|..+|---=-+|=|.|+|++
T Consensus 15 Mdad~~er~~A~Eka~s~~Lq~~G~~~~lWR~~GeyanyslFd~dd~~eLh~~L~~~P~f~ym~~~itpL~~H 87 (98)
T COG4829 15 MDADAVERVRAREKARSRELQAQGKLLRLWRRPGEYANYSLFDADDNGELHQLLASMPPFSYMTDDITPLGAH 87 (98)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhcchHHHHHhccccccceeeecCCchHHHHHHHhcCCCccccccccchhccC
Confidence 45566666655554444444432 111 221 1468999999999999765556667788876
No 252
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=24.39 E-value=2.1e+02 Score=18.60 Aligned_cols=23 Identities=17% Similarity=0.248 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHhHHHHHHHHhh
Q 034685 37 QQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 37 ~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
.+++++++.-+++.+...+.|..
T Consensus 77 ~~~~~~l~~~i~~l~~~~~~l~~ 99 (102)
T cd04789 77 LERLSSLAEQIARKQQARDLLAA 99 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444455554443
No 253
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=24.36 E-value=85 Score=19.75 Aligned_cols=36 Identities=14% Similarity=0.023 Sum_probs=25.6
Q ss_pred CChhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhHHH
Q 034685 17 FSVDDVQKAAKRVQD-ALLEKQQELERVKEFISDNTN 52 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~-ai~~~~~el~~~q~~~~Dy~~ 52 (87)
|+..|+..+...... .-+.+.+-|..|+.-.....+
T Consensus 27 ~~~~dI~~i~~~~~~~~~eq~~~mL~~W~~r~g~~at 63 (84)
T cd08317 27 VSETDIDLIKAENPNSLAQQAQAMLKLWLEREGKKAT 63 (84)
T ss_pred CCHHHHHHHHHHCCCCHHHHHHHHHHHHHHhcCCcch
Confidence 777788887776654 347788889999987654433
No 254
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=24.30 E-value=2.1e+02 Score=18.62 Aligned_cols=26 Identities=19% Similarity=0.289 Sum_probs=14.6
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELER 42 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~ 42 (87)
+.+++|-.-.+.+...+.....++..
T Consensus 18 Yd~~eVD~fl~~l~~~~~~l~~e~~~ 43 (131)
T PF05103_consen 18 YDPDEVDDFLDELAEELERLQRENAE 43 (131)
T ss_dssp EEHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666555555444433
No 255
>cd07655 F-BAR_PACSIN The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins. F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. They bind both dynamin and Wiskott-Aldrich syndrome protein (WASP), and may provide direct links between the actin cytoskeletal machinery through WASP and dynamin-dependent endocytosis. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSINs contain an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to negatively-charged lipid membranes. They can induce
Probab=24.26 E-value=2.7e+02 Score=21.07 Aligned_cols=17 Identities=29% Similarity=0.431 Sum_probs=9.2
Q ss_pred CChhHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDAL 33 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai 33 (87)
.+..++.|+..+++++-
T Consensus 165 ~~~~eleK~~~k~~k~~ 181 (258)
T cd07655 165 LSPDQVKKLQDKVEKCK 181 (258)
T ss_pred CCHHHHHHHHHHHHHHH
Confidence 44566666655554443
No 256
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=24.24 E-value=1.9e+02 Score=23.84 Aligned_cols=46 Identities=11% Similarity=0.150 Sum_probs=35.8
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
..+......+++++.|.+.+.++.+++.-++-.++.++.|+.+...
T Consensus 65 ~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~ 110 (525)
T TIGR02231 65 TSRPDPERLAELRKQIRELEAELRDLEDRGDALKALAKFLEDIREG 110 (525)
T ss_pred CCcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 3445566778888888888888888888888888888888877653
No 257
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=24.19 E-value=1.7e+02 Score=22.28 Aligned_cols=44 Identities=20% Similarity=0.351 Sum_probs=29.9
Q ss_pred cccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 034685 10 VTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLIN 55 (87)
Q Consensus 10 ~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~ 55 (87)
.+++-..|+ |+.+=..+++++|..++..-+.|++-..||.+-+.
T Consensus 85 L~s~E~sfs--dl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~ 128 (207)
T PF05010_consen 85 LNSLEKSFS--DLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLK 128 (207)
T ss_pred HHHHHhhHH--HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 345555565 77777777888887777777777777777655443
No 258
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=24.10 E-value=3.2e+02 Score=22.23 Aligned_cols=20 Identities=30% Similarity=0.579 Sum_probs=10.1
Q ss_pred HHHHhHHHHHHHHhhchhhc
Q 034685 45 EFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 45 ~~~~Dy~~l~~~L~~LPdkL 64 (87)
...-++..|-+-+..||+++
T Consensus 174 ~le~E~s~LeE~~~~l~~ev 193 (290)
T COG4026 174 RLEVENSRLEEMLKKLPGEV 193 (290)
T ss_pred HHHHHHHHHHHHHHhchhHH
Confidence 33344555555555555443
No 259
>PF00016 RuBisCO_large: Ribulose bisphosphate carboxylase large chain, catalytic domain; InterPro: IPR000685 Ribulose bisphosphate carboxylase (RuBisCO) [, ] catalyses the initial step in Calvin's reductive pentose phosphate cycle in plants as well as purple and green bacteria. It consists of a large catalytic unit and a small subunit of undetermined function. In plants, the large subunit is coded by the chloroplastic genome while the small subunit is encoded in the nuclear genome. Molecular activation of RuBisCO by CO2 involves the formation of a carbamate with the epsilon-amino group of a conserved lysine residue. This carbamate is stabilised by a magnesium ion. One of the ligands of the magnesium ion is an aspartic acid residue close to the active site lysine [].; GO: 0000287 magnesium ion binding, 0016984 ribulose-bisphosphate carboxylase activity, 0015977 carbon fixation, 0009536 plastid; PDB: 3AXM_A 1WDD_A 3AXK_A 1SVD_A 1RXO_B 1UPP_C 1UPM_R 1RCO_L 8RUC_G 1RCX_B ....
Probab=24.07 E-value=1.9e+02 Score=23.22 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
..+-=++-.+||++-+.+-...+.++..+...|...|.+++..|.
T Consensus 259 G~~AGa~A~RqA~eA~~~g~~~l~eyAk~h~el~~al~~~~~~~~ 303 (309)
T PF00016_consen 259 GPAAGARAFRQAWEAAMAGRIPLEEYAKEHPELARALAKFCPDLD 303 (309)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHCHHHH
T ss_pred CCCCCccchHHHHHHHhhccccHHHHHHhCHHHHHHHHhcCHHHH
Confidence 344445667899988888767899999999999999999988775
No 260
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=24.04 E-value=1.9e+02 Score=18.08 Aligned_cols=31 Identities=10% Similarity=0.237 Sum_probs=19.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDN 50 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy 50 (87)
.+++.....+.+.|+....+++.+....+.+
T Consensus 24 ~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~ 54 (92)
T PF14712_consen 24 QELRQSQEELLQQIDRLNEKLKELNEVEQIN 54 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 4566666666666666666666666654444
No 261
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=23.99 E-value=1.5e+02 Score=21.36 Aligned_cols=28 Identities=11% Similarity=0.218 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
++.+++++-+.+.+++|+.+++.....+
T Consensus 96 ~~~~~~~~~~~~s~~~i~~l~keL~~i~ 123 (161)
T PF05873_consen 96 EAIKEAKEFEAESKKRIAELEKELANIE 123 (161)
T ss_dssp HHHHCHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444445544444433333
No 262
>PRK14162 heat shock protein GrpE; Provisional
Probab=23.93 E-value=3.2e+02 Score=20.59 Aligned_cols=17 Identities=12% Similarity=0.026 Sum_probs=9.2
Q ss_pred HHHHHHHhHHHHHHHHh
Q 034685 42 RVKEFISDNTNLINLVQ 58 (87)
Q Consensus 42 ~~q~~~~Dy~~l~~~L~ 58 (87)
+|.....|+++.++|..
T Consensus 61 ~~lR~~AEfeN~rkR~~ 77 (194)
T PRK14162 61 KYLRSQAEIQNMQNRYA 77 (194)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444566666666554
No 263
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=23.91 E-value=1.6e+02 Score=17.20 Aligned_cols=31 Identities=23% Similarity=0.271 Sum_probs=20.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFI 47 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~ 47 (87)
.|.++..+..++-.+.+..|++.|+..++-+
T Consensus 20 ~sLdes~~lyeeg~~l~~~c~~~L~~~e~~i 50 (53)
T PF02609_consen 20 LSLDESLKLYEEGMELIKKCQERLEEAEQKI 50 (53)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666777777777777777665443
No 264
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=23.73 E-value=2.3e+02 Score=18.93 Aligned_cols=25 Identities=12% Similarity=0.270 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 37 QQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 37 ~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
+.+++.++.-+++.+.+.+.|..+-
T Consensus 85 ~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02044 85 LEKVAEIERKISELQSMRDQLEALA 109 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444445555554443
No 265
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=23.72 E-value=2.3e+02 Score=21.91 Aligned_cols=35 Identities=17% Similarity=0.377 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
.+.++..|.+.+.++.+++...+.++.+.+.|..+
T Consensus 20 ~~~Lk~kir~le~~l~~Lk~~l~~~~~l~~~L~~~ 54 (236)
T PF12017_consen 20 NKKLKKKIRRLEKELKKLKQKLEKYQKLENSLKQI 54 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666777778888888887777777787777554
No 266
>KOG4815 consensus Muscular protein implicated in muscular dystrophy phenotype [General function prediction only]
Probab=23.69 E-value=1.5e+02 Score=25.51 Aligned_cols=40 Identities=25% Similarity=0.365 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccccc
Q 034685 24 KAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGIMA 70 (87)
Q Consensus 24 ~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~IMV 70 (87)
.|..|+-|-+..++.-+++.+ .|..+|+.|--|++-+|--
T Consensus 327 eaqarthqll~ankdlle~iq-------~lv~~lq~le~kis~ei~h 366 (511)
T KOG4815|consen 327 EAQARTHQLLLANKDLLEHIQ-------LLVKQLQELELKISGEIAH 366 (511)
T ss_pred HHHHHHHHHHHhhHHHHHHHH-------HHHHHHHHHHHhhcccccc
Confidence 345566677777777777766 8889999999999888753
No 267
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=23.56 E-value=1.9e+02 Score=24.09 Aligned_cols=34 Identities=21% Similarity=0.354 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHH-----------HHHhHHHHHHHHhhc
Q 034685 27 KRVQDALLEKQQELERVKE-----------FISDNTNLINLVQKL 60 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~-----------~~~Dy~~l~~~L~~L 60 (87)
..+..+|+..+.|++|.++ |.++|+..-+.|++|
T Consensus 136 a~L~~Kierrk~ElEr~rkRle~LqsiRP~~MdEyE~~EeeLqkl 180 (338)
T KOG3647|consen 136 AALGSKIERRKAELERTRKRLEALQSIRPAHMDEYEDCEEELQKL 180 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHH
No 268
>COG3543 Uncharacterized conserved protein [Function unknown]
Probab=23.40 E-value=75 Score=23.35 Aligned_cols=26 Identities=8% Similarity=0.039 Sum_probs=21.8
Q ss_pred HHHHHhHHHHHHHHhhchhhcccccccccccc
Q 034685 44 KEFISDNTNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 44 q~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
.+|.+.|++.+++|+.-|+ ||+ =+|+
T Consensus 23 ~~FveN~d~I~~rL~~ge~-----i~l-V~g~ 48 (135)
T COG3543 23 PAFVENYDAIAERLKAGED-----IKL-VDGP 48 (135)
T ss_pred HHHHHHHHHHHHHhhcCCC-----eEE-Eecc
Confidence 4789999999999999998 776 5554
No 269
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=23.38 E-value=2.5e+02 Score=19.18 Aligned_cols=18 Identities=22% Similarity=0.265 Sum_probs=7.1
Q ss_pred HHHHHHHhHHHHHHHHhh
Q 034685 42 RVKEFISDNTNLINLVQK 59 (87)
Q Consensus 42 ~~q~~~~Dy~~l~~~L~~ 59 (87)
.++..++|...+...++.
T Consensus 109 ~~k~~kee~~klk~~~~~ 126 (151)
T PF11559_consen 109 KLKQEKEELQKLKNQLQQ 126 (151)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333334444444444333
No 270
>PF04791 LMBR1: LMBR1-like membrane protein; InterPro: IPR006876 This group of uncharacterised proteins have a conserved C-terminal region which is found in LMBR1 and in the lipocalin-1 receptor. LMBR1 was thought to play a role in preaxial polydactyly, but recent evidence now suggests this not to be the case [].
Probab=23.37 E-value=1.6e+02 Score=23.46 Aligned_cols=13 Identities=31% Similarity=0.708 Sum_probs=7.0
Q ss_pred HHHHHhhchhhcc
Q 034685 53 LINLVQKLPEELH 65 (87)
Q Consensus 53 l~~~L~~LPdkLs 65 (87)
....+.++|+++.
T Consensus 236 ~~~~~~~~~~~~~ 248 (471)
T PF04791_consen 236 LDTILNELPKEIQ 248 (471)
T ss_pred HHHHHHhhHHHHH
Confidence 3334566666655
No 271
>PF08549 SWI-SNF_Ssr4: Fungal domain of unknown function (DUF1750); InterPro: IPR013859 This is a fungal protein of unknown function.
Probab=23.10 E-value=2e+02 Score=25.98 Aligned_cols=30 Identities=20% Similarity=0.358 Sum_probs=25.0
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVKE 45 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q~ 45 (87)
-+-++-+..-++|+.+.|++.+.||+++|+
T Consensus 356 kLdp~~aeeF~kRV~~~ia~~~AEIekmK~ 385 (669)
T PF08549_consen 356 KLDPGKAEEFRKRVAKKIADMNAEIEKMKA 385 (669)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677778899999999999999998775
No 272
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=23.02 E-value=2.7e+02 Score=19.44 Aligned_cols=10 Identities=10% Similarity=0.248 Sum_probs=5.1
Q ss_pred CChhHHHHHH
Q 034685 17 FSVDDVQKAA 26 (87)
Q Consensus 17 ~~~~~~~~a~ 26 (87)
||.++++.+.
T Consensus 58 ~sL~eI~~~l 67 (142)
T TIGR01950 58 IPLATIGEAL 67 (142)
T ss_pred CCHHHHHHHH
Confidence 5555555544
No 273
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=22.99 E-value=2.4e+02 Score=19.44 Aligned_cols=50 Identities=16% Similarity=0.050 Sum_probs=33.1
Q ss_pred CcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhh
Q 034685 7 KGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 7 kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~ 59 (87)
+||-.||+.+= .++++.++++.-.+.+...+. ..-.-.+=|.-|...|.-
T Consensus 45 ~~t~~PlGtLA-d~~lR~~R~~ah~~fd~lw~~--~~~~R~~aY~wLA~~lgi 94 (102)
T PF11672_consen 45 PGTDIPLGTLA-DAELRRARKAAHRAFDPLWQS--GHMSRSDAYRWLAKKLGI 94 (102)
T ss_pred CCCCCcCcccC-CHHHHHHHHHHHHHHHHHHHh--CcccHHHHHHHHHHHcCC
Confidence 58889999754 578888888888888766541 111234446677766653
No 274
>cd07091 ALDH_F1-2_Ald2-like ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins. ALDH subfamily which includes the NAD+-dependent retinal dehydrogenase 1 (RALDH 1, ALDH1, EC=1.2.1.36), also known as aldehyde dehydrogenase family 1 member A1 (ALDH1A1), in humans, a homotetrameric, cytosolic enzyme that catalyzes the oxidation of retinaldehyde to retinoic acid. Human ALDH1B1 and ALDH2 are also in this cluster; both are mitochrondrial homotetramers which play important roles in acetaldehyde oxidation; ALDH1B1 in response to UV light exposure and ALDH2 during ethanol metabolism. 10-formyltetrahydrofolate dehydrogenase (FTHFDH, EC=1.5.1.6), also known as aldehyde dehydrogenase family 1 member L1 (ALDH1L1), in humans, a multi-domain homotetramer with an N-terminal formyl transferase domain and a C-terminal ALDH domain. FTHFDH catalyzes an NADP+-dependent dehydrogenase reaction resulting in the co
Probab=22.95 E-value=3.7e+02 Score=21.66 Aligned_cols=28 Identities=11% Similarity=0.232 Sum_probs=19.2
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERV 43 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~ 43 (87)
-++.++-.++-.++.+.+.+++++|.++
T Consensus 61 ~~~~~~R~~~L~~~a~~l~~~~~~la~~ 88 (476)
T cd07091 61 KMDPRERGRLLNKLADLIERDRDELAAL 88 (476)
T ss_pred cCCHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 3566666666777777777777777665
No 275
>PHA00666 putative protease
Probab=22.92 E-value=3.2e+02 Score=21.68 Aligned_cols=34 Identities=15% Similarity=0.087 Sum_probs=20.7
Q ss_pred CChhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhH
Q 034685 17 FSVDDVQKAAKRVQDALLEK-QQELERVKEFISDN 50 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~-~~el~~~q~~~~Dy 50 (87)
++.+.++++.+-+...+... +++.+.|++..+++
T Consensus 114 LtqEQAQklvD~y~ki~~~~qq~qaeawqk~~e~W 148 (233)
T PHA00666 114 LTNEQAQKVVDLYTKILPVVQQRQAEAWQKTTEQW 148 (233)
T ss_pred CCHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 67888999999553322222 33446677666665
No 276
>PLN02760 4-aminobutyrate:pyruvate transaminase
Probab=22.89 E-value=1.5e+02 Score=24.79 Aligned_cols=29 Identities=14% Similarity=0.247 Sum_probs=25.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKE 45 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~ 45 (87)
++.+|+.++.+.+++++.+..++...++.
T Consensus 473 it~eeid~~~~~l~~al~~~~~~~~~~~~ 501 (504)
T PLN02760 473 ITPEEVDELISIYGKALKATEERVAELKS 501 (504)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 88999999999999999988777766654
No 277
>PRK10807 paraquat-inducible protein B; Provisional
Probab=22.86 E-value=1.2e+02 Score=25.86 Aligned_cols=42 Identities=14% Similarity=0.154 Sum_probs=20.0
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
...++.+.+...+++++.+.+.-++.++.-..-|+.+.++|+
T Consensus 466 l~~~~~~~Lp~~L~~TL~~l~~~l~~~~~~s~~~~~l~~tl~ 507 (547)
T PRK10807 466 TSSQSMQQLPADMQKTLRELNRSMQGFQPGSPAYNKMVADMQ 507 (547)
T ss_pred hCCHHHHHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHH
Confidence 344455555555666666555555543323333444444433
No 278
>PRK11415 hypothetical protein; Provisional
Probab=22.84 E-value=1.7e+02 Score=18.58 Aligned_cols=33 Identities=12% Similarity=0.182 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 28 RVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 28 ~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
++++.|..+...=.+..+..+.|..|-..+..+
T Consensus 4 e~~d~I~~Lk~~D~~F~~L~~~h~~Ld~~I~~l 36 (74)
T PRK11415 4 EYRDLISRLKNENPRFMSLFDKHNKLDHEIARK 36 (74)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHH
Confidence 456777777777777777777777777666554
No 279
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=22.83 E-value=2.2e+02 Score=18.30 Aligned_cols=31 Identities=13% Similarity=0.319 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNT 51 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~ 51 (87)
....|.+.+...+...+.+++++++-.....
T Consensus 74 s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~ 104 (120)
T PF02996_consen 74 SLEEAIEFLKKRIKELEEQLEKLEKELAELQ 104 (120)
T ss_dssp EHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666677666666666655444433
No 280
>TIGR02473 flagell_FliJ flagellar export protein FliJ. Members of this family are the FliJ protein found, in nearly every case, in the midst of other flagellar biosynthesis genes in bacgterial genomes. Typically the fliJ gene is found adjacent to the gene for the flagellum-specific ATPase FliI. Sequence scoring in the gray zone between trusted and noise cutoffs include both probable FliJ proteins and components of bacterial type III secretion systems.
Probab=22.81 E-value=2.3e+02 Score=18.50 Aligned_cols=27 Identities=7% Similarity=0.217 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTN 52 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~ 52 (87)
-....+.+...+.+++++..+..+|..
T Consensus 22 la~~~~~~~~~~~~l~~l~~~~~~~~~ 48 (141)
T TIGR02473 22 LAKAQAEFERLETQLQQLIKYREEYEQ 48 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455666677777777776654
No 281
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=22.77 E-value=1.1e+02 Score=22.72 Aligned_cols=23 Identities=22% Similarity=0.483 Sum_probs=17.3
Q ss_pred HHHHHHHHHhHHHHHHHHhhchh
Q 034685 40 LERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 40 l~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
.+.++.|++.|++++..++.+=.
T Consensus 53 ~~~v~~fV~aYN~l~~~i~~~t~ 75 (239)
T PF07195_consen 53 KKAVQDFVDAYNALIDTINSLTK 75 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 34677888888888888877655
No 282
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=22.74 E-value=1.8e+02 Score=17.29 Aligned_cols=31 Identities=23% Similarity=0.410 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L 60 (87)
.+=.+.+.+.+.++..|+ .+|+.|...+..|
T Consensus 22 ~RKk~~~~~Le~~~~~L~---~en~~L~~~~~~L 52 (64)
T PF00170_consen 22 QRKKQYIEELEEKVEELE---SENEELKKELEQL 52 (64)
T ss_dssp HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHH
T ss_pred HHHHhhHHHHHHHHHHHH---HHHHHHHHHHHHH
Confidence 333344444444444443 4444444444433
No 283
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=22.67 E-value=1.7e+02 Score=23.47 Aligned_cols=45 Identities=13% Similarity=0.166 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
++..+.+.+-+.+++.+..++.+...+++.....++-.+|-|++.
T Consensus 111 e~ge~e~~~a~~~d~yR~~LK~IR~~E~sl~p~R~~r~~l~d~I~ 155 (271)
T PF13805_consen 111 EIGELEDQYADRLDQYRIHLKSIRNREESLQPSRDRRRKLQDEIA 155 (271)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhHHHHHHHH
Confidence 566667777777888888888888888877777777766666553
No 284
>PF04062 P21-Arc: ARP2/3 complex ARPC3 (21 kDa) subunit; InterPro: IPR007204 The Arp2/3 complex is a seven-protein assembly that is critical for actin nucleation and branching in cells. Arp2/3 nucleates new actin filaments while bound to existing filaments, thus creating a branched network []. The complex consists of Arp2, Arp3, p41, p34, p21, p20 and p16. Subunits p34 and p20 constitute the core of the structure, with the remaining subunits located peripherally []. This entry describes the p21 subunit. Proteins such as WASp and Scar1 may mediate receptor signalling through interactions with p21-Arc, resulting in the activation of Arc2/3 complex activity [].; GO: 0030833 regulation of actin filament polymerization, 0005856 cytoskeleton; PDB: 3DWL_J 2P9P_E 2P9N_E 2P9K_E 1TYQ_E 1U2V_E 3RSE_E 2P9U_E 3DXM_E 2P9S_E ....
Probab=22.55 E-value=90 Score=23.64 Aligned_cols=32 Identities=22% Similarity=0.275 Sum_probs=22.2
Q ss_pred ccccccCChhHHHHHHHHHHHHHHHHHHHHHH
Q 034685 11 TSLSSMFSVDDVQKAAKRVQDALLEKQQELER 42 (87)
Q Consensus 11 tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~ 42 (87)
-||.++|..+.-+.-++.+++-+..+++|+..
T Consensus 113 FpLn~~y~~P~~~~e~d~lR~Yl~QlRqElg~ 144 (175)
T PF04062_consen 113 FPLNSLYAKPANRQEADLLRQYLTQLRQELGL 144 (175)
T ss_dssp -TTTTTS---SSHHHHHHHHHHHHHHHHHHCC
T ss_pred CCccccccCCCChhHHHHHHHHHHHHHHHHHH
Confidence 58999999876666678888888888888753
No 285
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=22.52 E-value=1.9e+02 Score=26.01 Aligned_cols=18 Identities=17% Similarity=0.209 Sum_probs=11.3
Q ss_pred HHHHHHHhHHHHHHHHhhc
Q 034685 42 RVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 42 ~~q~~~~Dy~~l~~~L~~L 60 (87)
.++++ +||+.+.+-|.-|
T Consensus 339 kL~~~-sDYeeIK~ELsiL 356 (629)
T KOG0963|consen 339 KLNSR-SDYEEIKKELSIL 356 (629)
T ss_pred HHhhh-ccHHHHHHHHHHH
Confidence 34444 7777777766655
No 286
>PRK10005 dihydroxyacetone kinase subunit DhaL; Provisional
Probab=22.48 E-value=1.4e+02 Score=22.29 Aligned_cols=33 Identities=21% Similarity=0.235 Sum_probs=30.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKEFISD 49 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~D 49 (87)
|+..++.++..++.+.|.+++.+|-.|-..+-|
T Consensus 3 ~~~~~~~~~l~~~~~~l~~~~~~Lt~lD~~iGD 35 (210)
T PRK10005 3 LSRTQIVNWLTRCGDIFTEESDYLTGLDREIGD 35 (210)
T ss_pred CCHHHHHHHHHHHHHHHHHhHHHHHHHhccccC
Confidence 678899999999999999999999999888776
No 287
>PF01627 Hpt: Hpt domain; InterPro: IPR008207 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents a domain present at the N terminus in proteins which undergo autophosphorylation. The group includes, the gliding motility regulatory protein from Myxococcus xanthus and a number of bacterial chemotaxis proteins.; GO: 0004871 signal transducer activity, 0000160 two-component signal transduction system (phosphorelay); PDB: 3KYJ_A 3KYI_A 3IQT_A 1Y6D_A 2LD6_A 1TQG_A 2R25_A 1OXB_A 1QSP_B 1C03_B ....
Probab=22.41 E-value=1.7e+02 Score=16.91 Aligned_cols=43 Identities=9% Similarity=0.260 Sum_probs=26.1
Q ss_pred ccCChhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhHHHHHHHH
Q 034685 15 SMFSVDDVQKAAKRVQDALLEKQQEL-ERVKEFISDNTNLINLV 57 (87)
Q Consensus 15 ~~~~~~~~~~a~~~~~~ai~~~~~el-~~~q~~~~Dy~~l~~~L 57 (87)
..|..+.+...+..+++.+......- +.++...+...+.++.|
T Consensus 44 ~~~g~~~l~~~~~~lE~~~~~~~~~~~~~~~~~~~~l~~~l~~l 87 (90)
T PF01627_consen 44 GNLGAPRLAELAEQLEQALKSGDKPEAEELEQLLDELEAMLEQL 87 (90)
T ss_dssp HHTTCHHHHHHHHHHHHHHHTTHHHHSHHHHHHHHHHHHHHHHH
T ss_pred HhcCHHHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHHHH
Confidence 34556788888888888887665554 34444444444444433
No 288
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=22.19 E-value=2.5e+02 Score=18.71 Aligned_cols=25 Identities=12% Similarity=0.304 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHH
Q 034685 30 QDALLEKQQELERVKEFISDNTNLI 54 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l~ 54 (87)
++.+.+.++++++++...+.-+.++
T Consensus 83 ~~~~~~l~~~i~~L~~~~~~l~~~~ 107 (126)
T cd04783 83 EQKLAEVDEKIADLQRMRASLQELV 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555555555544444333
No 289
>PF06441 EHN: Epoxide hydrolase N terminus; InterPro: IPR010497 This entry represents the N-terminal region of the eukaryotic epoxide hydrolase protein. Epoxide hydrolases (3.3.2.3 from EC) comprise a group of functionally related enzymes that catalyse the addition of water to oxirane compounds (epoxides), thereby usually generating vicinal trans-diols. EHs have been found in all types of living organisms, including mammals, invertebrates, plants, fungi and bacteria. In animals, the major interest in EH is directed towards their detoxification capacity for epoxides since they are important safeguards against the cytotoxic and genotoxic potential of oxirane derivatives that are often reactive electrophiles because of the high tension of the three-membered ring system and the strong polarisation of the C--O bonds. This is of significant relevance because epoxides are frequent intermediary metabolites, which arise during the biotransformation of foreign compounds []. This domain is often found in conjunction with IPR000073 from INTERPRO.; GO: 0004301 epoxide hydrolase activity, 0009636 response to toxin, 0016020 membrane; PDB: 3G0I_B 3G02_A 1QO7_A.
Probab=22.18 E-value=2.6e+02 Score=18.97 Aligned_cols=50 Identities=6% Similarity=0.057 Sum_probs=25.6
Q ss_pred cccccCChhHHHHHHHHHHHHH-------------------HHHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 12 SLSSMFSVDDVQKAAKRVQDAL-------------------LEKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai-------------------~~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
|+.--+|.+++..+..|++.+- ...++=++.|.. .=|..+...+|+.+|.
T Consensus 2 pF~i~v~~~~l~~l~~rl~~~r~p~~~~~~~~~~w~~G~~~~~l~~L~~yW~~-~fDWr~~E~~lN~~ph 70 (112)
T PF06441_consen 2 PFTIHVPDEELDDLRQRLRATRLPDEPPEPGQEDWDYGTPLDWLKELVDYWRN-EFDWRKHEARLNSFPH 70 (112)
T ss_dssp B------HHHHHHHHHHHHHS------TGGG-TT-TTSS-HHHHHHHHHHHHH-T--HHHHHHHHTTS-E
T ss_pred CEEEECCHHHHHHHHHHHhccCCCCCCcCCCccccccCCCHHHHHHHHHHHhh-cCChHHHHHHHHcCCC
Confidence 4444567777777777776654 222333444442 2278899999999884
No 290
>PF08785 Ku_PK_bind: Ku C terminal domain like; InterPro: IPR014893 The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C-terminal of Ku which binds to DNA-PKcs []. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 1RW2_A 1Q2Z_A 3ISM_C.
Probab=22.14 E-value=43 Score=22.72 Aligned_cols=27 Identities=22% Similarity=0.491 Sum_probs=15.8
Q ss_pred cccccccc---cCChhH--HHHHHHHHHHHHH
Q 034685 8 GTVTSLSS---MFSVDD--VQKAAKRVQDALL 34 (87)
Q Consensus 8 gt~tpl~~---~~~~~~--~~~a~~~~~~ai~ 34 (87)
|||+|... +++-.+ +.+|.+.+++.|.
T Consensus 1 Gsv~Pv~DFk~ll~~~d~~~~~A~~qM~~vI~ 32 (120)
T PF08785_consen 1 GSVNPVQDFKALLAQRDSDFQKAIQQMKNVIE 32 (120)
T ss_dssp SSSSCCHHHHHHCCCCSSCCCHHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHcCCccHHHHHHHHHHHHH
Confidence 78888642 344333 4666666666664
No 291
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=22.13 E-value=1.7e+02 Score=28.54 Aligned_cols=36 Identities=17% Similarity=0.366 Sum_probs=29.8
Q ss_pred ccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 9 TVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVK 44 (87)
Q Consensus 9 t~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q 44 (87)
...-|.++=|..|..++...+++.|.+.+|+|+.||
T Consensus 1048 AL~ALn~IPSdKEms~Is~eLReQIq~~KQ~LesLQ 1083 (1439)
T PF12252_consen 1048 ALQALNNIPSDKEMSKISSELREQIQSVKQDLESLQ 1083 (1439)
T ss_pred HHHHHhcCCchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence 344566677788888899999999999999999998
No 292
>PF06723 MreB_Mbl: MreB/Mbl protein; InterPro: IPR004753 Bacterial cell shape varies greatly between species, and characteristic morphologies are used for identification purposes. In addition to individual cell shape, the way in which groups of cells are arranged is also typical of some bacterial species, especially Gram-positive coccoids. For many years, it was believed that micro-organisms with other than spheroidal cell shapes maintained morphology by means of their external cell walls. Recently, however, studies of the Gram-positive rod Bacillus subtilis have revealed two related genes that are essential for the integrity of cell morphogenesis []. Termed mreB and mbl, the gene products localise close to the cell surface, forming filamentous helical structures. Many homologues have been found in diverse bacterial groups, suggesting a common ancestor []. The crystal structure of MreB from Thermotoga maritima has been resolved using X-ray crystallography []. It consists of 19 beta-strands and 15 alpha- helices, and shows remarkable structural similarity to eukaryotic actin. MreB crystals also contain proto-filaments, with individual proteins assembling into polymers like F-actin, in the same orientation. It is hypothesised therefore, that MreB was the forerunner of actin in early eukaryotes [].; GO: 0000902 cell morphogenesis; PDB: 1JCF_A 1JCE_A 2WUS_A 1JCG_A.
Probab=22.13 E-value=1.2e+02 Score=24.24 Aligned_cols=30 Identities=17% Similarity=0.247 Sum_probs=20.6
Q ss_pred HHHHHHhhchhhcccccccc---cccccccccc
Q 034685 52 NLINLVQKLPEELHHGIMAS---SFWKSSIFSW 81 (87)
Q Consensus 52 ~l~~~L~~LPdkLsh~IMV~---PfGk~AfmPG 81 (87)
.+.+.|+.+|-+|+-+||-. ==|.-|..+|
T Consensus 256 ~i~~~Le~~pPel~~DI~~~GI~LtGGga~l~G 288 (326)
T PF06723_consen 256 AIKEVLEKTPPELAADILENGIVLTGGGALLRG 288 (326)
T ss_dssp HHHHHHHTS-HHHHHHHHHH-EEEESGGGGSBT
T ss_pred HHHHHHHhCCHHHHHHHHHCCEEEEChhhhhcc
Confidence 67889999999999887731 1266666665
No 293
>cd07146 ALDH_PhpJ Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like. Putative phosphonoformaldehyde dehydrogenase (PhpJ), an aldehyde dehydrogenase homolog reportedly involved in the biosynthesis of phosphinothricin tripeptides in Streptomyces viridochromogenes DSM 40736, and similar sequences are included in this CD.
Probab=22.13 E-value=4e+02 Score=21.48 Aligned_cols=29 Identities=10% Similarity=0.161 Sum_probs=20.6
Q ss_pred cCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDALLEKQQELERVK 44 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai~~~~~el~~~q 44 (87)
.++.++-.++-.++.+.|+++++++.++-
T Consensus 36 ~~~~~~R~~~L~~~a~~l~~~~~ela~~~ 64 (451)
T cd07146 36 TLTRYQRSAILNKAAALLEARREEFARLI 64 (451)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777777777777877777777653
No 294
>PHA03161 hypothetical protein; Provisional
Probab=22.12 E-value=2.8e+02 Score=20.64 Aligned_cols=27 Identities=7% Similarity=0.111 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEF 46 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~ 46 (87)
+.+..+.+++.+.=++.+.+|++++..
T Consensus 89 ~~~E~L~drv~eLkeel~~ELe~l~~~ 115 (150)
T PHA03161 89 SAAEDLQDKILELKEDIHFEIEALNHG 115 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 344455566666666677777777733
No 295
>PF13602 ADH_zinc_N_2: Zinc-binding dehydrogenase; PDB: 3TQH_A 2VN8_A 3GOH_A 4A27_A.
Probab=22.11 E-value=62 Score=20.37 Aligned_cols=24 Identities=17% Similarity=0.486 Sum_probs=16.1
Q ss_pred Ccccccccc-cCChhHHHHHHHHHH
Q 034685 7 KGTVTSLSS-MFSVDDVQKAAKRVQ 30 (87)
Q Consensus 7 kgt~tpl~~-~~~~~~~~~a~~~~~ 30 (87)
+|...|.-. .|+.+++.+|-++++
T Consensus 93 ~G~l~~~i~~~f~l~~~~~A~~~l~ 117 (127)
T PF13602_consen 93 EGKLKPPIDRVFPLEEAPEAHERLE 117 (127)
T ss_dssp TTSS---EEEEEEGGGHHHHHHHHH
T ss_pred CCCeEEeeccEECHHHHHHHHHHHH
Confidence 566666544 899999988887765
No 296
>PF03480 SBP_bac_7: Bacterial extracellular solute-binding protein, family 7; InterPro: IPR018389 This family of proteins are involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes a C4-dicarboxylate-binding protein DctP [, ] and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins []. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component [].; GO: 0006810 transport, 0030288 outer membrane-bounded periplasmic space; PDB: 2HZK_C 2HZL_B 2HPG_C 2XWI_A 2XWK_A 2WX9_A 2CEY_A 2WYP_A 3B50_A 2CEX_B ....
Probab=22.10 E-value=2.7e+02 Score=20.56 Aligned_cols=48 Identities=13% Similarity=0.176 Sum_probs=32.4
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhHHHHHHHHhh
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELE--RVKEFISDNTNLINLVQK 59 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~--~~q~~~~Dy~~l~~~L~~ 59 (87)
+..-+.+.+-+..+.++.|++|.++..+.. .++...+..+...+.+..
T Consensus 206 ~~~~~~n~~~w~~L~~e~q~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 (286)
T PF03480_consen 206 PYAVIMNKDWWDSLPDEDQEALDDAADEAEARAREYYEAEDEEALKELEE 255 (286)
T ss_dssp EEEEEEEHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ceEEEEcHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444567788889999999999999888874 344455555555555544
No 297
>PRK14145 heat shock protein GrpE; Provisional
Probab=22.06 E-value=3.6e+02 Score=20.45 Aligned_cols=19 Identities=11% Similarity=0.137 Sum_probs=11.8
Q ss_pred HHHHHHHHhHHHHHHHHhh
Q 034685 41 ERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 41 ~~~q~~~~Dy~~l~~~L~~ 59 (87)
.+|.....|+++..+|..+
T Consensus 66 d~~lR~~AEfeN~rkR~~k 84 (196)
T PRK14145 66 DIAQRLKAEFENYRKRTEK 84 (196)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3445566777777776643
No 298
>COG0339 Dcp Zn-dependent oligopeptidases [Amino acid transport and metabolism]
Probab=22.06 E-value=1.5e+02 Score=26.75 Aligned_cols=53 Identities=15% Similarity=0.202 Sum_probs=40.5
Q ss_pred cccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHH--HHhHHHHHHHHhhchhhcccc
Q 034685 12 SLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEF--ISDNTNLINLVQKLPEELHHG 67 (87)
Q Consensus 12 pl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~--~~Dy~~l~~~L~~LPdkLsh~ 67 (87)
|.=+-+-++|+.-|.+ ++|.+|+++|+++.+. ..+.++++.-|..+-+.|+.=
T Consensus 19 P~F~~i~~ed~~pAf~---~~l~~~~~~i~~i~~~~~~pt~~n~v~~Le~~~~~L~rv 73 (683)
T COG0339 19 PPFDAIKPEDVKPAFD---EALAQARAEIDAIAANPDAPTWENTVEPLERAGDRLGRV 73 (683)
T ss_pred CCcccCChhhccHHHH---HHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHHhhHHHHH
Confidence 3334455667776654 5699999999999887 578899999999998888753
No 299
>cd09237 V_ScBro1_like Protein-interacting V-domain of Saccharomyces cerevisiae Bro1 and related domains. This family contains the V-shaped (V) domain of Saccharomyces cerevisiae Bro1, and related domains. It belongs to the V_Alix_like superfamily which also includes the V-domain of Saccharomyces cerevisiae Rim20 (also known as PalA), mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Bro1 interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in endosomal trafficking. The mammalian Alix V-domain (belonging to a different family) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. The Alix V-domain is also a dimerization domain. Bro1 also has an N-terminal Bro1-like domain, which binds Snf7, a component of the ESCRT-III complex, and a C-terminal proline-rich
Probab=22.01 E-value=1.5e+02 Score=23.36 Aligned_cols=28 Identities=7% Similarity=0.063 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 034685 30 QDALLEKQQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l~~~L 57 (87)
.......+..+++++...+-|..+...|
T Consensus 301 ~~~~~~R~~~l~~l~~ay~~y~el~~~l 328 (356)
T cd09237 301 KSKQKLRKEFFEKLKKAYNSFKKFSAGL 328 (356)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhCh
Confidence 3334444444555555555444444433
No 300
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=21.99 E-value=2.7e+02 Score=21.64 Aligned_cols=11 Identities=9% Similarity=-0.064 Sum_probs=4.2
Q ss_pred HHHHhHHHHHH
Q 034685 45 EFISDNTNLIN 55 (87)
Q Consensus 45 ~~~~Dy~~l~~ 55 (87)
+-.+|+++|..
T Consensus 176 ~~~~~~~al~K 186 (216)
T KOG1962|consen 176 KAQKKVDALKK 186 (216)
T ss_pred HHHHHHHHHHH
Confidence 33334444433
No 301
>cd07602 BAR_RhoGAP_OPHN1-like The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin1-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to oligophrenin1 (OPHN1). Members contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. Some members contain a C-terminal SH3 domain. Vertebrates harbor at least three Rho GAPs in this subfamily including OPHN1, GTPase Regulator Associated with Focal adhesion kinase (GRAF), GRAF2, and an uncharacterized protein called GAP10-like. OPHN1, GRAF and GRAF2 show GAP activity towards RhoA and Cdc42. In addition, OPHN1 is active towards Rac. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of OPHN1
Probab=21.85 E-value=3.7e+02 Score=20.49 Aligned_cols=42 Identities=10% Similarity=0.269 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
.|+.++.+++.+-|.+|+.-++..+.+..-..+..+.|+.|-
T Consensus 9 ~ele~l~~~ikkLiK~ck~~i~a~k~~~~a~~~F~~~L~~f~ 50 (207)
T cd07602 9 AELERTNKAIKELIKECKNLISATKNLSKAQRSFAQTLQNFK 50 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888889999999999999999999888888888888887
No 302
>TIGR02290 M3_fam_3 oligoendopeptidase, pepF/M3 family. The M3 family of metallopeptidases contains several distinct clades. Oligoendopeptidase F as characterized in Lactococcus, the functionally equivalent oligoendopeptidase B of group B Streptococcus, and closely related sequences are described by TIGR00181. The present family is quite similar but forms a distinct clade, and a number of species have one member of each. A greater sequence difference separates members of TIGR02289, probable oligoendopeptidases of the M3 family that probably should not be designated PepF.
Probab=21.84 E-value=2.9e+02 Score=23.09 Aligned_cols=48 Identities=17% Similarity=0.272 Sum_probs=30.8
Q ss_pred ccccCC---hhHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHhHHHHHHHHhhc
Q 034685 13 LSSMFS---VDDVQKAAKRVQDALLEKQQE------------LERVKEFISDNTNLINLVQKL 60 (87)
Q Consensus 13 l~~~~~---~~~~~~a~~~~~~ai~~~~~e------------l~~~q~~~~Dy~~l~~~L~~L 60 (87)
|.++|+ .+++.++.+.+++.+.+..+. .+.+..+..+++.+.+++.+|
T Consensus 4 L~~ly~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~l~~~e~~~~~~~~l 66 (587)
T TIGR02290 4 LSDLYPGGSSPEFEEDLKKIKALADEFESLYQEKLTPLDAKGKEKLQNALKRYEALGELLSKV 66 (587)
T ss_pred chhhcCCCChHHHHHHHHHHHHHHHHHHHHHhcccccccccCHHHHHHHHHHHHHHHHHHHHH
Confidence 445563 244888888888877765442 224667777777777766655
No 303
>PF08202 MIS13: Mis12-Mtw1 protein family; InterPro: IPR013218 The Mtw1 kinetochore complex contains at least four essential components including Mtw1, DSN1, NNF1 and NSL1. All proteins exhibit genetic and two-hybrid interactions and all stabley associate in solution. The function of the complex is unclear though it is involved in chromosome segregation [, ].; GO: 0005515 protein binding
Probab=21.80 E-value=1.6e+02 Score=23.00 Aligned_cols=31 Identities=3% Similarity=0.150 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTN 52 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~ 52 (87)
-.+-.+.+++.|...+.|.+.|.+...+|..
T Consensus 162 N~~~i~~Lee~I~rLk~E~~~W~~~l~~~~~ 192 (301)
T PF08202_consen 162 NEENIAELEEKIKRLKEERQAWAQLLKPYQD 192 (301)
T ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHhhccC
Confidence 3456778999999999999999999988887
No 304
>PHA03386 P10 fibrous body protein; Provisional
Probab=21.79 E-value=1.5e+02 Score=20.53 Aligned_cols=41 Identities=15% Similarity=0.129 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcccc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHG 67 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~ 67 (87)
+.+++.|.+.+...+.|.+.-+--..+...++..-+-|+-+
T Consensus 22 daLQ~qV~dv~~n~~~LDa~~~qL~~l~tkV~~Iq~iLn~d 62 (94)
T PHA03386 22 DALQTQLNGLEEDSQPLDGLPAQLTELDTKVSDIQSILTGD 62 (94)
T ss_pred HHHHHHHHHHHhcchhhhhHHHHHHHHHHHHHHHHHhcCcc
Confidence 34555555555444444444444444444444444444433
No 305
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=21.79 E-value=2.1e+02 Score=18.67 Aligned_cols=27 Identities=33% Similarity=0.561 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEF 46 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~ 46 (87)
.++..=..|+.+|+...+++|+++..-
T Consensus 31 ~~~~~E~~rl~~Al~~~~~eL~~l~~~ 57 (123)
T PF05524_consen 31 DDIEAEIERLEQALEKAREELEQLAER 57 (123)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577777889999999999999888765
No 306
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=21.75 E-value=1.8e+02 Score=19.64 Aligned_cols=41 Identities=15% Similarity=0.135 Sum_probs=17.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
+....+.+.+++.....+.+ ++....+++++.+.|+.--..
T Consensus 32 ~~~k~~~~~l~~~~~~~~~~---l~~~~~el~~~~~~l~~~~~~ 72 (158)
T PF03938_consen 32 PAGKDAQAKLQEKFKALQKE---LQAKQKELQKLQQKLQSQKAT 72 (158)
T ss_dssp HHHHTHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHTTS---
T ss_pred HHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhc
Confidence 34444444444444333333 333445555665555554333
No 307
>PF14227 UBN2_2: gag-polypeptide of LTR copia-type
Probab=21.65 E-value=89 Score=20.07 Aligned_cols=32 Identities=22% Similarity=0.315 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 32 ALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 32 ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
.+.....+++......+|.....-.|..||+.
T Consensus 47 ~~~~l~~~L~~~g~~i~d~~~~~~lL~sLP~s 78 (119)
T PF14227_consen 47 EFRSLVNQLKSLGVPIDDEDKVIILLSSLPPS 78 (119)
T ss_pred HHHHHHHhhccccccchHHHHHHHHHHcCCHh
Confidence 34445555555666678888888899999986
No 308
>PRK13443 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=21.65 E-value=2.2e+02 Score=20.09 Aligned_cols=39 Identities=8% Similarity=0.037 Sum_probs=23.5
Q ss_pred CChhHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHhHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQE-----LERVKEFISDNTNLIN 55 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~e-----l~~~q~~~~Dy~~l~~ 55 (87)
++++.++++.++.++.+.+.+.+ +.++.++..+-.++..
T Consensus 89 ID~~~a~~a~~~Ae~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 132 (136)
T PRK13443 89 LTGAVLDEFIAEARELASVALPENEPGDVDDAAKTLADMLALGA 132 (136)
T ss_pred CCHHHHHHHHHHHHHHHHhcCcccCCCCHHHHHHHHHHHHHHHh
Confidence 56666777777777777655444 4555556555555543
No 309
>PRK10869 recombination and repair protein; Provisional
Probab=21.62 E-value=2.2e+02 Score=24.10 Aligned_cols=14 Identities=0% Similarity=0.268 Sum_probs=5.2
Q ss_pred hHHHHHHHHHHHHH
Q 034685 20 DDVQKAAKRVQDAL 33 (87)
Q Consensus 20 ~~~~~a~~~~~~ai 33 (87)
+++-.-.++.++.+
T Consensus 320 ~~~~~~~~~l~~eL 333 (553)
T PRK10869 320 EELPQHHQQLLEEQ 333 (553)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 310
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=21.62 E-value=1.8e+02 Score=21.66 Aligned_cols=21 Identities=14% Similarity=0.287 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 034685 29 VQDALLEKQQELERVKEFISD 49 (87)
Q Consensus 29 ~~~ai~~~~~el~~~q~~~~D 49 (87)
+++.|.+.+.+|+++++-...
T Consensus 167 ie~~L~~v~~eIe~~~~~~~~ 187 (262)
T PF14257_consen 167 IERELSRVRSEIEQLEGQLKY 187 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555444433
No 311
>PF08665 PglZ: PglZ domain; InterPro: IPR013973 This entry is a member of the Alkaline phosphatase clan.
Probab=21.62 E-value=21 Score=25.29 Aligned_cols=15 Identities=0% Similarity=0.120 Sum_probs=13.0
Q ss_pred ccccccccccccccc
Q 034685 71 SSFWKSSIFSWAFDT 85 (87)
Q Consensus 71 ~PfGk~AfmPG~Lv~ 85 (87)
+++|+.|+|||++-.
T Consensus 44 T~~sr~ALl~g~~~~ 58 (181)
T PF08665_consen 44 TEVSRAALLPGKLPR 58 (181)
T ss_pred hHHHHHHHcCCCChh
Confidence 589999999999854
No 312
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=21.57 E-value=2.8e+02 Score=19.05 Aligned_cols=49 Identities=10% Similarity=0.183 Sum_probs=27.7
Q ss_pred CChhHHHHHHHH------HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhcc
Q 034685 17 FSVDDVQKAAKR------VQDALLEKQQELERVKEFISDNTNLINLVQKLPEELH 65 (87)
Q Consensus 17 ~~~~~~~~a~~~------~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLs 65 (87)
||.+|+...... ..+...-.+++++.++.-+.+-..+.+.|..+=+.+.
T Consensus 58 fsL~eI~~ll~~~~~~~~~~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~ 112 (131)
T cd04786 58 FSLDEIRQLLPADASNWQHDELLAALERKVADIEALEARLAQNKAQLLVLIDLIE 112 (131)
T ss_pred CCHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677777766542 2334444555666666666666666666655544443
No 313
>PF11833 DUF3353: Protein of unknown function (DUF3353); InterPro: IPR021788 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 205 to 258 amino acids in length.
Probab=21.51 E-value=1.4e+02 Score=22.31 Aligned_cols=34 Identities=12% Similarity=0.218 Sum_probs=23.7
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLI 54 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~ 54 (87)
|-||+++|+++..+.- ..+-+..++.+.=|++++
T Consensus 5 SfeEIq~Arn~ll~~y---~gd~~~~~~IEaAYD~IL 38 (194)
T PF11833_consen 5 SFEEIQAARNRLLAQY---AGDEKSREAIEAAYDAIL 38 (194)
T ss_pred CHHHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHHH
Confidence 5689999999876554 455555666667777753
No 314
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=21.46 E-value=2.9e+02 Score=19.11 Aligned_cols=20 Identities=10% Similarity=0.290 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 034685 30 QDALLEKQQELERVKEFISD 49 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~D 49 (87)
.+.+.+.++++++++...+.
T Consensus 85 ~~~~~~l~~~i~~L~~~~~~ 104 (135)
T PRK10227 85 LEKVAEIERHIEELQSMRDQ 104 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444445555555544443
No 315
>PRK10780 periplasmic chaperone; Provisional
Probab=21.43 E-value=2.5e+02 Score=19.73 Aligned_cols=37 Identities=19% Similarity=0.227 Sum_probs=21.8
Q ss_pred CcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 7 KGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERV 43 (87)
Q Consensus 7 kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~ 43 (87)
=|.|.+=.-+-..++..++.++++......+.++++.
T Consensus 26 Ig~Vd~q~il~~~p~~k~~~~~le~~~~~~q~el~~~ 62 (165)
T PRK10780 26 IAIVNMGSIFQQVPQRTGVSKQLENEFKGRASELQRM 62 (165)
T ss_pred eEEeeHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444443333445667777777777776666666544
No 316
>KOG3850 consensus Predicted membrane protein [Function unknown]
Probab=21.37 E-value=4.3e+02 Score=22.92 Aligned_cols=82 Identities=7% Similarity=0.087 Sum_probs=43.8
Q ss_pred CCCcccccccccCChh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhc----h--------hh-----c
Q 034685 5 TAKGTVTSLSSMFSVD---DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKL----P--------EE-----L 64 (87)
Q Consensus 5 ~~kgt~tpl~~~~~~~---~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~L----P--------dk-----L 64 (87)
.|-|++-+--++-+-. ++.|+..-.+.+=..-...|+++|+--.+|..-...++.= | .- =
T Consensus 62 srd~n~~sylkl~~~ADk~Q~~rIkq~FEkkNqksahtiaqlqkkL~~y~~rLkeieng~~r~s~~~sr~~~~gi~~~~~ 141 (455)
T KOG3850|consen 62 SRDGNVASYLKLVNNADKQQVARIKQVFEKKNQKSAHTIAQLQKKLEQYHRRLKEIENGESRPSKDKSRDFPTGIRKAKG 141 (455)
T ss_pred cccccHHHHHHHhhccchhhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcchhhhhhhHHHHHhc
Confidence 4455554433333322 2333333333333344556888888888887655555411 1 11 1
Q ss_pred ccccccccc-----ccccccccccccc
Q 034685 65 HHGIMASSF-----WKSSIFSWAFDTY 86 (87)
Q Consensus 65 sh~IMV~Pf-----Gk~AfmPG~Lv~~ 86 (87)
+...||.|. |+.||++|..-+.
T Consensus 142 ~~~a~~~~~~~~~e~~~~~~~g~~~s~ 168 (455)
T KOG3850|consen 142 MTEAMVNPIEFAQEVKKAFSAGNSNST 168 (455)
T ss_pred ccccccccccchhhhhhccccCcccCc
Confidence 345677543 7889999976554
No 317
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=21.33 E-value=55 Score=22.02 Aligned_cols=58 Identities=19% Similarity=0.245 Sum_probs=36.1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHhHHHHHHHHhhchhhcccccccccccc
Q 034685 17 FSVDDVQKAAKRVQDALLEKQQELERVKE--------------FISDNTNLINLVQKLPEELHHGIMASSFWK 75 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~~~el~~~q~--------------~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk 75 (87)
++++++.++..+-+....+.+++ -+|.. -.+|++.|.+.|.+||--==-+|=|.|+.+
T Consensus 15 ~~~~~~~~~~a~E~~~a~eLq~~-G~~~~lWr~~G~~~n~~Ifdv~d~~eLh~lL~sLPL~p~m~i~VtpL~~ 86 (91)
T PF02426_consen 15 MPPEEVDRLKAREKARAQELQRQ-GKWRHLWRVVGRYANVSIFDVEDNDELHELLSSLPLFPYMDIEVTPLAR 86 (91)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHC-CeeeEEEEecCCcceEEEEECCCHHHHHHHHHhCCCccceeeeEEeccc
Confidence 67777777777766666655432 22222 257999999999999954333333445544
No 318
>PRK13448 atpC F0F1 ATP synthase subunit epsilon; Provisional
Probab=21.32 E-value=2.9e+02 Score=19.20 Aligned_cols=41 Identities=15% Similarity=0.241 Sum_probs=23.3
Q ss_pred CChhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhHHHHHHHH
Q 034685 17 FSVDDVQKAAKRVQDALLEK-QQELERVKEFISDNTNLINLV 57 (87)
Q Consensus 17 ~~~~~~~~a~~~~~~ai~~~-~~el~~~q~~~~Dy~~l~~~L 57 (87)
+.++.++++.++.++++.+. ...+++-....+.++.+...|
T Consensus 88 ID~~~a~~~~~~Ae~~l~~~~~~~l~ra~~rl~~~~~~~~~~ 129 (135)
T PRK13448 88 LDLAQFAATIAEMEAQLAGKVGDELDRAIERLDHFKSIQHQL 129 (135)
T ss_pred CCHHHHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHHhhh
Confidence 56677777777777777652 233444444444444444444
No 319
>PRK14155 heat shock protein GrpE; Provisional
Probab=21.29 E-value=2.8e+02 Score=21.12 Aligned_cols=35 Identities=6% Similarity=0.173 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
+...-...+++.+.+.+.+ |.....|+++.++|..
T Consensus 17 ~l~~~l~~le~e~~elkd~---~lR~~AefeN~RKR~~ 51 (208)
T PRK14155 17 DAAQEIEALKAEVAALKDQ---ALRYAAEAENTKRRAE 51 (208)
T ss_pred chHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence 3333334444444444433 3334466666666554
No 320
>PRK15374 pathogenicity island 1 effector protein SipB; Provisional
Probab=21.28 E-value=2.5e+02 Score=25.16 Aligned_cols=43 Identities=19% Similarity=0.150 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 22 VQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 22 ~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
..+.++.+++++.+.+++-+.+++-.+.|.+....|+.+-.+|
T Consensus 122 ~~~lS~~ledaL~aaq~~ad~l~q~~~~~~~Aq~~l~~aq~~l 164 (593)
T PRK15374 122 GIQVSKEFQTALGEAQEATDLYEASIKKTDTAKSVYDAAEKKL 164 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence 4566777888888888888888888666666665555544443
No 321
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=21.28 E-value=1.9e+02 Score=17.06 Aligned_cols=38 Identities=18% Similarity=0.276 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
...++.+.+.+.+++.+++-.++.+.-++.|..=|+.+
T Consensus 20 ~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~i 57 (80)
T PF04977_consen 20 YQLNQEIAELQKEIEELKKENEELKEEIERLKNDPDYI 57 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Confidence 34455566666666666655555545444443224433
No 322
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=21.13 E-value=2.6e+02 Score=18.43 Aligned_cols=35 Identities=26% Similarity=0.227 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 30 QDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
.+.+..++++++.++.-.+..+..++.+...-+.|
T Consensus 5 ~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L 39 (126)
T TIGR00293 5 AAELQILQQQVESLQAQIAALRALIAELETAIETL 39 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555666655555555555555444333
No 323
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=21.10 E-value=2.8e+02 Score=24.84 Aligned_cols=46 Identities=20% Similarity=0.325 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhccccc
Q 034685 23 QKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEELHHGI 68 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh~I 68 (87)
.++.+.+.+.=.+.|.-++.+.+...||+.|+.++..-|-.+.|++
T Consensus 392 ~~L~k~V~~~~leaq~~~~slek~~~~~~sl~~~i~~~~~~i~~~~ 437 (622)
T COG5185 392 DKLTKSVKSRKLEAQGIFKSLEKTLRQYDSLIQNITRSRSQIGHNV 437 (622)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHhhcC
Confidence 3445555555567788889999999999999999999998887764
No 324
>PF04518 Effector_1: Effector from type III secretion system; InterPro: IPR007606 This family contains several uncharacterised chlamydial proteins.
Probab=21.10 E-value=3.1e+02 Score=23.01 Aligned_cols=42 Identities=5% Similarity=0.005 Sum_probs=32.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
.+..+|..++.+..+.|+.-|++.+.-+.--+.+..+++..|
T Consensus 196 g~~~~a~~~l~~E~~~~~~di~~~~~A~~~l~~~~~~V~~d~ 237 (379)
T PF04518_consen 196 GSYFMALAKLEKEREQIRRDIKSCERAKAVLNKQLARVKADA 237 (379)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 456777788888888888888888887777777777777776
No 325
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=21.04 E-value=2.6e+02 Score=18.40 Aligned_cols=13 Identities=23% Similarity=0.363 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHH
Q 034685 22 VQKAAKRVQDALL 34 (87)
Q Consensus 22 ~~~a~~~~~~ai~ 34 (87)
+.++.+.++.+|.
T Consensus 13 L~~aid~LE~~v~ 25 (89)
T PF13747_consen 13 LEAAIDRLEKAVD 25 (89)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444444443
No 326
>KOG3387 consensus 60S ribosomal protein 15.5kD/SNU13, NHP2/L7A family (includes ribonuclease P subunit p38), involved in splicing [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=21.03 E-value=2e+02 Score=21.08 Aligned_cols=47 Identities=13% Similarity=0.188 Sum_probs=29.2
Q ss_pred CCCCCCCcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHh
Q 034685 1 MEEPTAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQ 58 (87)
Q Consensus 1 ~~~~~~kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~ 58 (87)
|.+++.+-+.+||+.. .+.|.|.+..|+--.|++.+.-.+..-.+|+
T Consensus 1 m~~~~v~~~~~P~ad~-----------~L~ekildl~Qqa~~~kql~kg~NEaTk~Ln 47 (131)
T KOG3387|consen 1 MIEDGVNPKAYPLADS-----------NLTEKILDLKQQATGYKQLKKGANEATKTLN 47 (131)
T ss_pred CcccccCcccCcccch-----------hhHHHHHHHHHHHhhHHHHhcccchHhhhhc
Confidence 5677788888888854 3455566666666666666555554444443
No 327
>PF12548 DUF3740: Sulfatase protein; InterPro: IPR024609 This uncharacterised domain is found in the C-terminal region of extracellular sulphatase proteins.
Probab=20.90 E-value=2.7e+02 Score=20.12 Aligned_cols=30 Identities=10% Similarity=0.157 Sum_probs=23.1
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFI 47 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~ 47 (87)
|+..|..=...+.+-|+.++.+|+.|+.+.
T Consensus 100 d~~aWk~hr~~ID~eIe~Lq~Ki~~LKeiR 129 (145)
T PF12548_consen 100 DPKAWKDHRLHIDHEIETLQDKIKNLKEIR 129 (145)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677777788888888888888887654
No 328
>PRK14148 heat shock protein GrpE; Provisional
Probab=20.89 E-value=3.8e+02 Score=20.25 Aligned_cols=32 Identities=13% Similarity=0.221 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHH----HHHHHHHHhHHHHHHHHhh
Q 034685 28 RVQDALLEKQQEL----ERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 28 ~~~~ai~~~~~el----~~~q~~~~Dy~~l~~~L~~ 59 (87)
.+++.+.++++++ ++|.-...|+++..+|..+
T Consensus 44 ~l~~~l~~l~~e~~elkd~~lR~~Ae~eN~rKR~~r 79 (195)
T PRK14148 44 RAKDTIKELEDSCDQFKDEALRAKAEMENIRKRAER 79 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444433 3344456777777776653
No 329
>PF07412 Geminin: Geminin; InterPro: IPR022786 This family contains the eukaryotic protein geminin (approximately 200 residues long). Geminin inhibits DNA replication by preventing the incorporation of MCM complex into prereplication complex, and is degraded during the mitotic phase of the cell cycle. It has been proposed that geminin inhibits DNA replication during S, G2, and M phases and that geminin destruction at the metaphase-anaphase transition permits replication in the succeeding cell cycle []. ; GO: 0008156 negative regulation of DNA replication; PDB: 1T6F_B 2LP0_B 1UII_B 2WVR_B 2ZXX_B.
Probab=20.88 E-value=2.7e+02 Score=21.48 Aligned_cols=16 Identities=25% Similarity=0.146 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 034685 21 DVQKAAKRVQDALLEK 36 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~ 36 (87)
=|..+|.+-+.|+.+.
T Consensus 108 YWk~lAE~RR~AL~ea 123 (200)
T PF07412_consen 108 YWKELAEERRKALEEA 123 (200)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3555555555554333
No 330
>PRK11281 hypothetical protein; Provisional
Probab=20.83 E-value=2.1e+02 Score=27.02 Aligned_cols=38 Identities=13% Similarity=0.301 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhhc
Q 034685 27 KRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEEL 64 (87)
Q Consensus 27 ~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdkL 64 (87)
..+++.+.+..++++++|.--+++++..-.+++.|+.-
T Consensus 124 ~qLEq~L~q~~~~Lq~~Q~~La~~NsqLi~~qT~PERA 161 (1113)
T PRK11281 124 RQLESRLAQTLDQLQNAQNDLAEYNSQLVSLQTQPERA 161 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchHHH
Confidence 34778888888888899999999988888888888754
No 331
>PF03114 BAR: BAR domain; InterPro: IPR004148 Endocytosis and intracellular transport involve several mechanistic steps: (1) for the internalisation of cargo molecules, the membrane needs to bend to form a vesicular structure, which requires membrane curvature and a rearrangement of the cytoskeleton; (2) following its formation, the vesicle has to be pinched off the membrane; (3) the cargo has to be subsequently transported through the cell and the vesicle must fuse with the correct cellular compartment. Members of the Amphiphysin protein family are key regulators in the early steps of endocytosis, involved in the formation of clathrin-coated vesicles by promoting the assembly of a protein complex at the plasma membrane and directly assist in the induction of the high curvature of the membrane at the neck of the vesicle. Amphiphysins contain a characteristic domain, known as the BAR (Bin-Amphiphysin-Rvs)-domain, which is required for their in vivo function and their ability to tubulate membranes []. The crystal structure of these proteins suggest the domain forms a crescent-shaped dimer of a three-helix coiled coil with a characteristic set of conserved hydrophobic, aromatic and hydrophilic amino acids. Proteins containing this domain have been shown to homodimerise, heterodimerise or, in a few cases, interact with small GTPases. ; GO: 0005515 protein binding, 0005737 cytoplasm; PDB: 4AVM_A 2D4C_C 1X03_A 1X04_A 2RND_A 2RMY_A 2FIC_A 2C08_A 2Z0V_A 3SOG_A ....
Probab=20.80 E-value=2.8e+02 Score=18.72 Aligned_cols=30 Identities=13% Similarity=0.119 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 34 LEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 34 ~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
.+.+..++......-||++..+.+..+.++
T Consensus 131 ~~i~~~~kkr~~~~ldyd~~~~k~~k~~~~ 160 (229)
T PF03114_consen 131 KEIKKLIKKREKKRLDYDSARSKLEKLRKK 160 (229)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCHTT
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344555556666666777777777766643
No 332
>cd07307 BAR The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. Mutations in BAR containing proteins have been linked to diseases and their inactivation in cells leads to altered membrane dynamics. A BAR domain with an additional N-terminal amphipathic helix (an N-BAR) can drive membrane curvature. These N-BAR domains are found in amphiphysins and endophilins, among others. BAR domains are also frequently found alongside domains that determine lipid specificity, such as the Pleckstrin Homology (PH) and Phox Homology (PX) domains which are present in beta centaurins (ACAPs and ASAPs) and sorting nexins, respectively. A FES-CIP4 Homology (FCH) domain together with a coiled coil region is called the F-
Probab=20.80 E-value=2.5e+02 Score=18.14 Aligned_cols=28 Identities=14% Similarity=0.148 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 35 EKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 35 ~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
..+..+++......||++..+++..+.+
T Consensus 95 ~~~~~~k~~~~~~~~yd~~~~k~~~~~~ 122 (194)
T cd07307 95 EIKKRRKKLDKARLDYDAAREKLKKLRK 122 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444455555566677777777776654
No 333
>PRK14147 heat shock protein GrpE; Provisional
Probab=20.78 E-value=3.5e+02 Score=19.82 Aligned_cols=14 Identities=14% Similarity=-0.043 Sum_probs=8.1
Q ss_pred HHHHhHHHHHHHHh
Q 034685 45 EFISDNTNLINLVQ 58 (87)
Q Consensus 45 ~~~~Dy~~l~~~L~ 58 (87)
-...|+++..+|.+
T Consensus 43 R~~Ad~eN~rkR~~ 56 (172)
T PRK14147 43 RERADLENQRKRIA 56 (172)
T ss_pred HHHHHHHHHHHHHH
Confidence 34466666666654
No 334
>PF05016 Plasmid_stabil: Plasmid stabilisation system protein; InterPro: IPR007712 Members of this family are involved in plasmid stabilisation. The exact molecular function of this protein is not known.; PDB: 3KXE_A 1WMI_A 3KIQ_y 3KIX_y 2KC9_A 3KHA_B 3KIS_y 3KIU_y 2KC8_A 1Z8M_A ....
Probab=20.78 E-value=1.9e+02 Score=16.88 Aligned_cols=25 Identities=20% Similarity=0.218 Sum_probs=19.7
Q ss_pred HHHHHHHhHHHHHHHHhhchhhccc
Q 034685 42 RVKEFISDNTNLINLVQKLPEELHH 66 (87)
Q Consensus 42 ~~q~~~~Dy~~l~~~L~~LPdkLsh 66 (87)
..+.+.+..++.+++|...|..-+-
T Consensus 24 ~a~~~~~~i~~~i~~l~~~P~~~~~ 48 (90)
T PF05016_consen 24 AAERFIDAIEKAIERLSENPEMGRP 48 (90)
T ss_dssp HHHHHHHHHHHHHHHHHCCCCTTEE
T ss_pred HHHHHHHHHHHHHHhcccccccccc
Confidence 3567888888889999998876654
No 335
>cd07601 BAR_APPL The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing (APPL) proteins are effectors of the small GTPase Rab5 that function in endosome-mediated signaling. They contain BAR, pleckstrin homology (PH) and phosphotyrosine binding (PTB) domains. They form homo- and hetero-oligomers that are mediated by their BAR domains, and are localized to cytoplasmic membranes. Vertebrates contain two APPL proteins, APPL1 and APPL2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=20.64 E-value=3.9e+02 Score=20.37 Aligned_cols=42 Identities=12% Similarity=0.143 Sum_probs=38.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhch
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLP 61 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LP 61 (87)
+|+..+.+++.+-+..|+.-++..+.+..-+.++.+.|..|-
T Consensus 9 ~d~~~L~~~~~kL~K~c~~~~~a~~~~~~A~~~F~~~L~ef~ 50 (215)
T cd07601 9 EDALQLSSYMNQLLQACKRVYDAQNELKSATQALSKKLGEYE 50 (215)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578889999999999999999999999999999999998883
No 336
>PRK14163 heat shock protein GrpE; Provisional
Probab=20.59 E-value=4e+02 Score=20.51 Aligned_cols=19 Identities=11% Similarity=0.233 Sum_probs=12.7
Q ss_pred HHHHHHHHhHHHHHHHHhh
Q 034685 41 ERVKEFISDNTNLINLVQK 59 (87)
Q Consensus 41 ~~~q~~~~Dy~~l~~~L~~ 59 (87)
++|.....|++|+++|..+
T Consensus 61 d~~lR~~AEfeN~rkR~~k 79 (214)
T PRK14163 61 ADLQRLQAEYQNYRRRVER 79 (214)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445566788888877654
No 337
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=20.53 E-value=1.1e+02 Score=29.57 Aligned_cols=64 Identities=14% Similarity=0.084 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--------HHHHhHHHHHHHHhhchhhccccccccccccccccccccccc
Q 034685 23 QKAAKRVQDALLEKQQELERVK--------EFISDNTNLINLVQKLPEELHHGIMASSFWKSSIFSWAFDTY 86 (87)
Q Consensus 23 ~~a~~~~~~ai~~~~~el~~~q--------~~~~Dy~~l~~~L~~LPdkLsh~IMV~PfGk~AfmPG~Lv~~ 86 (87)
++...+.+|.|.+.++++..++ +-..||=..-+-+...-.+|+.++|=||-|.+-+-.|++|.+
T Consensus 777 ~~~~~~~eq~l~~~~eel~sie~s~c~~~~~~l~kyl~a~~e~~e~~~~l~~~~~~s~~~~~~l~~GR~vv~ 848 (1248)
T KOG0947|consen 777 QRLSPEHEQELKELDEELLSIEESDCAIDLKDLRKYLSAYEEITEYNEKLREEKMKSANILRILKEGRVVVL 848 (1248)
T ss_pred hhcCHHHHHHHHHHHHHHhhhcccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhchhhhhhhhcCcEEEE
Confidence 4455577888888877776654 345566666777788889999999999999999999998864
No 338
>PF12795 MscS_porin: Mechanosensitive ion channel porin domain
Probab=20.44 E-value=3.2e+02 Score=20.22 Aligned_cols=38 Identities=16% Similarity=0.253 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchh
Q 034685 21 DVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPE 62 (87)
Q Consensus 21 ~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPd 62 (87)
+-..+.+.+++++. -++..+.+..+.+.+...+...|.
T Consensus 15 ~~~~~i~~l~~al~----~L~~~~~~~~~~~~~~~~i~~aP~ 52 (240)
T PF12795_consen 15 EQKALIQDLQQALS----FLDEIKKQKKRAAEYQKQIDQAPK 52 (240)
T ss_pred hhHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhHH
Confidence 44455555555552 223333344444444444444443
No 339
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=20.42 E-value=2.6e+02 Score=18.21 Aligned_cols=10 Identities=30% Similarity=0.604 Sum_probs=5.7
Q ss_pred CChhHHHHHH
Q 034685 17 FSVDDVQKAA 26 (87)
Q Consensus 17 ~~~~~~~~a~ 26 (87)
||.+|++...
T Consensus 58 ~sL~eI~~~l 67 (113)
T cd01109 58 MSIKDIKEYA 67 (113)
T ss_pred CCHHHHHHHH
Confidence 5666665544
No 340
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=20.36 E-value=2.8e+02 Score=18.57 Aligned_cols=19 Identities=5% Similarity=0.242 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034685 30 QDALLEKQQELERVKEFIS 48 (87)
Q Consensus 30 ~~ai~~~~~el~~~q~~~~ 48 (87)
++.+.+.++++++++...+
T Consensus 85 ~~~~~~l~~~i~~L~~~~~ 103 (126)
T cd04785 85 RAHLADVRARIADLRRLEA 103 (126)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444433
No 341
>cd07622 BAR_SNX4 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 4. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX4 is involved in recycling traffic from the sorting endosome (post-Golgi endosome) back to the late Golgi. It is also implicated in the regulation of plasma membrane receptor trafficking and interacts with receptors for EGF, insulin, platelet-derived growth factor and leptin. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and
Probab=20.34 E-value=2.6e+02 Score=20.71 Aligned_cols=29 Identities=17% Similarity=0.306 Sum_probs=21.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 20 DDVQKAAKRVQDALLEKQQELERVKEFIS 48 (87)
Q Consensus 20 ~~~~~a~~~~~~ai~~~~~el~~~q~~~~ 48 (87)
.++..|.++++....+...++++|+..+.
T Consensus 140 ~~ve~a~~~~e~f~~~~~~E~~rF~~~K~ 168 (201)
T cd07622 140 EAVKEAKDELNEFVKKALEDVERFKKQKV 168 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777788888888887654
No 342
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=20.34 E-value=1.7e+02 Score=16.19 Aligned_cols=48 Identities=17% Similarity=0.122 Sum_probs=32.6
Q ss_pred hhHHHHHHHHHHHHHH------HHHHHHHHHHHHHHhHHHHHHHHhhchhhccc
Q 034685 19 VDDVQKAAKRVQDALL------EKQQELERVKEFISDNTNLINLVQKLPEELHH 66 (87)
Q Consensus 19 ~~~~~~a~~~~~~ai~------~~~~el~~~q~~~~Dy~~l~~~L~~LPdkLsh 66 (87)
..+..+|.+.+++++. +..-.+.+..--..+|+...+.|.+++..-..
T Consensus 4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~ 57 (68)
T PF14559_consen 4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD 57 (68)
T ss_dssp TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence 4567778888888874 34445556666667888888888888766543
No 343
>PF05983 Med7: MED7 protein; InterPro: IPR009244 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=20.31 E-value=3.2e+02 Score=19.70 Aligned_cols=29 Identities=17% Similarity=0.406 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 034685 26 AKRVQDALLEKQQELERVKEFISDNTNLI 54 (87)
Q Consensus 26 ~~~~~~ai~~~~~el~~~q~~~~Dy~~l~ 54 (87)
...+++-|++++++++.+++..++-++.+
T Consensus 133 i~~me~Ql~~kr~~i~~i~~~~~~~~~~l 161 (162)
T PF05983_consen 133 IMMMEEQLEEKREEIEEIRKVCEKAREVL 161 (162)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34466777777888888777777666554
No 344
>PRK13702 replication protein; Provisional
Probab=20.28 E-value=2.2e+02 Score=19.36 Aligned_cols=45 Identities=31% Similarity=0.431 Sum_probs=27.6
Q ss_pred CCCcccccccccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhchhh
Q 034685 5 TAKGTVTSLSSMFSVDDVQKAAKRVQDALLEKQQELERVKEFISDNTNLINLVQKLPEE 63 (87)
Q Consensus 5 ~~kgt~tpl~~~~~~~~~~~a~~~~~~ai~~~~~el~~~q~~~~Dy~~l~~~L~~LPdk 63 (87)
.||| .||+ ++++.+..+..+++-=++++-|+.- .+.+.|..|.+.
T Consensus 18 yRKG--~Pls----------~aErQr~svaRKr~THkei~vfi~n--~lK~~L~elc~~ 62 (85)
T PRK13702 18 YRKG--NPLS----------AAEKQRASVARKRATHKEIKVFIQN--PLKDKLMELCEE 62 (85)
T ss_pred CcCC--CCCC----------HHHHHHHHHHHHHHhhhhhheeecH--HHHHHHHHHHHH
Confidence 4566 6665 4556666666666666677766642 566666666543
No 345
>PRK06309 DNA polymerase III subunit epsilon; Validated
Probab=20.21 E-value=1.8e+02 Score=21.40 Aligned_cols=7 Identities=29% Similarity=0.164 Sum_probs=5.6
Q ss_pred ccccccc
Q 034685 71 SSFWKSS 77 (87)
Q Consensus 71 ~PfGk~A 77 (87)
.||||+-
T Consensus 186 ~~fgk~k 192 (232)
T PRK06309 186 MPFGKYK 192 (232)
T ss_pred ecccccC
Confidence 3999985
No 346
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=20.14 E-value=2.1e+02 Score=21.02 Aligned_cols=30 Identities=27% Similarity=0.391 Sum_probs=25.1
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034685 18 SVDDVQKAAKRVQDALLEKQQELERVKEFI 47 (87)
Q Consensus 18 ~~~~~~~a~~~~~~ai~~~~~el~~~q~~~ 47 (87)
.-+.++.++.++|..+.+.+...||++..-
T Consensus 60 Rydrlr~va~rvQ~vlgd~At~gERl~all 89 (156)
T PF08372_consen 60 RYDRLRSVAGRVQNVLGDVATQGERLQALL 89 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 456788889999999999999999988654
No 347
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=20.09 E-value=1.5e+02 Score=20.17 Aligned_cols=9 Identities=11% Similarity=-0.127 Sum_probs=7.4
Q ss_pred cccccccccc
Q 034685 70 ASSFWKSSIF 79 (87)
Q Consensus 70 V~PfGk~Afm 79 (87)
| |+||-|.=
T Consensus 52 v-PIGK~~se 60 (92)
T PF15243_consen 52 V-PIGKPASE 60 (92)
T ss_pred C-ccCCCCCc
Confidence 8 99998864
No 348
>PF05504 Spore_GerAC: Spore germination B3/ GerAC like, C-terminal ; InterPro: IPR008844 The GerAA, -AB, and -AC proteins of the Bacillus subtilis spore are required for the germination response to L-alanine as the sole germinant. Members of GerAC family are thought to be located in the inner spore membrane. Although the function of this family is unclear, they are likely to encode the components of the germination apparatus that respond directly to this germinant, mediating the spore's response [].; GO: 0009847 spore germination, 0016020 membrane; PDB: 3N54_B.
Probab=20.06 E-value=2.4e+02 Score=19.07 Aligned_cols=42 Identities=14% Similarity=0.356 Sum_probs=21.9
Q ss_pred cCChhHHHHHHHHHHHHH-HHHHHHHHHHH-HHHHhHHHHHHHH
Q 034685 16 MFSVDDVQKAAKRVQDAL-LEKQQELERVK-EFISDNTNLINLV 57 (87)
Q Consensus 16 ~~~~~~~~~a~~~~~~ai-~~~~~el~~~q-~~~~Dy~~l~~~L 57 (87)
+++.+...++.+.+++.| .++++-+.+.| +...|.=.+-+.+
T Consensus 89 l~~~~~~~~le~~~~~~i~~~~~~~i~k~q~~~~~D~lg~g~~~ 132 (171)
T PF05504_consen 89 LFDPEEIKELEKQLEEEIKKEIQSLIKKMQKELGVDPLGFGEYL 132 (171)
T ss_dssp ---SHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----S-HHHHH
T ss_pred ccChHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCcChHHHHHHH
Confidence 456677777777777777 45666666666 6665554444433
Done!